Query 036348
Match_columns 72
No_of_seqs 103 out of 294
Neff 4.0
Searched_HMMs 46136
Date Fri Mar 29 11:46:08 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/036348.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/036348hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PTZ00463 histone H2B; Provisio 100.0 1.2E-33 2.6E-38 191.0 8.1 58 15-72 25-83 (117)
2 PLN00158 histone H2B; Provisio 100.0 3.6E-33 7.7E-38 188.4 7.5 58 15-72 24-82 (116)
3 smart00427 H2B Histone H2B. 100.0 9.3E-32 2E-36 174.5 6.9 54 19-72 2-56 (89)
4 KOG1744 Histone H2B [Chromatin 99.9 7.7E-28 1.7E-32 164.5 5.9 58 15-72 34-92 (127)
5 PF00125 Histone: Core histone 99.1 5.7E-11 1.2E-15 71.2 3.7 54 19-72 6-64 (75)
6 cd07981 TAF12 TATA Binding Pro 97.8 0.00016 3.5E-09 44.3 6.3 48 25-72 9-56 (72)
7 PF00808 CBFD_NFYB_HMF: Histon 97.2 0.0011 2.5E-08 38.9 5.3 51 21-72 6-57 (65)
8 PF03847 TFIID_20kDa: Transcri 96.7 0.0048 1E-07 38.0 4.6 47 25-71 7-53 (68)
9 COG2036 HHT1 Histones H3 and H 96.6 0.0064 1.4E-07 39.6 5.1 52 20-72 22-73 (91)
10 PLN00035 histone H4; Provision 95.6 0.035 7.5E-07 37.0 4.9 47 25-72 37-83 (103)
11 PTZ00015 histone H4; Provision 95.6 0.035 7.6E-07 36.8 4.9 39 34-72 46-84 (102)
12 cd00076 H4 Histone H4, one of 95.6 0.04 8.6E-07 35.4 4.9 39 34-72 29-67 (85)
13 smart00803 TAF TATA box bindin 95.5 0.11 2.3E-06 31.5 6.6 48 24-72 9-56 (65)
14 smart00417 H4 Histone H4. 95.2 0.059 1.3E-06 33.9 4.8 38 35-72 30-67 (74)
15 KOG0869 CCAAT-binding factor, 93.1 0.29 6.3E-06 35.3 5.3 48 25-72 40-88 (168)
16 KOG1142 Transcription initiati 91.0 0.79 1.7E-05 35.0 5.8 47 25-71 162-208 (258)
17 KOG0871 Class 2 transcription 89.7 1.6 3.5E-05 31.2 6.1 52 21-72 16-68 (156)
18 cd07979 TAF9 TATA Binding Prot 88.8 1.5 3.2E-05 29.1 5.1 47 25-72 9-55 (117)
19 cd00074 H2A Histone 2A; H2A is 88.4 3.8 8.3E-05 27.4 6.9 54 19-72 22-75 (115)
20 smart00271 DnaJ DnaJ molecular 87.5 2.4 5.3E-05 23.3 4.8 35 22-56 21-56 (60)
21 cd08050 TAF6 TATA Binding Prot 87.1 1.7 3.7E-05 33.1 5.2 38 35-72 16-53 (343)
22 PF15511 CENP-T: Centromere ki 86.4 1.2 2.7E-05 34.9 4.2 40 32-71 371-410 (414)
23 PF15510 CENP-W: Centromere ki 86.0 0.89 1.9E-05 30.5 2.8 58 12-71 11-84 (102)
24 PF15630 CENP-S: Kinetochore c 85.5 3.3 7.2E-05 25.9 5.1 48 25-72 13-62 (76)
25 smart00428 H3 Histone H3. 84.5 7.6 0.00016 25.8 6.7 47 26-72 42-90 (105)
26 cd06257 DnaJ DnaJ domain or J- 84.5 3.8 8.3E-05 22.1 4.5 16 22-37 20-35 (55)
27 PF14687 DUF4460: Domain of un 83.2 1.3 2.9E-05 29.4 2.7 30 25-54 17-54 (112)
28 PF00226 DnaJ: DnaJ domain; I 81.3 7.5 0.00016 21.8 5.4 38 22-60 20-59 (64)
29 smart00576 BTP Bromodomain tra 78.4 9.8 0.00021 23.0 5.2 37 35-71 23-59 (77)
30 PF02969 TAF: TATA box binding 75.9 11 0.00023 23.1 4.8 40 33-72 15-57 (66)
31 PHA03102 Small T antigen; Revi 74.8 8.4 0.00018 26.9 4.7 38 22-63 27-64 (153)
32 KOG0870 DNA polymerase epsilon 61.2 37 0.0008 24.7 5.8 44 25-72 18-67 (172)
33 PLN03213 repressor of silencin 57.6 11 0.00024 32.2 2.9 23 33-55 183-205 (759)
34 PRK14281 chaperone protein Dna 52.7 35 0.00075 26.5 4.8 39 22-61 23-62 (397)
35 KOG3286 Selenoprotein T [Gener 52.6 7.9 0.00017 29.2 1.2 21 17-37 83-103 (226)
36 PF11945 WASH_WAHD: WAHD domai 50.9 25 0.00054 27.0 3.7 21 39-59 25-45 (297)
37 PRK14292 chaperone protein Dna 50.3 35 0.00076 26.0 4.5 39 22-61 22-60 (371)
38 PF02269 TFIID-18kDa: Transcri 48.7 34 0.00073 21.7 3.6 37 35-71 19-55 (93)
39 KOG0568 Molecular chaperone (D 46.9 14 0.00031 28.9 1.9 17 21-37 66-82 (342)
40 PRK14293 chaperone protein Dna 46.2 42 0.00092 25.7 4.3 39 22-61 23-61 (374)
41 PF03008 DUF234: Archaea bacte 45.7 31 0.00067 21.5 3.0 24 41-64 25-48 (100)
42 PTZ00100 DnaJ chaperone protei 45.4 55 0.0012 22.0 4.3 19 22-40 85-103 (116)
43 PF02257 RFX_DNA_binding: RFX 44.8 14 0.0003 23.7 1.3 18 19-36 46-63 (85)
44 PRK05637 anthranilate synthase 44.1 19 0.00042 25.5 2.1 24 29-52 183-206 (208)
45 cd04134 Rho3 Rho3 subfamily. 44.1 18 0.00038 24.0 1.8 24 48-71 162-188 (189)
46 PF05674 DUF816: Baculovirus p 43.6 89 0.0019 22.8 5.4 47 25-71 104-168 (171)
47 TIGR00888 guaA_Nterm GMP synth 42.9 24 0.00052 23.8 2.3 22 29-50 162-183 (188)
48 PF07524 Bromo_TP: Bromodomain 40.7 78 0.0017 18.7 6.5 36 34-69 22-57 (77)
49 PF12873 DUF3825: Domain of un 38.3 31 0.00068 25.4 2.5 22 39-60 20-41 (242)
50 PRK10266 curved DNA-binding pr 36.6 71 0.0015 23.8 4.2 39 22-61 24-62 (306)
51 PLN02347 GMP synthetase 35.8 33 0.00072 28.1 2.5 24 29-52 180-203 (536)
52 COG3160 Rsd Regulator of sigma 35.8 95 0.002 22.4 4.5 46 18-70 68-113 (162)
53 PF01152 Bac_globin: Bacterial 33.2 1.1E+02 0.0023 19.0 4.1 29 27-55 68-96 (120)
54 PLN00153 histone H2A; Provisio 32.7 1.6E+02 0.0034 20.4 5.1 47 25-71 32-78 (129)
55 TIGR00714 hscB Fe-S protein as 32.2 1.2E+02 0.0026 20.7 4.4 37 22-58 11-52 (157)
56 COG2935 Putative arginyl-tRNA: 32.1 47 0.001 25.4 2.6 31 20-50 110-140 (253)
57 KOG4100 Uncharacterized conser 32.0 73 0.0016 22.1 3.3 30 22-54 15-44 (125)
58 KOG2549 Transcription initiati 31.9 1.1E+02 0.0025 26.0 5.0 38 35-72 28-65 (576)
59 PRK14300 chaperone protein Dna 31.3 1.1E+02 0.0025 23.4 4.7 39 22-61 23-61 (372)
60 TIGR02349 DnaJ_bact chaperone 31.1 1.1E+02 0.0023 23.1 4.4 40 22-62 20-59 (354)
61 PRK10767 chaperone protein Dna 29.7 1.3E+02 0.0027 23.0 4.6 39 22-61 24-63 (371)
62 PRK08857 para-aminobenzoate sy 29.5 36 0.00078 23.3 1.5 21 29-49 171-191 (193)
63 COG2238 RPS19A Ribosomal prote 29.4 50 0.0011 23.5 2.2 33 25-57 100-141 (147)
64 PRK00758 GMP synthase subunit 28.1 51 0.0011 22.1 2.1 20 29-48 159-178 (184)
65 PRK14294 chaperone protein Dna 28.0 1.4E+02 0.0031 22.8 4.7 40 22-61 24-63 (366)
66 cd00171 Sec7 Sec7 domain; Doma 27.1 1.3E+02 0.0029 20.9 4.1 36 16-58 148-183 (185)
67 PF11220 DUF3015: Protein of u 26.9 73 0.0016 22.2 2.7 21 41-61 60-80 (144)
68 CHL00188 hisH imidazole glycer 26.6 52 0.0011 23.4 1.9 20 29-49 189-208 (210)
69 PRK14298 chaperone protein Dna 26.4 1.3E+02 0.0029 23.2 4.3 39 22-61 25-63 (377)
70 KOG2019 Metalloendoprotease HM 26.2 84 0.0018 28.1 3.4 24 35-58 382-405 (998)
71 PRK00074 guaA GMP synthase; Re 26.0 63 0.0014 26.0 2.5 23 29-51 167-189 (511)
72 PRK05670 anthranilate synthase 25.5 54 0.0012 22.3 1.8 21 29-49 166-186 (189)
73 PF04836 IFRD_C: Interferon-re 25.4 25 0.00054 20.9 0.1 9 45-53 1-9 (54)
74 CHL00101 trpG anthranilate syn 25.3 60 0.0013 22.2 2.0 21 29-49 167-187 (190)
75 PRK14285 chaperone protein Dna 25.1 1.2E+02 0.0027 23.2 3.9 37 22-59 23-60 (365)
76 COG1970 MscL Large-conductance 24.9 54 0.0012 22.9 1.7 15 41-55 30-44 (130)
77 PRK14277 chaperone protein Dna 24.8 1.4E+02 0.0031 23.0 4.2 39 22-61 25-64 (386)
78 PRK01356 hscB co-chaperone Hsc 24.7 1.8E+02 0.004 20.1 4.4 37 21-57 23-62 (166)
79 cd01742 GATase1_GMP_Synthase T 24.5 34 0.00074 22.6 0.6 20 29-48 162-181 (181)
80 PRK10664 transcriptional regul 24.1 83 0.0018 19.6 2.3 30 27-56 7-37 (90)
81 PRK09333 30S ribosomal protein 24.1 83 0.0018 22.2 2.6 34 32-65 116-149 (150)
82 PF14081 DUF4262: Domain of un 23.8 51 0.0011 21.4 1.4 28 29-56 31-58 (125)
83 PLN02335 anthranilate synthase 23.5 76 0.0016 22.6 2.3 21 29-49 191-211 (222)
84 PF06240 COXG: Carbon monoxide 22.9 1.2E+02 0.0025 19.6 3.0 18 42-59 122-139 (140)
85 PRK00294 hscB co-chaperone Hsc 22.6 1.7E+02 0.0038 20.5 4.0 40 21-61 25-70 (173)
86 PRK03578 hscB co-chaperone Hsc 21.9 2E+02 0.0043 20.1 4.2 39 22-60 28-71 (176)
87 COG2882 FliJ Flagellar biosynt 21.9 2.3E+02 0.0049 19.8 4.4 46 20-65 42-90 (148)
88 PF01741 MscL: Large-conductan 21.8 50 0.0011 22.3 1.1 16 41-56 28-43 (128)
89 PF14745 WASH-7_N: WASH comple 21.8 1.8E+02 0.0039 23.8 4.4 36 18-53 183-221 (567)
90 PRK14280 chaperone protein Dna 21.5 1.9E+02 0.0041 22.2 4.3 39 22-61 24-62 (376)
91 PRK14004 hisH imidazole glycer 21.4 77 0.0017 22.5 2.0 20 29-49 189-208 (210)
92 PF09123 DUF1931: Domain of un 21.4 1.4E+02 0.003 20.9 3.2 18 25-42 113-131 (138)
93 PRK14299 chaperone protein Dna 21.3 2.4E+02 0.0051 20.9 4.6 36 22-58 24-59 (291)
94 PRK13953 mscL large-conductanc 21.2 73 0.0016 21.8 1.8 15 41-55 28-42 (125)
95 TIGR00220 mscL large conductan 21.2 71 0.0015 21.8 1.7 13 42-54 29-41 (127)
96 PF09400 DUF2002: Protein of u 21.0 86 0.0019 21.4 2.1 17 35-53 95-111 (111)
97 PRK00567 mscL large-conductanc 20.8 73 0.0016 21.9 1.7 15 41-55 28-42 (134)
98 TIGR00566 trpG_papA glutamine 20.6 60 0.0013 22.2 1.3 21 29-49 167-187 (188)
99 PRK14297 chaperone protein Dna 20.6 2.1E+02 0.0045 22.1 4.3 37 22-59 24-61 (380)
100 PLN00157 histone H2A; Provisio 20.5 3E+02 0.0066 19.0 4.9 42 25-70 34-79 (132)
101 TIGR03835 termin_org_DnaJ term 20.4 1.9E+02 0.004 25.9 4.4 39 21-60 21-59 (871)
102 PRK13952 mscL large-conductanc 20.4 77 0.0017 22.0 1.8 14 42-55 31-44 (142)
103 PF02291 TFIID-31kDa: Transcri 20.3 2.4E+02 0.0051 19.2 4.1 48 25-72 16-66 (129)
104 PF04377 ATE_C: Arginine-tRNA- 20.2 1.1E+02 0.0025 20.5 2.5 31 19-49 3-33 (128)
105 PF05075 DUF684: Protein of un 20.2 1.2E+02 0.0026 23.2 2.9 23 43-65 24-48 (345)
106 PRK14287 chaperone protein Dna 20.2 2.1E+02 0.0045 22.1 4.2 37 22-59 24-60 (371)
107 PRK07452 DNA polymerase III su 20.2 2E+02 0.0044 20.7 4.0 40 33-72 147-188 (326)
108 PRK13955 mscL large-conductanc 20.0 80 0.0017 21.7 1.8 15 41-55 28-42 (130)
No 1
>PTZ00463 histone H2B; Provisional
Probab=100.00 E-value=1.2e-33 Score=190.99 Aligned_cols=58 Identities=43% Similarity=0.671 Sum_probs=54.9
Q ss_pred ccCCchHHHH-HHHhhhcCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCC
Q 036348 15 QRKTPLATRK-RILNQIYPDIRISSKAMGIMNSFINDIFEKLAWEASRLARYKKKPSIH 72 (72)
Q Consensus 15 ~~k~~~~tY~-kVLKqVhp~~gISskam~imnSfvnDiFerIA~EAs~L~~~nkr~Tl~ 72 (72)
+++.+|..|+ |||||||||+|||++||+||||||||||||||+||++|++||+++||+
T Consensus 25 kr~esy~~YI~KVLKqVhPd~gIS~kaM~ImnSfvnDifErIA~EAs~La~~nkr~Tlt 83 (117)
T PTZ00463 25 SRYDSYGLYIFKVLKQVHPDTGISRKSMNIMNSFLVDTFEKIATEASRLCKYTRRDTLS 83 (117)
T ss_pred cccchHHHHHHHHHHhhCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCC
Confidence 3456888887 999999999999999999999999999999999999999999999996
No 2
>PLN00158 histone H2B; Provisional
Probab=100.00 E-value=3.6e-33 Score=188.40 Aligned_cols=58 Identities=55% Similarity=0.816 Sum_probs=54.9
Q ss_pred ccCCchHHHH-HHHhhhcCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCC
Q 036348 15 QRKTPLATRK-RILNQIYPDIRISSKAMGIMNSFINDIFEKLAWEASRLARYKKKPSIH 72 (72)
Q Consensus 15 ~~k~~~~tY~-kVLKqVhp~~gISskam~imnSfvnDiFerIA~EAs~L~~~nkr~Tl~ 72 (72)
+++.+|.+|+ |||||||||+|||++||+||||||||||||||.||++|++||+|+||+
T Consensus 24 kr~esy~~YI~kVLKQVhPd~gIS~kaM~ImnSfvnDiferIA~EAs~La~~nkr~Tlt 82 (116)
T PLN00158 24 SKTETYKIYIYKVLKQVHPDTGISSKAMSIMNSFINDIFEKIATEAGKLARYNKKPTVT 82 (116)
T ss_pred cccccHHHHHHHHHHHhCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCcCC
Confidence 3457899997 999999999999999999999999999999999999999999999996
No 3
>smart00427 H2B Histone H2B.
Probab=99.97 E-value=9.3e-32 Score=174.51 Aligned_cols=54 Identities=57% Similarity=0.832 Sum_probs=52.7
Q ss_pred chHHHH-HHHhhhcCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCC
Q 036348 19 PLATRK-RILNQIYPDIRISSKAMGIMNSFINDIFEKLAWEASRLARYKKKPSIH 72 (72)
Q Consensus 19 ~~~tY~-kVLKqVhp~~gISskam~imnSfvnDiFerIA~EAs~L~~~nkr~Tl~ 72 (72)
+|.+|. |||||||||+|||++||+||||||||||||||.||++|++||+|+||+
T Consensus 2 sy~~Yi~kvLKqVhpd~giS~kam~imnSfvnDiferIa~EAs~L~~~nkr~Tlt 56 (89)
T smart00427 2 TYAIYIYKVLKQVHPDTGISSKAMSIMNSFVNDIFERIAAEASKLARYNKKSTLS 56 (89)
T ss_pred cHHHHHHHHHHHhCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCcCC
Confidence 789997 999999999999999999999999999999999999999999999996
No 4
>KOG1744 consensus Histone H2B [Chromatin structure and dynamics]
Probab=99.94 E-value=7.7e-28 Score=164.52 Aligned_cols=58 Identities=53% Similarity=0.861 Sum_probs=54.6
Q ss_pred ccCCchHHHH-HHHhhhcCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCC
Q 036348 15 QRKTPLATRK-RILNQIYPDIRISSKAMGIMNSFINDIFEKLAWEASRLARYKKKPSIH 72 (72)
Q Consensus 15 ~~k~~~~tY~-kVLKqVhp~~gISskam~imnSfvnDiFerIA~EAs~L~~~nkr~Tl~ 72 (72)
+++.+|.+|. |||||||||+|||++||+||||||||||||||+||++|++||+|+||+
T Consensus 34 ~~~e~~s~yv~kvlk~Vhpd~gis~~a~~vmnsf~ndife~iA~ea~rla~y~krstis 92 (127)
T KOG1744|consen 34 RRKESYSEYVYKVLKQVHPDLGISSKAMGVMNSFVNDIFERIASEAGRLAHYNKRSTIS 92 (127)
T ss_pred cccCceeeehhhhhhcccCCCCcCHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCccc
Confidence 4456888887 999999999999999999999999999999999999999999999986
No 5
>PF00125 Histone: Core histone H2A/H2B/H3/H4 histone h2a signature histone h2b signature histone h3 signature histone h4 signature; InterPro: IPR007125 The core histones together with some other DNA binding proteins appear to form a superfamily defined by a common fold and distant sequence similarities [, ]. Some proteins contain local homology domains related to the histone fold [].; GO: 0003677 DNA binding; PDB: 2YFW_D 2YFV_B 1U35_H 2F8N_D 2PYO_D 2NQB_D 3AN2_C 3AZJ_C 3AV1_G 3AZM_G ....
Probab=99.13 E-value=5.7e-11 Score=71.22 Aligned_cols=54 Identities=30% Similarity=0.326 Sum_probs=49.6
Q ss_pred chHHHH-HHHhhhcCC----CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCC
Q 036348 19 PLATRK-RILNQIYPD----IRISSKAMGIMNSFINDIFEKLAWEASRLARYKKKPSIH 72 (72)
Q Consensus 19 ~~~tY~-kVLKqVhp~----~gISskam~imnSfvnDiFerIA~EAs~L~~~nkr~Tl~ 72 (72)
.+..|+ |++++++++ ..||+.||.+|+++++|++++|.++|+.++.+++|.||+
T Consensus 6 ~~~~~~~r~~r~i~~~~~~~~ris~~a~~~L~~~~E~~~~~il~~A~~~a~~~kR~tI~ 64 (75)
T PF00125_consen 6 IPKFPFSRLLREIGEEILSKYRISSEALVALQSVLEYLLVEILEEAGNLARHAKRKTIT 64 (75)
T ss_dssp SSHHHHHHHHHHHHHTTSSSSEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTBSEEG
T ss_pred cCceEEeeeeehhhcccccccccccccchhhhhhhhhhhhhhhhHHHHHHhhcCCcEec
Confidence 344555 999999998 899999999999999999999999999999999999985
No 6
>cd07981 TAF12 TATA Binding Protein (TBP) Associated Factor 12 (TAF12) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex. The TATA Binding Protein (TBP) Associated Factor 12 (TAF12) is one of several TAFs that bind TBP and are involved in forming the TFIID complex. TFIID is one of the seven General Transcription Factors (GTFs) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. TFIID complex is composed of the TBP and at least 13 TAFs. TAFs are named after their electrophoretic mobility in polyacrylamide gels in different species. A new, unified nomenclature has been suggested for the pol II TAFs to show the relationship between TAF orthologs and paralogs. Several hypotheses are proposed for TAFs function such as serving as activator-bind
Probab=97.75 E-value=0.00016 Score=44.26 Aligned_cols=48 Identities=19% Similarity=0.398 Sum_probs=46.1
Q ss_pred HHHhhhcCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCC
Q 036348 25 RILNQIYPDIRISSKAMGIMNSFINDIFEKLAWEASRLARYKKKPSIH 72 (72)
Q Consensus 25 kVLKqVhp~~gISskam~imnSfvnDiFerIA~EAs~L~~~nkr~Tl~ 72 (72)
..++++.|+..++..|...+-.+.+|..+.++.+|+.||.+.++.||.
T Consensus 9 ~lv~~id~~~~~~~da~~~l~~~~e~fv~~v~~~a~~lAkHr~~~tv~ 56 (72)
T cd07981 9 ELLKEIDPREQLDPDVEELLLEIADDFVDDVVEDACRLAKHRKSDTLE 56 (72)
T ss_pred HHHHhhCCCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCC
Confidence 689999999999999999999999999999999999999999999974
No 7
>PF00808 CBFD_NFYB_HMF: Histone-like transcription factor (CBF/NF-Y) and archaeal histone; InterPro: IPR003958 The CCAAT-binding factor (CBF) is a mammalian transcription factor that binds to a CCAAT motif in the promoters of a wide variety of genes, including type I collagen and albumin. The factor is a heteromeric complex of A and B subunits, both of which are required for DNA-binding [, ]. The subunits can interact in the absence of DNA-binding, conserved regions in each being important in mediating this interaction. The A subunit can be split into 3 domains on the basis of sequence similarity, a non-conserved N-terminal 'A domain'; a highly-conserved central 'B domain' involved in DNA-binding; and a C-terminal 'C domain', which contains a number of glutamine and acidic residues involved in protein-protein interactions []. The A subunit shows striking similarity to the HAP3 subunit of the yeast CCAAT-binding heterotrimeric transcription factor [, ]. The Kluyveromyces lactis HAP3 protein has been predicted to contain a 4-cysteine zinc finger, which is thought to be present in similar HAP3 and CBF subunit A proteins, in which the third cysteine is replaced by a serine []. This domain is found in the CCAAT transcription factor and archaeal histones.; GO: 0043565 sequence-specific DNA binding, 0005622 intracellular; PDB: 1F1E_A 2BYM_D 2BYK_D 1HTA_A 1B67_A 1JFI_B 1KU5_B 1N1J_A 1BFM_A 1B6W_A ....
Probab=97.25 E-value=0.0011 Score=38.95 Aligned_cols=51 Identities=31% Similarity=0.470 Sum_probs=44.1
Q ss_pred HHHHHHHhhhcCCC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCC
Q 036348 21 ATRKRILNQIYPDI-RISSKAMGIMNSFINDIFEKLAWEASRLARYKKKPSIH 72 (72)
Q Consensus 21 ~tY~kVLKqVhp~~-gISskam~imnSfvnDiFerIA~EAs~L~~~nkr~Tl~ 72 (72)
+.-.|++|+. |+. .||+.|...|+.......+.|+.||...+..++|.||+
T Consensus 6 a~vkri~k~~-~~~~~vs~ea~~~i~~a~e~Fi~~l~~~A~~~a~~~~rkti~ 57 (65)
T PF00808_consen 6 ARVKRIMKSD-PDVMRVSKEAVEAIAKAAEEFIQYLAKEANEIAQRDKRKTIT 57 (65)
T ss_dssp HHHHHHHHHT-STTSEE-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSSEE-
T ss_pred HHHHHHhccC-CCccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCccC
Confidence 3445899998 774 69999999999999999999999999999999999984
No 8
>PF03847 TFIID_20kDa: Transcription initiation factor TFIID subunit A; InterPro: IPR003228 Human transcription initiation factor TFIID is composed of the TATA-binding polypeptide (TBP) and at least 13 TBP-associated factors (TAFs) that collectively or individually are involved in activator-dependent transcription [].; GO: 0006352 transcription initiation, DNA-dependent, 0005669 transcription factor TFIID complex; PDB: 1H3O_B.
Probab=96.67 E-value=0.0048 Score=37.97 Aligned_cols=47 Identities=19% Similarity=0.396 Sum_probs=38.7
Q ss_pred HHHhhhcCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCC
Q 036348 25 RILNQIYPDIRISSKAMGIMNSFINDIFEKLAWEASRLARYKKKPSI 71 (72)
Q Consensus 25 kVLKqVhp~~gISskam~imnSfvnDiFerIA~EAs~L~~~nkr~Tl 71 (72)
..++||-|+..+...+..++-.+.+|.-+.+.+-|++||++.+..||
T Consensus 7 ~Lv~~iDp~~~ld~~vee~Ll~laddFv~~v~~~ac~lAKhR~s~tl 53 (68)
T PF03847_consen 7 ELVKQIDPNEKLDPDVEELLLELADDFVDDVVSFACRLAKHRKSSTL 53 (68)
T ss_dssp HHHHCC-SS----HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE
T ss_pred HHHHHcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCC
Confidence 67899999999999999999999999999999999999999998876
No 9
>COG2036 HHT1 Histones H3 and H4 [Chromatin structure and dynamics]
Probab=96.60 E-value=0.0064 Score=39.60 Aligned_cols=52 Identities=27% Similarity=0.395 Sum_probs=47.7
Q ss_pred hHHHHHHHhhhcCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCC
Q 036348 20 LATRKRILNQIYPDIRISSKAMGIMNSFINDIFEKLAWEASRLARYKKKPSIH 72 (72)
Q Consensus 20 ~~tY~kVLKqVhp~~gISskam~imnSfvnDiFerIA~EAs~L~~~nkr~Tl~ 72 (72)
...+.|.+|++-++ .+|..|...|+-.+...++-|+.+|+.+|.+-+|.|++
T Consensus 22 ~apv~Ri~r~~~~~-Rvs~~A~~~l~~~~e~~~~~i~~~A~~~A~ha~RKTV~ 73 (91)
T COG2036 22 KAPVRRILRKAGAE-RVSSSAIEELQEALEEYLEEIAEDAVELAEHAKRKTVK 73 (91)
T ss_pred chHHHHHHHHHhHH-HhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeec
Confidence 34555999999988 99999999999999999999999999999999999984
No 10
>PLN00035 histone H4; Provisional
Probab=95.60 E-value=0.035 Score=37.01 Aligned_cols=47 Identities=13% Similarity=0.126 Sum_probs=40.1
Q ss_pred HHHhhhcCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCC
Q 036348 25 RILNQIYPDIRISSKAMGIMNSFINDIFEKLAWEASRLARYKKKPSIH 72 (72)
Q Consensus 25 kVLKqVhp~~gISskam~imnSfvnDiFerIA~EAs~L~~~nkr~Tl~ 72 (72)
|+++.-- --.||..+..-+...+.+.+|.|+.+|..++.+.+|.|++
T Consensus 37 RLARr~G-vkRIS~~ay~elr~vle~~l~~I~~dav~ya~HA~RKTV~ 83 (103)
T PLN00035 37 RLARRGG-VKRISGLIYEETRGVLKIFLENVIRDAVTYTEHARRKTVT 83 (103)
T ss_pred HHHHHcC-cccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCc
Confidence 5555432 3469999999999999999999999999999999999985
No 11
>PTZ00015 histone H4; Provisional
Probab=95.58 E-value=0.035 Score=36.85 Aligned_cols=39 Identities=13% Similarity=0.350 Sum_probs=36.4
Q ss_pred CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCC
Q 036348 34 IRISSKAMGIMNSFINDIFEKLAWEASRLARYKKKPSIH 72 (72)
Q Consensus 34 ~gISskam~imnSfvnDiFerIA~EAs~L~~~nkr~Tl~ 72 (72)
-.||..+..-+...+++.+|.|+.+|..++.+.+|.|++
T Consensus 46 kRIS~d~y~e~r~vle~~l~~I~rdav~~aeHA~RKTVt 84 (102)
T PTZ00015 46 KRISGDIYEEVRGVLKAFLENVVRDSTAYTEYARRKTVT 84 (102)
T ss_pred ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccc
Confidence 358999999999999999999999999999999999985
No 12
>cd00076 H4 Histone H4, one of the four histones, along with H2A, H2B and H3, which forms the eukaryotic nucleosome core; along with H3, it plays a central role in nucleosome formation; histones bind to DNA and wrap the genetic material into "beads on a string" in which DNA (the string) is wrapped around small blobs of histones (the beads) at regular intervals; play a role in the inheritance of specialized chromosome structures and the control of gene activity; defects in the establishment of proper chromosome structure by histones may activate or silence genes aberrantly and thus lead to disease; the sequence of histone H4 has remained almost invariant in more than 2 billion years of evolution
Probab=95.55 E-value=0.04 Score=35.37 Aligned_cols=39 Identities=15% Similarity=0.250 Sum_probs=36.2
Q ss_pred CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCC
Q 036348 34 IRISSKAMGIMNSFINDIFEKLAWEASRLARYKKKPSIH 72 (72)
Q Consensus 34 ~gISskam~imnSfvnDiFerIA~EAs~L~~~nkr~Tl~ 72 (72)
..||..+..-+...+...+|.|+.+|..++.+.+|.|++
T Consensus 29 kRIS~d~y~e~~~~l~~~l~~I~~dav~ya~Ha~RKTVt 67 (85)
T cd00076 29 KRISGGVYDEVRNVLKSYLEDVIRDAVTYTEHAKRKTVT 67 (85)
T ss_pred chhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCc
Confidence 458999999999999999999999999999999999985
No 13
>smart00803 TAF TATA box binding protein associated factor. TAFs (TATA box binding protein associated factors) are part of the transcription initiation factor TFIID multimeric protein complex. TFIID is composed of the TATA box binding protein (TBP) and a number of TAFs. The TAFs provide binding sites for many different transcriptional activators and co-activators that modulate transcription initiation by Pol II. TAF proteins adopt a histone-like fold.
Probab=95.53 E-value=0.11 Score=31.46 Aligned_cols=48 Identities=15% Similarity=0.204 Sum_probs=40.2
Q ss_pred HHHHhhhcCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCC
Q 036348 24 KRILNQIYPDIRISSKAMGIMNSFINDIFEKLAWEASRLARYKKKPSIH 72 (72)
Q Consensus 24 ~kVLKqVhp~~gISskam~imnSfvnDiFerIA~EAs~L~~~nkr~Tl~ 72 (72)
.++.++.-- ..||..+..-+-..+....+.|+.||..++++.+|.||+
T Consensus 9 ~ria~~~Gi-~ris~~a~~~l~~~~e~rl~~i~~~A~k~~~hakRktlt 56 (65)
T smart00803 9 KDVAESLGI-GNLSDEAAKLLAEDVEYRIKEIVQEALKFMRHSKRTTLT 56 (65)
T ss_pred HHHHHHCCC-ccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCeec
Confidence 355555432 368999999999999999999999999999999999986
No 14
>smart00417 H4 Histone H4.
Probab=95.22 E-value=0.059 Score=33.88 Aligned_cols=38 Identities=13% Similarity=0.260 Sum_probs=35.2
Q ss_pred CCcHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCC
Q 036348 35 RISSKAMGIMNSFINDIFEKLAWEASRLARYKKKPSIH 72 (72)
Q Consensus 35 gISskam~imnSfvnDiFerIA~EAs~L~~~nkr~Tl~ 72 (72)
.||..+..-+..++.+..+.|+.+|..++.+.+|.|++
T Consensus 30 RIS~~~y~elr~vle~~l~~I~rdav~~a~ha~RKTV~ 67 (74)
T smart00417 30 RISGLIYDETRNVLKSFLENVVRDAVTYTEHARRKTVT 67 (74)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccc
Confidence 58888999899999999999999999999999999985
No 15
>KOG0869 consensus CCAAT-binding factor, subunit A (HAP3) [Transcription]
Probab=93.11 E-value=0.29 Score=35.33 Aligned_cols=48 Identities=23% Similarity=0.378 Sum_probs=45.1
Q ss_pred HHHhhhcCC-CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCC
Q 036348 25 RILNQIYPD-IRISSKAMGIMNSFINDIFEKLAWEASRLARYKKKPSIH 72 (72)
Q Consensus 25 kVLKqVhp~-~gISskam~imnSfvnDiFerIA~EAs~L~~~nkr~Tl~ 72 (72)
|+.|..-|. .-||+.|-.+|.-.|...--=|+.||+--|+--+|.||+
T Consensus 40 RIMK~~lP~naKIsKDAKE~vQECVSEfISFvT~EAsekC~~EkRKTIn 88 (168)
T KOG0869|consen 40 RIMKKALPANAKISKDAKETVQECVSEFISFVTGEASEKCQREKRKTIN 88 (168)
T ss_pred HHHHhcCCcccccchHHHHHHHHHHHHHHHHHhhHHHHHHHHHhcCccc
Confidence 999999887 579999999999999999999999999999999999985
No 16
>KOG1142 consensus Transcription initiation factor TFIID, subunit TAF12 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=91.01 E-value=0.79 Score=34.96 Aligned_cols=47 Identities=13% Similarity=0.324 Sum_probs=44.1
Q ss_pred HHHhhhcCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCC
Q 036348 25 RILNQIYPDIRISSKAMGIMNSFINDIFEKLAWEASRLARYKKKPSI 71 (72)
Q Consensus 25 kVLKqVhp~~gISskam~imnSfvnDiFerIA~EAs~L~~~nkr~Tl 71 (72)
..++||-++.-|....-++|--+..|.-|-|..-|++||++.|..||
T Consensus 162 dLvqqId~~~~LD~dVedlLleiADdFV~sii~~sC~LAKHRKsdtl 208 (258)
T KOG1142|consen 162 DLVQQIDGTTKLDDDVEDLLLEIADDFVSSIIHRSCKLAKHRKSDTV 208 (258)
T ss_pred HHHHhhcCcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCcc
Confidence 78999999999999999999888888889999999999999999987
No 17
>KOG0871 consensus Class 2 transcription repressor NC2, beta subunit (Dr1) [Transcription]
Probab=89.71 E-value=1.6 Score=31.23 Aligned_cols=52 Identities=19% Similarity=0.402 Sum_probs=46.9
Q ss_pred HHHHHHHhhhcC-CCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCC
Q 036348 21 ATRKRILNQIYP-DIRISSKAMGIMNSFINDIFEKLAWEASRLARYKKKPSIH 72 (72)
Q Consensus 21 ~tY~kVLKqVhp-~~gISskam~imnSfvnDiFerIA~EAs~L~~~nkr~Tl~ 72 (72)
+|-.|.+|.+-| |.-+...|-++++..--....-|++||...|--..+.||.
T Consensus 16 Atv~KmIke~lP~d~rvakeareliincCvEFI~liSsEAneic~~e~KKTIa 68 (156)
T KOG0871|consen 16 ATVNKMIKEMLPKDVRVAKEARELIINCCVEFINLISSEANEICNKEAKKTIA 68 (156)
T ss_pred HHHHHHHHHhCCcccccchHHHHHHHHHHHHHHHHHHHHHHHHHhHHhcccCC
Confidence 566799999999 9999999999988877788888999999999999999984
No 18
>cd07979 TAF9 TATA Binding Protein (TBP) Associated Factor 9 (TAF9) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex. The TATA Binding Protein (TBP) Associated Factor 9 (TAF9) is one of several TAFs that bind TBP and are involved in forming the TFIID complex. TFIID is one of seven General Transcription Factors (GTF) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. The TFIID complex is composed of the TBP and at least 13 TAFs. TAFs from various species were originally named by their predicted molecular weight or their electrophoretic mobility in polyacrylamide gels. A new, unified nomenclature for the pol II TAFs has been suggested to show the relationship between TAFs orthologs and paralogs. Human TAF9 has a paralogue gene (TAF9L) whi
Probab=88.80 E-value=1.5 Score=29.13 Aligned_cols=47 Identities=13% Similarity=0.100 Sum_probs=39.4
Q ss_pred HHHhhhcCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCC
Q 036348 25 RILNQIYPDIRISSKAMGIMNSFINDIFEKLAWEASRLARYKKKPSIH 72 (72)
Q Consensus 25 kVLKqVhp~~gISskam~imnSfvnDiFerIA~EAs~L~~~nkr~Tl~ 72 (72)
++||.-. -...+.++..-|--|+...-+.|+.+|..++.+.+|.||+
T Consensus 9 ~iLk~~G-v~~~~~~v~~~Lle~~~ry~~~il~dA~~~a~hA~r~tV~ 55 (117)
T cd07979 9 AILKSMG-ITEYEPRVINQLLEFAYRYTTDVLDDAKVYSEHAGKANID 55 (117)
T ss_pred HHHHHCC-CCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCC
Confidence 5555431 2357889999999999999999999999999999999985
No 19
>cd00074 H2A Histone 2A; H2A is a subunit of the nucleosome. The nucleosome is an octamer containing two H2A, H2B, H3, and H4 subunits. The H2A subunit performs essential roles in maintaining structural integrity of the nucleosome, chromatin condensation, and binding of specific chromatin-associated proteins.
Probab=88.42 E-value=3.8 Score=27.45 Aligned_cols=54 Identities=20% Similarity=0.164 Sum_probs=43.9
Q ss_pred chHHHHHHHhhhcCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCC
Q 036348 19 PLATRKRILNQIYPDIRISSKAMGIMNSFINDIFEKLAWEASRLARYKKKPSIH 72 (72)
Q Consensus 19 ~~~tY~kVLKqVhp~~gISskam~imnSfvnDiFerIA~EAs~L~~~nkr~Tl~ 72 (72)
+..-..|.|++-.--.-||..|.--|-..+..+...|.+.|...++.+++.+|+
T Consensus 22 PV~ri~R~Lk~~~~a~RVs~~A~VyLaAvLEYL~aEIlelA~n~ak~~k~krIt 75 (115)
T cd00074 22 PVGRIHRYLKKGRYAERVGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKKRIT 75 (115)
T ss_pred cHHHHHHHHHcCccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeEc
Confidence 334444999885555789999999888888888888889999999999998875
No 20
>smart00271 DnaJ DnaJ molecular chaperone homology domain.
Probab=87.53 E-value=2.4 Score=23.34 Aligned_cols=35 Identities=17% Similarity=0.199 Sum_probs=20.5
Q ss_pred HHHHHHhhhcCCCCCcH-HHHHHHHHHHHHHHHHHH
Q 036348 22 TRKRILNQIYPDIRISS-KAMGIMNSFINDIFEKLA 56 (72)
Q Consensus 22 tY~kVLKqVhp~~gISs-kam~imnSfvnDiFerIA 56 (72)
.|.+..++.|||.+-.. ......=..|+.-|+.|.
T Consensus 21 ay~~l~~~~HPD~~~~~~~~~~~~~~~l~~Ay~~L~ 56 (60)
T smart00271 21 AYRKLALKYHPDKNPGDKEEAEEKFKEINEAYEVLS 56 (60)
T ss_pred HHHHHHHHHCcCCCCCchHHHHHHHHHHHHHHHHHc
Confidence 57799999999988742 222222223455555443
No 21
>cd08050 TAF6 TATA Binding Protein (TBP) Associated Factor 6 (TAF6) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex. The TATA Binding Protein (TBP) Associated Factor 6 (TAF6) is one of several TAFs that bind TBP and are involved in forming Transcription Factor IID (TFIID) complex. TFIID is one of seven General Transcription Factors (GTFs) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. TFIID complex is composed of the TBP and at least 13 TAFs. TAFs are named after their electrophoretic mobility in polyacrylamide gels in different species. A new, unified nomenclature has been suggested for the pol II TAFs to show the relationship between TAF orthologs and paralogs. Several hypotheses are proposed for TAFs functions such as serving as
Probab=87.11 E-value=1.7 Score=33.13 Aligned_cols=38 Identities=13% Similarity=0.255 Sum_probs=35.0
Q ss_pred CCcHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCC
Q 036348 35 RISSKAMGIMNSFINDIFEKLAWEASRLARYKKKPSIH 72 (72)
Q Consensus 35 gISskam~imnSfvnDiFerIA~EAs~L~~~nkr~Tl~ 72 (72)
.+|..|...+..-+.+.-..|+.||.++++..+|.||+
T Consensus 16 ~~~~~a~~~La~~~e~~~~~i~~~A~k~~~hskR~~l~ 53 (343)
T cd08050 16 SLSDEVAQLLAEDVEYRLREIIQEAAKFMRHSKRRKLT 53 (343)
T ss_pred cCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcCC
Confidence 56888999999999999999999999999999999986
No 22
>PF15511 CENP-T: Centromere kinetochore component CENP-T; PDB: 3B0D_T 3B0C_T 3VH5_T 3VH6_T.
Probab=86.40 E-value=1.2 Score=34.93 Aligned_cols=40 Identities=20% Similarity=0.300 Sum_probs=34.1
Q ss_pred CCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCC
Q 036348 32 PDIRISSKAMGIMNSFINDIFEKLAWEASRLARYKKKPSI 71 (72)
Q Consensus 32 p~~gISskam~imnSfvnDiFerIA~EAs~L~~~nkr~Tl 71 (72)
-.+-||+.||..+....+.-||.|+..-.--|.+-+|.||
T Consensus 371 sK~kiskdal~aleqasdwfFeQl~dDL~aYA~HAgRKTI 410 (414)
T PF15511_consen 371 SKMKISKDALEALEQASDWFFEQLGDDLEAYAKHAGRKTI 410 (414)
T ss_dssp --S-B-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE
T ss_pred cCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcC
Confidence 4588999999999999999999999999999999999997
No 23
>PF15510 CENP-W: Centromere kinetochore component W
Probab=85.99 E-value=0.89 Score=30.48 Aligned_cols=58 Identities=28% Similarity=0.369 Sum_probs=39.1
Q ss_pred cccccCCchHHHHHHHhhhcCCCCCcHH--HH--------------HHHHHHHHHHHHHHHHHHHHHHhhcCCCCC
Q 036348 12 KKSQRKTPLATRKRILNQIYPDIRISSK--AM--------------GIMNSFINDIFEKLAWEASRLARYKKKPSI 71 (72)
Q Consensus 12 kk~~~k~~~~tY~kVLKqVhp~~gISsk--am--------------~imnSfvnDiFerIA~EAs~L~~~nkr~Tl 71 (72)
|.-+++.+-....+|+|+--|.+.+-.. .| -=+|.++ ...|+|+||--=|+-||+.||
T Consensus 11 k~ikrkaPrgfLkrv~Kr~KphlRl~~~~Dllv~~~~f~~~~~~~~vhLncLL--FvhrLAEEaRtnA~EnK~~~I 84 (102)
T PF15510_consen 11 KHIKRKAPRGFLKRVFKRQKPHLRLETSGDLLVRFCPFSGWQWGGEVHLNCLL--FVHRLAEEARTNACENKCGTI 84 (102)
T ss_pred HHHHHhCchHHHHHHHHhcCCceeecccccHHHhhcccccccccceeehhHHH--HHHHHHHHHHHHHHHHhhccc
Confidence 3334444555566999999998766543 33 2234332 347999999999999998887
No 24
>PF15630 CENP-S: Kinetochore component CENP-S; PDB: 4DRA_C 4DRB_H 3V9R_C.
Probab=85.54 E-value=3.3 Score=25.89 Aligned_cols=48 Identities=15% Similarity=0.315 Sum_probs=39.9
Q ss_pred HHHhhh--cCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCC
Q 036348 25 RILNQI--YPDIRISSKAMGIMNSFINDIFEKLAWEASRLARYKKKPSIH 72 (72)
Q Consensus 25 kVLKqV--hp~~gISskam~imnSfvnDiFerIA~EAs~L~~~nkr~Tl~ 72 (72)
++..++ ..+..+|.+.+..|--++-+..+.+|.+--..|++-+|.||+
T Consensus 13 ki~ee~~~~~~~~~s~~~i~al~ELv~~q~~~~a~DLe~FAkHA~R~tI~ 62 (76)
T PF15630_consen 13 KIVEEEAKEKGVEVSPQFIAALTELVYKQLENLAKDLEAFAKHAGRSTIN 62 (76)
T ss_dssp HHHHHCCCCTTSEE-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-
T ss_pred HHHHHHHhccCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCeec
Confidence 555665 467889999999999999999999999999999999999985
No 25
>smart00428 H3 Histone H3.
Probab=84.53 E-value=7.6 Score=25.78 Aligned_cols=47 Identities=21% Similarity=0.208 Sum_probs=40.3
Q ss_pred HHhhhcC--CCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCC
Q 036348 26 ILNQIYP--DIRISSKAMGIMNSFINDIFEKLAWEASRLARYKKKPSIH 72 (72)
Q Consensus 26 VLKqVhp--~~gISskam~imnSfvnDiFerIA~EAs~L~~~nkr~Tl~ 72 (72)
+..+..+ +.-+++.|+..+.....+..-.+..+|..++.+.+|.||.
T Consensus 42 I~~~~~~~~~~R~~~~Al~aLQeasE~ylv~lfeda~~~a~HAkRvTl~ 90 (105)
T smart00428 42 IAQKFTTGVDLRFQSSAIMALQEAAEAYLVGLFEDTNLLAIHAKRVTIM 90 (105)
T ss_pred HHHHcCCCCCceeeHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCccCc
Confidence 3333455 7889999999999999999999999999999999999984
No 26
>cd06257 DnaJ DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s, an important chaperonine family. Hsp40 proteins are characterized by the presence of a J domain, which mediates the interaction with Hsp70. They may contain other domains as well, and the architectures provide a means of classification.
Probab=84.50 E-value=3.8 Score=22.07 Aligned_cols=16 Identities=13% Similarity=0.206 Sum_probs=13.9
Q ss_pred HHHHHHhhhcCCCCCc
Q 036348 22 TRKRILNQIYPDIRIS 37 (72)
Q Consensus 22 tY~kVLKqVhp~~gIS 37 (72)
.|.+..++.|||.+-+
T Consensus 20 ~y~~l~~~~HPD~~~~ 35 (55)
T cd06257 20 AYRKLALKYHPDKNPD 35 (55)
T ss_pred HHHHHHHHHCcCCCCC
Confidence 5779999999999876
No 27
>PF14687 DUF4460: Domain of unknown function (DUF4460)
Probab=83.16 E-value=1.3 Score=29.35 Aligned_cols=30 Identities=13% Similarity=0.535 Sum_probs=25.2
Q ss_pred HHHhhhcCCC--------CCcHHHHHHHHHHHHHHHHH
Q 036348 25 RILNQIYPDI--------RISSKAMGIMNSFINDIFEK 54 (72)
Q Consensus 25 kVLKqVhp~~--------gISskam~imnSfvnDiFer 54 (72)
..+++||||+ -+-.+++.++|+++..+..+
T Consensus 17 ~Fy~~VHPDlF~~~P~~k~~Ne~SLk~Ln~~Ld~l~~~ 54 (112)
T PF14687_consen 17 PFYFAVHPDLFGQHPEEKQVNEESLKLLNSYLDSLKKR 54 (112)
T ss_pred HHHHHhCCcccccChHHHHhhHHHHHHHHHHHHHHhcc
Confidence 7788999995 37789999999999888764
No 28
>PF00226 DnaJ: DnaJ domain; InterPro: IPR001623 The prokaryotic heat shock protein DnaJ interacts with the chaperone hsp70-like DnaK protein []. Structurally, the DnaJ protein consists of an N-terminal conserved domain (called 'J' domain) of about 70 amino acids, a glycine-rich region ('G' domain') of about 30 residues, a central domain containing four repeats of a CXXCXGXG motif ('CRR' domain) and a C-terminal region of 120 to 170 residues. Such a structure is shown in the following schematic representation: +------------+-+-------+-----+-----------+--------------------------------+ | N-terminal | | Gly-R | | CXXCXGXG | C-terminal | +------------+-+-------+-----+-----------+--------------------------------+ It is thought that the 'J' domain of DnaJ mediates the interaction with the dnaK protein and consists of four helices, the second of which has a charged surface that includes at least one pair of basic residues that are essential for interaction with the ATPase domain of Hsp70. The J- and CRR-domains are found in many prokaryotic and eukaryotic proteins [], either together or separately. In yeast, J-domains have been classified into 3 groups; the class III proteins are functionally distinct and do not appear to act as molecular chaperones []. ; GO: 0031072 heat shock protein binding; PDB: 2GUZ_C 2L6L_A 1HDJ_A 2EJ7_A 1FPO_C 2CUG_A 2QSA_A 2OCH_A 3BVO_B 3APQ_A ....
Probab=81.29 E-value=7.5 Score=21.80 Aligned_cols=38 Identities=24% Similarity=0.207 Sum_probs=22.0
Q ss_pred HHHHHHhhhcCCC-CCcH-HHHHHHHHHHHHHHHHHHHHHH
Q 036348 22 TRKRILNQIYPDI-RISS-KAMGIMNSFINDIFEKLAWEAS 60 (72)
Q Consensus 22 tY~kVLKqVhp~~-gISs-kam~imnSfvnDiFerIA~EAs 60 (72)
.|.+..++.|||. +-+. .+-. .-..|+..|+-|..+..
T Consensus 20 ~y~~l~~~~HPD~~~~~~~~~~~-~~~~i~~Ay~~L~~~~~ 59 (64)
T PF00226_consen 20 AYRRLSKQYHPDKNSGDEAEAEE-KFARINEAYEILSDPER 59 (64)
T ss_dssp HHHHHHHHTSTTTGTSTHHHHHH-HHHHHHHHHHHHHSHHH
T ss_pred HHHhhhhccccccchhhhhhhhH-HHHHHHHHHHHhCCHHH
Confidence 6779999999997 3333 1222 22344555555554443
No 29
>smart00576 BTP Bromodomain transcription factors and PHD domain containing proteins. subdomain of archael histone-like transcription factors
Probab=78.44 E-value=9.8 Score=23.01 Aligned_cols=37 Identities=11% Similarity=0.214 Sum_probs=31.0
Q ss_pred CCcHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCC
Q 036348 35 RISSKAMGIMNSFINDIFEKLAWEASRLARYKKKPSI 71 (72)
Q Consensus 35 gISskam~imnSfvnDiFerIA~EAs~L~~~nkr~Tl 71 (72)
.++..|++.+-..+.+.++.|+.++..++...+|.+.
T Consensus 23 ~~~~sale~ltdi~~~yl~~l~~~~~~~a~~agR~~~ 59 (77)
T smart00576 23 SFQESALETLTDILQSYIQELGRTAHSYAELAGRTEP 59 (77)
T ss_pred ccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCC
Confidence 5777788888888888889999999999988888764
No 30
>PF02969 TAF: TATA box binding protein associated factor (TAF); InterPro: IPR004823 The TATA box binding protein associated factor (TAF) is part of the transcription initiation factor TFIID multimeric protein complex. TFIID plays a central role in mediating promoter responses to various activators and repressors. It binds tightly to TAFII-250 and directly interacts with TAFII-40. TFIID is composed of TATA binding protein (TBP)and a number of TBP-associated factors (TAFS). TAF proteins adopt a histone-like fold.; GO: 0006352 transcription initiation, DNA-dependent, 0005634 nucleus; PDB: 1TAF_B.
Probab=75.93 E-value=11 Score=23.09 Aligned_cols=40 Identities=18% Similarity=0.243 Sum_probs=26.2
Q ss_pred CCCC---cHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCC
Q 036348 33 DIRI---SSKAMGIMNSFINDIFEKLAWEASRLARYKKKPSIH 72 (72)
Q Consensus 33 ~~gI---Sskam~imnSfvnDiFerIA~EAs~L~~~nkr~Tl~ 72 (72)
-+|| +..+-..+-.=|.--...|..||.+.++..+|.+||
T Consensus 15 s~Gi~~l~de~a~~La~dveyrlreiiq~a~kfm~hskR~~Lt 57 (66)
T PF02969_consen 15 SLGISNLSDEAAKALAEDVEYRLREIIQEALKFMRHSKRTKLT 57 (66)
T ss_dssp HTT---B-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSB-
T ss_pred HcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCC
Confidence 3455 445555555555555677899999999999999886
No 31
>PHA03102 Small T antigen; Reviewed
Probab=74.81 E-value=8.4 Score=26.93 Aligned_cols=38 Identities=18% Similarity=0.181 Sum_probs=28.4
Q ss_pred HHHHHHhhhcCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 036348 22 TRKRILNQIYPDIRISSKAMGIMNSFINDIFEKLAWEASRLA 63 (72)
Q Consensus 22 tY~kVLKqVhp~~gISskam~imnSfvnDiFerIA~EAs~L~ 63 (72)
.|.+..++.|||.|-+...|. -||..|+.|..+..+..
T Consensus 27 AYr~la~~~HPDkgg~~e~~k----~in~Ay~~L~d~~~r~~ 64 (153)
T PHA03102 27 AYLRKCLEFHPDKGGDEEKMK----ELNTLYKKFRESVKSLR 64 (153)
T ss_pred HHHHHHHHHCcCCCchhHHHH----HHHHHHHHHhhHHHhcc
Confidence 577888999999987776554 56777888877666543
No 32
>KOG0870 consensus DNA polymerase epsilon, subunit D [Transcription]
Probab=61.16 E-value=37 Score=24.72 Aligned_cols=44 Identities=23% Similarity=0.417 Sum_probs=33.1
Q ss_pred HHHhhhcCC--CCCcHHHHHHHHH----HHHHHHHHHHHHHHHHHhhcCCCCCC
Q 036348 25 RILNQIYPD--IRISSKAMGIMNS----FINDIFEKLAWEASRLARYKKKPSIH 72 (72)
Q Consensus 25 kVLKqVhp~--~gISskam~imnS----fvnDiFerIA~EAs~L~~~nkr~Tl~ 72 (72)
|+.|.|-|+ .+||+.|...|-. ||+. +..=|..+|+-++|.||+
T Consensus 18 rlvke~l~E~~vsisKeA~~Ai~raAtVFv~~----Lts~s~e~A~~q~rKt~s 67 (172)
T KOG0870|consen 18 RLVKEVLPESNVSISKEARLAIARAATVFVIF----LTSVSNEIAKDQKRKTIS 67 (172)
T ss_pred HHHHHhCccccccccHHHHHHHHHHHHHHHHH----HHHHHHHHHHhcccCccc
Confidence 788888777 5999999877654 4433 556677888999999985
No 33
>PLN03213 repressor of silencing 3; Provisional
Probab=57.65 E-value=11 Score=32.25 Aligned_cols=23 Identities=30% Similarity=0.559 Sum_probs=20.3
Q ss_pred CCCCcHHHHHHHHHHHHHHHHHH
Q 036348 33 DIRISSKAMGIMNSFINDIFEKL 55 (72)
Q Consensus 33 ~~gISskam~imnSfvnDiFerI 55 (72)
+.|+-.+-.+||||.||-+||+=
T Consensus 183 ~~g~~~eE~niMNSVMNKLFEke 205 (759)
T PLN03213 183 NVGRNEAEVNVMNSVMNKLFEKN 205 (759)
T ss_pred cccccHHHHHHHHHHHHHHHhhh
Confidence 46888899999999999999973
No 34
>PRK14281 chaperone protein DnaJ; Provisional
Probab=52.65 E-value=35 Score=26.52 Aligned_cols=39 Identities=18% Similarity=0.272 Sum_probs=27.5
Q ss_pred HHHHHHhhhcCCCCCcH-HHHHHHHHHHHHHHHHHHHHHHH
Q 036348 22 TRKRILNQIYPDIRISS-KAMGIMNSFINDIFEKLAWEASR 61 (72)
Q Consensus 22 tY~kVLKqVhp~~gISs-kam~imnSfvnDiFerIA~EAs~ 61 (72)
.|.+..++.|||..-+. .|-..+ .-||+-||.|..+..+
T Consensus 23 ayr~la~~~HPD~~~~~~~a~~~f-~~i~~Ay~vL~d~~~r 62 (397)
T PRK14281 23 AYRKLALKYHPDKNPDNKEAEEHF-KEVNEAYEVLSNDDKR 62 (397)
T ss_pred HHHHHHHHHCCCcCCCchHHHHHH-HHHHHHHHHhhhhhhh
Confidence 67799999999987543 343333 5678888888776543
No 35
>KOG3286 consensus Selenoprotein T [General function prediction only]
Probab=52.61 E-value=7.9 Score=29.16 Aligned_cols=21 Identities=29% Similarity=0.591 Sum_probs=17.7
Q ss_pred CCchHHHHHHHhhhcCCCCCc
Q 036348 17 KTPLATRKRILNQIYPDIRIS 37 (72)
Q Consensus 17 k~~~~tY~kVLKqVhp~~gIS 37 (72)
|.-|++|.++|++++|++.|-
T Consensus 83 k~af~~~~~~l~ekyPgl~Ie 103 (226)
T KOG3286|consen 83 KQAFEQYKKFLKEKYPGLDIE 103 (226)
T ss_pred HHHHHHHHHHHHhhCCCceee
Confidence 347889999999999998764
No 36
>PF11945 WASH_WAHD: WAHD domain of WASH complex; InterPro: IPR021854 This entry represents a component of the WASH complex. The WASH complex is present at the surface of endosomes and recruits and activates the Arp2/3 complex to induce actin polymerisation. The WASH complex plays a key role in the fission of tubules that serve as transport intermediates during endosome sorting []. The WASH complex's subunit structure: F-actin-capping protein subunit alpha (CAPZA1, CAPZA2 or CAPZA3), F-actin-capping protein subunit beta (CAPZB), WASH (WASH1, WASH2P, WASH3P, WASH4P, WASH5P or WASH6P), FAM21 (FAM21A, FAM21B or FAM21C), KIAA1033, KIAA0196 (strumpellin) and CCDC53. This entry represents the WASH subunit of the WASH complex. WASH genes duplicated to multiple chromosomal ends during primate evolution, with highest copy number reached in humans, whose WASH repertoires probably vary extensively among individuals []. It is therefore difficult to determine which gene is functional or not. The telomeric region of chromosome 9p is paralogous to the pericentromeric regions of chromosome 9 as well as to 2q. Paralogous regions contain 7 transcriptional units. Duplicated WASH genes are also present in the Xq/Yq pseudoautosomal region, as well as on chromosome 1 and 15. The chromosome 16 copy seems to be a pseudogene.
Probab=50.95 E-value=25 Score=26.95 Aligned_cols=21 Identities=24% Similarity=0.490 Sum_probs=16.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 036348 39 KAMGIMNSFINDIFEKLAWEA 59 (72)
Q Consensus 39 kam~imnSfvnDiFerIA~EA 59 (72)
.|..-++..+||||+||....
T Consensus 25 ~aL~~L~~v~~diF~rI~~Rv 45 (297)
T PF11945_consen 25 DALEYLDKVSNDIFSRISARV 45 (297)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 567778889999999886543
No 37
>PRK14292 chaperone protein DnaJ; Provisional
Probab=50.33 E-value=35 Score=26.02 Aligned_cols=39 Identities=18% Similarity=0.219 Sum_probs=27.4
Q ss_pred HHHHHHhhhcCCCCCcHHHHHHHHHHHHHHHHHHHHHHHH
Q 036348 22 TRKRILNQIYPDIRISSKAMGIMNSFINDIFEKLAWEASR 61 (72)
Q Consensus 22 tY~kVLKqVhp~~gISskam~imnSfvnDiFerIA~EAs~ 61 (72)
.|.+..++.|||..-+..|...+ ..||+.||-|..+..+
T Consensus 22 ayr~l~~~~hpD~~~~~~a~~~~-~~i~~Ay~vL~d~~~r 60 (371)
T PRK14292 22 AYRKLALKYHPDRNKEKGAAEKF-AQINEAYAVLSDAEKR 60 (371)
T ss_pred HHHHHHHHHCCCCCCChhHHHHH-HHHHHHHHHhcchhhh
Confidence 67799999999988665554444 4567777777665543
No 38
>PF02269 TFIID-18kDa: Transcription initiation factor IID, 18kD subunit; InterPro: IPR003195 This family includes the Spt3 yeast transcription factors and the 18 kDa subunit from human transcription initiation factor IID (TFIID-18). Determination of the crystal structure reveals an atypical histone fold [].; GO: 0006366 transcription from RNA polymerase II promoter; PDB: 1BH9_A 1BH8_A.
Probab=48.68 E-value=34 Score=21.68 Aligned_cols=37 Identities=14% Similarity=0.247 Sum_probs=23.0
Q ss_pred CCcHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCC
Q 036348 35 RISSKAMGIMNSFINDIFEKLAWEASRLARYKKKPSI 71 (72)
Q Consensus 35 gISskam~imnSfvnDiFerIA~EAs~L~~~nkr~Tl 71 (72)
.-+.++..+|..+|.+-.--++.+|..+|....+.+|
T Consensus 19 ~P~~eTv~lvE~iv~~~i~~l~~~A~~~a~~rg~~~i 55 (93)
T PF02269_consen 19 EPLPETVDLVEDIVREYIIELCQEAMEVAQRRGSKKI 55 (93)
T ss_dssp S--HHHHHHHHHHHHHHHHHHHHHHHC----------
T ss_pred CCcHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCcC
Confidence 4567889999999999999999999999988865544
No 39
>KOG0568 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=46.88 E-value=14 Score=28.86 Aligned_cols=17 Identities=18% Similarity=0.229 Sum_probs=13.3
Q ss_pred HHHHHHHhhhcCCCCCc
Q 036348 21 ATRKRILNQIYPDIRIS 37 (72)
Q Consensus 21 ~tY~kVLKqVhp~~gIS 37 (72)
++|-++.||||||.|-.
T Consensus 66 ~af~~lakq~hpdsgs~ 82 (342)
T KOG0568|consen 66 EAFHDLAKQVHPDSGSE 82 (342)
T ss_pred HHHHHHHHHcCCCCCCc
Confidence 45558899999998843
No 40
>PRK14293 chaperone protein DnaJ; Provisional
Probab=46.21 E-value=42 Score=25.73 Aligned_cols=39 Identities=23% Similarity=0.301 Sum_probs=26.5
Q ss_pred HHHHHHhhhcCCCCCcHHHHHHHHHHHHHHHHHHHHHHHH
Q 036348 22 TRKRILNQIYPDIRISSKAMGIMNSFINDIFEKLAWEASR 61 (72)
Q Consensus 22 tY~kVLKqVhp~~gISskam~imnSfvnDiFerIA~EAs~ 61 (72)
.|.+..++.|||..-+..|-..+ ..||+-||-|..+..+
T Consensus 23 ayr~la~~~HPD~~~~~~a~~~f-~~i~~Ay~vL~~~~~R 61 (374)
T PRK14293 23 AYRRLARKYHPDVNKEPGAEDRF-KEINRAYEVLSDPETR 61 (374)
T ss_pred HHHHHHHHHCCCCCCCcCHHHHH-HHHHHHHHHHhchHHH
Confidence 67789999999975443333322 5677888877776654
No 41
>PF03008 DUF234: Archaea bacterial proteins of unknown function; InterPro: IPR004256 This represents a C-terminal domain of unknown function, usually fused to a prokaryotic putative DEXX-box ATPase domain (IPR011579 from INTERPRO) [].
Probab=45.73 E-value=31 Score=21.52 Aligned_cols=24 Identities=21% Similarity=0.254 Sum_probs=19.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHh
Q 036348 41 MGIMNSFINDIFEKLAWEASRLAR 64 (72)
Q Consensus 41 m~imnSfvnDiFerIA~EAs~L~~ 64 (72)
..-+++|+..+||.|+.|......
T Consensus 25 ~~~l~~y~g~~fE~i~r~~l~~~~ 48 (100)
T PF03008_consen 25 KPELNQYMGFAFEEICREYLRRLN 48 (100)
T ss_pred HHHHHHHhhHHHHHHHHHHHHHhh
Confidence 345789999999999999877543
No 42
>PTZ00100 DnaJ chaperone protein; Provisional
Probab=45.38 E-value=55 Score=22.04 Aligned_cols=19 Identities=21% Similarity=0.174 Sum_probs=14.6
Q ss_pred HHHHHHhhhcCCCCCcHHH
Q 036348 22 TRKRILNQIYPDIRISSKA 40 (72)
Q Consensus 22 tY~kVLKqVhp~~gISska 40 (72)
.|.+..++.|||.|=|...
T Consensus 85 aYRrLa~~~HPDkgGs~~~ 103 (116)
T PTZ00100 85 AHKQLMLRNHPDNGGSTYI 103 (116)
T ss_pred HHHHHHHHhCCCCCCCHHH
Confidence 5668889999999766543
No 43
>PF02257 RFX_DNA_binding: RFX DNA-binding domain; InterPro: IPR003150 RFX is a regulatory factor which binds to the X box of MHC class II genes and is essential for their expression. The DNA-binding domain of RFX is the central domain of the protein and binds ssDNA as either a monomer or homodimer [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1DP7_P 2KW3_A.
Probab=44.77 E-value=14 Score=23.67 Aligned_cols=18 Identities=17% Similarity=0.588 Sum_probs=12.6
Q ss_pred chHHHHHHHhhhcCCCCC
Q 036348 19 PLATRKRILNQIYPDIRI 36 (72)
Q Consensus 19 ~~~tY~kVLKqVhp~~gI 36 (72)
+-++|-|++|+|+|++++
T Consensus 46 n~AsFGKlir~vFP~l~~ 63 (85)
T PF02257_consen 46 NAASFGKLIRQVFPNLKT 63 (85)
T ss_dssp -HHHHHHHHHHHSTT-EE
T ss_pred chHHHHHHHHHHcCCCcc
Confidence 345666999999999753
No 44
>PRK05637 anthranilate synthase component II; Provisional
Probab=44.13 E-value=19 Score=25.45 Aligned_cols=24 Identities=17% Similarity=0.328 Sum_probs=21.2
Q ss_pred hhcCCCCCcHHHHHHHHHHHHHHH
Q 036348 29 QIYPDIRISSKAMGIMNSFINDIF 52 (72)
Q Consensus 29 qVhp~~gISskam~imnSfvnDiF 52 (72)
|=||+.-.|.....|++.|+...+
T Consensus 183 QfHPE~~~T~~G~~il~nfl~~~~ 206 (208)
T PRK05637 183 QFHPESVLSPTGPIILSRCVEQLL 206 (208)
T ss_pred EeCCccCcCCCHHHHHHHHHHHHh
Confidence 669999999999999999987654
No 45
>cd04134 Rho3 Rho3 subfamily. Rho3 is a member of the Rho family found only in fungi. Rho3 is believed to regulate cell polarity by interacting with the diaphanous/formin family protein For3 to control both the actin cytoskeleton and microtubules. Rho3 is also believed to have a direct role in exocytosis that is independent of its role in regulating actin polarity. The function in exocytosis may be two-pronged: first, in the transport of post-Golgi vesicles from the mother cell to the bud, mediated by myosin (Myo2); second, in the docking and fusion of vesicles to the plasma membrane, mediated by an exocyst (Exo70) protein. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins.
Probab=44.10 E-value=18 Score=24.05 Aligned_cols=24 Identities=21% Similarity=0.158 Sum_probs=18.7
Q ss_pred HHHHHHHHHHHHHH---HHhhcCCCCC
Q 036348 48 INDIFEKLAWEASR---LARYKKKPSI 71 (72)
Q Consensus 48 vnDiFerIA~EAs~---L~~~nkr~Tl 71 (72)
|+++|+.|+..+.. .-+.+++|||
T Consensus 162 v~e~f~~l~~~~~~~~~~~~~~~~~~~ 188 (189)
T cd04134 162 VNEAFTEAARVALNVRPPHPHSSACTI 188 (189)
T ss_pred HHHHHHHHHHHHhcccccCcCCCccee
Confidence 78999999998874 4466777776
No 46
>PF05674 DUF816: Baculovirus protein of unknown function (DUF816); InterPro: IPR008534 This entry is represented by Autographa californica nuclear polyhedrosis virus (AcMNPV), Orf106. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family includes proteins that are about 200 amino acids in length. The proteins are all from baculoviruses. This family includes ORF107 from Orgyia pseudotsugata multicapsid polyhedrosis virus (OpMNPV) and a variety of other numbered ORF proteins, such as ORF52 Q91F03 from SWISSPROT, ORF140 Q9YMI8 from SWISSPROT from other baculoviruses. The function of these proteins is unknown.
Probab=43.61 E-value=89 Score=22.75 Aligned_cols=47 Identities=30% Similarity=0.435 Sum_probs=41.6
Q ss_pred HHHhhhcCCCCCcHHHHHH------------------HHHHHHHHHHHHHHHHHHHHhhcCCCCC
Q 036348 25 RILNQIYPDIRISSKAMGI------------------MNSFINDIFEKLAWEASRLARYKKKPSI 71 (72)
Q Consensus 25 kVLKqVhp~~gISskam~i------------------mnSfvnDiFerIA~EAs~L~~~nkr~Tl 71 (72)
+-|..+.||+.=|.+||-- |=+|+..|.-+|--|+..+..|++++++
T Consensus 104 krL~~inpdlksSP~amLqhYnecle~ld~p~~deHhlitfaKei~tKifietv~~~s~~n~s~i 168 (171)
T PF05674_consen 104 KRLDKINPDLKSSPRAMLQHYNECLENLDNPKNDEHHLITFAKEIATKIFIETVDLMSNNNKSPI 168 (171)
T ss_pred HHHhcCCCccccCHHHHHHHHHHHHHhccCCCCCcchhHHHHHHHHHHHHHHHHHHHhcCCCCCc
Confidence 7888899999999999853 4578999999999999999999999886
No 47
>TIGR00888 guaA_Nterm GMP synthase (glutamine-hydrolyzing), N-terminal domain or A subunit. separate polypeptide chains in most of the Archaea. This N-terminal region would be the smaller subunit.
Probab=42.92 E-value=24 Score=23.82 Aligned_cols=22 Identities=18% Similarity=0.462 Sum_probs=18.8
Q ss_pred hhcCCCCCcHHHHHHHHHHHHH
Q 036348 29 QIYPDIRISSKAMGIMNSFIND 50 (72)
Q Consensus 29 qVhp~~gISskam~imnSfvnD 50 (72)
|=||+..-+..++.|+..|+++
T Consensus 162 QfHPE~~~~~~g~~i~~~f~~~ 183 (188)
T TIGR00888 162 QFHPEVTHTEYGNELLENFVYD 183 (188)
T ss_pred eeCCccCCChhhHHHHHHHHHH
Confidence 6799998888899999999765
No 48
>PF07524 Bromo_TP: Bromodomain associated; InterPro: IPR006565 This bromodomain is found in eukaryotic transcription factors and PHD domain containing proteins (IPR001965 from INTERPRO). The tandem PHD finger-bromodomain is found in many chromatin-associated proteins. It is involved in gene silencing by the human co-repressor KRAB-associated protein 1 (KAP1). The tandem PHD finger-bromodomain of KAP1 has a distinct structure that joins the two protein modules. The first helix, alpha(Z), of an atypical bromodomain forms the central hydrophobic core that anchors the other three helices of the bromodomain on one side and the zinc binding PHD finger on the other []. The Rap1 GTPase-activating protein, Sipa1, is modulated by the cellular bromodomain protein, Brd4. Brd4 belongs to the BET family and is a multifunctional protein involved in transcription, replication, the signal transduction pathway, and cell cycle progression. All of these functions are linked to its association with acetylated chromatin. It has tandem bromodomains []. The dysregulation of the Brd4-associated pathways may play an important role in breast cancer progression []. Bovine papillomavirus type 1 E2 also binds to chromosomes in a complex with Brd4. Interaction with Brd4 is additionally important for E2-mediated transcriptional regulation [, ].
Probab=40.68 E-value=78 Score=18.72 Aligned_cols=36 Identities=17% Similarity=0.249 Sum_probs=30.6
Q ss_pred CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCC
Q 036348 34 IRISSKAMGIMNSFINDIFEKLAWEASRLARYKKKP 69 (72)
Q Consensus 34 ~gISskam~imnSfvnDiFerIA~EAs~L~~~nkr~ 69 (72)
-+++..|++++-..+.+-++.|+..+...+....|.
T Consensus 22 ~~~~~~al~~Ltdi~~~yl~~l~~~~~~~ae~~gRt 57 (77)
T PF07524_consen 22 DSASPSALDTLTDILQRYLQELGRTAKRYAEHAGRT 57 (77)
T ss_pred cccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCC
Confidence 468899999999998888999999998888776665
No 49
>PF12873 DUF3825: Domain of unknown function (DUF3825); InterPro: IPR024437 This uncharacterised domain has conserved residues suggestive of an enzymatic role probably related to RNA metabolism.
Probab=38.27 E-value=31 Score=25.41 Aligned_cols=22 Identities=23% Similarity=0.465 Sum_probs=19.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 036348 39 KAMGIMNSFINDIFEKLAWEAS 60 (72)
Q Consensus 39 kam~imnSfvnDiFerIA~EAs 60 (72)
+...||.++++.+|+||..|--
T Consensus 20 ~~~~IL~~YL~~TF~Rl~~e~k 41 (242)
T PF12873_consen 20 QDYPILKNYLNYTFKRLKEEGK 41 (242)
T ss_pred ccchHHHHHHHHHHHHHHHccc
Confidence 6678999999999999998854
No 50
>PRK10266 curved DNA-binding protein CbpA; Provisional
Probab=36.61 E-value=71 Score=23.78 Aligned_cols=39 Identities=18% Similarity=0.234 Sum_probs=27.5
Q ss_pred HHHHHHhhhcCCCCCcHHHHHHHHHHHHHHHHHHHHHHHH
Q 036348 22 TRKRILNQIYPDIRISSKAMGIMNSFINDIFEKLAWEASR 61 (72)
Q Consensus 22 tY~kVLKqVhp~~gISskam~imnSfvnDiFerIA~EAs~ 61 (72)
.|.+..++.|||..=.. ...-...-|++.||-|..+..+
T Consensus 24 ayr~la~k~HPD~~~~~-~~~~~f~~i~~Ay~~L~~~~kr 62 (306)
T PRK10266 24 AYRRLARKYHPDVSKEP-DAEARFKEVAEAWEVLSDEQRR 62 (306)
T ss_pred HHHHHHHHHCcCCCCCc-cHHHHHHHHHHHHHHhhhHHHH
Confidence 67788899999985332 3445667788888887765544
No 51
>PLN02347 GMP synthetase
Probab=35.82 E-value=33 Score=28.05 Aligned_cols=24 Identities=29% Similarity=0.509 Sum_probs=21.4
Q ss_pred hhcCCCCCcHHHHHHHHHHHHHHH
Q 036348 29 QIYPDIRISSKAMGIMNSFINDIF 52 (72)
Q Consensus 29 qVhp~~gISskam~imnSfvnDiF 52 (72)
|=||+..-|...+.|+..|+.+|.
T Consensus 180 QFHPE~~~t~~G~~iL~NFl~~ic 203 (536)
T PLN02347 180 QYHPEVTHSPKGMETLRHFLFDVC 203 (536)
T ss_pred EccCCCCccchHHHHHHHHHHHHh
Confidence 779999999999999999987765
No 52
>COG3160 Rsd Regulator of sigma D [Transcription]
Probab=35.78 E-value=95 Score=22.40 Aligned_cols=46 Identities=11% Similarity=0.283 Sum_probs=34.4
Q ss_pred CchHHHHHHHhhhcCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCC
Q 036348 18 TPLATRKRILNQIYPDIRISSKAMGIMNSFINDIFEKLAWEASRLARYKKKPS 70 (72)
Q Consensus 18 ~~~~tY~kVLKqVhp~~gISskam~imnSfvnDiFerIA~EAs~L~~~nkr~T 70 (72)
.-|+.|-+++..++ |-+.++|. ..+-||-+|-.---.+.-||.+++
T Consensus 68 GHF~iYe~i~~k~~---~~g~~~l~----la~kI~p~l~a~Tq~imnfnD~~~ 113 (162)
T COG3160 68 GHFSIYERILHKLE---GNGDRQLA----LAAKIWPQLEANTQQIMNFNDSSL 113 (162)
T ss_pred cchHHHHHHHHHHh---ccCcHHHH----HHHHHHHHHHhhHHHHHhhcchhh
Confidence 36778889999988 44557777 567788888877777888877654
No 53
>PF01152 Bac_globin: Bacterial-like globin; InterPro: IPR001486 Globins are haem-containing proteins involved in binding and/or transporting oxygen. They belong to a very large and well studied family that is widely distributed in many organisms []. Globins have evolved from a common ancestor and can be divided into three groups: single-domain globins, and two types of chimeric globins, flavohaemoglobins and globin-coupled sensors. Bacteria have all three types of globins, while archaea lack flavohaemoglobins, and eukaryotes lack globin-coupled sensors []. Several functionally different haemoglobins can coexist in the same species. The major types of globins include: Haemoglobin (Hb): trimer of two alpha and two beta chains, although embryonic and foetal forms can substitute the alpha or beta chain for ones with higher oxygen affinity, such as gamma, delta, epsilon or zeta chains. Hb transports oxygen from lungs to other tissues in vertebrates []. Hb proteins are also present in unicellular organisms where they act as enzymes or sensors []. Myoglobin (Mb): monomeric protein responsible for oxygen storage in vertebrate muscle []. Neuroglobin: a myoglobin-like haemprotein expressed in vertebrate brain and retina, where it is involved in neuroprotection from damage due to hypoxia or ischemia []. Neuroglobin belongs to a branch of the globin family that diverged early in evolution. Cytoglobin: an oxygen sensor expressed in multiple tissues. Related to neuroglobin []. Erythrocruorin: highly cooperative extracellular respiratory proteins found in annelids and arthropods that are assembled from as many as 180 subunit into hexagonal bilayers []. Leghaemoglobin (legHb or symbiotic Hb): occurs in the root nodules of leguminous plants, where it facilitates the diffusion of oxygen to symbiotic bacteriods in order to promote nitrogen fixation. Non-symbiotic haemoglobin (NsHb): occurs in non-leguminous plants, and can be over-expressed in stressed plants []. Flavohaemoglobins (FHb): chimeric, with an N-terminal globin domain and a C-terminal ferredoxin reductase-like NAD/FAD-binding domain. FHb provides protection against nitric oxide via its C-terminal domain, which transfers electrons to haem in the globin []. Globin-coupled sensors: chimeric, with an N-terminal myoglobin-like domain and a C-terminal domain that resembles the cytoplasmic signalling domain of bacterial chemoreceptors. They bind oxygen, and act to initiate an aerotactic response or regulate gene expression [, ]. Protoglobin: a single domain globin found in archaea that is related to the N-terminal domain of globin-coupled sensors []. Truncated 2/2 globin: lack the first helix, giving them a 2-over-2 instead of the canonical 3-over-3 alpha-helical sandwich fold. Can be divided into three main groups (I, II and II) based on structural features []. This entry represents a group of haemoglobin-like proteins found in eubacteria, cyanobacteria, protozoa, algae and plants, but not in animals or yeast. These proteins have a truncated 2-over-2 rather than the canonical 3-over-3 alpha-helical sandwich fold []. This entry includes: HbN (or GlbN): a truncated haemoglobin-like protein that binds oxygen cooperatively with a very high affinity and a slow dissociation rate, which may exclude it from oxygen transport. It appears to be involved in bacterial nitric oxide detoxification and in nitrosative stress []. Cyanoglobin (or GlbN): a truncated haemoprotein found in cyanobacteria that has high oxygen affinity, and which appears to serve as part of a terminal oxidase, rather than as a respiratory pigment []. HbO (or GlbO): a truncated haemoglobin-like protein with a lower oxygen affinity than HbN. HbO associates with the bacterial cell membrane, where it significantly increases oxygen uptake over membranes lacking this protein. HbO appears to interact with a terminal oxidase, and could participate in an oxygen/electron-transfer process that facilitates oxygen transfer during aerobic metabolism []. Glb3: a nuclear-encoded truncated haemoglobin from plants that appears more closely related to HbO than HbN. Glb3 from Arabidopsis thaliana (Mouse-ear cress) exhibits an unusual concentration-independent binding of oxygen and carbon dioxide []. ; GO: 0019825 oxygen binding, 0015671 oxygen transport; PDB: 2BKM_B 1UVY_A 1DLW_A 2XYK_B 2IG3_A 2GKM_B 1S61_A 1S56_B 1RTE_B 2GLN_A ....
Probab=33.22 E-value=1.1e+02 Score=19.02 Aligned_cols=29 Identities=7% Similarity=0.249 Sum_probs=22.2
Q ss_pred HhhhcCCCCCcHHHHHHHHHHHHHHHHHH
Q 036348 27 LNQIYPDIRISSKAMGIMNSFINDIFEKL 55 (72)
Q Consensus 27 LKqVhp~~gISskam~imnSfvnDiFerI 55 (72)
|++.|.+++|+...-+.+=..+.+.++..
T Consensus 68 m~~~H~~l~it~~~f~~~~~~~~~al~~~ 96 (120)
T PF01152_consen 68 MREAHAHLGITEEHFDRWLELLKQALDEL 96 (120)
T ss_dssp HHHHHTTS-BBHHHHHHHHHHHHHHHHHT
T ss_pred HHHHHhCCCCCHHHHHHHHHHHHHHHHHh
Confidence 99999999999988777666666666554
No 54
>PLN00153 histone H2A; Provisional
Probab=32.72 E-value=1.6e+02 Score=20.37 Aligned_cols=47 Identities=23% Similarity=0.136 Sum_probs=24.7
Q ss_pred HHHhhhcCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCC
Q 036348 25 RILNQIYPDIRISSKAMGIMNSFINDIFEKLAWEASRLARYKKKPSI 71 (72)
Q Consensus 25 kVLKqVhp~~gISskam~imnSfvnDiFerIA~EAs~L~~~nkr~Tl 71 (72)
|.|++-..---|+.-|.--|-..+..+...|-+-|..-++-+++.-|
T Consensus 32 R~Lr~g~~a~Rvga~A~VYLAAVLEYLtaEVLELAgnaa~d~kk~RI 78 (129)
T PLN00153 32 RYLKKGKYAERIGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKNRI 78 (129)
T ss_pred HHHhcCchhhccCCCchHHHHHHHHHHHHHHHHHHHHHHHhcCCCcc
Confidence 88887665667877776633333333333333333444455554433
No 55
>TIGR00714 hscB Fe-S protein assembly co-chaperone HscB. This model describes the small subunit, Hsc20 (20K heat shock cognate protein) of a pair of proteins Hsc66-Hsc20, related to the DnaK-DnaJ heat shock proteins, which also serve as molecular chaperones. Hsc20, unlike DnaJ, appears not to have chaperone activity on its own, but to act solely as a regulatory subunit for Hsc66 (i.e., to be a co-chaperone). The gene for Hsc20 in E. coli, hscB, is not induced by heat shock.
Probab=32.16 E-value=1.2e+02 Score=20.74 Aligned_cols=37 Identities=19% Similarity=0.132 Sum_probs=25.0
Q ss_pred HHHHHHhhhcCCC--CCcH---HHHHHHHHHHHHHHHHHHHH
Q 036348 22 TRKRILNQIYPDI--RISS---KAMGIMNSFINDIFEKLAWE 58 (72)
Q Consensus 22 tY~kVLKqVhp~~--gISs---kam~imnSfvnDiFerIA~E 58 (72)
.|.+.-++.|||. +.+. .+-...-+.||+-|+-+-..
T Consensus 11 ~yr~lq~~~HPD~~~~~~~~~~~~a~~~s~~iN~AY~~L~~p 52 (157)
T TIGR00714 11 RYQDLQRQYHPDKFASGSAQEQLAAVQQSTTLNQAYQTLKDP 52 (157)
T ss_pred HHHHHHHHHCcCCCCCCChhhhHHHHHHHHHHHHHHHHhCCh
Confidence 5778889999996 3332 11233557899998887643
No 56
>COG2935 Putative arginyl-tRNA:protein arginylyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=32.14 E-value=47 Score=25.42 Aligned_cols=31 Identities=23% Similarity=0.290 Sum_probs=22.8
Q ss_pred hHHHHHHHhhhcCCCCCcHHHHHHHHHHHHH
Q 036348 20 LATRKRILNQIYPDIRISSKAMGIMNSFIND 50 (72)
Q Consensus 20 ~~tY~kVLKqVhp~~gISskam~imnSfvnD 50 (72)
|+-|.|-|-|+|+|-|+|..+-.=...|+.|
T Consensus 110 y~LyrrY~~~rH~~g~m~~~s~~~f~~f~~d 140 (253)
T COG2935 110 YELYRRYLDQRHADGGMSDMSFKDFAAFLED 140 (253)
T ss_pred HHHHHHHHHHHcccCCCCCccHHHHHHHHhc
Confidence 3444499999999999999876655555544
No 57
>KOG4100 consensus Uncharacterized conserved protein [Function unknown]
Probab=31.98 E-value=73 Score=22.13 Aligned_cols=30 Identities=27% Similarity=0.509 Sum_probs=21.3
Q ss_pred HHHHHHhhhcCCCCCcHHHHHHHHHHHHHHHHH
Q 036348 22 TRKRILNQIYPDIRISSKAMGIMNSFINDIFEK 54 (72)
Q Consensus 22 tY~kVLKqVhp~~gISskam~imnSfvnDiFer 54 (72)
-|.+||++ |..+.--.++|+ +.+|.|=|.|
T Consensus 15 LYkriLrl-Hr~lp~~~R~lG--D~YVkdEFrr 44 (125)
T KOG4100|consen 15 LYKRILRL-HRGLPAELRALG--DQYVKDEFRR 44 (125)
T ss_pred HHHHHHHH-HccCChHHHHHH--HHHHHHHHHH
Confidence 67788876 544444555555 9999999987
No 58
>KOG2549 consensus Transcription initiation factor TFIID, subunit TAF6 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=31.87 E-value=1.1e+02 Score=25.97 Aligned_cols=38 Identities=8% Similarity=0.187 Sum_probs=33.0
Q ss_pred CCcHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCC
Q 036348 35 RISSKAMGIMNSFINDIFEKLAWEASRLARYKKKPSIH 72 (72)
Q Consensus 35 gISskam~imnSfvnDiFerIA~EAs~L~~~nkr~Tl~ 72 (72)
.|+.++-.++---|..=.+.|+.||++.++..||.+||
T Consensus 28 nl~deaa~~La~dv~yrikEI~Q~aaKfm~hskR~kLt 65 (576)
T KOG2549|consen 28 NLNDEAALLLAEDVEYRIKEIVQDAAKFMVHSKRTKLT 65 (576)
T ss_pred ccCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCcCc
Confidence 46678888888778888889999999999999999986
No 59
>PRK14300 chaperone protein DnaJ; Provisional
Probab=31.28 E-value=1.1e+02 Score=23.41 Aligned_cols=39 Identities=23% Similarity=0.179 Sum_probs=24.6
Q ss_pred HHHHHHhhhcCCCCCcHHHHHHHHHHHHHHHHHHHHHHHH
Q 036348 22 TRKRILNQIYPDIRISSKAMGIMNSFINDIFEKLAWEASR 61 (72)
Q Consensus 22 tY~kVLKqVhp~~gISskam~imnSfvnDiFerIA~EAs~ 61 (72)
.|.+..++.|||..-+..|-.. =.-||.-||.|..+..+
T Consensus 23 ayr~la~~~HPD~~~~~~~~~~-f~~i~~Ay~~L~d~~~r 61 (372)
T PRK14300 23 AYLKLAKQYHPDTTDAKDAEKK-FKEINAAYDVLKDEQKR 61 (372)
T ss_pred HHHHHHHHHCcCCCCCcCHHHH-HHHHHHHHHHhhhHhHh
Confidence 6779999999997544333332 24566666666655433
No 60
>TIGR02349 DnaJ_bact chaperone protein DnaJ. This model represents bacterial forms of DnaJ, part of the DnaK-DnaJ-GrpE chaperone system. The three components typically are encoded by consecutive genes. DnaJ homologs occur in many genomes, typically not near DnaK and GrpE-like genes; most such genes are not included by this family. Eukaryotic (mitochondrial and chloroplast) forms are not included in the scope of this family.
Probab=31.10 E-value=1.1e+02 Score=23.13 Aligned_cols=40 Identities=20% Similarity=0.253 Sum_probs=26.7
Q ss_pred HHHHHHhhhcCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHH
Q 036348 22 TRKRILNQIYPDIRISSKAMGIMNSFINDIFEKLAWEASRL 62 (72)
Q Consensus 22 tY~kVLKqVhp~~gISskam~imnSfvnDiFerIA~EAs~L 62 (72)
.|.+.-++.|||..-+..|-..+ .-|++.||-|..+..+-
T Consensus 20 ayr~la~~~HPD~~~~~~~~~~f-~~i~~Ay~vL~d~~~R~ 59 (354)
T TIGR02349 20 AYRKLAKKYHPDRNKDKEAEEKF-KEINEAYEVLSDPEKRA 59 (354)
T ss_pred HHHHHHHHHCCCCCCCccHHHHH-HHHHHHHHHhhChHHHH
Confidence 67799999999987544443333 24677777776665543
No 61
>PRK10767 chaperone protein DnaJ; Provisional
Probab=29.73 E-value=1.3e+02 Score=23.02 Aligned_cols=39 Identities=18% Similarity=0.212 Sum_probs=25.9
Q ss_pred HHHHHHhhhcCCCCC-cHHHHHHHHHHHHHHHHHHHHHHHH
Q 036348 22 TRKRILNQIYPDIRI-SSKAMGIMNSFINDIFEKLAWEASR 61 (72)
Q Consensus 22 tY~kVLKqVhp~~gI-Sskam~imnSfvnDiFerIA~EAs~ 61 (72)
.|.+.-++.|||..- +..|...+ .-|++.||-|..+..+
T Consensus 24 ayr~la~~~HPD~~~~~~~a~~~f-~~i~~Ay~~L~d~~~r 63 (371)
T PRK10767 24 AYRKLAMKYHPDRNPGDKEAEEKF-KEIKEAYEVLSDPQKR 63 (371)
T ss_pred HHHHHHHHHCCCCCCCcHHHHHHH-HHHHHHHHHhcchhhh
Confidence 677888999999864 34444433 3467777777665544
No 62
>PRK08857 para-aminobenzoate synthase component II; Provisional
Probab=29.52 E-value=36 Score=23.33 Aligned_cols=21 Identities=14% Similarity=0.360 Sum_probs=18.7
Q ss_pred hhcCCCCCcHHHHHHHHHHHH
Q 036348 29 QIYPDIRISSKAMGIMNSFIN 49 (72)
Q Consensus 29 qVhp~~gISskam~imnSfvn 49 (72)
|=||+...+.....|++.|++
T Consensus 171 QfHPE~~~t~~g~~i~~nFl~ 191 (193)
T PRK08857 171 QFHPESIKTEQGHQLLANFLA 191 (193)
T ss_pred eeCCCcCCCcchHHHHHHHHh
Confidence 669998889999999999976
No 63
>COG2238 RPS19A Ribosomal protein S19E (S16A) [Translation, ribosomal structure and biogenesis]
Probab=29.40 E-value=50 Score=23.48 Aligned_cols=33 Identities=21% Similarity=0.412 Sum_probs=27.8
Q ss_pred HHHhhh--------cC-CCCCcHHHHHHHHHHHHHHHHHHHH
Q 036348 25 RILNQI--------YP-DIRISSKAMGIMNSFINDIFEKLAW 57 (72)
Q Consensus 25 kVLKqV--------hp-~~gISskam~imnSfvnDiFerIA~ 57 (72)
+||.|. +| +..||.+.+++|+....+|+|.++.
T Consensus 100 kilqqLE~~G~V~k~~~GR~ltp~GrsllD~~a~ei~eel~~ 141 (147)
T COG2238 100 KVLQQLEKAGLVEKTPKGRVLTPKGRSLLDRIATEIKEELEE 141 (147)
T ss_pred HHHHHHHHCCceeecCCCceeCccchhHHHHHHHHHHHHhcc
Confidence 777654 56 6889999999999999999998875
No 64
>PRK00758 GMP synthase subunit A; Validated
Probab=28.12 E-value=51 Score=22.13 Aligned_cols=20 Identities=20% Similarity=0.443 Sum_probs=17.2
Q ss_pred hhcCCCCCcHHHHHHHHHHH
Q 036348 29 QIYPDIRISSKAMGIMNSFI 48 (72)
Q Consensus 29 qVhp~~gISskam~imnSfv 48 (72)
|=||+...+.....+++.|+
T Consensus 159 QfHPE~~~~~~g~~l~~~f~ 178 (184)
T PRK00758 159 QFHPEVAHTEYGEEIFKNFL 178 (184)
T ss_pred EcCCccCCCchHHHHHHHHH
Confidence 77999887778888998887
No 65
>PRK14294 chaperone protein DnaJ; Provisional
Probab=27.96 E-value=1.4e+02 Score=22.76 Aligned_cols=40 Identities=15% Similarity=0.153 Sum_probs=24.3
Q ss_pred HHHHHHhhhcCCCCCcHHHHHHHHHHHHHHHHHHHHHHHH
Q 036348 22 TRKRILNQIYPDIRISSKAMGIMNSFINDIFEKLAWEASR 61 (72)
Q Consensus 22 tY~kVLKqVhp~~gISskam~imnSfvnDiFerIA~EAs~ 61 (72)
.|.+.-++-|||..-+..+..-.-.-+++-||-|..+..+
T Consensus 24 ayr~la~~~HPD~~~~~~~~~~~f~~~~~Ay~vL~d~~~r 63 (366)
T PRK14294 24 SYRKLAMKYHPDRNPGDKEAEELFKEAAEAYEVLSDPKKR 63 (366)
T ss_pred HHHHHHHHHCCCCCCCchHHHHHHHHHHHHHHHhccHHHH
Confidence 6778888899998654322222334456666666655543
No 66
>cd00171 Sec7 Sec7 domain; Domain named after the S. cerevisiae SEC7 gene product. The Sec7 domain is the central domain of the guanine-nucleotide-exchange factors (GEFs) of the ADP-ribosylation factor family of small GTPases (ARFs) . It carries the exchange factor activity.
Probab=27.09 E-value=1.3e+02 Score=20.85 Aligned_cols=36 Identities=14% Similarity=0.292 Sum_probs=28.9
Q ss_pred cCCchHHHHHHHhhhcCCCCCcHHHHHHHHHHHHHHHHHHHHH
Q 036348 16 RKTPLATRKRILNQIYPDIRISSKAMGIMNSFINDIFEKLAWE 58 (72)
Q Consensus 16 ~k~~~~tY~kVLKqVhp~~gISskam~imnSfvnDiFerIA~E 58 (72)
+|-+.+.|.+.++++.++-.++. .|+.+||++|..+
T Consensus 148 ~kmt~~~Fi~~~~~~~~~~~~~~-------~~L~~iY~~I~~~ 183 (185)
T cd00171 148 KKMTLEDFIKNLRGINDGEDFPR-------EFLKELYDSIKNN 183 (185)
T ss_pred CCCCHHHHHHHHhcccCCCCCCH-------HHHHHHHHHHHhC
Confidence 34577899999999888877775 5888999999865
No 67
>PF11220 DUF3015: Protein of unknown function (DUF3015); InterPro: IPR021383 This bacterial family of proteins has no known function.
Probab=26.88 E-value=73 Score=22.17 Aligned_cols=21 Identities=29% Similarity=0.351 Sum_probs=17.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 036348 41 MGIMNSFINDIFEKLAWEASR 61 (72)
Q Consensus 41 m~imnSfvnDiFerIA~EAs~ 61 (72)
..-.+.||++.||.|+.|.++
T Consensus 60 ~~k~~~Fi~~n~d~La~DiA~ 80 (144)
T PF11220_consen 60 NEKTAVFINSNMDNLAQDIAR 80 (144)
T ss_pred HHHHHHHHHHHHHHHHHHHHc
Confidence 345678999999999999874
No 68
>CHL00188 hisH imidazole glycerol phosphate synthase subunit hisH; Provisional
Probab=26.60 E-value=52 Score=23.39 Aligned_cols=20 Identities=15% Similarity=0.376 Sum_probs=17.3
Q ss_pred hhcCCCCCcHHHHHHHHHHHH
Q 036348 29 QIYPDIRISSKAMGIMNSFIN 49 (72)
Q Consensus 29 qVhp~~gISskam~imnSfvn 49 (72)
|=||+.. +.....+|+.|++
T Consensus 189 QFHPE~s-~~~G~~il~nfl~ 208 (210)
T CHL00188 189 QFHPEKS-GEFGLWLLREFMK 208 (210)
T ss_pred ecCCccc-cHhHHHHHHHHHh
Confidence 6699987 8899999999975
No 69
>PRK14298 chaperone protein DnaJ; Provisional
Probab=26.40 E-value=1.3e+02 Score=23.22 Aligned_cols=39 Identities=15% Similarity=0.189 Sum_probs=26.8
Q ss_pred HHHHHHhhhcCCCCCcHHHHHHHHHHHHHHHHHHHHHHHH
Q 036348 22 TRKRILNQIYPDIRISSKAMGIMNSFINDIFEKLAWEASR 61 (72)
Q Consensus 22 tY~kVLKqVhp~~gISskam~imnSfvnDiFerIA~EAs~ 61 (72)
.|.+.-++.|||..-+..|..-+ .-||..||-|..+..+
T Consensus 25 ayr~la~~~HPD~~~~~~~~~~f-~~i~~Ay~vL~d~~kR 63 (377)
T PRK14298 25 AYRKLAMKYHPDKNKEPDAEEKF-KEISEAYAVLSDAEKR 63 (377)
T ss_pred HHHHHHHHhCccccCChhHHHHH-HHHHHHHHHhcchHhh
Confidence 67788899999986555454444 3467777777766544
No 70
>KOG2019 consensus Metalloendoprotease HMP1 (insulinase superfamily) [General function prediction only; Posttranslational modification, protein turnover, chaperones]
Probab=26.22 E-value=84 Score=28.13 Aligned_cols=24 Identities=21% Similarity=0.353 Sum_probs=22.1
Q ss_pred CCcHHHHHHHHHHHHHHHHHHHHH
Q 036348 35 RISSKAMGIMNSFINDIFEKLAWE 58 (72)
Q Consensus 35 gISskam~imnSfvnDiFerIA~E 58 (72)
|+|.+-+.+..+.|+++|..+|.+
T Consensus 382 Gvseediekve~lV~~t~~~lae~ 405 (998)
T KOG2019|consen 382 GVSEEDIEKVEELVMNTFNKLAET 405 (998)
T ss_pred cccHHHHHHHHHHHHHHHHHHHHh
Confidence 689999999999999999999876
No 71
>PRK00074 guaA GMP synthase; Reviewed
Probab=26.03 E-value=63 Score=26.00 Aligned_cols=23 Identities=22% Similarity=0.537 Sum_probs=20.4
Q ss_pred hhcCCCCCcHHHHHHHHHHHHHH
Q 036348 29 QIYPDIRISSKAMGIMNSFINDI 51 (72)
Q Consensus 29 qVhp~~gISskam~imnSfvnDi 51 (72)
|=||+..-|...+.|+.+|+.+|
T Consensus 167 QFHPE~~~t~~G~~il~nFl~~i 189 (511)
T PRK00074 167 QFHPEVTHTPQGKKLLENFVFDI 189 (511)
T ss_pred eCCCCcCCchhHHHHHHHHHHHh
Confidence 77999998999999999999766
No 72
>PRK05670 anthranilate synthase component II; Provisional
Probab=25.47 E-value=54 Score=22.26 Aligned_cols=21 Identities=14% Similarity=0.460 Sum_probs=17.6
Q ss_pred hhcCCCCCcHHHHHHHHHHHH
Q 036348 29 QIYPDIRISSKAMGIMNSFIN 49 (72)
Q Consensus 29 qVhp~~gISskam~imnSfvn 49 (72)
|=||+...+..+-.|++.|++
T Consensus 166 QfHPE~~~~~~g~~i~~~F~~ 186 (189)
T PRK05670 166 QFHPESILTEHGHKLLENFLE 186 (189)
T ss_pred eeCCCcCCCcchHHHHHHHHH
Confidence 679998878888888888875
No 73
>PF04836 IFRD_C: Interferon-related protein conserved region; InterPro: IPR006921 This domain, primarily C-terminal, is found in a family of proteins thought to be involved in regulating gene activity in the proliferative and/or differentiative pathways induced by NGF [].
Probab=25.36 E-value=25 Score=20.89 Aligned_cols=9 Identities=56% Similarity=1.202 Sum_probs=7.0
Q ss_pred HHHHHHHHH
Q 036348 45 NSFINDIFE 53 (72)
Q Consensus 45 nSfvnDiFe 53 (72)
|.|+.|||+
T Consensus 1 Ne~lRdiF~ 9 (54)
T PF04836_consen 1 NEFLRDIFD 9 (54)
T ss_pred ChHHHHHcC
Confidence 678888886
No 74
>CHL00101 trpG anthranilate synthase component 2
Probab=25.28 E-value=60 Score=22.20 Aligned_cols=21 Identities=19% Similarity=0.499 Sum_probs=17.8
Q ss_pred hhcCCCCCcHHHHHHHHHHHH
Q 036348 29 QIYPDIRISSKAMGIMNSFIN 49 (72)
Q Consensus 29 qVhp~~gISskam~imnSfvn 49 (72)
|=||+...+.....|+..|+.
T Consensus 167 QfHPE~~~~~~g~~l~~nf~~ 187 (190)
T CHL00101 167 QFHPESLLTTHGQQILRNFLS 187 (190)
T ss_pred EeCCccCCChhHHHHHHHHHh
Confidence 669998888899999988864
No 75
>PRK14285 chaperone protein DnaJ; Provisional
Probab=25.09 E-value=1.2e+02 Score=23.20 Aligned_cols=37 Identities=19% Similarity=0.223 Sum_probs=21.6
Q ss_pred HHHHHHhhhcCCCCCc-HHHHHHHHHHHHHHHHHHHHHH
Q 036348 22 TRKRILNQIYPDIRIS-SKAMGIMNSFINDIFEKLAWEA 59 (72)
Q Consensus 22 tY~kVLKqVhp~~gIS-skam~imnSfvnDiFerIA~EA 59 (72)
.|.+..++.|||..-. ..|-..+ .-|++.||-|..+.
T Consensus 23 ayr~la~~~HPD~~~~~~~a~~~f-~~i~~Ay~vL~d~~ 60 (365)
T PRK14285 23 AYRKIAIKYHPDKNKGNKEAESIF-KEATEAYEVLIDDN 60 (365)
T ss_pred HHHHHHHHHCCCCCCCCHHHHHHH-HHHHHHHHHHcCcc
Confidence 6778999999998643 3343322 12455555554443
No 76
>COG1970 MscL Large-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]
Probab=24.86 E-value=54 Score=22.86 Aligned_cols=15 Identities=40% Similarity=0.527 Sum_probs=11.6
Q ss_pred HHHHHHHHHHHHHHH
Q 036348 41 MGIMNSFINDIFEKL 55 (72)
Q Consensus 41 m~imnSfvnDiFerI 55 (72)
-.|.+||||||.-=+
T Consensus 30 g~IV~SlV~diImPl 44 (130)
T COG1970 30 GKIVTSLVNDIIMPL 44 (130)
T ss_pred HHHHHHHHHHHHHhh
Confidence 368999999997543
No 77
>PRK14277 chaperone protein DnaJ; Provisional
Probab=24.82 E-value=1.4e+02 Score=22.99 Aligned_cols=39 Identities=23% Similarity=0.319 Sum_probs=23.8
Q ss_pred HHHHHHhhhcCCCCCc-HHHHHHHHHHHHHHHHHHHHHHHH
Q 036348 22 TRKRILNQIYPDIRIS-SKAMGIMNSFINDIFEKLAWEASR 61 (72)
Q Consensus 22 tY~kVLKqVhp~~gIS-skam~imnSfvnDiFerIA~EAs~ 61 (72)
.|.+.-++.|||..-. ..|-..+ .-||+-||-|..+..+
T Consensus 25 ayr~la~~~HPD~~~~~~~a~~~f-~~i~~Ay~vL~d~~kr 64 (386)
T PRK14277 25 AYRRLAKKYHPDLNPGDKEAEQKF-KEINEAYEILSDPQKR 64 (386)
T ss_pred HHHHHHHHHCCCcCCCchHHHHHH-HHHHHHHHHhCCHHHH
Confidence 6778889999998653 2332222 3456666666655443
No 78
>PRK01356 hscB co-chaperone HscB; Provisional
Probab=24.68 E-value=1.8e+02 Score=20.07 Aligned_cols=37 Identities=16% Similarity=0.093 Sum_probs=25.1
Q ss_pred HHHHHHHhhhcCCCCCcHHHH---HHHHHHHHHHHHHHHH
Q 036348 21 ATRKRILNQIYPDIRISSKAM---GIMNSFINDIFEKLAW 57 (72)
Q Consensus 21 ~tY~kVLKqVhp~~gISskam---~imnSfvnDiFerIA~ 57 (72)
..|.+..++.|||..-+...- ...-+.||+-|+-+..
T Consensus 23 ~aYr~lq~~~HPDk~~~~~~k~~~~~~s~~in~AY~~L~d 62 (166)
T PRK01356 23 KQYFAMQVKYHPDKAKTLQEKEQNLIIASELNNAYSTLKD 62 (166)
T ss_pred HHHHHHHHHHCcCCCCCHHHHHHHHHHHHHHHHHHHHhCC
Confidence 367789999999986553211 1235688888887764
No 79
>cd01742 GATase1_GMP_Synthase Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase. Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase. GMP synthetase is a glutamine amidotransferase from the de novo purine biosynthetic pathway. Glutamine amidotransferase (GATase) activity catalyse the transfer of ammonia from the amide side chain of glutamine to an acceptor substrate. GMP synthetase catalyses the amination of the nucleotide precursor xanthosine 5'-monophospahte to form GMP. GMP synthetase belongs to the triad family of amidotransferases having a conserved Cys-His-Glu catalytic triad in the glutaminase active site.
Probab=24.48 E-value=34 Score=22.63 Aligned_cols=20 Identities=25% Similarity=0.567 Sum_probs=15.9
Q ss_pred hhcCCCCCcHHHHHHHHHHH
Q 036348 29 QIYPDIRISSKAMGIMNSFI 48 (72)
Q Consensus 29 qVhp~~gISskam~imnSfv 48 (72)
|=||+..-+...+.++.+|+
T Consensus 162 QfHPE~~~~~~g~~ll~~f~ 181 (181)
T cd01742 162 QFHPEVTHTEKGKEILKNFL 181 (181)
T ss_pred EcCCccccCcChHHHHHhhC
Confidence 66999888778888888773
No 80
>PRK10664 transcriptional regulator HU subunit beta; Provisional
Probab=24.12 E-value=83 Score=19.56 Aligned_cols=30 Identities=23% Similarity=0.336 Sum_probs=18.5
Q ss_pred HhhhcCCCCCcHH-HHHHHHHHHHHHHHHHH
Q 036348 27 LNQIYPDIRISSK-AMGIMNSFINDIFEKLA 56 (72)
Q Consensus 27 LKqVhp~~gISsk-am~imnSfvnDiFerIA 56 (72)
++++-..+|+|.+ +-.++|+|+.-|-+.|.
T Consensus 7 i~~ia~~~~~s~~~~~~~v~~~~~~i~~~L~ 37 (90)
T PRK10664 7 IDKIAAGADISKAAAGRALDAIIASVTESLK 37 (90)
T ss_pred HHHHHHHhCCCHHHHHHHHHHHHHHHHHHHh
Confidence 4445556788874 55666776666655554
No 81
>PRK09333 30S ribosomal protein S19e; Provisional
Probab=24.07 E-value=83 Score=22.19 Aligned_cols=34 Identities=21% Similarity=0.377 Sum_probs=28.9
Q ss_pred CCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 036348 32 PDIRISSKAMGIMNSFINDIFEKLAWEASRLARY 65 (72)
Q Consensus 32 p~~gISskam~imnSfvnDiFerIA~EAs~L~~~ 65 (72)
.+.-||+++...||.+-.+|++.+..|--.|.+|
T Consensus 116 ~GR~lT~~G~~~LD~iA~~i~~~~~~~~p~l~~y 149 (150)
T PRK09333 116 KGRVITPKGRSLLDNLAAEVKKELAEERPELEKY 149 (150)
T ss_pred CCCEeCHHHHHHHHHHHHHHHHHHHhhCcccccc
Confidence 3466999999999999999999998887777666
No 82
>PF14081 DUF4262: Domain of unknown function (DUF4262)
Probab=23.83 E-value=51 Score=21.40 Aligned_cols=28 Identities=11% Similarity=0.256 Sum_probs=20.9
Q ss_pred hhcCCCCCcHHHHHHHHHHHHHHHHHHH
Q 036348 29 QIYPDIRISSKAMGIMNSFINDIFEKLA 56 (72)
Q Consensus 29 qVhp~~gISskam~imnSfvnDiFerIA 56 (72)
.-||++-|..=...++.+.+|++.+++.
T Consensus 31 ~g~PEliv~GL~~~~a~~lLn~l~~~v~ 58 (125)
T PF14081_consen 31 HGHPELIVFGLPPETAHSLLNELADRVR 58 (125)
T ss_pred CCCCCEEEECCCHHHHHHHHHHHHHHHh
Confidence 4488875555556778889999998876
No 83
>PLN02335 anthranilate synthase
Probab=23.47 E-value=76 Score=22.57 Aligned_cols=21 Identities=29% Similarity=0.515 Sum_probs=18.4
Q ss_pred hhcCCCCCcHHHHHHHHHHHH
Q 036348 29 QIYPDIRISSKAMGIMNSFIN 49 (72)
Q Consensus 29 qVhp~~gISskam~imnSfvn 49 (72)
|=||+...+.....|++.|+.
T Consensus 191 QfHPE~~~~~~g~~i~~nF~~ 211 (222)
T PLN02335 191 QFHPESIITTEGKTIVRNFIK 211 (222)
T ss_pred EeCCCCCCChhHHHHHHHHHH
Confidence 679998889999999999985
No 84
>PF06240 COXG: Carbon monoxide dehydrogenase subunit G (CoxG); InterPro: IPR010419 The CO dehydrogenase structural genes coxMSL are flanked by nine accessory genes arranged as the cox gene cluster. The cox genes are specifically and coordinately transcribed under chemolithoautotrophic conditions in the presence of CO as carbon and energy source [].; PDB: 2NS9_A 2PCS_A.
Probab=22.94 E-value=1.2e+02 Score=19.57 Aligned_cols=18 Identities=22% Similarity=0.473 Sum_probs=12.1
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 036348 42 GIMNSFINDIFEKLAWEA 59 (72)
Q Consensus 42 ~imnSfvnDiFerIA~EA 59 (72)
.+.+.+++++|++|..+.
T Consensus 122 ~~~~~l~~~f~~~l~~~l 139 (140)
T PF06240_consen 122 SVARRLIEQFFENLERKL 139 (140)
T ss_dssp HHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHhc
Confidence 455667777777777654
No 85
>PRK00294 hscB co-chaperone HscB; Provisional
Probab=22.59 E-value=1.7e+02 Score=20.45 Aligned_cols=40 Identities=15% Similarity=0.293 Sum_probs=27.4
Q ss_pred HHHHHHHhhhcCCCCCcHH------HHHHHHHHHHHHHHHHHHHHHH
Q 036348 21 ATRKRILNQIYPDIRISSK------AMGIMNSFINDIFEKLAWEASR 61 (72)
Q Consensus 21 ~tY~kVLKqVhp~~gISsk------am~imnSfvnDiFerIA~EAs~ 61 (72)
..|.+.-++.|||.-.+.. |+. .-+.||+-|+-+...-.|
T Consensus 25 ~~Yr~Lq~~~HPDk~~~~~~~e~~~a~~-~s~~IN~AY~~L~~p~~R 70 (173)
T PRK00294 25 TRYRELAREVHPDRFADAPEREQRLALE-RSASLNEAYQTLKSPPRR 70 (173)
T ss_pred HHHHHHHHHHCcCCCCCCcHHHHHHHHH-HHHHHHHHHHHhCChhhh
Confidence 3677888999999754321 233 457899999888765443
No 86
>PRK03578 hscB co-chaperone HscB; Provisional
Probab=21.94 E-value=2e+02 Score=20.12 Aligned_cols=39 Identities=15% Similarity=0.156 Sum_probs=25.1
Q ss_pred HHHHHHhhhcCCCCCc-HHH---H-HHHHHHHHHHHHHHHHHHH
Q 036348 22 TRKRILNQIYPDIRIS-SKA---M-GIMNSFINDIFEKLAWEAS 60 (72)
Q Consensus 22 tY~kVLKqVhp~~gIS-ska---m-~imnSfvnDiFerIA~EAs 60 (72)
.|.+.-+++|||.--+ +.+ + .-.-+.||+-|+.+-....
T Consensus 28 ~yr~lq~~~HPD~~~~~~~~e~~~a~~~s~~iN~AY~tL~~p~~ 71 (176)
T PRK03578 28 AYRTVQAQVHPDRFAAAGDAEKRVAMQWATRANEAYQTLRDPLK 71 (176)
T ss_pred HHHHHHHHHCcCCCCCCCHHHHHHHHHHHHHHHHHHHHhCChhh
Confidence 5778889999996332 211 1 1235789999988765433
No 87
>COG2882 FliJ Flagellar biosynthesis chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]
Probab=21.87 E-value=2.3e+02 Score=19.84 Aligned_cols=46 Identities=13% Similarity=0.188 Sum_probs=35.1
Q ss_pred hHHHH-HHHhhhcCC--CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 036348 20 LATRK-RILNQIYPD--IRISSKAMGIMNSFINDIFEKLAWEASRLARY 65 (72)
Q Consensus 20 ~~tY~-kVLKqVhp~--~gISskam~imnSfvnDiFerIA~EAs~L~~~ 65 (72)
.+.|. ....++++. .|+|..-+..++.||.-+=..|..-...|+..
T Consensus 42 l~~y~~ey~q~~~~k~~~G~s~~q~~nyq~fI~~Le~~I~q~~~~~~~~ 90 (148)
T COG2882 42 LSGYRNEYEQNLNEKLKSGVSAAQWQNYQQFISQLEVAIDQQQSQLSKL 90 (148)
T ss_pred HHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34554 566666666 59999999999999998888888777776654
No 88
>PF01741 MscL: Large-conductance mechanosensitive channel, MscL; InterPro: IPR001185 Mechanosensitive ion channels (MscL) play a critical role in transducing physical stresses at the cell membrane into an electrochemical response. MscL is a protein which forms a channel organised as a homopentamer, with each subunit containing two transmembrane regions []. Prokaryotes harbor a large-conductance mechanosensitive channel (gene mscL) that opens in response to stretch forces in the membrane lipid bilayer and may participate in the regulation of osmotic pressure changes within the cell [].; GO: 0005216 ion channel activity, 0006810 transport, 0016021 integral to membrane; PDB: 3HZQ_A 2OAR_A.
Probab=21.79 E-value=50 Score=22.33 Aligned_cols=16 Identities=44% Similarity=0.640 Sum_probs=12.2
Q ss_pred HHHHHHHHHHHHHHHH
Q 036348 41 MGIMNSFINDIFEKLA 56 (72)
Q Consensus 41 m~imnSfvnDiFerIA 56 (72)
-.|.||||+|++-=+-
T Consensus 28 ~~iV~slV~dii~Pli 43 (128)
T PF01741_consen 28 TAIVNSLVNDIIMPLI 43 (128)
T ss_dssp HHHHHHHHHHCHHHHH
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3689999999875443
No 89
>PF14745 WASH-7_N: WASH complex subunit 7, N-terminal
Probab=21.79 E-value=1.8e+02 Score=23.76 Aligned_cols=36 Identities=11% Similarity=0.285 Sum_probs=27.8
Q ss_pred CchHHHHHHHhhhcCC---CCCcHHHHHHHHHHHHHHHH
Q 036348 18 TPLATRKRILNQIYPD---IRISSKAMGIMNSFINDIFE 53 (72)
Q Consensus 18 ~~~~tY~kVLKqVhp~---~gISskam~imnSfvnDiFe 53 (72)
..|..|+|.|++|+.+ -|+..+-+.-+...+.||=+
T Consensus 183 ~~w~~ykr~l~~v~~np~~f~~~~~~l~~le~ll~~le~ 221 (567)
T PF14745_consen 183 DHWSLYKRMLKSVRHNPSKFGVTEEKLRQLEKLLADLEG 221 (567)
T ss_pred HHHHHHHHHHHHHhcChhhcCCCHHHHHHHHHHHHHHHH
Confidence 3688999999999875 45888887777777777644
No 90
>PRK14280 chaperone protein DnaJ; Provisional
Probab=21.48 E-value=1.9e+02 Score=22.23 Aligned_cols=39 Identities=21% Similarity=0.287 Sum_probs=25.0
Q ss_pred HHHHHHhhhcCCCCCcHHHHHHHHHHHHHHHHHHHHHHHH
Q 036348 22 TRKRILNQIYPDIRISSKAMGIMNSFINDIFEKLAWEASR 61 (72)
Q Consensus 22 tY~kVLKqVhp~~gISskam~imnSfvnDiFerIA~EAs~ 61 (72)
.|.+..++.|||..-...|-..+ .-|++-||-|..+..+
T Consensus 24 ayr~la~~~HpD~~~~~~a~~~f-~~i~~Ay~vL~d~~kr 62 (376)
T PRK14280 24 AYRKLSKKYHPDINKEEGADEKF-KEISEAYEVLSDDQKR 62 (376)
T ss_pred HHHHHHHHHCcCCCCCccHHHHH-HHHHHHHHHhccHhHH
Confidence 67788899999986554443333 3466666666655443
No 91
>PRK14004 hisH imidazole glycerol phosphate synthase subunit HisH; Provisional
Probab=21.40 E-value=77 Score=22.49 Aligned_cols=20 Identities=20% Similarity=0.516 Sum_probs=17.0
Q ss_pred hhcCCCCCcHHHHHHHHHHHH
Q 036348 29 QIYPDIRISSKAMGIMNSFIN 49 (72)
Q Consensus 29 qVhp~~gISskam~imnSfvn 49 (72)
|=||+.+. .....|++.|++
T Consensus 189 QFHPE~s~-~~G~~iL~nfl~ 208 (210)
T PRK14004 189 QFHPEKSH-THGLKLLENFIE 208 (210)
T ss_pred eCCcccCc-hhHHHHHHHHHh
Confidence 67999877 589999999975
No 92
>PF09123 DUF1931: Domain of unknown function (DUF1931); InterPro: IPR015207 This entry represents a set of hypothetical bacterial proteins containing a core of six alpha-helices, where one central helix is surrounded by the other five. The exact function of this family has not, as yet, been determined []. ; PDB: 1WWS_A 1WWI_A 1R4V_A.
Probab=21.39 E-value=1.4e+02 Score=20.94 Aligned_cols=18 Identities=11% Similarity=0.412 Sum_probs=13.3
Q ss_pred HHHhhhcCCCC-CcHHHHH
Q 036348 25 RILNQIYPDIR-ISSKAMG 42 (72)
Q Consensus 25 kVLKqVhp~~g-ISskam~ 42 (72)
||+|++||+.. .+.+.+.
T Consensus 113 rv~K~l~pe~knp~~eh~E 131 (138)
T PF09123_consen 113 RVFKILDPELKNPQTEHWE 131 (138)
T ss_dssp HHHHHHSTTSSS--HHHHH
T ss_pred HHHHHhCcccCCCCHHHHH
Confidence 99999999987 7766554
No 93
>PRK14299 chaperone protein DnaJ; Provisional
Probab=21.26 E-value=2.4e+02 Score=20.90 Aligned_cols=36 Identities=22% Similarity=0.248 Sum_probs=22.8
Q ss_pred HHHHHHhhhcCCCCCcHHHHHHHHHHHHHHHHHHHHH
Q 036348 22 TRKRILNQIYPDIRISSKAMGIMNSFINDIFEKLAWE 58 (72)
Q Consensus 22 tY~kVLKqVhp~~gISskam~imnSfvnDiFerIA~E 58 (72)
.|.+..++.|||..-...|-..+ ..||+-||-|..+
T Consensus 24 ayr~la~~~HPD~~~~~~~~~~f-~~i~~Ay~~L~d~ 59 (291)
T PRK14299 24 AFKKLARKYHPDVNKSPGAEEKF-KEINEAYTVLSDP 59 (291)
T ss_pred HHHHHHHHHCcCCCCChhHHHHH-HHHHHHHHHhcCH
Confidence 67799999999986444343322 3456666665544
No 94
>PRK13953 mscL large-conductance mechanosensitive channel; Provisional
Probab=21.21 E-value=73 Score=21.76 Aligned_cols=15 Identities=33% Similarity=0.481 Sum_probs=11.7
Q ss_pred HHHHHHHHHHHHHHH
Q 036348 41 MGIMNSFINDIFEKL 55 (72)
Q Consensus 41 m~imnSfvnDiFerI 55 (72)
-.|.||||+||+-=+
T Consensus 28 ~~iV~slV~dii~Pl 42 (125)
T PRK13953 28 GKIVSSLVNNIIMPL 42 (125)
T ss_pred HHHHHHHHHHHHHHH
Confidence 368899999997654
No 95
>TIGR00220 mscL large conductance mechanosensitive channel protein. Protein encodes a channel which opens in response to a membrane stretch force. Probably serves as an osmotic gauge. Carboxy terminus tends to be more divergent across species with a high degree of sequence conservation found at the N-terminus.
Probab=21.19 E-value=71 Score=21.82 Aligned_cols=13 Identities=31% Similarity=0.501 Sum_probs=10.6
Q ss_pred HHHHHHHHHHHHH
Q 036348 42 GIMNSFINDIFEK 54 (72)
Q Consensus 42 ~imnSfvnDiFer 54 (72)
.|.||||+|+.-=
T Consensus 29 ~iV~slv~diimP 41 (127)
T TIGR00220 29 KIVSSLVADIIMP 41 (127)
T ss_pred HHHHHHHHHHHHh
Confidence 5889999998753
No 96
>PF09400 DUF2002: Protein of unknown function (DUF2002); InterPro: IPR018994 This entry represents a group of putative cytoplasmic proteins. The structure of these proteins form an antiparallel beta sheet and contain some alpha helical regions. ; PDB: 2G7J_A.
Probab=21.01 E-value=86 Score=21.39 Aligned_cols=17 Identities=24% Similarity=0.638 Sum_probs=11.2
Q ss_pred CCcHHHHHHHHHHHHHHHH
Q 036348 35 RISSKAMGIMNSFINDIFE 53 (72)
Q Consensus 35 gISskam~imnSfvnDiFe 53 (72)
|.||+. +|+.|++.|||
T Consensus 95 GFsSR~--~L~~yL~~mf~ 111 (111)
T PF09400_consen 95 GFSSRM--ALERYLNKMFQ 111 (111)
T ss_dssp --S-HH--HHHHHHHHHH-
T ss_pred CcchHH--HHHHHHHHhcC
Confidence 566664 79999999996
No 97
>PRK00567 mscL large-conductance mechanosensitive channel; Reviewed
Probab=20.85 E-value=73 Score=21.87 Aligned_cols=15 Identities=27% Similarity=0.361 Sum_probs=11.5
Q ss_pred HHHHHHHHHHHHHHH
Q 036348 41 MGIMNSFINDIFEKL 55 (72)
Q Consensus 41 m~imnSfvnDiFerI 55 (72)
-.|.||||+|++-=+
T Consensus 28 ~~iV~slV~diimPl 42 (134)
T PRK00567 28 GKIVSSLVDDIIMPP 42 (134)
T ss_pred HHHHHHHHHHHHHHh
Confidence 368999999996544
No 98
>TIGR00566 trpG_papA glutamine amidotransferase of anthranilate synthase or aminodeoxychorismate synthase. This model describes the glutamine amidotransferase domain or peptide of the tryptophan-biosynthetic pathway enzyme anthranilate synthase or of the folate biosynthetic pathway enzyme para-aminobenzoate synthase. In at least one case, a single polypeptide from Bacillus subtilis was shown to have both functions. This model covers a subset of the sequences described by the pfam model GATase.
Probab=20.62 E-value=60 Score=22.22 Aligned_cols=21 Identities=19% Similarity=0.472 Sum_probs=18.3
Q ss_pred hhcCCCCCcHHHHHHHHHHHH
Q 036348 29 QIYPDIRISSKAMGIMNSFIN 49 (72)
Q Consensus 29 qVhp~~gISskam~imnSfvn 49 (72)
|=||+.-.+.....|+..|+.
T Consensus 167 QfHPE~~~t~~G~~il~nfl~ 187 (188)
T TIGR00566 167 QFHPESILSEQGHQLLANFLH 187 (188)
T ss_pred EeCCCccCCcccHHHHHHHHh
Confidence 669998889999999999974
No 99
>PRK14297 chaperone protein DnaJ; Provisional
Probab=20.55 E-value=2.1e+02 Score=22.05 Aligned_cols=37 Identities=16% Similarity=0.179 Sum_probs=23.6
Q ss_pred HHHHHHhhhcCCCCCc-HHHHHHHHHHHHHHHHHHHHHH
Q 036348 22 TRKRILNQIYPDIRIS-SKAMGIMNSFINDIFEKLAWEA 59 (72)
Q Consensus 22 tY~kVLKqVhp~~gIS-skam~imnSfvnDiFerIA~EA 59 (72)
.|.+.-++.|||..-+ ..|...+ .-||+-||-|..+.
T Consensus 24 ayr~la~~~HPD~~~~~~~a~~~f-~~i~~Ay~vL~d~~ 61 (380)
T PRK14297 24 AFRKLAIKYHPDKNKGNKEAEEKF-KEINEAYQVLSDPQ 61 (380)
T ss_pred HHHHHHHHHCcCCCCCcHHHHHHH-HHHHHHHHHhcCHh
Confidence 6778999999998653 3444433 34566666555543
No 100
>PLN00157 histone H2A; Provisional
Probab=20.46 E-value=3e+02 Score=19.02 Aligned_cols=42 Identities=31% Similarity=0.298 Sum_probs=25.1
Q ss_pred HHHhhhcCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHH----HhhcCCCC
Q 036348 25 RILNQIYPDIRISSKAMGIMNSFINDIFEKLAWEASRL----ARYKKKPS 70 (72)
Q Consensus 25 kVLKqVhp~~gISskam~imnSfvnDiFerIA~EAs~L----~~~nkr~T 70 (72)
|.|++-....-|+.-|.- |+-.+.|-|+.|...| ++-+++.-
T Consensus 34 R~Lk~g~~a~RIg~~A~V----YLAAVLEYLtaEVLELAgnaa~d~kk~R 79 (132)
T PLN00157 34 RYLKAGKYATRVGAGAPV----YLAAVLEYLAAEVLELAGNAARDNKKSR 79 (132)
T ss_pred HHHhcCchhhhcCCCcHh----HHHHHHHHHHHHHHHHHHHHHHhcCCcc
Confidence 889987666678887776 4444445555554444 44455443
No 101
>TIGR03835 termin_org_DnaJ terminal organelle assembly protein TopJ. This model describes TopJ (MG_200, CbpA), a DnaJ homolog and probable assembly protein of the Mycoplasma terminal organelle. The terminal organelle is involved in both cytadherence and gliding motility.
Probab=20.44 E-value=1.9e+02 Score=25.93 Aligned_cols=39 Identities=18% Similarity=0.218 Sum_probs=26.0
Q ss_pred HHHHHHHhhhcCCCCCcHHHHHHHHHHHHHHHHHHHHHHH
Q 036348 21 ATRKRILNQIYPDIRISSKAMGIMNSFINDIFEKLAWEAS 60 (72)
Q Consensus 21 ~tY~kVLKqVhp~~gISskam~imnSfvnDiFerIA~EAs 60 (72)
..|.+..++.|||.+-+..+...+. -|+..|+-|.....
T Consensus 21 KAYRKLAKKyHPDKn~~~eAeekFq-eINEAYEVLSDP~K 59 (871)
T TIGR03835 21 KAFRKLAKKYHPDRNKAPDAASIFA-EINEANDVLSNPKK 59 (871)
T ss_pred HHHHHHHHHHCcCCCCChhHHHHHH-HHHHHHHHhCCHHH
Confidence 3677999999999977655544332 35666666655443
No 102
>PRK13952 mscL large-conductance mechanosensitive channel; Provisional
Probab=20.44 E-value=77 Score=22.00 Aligned_cols=14 Identities=29% Similarity=0.631 Sum_probs=11.2
Q ss_pred HHHHHHHHHHHHHH
Q 036348 42 GIMNSFINDIFEKL 55 (72)
Q Consensus 42 ~imnSfvnDiFerI 55 (72)
.|.||||+||.-=+
T Consensus 31 ~IV~SlV~diImPl 44 (142)
T PRK13952 31 KIVDSLVNDLIMPI 44 (142)
T ss_pred HHHHHHHHHHHHHH
Confidence 68999999987544
No 103
>PF02291 TFIID-31kDa: Transcription initiation factor IID, 31kD subunit; InterPro: IPR003162 Human transcription initiation factor TFIID is composed of the TATA-binding polypeptide (TBP) and at least 13 TBP-associated factors (TAFs) that collectively or individually are involved in activator-dependent transcription []. TAFII-31 protein is a transcriptional coactivator of the p53 protein [].; GO: 0006352 transcription initiation, DNA-dependent; PDB: 1TAF_A.
Probab=20.28 E-value=2.4e+02 Score=19.16 Aligned_cols=48 Identities=13% Similarity=0.195 Sum_probs=26.5
Q ss_pred HHHhhhcCCCCCcHH---HHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCC
Q 036348 25 RILNQIYPDIRISSK---AMGIMNSFINDIFEKLAWEASRLARYKKKPSIH 72 (72)
Q Consensus 25 kVLKqVhp~~gISsk---am~imnSfvnDiFerIA~EAs~L~~~nkr~Tl~ 72 (72)
+++.++-.++||+.- ....|-.|..---..|=.+|...+.+.++.+|+
T Consensus 16 ~~i~~iL~~~Gv~~yeprVv~qLLEfayRYt~~vL~DA~~ya~hA~~~~i~ 66 (129)
T PF02291_consen 16 RVIHLILKSMGVTEYEPRVVNQLLEFAYRYTSDVLEDAQVYADHAGRSTID 66 (129)
T ss_dssp HHHHHHHHHTT---B-THHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSB-
T ss_pred HHHHHHHHHcCCcccCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccCC
Confidence 666666667888653 333333333333344556788888888888764
No 104
>PF04377 ATE_C: Arginine-tRNA-protein transferase, C terminus; InterPro: IPR007472 Arginine-tRNA-protein transferase catalyses the post-translational conjugation of arginine to the N terminus of a protein. In eukaryotes, this functions as part of the N terminus rule pathway of protein degradation by conjugating a destabilising amino acid to the N-terminal aspartate or glutamate of a protein, targeting the protein for ubiquitin-dependent proteolysis. N-terminal cysteine is sometimes modified []. In Saccharomyces cerevisiae, Cys20, 23, 94 and/or 95 are thought to be important for activity []. Of these, only Cys 94 appears to be completely conserved in this family. This entry represents the C-terminal region of the enzyme arginine-tRNA-protein transferase, found in both eukaryotic and prokaryotic enzymes.; GO: 0004057 arginyltransferase activity, 0016598 protein arginylation
Probab=20.23 E-value=1.1e+02 Score=20.50 Aligned_cols=31 Identities=13% Similarity=0.088 Sum_probs=24.0
Q ss_pred chHHHHHHHhhhcCCCCCcHHHHHHHHHHHH
Q 036348 19 PLATRKRILNQIYPDIRISSKAMGIMNSFIN 49 (72)
Q Consensus 19 ~~~tY~kVLKqVhp~~gISskam~imnSfvn 49 (72)
.|+-|.|-+..+|+|-+.+.....-..+|+.
T Consensus 3 ~~~Ly~rY~~~rH~~~~~~~~~~~~y~~fl~ 33 (128)
T PF04377_consen 3 HYELYERYQMARHPDGDMDPPSQEQYRRFLC 33 (128)
T ss_pred hHHHHHHHHHHhCCCCCCCCcCHHHHHHHHh
Confidence 5677889999999999988776565666653
No 105
>PF05075 DUF684: Protein of unknown function (DUF684); InterPro: IPR007767 This family contains uncharacterised proteins from Caenorhabditis elegans.
Probab=20.21 E-value=1.2e+02 Score=23.19 Aligned_cols=23 Identities=30% Similarity=0.574 Sum_probs=17.5
Q ss_pred HHHHHH--HHHHHHHHHHHHHHHhh
Q 036348 43 IMNSFI--NDIFEKLAWEASRLARY 65 (72)
Q Consensus 43 imnSfv--nDiFerIA~EAs~L~~~ 65 (72)
=|.+|| ++.|..|+.+|+-|.+|
T Consensus 24 ~lk~fi~e~~f~~~i~~~~~~L~~~ 48 (345)
T PF05075_consen 24 DLKAFITENNFYMEIISPASTLMKY 48 (345)
T ss_pred HHHHHcchhhhHHHHHHHHHHHHHH
Confidence 466665 56788888888888887
No 106
>PRK14287 chaperone protein DnaJ; Provisional
Probab=20.21 E-value=2.1e+02 Score=22.06 Aligned_cols=37 Identities=11% Similarity=0.267 Sum_probs=23.6
Q ss_pred HHHHHHhhhcCCCCCcHHHHHHHHHHHHHHHHHHHHHH
Q 036348 22 TRKRILNQIYPDIRISSKAMGIMNSFINDIFEKLAWEA 59 (72)
Q Consensus 22 tY~kVLKqVhp~~gISskam~imnSfvnDiFerIA~EA 59 (72)
.|.+.-++.|||..-+..|-..+ .-||.-||-|..+.
T Consensus 24 ayr~la~~~HpD~~~~~~~~~~f-~~i~~Ay~~L~d~~ 60 (371)
T PRK14287 24 AYRKLARKYHPDVNKAPDAEDKF-KEVKEAYDTLSDPQ 60 (371)
T ss_pred HHHHHHHHHCcCCCCChhHHHHH-HHHHHHHHHhCcHh
Confidence 67788899999986544443322 34666666665544
No 107
>PRK07452 DNA polymerase III subunit delta; Validated
Probab=20.17 E-value=2e+02 Score=20.75 Aligned_cols=40 Identities=18% Similarity=0.320 Sum_probs=32.6
Q ss_pred CCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHhh--cCCCCCC
Q 036348 33 DIRISSKAMGIMNSFINDIFEKLAWEASRLARY--KKKPSIH 72 (72)
Q Consensus 33 ~~gISskam~imnSfvnDiFerIA~EAs~L~~~--nkr~Tl~ 72 (72)
+..|+..|...+=..+..=.-++..|.-+|+.| .+..+|+
T Consensus 147 g~~i~~~a~~~L~~~~g~dl~~l~~EleKL~ly~~~~~~~It 188 (326)
T PRK07452 147 GVKLTPEAAELLAEAVGNDSRRLYNELEKLALYAENSTKPIS 188 (326)
T ss_pred CCCCCHHHHHHHHHHhCccHHHHHHHHHHHHHhccCCCCccC
Confidence 578999999988888877778999999999999 4455553
No 108
>PRK13955 mscL large-conductance mechanosensitive channel; Provisional
Probab=20.03 E-value=80 Score=21.71 Aligned_cols=15 Identities=33% Similarity=0.512 Sum_probs=11.8
Q ss_pred HHHHHHHHHHHHHHH
Q 036348 41 MGIMNSFINDIFEKL 55 (72)
Q Consensus 41 m~imnSfvnDiFerI 55 (72)
-.|.||||+|++-=+
T Consensus 28 ~~iV~slV~dii~Pl 42 (130)
T PRK13955 28 GKIVSSLVKDIITPL 42 (130)
T ss_pred HHHHHHHHHHHHHHH
Confidence 468999999998544
Done!