Query psy8928
Match_columns 134
No_of_seqs 121 out of 168
Neff 4.4
Searched_HMMs 46136
Date Fri Aug 16 23:02:00 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy8928.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/8928hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF09340 NuA4: Histone acetylt 100.0 4.3E-34 9.3E-39 199.8 5.4 80 14-120 1-80 (80)
2 KOG3856|consensus 99.9 2.2E-28 4.7E-33 184.6 5.4 95 1-124 3-97 (135)
3 KOG3856|consensus 96.8 0.0029 6.2E-08 48.6 4.9 89 13-125 25-113 (135)
4 PF14782 BBS2_C: Ciliary BBSom 71.7 7.5 0.00016 34.8 4.8 39 4-42 50-88 (431)
5 PTZ00464 SNF-7-like protein; P 71.2 11 0.00023 30.7 5.3 39 8-46 54-92 (211)
6 PTZ00446 vacuolar sorting prot 70.5 10 0.00022 30.6 4.9 26 15-40 67-92 (191)
7 PF10805 DUF2730: Protein of u 67.2 21 0.00045 25.8 5.6 47 14-70 34-80 (106)
8 PF11461 RILP: Rab interacting 66.3 8.4 0.00018 25.9 3.1 27 14-40 2-28 (60)
9 PF13600 DUF4140: N-terminal d 66.2 16 0.00035 25.4 4.8 34 6-39 68-101 (104)
10 PF11932 DUF3450: Protein of u 65.1 5 0.00011 32.5 2.2 40 53-92 82-121 (251)
11 PRK14127 cell division protein 60.2 43 0.00094 24.8 6.2 62 9-70 38-100 (109)
12 PF06810 Phage_GP20: Phage min 60.0 31 0.00068 26.6 5.7 57 7-72 12-68 (155)
13 COG4026 Uncharacterized protei 59.0 28 0.00061 29.7 5.6 30 10-39 137-166 (290)
14 PF13864 Enkurin: Calmodulin-b 58.3 16 0.00035 25.7 3.6 23 20-42 72-94 (98)
15 PF09403 FadA: Adhesion protei 58.1 11 0.00024 28.5 2.9 22 67-90 82-103 (126)
16 TIGR03807 RR_fam_repeat putati 56.5 3.6 7.8E-05 23.7 -0.0 18 67-84 7-25 (27)
17 PRK00888 ftsB cell division pr 55.6 21 0.00045 25.9 3.8 37 5-41 24-60 (105)
18 PF10146 zf-C4H2: Zinc finger- 54.4 26 0.00056 28.9 4.6 33 11-43 35-67 (230)
19 PF02403 Seryl_tRNA_N: Seryl-t 53.0 42 0.0009 23.5 5.0 33 8-40 67-99 (108)
20 COG4942 Membrane-bound metallo 52.5 22 0.00048 32.1 4.2 56 9-69 46-101 (420)
21 PF08826 DMPK_coil: DMPK coile 50.4 41 0.00088 22.5 4.3 31 10-40 27-57 (61)
22 PF05814 DUF843: Baculovirus p 50.0 24 0.00052 25.3 3.3 26 9-34 51-76 (83)
23 KOG3129|consensus 49.8 26 0.00056 29.4 3.9 31 10-40 16-46 (231)
24 PF14193 DUF4315: Domain of un 49.3 50 0.0011 23.3 4.8 33 9-41 2-34 (83)
25 PF12999 PRKCSH-like: Glucosid 48.5 40 0.00088 27.0 4.8 24 18-41 149-172 (176)
26 COG4911 Uncharacterized conser 47.5 30 0.00065 26.3 3.6 62 11-90 14-75 (123)
27 PF12325 TMF_TATA_bd: TATA ele 46.5 53 0.0011 24.6 4.8 53 10-71 32-84 (120)
28 COG4026 Uncharacterized protei 46.4 23 0.0005 30.2 3.2 55 8-62 163-220 (290)
29 TIGR01568 A_thal_3678 uncharac 46.4 10 0.00023 25.9 1.0 42 4-50 5-46 (66)
30 PF04977 DivIC: Septum formati 46.2 57 0.0012 21.0 4.5 33 8-40 17-49 (80)
31 KOG3231|consensus 44.7 41 0.00089 27.5 4.3 29 12-40 19-47 (208)
32 PF03285 Paralemmin: Paralemmi 44.7 28 0.00061 29.7 3.5 35 14-48 2-36 (278)
33 PF05642 Sporozoite_P67: Sporo 43.8 27 0.00058 33.3 3.5 55 18-87 378-432 (727)
34 PF04568 IATP: Mitochondrial A 43.2 65 0.0014 23.5 4.8 12 27-38 88-99 (100)
35 TIGR02894 DNA_bind_RsfA transc 41.8 48 0.0011 26.3 4.2 36 10-45 106-141 (161)
36 PF04111 APG6: Autophagy prote 41.8 90 0.0019 26.6 6.1 30 12-41 61-90 (314)
37 PRK05892 nucleoside diphosphat 40.1 47 0.001 25.6 3.9 24 8-31 11-34 (158)
38 PF11285 DUF3086: Protein of u 39.7 34 0.00073 29.4 3.2 57 14-92 3-59 (283)
39 TIGR01461 greB transcription e 39.7 53 0.0012 25.2 4.1 56 8-68 8-65 (156)
40 PRK11637 AmiB activator; Provi 39.6 81 0.0018 27.4 5.7 8 60-67 108-115 (428)
41 PF14723 SSFA2_C: Sperm-specif 39.4 86 0.0019 25.4 5.3 30 11-40 141-170 (179)
42 smart00055 FCH Fes/CIP4 homolo 38.9 64 0.0014 21.2 4.0 28 13-40 24-51 (87)
43 PF01920 Prefoldin_2: Prefoldi 38.7 92 0.002 21.1 4.8 28 13-40 74-101 (106)
44 PF02183 HALZ: Homeobox associ 38.5 84 0.0018 19.6 4.2 28 9-36 13-40 (45)
45 PF07323 DUF1465: Protein of u 38.5 67 0.0015 25.2 4.5 36 5-40 99-134 (156)
46 PF00611 FCH: Fes/CIP4, and EF 36.4 38 0.00083 22.2 2.5 28 13-40 24-51 (91)
47 PF02370 M: M protein repeat; 35.5 62 0.0013 17.7 2.8 16 23-38 2-17 (21)
48 COG1579 Zn-ribbon protein, pos 35.0 1.2E+02 0.0025 25.4 5.7 49 9-69 32-80 (239)
49 PF14412 AHH: A nuclease famil 34.0 1E+02 0.0022 21.5 4.5 32 9-40 72-107 (109)
50 PHA02562 46 endonuclease subun 33.9 98 0.0021 27.2 5.3 32 10-41 215-246 (562)
51 PF04111 APG6: Autophagy prote 32.9 92 0.002 26.5 4.8 33 8-40 43-75 (314)
52 KOG1655|consensus 32.4 71 0.0015 26.6 3.9 43 2-44 50-92 (218)
53 PF03148 Tektin: Tektin family 31.1 1.2E+02 0.0026 26.4 5.3 30 12-41 248-277 (384)
54 PF06305 DUF1049: Protein of u 31.0 84 0.0018 20.0 3.4 23 11-33 44-66 (68)
55 COG1579 Zn-ribbon protein, pos 30.5 1E+02 0.0022 25.8 4.6 32 9-40 90-121 (239)
56 PRK05771 V-type ATP synthase s 30.5 94 0.002 28.6 4.8 34 9-42 94-127 (646)
57 KOG0544|consensus 29.9 20 0.00043 26.8 0.3 14 78-91 53-66 (108)
58 PF09969 DUF2203: Uncharacteri 29.5 1.1E+02 0.0023 22.8 4.2 20 72-91 63-83 (120)
59 PF12781 AAA_9: ATP-binding dy 29.0 88 0.0019 25.3 3.9 27 14-40 172-198 (228)
60 PF12761 End3: Actin cytoskele 28.8 1.6E+02 0.0034 24.1 5.3 14 55-68 167-180 (195)
61 COG4942 Membrane-bound metallo 28.8 1.5E+02 0.0033 26.8 5.7 29 12-40 42-70 (420)
62 PRK01885 greB transcription el 28.6 1.2E+02 0.0025 23.4 4.4 27 8-34 10-37 (157)
63 PRK13182 racA polar chromosome 28.6 74 0.0016 25.1 3.3 27 19-45 119-148 (175)
64 PF11068 YlqD: YlqD protein; 28.4 1.3E+02 0.0029 22.7 4.6 34 11-44 15-49 (131)
65 TIGR02209 ftsL_broad cell divi 28.3 1.6E+02 0.0034 19.4 4.5 31 10-40 26-56 (85)
66 PF11853 DUF3373: Protein of u 28.1 40 0.00088 31.0 2.0 13 26-38 35-47 (489)
67 PLN02678 seryl-tRNA synthetase 27.8 1.3E+02 0.0027 27.2 5.0 34 7-40 70-103 (448)
68 PF05384 DegS: Sensor protein 27.8 1.2E+02 0.0026 23.8 4.4 30 13-42 96-125 (159)
69 PRK13729 conjugal transfer pil 27.7 87 0.0019 28.8 4.0 28 13-40 88-115 (475)
70 PF13093 FTA4: Kinetochore com 27.7 1.1E+02 0.0024 24.8 4.3 28 9-36 143-170 (213)
71 PF12848 ABC_tran_2: ABC trans 27.3 1.3E+02 0.0029 19.7 4.0 38 4-41 12-50 (85)
72 PHA03155 hypothetical protein; 27.1 1.5E+02 0.0031 22.5 4.5 32 1-32 1-32 (115)
73 PF14257 DUF4349: Domain of un 26.6 1.4E+02 0.0029 24.1 4.6 25 3-27 127-151 (262)
74 PRK05431 seryl-tRNA synthetase 26.5 1.4E+02 0.003 26.4 5.0 32 9-40 67-98 (425)
75 PF07106 TBPIP: Tat binding pr 26.3 2.8E+02 0.0061 20.9 6.1 33 8-40 72-104 (169)
76 KOG3564|consensus 26.1 98 0.0021 29.1 4.1 28 13-40 75-102 (604)
77 TIGR03042 PS_II_psbQ_bact phot 25.6 41 0.00089 26.1 1.4 14 77-90 126-139 (142)
78 PF10146 zf-C4H2: Zinc finger- 25.6 1.4E+02 0.0031 24.6 4.6 31 10-40 13-43 (230)
79 PF09304 Cortex-I_coil: Cortex 25.6 2.9E+02 0.0063 20.6 5.8 28 11-38 26-53 (107)
80 PF12958 DUF3847: Protein of u 25.4 1.9E+02 0.004 20.7 4.6 29 11-39 4-32 (86)
81 PF07716 bZIP_2: Basic region 25.4 1.8E+02 0.0038 18.1 4.5 24 17-40 27-50 (54)
82 PF10211 Ax_dynein_light: Axon 25.0 2.2E+02 0.0049 22.4 5.5 18 57-74 160-177 (189)
83 COG1382 GimC Prefoldin, chaper 24.7 1.6E+02 0.0035 22.2 4.4 33 8-40 13-45 (119)
84 TIGR00414 serS seryl-tRNA synt 24.6 1.6E+02 0.0036 25.9 5.1 31 10-40 71-101 (418)
85 PF11690 DUF3287: Protein of u 24.5 1.1E+02 0.0023 22.9 3.4 23 18-40 52-76 (109)
86 KOG0996|consensus 24.5 1.4E+02 0.003 30.8 5.0 50 20-71 825-874 (1293)
87 PF05529 Bap31: B-cell recepto 24.3 1.5E+02 0.0033 22.8 4.4 15 26-40 158-172 (192)
88 PF11180 DUF2968: Protein of u 23.7 1.7E+02 0.0037 23.9 4.6 31 11-41 150-180 (192)
89 cd07666 BAR_SNX7 The Bin/Amphi 23.7 88 0.0019 26.0 3.1 31 10-40 144-174 (243)
90 TIGR01242 26Sp45 26S proteasom 23.5 1.6E+02 0.0035 24.7 4.7 33 9-41 7-39 (364)
91 TIGR02231 conserved hypothetic 23.4 1.4E+02 0.0031 26.6 4.5 33 10-42 140-172 (525)
92 PRK09458 pspB phage shock prot 23.4 2.6E+02 0.0057 19.6 4.9 30 9-38 36-65 (75)
93 KOG4438|consensus 23.3 1.7E+02 0.0037 26.8 5.0 78 10-92 133-210 (446)
94 PF00170 bZIP_1: bZIP transcri 23.2 2.1E+02 0.0046 18.2 4.6 30 11-40 29-58 (64)
95 PF14988 DUF4515: Domain of un 23.1 1.7E+02 0.0036 23.6 4.5 29 12-40 65-96 (206)
96 PF10267 Tmemb_cc2: Predicted 23.1 1.8E+02 0.004 26.0 5.1 32 9-40 213-244 (395)
97 smart00338 BRLZ basic region l 23.1 2.1E+02 0.0046 18.2 4.6 28 13-40 31-58 (65)
98 KOG2577|consensus 23.1 1.5E+02 0.0032 26.4 4.5 37 4-40 140-176 (354)
99 smart00787 Spc7 Spc7 kinetocho 23.0 2.1E+02 0.0045 24.6 5.3 27 54-88 245-271 (312)
100 PF01920 Prefoldin_2: Prefoldi 22.9 2E+02 0.0043 19.4 4.3 33 8-40 5-37 (106)
101 COG5317 Uncharacterized protei 22.7 2.3E+02 0.0049 22.7 5.0 36 5-40 111-146 (175)
102 KOG0549|consensus 22.6 31 0.00067 28.1 0.2 15 78-92 121-135 (188)
103 PRK13729 conjugal transfer pil 22.6 1.8E+02 0.0039 26.8 5.1 22 16-37 70-91 (475)
104 PF03938 OmpH: Outer membrane 22.1 2.6E+02 0.0056 20.4 5.1 52 18-69 39-90 (158)
105 PRK10636 putative ABC transpor 21.9 1.9E+02 0.0041 26.6 5.1 24 22-45 563-586 (638)
106 PF10481 CENP-F_N: Cenp-F N-te 21.9 1.2E+02 0.0026 26.5 3.6 31 7-37 161-191 (307)
107 PRK05431 seryl-tRNA synthetase 21.8 92 0.002 27.5 3.0 28 55-82 80-107 (425)
108 TIGR02976 phageshock_pspB phag 21.8 2.8E+02 0.006 19.2 4.8 32 9-40 36-67 (75)
109 PF07851 TMPIT: TMPIT-like pro 21.4 2E+02 0.0044 25.2 5.0 15 60-75 80-94 (330)
110 PRK00888 ftsB cell division pr 21.2 1.3E+02 0.0029 21.6 3.3 16 60-75 53-70 (105)
111 KOG2397|consensus 21.2 1.6E+02 0.0034 27.3 4.4 51 9-69 338-388 (480)
112 cd00632 Prefoldin_beta Prefold 21.1 2.4E+02 0.0052 19.8 4.5 31 8-38 6-36 (105)
113 PF07200 Mod_r: Modifier of ru 20.6 2.2E+02 0.0048 20.9 4.5 34 8-41 55-88 (150)
114 PF15272 BBP1_C: Spindle pole 20.5 1.8E+02 0.0039 23.8 4.2 13 59-71 136-148 (196)
115 PRK10722 hypothetical protein; 20.4 3.1E+02 0.0068 23.3 5.7 33 15-63 176-208 (247)
116 COG5481 Uncharacterized conser 20.2 1.7E+02 0.0037 20.0 3.4 20 20-39 43-62 (67)
No 1
>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=100.00 E-value=4.3e-34 Score=199.84 Aligned_cols=80 Identities=50% Similarity=0.834 Sum_probs=73.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccccccccchhhHHHHhhhhhhcccccccCCccccceeccchhhcCCC
Q psy8928 14 RSELADLVKKKAEIAETLASLERQIYAFEGSYLEDTQLYGNETLASLERQIYAFEGSYLEDTQLYGNVIRGWDRYLSSNK 93 (134)
Q Consensus 14 k~eL~~ll~kk~~le~~l~~LE~qIy~~Et~YL~~t~~~g~e~~~~~e~qI~~~E~sYLeeT~~~GNIIkGfDgylk~~~ 93 (134)
|++|+++|++|++|+++|++||+|||+ +||+||+++..+||||||||||+++++
T Consensus 1 k~~L~~l~~~k~~Le~~L~~lE~qIy~--------------------------~Et~YL~~~~~~GNiikGfd~y~k~~~ 54 (80)
T PF09340_consen 1 KKELKELLQKKKKLEKDLAALEKQIYD--------------------------KETSYLEDTSPYGNIIKGFDGYLKSSS 54 (80)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHH--------------------------HHHHHHHccCcCCCCeeChhhhhcccc
Confidence 589999999999999999999999999 788888877779999999999999876
Q ss_pred CCCcchhcccCCCCCcccccccccccH
Q psy8928 94 TNNTNMERNRKFKEAERLFSLSSITSS 120 (134)
Q Consensus 94 ~~~~~~~r~~~~~d~DRiFSlSS~t~~ 120 (134)
.+.+.+++.+|+++|||||+||+|||
T Consensus 55 -~~~~~~~~~~~~~~dRiFS~SS~t~~ 80 (80)
T PF09340_consen 55 -GAANSRRKRGFTDDDRIFSLSSVTSP 80 (80)
T ss_pred -ccccccccCCCCccccCcccccccCC
Confidence 34578889999999999999999997
No 2
>KOG3856|consensus
Probab=99.95 E-value=2.2e-28 Score=184.58 Aligned_cols=95 Identities=60% Similarity=0.824 Sum_probs=87.0
Q ss_pred CCCCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccccccccchhhHHHHhhhhhhcccccccCCcccc
Q psy8928 1 MSSKGGGAPAMNVRSELADLVKKKAEIAETLASLERQIYAFEGSYLEDTQLYGNETLASLERQIYAFEGSYLEDTQLYGN 80 (134)
Q Consensus 1 ~~~~~~~~~y~~lk~eL~~ll~kk~~le~~l~~LE~qIy~~Et~YL~~t~~~g~e~~~~~e~qI~~~E~sYLeeT~~~GN 80 (134)
|.+++....|+++|+||+++|++|+++++.|+.||+|||+ +||+||++|..+||
T Consensus 3 ~~~~~~~~~ye~~kaEL~elikkrqe~eetl~nLe~qIY~--------------------------~EgsYle~ts~~gn 56 (135)
T KOG3856|consen 3 SEMTDELKSYEDTKAELAELIKKRQELEETLANLERQIYA--------------------------FEGSYLEDTSNNGN 56 (135)
T ss_pred ccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------------------------HhhhhhhcccCCCc
Confidence 5677888999999999999999999999999999999999 78888889999999
Q ss_pred ceeccchhhcCCCCCCcchhcccCCCCCcccccccccccHHhhh
Q psy8928 81 VIRGWDRYLSSNKTNNTNMERNRKFKEAERLFSLSSITSSAAVS 124 (134)
Q Consensus 81 IIkGfDgylk~~~~~~~~~~r~~~~~d~DRiFSlSS~t~~~~~~ 124 (134)
||+||++|+++++ .+.+|.+.|.+.+|+||.||++++...+
T Consensus 57 iirG~e~~lksns---~n~rr~r~f~eaerlfs~ss~ss~~~~s 97 (135)
T KOG3856|consen 57 IIRGWERYLKSNS---KNDRRNRKFKEAERLFSKSSDSSFANNS 97 (135)
T ss_pred hhhhhhhhccccc---cchhhhccccHHHHHhhhcccccccccC
Confidence 9999999999843 3688999999999999999999997664
No 3
>KOG3856|consensus
Probab=96.75 E-value=0.0029 Score=48.56 Aligned_cols=89 Identities=26% Similarity=0.334 Sum_probs=67.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccccccccchhhHHHHhhhhhhcccccccCCccccceeccchhhcCC
Q psy8928 13 VRSELADLVKKKAEIAETLASLERQIYAFEGSYLEDTQLYGNETLASLERQIYAFEGSYLEDTQLYGNVIRGWDRYLSSN 92 (134)
Q Consensus 13 lk~eL~~ll~kk~~le~~l~~LE~qIy~~Et~YL~~t~~~g~e~~~~~e~qI~~~E~sYLeeT~~~GNIIkGfDgylk~~ 92 (134)
-|++|.+.| ..|++++=.+|-. ||+.|.++||---- .| -||..-+..||++|||+-+-+..
T Consensus 25 krqe~eetl---~nLe~qIY~~Egs-------Yle~ts~~gniirG--------~e-~~lksns~n~rr~r~f~eaerlf 85 (135)
T KOG3856|consen 25 KRQELEETL---ANLERQIYAFEGS-------YLEDTSNNGNIIRG--------WE-RYLKSNSKNDRRNRKFKEAERLF 85 (135)
T ss_pred HHHHHHHHH---HHHHHHHHHHhhh-------hhhcccCCCchhhh--------hh-hhccccccchhhhccccHHHHHh
Confidence 355665555 5799999999986 99999988875433 23 47877556899999999998775
Q ss_pred CCCCcchhcccCCCCCcccccccccccHHhhhh
Q psy8928 93 KTNNTNMERNRKFKEAERLFSLSSITSSAAVSG 125 (134)
Q Consensus 93 ~~~~~~~~r~~~~~d~DRiFSlSS~t~~~~~~~ 125 (134)
+.+ .-..|...+|+|+++|.|+..+..+
T Consensus 86 s~s-----s~ss~~~~sp~~al~s~t~t~~r~~ 113 (135)
T KOG3856|consen 86 SKS-----SDSSFANNSPAFALSSDTYTKQRHG 113 (135)
T ss_pred hhc-----ccccccccCchhcccchhHHHHhcc
Confidence 433 2346888899999999999987654
No 4
>PF14782 BBS2_C: Ciliary BBSome complex subunit 2, C-terminal
Probab=71.67 E-value=7.5 Score=34.82 Aligned_cols=39 Identities=23% Similarity=0.223 Sum_probs=32.7
Q ss_pred CCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q psy8928 4 KGGGAPAMNVRSELADLVKKKAEIAETLASLERQIYAFE 42 (134)
Q Consensus 4 ~~~~~~y~~lk~eL~~ll~kk~~le~~l~~LE~qIy~~E 42 (134)
++....-......|++|++||++|-.+|..+|+++-..+
T Consensus 50 ~~~~~~~~~~~~~lreL~qkKQ~Ll~EL~nyEe~~~~~~ 88 (431)
T PF14782_consen 50 KGTLVDASDEQEALRELSQKKQNLLLELRNYEENAKREK 88 (431)
T ss_pred ccccccchhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Confidence 444555667888999999999999999999999998644
No 5
>PTZ00464 SNF-7-like protein; Provisional
Probab=71.19 E-value=11 Score=30.72 Aligned_cols=39 Identities=8% Similarity=0.121 Sum_probs=29.6
Q ss_pred CchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccc
Q psy8928 8 APAMNVRSELADLVKKKAEIAETLASLERQIYAFEGSYL 46 (134)
Q Consensus 8 ~~y~~lk~eL~~ll~kk~~le~~l~~LE~qIy~~Et~YL 46 (134)
+.....|+....+|++|+.++..|+++..++...|.-.+
T Consensus 54 ~~~~~~K~~Al~~LK~KK~~E~ql~~l~~q~~nleq~~~ 92 (211)
T PTZ00464 54 MTQSRHKQRAMQLLQQKRMYQNQQDMMMQQQFNMDQLQF 92 (211)
T ss_pred hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444556888888999999999988888888777554333
No 6
>PTZ00446 vacuolar sorting protein SNF7-like; Provisional
Probab=70.47 E-value=10 Score=30.63 Aligned_cols=26 Identities=15% Similarity=0.171 Sum_probs=21.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy8928 15 SELADLVKKKAEIAETLASLERQIYA 40 (134)
Q Consensus 15 ~eL~~ll~kk~~le~~l~~LE~qIy~ 40 (134)
.....+|++|+.++.+|.++..|+..
T Consensus 67 ~~Al~~LkrKK~~E~ql~q~~~ql~n 92 (191)
T PTZ00446 67 SNAKILLKRKKLYEQEIENILNNRLT 92 (191)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35667899999999999888877777
No 7
>PF10805 DUF2730: Protein of unknown function (DUF2730); InterPro: IPR020269 This entry represents a family of various hypothetical proteins. The proteins, which include HI1498 and Gp25, from phage Mu, are currently uncharacterised.
Probab=67.24 E-value=21 Score=25.77 Aligned_cols=47 Identities=19% Similarity=0.343 Sum_probs=40.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccccccccchhhHHHHhhhhhhccc
Q psy8928 14 RSELADLVKKKAEIAETLASLERQIYAFEGSYLEDTQLYGNETLASLERQIYAFEGS 70 (134)
Q Consensus 14 k~eL~~ll~kk~~le~~l~~LE~qIy~~Et~YL~~t~~~g~e~~~~~e~qI~~~E~s 70 (134)
|.++.++.++-...+..|..||.++-. .|.+.++..|+-.|-+.+|.
T Consensus 34 ~~~~~~l~~~~~~~~~Rl~~lE~~l~~----------LPt~~dv~~L~l~l~el~G~ 80 (106)
T PF10805_consen 34 REDIEKLEERLDEHDRRLQALETKLEH----------LPTRDDVHDLQLELAELRGE 80 (106)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHh----------CCCHHHHHHHHHHHHHHHhH
Confidence 667888888888899999999999988 57788999999888888874
No 8
>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=66.29 E-value=8.4 Score=25.94 Aligned_cols=27 Identities=19% Similarity=0.343 Sum_probs=23.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy8928 14 RSELADLVKKKAEIAETLASLERQIYA 40 (134)
Q Consensus 14 k~eL~~ll~kk~~le~~l~~LE~qIy~ 40 (134)
.+||++.|+.|.+|...+-.||+++--
T Consensus 2 l~ELr~VL~ERNeLK~~v~~leEEL~~ 28 (60)
T PF11461_consen 2 LQELREVLQERNELKARVFLLEEELAY 28 (60)
T ss_dssp -TTHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 468999999999999999999998754
No 9
>PF13600 DUF4140: N-terminal domain of unknown function (DUF4140)
Probab=66.21 E-value=16 Score=25.41 Aligned_cols=34 Identities=24% Similarity=0.323 Sum_probs=26.2
Q ss_pred CCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy8928 6 GGAPAMNVRSELADLVKKKAEIAETLASLERQIY 39 (134)
Q Consensus 6 ~~~~y~~lk~eL~~ll~kk~~le~~l~~LE~qIy 39 (134)
..+....|+++|+++-.++..+..++..++.+|-
T Consensus 68 ~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~ 101 (104)
T PF13600_consen 68 DSPELKELEEELEALEDELAALQDEIQALEAQIA 101 (104)
T ss_pred CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4556777888888888888888888888877764
No 10
>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=65.06 E-value=5 Score=32.47 Aligned_cols=40 Identities=28% Similarity=0.361 Sum_probs=29.8
Q ss_pred cchhhHHHHhhhhhhcccccccCCccccceeccchhhcCC
Q psy8928 53 GNETLASLERQIYAFEGSYLEDTQLYGNVIRGWDRYLSSN 92 (134)
Q Consensus 53 g~e~~~~~e~qI~~~E~sYLeeT~~~GNIIkGfDgylk~~ 92 (134)
....+..+++||-+.+...=+=.+..-.+|.+.+.|+...
T Consensus 82 q~~el~~L~~qi~~~~~~~~~l~p~m~~m~~~L~~~v~~d 121 (251)
T PF11932_consen 82 QEQELASLEQQIEQIEETRQELVPLMEQMIDELEQFVELD 121 (251)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 4566777888888888775555555667888999998754
No 11
>PRK14127 cell division protein GpsB; Provisional
Probab=60.24 E-value=43 Score=24.81 Aligned_cols=62 Identities=16% Similarity=0.162 Sum_probs=33.7
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccc-ccccccchhhHHHHhhhhhhccc
Q psy8928 9 PAMNVRSELADLVKKKAEIAETLASLERQIYAFEGSYLE-DTQLYGNETLASLERQIYAFEGS 70 (134)
Q Consensus 9 ~y~~lk~eL~~ll~kk~~le~~l~~LE~qIy~~Et~YL~-~t~~~g~e~~~~~e~qI~~~E~s 70 (134)
.|+.+-+++..|-.+-..|+.+|+.++.++-.-+.+=.. .+....+.+..+|=++|-++|..
T Consensus 38 dye~l~~e~~~Lk~e~~~l~~~l~e~~~~~~~~~~~~~~~~~~~~~~~tn~DiLKRls~LEk~ 100 (109)
T PRK14127 38 DYEAFQKEIEELQQENARLKAQVDELTKQVSVGASSSSVATTQPSSSATNYDILKRLSNLEKH 100 (109)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccccccccCCCCCcchHHHHHHHHHHHHH
Confidence 455566666666666666666666666666543222100 00112245667777777777764
No 12
>PF06810 Phage_GP20: Phage minor structural protein GP20; InterPro: IPR009636 This family consists of several phage minor structural protein Gp20 sequences and prophage sequences of around 180 residues in length. The function of this family is unknown.; GO: 0005198 structural molecule activity
Probab=60.03 E-value=31 Score=26.56 Aligned_cols=57 Identities=12% Similarity=0.243 Sum_probs=44.5
Q ss_pred CCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccccccccchhhHHHHhhhhhhccccc
Q psy8928 7 GAPAMNVRSELADLVKKKAEIAETLASLERQIYAFEGSYLEDTQLYGNETLASLERQIYAFEGSYL 72 (134)
Q Consensus 7 ~~~y~~lk~eL~~ll~kk~~le~~l~~LE~qIy~~Et~YL~~t~~~g~e~~~~~e~qI~~~E~sYL 72 (134)
+..++..|.++......+..+..+|.....+|-++.. .+.....|+++|-+++..|=
T Consensus 12 gk~i~~~K~~~~~~~~e~~~~k~ql~~~d~~i~~Lk~---------~~~d~eeLk~~i~~lq~~~~ 68 (155)
T PF06810_consen 12 GKDIEAPKAKVDKVKEERDNLKTQLKEADKQIKDLKK---------SAKDNEELKKQIEELQAKNK 68 (155)
T ss_pred cCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh---------ccCCHHHHHHHHHHHHHHHH
Confidence 5567788889988899999999999999999988644 13456777788887776653
No 13
>COG4026 Uncharacterized protein containing TOPRIM domain, potential nuclease [General function prediction only]
Probab=59.03 E-value=28 Score=29.68 Aligned_cols=30 Identities=27% Similarity=0.392 Sum_probs=16.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy8928 10 AMNVRSELADLVKKKAEIAETLASLERQIY 39 (134)
Q Consensus 10 y~~lk~eL~~ll~kk~~le~~l~~LE~qIy 39 (134)
|+++|.+|.++++.|.+|-++|..||.+.-
T Consensus 137 ~ee~kekl~E~~~EkeeL~~eleele~e~e 166 (290)
T COG4026 137 YEELKEKLEELQKEKEELLKELEELEAEYE 166 (290)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444555566666666655555554443
No 14
>PF13864 Enkurin: Calmodulin-binding
Probab=58.28 E-value=16 Score=25.72 Aligned_cols=23 Identities=26% Similarity=0.450 Sum_probs=19.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhc
Q psy8928 20 LVKKKAEIAETLASLERQIYAFE 42 (134)
Q Consensus 20 ll~kk~~le~~l~~LE~qIy~~E 42 (134)
...+|..||.+|+.||..|--++
T Consensus 72 ~~~rK~~lE~~L~qlE~dI~~ls 94 (98)
T PF13864_consen 72 KKRRKEELEKELKQLEKDIKKLS 94 (98)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHc
Confidence 45678999999999999998743
No 15
>PF09403 FadA: Adhesion protein FadA; InterPro: IPR018543 FadA (Fusobacterium adhesin A) is an adhesin which forms two alpha helices. ; PDB: 3ETZ_B 3ETY_A 2GL2_B 3ETX_C 3ETW_A.
Probab=58.11 E-value=11 Score=28.53 Aligned_cols=22 Identities=14% Similarity=0.422 Sum_probs=15.4
Q ss_pred hcccccccCCccccceeccchhhc
Q psy8928 67 FEGSYLEDTQLYGNVIRGWDRYLS 90 (134)
Q Consensus 67 ~E~sYLeeT~~~GNIIkGfDgylk 90 (134)
.+..|..+. |+++++=|+.|.+
T Consensus 82 ~~~r~yk~e--Yk~llk~y~~~~~ 103 (126)
T PF09403_consen 82 SKVRWYKDE--YKELLKKYKDLLN 103 (126)
T ss_dssp GGGSTTHHH--HHHHHHHHHHHHH
T ss_pred cchhHHHHH--HHHHHHHHHHHHH
Confidence 455666544 7888888888765
No 16
>TIGR03807 RR_fam_repeat putative cofactor-binding repeat. This model describes a small repeat found in a family of proteins that crosses the plasma membrane by twin-arginine translation, which usually signifies the presence of a bound cofactor. This repeat shows similarity to the beta-helical repeat, in which three beta-strands per repeat wind once per repeat around in a right-handed helical stack of parallel beta structure.
Probab=56.50 E-value=3.6 Score=23.70 Aligned_cols=18 Identities=56% Similarity=0.691 Sum_probs=14.4
Q ss_pred hcccccc-cCCccccceec
Q psy8928 67 FEGSYLE-DTQLYGNVIRG 84 (134)
Q Consensus 67 ~E~sYLe-eT~~~GNIIkG 84 (134)
-.|-|++ ++...||||++
T Consensus 7 g~G~y~~~d~~vsGNvIrn 25 (27)
T TIGR03807 7 GWGIYLEFDAVVTGNVIRN 25 (27)
T ss_pred ceEEEEeeeeEEecceecC
Confidence 5678888 67778999986
No 17
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=55.57 E-value=21 Score=25.86 Aligned_cols=37 Identities=16% Similarity=0.125 Sum_probs=31.4
Q ss_pred CCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy8928 5 GGGAPAMNVRSELADLVKKKAEIAETLASLERQIYAF 41 (134)
Q Consensus 5 ~~~~~y~~lk~eL~~ll~kk~~le~~l~~LE~qIy~~ 41 (134)
.|.-.|.++++++.++.++-.+++.+-+.|+.+|..+
T Consensus 24 ~G~~~~~~l~~q~~~~~~e~~~l~~~n~~L~~eI~~L 60 (105)
T PRK00888 24 NGILDYWRVNDQVAAQQQTNAKLKARNDQLFAEIDDL 60 (105)
T ss_pred CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3445788999999999999889999999999999885
No 18
>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.
Probab=54.45 E-value=26 Score=28.91 Aligned_cols=33 Identities=21% Similarity=0.430 Sum_probs=27.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q psy8928 11 MNVRSELADLVKKKAEIAETLASLERQIYAFEG 43 (134)
Q Consensus 11 ~~lk~eL~~ll~kk~~le~~l~~LE~qIy~~Et 43 (134)
++++++...|++.|+...++|..|.+.|-..|+
T Consensus 35 ~e~~kE~~~L~~Er~~h~eeLrqI~~DIn~lE~ 67 (230)
T PF10146_consen 35 EEYRKEMEELLQERMAHVEELRQINQDINTLEN 67 (230)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 467888889999999999999888888877553
No 19
>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=53.03 E-value=42 Score=23.48 Aligned_cols=33 Identities=24% Similarity=0.415 Sum_probs=26.5
Q ss_pred CchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy8928 8 APAMNVRSELADLVKKKAEIAETLASLERQIYA 40 (134)
Q Consensus 8 ~~y~~lk~eL~~ll~kk~~le~~l~~LE~qIy~ 40 (134)
...+.|+.+.+.+-.+-..++.++..+|.++..
T Consensus 67 ~~~~~l~~e~~~lk~~i~~le~~~~~~e~~l~~ 99 (108)
T PF02403_consen 67 EDAEELKAEVKELKEEIKELEEQLKELEEELNE 99 (108)
T ss_dssp CCTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 667778888888888888888888888888777
No 20
>COG4942 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]
Probab=52.50 E-value=22 Score=32.08 Aligned_cols=56 Identities=20% Similarity=0.354 Sum_probs=28.7
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccccccccchhhHHHHhhhhhhcc
Q psy8928 9 PAMNVRSELADLVKKKAEIAETLASLERQIYAFEGSYLEDTQLYGNETLASLERQIYAFEG 69 (134)
Q Consensus 9 ~y~~lk~eL~~ll~kk~~le~~l~~LE~qIy~~Et~YL~~t~~~g~e~~~~~e~qI~~~E~ 69 (134)
+++.+.+++...-+++.+|+++|..+|.+|-..|..=. -...++..++++|-+.+.
T Consensus 46 ei~~~~~~i~~~~~~~~kL~~~lk~~e~~i~~~~~ql~-----~s~~~l~~~~~~I~~~~~ 101 (420)
T COG4942 46 EIAALEKKIREQQDQRAKLEKQLKSLETEIASLEAQLI-----ETADDLKKLRKQIADLNA 101 (420)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHhHHHHHHhhHHHHHH
Confidence 34555556666666666666666666665555322211 122345555555555544
No 21
>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=50.36 E-value=41 Score=22.55 Aligned_cols=31 Identities=16% Similarity=0.384 Sum_probs=24.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy8928 10 AMNVRSELADLVKKKAEIAETLASLERQIYA 40 (134)
Q Consensus 10 y~~lk~eL~~ll~kk~~le~~l~~LE~qIy~ 40 (134)
+-.+...|++.-.+.+.|..++..|+.++-.
T Consensus 27 n~~~e~kLqeaE~rn~eL~~ei~~L~~e~ee 57 (61)
T PF08826_consen 27 NLAFESKLQEAEKRNRELEQEIERLKKEMEE 57 (61)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4456778888888999999999988888744
No 22
>PF05814 DUF843: Baculovirus protein of unknown function (DUF843); InterPro: IPR008561 This family consists of several unidentified baculovirus proteins of around 85 residues long with no known function.
Probab=49.95 E-value=24 Score=25.30 Aligned_cols=26 Identities=19% Similarity=0.448 Sum_probs=23.3
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHH
Q psy8928 9 PAMNVRSELADLVKKKAEIAETLASL 34 (134)
Q Consensus 9 ~y~~lk~eL~~ll~kk~~le~~l~~L 34 (134)
.+.+|..+....++||+++++.++++
T Consensus 51 ~~~dL~t~k~K~~KKK~~ln~afDAi 76 (83)
T PF05814_consen 51 TPQDLQTEKAKSIKKKRDLNDAFDAI 76 (83)
T ss_pred cHHHHhhhhhhhHHHHHHHHHHHHHH
Confidence 36788889999999999999999987
No 23
>KOG3129|consensus
Probab=49.76 E-value=26 Score=29.38 Aligned_cols=31 Identities=32% Similarity=0.458 Sum_probs=26.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy8928 10 AMNVRSELADLVKKKAEIAETLASLERQIYA 40 (134)
Q Consensus 10 y~~lk~eL~~ll~kk~~le~~l~~LE~qIy~ 40 (134)
-...+.++++|+.+|++||.+|..+..=+-.
T Consensus 16 g~~~~~~~~eLm~~K~eiE~qin~~~~vL~~ 46 (231)
T KOG3129|consen 16 GANTKSELKELMDKKTEIETQINELVEVLEN 46 (231)
T ss_pred cchhHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 3468899999999999999999998776544
No 24
>PF14193 DUF4315: Domain of unknown function (DUF4315)
Probab=49.26 E-value=50 Score=23.33 Aligned_cols=33 Identities=27% Similarity=0.281 Sum_probs=28.9
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy8928 9 PAMNVRSELADLVKKKAEIAETLASLERQIYAF 41 (134)
Q Consensus 9 ~y~~lk~eL~~ll~kk~~le~~l~~LE~qIy~~ 41 (134)
..+++++++...-.|+.+++..|..||.++-..
T Consensus 2 KleKi~~eieK~k~Kiae~Q~rlK~Le~qk~E~ 34 (83)
T PF14193_consen 2 KLEKIRAEIEKTKEKIAELQARLKELEAQKTEA 34 (83)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 467889999999999999999999999998773
No 25
>PF12999 PRKCSH-like: Glucosidase II beta subunit-like
Probab=48.49 E-value=40 Score=26.99 Aligned_cols=24 Identities=33% Similarity=0.490 Sum_probs=17.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhh
Q psy8928 18 ADLVKKKAEIAETLASLERQIYAF 41 (134)
Q Consensus 18 ~~ll~kk~~le~~l~~LE~qIy~~ 41 (134)
.+..++|.++++++..|+++|-..
T Consensus 149 ~~a~~~~~e~~~~l~~l~~ei~~~ 172 (176)
T PF12999_consen 149 EEAKKKREELEKKLEELEKEIQAA 172 (176)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 555666777788888888887763
No 26
>COG4911 Uncharacterized conserved protein [Function unknown]
Probab=47.54 E-value=30 Score=26.31 Aligned_cols=62 Identities=23% Similarity=0.141 Sum_probs=36.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccccccccchhhHHHHhhhhhhcccccccCCccccceeccchhhc
Q psy8928 11 MNVRSELADLVKKKAEIAETLASLERQIYAFEGSYLEDTQLYGNETLASLERQIYAFEGSYLEDTQLYGNVIRGWDRYLS 90 (134)
Q Consensus 11 ~~lk~eL~~ll~kk~~le~~l~~LE~qIy~~Et~YL~~t~~~g~e~~~~~e~qI~~~E~sYLeeT~~~GNIIkGfDgylk 90 (134)
.+|+.=|++.+.+++++.+.++.|-.|=- --+++..|+|+-.. |.+-..-|=||||||.-+-
T Consensus 14 ~el~P~l~d~~~~~r~~~n~~e~L~~qed--------------k~~l~e~e~q~k~~----l~~i~e~G~iird~d~glV 75 (123)
T COG4911 14 RELLPWLRDRLIQLRKIKNEIELLLVQED--------------KYALQEYESQTKKI----LDEIIEKGIIIRDIDIGLV 75 (123)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhccccc--------------HHHHHHHHHHHHHH----HHHHHHcCceeeccccccc
Confidence 35666677777888877777766533310 11244555554332 2333346999999997553
No 27
>PF12325 TMF_TATA_bd: TATA element modulatory factor 1 TATA binding; InterPro: IPR022091 This is the C-terminal conserved coiled coil region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes []. The 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. TMF1_TATA_bd is the most conserved part of the TMFs []. 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. The Rab6-binding domain appears to be the same region as this C-terminal family [].
Probab=46.45 E-value=53 Score=24.58 Aligned_cols=53 Identities=19% Similarity=0.295 Sum_probs=32.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccccccccchhhHHHHhhhhhhcccc
Q psy8928 10 AMNVRSELADLVKKKAEIAETLASLERQIYAFEGSYLEDTQLYGNETLASLERQIYAFEGSY 71 (134)
Q Consensus 10 y~~lk~eL~~ll~kk~~le~~l~~LE~qIy~~Et~YL~~t~~~g~e~~~~~e~qI~~~E~sY 71 (134)
...++.++..+...|..+.+++.+|-...-.. ......+..++.++-+++..|
T Consensus 32 ~~~l~~el~~l~~~r~~l~~Eiv~l~~~~e~~---------~~~~~~~~~L~~el~~l~~ry 84 (120)
T PF12325_consen 32 LASLQEELARLEAERDELREEIVKLMEENEEL---------RALKKEVEELEQELEELQQRY 84 (120)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHHH
Confidence 34467777777777777777777766655441 122345556666766666655
No 28
>COG4026 Uncharacterized protein containing TOPRIM domain, potential nuclease [General function prediction only]
Probab=46.42 E-value=23 Score=30.18 Aligned_cols=55 Identities=20% Similarity=0.320 Sum_probs=39.4
Q ss_pred CchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccc---ccccccccchhhHHHHh
Q psy8928 8 APAMNVRSELADLVKKKAEIAETLASLERQIYAFEGSY---LEDTQLYGNETLASLER 62 (134)
Q Consensus 8 ~~y~~lk~eL~~ll~kk~~le~~l~~LE~qIy~~Et~Y---L~~t~~~g~e~~~~~e~ 62 (134)
++|+.++..|+.+-..+..|++.|+.|+.+.|++++.+ .+.--.+-+..+.++.+
T Consensus 163 ~e~ee~~erlk~le~E~s~LeE~~~~l~~ev~~L~~r~~ELe~~~El~e~~~i~dl~~ 220 (290)
T COG4026 163 AEYEEVQERLKRLEVENSRLEEMLKKLPGEVYDLKKRWDELEPGVELPEEELISDLVK 220 (290)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhchhHHHHHHHHHHHhcccccchHHHHHHHHHH
Confidence 46888889999999999999999999999999877543 22223444444555554
No 29
>TIGR01568 A_thal_3678 uncharacterized plant-specific domain TIGR01568. This model describes an uncharacterized domain of about 70 residues found exclusively in plants, generally toward the C-terminus of proteins of 200 to 350 amino acids in length. At least 14 such proteins are found in Arabidopsis thaliana. Other regions of these proteins tend to consist largely of low-complexity sequence.
Probab=46.38 E-value=10 Score=25.92 Aligned_cols=42 Identities=17% Similarity=0.396 Sum_probs=32.1
Q ss_pred CCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccccc
Q psy8928 4 KGGGAPAMNVRSELADLVKKKAEIAETLASLERQIYAFEGSYLEDTQ 50 (134)
Q Consensus 4 ~~~~~~y~~lk~eL~~ll~kk~~le~~l~~LE~qIy~~Et~YL~~t~ 50 (134)
+....+|.+.|+-..+++..+. +...++.||+-+.- ||+-+.
T Consensus 5 k~S~DPy~DFr~SM~EMI~~~~-i~~~w~~LeeLL~c----YL~LN~ 46 (66)
T TIGR01568 5 KESDDPYEDFRRSMEEMIEERE-LEADWKELEELLAC----YLDLNP 46 (66)
T ss_pred eCCCChHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHH----HHHhCC
Confidence 4567899999999999999884 55557777777776 776444
No 30
>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=46.22 E-value=57 Score=21.03 Aligned_cols=33 Identities=21% Similarity=0.299 Sum_probs=24.6
Q ss_pred CchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy8928 8 APAMNVRSELADLVKKKAEIAETLASLERQIYA 40 (134)
Q Consensus 8 ~~y~~lk~eL~~ll~kk~~le~~l~~LE~qIy~ 40 (134)
..+..+++++.++-.+-.++.++.+.|+++|-.
T Consensus 17 ~~~~~~~~ei~~l~~~i~~l~~e~~~L~~ei~~ 49 (80)
T PF04977_consen 17 SRYYQLNQEIAELQKEIEELKKENEELKEEIER 49 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 346677777777777777777777777777776
No 31
>KOG3231|consensus
Probab=44.72 E-value=41 Score=27.46 Aligned_cols=29 Identities=17% Similarity=0.294 Sum_probs=26.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy8928 12 NVRSELADLVKKKAEIAETLASLERQIYA 40 (134)
Q Consensus 12 ~lk~eL~~ll~kk~~le~~l~~LE~qIy~ 40 (134)
.||+--+++...|+++|++=.+||.+|-.
T Consensus 19 eLRkt~RdierdRr~me~~Ek~LElEIkk 47 (208)
T KOG3231|consen 19 ELRKTQRDIERDRRAMEKQEKQLELEIKK 47 (208)
T ss_pred HHHHhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 47777789999999999999999999988
No 32
>PF03285 Paralemmin: Paralemmin; InterPro: IPR004965 Paralemmin was identified in the chicken lens as a protein with a molecular weight of 65 kDa (isoform 1) and a splice variant of 60 kDa (isoform 2). Isoform 2 is predominant during infancy and levels of isoform 1 increase with age. Paralemmin is localised to the plasma membrane of fibre cells, and was not detected in the annular pad cells. Its localisation to the short side of the fibre cell and the sites of fibre cell interlocking suggests that paralemmin may play a role in the development of such interdigitating processes []. Palmitoylation is important for localising these proteins to the filopodia of dendritic cells where they have been implicated in the regulation of membrane dynamics and process outgrowth. ; GO: 0008360 regulation of cell shape, 0016020 membrane
Probab=44.71 E-value=28 Score=29.75 Aligned_cols=35 Identities=23% Similarity=0.334 Sum_probs=28.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccc
Q psy8928 14 RSELADLVKKKAEIAETLASLERQIYAFEGSYLED 48 (134)
Q Consensus 14 k~eL~~ll~kk~~le~~l~~LE~qIy~~Et~YL~~ 48 (134)
|+++.+=-+|=|.||+.+-+||++|-.+|+.=+-.
T Consensus 2 rrQ~qEDEqKtR~LEesI~RLEkEIe~LE~~es~i 36 (278)
T PF03285_consen 2 RRQMQEDEQKTRSLEESIHRLEKEIEALENGESQI 36 (278)
T ss_pred cchhhHHHHHHHHHHHHHHHHHHHHHHhccCCccc
Confidence 45666777888999999999999999998654433
No 33
>PF05642 Sporozoite_P67: Sporozoite P67 surface antigen; InterPro: IPR008845 This family consists of several Theileria P67 surface antigens. A stage specific surface antigen of Theileria parva, p67, is the basis for the development of an anti-sporozoite vaccine for the control of East Coast fever (ECF) in Bos taurus. The antigen has been shown to contain five distinct linear peptide sequences recognised by sporozoite-neutralising murine monoclonal antibodies [].
Probab=43.81 E-value=27 Score=33.29 Aligned_cols=55 Identities=16% Similarity=0.303 Sum_probs=32.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhccccccccccccchhhHHHHhhhhhhcccccccCCccccceeccch
Q psy8928 18 ADLVKKKAEIAETLASLERQIYAFEGSYLEDTQLYGNETLASLERQIYAFEGSYLEDTQLYGNVIRGWDR 87 (134)
Q Consensus 18 ~~ll~kk~~le~~l~~LE~qIy~~Et~YL~~t~~~g~e~~~~~e~qI~~~E~sYLeeT~~~GNIIkGfDg 87 (134)
.-||.-|-.|.++|..|-+-+-. ++..|+.-..+ ++|.-+..-...-||||||..
T Consensus 378 ~tli~lklaiand~veit~~l~k---------n~~~~~~rlkl------l~g~~~~~r~~vanv~kgfns 432 (727)
T PF05642_consen 378 NTLINLKLAIANDFVEITEKLKK---------NNKDHVPRLKL------LKGVEFTKRKSVANVLKGFNS 432 (727)
T ss_pred HHHHHHHHHHhhhHHHHhhhhcc---------ccccchhhhhh------hcccccchhHHHHHHHhcccc
Confidence 34445555555665555444433 23344444444 778767655568999999975
No 34
>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=43.22 E-value=65 Score=23.54 Aligned_cols=12 Identities=25% Similarity=0.459 Sum_probs=5.2
Q ss_pred HHHHHHHHHHHH
Q psy8928 27 IAETLASLERQI 38 (134)
Q Consensus 27 le~~l~~LE~qI 38 (134)
..++|+.||++|
T Consensus 88 ~~k~i~~le~~I 99 (100)
T PF04568_consen 88 HRKEIDELEKHI 99 (100)
T ss_dssp HHHHHHHHHHHH
T ss_pred HHHHHHHHHHhc
Confidence 334444444443
No 35
>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=41.79 E-value=48 Score=26.34 Aligned_cols=36 Identities=19% Similarity=0.412 Sum_probs=21.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccc
Q psy8928 10 AMNVRSELADLVKKKAEIAETLASLERQIYAFEGSY 45 (134)
Q Consensus 10 y~~lk~eL~~ll~kk~~le~~l~~LE~qIy~~Et~Y 45 (134)
...|+.++.+|-++=..|++++..|++++...+-+|
T Consensus 106 ~~~l~~e~~~l~~~~e~Le~e~~~L~~~~~~~~eDY 141 (161)
T TIGR02894 106 NERLKNQNESLQKRNEELEKELEKLRQRLSTIEEDY 141 (161)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344566666666666667777777766665543333
No 36
>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=41.76 E-value=90 Score=26.57 Aligned_cols=30 Identities=27% Similarity=0.489 Sum_probs=20.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy8928 12 NVRSELADLVKKKAEIAETLASLERQIYAF 41 (134)
Q Consensus 12 ~lk~eL~~ll~kk~~le~~l~~LE~qIy~~ 41 (134)
.+.++|+++-+.+.+|++++..||.+....
T Consensus 61 ~l~~eL~~LE~e~~~l~~el~~le~e~~~l 90 (314)
T PF04111_consen 61 ELLQELEELEKEREELDQELEELEEELEEL 90 (314)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456666667777777777777777666554
No 37
>PRK05892 nucleoside diphosphate kinase regulator; Provisional
Probab=40.06 E-value=47 Score=25.61 Aligned_cols=24 Identities=25% Similarity=0.354 Sum_probs=18.8
Q ss_pred CchHHHHHHHHHHHHHHHHHHHHH
Q psy8928 8 APAMNVRSELADLVKKKAEIAETL 31 (134)
Q Consensus 8 ~~y~~lk~eL~~ll~kk~~le~~l 31 (134)
.-|.+|++||..|..+|.++-+.+
T Consensus 11 eg~~~L~~EL~~L~~~r~~i~~~i 34 (158)
T PRK05892 11 AARDHLEAELARLRARRDRLAVEV 34 (158)
T ss_pred HHHHHHHHHHHHHHHHhHHHHHHH
Confidence 458899999999988777775444
No 38
>PF11285 DUF3086: Protein of unknown function (DUF3086); InterPro: IPR021437 This family of proteins with unknown function appears to be restricted to Cyanobacteria.
Probab=39.73 E-value=34 Score=29.45 Aligned_cols=57 Identities=21% Similarity=0.405 Sum_probs=38.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccccccccchhhHHHHhhhhhhcccccccCCccccceeccchhhcCC
Q psy8928 14 RSELADLVKKKAEIAETLASLERQIYAFEGSYLEDTQLYGNETLASLERQIYAFEGSYLEDTQLYGNVIRGWDRYLSSN 92 (134)
Q Consensus 14 k~eL~~ll~kk~~le~~l~~LE~qIy~~Et~YL~~t~~~g~e~~~~~e~qI~~~E~sYLeeT~~~GNIIkGfDgylk~~ 92 (134)
..-|++|.++|..|+.++.+||+.=-. |++. +.+++..-+...-==|+||--|+-++
T Consensus 3 ~~~L~eL~qrk~~Lq~eIe~LerR~~r-------------------i~~E---mrtsFaG~Sq~lA~RVqGFkdYLvGs 59 (283)
T PF11285_consen 3 QEALKELEQRKQALQIEIEQLERRRER-------------------IEKE---MRTSFAGQSQDLAIRVQGFKDYLVGS 59 (283)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHH-------------------HHHH---HHcccccchHHHHHHHhhhHHHHHHH
Confidence 346899999999999999999875333 1111 44555444444445589999999764
No 39
>TIGR01461 greB transcription elongation factor GreB. The GreA and GreB transcription elongation factors enable to continuation of RNA transcription past template-encoded arresting sites. Among the Proteobacteria, distinct clades of GreA and GreB are found. GreB differs functionally in that it releases larger oligonucleotides. This model describes proteobacterial GreB.
Probab=39.71 E-value=53 Score=25.22 Aligned_cols=56 Identities=18% Similarity=0.300 Sum_probs=31.6
Q ss_pred CchHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHhhc-cccccccccccchhhHHHHhhhhhhc
Q psy8928 8 APAMNVRSELADLVK-KKAEIAETLASLERQIYAFE-GSYLEDTQLYGNETLASLERQIYAFE 68 (134)
Q Consensus 8 ~~y~~lk~eL~~ll~-kk~~le~~l~~LE~qIy~~E-t~YL~~t~~~g~e~~~~~e~qI~~~E 68 (134)
.-|++|++||..|.. +|.++.+.+...-.+=-..| ++|- -+-+.+..++.+|-.++
T Consensus 8 ~G~~~L~~El~~L~~~~r~~~~~~i~~Ar~~GDlsENaeY~-----aak~~~~~le~rI~~L~ 65 (156)
T TIGR01461 8 EGYEKLKQELNYLWREERPEVTQKVTWAASLGDRSENADYQ-----YGKKRLREIDRRVRFLT 65 (156)
T ss_pred HHHHHHHHHHHHHHhcccHHHHHHHHHHHHcCCcchhhhhH-----HHHHHHHHHHHHHHHHH
Confidence 458899999999984 67777776654410000000 1111 13345666777776666
No 40
>PRK11637 AmiB activator; Provisional
Probab=39.64 E-value=81 Score=27.40 Aligned_cols=8 Identities=25% Similarity=0.330 Sum_probs=2.9
Q ss_pred HHhhhhhh
Q psy8928 60 LERQIYAF 67 (134)
Q Consensus 60 ~e~qI~~~ 67 (134)
++++|-+.
T Consensus 108 l~~eI~~~ 115 (428)
T PRK11637 108 LNASIAKL 115 (428)
T ss_pred HHHHHHHH
Confidence 33333333
No 41
>PF14723 SSFA2_C: Sperm-specific antigen 2 C-terminus
Probab=39.41 E-value=86 Score=25.40 Aligned_cols=30 Identities=23% Similarity=0.274 Sum_probs=26.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy8928 11 MNVRSELADLVKKKAEIAETLASLERQIYA 40 (134)
Q Consensus 11 ~~lk~eL~~ll~kk~~le~~l~~LE~qIy~ 40 (134)
+.-|-|..+|..=|..+..++..||.|+-|
T Consensus 141 eeER~EaeQLQsLR~avRqElqELE~QL~D 170 (179)
T PF14723_consen 141 EEEREEAEQLQSLRSAVRQELQELEFQLED 170 (179)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456778899999999999999999999888
No 42
>smart00055 FCH Fes/CIP4 homology domain. Alignment extended from original report. Highly alpha-helical. Also known as the RAEYL motif or the S. pombe Cdc15 N-terminal domain.
Probab=38.87 E-value=64 Score=21.24 Aligned_cols=28 Identities=18% Similarity=0.364 Sum_probs=22.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy8928 13 VRSELADLVKKKAEIAETLASLERQIYA 40 (134)
Q Consensus 13 lk~eL~~ll~kk~~le~~l~~LE~qIy~ 40 (134)
+-+++...+++|.++|++.++--+.|..
T Consensus 24 ~~~~~~~f~~~Ra~iE~eYak~L~kL~~ 51 (87)
T smart00055 24 LLEDLKKFIRERAKIEEEYAKKLQKLSK 51 (87)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4467889999999999998876666655
No 43
>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=38.66 E-value=92 Score=21.08 Aligned_cols=28 Identities=21% Similarity=0.457 Sum_probs=12.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy8928 13 VRSELADLVKKKAEIAETLASLERQIYA 40 (134)
Q Consensus 13 lk~eL~~ll~kk~~le~~l~~LE~qIy~ 40 (134)
+..++..+-.+.+.++++|..++..+|.
T Consensus 74 ~~~~i~~l~~~~~~l~~~l~~~~~~l~~ 101 (106)
T PF01920_consen 74 LEKEIKKLEKQLKYLEKKLKELKKKLYE 101 (106)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444444444444444444444443
No 44
>PF02183 HALZ: Homeobox associated leucine zipper; InterPro: IPR003106 This region is a plant specific leucine zipper that is always found associated with a homeobox []. ; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=38.52 E-value=84 Score=19.64 Aligned_cols=28 Identities=14% Similarity=0.284 Sum_probs=19.3
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy8928 9 PAMNVRSELADLVKKKAEIAETLASLER 36 (134)
Q Consensus 9 ~y~~lk~eL~~ll~kk~~le~~l~~LE~ 36 (134)
.|+.|+.+-..|.+.+..|..++..|-.
T Consensus 13 ~yd~Lk~~~~~L~~E~~~L~aev~~L~~ 40 (45)
T PF02183_consen 13 SYDSLKAEYDSLKKENEKLRAEVQELKE 40 (45)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4667777777777777777777766643
No 45
>PF07323 DUF1465: Protein of unknown function (DUF1465); InterPro: IPR010848 This family consists of several hypothetical bacterial proteins of around 180 residues in length. The function of this family is unknown.; PDB: 3CTW_D.
Probab=38.51 E-value=67 Score=25.22 Aligned_cols=36 Identities=22% Similarity=0.347 Sum_probs=25.7
Q ss_pred CCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy8928 5 GGGAPAMNVRSELADLVKKKAEIAETLASLERQIYA 40 (134)
Q Consensus 5 ~~~~~y~~lk~eL~~ll~kk~~le~~l~~LE~qIy~ 40 (134)
.+++.++.|=..|++|+.+=..|.+.+..|+..||.
T Consensus 99 ~~~~~~~~LP~~lr~Li~rS~rL~~RV~rLD~~~~~ 134 (156)
T PF07323_consen 99 PDPPGWAELPEGLRALIERSERLYERVARLDRMIYE 134 (156)
T ss_dssp ----------HHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred cCchhhhhccHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 367788899999999999999999999999999999
No 46
>PF00611 FCH: Fes/CIP4, and EFC/F-BAR homology domain; InterPro: IPR001060 The FCH domain is a short conserved region of around 60 amino acids first described as a region of homology between FER and CIP4 proteins []. Many proteins containing an FCH domain are involved in the regulation of cytoskeletal rearrangements, vesicular transport and endocytosis. In the CIP4 protein the FCH domain binds to microtubules []. The FCH domain is always found N-terminally and is followed by a coiled-coil region. Proteins containing an FCH domain can be divided in 3 classes []: A subfamily of protein kinases usually associated with an SH2 domain: Fps/fes (Fujimani poultry sarcoma/feline sarcoma) proto-oncogenes. They are non-receptor protein-tyrosine kinases preferentially expressed in myeloid lineage. The viral oncogene has an unregulated kinase activity which abrogates the need for cytokines and influences differentiation of haematopoietic progenitor cells. Fes related protein (fer). It is an ubiquitously expressed homologue of Fes. Adaptor proteins usually associated with a C-terminal SH3 domain: Schizosaccharomyces pombe CDC15 protein. It mediates cytoskeletal rearrangements required for cytokinesis. It is essential for viability. CD2 cytoplasmic domain binding protein. Mammalian Cdc42-interacting protein 4 (CIP4). It may act as a link between Cdc42 signaling and regulation of the actin cytoskeleton. Mammalian PACSIN proteins. A family of cytoplasmic phosphoproteins playing a role in vesicle formation and transport. A subfamily of Rho-GAP proteins: Mammalian RhoGAP4 proteins. They may down-regulate Rho-like GTPases in hematopoietic cells. Yeast hypothetical protein YBR260C. Caenorhabditis elegans hypothetical protein ZK669.1. ; PDB: 2EFK_A 2EFL_A 2X3W_A 2X3X_C 2X3V_C 3I2W_A 3ABH_B 3Q0K_B 3HAJ_A 3ACO_B ....
Probab=36.36 E-value=38 Score=22.17 Aligned_cols=28 Identities=25% Similarity=0.349 Sum_probs=19.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy8928 13 VRSELADLVKKKAEIAETLASLERQIYA 40 (134)
Q Consensus 13 lk~eL~~ll~kk~~le~~l~~LE~qIy~ 40 (134)
+=.+|.+.+++|..+|++.++--..|..
T Consensus 24 ~~~~l~~~~keRa~lE~~Yak~L~kl~~ 51 (91)
T PF00611_consen 24 LLEELASFFKERASLEEEYAKSLQKLAK 51 (91)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3457788899999999887755444444
No 47
>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=35.50 E-value=62 Score=17.65 Aligned_cols=16 Identities=19% Similarity=0.241 Sum_probs=12.5
Q ss_pred HHHHHHHHHHHHHHHH
Q psy8928 23 KKAEIAETLASLERQI 38 (134)
Q Consensus 23 kk~~le~~l~~LE~qI 38 (134)
.|++||.++..||.+-
T Consensus 2 akk~lEa~~qkLe~e~ 17 (21)
T PF02370_consen 2 AKKQLEADHQKLEAEK 17 (21)
T ss_dssp HHHHHHHHHHHHHHHH
T ss_pred cHHHHHHHHHHHHHHH
Confidence 4788888888888764
No 48
>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]
Probab=35.01 E-value=1.2e+02 Score=25.42 Aligned_cols=49 Identities=20% Similarity=0.237 Sum_probs=28.2
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccccccccchhhHHHHhhhhhhcc
Q psy8928 9 PAMNVRSELADLVKKKAEIAETLASLERQIYAFEGSYLEDTQLYGNETLASLERQIYAFEG 69 (134)
Q Consensus 9 ~y~~lk~eL~~ll~kk~~le~~l~~LE~qIy~~Et~YL~~t~~~g~e~~~~~e~qI~~~E~ 69 (134)
.+.+++.++..+-..-..++.++..|+.||.. ...++..+.+||-+.|-
T Consensus 32 ~l~k~~~e~e~~~~~~~~~~~e~e~le~qv~~------------~e~ei~~~r~r~~~~e~ 80 (239)
T COG1579 32 ALKKAKAELEALNKALEALEIELEDLENQVSQ------------LESEIQEIRERIKRAEE 80 (239)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------------HHHHHHHHHHHHHHHHH
Confidence 34555556666666666666666666666666 23455666666555543
No 49
>PF14412 AHH: A nuclease family of the HNH/ENDO VII superfamily with conserved AHH
Probab=34.03 E-value=1e+02 Score=21.49 Aligned_cols=32 Identities=16% Similarity=0.289 Sum_probs=26.2
Q ss_pred chHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHh
Q psy8928 9 PAMNVRSELADLVK----KKAEIAETLASLERQIYA 40 (134)
Q Consensus 9 ~y~~lk~eL~~ll~----kk~~le~~l~~LE~qIy~ 40 (134)
.+..++.+|.++.. .+..+.++|..|.++|.+
T Consensus 72 Y~~~V~~~L~~~~~~~~~~~~~~~~~l~~i~~~l~~ 107 (109)
T PF14412_consen 72 YNKYVRERLDKIENSKKENREEFRKELQKIKNELRN 107 (109)
T ss_pred HHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHc
Confidence 45668888888777 588999999999998875
No 50
>PHA02562 46 endonuclease subunit; Provisional
Probab=33.87 E-value=98 Score=27.18 Aligned_cols=32 Identities=13% Similarity=0.296 Sum_probs=27.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy8928 10 AMNVRSELADLVKKKAEIAETLASLERQIYAF 41 (134)
Q Consensus 10 y~~lk~eL~~ll~kk~~le~~l~~LE~qIy~~ 41 (134)
-+.+++++..++.++..++.++..|+.+|.+.
T Consensus 215 i~~l~~e~~~l~~~~~~l~~~l~~l~~~i~~l 246 (562)
T PHA02562 215 IARKQNKYDELVEEAKTIKAEIEELTDELLNL 246 (562)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35678888889999999999999999998884
No 51
>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=32.91 E-value=92 Score=26.51 Aligned_cols=33 Identities=21% Similarity=0.323 Sum_probs=20.3
Q ss_pred CchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy8928 8 APAMNVRSELADLVKKKAEIAETLASLERQIYA 40 (134)
Q Consensus 8 ~~y~~lk~eL~~ll~kk~~le~~l~~LE~qIy~ 40 (134)
.....+..+|.++.+..+.+.++|..||++-..
T Consensus 43 ~~~~~~~~el~~le~Ee~~l~~eL~~LE~e~~~ 75 (314)
T PF04111_consen 43 EDIEELEEELEKLEQEEEELLQELEELEKEREE 75 (314)
T ss_dssp H--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345566677777777777777777766665444
No 52
>KOG1655|consensus
Probab=32.45 E-value=71 Score=26.57 Aligned_cols=43 Identities=16% Similarity=0.257 Sum_probs=36.9
Q ss_pred CCCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccc
Q psy8928 2 SSKGGGAPAMNVRSELADLVKKKAEIAETLASLERQIYAFEGS 44 (134)
Q Consensus 2 ~~~~~~~~y~~lk~eL~~ll~kk~~le~~l~~LE~qIy~~Et~ 44 (134)
+.+-.++.-..||+.--..|++|+.+|.+.+.|.+|=|+.|-.
T Consensus 50 ~k~R~gpaq~~~KqrAlrVLkQKK~yE~q~d~L~~QsfNMeQa 92 (218)
T KOG1655|consen 50 KKTRPGPAQNALKQRALRVLKQKKMYENQKDSLDQQSFNMEQA 92 (218)
T ss_pred HhcCCCcchhHHHHHHHHHHHHHHHHHHHHHHHHHhcccHHHH
Confidence 3455678888899998899999999999999999999998833
No 53
>PF03148 Tektin: Tektin family; InterPro: IPR000435 Tektin heteropolymers form unique protofilaments of flagellar microtubules []. The proteins are predicted to form extended rods composed of 2 alpha- helical segments (~180 residues long) capable of forming coiled coils, interrupted by non-helical linkers []. The 2 segments are similar in sequence, indicating a gene duplication event. Along each tektin rod, cysteine residues occur with a periodicity of ~8nm, coincident with the axial repeat of tubulin dimers in microtubules []. It is proposed that the assembly of tektin heteropolymers produces filaments with repeats of 8, 16, 24, 32, 40, 48 and 96nm, generating the basis for the complex spatial arrangements of axonemal components [].; GO: 0000226 microtubule cytoskeleton organization, 0005874 microtubule
Probab=31.05 E-value=1.2e+02 Score=26.43 Aligned_cols=30 Identities=17% Similarity=0.231 Sum_probs=25.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy8928 12 NVRSELADLVKKKAEIAETLASLERQIYAF 41 (134)
Q Consensus 12 ~lk~eL~~ll~kk~~le~~l~~LE~qIy~~ 41 (134)
.+++.+.++...|.+|+.+|..++++|.+.
T Consensus 248 al~~Ri~et~~ak~~Le~ql~~~~~ei~~~ 277 (384)
T PF03148_consen 248 ALRKRIHETQEAKNELEWQLKKTLQEIAEM 277 (384)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhHHHHHHHH
Confidence 377788888888999999999999998883
No 54
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=30.96 E-value=84 Score=19.96 Aligned_cols=23 Identities=17% Similarity=0.362 Sum_probs=11.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q psy8928 11 MNVRSELADLVKKKAEIAETLAS 33 (134)
Q Consensus 11 ~~lk~eL~~ll~kk~~le~~l~~ 33 (134)
-.+|.+++.+-++-+++++++++
T Consensus 44 ~~~r~~~~~~~k~l~~le~e~~~ 66 (68)
T PF06305_consen 44 LRLRRRIRRLRKELKKLEKELEQ 66 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHh
Confidence 34455555554444444444443
No 55
>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]
Probab=30.52 E-value=1e+02 Score=25.77 Aligned_cols=32 Identities=16% Similarity=0.156 Sum_probs=18.3
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy8928 9 PAMNVRSELADLVKKKAEIAETLASLERQIYA 40 (134)
Q Consensus 9 ~y~~lk~eL~~ll~kk~~le~~l~~LE~qIy~ 40 (134)
+|.+|..++..+..+...|+++|+.|...+-.
T Consensus 90 e~~aL~~E~~~ak~r~~~le~el~~l~~~~~~ 121 (239)
T COG1579 90 ELRALNIEIQIAKERINSLEDELAELMEEIEK 121 (239)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45566666666666666666666555444444
No 56
>PRK05771 V-type ATP synthase subunit I; Validated
Probab=30.47 E-value=94 Score=28.61 Aligned_cols=34 Identities=21% Similarity=0.391 Sum_probs=28.3
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q psy8928 9 PAMNVRSELADLVKKKAEIAETLASLERQIYAFE 42 (134)
Q Consensus 9 ~y~~lk~eL~~ll~kk~~le~~l~~LE~qIy~~E 42 (134)
..+++.+++.++.+++++|+++++.+++++-..+
T Consensus 94 ~~~~~~~~i~~l~~~~~~L~~~~~~l~~~~~~l~ 127 (646)
T PRK05771 94 ELEKIEKEIKELEEEISELENEIKELEQEIERLE 127 (646)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 3456778899999999999999999999988654
No 57
>KOG0544|consensus
Probab=29.88 E-value=20 Score=26.76 Aligned_cols=14 Identities=43% Similarity=0.964 Sum_probs=10.8
Q ss_pred cccceeccchhhcC
Q psy8928 78 YGNVIRGWDRYLSS 91 (134)
Q Consensus 78 ~GNIIkGfDgylk~ 91 (134)
-|-||||||-=+-.
T Consensus 53 kgeVIkGwdegv~q 66 (108)
T KOG0544|consen 53 KGEVIKGWDEGVAQ 66 (108)
T ss_pred Ccceeechhhcchh
Confidence 58999999965543
No 58
>PF09969 DUF2203: Uncharacterized conserved protein (DUF2203); InterPro: IPR018699 This family has no known function.
Probab=29.47 E-value=1.1e+02 Score=22.75 Aligned_cols=20 Identities=10% Similarity=0.292 Sum_probs=13.8
Q ss_pred cccCCccccceeccc-hhhcC
Q psy8928 72 LEDTQLYGNVIRGWD-RYLSS 91 (134)
Q Consensus 72 LeeT~~~GNIIkGfD-gylk~ 91 (134)
+++-...|=+|||+| |-++=
T Consensus 63 i~~i~~~Gv~vKd~~~gLvDF 83 (120)
T PF09969_consen 63 IDEIEELGVEVKDLDPGLVDF 83 (120)
T ss_pred HHHHHHcCcEEeCCcceeEeC
Confidence 444555799999998 55543
No 59
>PF12781 AAA_9: ATP-binding dynein motor region D5; PDB: 3VKG_A 3VKH_C 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A.
Probab=28.96 E-value=88 Score=25.31 Aligned_cols=27 Identities=30% Similarity=0.338 Sum_probs=16.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy8928 14 RSELADLVKKKAEIAETLASLERQIYA 40 (134)
Q Consensus 14 k~eL~~ll~kk~~le~~l~~LE~qIy~ 40 (134)
.++-.++++...+...+|..||++|-.
T Consensus 172 e~~r~~L~~~~~~~k~~L~~lEd~lL~ 198 (228)
T PF12781_consen 172 EEQRNELLKEIAENKIQLKELEDQLLE 198 (228)
T ss_dssp HHHHHHHHHHHHHCCHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334445555556666667777777766
No 60
>PF12761 End3: Actin cytoskeleton-regulatory complex protein END3
Probab=28.82 E-value=1.6e+02 Score=24.10 Aligned_cols=14 Identities=36% Similarity=0.589 Sum_probs=7.2
Q ss_pred hhhHHHHhhhhhhc
Q psy8928 55 ETLASLERQIYAFE 68 (134)
Q Consensus 55 e~~~~~e~qI~~~E 68 (134)
+++..||.|+--+|
T Consensus 167 ~Dl~~ie~QV~~Le 180 (195)
T PF12761_consen 167 EDLDTIEEQVDGLE 180 (195)
T ss_pred HHHHHHHHHHHHHH
Confidence 34455555555454
No 61
>COG4942 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]
Probab=28.78 E-value=1.5e+02 Score=26.84 Aligned_cols=29 Identities=34% Similarity=0.449 Sum_probs=17.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy8928 12 NVRSELADLVKKKAEIAETLASLERQIYA 40 (134)
Q Consensus 12 ~lk~eL~~ll~kk~~le~~l~~LE~qIy~ 40 (134)
..++++.++-++-+...+++++||++|-+
T Consensus 42 q~q~ei~~~~~~i~~~~~~~~kL~~~lk~ 70 (420)
T COG4942 42 QIQKEIAALEKKIREQQDQRAKLEKQLKS 70 (420)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34555555555556666666666666655
No 62
>PRK01885 greB transcription elongation factor GreB; Reviewed
Probab=28.63 E-value=1.2e+02 Score=23.38 Aligned_cols=27 Identities=15% Similarity=0.258 Sum_probs=20.0
Q ss_pred CchHHHHHHHHHHHH-HHHHHHHHHHHH
Q psy8928 8 APAMNVRSELADLVK-KKAEIAETLASL 34 (134)
Q Consensus 8 ~~y~~lk~eL~~ll~-kk~~le~~l~~L 34 (134)
.-|.+|++||..|.. +|.++-+.+..-
T Consensus 10 ~g~~~L~~EL~~L~~~~r~e~~~~i~~A 37 (157)
T PRK01885 10 EGYARLKQELDYLWREERPEVTQKVSWA 37 (157)
T ss_pred HHHHHHHHHHHHHHhhhhHHHHHHHHHH
Confidence 458899999999976 667766665543
No 63
>PRK13182 racA polar chromosome segregation protein; Reviewed
Probab=28.59 E-value=74 Score=25.12 Aligned_cols=27 Identities=30% Similarity=0.530 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHH---HHHHHHHhhcccc
Q psy8928 19 DLVKKKAEIAETLA---SLERQIYAFEGSY 45 (134)
Q Consensus 19 ~ll~kk~~le~~l~---~LE~qIy~~Et~Y 45 (134)
+||+.|++||+-+. +||+.|-..|-.|
T Consensus 119 qll~hr~e~ee~~~~l~~le~~~~~~e~~~ 148 (175)
T PRK13182 119 QLLQHRREMEEMLERLQKLEARLKKLEPIY 148 (175)
T ss_pred HHHHhHHHHHHHHHHHHHHHHHHHHHHhhc
No 64
>PF11068 YlqD: YlqD protein; InterPro: IPR021297 This bacterial family of proteins has no known function. ; PDB: 4DCI_C.
Probab=28.45 E-value=1.3e+02 Score=22.74 Aligned_cols=34 Identities=21% Similarity=0.196 Sum_probs=25.8
Q ss_pred HHHHHHH-HHHHHHHHHHHHHHHHHHHHHHhhccc
Q psy8928 11 MNVRSEL-ADLVKKKAEIAETLASLERQIYAFEGS 44 (134)
Q Consensus 11 ~~lk~eL-~~ll~kk~~le~~l~~LE~qIy~~Et~ 44 (134)
+.+|.+| +++-.....++.+|.+||-|.-..+.+
T Consensus 15 e~~K~~l~~~l~~~i~~~d~el~QLefq~kr~~~e 49 (131)
T PF11068_consen 15 EKWKEELLQELQEQIQQLDQELQQLEFQGKRMIKE 49 (131)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5677776 667778889999999999887775433
No 65
>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=28.25 E-value=1.6e+02 Score=19.45 Aligned_cols=31 Identities=13% Similarity=0.216 Sum_probs=26.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy8928 10 AMNVRSELADLVKKKAEIAETLASLERQIYA 40 (134)
Q Consensus 10 y~~lk~eL~~ll~kk~~le~~l~~LE~qIy~ 40 (134)
+-.+..++.++.++..+++.+.+.|+.+|..
T Consensus 26 ~~~~~~~~~~~~~~~~~l~~en~~L~~ei~~ 56 (85)
T TIGR02209 26 TRQLNNELQKLQLEIDKLQKEWRDLQLEVAE 56 (85)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4467778888888888999999999999887
No 66
>PF11853 DUF3373: Protein of unknown function (DUF3373); InterPro: IPR021803 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 472 to 574 amino acids in length.
Probab=28.06 E-value=40 Score=30.98 Aligned_cols=13 Identities=23% Similarity=0.340 Sum_probs=5.3
Q ss_pred HHHHHHHHHHHHH
Q psy8928 26 EIAETLASLERQI 38 (134)
Q Consensus 26 ~le~~l~~LE~qI 38 (134)
+|.++|+.|++|+
T Consensus 35 ~L~kql~~Lk~q~ 47 (489)
T PF11853_consen 35 ALKKQLEELKAQQ 47 (489)
T ss_pred HHHHHHHHHHHhh
Confidence 3344444444443
No 67
>PLN02678 seryl-tRNA synthetase
Probab=27.81 E-value=1.3e+02 Score=27.23 Aligned_cols=34 Identities=18% Similarity=0.159 Sum_probs=27.6
Q ss_pred CCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy8928 7 GAPAMNVRSELADLVKKKAEIAETLASLERQIYA 40 (134)
Q Consensus 7 ~~~y~~lk~eL~~ll~kk~~le~~l~~LE~qIy~ 40 (134)
....++|+++.+++-++-..|+++++.+|++|+.
T Consensus 70 ~~~~~~l~~~~~~Lk~ei~~le~~~~~~~~~l~~ 103 (448)
T PLN02678 70 KEDATELIAETKELKKEITEKEAEVQEAKAALDA 103 (448)
T ss_pred CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456778888888888888888888888888887
No 68
>PF05384 DegS: Sensor protein DegS; InterPro: IPR008595 This is a group of Bacillus DegS proteins. The DegS-DegU two-component regulatory system of Bacillus subtilis controls various processes that characterise the transition from the exponential to the stationary growth phase, including the induction of extracellular degradative enzymes, expression of late competence genes and down-regulation of the sigma D regulon []. The entry also contains one sequence Q8R9D3 from SWISSPROT from Thermoanaerobacter tengcongensis which is described as a sensory transduction histidine kinase.; GO: 0016301 kinase activity, 0007165 signal transduction
Probab=27.81 E-value=1.2e+02 Score=23.75 Aligned_cols=30 Identities=27% Similarity=0.379 Sum_probs=26.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q psy8928 13 VRSELADLVKKKAEIAETLASLERQIYAFE 42 (134)
Q Consensus 13 lk~eL~~ll~kk~~le~~l~~LE~qIy~~E 42 (134)
+|.+-++|-.+|..|+..|..|+..|-.-|
T Consensus 96 ~re~E~qLr~rRD~LErrl~~l~~tierAE 125 (159)
T PF05384_consen 96 LREREKQLRERRDELERRLRNLEETIERAE 125 (159)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 567788999999999999999999998743
No 69
>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional
Probab=27.74 E-value=87 Score=28.81 Aligned_cols=28 Identities=25% Similarity=0.317 Sum_probs=11.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy8928 13 VRSELADLVKKKAEIAETLASLERQIYA 40 (134)
Q Consensus 13 lk~eL~~ll~kk~~le~~l~~LE~qIy~ 40 (134)
||+++..+-+++..++.+|..||.+|-.
T Consensus 88 LrqElq~~saq~~dle~KIkeLEaE~~~ 115 (475)
T PRK13729 88 IRRELDVLNKQRGDDQRRIEKLGQDNAA 115 (475)
T ss_pred HHHHHHHHhhhhhhHHHHHHHHHHHHHH
Confidence 3333333333344444444444444333
No 70
>PF13093 FTA4: Kinetochore complex Fta4 of Sim4 subunit, or CENP-50
Probab=27.67 E-value=1.1e+02 Score=24.76 Aligned_cols=28 Identities=21% Similarity=0.369 Sum_probs=24.0
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy8928 9 PAMNVRSELADLVKKKAEIAETLASLER 36 (134)
Q Consensus 9 ~y~~lk~eL~~ll~kk~~le~~l~~LE~ 36 (134)
.|..|+..|.++-++|+.+...++.|.+
T Consensus 143 rY~~l~~~L~~l~~~r~~~~~rl~~lr~ 170 (213)
T PF13093_consen 143 RYAELRERLIELSEQRQYLQQRLEYLRR 170 (213)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4899999999999999999988887643
No 71
>PF12848 ABC_tran_2: ABC transporter
Probab=27.26 E-value=1.3e+02 Score=19.72 Aligned_cols=38 Identities=16% Similarity=0.193 Sum_probs=29.1
Q ss_pred CCCCCchHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHhh
Q psy8928 4 KGGGAPAMNVRSEL-ADLVKKKAEIAETLASLERQIYAF 41 (134)
Q Consensus 4 ~~~~~~y~~lk~eL-~~ll~kk~~le~~l~~LE~qIy~~ 41 (134)
.||-..|...|.+. ..........+++++.|++.|-.+
T Consensus 12 ~GnY~~y~~~k~~~~~~~~~~~~~~~k~~~~l~~~i~r~ 50 (85)
T PF12848_consen 12 PGNYSDYLEQKEERRERQERQYEKQQKEIKRLEEFIRRF 50 (85)
T ss_pred CCCHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH
Confidence 46667788887744 666677788889999999998884
No 72
>PHA03155 hypothetical protein; Provisional
Probab=27.13 E-value=1.5e+02 Score=22.53 Aligned_cols=32 Identities=22% Similarity=0.243 Sum_probs=27.7
Q ss_pred CCCCCCCCchHHHHHHHHHHHHHHHHHHHHHH
Q psy8928 1 MSSKGGGAPAMNVRSELADLVKKKAEIAETLA 32 (134)
Q Consensus 1 ~~~~~~~~~y~~lk~eL~~ll~kk~~le~~l~ 32 (134)
|+|+...+-+|+|-++|..|--.=+.|.+.|.
T Consensus 1 mas~~~~~tvEeLaaeL~kL~~ENK~LKkkl~ 32 (115)
T PHA03155 1 MASGRACADVEELEKELQKLKIENKALKKKLL 32 (115)
T ss_pred CCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 88999999999999999998877777777764
No 73
>PF14257 DUF4349: Domain of unknown function (DUF4349)
Probab=26.57 E-value=1.4e+02 Score=24.14 Aligned_cols=25 Identities=12% Similarity=0.233 Sum_probs=12.4
Q ss_pred CCCCCCchHHHHHHHHHHHHHHHHH
Q psy8928 3 SKGGGAPAMNVRSELADLVKKKAEI 27 (134)
Q Consensus 3 ~~~~~~~y~~lk~eL~~ll~kk~~l 27 (134)
+.+=+.+|.++...|+.+-+.+..|
T Consensus 127 ~~DvT~~y~D~~arl~~l~~~~~rl 151 (262)
T PF14257_consen 127 SEDVTEQYVDLEARLKNLEAEEERL 151 (262)
T ss_pred ccchHHHHHHHHHHHHHHHHHHHHH
Confidence 3444556666555555444444433
No 74
>PRK05431 seryl-tRNA synthetase; Provisional
Probab=26.50 E-value=1.4e+02 Score=26.38 Aligned_cols=32 Identities=19% Similarity=0.264 Sum_probs=23.1
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy8928 9 PAMNVRSELADLVKKKAEIAETLASLERQIYA 40 (134)
Q Consensus 9 ~y~~lk~eL~~ll~kk~~le~~l~~LE~qIy~ 40 (134)
..+.|+.+.+++-++-+.+++++..+|++|..
T Consensus 67 ~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~ 98 (425)
T PRK05431 67 DAEALIAEVKELKEEIKALEAELDELEAELEE 98 (425)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44567777777777777777777777777776
No 75
>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=26.32 E-value=2.8e+02 Score=20.89 Aligned_cols=33 Identities=21% Similarity=0.361 Sum_probs=16.6
Q ss_pred CchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy8928 8 APAMNVRSELADLVKKKAEIAETLASLERQIYA 40 (134)
Q Consensus 8 ~~y~~lk~eL~~ll~kk~~le~~l~~LE~qIy~ 40 (134)
.+...+..++.++-.+=+.|..+...|+.++-.
T Consensus 72 eel~~ld~ei~~L~~el~~l~~~~k~l~~eL~~ 104 (169)
T PF07106_consen 72 EELAELDAEIKELREELAELKKEVKSLEAELAS 104 (169)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444455555555555555555555555444
No 76
>KOG3564|consensus
Probab=26.13 E-value=98 Score=29.09 Aligned_cols=28 Identities=21% Similarity=0.315 Sum_probs=25.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy8928 13 VRSELADLVKKKAEIAETLASLERQIYA 40 (134)
Q Consensus 13 lk~eL~~ll~kk~~le~~l~~LE~qIy~ 40 (134)
.++.+...+++|+.++-+++.+|.+|-.
T Consensus 75 a~~~vda~ik~rr~ae~d~~~~E~~i~~ 102 (604)
T KOG3564|consen 75 ARNQVDAEIKRRRRAEADCEKLETQIQL 102 (604)
T ss_pred HHHHHHHHHHHHHHHhhhHHHHHHHHHH
Confidence 5678889999999999999999999876
No 77
>TIGR03042 PS_II_psbQ_bact photosystem II protein PsbQ. This protein through the member sll1638 from Synechocystis sp. PCC 6803, was shown to be part of the cyanobacteria photosystem II. It is homologous to (but quite diverged from) the chloroplast PsbQ protein, called oxygen-evolving enhancer protein 3 (OEE3). We designate this cyanobacteria protein PsbQ by homology.
Probab=25.63 E-value=41 Score=26.07 Aligned_cols=14 Identities=29% Similarity=0.600 Sum_probs=12.4
Q ss_pred ccccceeccchhhc
Q psy8928 77 LYGNVIRGWDRYLS 90 (134)
Q Consensus 77 ~~GNIIkGfDgylk 90 (134)
.|+|++.+||.|+.
T Consensus 126 ~Y~~av~~~dafl~ 139 (142)
T TIGR03042 126 AYQKAAADFDAYLD 139 (142)
T ss_pred HHHHHHHHHHHHHh
Confidence 48999999999985
No 78
>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.
Probab=25.63 E-value=1.4e+02 Score=24.57 Aligned_cols=31 Identities=10% Similarity=0.181 Sum_probs=12.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy8928 10 AMNVRSELADLVKKKAEIAETLASLERQIYA 40 (134)
Q Consensus 10 y~~lk~eL~~ll~kk~~le~~l~~LE~qIy~ 40 (134)
|++++.+|..-+.-=+..+.-|..+++++-.
T Consensus 13 lek~k~~i~~e~~~~e~ee~~L~e~~kE~~~ 43 (230)
T PF10146_consen 13 LEKLKNEILQEVESLENEEKCLEEYRKEMEE 43 (230)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444433333333333333333333333
No 79
>PF09304 Cortex-I_coil: Cortexillin I, coiled coil; InterPro: IPR015383 This domain is predominantly found in the actin-bundling protein cortexillin I from Dictyostelium discoideum (Slime mold). The domain has a structure consisting of an 18-heptad-repeat alpha-helical coiled-coil, and is a prerequisite for the assembly of Cortexillin I []. ; PDB: 1D7M_A.
Probab=25.58 E-value=2.9e+02 Score=20.64 Aligned_cols=28 Identities=25% Similarity=0.387 Sum_probs=18.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy8928 11 MNVRSELADLVKKKAEIAETLASLERQI 38 (134)
Q Consensus 11 ~~lk~eL~~ll~kk~~le~~l~~LE~qI 38 (134)
+..|-.-.+|++.|.+|...+..|+.|-
T Consensus 26 E~~K~S~~eL~kqkd~L~~~l~~L~~q~ 53 (107)
T PF09304_consen 26 EDEKTSQGELAKQKDQLRNALQSLQAQN 53 (107)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHhhHHHHHHhHHHHHHHHHHHHHHH
Confidence 4455555566777777777777776663
No 80
>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=25.43 E-value=1.9e+02 Score=20.66 Aligned_cols=29 Identities=17% Similarity=0.239 Sum_probs=15.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy8928 11 MNVRSELADLVKKKAEIAETLASLERQIY 39 (134)
Q Consensus 11 ~~lk~eL~~ll~kk~~le~~l~~LE~qIy 39 (134)
++|++++...-++.++.+..+..|+.++-
T Consensus 4 e~l~~e~e~~~~kl~q~e~~~k~L~nr~k 32 (86)
T PF12958_consen 4 EELQAEIEKAEKKLEQAEHKIKQLENRKK 32 (86)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44555555555555555555555555443
No 81
>PF07716 bZIP_2: Basic region leucine zipper; InterPro: IPR011700 The basic-leucine zipper (bZIP) transcription factors [, ] of eukaryotes are proteins that contain a basic region mediating sequence-specific DNA-binding, followed by a leucine zipper region (see IPR002158 from INTERPRO), which is required for dimerization.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0046983 protein dimerization activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1NWQ_A 1H89_B 1H88_A 1GTW_B 2E43_A 1IO4_A 1GU4_B 2E42_A 1H8A_B 1GU5_B ....
Probab=25.40 E-value=1.8e+02 Score=18.14 Aligned_cols=24 Identities=21% Similarity=0.267 Sum_probs=10.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHh
Q psy8928 17 LADLVKKKAEIAETLASLERQIYA 40 (134)
Q Consensus 17 L~~ll~kk~~le~~l~~LE~qIy~ 40 (134)
..++-.+-..|+.+...|+++|-.
T Consensus 27 ~~~le~~~~~L~~en~~L~~~i~~ 50 (54)
T PF07716_consen 27 EEELEQEVQELEEENEQLRQEIAQ 50 (54)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444444444444444444443
No 82
>PF10211 Ax_dynein_light: Axonemal dynein light chain; InterPro: IPR019347 Axonemal dynein light chain proteins play a dynamic role in flagellar and cilial motility. Eukaryotic cilia and flagella are complex organelles consisting of a core structure, the axoneme, which is composed of nine microtubule doublets forming a cylinder that surrounds a pair of central singlet microtubules. This ultra-structural arrangement seems to be one of the most stable micro-tubular assemblies known and is responsible for the flagellar and ciliary movement of a large number of organisms ranging from protozoan to mammals. This light chain interacts directly with the N-terminal half of the heavy chains [].
Probab=25.00 E-value=2.2e+02 Score=22.41 Aligned_cols=18 Identities=22% Similarity=0.156 Sum_probs=11.2
Q ss_pred hHHHHhhhhhhccccccc
Q psy8928 57 LASLERQIYAFEGSYLED 74 (134)
Q Consensus 57 ~~~~e~qI~~~E~sYLee 74 (134)
....+.+.+..|..||..
T Consensus 160 ~~~~~~k~~~~ei~~lk~ 177 (189)
T PF10211_consen 160 LRQEEEKKHQEEIDFLKK 177 (189)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 344556667777777654
No 83
>COG1382 GimC Prefoldin, chaperonin cofactor [Posttranslational modification, protein turnover, chaperones]
Probab=24.75 E-value=1.6e+02 Score=22.21 Aligned_cols=33 Identities=15% Similarity=0.353 Sum_probs=26.3
Q ss_pred CchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy8928 8 APAMNVRSELADLVKKKAEIAETLASLERQIYA 40 (134)
Q Consensus 8 ~~y~~lk~eL~~ll~kk~~le~~l~~LE~qIy~ 40 (134)
+.|..|..+|..++..|.+++-+|..++.-+-.
T Consensus 13 ~q~QqLq~ql~~~~~qk~~le~qL~E~~~al~E 45 (119)
T COG1382 13 AQLQQLQQQLQKVILQKQQLEAQLKEIEKALEE 45 (119)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456778889999999999999988877765544
No 84
>TIGR00414 serS seryl-tRNA synthetase. This model represents the seryl-tRNA synthetase found in most organisms. This protein is a class II tRNA synthetase, and is recognized by the pfam model tRNA-synt_2b. The seryl-tRNA synthetases of two archaeal species, Methanococcus jannaschii and Methanobacterium thermoautotrophicum, differ considerably and are included in a different model.
Probab=24.64 E-value=1.6e+02 Score=25.89 Aligned_cols=31 Identities=23% Similarity=0.425 Sum_probs=23.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy8928 10 AMNVRSELADLVKKKAEIAETLASLERQIYA 40 (134)
Q Consensus 10 y~~lk~eL~~ll~kk~~le~~l~~LE~qIy~ 40 (134)
.+.++.+.+++-++-+.|+.++..+|+++..
T Consensus 71 ~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~ 101 (418)
T TIGR00414 71 IEEIKKELKELKEELTELSAALKALEAELQD 101 (418)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5677777777777777777777777777776
No 85
>PF11690 DUF3287: Protein of unknown function (DUF3287); InterPro: IPR021704 This eukaryotic family of proteins has no known function.
Probab=24.48 E-value=1.1e+02 Score=22.89 Aligned_cols=23 Identities=17% Similarity=0.407 Sum_probs=11.6
Q ss_pred HHHHHHHHHHHHHHHHH--HHHHHh
Q psy8928 18 ADLVKKKAEIAETLASL--ERQIYA 40 (134)
Q Consensus 18 ~~ll~kk~~le~~l~~L--E~qIy~ 40 (134)
+.+=.+|+.|.+.+..| |..+..
T Consensus 52 ~~~~~e~r~L~kKi~~l~veRkmr~ 76 (109)
T PF11690_consen 52 QRYCDERRKLRKKIQDLRVERKMRA 76 (109)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 33334455555555555 555555
No 86
>KOG0996|consensus
Probab=24.47 E-value=1.4e+02 Score=30.79 Aligned_cols=50 Identities=28% Similarity=0.345 Sum_probs=31.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhccccccccccccchhhHHHHhhhhhhcccc
Q psy8928 20 LVKKKAEIAETLASLERQIYAFEGSYLEDTQLYGNETLASLERQIYAFEGSY 71 (134)
Q Consensus 20 ll~kk~~le~~l~~LE~qIy~~Et~YL~~t~~~g~e~~~~~e~qI~~~E~sY 71 (134)
+...-+.+...++.|+.||...|..++..++ -..++..++++|-+++..|
T Consensus 825 ~~~~~k~~~~~~~~l~~~i~~~E~~~~k~~~--d~~~l~~~~~~ie~l~kE~ 874 (1293)
T KOG0996|consen 825 LTASVKRLAELIEYLESQIAELEAAVLKKVV--DKKRLKELEEQIEELKKEV 874 (1293)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhccC--cHHHHHHHHHHHHHHHHHH
Confidence 3333334444555677777777777666544 3567777788888777764
No 87
>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=24.31 E-value=1.5e+02 Score=22.78 Aligned_cols=15 Identities=13% Similarity=0.463 Sum_probs=7.9
Q ss_pred HHHHHHHHHHHHHHh
Q psy8928 26 EIAETLASLERQIYA 40 (134)
Q Consensus 26 ~le~~l~~LE~qIy~ 40 (134)
.+++++..|+++|-.
T Consensus 158 ~~~~ei~~lk~el~~ 172 (192)
T PF05529_consen 158 KLSEEIEKLKKELEK 172 (192)
T ss_pred hhHHHHHHHHHHHHH
Confidence 344555555555555
No 88
>PF11180 DUF2968: Protein of unknown function (DUF2968); InterPro: IPR021350 This family of proteins has no known function.
Probab=23.73 E-value=1.7e+02 Score=23.91 Aligned_cols=31 Identities=23% Similarity=0.328 Sum_probs=27.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy8928 11 MNVRSELADLVKKKAEIAETLASLERQIYAF 41 (134)
Q Consensus 11 ~~lk~eL~~ll~kk~~le~~l~~LE~qIy~~ 41 (134)
...+++...|-..|+....+|+.|+.+|..+
T Consensus 150 ~q~r~ea~aL~~e~~aaqaQL~~lQ~qv~~L 180 (192)
T PF11180_consen 150 QQARQEAQALEAERRAAQAQLRQLQRQVRQL 180 (192)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3477888999999999999999999999883
No 89
>cd07666 BAR_SNX7 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 7. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. The specific function of SNX7 is still unknown. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=23.71 E-value=88 Score=26.05 Aligned_cols=31 Identities=16% Similarity=0.213 Sum_probs=16.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy8928 10 AMNVRSELADLVKKKAEIAETLASLERQIYA 40 (134)
Q Consensus 10 y~~lk~eL~~ll~kk~~le~~l~~LE~qIy~ 40 (134)
|.-+=.-||..+.+|-+++-+|..+++....
T Consensus 144 yv~y~~slK~vlk~R~~~Q~~le~k~e~l~k 174 (243)
T cd07666 144 YVLYSETLMGVIKRRDQIQAELDSKVEALAN 174 (243)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4444445566666666666666555554444
No 90
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=23.52 E-value=1.6e+02 Score=24.74 Aligned_cols=33 Identities=21% Similarity=0.267 Sum_probs=25.8
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy8928 9 PAMNVRSELADLVKKKAEIAETLASLERQIYAF 41 (134)
Q Consensus 9 ~y~~lk~eL~~ll~kk~~le~~l~~LE~qIy~~ 41 (134)
.+++|+.+++.+......+++++..++++|..+
T Consensus 7 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 39 (364)
T TIGR01242 7 RIRKLEDEKRSLEKEKIRLERELERLRSEIERL 39 (364)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 467778888888888888888888888888763
No 91
>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=23.42 E-value=1.4e+02 Score=26.60 Aligned_cols=33 Identities=15% Similarity=0.239 Sum_probs=23.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q psy8928 10 AMNVRSELADLVKKKAEIAETLASLERQIYAFE 42 (134)
Q Consensus 10 y~~lk~eL~~ll~kk~~le~~l~~LE~qIy~~E 42 (134)
...++.++.++-.+.++++++|+.|++++-...
T Consensus 140 ~~~~~~~~~~~~~~~~~~~~~l~~l~~~l~~l~ 172 (525)
T TIGR02231 140 IERLLTEDREAERRIRELEKQLSELQNELNALL 172 (525)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 345666677777777788888888888876643
No 92
>PRK09458 pspB phage shock protein B; Provisional
Probab=23.35 E-value=2.6e+02 Score=19.60 Aligned_cols=30 Identities=23% Similarity=0.351 Sum_probs=24.7
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy8928 9 PAMNVRSELADLVKKKAEIAETLASLERQI 38 (134)
Q Consensus 9 ~y~~lk~eL~~ll~kk~~le~~l~~LE~qI 38 (134)
-.++-.+.|.+|..+=+.|++.+..||+=+
T Consensus 36 Ls~~d~~~L~~L~~~A~rm~~RI~tLE~IL 65 (75)
T PRK09458 36 LSQEEQQRLAQLTEKAERMRERIQALEAIL 65 (75)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345567789999999999999999998644
No 93
>KOG4438|consensus
Probab=23.26 E-value=1.7e+02 Score=26.80 Aligned_cols=78 Identities=14% Similarity=0.224 Sum_probs=60.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccccccccchhhHHHHhhhhhhcccccccCCccccceeccchhh
Q psy8928 10 AMNVRSELADLVKKKAEIAETLASLERQIYAFEGSYLEDTQLYGNETLASLERQIYAFEGSYLEDTQLYGNVIRGWDRYL 89 (134)
Q Consensus 10 y~~lk~eL~~ll~kk~~le~~l~~LE~qIy~~Et~YL~~t~~~g~e~~~~~e~qI~~~E~sYLeeT~~~GNIIkGfDgyl 89 (134)
|...-.++..++..|.++++....+..++-++ .+-+...-+.++.+|.+|.+++.+-++++...--+.--|+.+-
T Consensus 133 ~~~~~~q~eslle~~~q~da~~qq~~~ele~~-----d~~~~~d~ee~kqlEe~ieeL~qsl~kd~~~~~~l~~e~n~~k 207 (446)
T KOG4438|consen 133 YRPFIQQLESLLELRKQLDAKYQQALKELERF-----DEDVEEDEEEVKQLEENIEELNQSLLKDFNQQMSLLAEYNKMK 207 (446)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh-----cccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 45555677888899999999988888888884 4445556778999999999999999988886555666777776
Q ss_pred cCC
Q psy8928 90 SSN 92 (134)
Q Consensus 90 k~~ 92 (134)
+++
T Consensus 208 ~s~ 210 (446)
T KOG4438|consen 208 KSS 210 (446)
T ss_pred Hhh
Confidence 654
No 94
>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=23.17 E-value=2.1e+02 Score=18.23 Aligned_cols=30 Identities=17% Similarity=0.396 Sum_probs=16.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy8928 11 MNVRSELADLVKKKAEIAETLASLERQIYA 40 (134)
Q Consensus 11 ~~lk~eL~~ll~kk~~le~~l~~LE~qIy~ 40 (134)
+.|...+..|...-..|..++..|+.++..
T Consensus 29 ~~Le~~~~~L~~en~~L~~~~~~L~~~~~~ 58 (64)
T PF00170_consen 29 EELEEKVEELESENEELKKELEQLKKEIQS 58 (64)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344555555555555555555555555544
No 95
>PF14988 DUF4515: Domain of unknown function (DUF4515)
Probab=23.13 E-value=1.7e+02 Score=23.62 Aligned_cols=29 Identities=17% Similarity=0.365 Sum_probs=21.7
Q ss_pred HHHHHH---HHHHHHHHHHHHHHHHHHHHHHh
Q psy8928 12 NVRSEL---ADLVKKKAEIAETLASLERQIYA 40 (134)
Q Consensus 12 ~lk~eL---~~ll~kk~~le~~l~~LE~qIy~ 40 (134)
.++.+| ++.-..|..++.+|..|+.++..
T Consensus 65 ~l~~eLq~l~~~~~~k~~qe~eI~~Le~e~~~ 96 (206)
T PF14988_consen 65 KLQQELQALKEFRRLKEQQEREIQTLEEELEK 96 (206)
T ss_pred HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444 55567788889999999999887
No 96
>PF10267 Tmemb_cc2: Predicted transmembrane and coiled-coil 2 protein; InterPro: IPR019394 This family of transmembrane coiled-coil containing proteins is conserved from worms to humans. Its function is unknown.
Probab=23.11 E-value=1.8e+02 Score=25.99 Aligned_cols=32 Identities=16% Similarity=0.307 Sum_probs=25.1
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy8928 9 PAMNVRSELADLVKKKAEIAETLASLERQIYA 40 (134)
Q Consensus 9 ~y~~lk~eL~~ll~kk~~le~~l~~LE~qIy~ 40 (134)
....+..+|.++-.....|+.+++.|..++..
T Consensus 213 ~l~~~~~el~eik~~~~~L~~~~e~Lk~~~~~ 244 (395)
T PF10267_consen 213 GLQKILEELREIKESQSRLEESIEKLKEQYQR 244 (395)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34567788888888888899999988887554
No 97
>smart00338 BRLZ basic region leucin zipper.
Probab=23.06 E-value=2.1e+02 Score=18.22 Aligned_cols=28 Identities=11% Similarity=0.318 Sum_probs=14.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy8928 13 VRSELADLVKKKAEIAETLASLERQIYA 40 (134)
Q Consensus 13 lk~eL~~ll~kk~~le~~l~~LE~qIy~ 40 (134)
|..++..|...-..|..+++.|+.+|..
T Consensus 31 Le~~~~~L~~en~~L~~~~~~l~~e~~~ 58 (65)
T smart00338 31 LERKVEQLEAENERLKKEIERLRRELEK 58 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4445555555555555555555555544
No 98
>KOG2577|consensus
Probab=23.06 E-value=1.5e+02 Score=26.39 Aligned_cols=37 Identities=11% Similarity=0.247 Sum_probs=31.1
Q ss_pred CCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy8928 4 KGGGAPAMNVRSELADLVKKKAEIAETLASLERQIYA 40 (134)
Q Consensus 4 ~~~~~~y~~lk~eL~~ll~kk~~le~~l~~LE~qIy~ 40 (134)
.+....+..|++++.+|-+..+.||+.+..+.++|..
T Consensus 140 ~~~~e~~~~l~~e~~~L~~~E~~LD~~i~~~q~~L~~ 176 (354)
T KOG2577|consen 140 GGVPERLNGLEAEVEDLSQEEDDLDQLIRDCQQNLRL 176 (354)
T ss_pred cccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445667779999999999999999999999888876
No 99
>smart00787 Spc7 Spc7 kinetochore protein. This domain is found in cell division proteins which are required for kinetochore-spindle association.
Probab=22.97 E-value=2.1e+02 Score=24.56 Aligned_cols=27 Identities=19% Similarity=0.159 Sum_probs=15.4
Q ss_pred chhhHHHHhhhhhhcccccccCCccccceeccchh
Q psy8928 54 NETLASLERQIYAFEGSYLEDTQLYGNVIRGWDRY 88 (134)
Q Consensus 54 ~e~~~~~e~qI~~~E~sYLeeT~~~GNIIkGfDgy 88 (134)
......++.+|-+.|.. =+..|||+..
T Consensus 245 ~~~k~e~~~~I~~ae~~--------~~~~r~~t~~ 271 (312)
T smart00787 245 TNKKSELNTEIAEAEKK--------LEQCRGFTFK 271 (312)
T ss_pred HHHHHHHHHHHHHHHHH--------HHhcCCCCHH
Confidence 44455566666666553 3455677655
No 100
>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=22.88 E-value=2e+02 Score=19.41 Aligned_cols=33 Identities=15% Similarity=0.226 Sum_probs=24.5
Q ss_pred CchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy8928 8 APAMNVRSELADLVKKKAEIAETLASLERQIYA 40 (134)
Q Consensus 8 ~~y~~lk~eL~~ll~kk~~le~~l~~LE~qIy~ 40 (134)
..|..++.+|..+..++..|+.++..++.-+-.
T Consensus 5 ~~~~~l~~~l~~~~~q~~~l~~~~~~~~~~~~e 37 (106)
T PF01920_consen 5 NKFQELNQQLQQLEQQIQQLERQLRELELTLEE 37 (106)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 357778888888888888888888777655444
No 101
>COG5317 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.66 E-value=2.3e+02 Score=22.74 Aligned_cols=36 Identities=19% Similarity=0.374 Sum_probs=33.6
Q ss_pred CCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy8928 5 GGGAPAMNVRSELADLVKKKAEIAETLASLERQIYA 40 (134)
Q Consensus 5 ~~~~~y~~lk~eL~~ll~kk~~le~~l~~LE~qIy~ 40 (134)
...|.+++|-..+.+|+++--.|....+.|..+||.
T Consensus 111 ~~apgwneLP~~f~dLveRSlRLq~rVr~lDreiY~ 146 (175)
T COG5317 111 RDAPGWNELPESFRDLVERSLRLQARVRRLDREIYG 146 (175)
T ss_pred cCCcchhhchHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 567788999999999999999999999999999998
No 102
>KOG0549|consensus
Probab=22.64 E-value=31 Score=28.08 Aligned_cols=15 Identities=47% Similarity=0.858 Sum_probs=12.4
Q ss_pred cccceeccchhhcCC
Q psy8928 78 YGNVIRGWDRYLSSN 92 (134)
Q Consensus 78 ~GNIIkGfDgylk~~ 92 (134)
.|.||||||-=+...
T Consensus 121 ~gqVIkG~Dqgl~gM 135 (188)
T KOG0549|consen 121 TGQVIKGWDQGLLGM 135 (188)
T ss_pred CCceeccHhHHhhhh
Confidence 589999999887753
No 103
>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional
Probab=22.60 E-value=1.8e+02 Score=26.80 Aligned_cols=22 Identities=9% Similarity=0.285 Sum_probs=10.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q psy8928 16 ELADLVKKKAEIAETLASLERQ 37 (134)
Q Consensus 16 eL~~ll~kk~~le~~l~~LE~q 37 (134)
.|.+.-.+-.+|+++|+.|.++
T Consensus 70 ALteqQ~kasELEKqLaaLrqE 91 (475)
T PRK13729 70 ATTEMQVTAAQMQKQYEEIRRE 91 (475)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444445555555554433
No 104
>PF03938 OmpH: Outer membrane protein (OmpH-like); InterPro: IPR005632 This entry includes outer membrane proteins such as OmpH (Skp) among others. OmpH (outer membrane protein H) is a major structural protein of the outer membrane. In Pasteurella multocida it acts as a channel-forming transmembrane porin []. Porins act as molecular sieves to allow the diffusion of small hydrophilic solutes through the outer membrane and also acts as a receptor for bacteriophages and bacteriocins. Porins are highly immunogenic and are conserved in bacterial families, making them attractive vaccine candidates []. The 17kDa protein (Skp, OmpH) of Escherichia coli is a homotrimeric periplasmic chaperone for newly synthesised outer-membrane proteins, the X-ray structure of which has been reported at resolutions of 2.35 A and 2.30 A [, ]. Three hairpin-shaped alpha-helical extensions reach out by approximately 60 A from a trimerisation domain, which is composed of three intersubunit beta-sheets that wind around a central axis. The alpha-helical extensions approach each other at their distal turns, resulting in a fold that resembles a 'three-pronged grasping forcep'. The overall shape of Skp is reminiscent of the cytosolic chaperone prefoldin (IPR009053 from INTERPRO), although it is based on a radically different topology. The peculiar architecture, with apparent plasticity of the prongs and distinct electrostatic and hydrophobic surface properties, supports the recently proposed biochemical mechanism of this chaperone: formation of a Skp(3)-Omp complex protects the outer membrane protein from aggregation during passage through the bacterial periplasm. The ability of Skp to prevent the aggregation of model substrates in vitro is independent of ATP. Skp can interact directly with membrane lipids and lipopolysaccharide. These interactions are needed for efficient Skp-assisted folding of membrane proteins [].; GO: 0051082 unfolded protein binding; PDB: 1SG2_C 1U2M_C.
Probab=22.12 E-value=2.6e+02 Score=20.36 Aligned_cols=52 Identities=12% Similarity=0.167 Sum_probs=24.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhccccccccccccchhhHHHHhhhhhhcc
Q psy8928 18 ADLVKKKAEIAETLASLERQIYAFEGSYLEDTQLYGNETLASLERQIYAFEG 69 (134)
Q Consensus 18 ~~ll~kk~~le~~l~~LE~qIy~~Et~YL~~t~~~g~e~~~~~e~qI~~~E~ 69 (134)
+++-.+...+.++|..+++++-.....|-..-.....+.....+++|...+.
T Consensus 39 ~~l~~~~~~~~~~l~~~~~el~~~~~~l~~~~~~ls~~~~~~~~~~l~~~~~ 90 (158)
T PF03938_consen 39 AKLQEKFKALQKELQAKQKELQKLQQKLQSQKATLSEEERQKRQQELQQKEQ 90 (158)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHTTS----SSHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHH
Confidence 3334445555666666666665544444444333344444555555544443
No 105
>PRK10636 putative ABC transporter ATP-binding protein; Provisional
Probab=21.90 E-value=1.9e+02 Score=26.63 Aligned_cols=24 Identities=21% Similarity=0.278 Sum_probs=16.3
Q ss_pred HHHHHHHHHHHHHHHHHHhhcccc
Q psy8928 22 KKKAEIAETLASLERQIYAFEGSY 45 (134)
Q Consensus 22 ~kk~~le~~l~~LE~qIy~~Et~Y 45 (134)
++-+.|+++++.||++|...|..-
T Consensus 563 ~~~~~~e~~i~~le~~~~~l~~~l 586 (638)
T PRK10636 563 KEIARLEKEMEKLNAQLAQAEEKL 586 (638)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHh
Confidence 333467888888888887766554
No 106
>PF10481 CENP-F_N: Cenp-F N-terminal domain; InterPro: IPR018463 Mitosin or centromere-associated protein-F (Cenp-F) is found bound across the centromere as one of the proteins of the outer layer of the kinetochore []. Most of the kinetochore/centromere functions appear to depend upon binding of the C-terminal part of the molecule, whereas the N-terminal part, here, may be a cytoplasmic player in controlling the function of microtubules and dynein [].
Probab=21.85 E-value=1.2e+02 Score=26.46 Aligned_cols=31 Identities=6% Similarity=0.214 Sum_probs=27.8
Q ss_pred CCchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy8928 7 GAPAMNVRSELADLVKKKAEIAETLASLERQ 37 (134)
Q Consensus 7 ~~~y~~lk~eL~~ll~kk~~le~~l~~LE~q 37 (134)
...|++|+.+...-+..|+.|+.++..|+..
T Consensus 161 ~sk~e~L~ekynkeveerkrle~e~k~lq~k 191 (307)
T PF10481_consen 161 DSKYEELQEKYNKEVEERKRLEAEVKALQAK 191 (307)
T ss_pred hhhHHHHHHHHHHHHHHHhhHHHHHHHHhcc
Confidence 3679999999999999999999999999843
No 107
>PRK05431 seryl-tRNA synthetase; Provisional
Probab=21.83 E-value=92 Score=27.51 Aligned_cols=28 Identities=21% Similarity=0.173 Sum_probs=14.4
Q ss_pred hhhHHHHhhhhhhcccccccCCccccce
Q psy8928 55 ETLASLERQIYAFEGSYLEDTQLYGNVI 82 (134)
Q Consensus 55 e~~~~~e~qI~~~E~sYLeeT~~~GNII 82 (134)
+.+..+++++...|....+.....+||+
T Consensus 80 ~~~~~~~~~~~~~~~~~~~~~~~iPN~~ 107 (425)
T PRK05431 80 EEIKALEAELDELEAELEELLLRIPNLP 107 (425)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhCCCCC
Confidence 3455555555555555444444445543
No 108
>TIGR02976 phageshock_pspB phage shock protein B. This model describes the PspB protein of the psp (phage shock protein) operon, as found in Escherichia coli and many related species. Expression of a phage protein called secretin protein IV, and a number of other stresses including ethanol, heat shock, and defects in protein secretion trigger sigma-54-dependent expression of the phage shock regulon. PspB is both a regulator and an effector protein of the phage shock response.
Probab=21.79 E-value=2.8e+02 Score=19.18 Aligned_cols=32 Identities=25% Similarity=0.337 Sum_probs=25.0
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy8928 9 PAMNVRSELADLVKKKAEIAETLASLERQIYA 40 (134)
Q Consensus 9 ~y~~lk~eL~~ll~kk~~le~~l~~LE~qIy~ 40 (134)
-..+..+.|.++..+=+.|++.+..||.=+-+
T Consensus 36 ls~~d~~~L~~L~~~a~rm~eRI~tLE~ILd~ 67 (75)
T TIGR02976 36 LSTDDQALLQELYAKADRLEERIDTLERILDA 67 (75)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcC
Confidence 45567788899999999999999999875433
No 109
>PF07851 TMPIT: TMPIT-like protein; InterPro: IPR012926 A number of members of this family are annotated as being transmembrane proteins induced by tumour necrosis factor alpha, but no literature was found to support this. ; GO: 0016021 integral to membrane
Probab=21.41 E-value=2e+02 Score=25.17 Aligned_cols=15 Identities=20% Similarity=0.485 Sum_probs=7.8
Q ss_pred HHhhhhhhcccccccC
Q psy8928 60 LERQIYAFEGSYLEDT 75 (134)
Q Consensus 60 ~e~qI~~~E~sYLeeT 75 (134)
.+.+++|.| +||-..
T Consensus 80 r~~~l~DmE-a~LPkk 94 (330)
T PF07851_consen 80 RRCQLFDME-AFLPKK 94 (330)
T ss_pred HHhhHHHHH-hhCCCC
Confidence 344566666 555333
No 110
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=21.21 E-value=1.3e+02 Score=21.61 Aligned_cols=16 Identities=25% Similarity=0.393 Sum_probs=6.7
Q ss_pred HHhhhhhhcc--cccccC
Q psy8928 60 LERQIYAFEG--SYLEDT 75 (134)
Q Consensus 60 ~e~qI~~~E~--sYLeeT 75 (134)
|+.+|..+.. .|+++.
T Consensus 53 L~~eI~~L~~~~dyiEe~ 70 (105)
T PRK00888 53 LFAEIDDLKGGQEAIEER 70 (105)
T ss_pred HHHHHHHhhCcHHHHHHH
Confidence 4444444433 344443
No 111
>KOG2397|consensus
Probab=21.17 E-value=1.6e+02 Score=27.28 Aligned_cols=51 Identities=25% Similarity=0.352 Sum_probs=39.1
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccccccccchhhHHHHhhhhhhcc
Q psy8928 9 PAMNVRSELADLVKKKAEIAETLASLERQIYAFEGSYLEDTQLYGNETLASLERQIYAFEG 69 (134)
Q Consensus 9 ~y~~lk~eL~~ll~kk~~le~~l~~LE~qIy~~Et~YL~~t~~~g~e~~~~~e~qI~~~E~ 69 (134)
....+|++|.+...+.+.|+++...||+++-- .-|......+.-|-|+.|.
T Consensus 338 ~a~~ar~~~de~~~~~k~l~~~i~~l~~~~~~----------~~g~~e~~~~~~~c~~~~~ 388 (480)
T KOG2397|consen 338 QASEARNELDEAERKLKDLDEEIRELEDELNG----------DFGLLEFAALKGQCFDREL 388 (480)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc----------cccHHHHHHHhcceeeecc
Confidence 35678999999999999999999999999754 2345566666666666653
No 112
>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=21.15 E-value=2.4e+02 Score=19.76 Aligned_cols=31 Identities=10% Similarity=0.287 Sum_probs=24.1
Q ss_pred CchHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy8928 8 APAMNVRSELADLVKKKAEIAETLASLERQI 38 (134)
Q Consensus 8 ~~y~~lk~eL~~ll~kk~~le~~l~~LE~qI 38 (134)
..|..++.++..+..++..|+.++...+.-+
T Consensus 6 ~~~q~l~~~~~~l~~~~~~l~~~~~E~~~v~ 36 (105)
T cd00632 6 AQLQQLQQQLQAYIVQRQKVEAQLNENKKAL 36 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3578899999999999999888886554433
No 113
>PF07200 Mod_r: Modifier of rudimentary (Mod(r)) protein; InterPro: IPR009851 This entry represents a conserved region approximately 150 residues long within a number of eukaryotic proteins that show homology with Drosophila melanogaster Modifier of rudimentary (Mod(r)) proteins. The N-terminal half of Mod(r) proteins is acidic, whereas the C-terminal half is basic [], and both of these regions are represented in this family.; PDB: 2CAZ_F 2P22_C 2F66_F.
Probab=20.65 E-value=2.2e+02 Score=20.86 Aligned_cols=34 Identities=21% Similarity=0.263 Sum_probs=29.4
Q ss_pred CchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy8928 8 APAMNVRSELADLVKKKAEIAETLASLERQIYAF 41 (134)
Q Consensus 8 ~~y~~lk~eL~~ll~kk~~le~~l~~LE~qIy~~ 41 (134)
+.++.+|.++.+.+..=+.|..++..++++....
T Consensus 55 ~~l~~~r~~l~~~~~~~~~L~~~~~~k~~~~~~l 88 (150)
T PF07200_consen 55 PELEELRSQLQELYEELKELESEYQEKEQQQDEL 88 (150)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5678899999999999999999999998887774
No 114
>PF15272 BBP1_C: Spindle pole body component BBP1, C-terminal
Probab=20.52 E-value=1.8e+02 Score=23.76 Aligned_cols=13 Identities=23% Similarity=0.317 Sum_probs=7.9
Q ss_pred HHHhhhhhhcccc
Q psy8928 59 SLERQIYAFEGSY 71 (134)
Q Consensus 59 ~~e~qI~~~E~sY 71 (134)
.-|.+|-++|..-
T Consensus 136 ~YesRI~dLE~~L 148 (196)
T PF15272_consen 136 AYESRIADLERQL 148 (196)
T ss_pred HHHHHHHHHHHHH
Confidence 4556666666653
No 115
>PRK10722 hypothetical protein; Provisional
Probab=20.43 E-value=3.1e+02 Score=23.25 Aligned_cols=33 Identities=30% Similarity=0.417 Sum_probs=20.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhccccccccccccchhhHHHHhh
Q psy8928 15 SELADLVKKKAEIAETLASLERQIYAFEGSYLEDTQLYGNETLASLERQ 63 (134)
Q Consensus 15 ~eL~~ll~kk~~le~~l~~LE~qIy~~Et~YL~~t~~~g~e~~~~~e~q 63 (134)
.+|..+-+..+.|..+|+.+.+.|-+ +.+||+|
T Consensus 176 ~qlD~lrqq~~~Lq~~L~~t~rKLEn----------------LTdIERq 208 (247)
T PRK10722 176 SELDALRQQQQRLQYQLELTTRKLEN----------------LTDIERQ 208 (247)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH----------------HHHHHHH
Confidence 45555555555555555555555444 7888888
No 116
>COG5481 Uncharacterized conserved small protein containing a coiled-coil domain [Function unknown]
Probab=20.21 E-value=1.7e+02 Score=20.04 Aligned_cols=20 Identities=35% Similarity=0.526 Sum_probs=14.0
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q psy8928 20 LVKKKAEIAETLASLERQIY 39 (134)
Q Consensus 20 ll~kk~~le~~l~~LE~qIy 39 (134)
+-+||-.|.+++.+||++|-
T Consensus 43 mKkKKLAlKDki~~lED~ii 62 (67)
T COG5481 43 MKKKKLALKDKITKLEDQII 62 (67)
T ss_pred HHHHHHhHHHHHHHHHHhhc
Confidence 44556667788888888864
Done!