Query psy13186
Match_columns 170
No_of_seqs 175 out of 533
Neff 4.8
Searched_HMMs 46136
Date Fri Aug 16 22:19:39 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy13186.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/13186hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0871|consensus 100.0 1.4E-50 3.1E-55 320.8 14.5 129 10-138 5-134 (156)
2 COG5150 Class 2 transcription 100.0 3.7E-41 8.1E-46 262.4 13.0 128 11-138 5-133 (148)
3 KOG0869|consensus 100.0 3.9E-32 8.4E-37 217.7 9.7 98 11-108 26-124 (168)
4 KOG0870|consensus 99.9 1.3E-25 2.7E-30 181.3 10.0 97 12-108 5-103 (172)
5 PF00808 CBFD_NFYB_HMF: Histon 99.7 6.6E-18 1.4E-22 115.9 8.0 63 17-80 2-65 (65)
6 COG2036 HHT1 Histones H3 and H 99.6 2.1E-15 4.5E-20 111.9 6.7 77 12-89 14-90 (91)
7 cd00076 H4 Histone H4, one of 99.0 2.3E-09 4.9E-14 78.7 8.6 71 17-88 13-83 (85)
8 PLN00035 histone H4; Provision 98.9 6.8E-09 1.5E-13 78.8 8.6 72 16-88 28-99 (103)
9 PTZ00015 histone H4; Provision 98.9 1.6E-08 3.4E-13 76.6 8.6 73 15-88 28-100 (102)
10 cd07981 TAF12 TATA Binding Pro 98.8 4E-08 8.6E-13 69.4 8.5 65 18-82 2-66 (72)
11 PF00125 Histone: Core histone 98.8 2.3E-08 4.9E-13 69.5 6.9 67 15-81 3-73 (75)
12 smart00803 TAF TATA box bindin 98.7 6.3E-08 1.4E-12 67.5 7.7 64 17-81 2-65 (65)
13 smart00417 H4 Histone H4. 98.6 1.5E-07 3.2E-12 67.6 6.5 63 16-79 12-74 (74)
14 smart00428 H3 Histone H3. 98.3 2E-06 4.4E-11 65.5 6.9 69 13-81 25-99 (105)
15 COG5208 HAP5 CCAAT-binding fac 98.2 1.3E-06 2.7E-11 74.7 4.1 78 14-92 106-184 (286)
16 smart00576 BTP Bromodomain tra 98.1 3.1E-05 6.7E-10 55.0 8.4 65 20-86 9-74 (77)
17 cd00074 H2A Histone 2A; H2A is 98.1 1.7E-05 3.6E-10 61.2 7.1 70 13-82 16-85 (115)
18 KOG1657|consensus 98.0 7.5E-06 1.6E-10 70.0 4.9 75 14-89 71-146 (236)
19 smart00427 H2B Histone H2B. 97.9 6.3E-05 1.4E-09 55.9 7.6 64 21-84 5-68 (89)
20 cd08048 TAF11 TATA Binding Pro 97.7 0.0002 4.4E-09 52.5 7.9 67 17-84 16-85 (85)
21 PF03847 TFIID_20kDa: Transcri 97.7 0.00023 5E-09 50.2 7.5 63 20-82 2-64 (68)
22 PF15630 CENP-S: Kinetochore c 97.7 0.00018 3.9E-09 51.8 7.0 60 22-81 10-71 (76)
23 PLN00158 histone H2B; Provisio 97.7 0.00022 4.8E-09 55.3 7.7 65 19-83 29-93 (116)
24 cd08050 TAF6 TATA Binding Prot 97.7 0.00018 3.8E-09 63.9 8.2 66 19-86 1-67 (343)
25 PLN00121 histone H3; Provision 97.7 9.3E-05 2E-09 58.8 5.4 68 13-80 58-129 (136)
26 PTZ00463 histone H2B; Provisio 97.6 0.00026 5.7E-09 55.0 7.6 63 22-84 33-95 (117)
27 PLN00160 histone H3; Provision 97.6 0.00012 2.5E-09 55.2 5.4 68 13-80 17-89 (97)
28 PF04719 TAFII28: hTAFII28-lik 97.6 0.00031 6.8E-09 52.2 7.4 67 17-83 23-90 (90)
29 PLN00161 histone H3; Provision 97.6 0.00016 3.4E-09 57.5 6.0 68 13-80 51-123 (135)
30 cd07979 TAF9 TATA Binding Prot 97.6 0.00041 8.8E-09 53.4 7.9 76 22-98 6-82 (117)
31 PTZ00018 histone H3; Provision 97.6 0.00014 3E-09 57.8 5.5 68 13-80 58-129 (136)
32 PF07524 Bromo_TP: Bromodomain 97.5 0.001 2.2E-08 46.8 8.4 65 22-86 7-74 (77)
33 PF09415 CENP-X: CENP-S associ 97.4 0.00022 4.8E-09 50.8 4.4 64 19-82 1-67 (72)
34 KOG1659|consensus 97.3 0.00067 1.4E-08 57.6 7.0 109 16-126 12-124 (224)
35 PF15511 CENP-T: Centromere ki 97.3 0.00071 1.5E-08 61.7 6.7 63 13-75 347-414 (414)
36 PF15510 CENP-W: Centromere ki 97.2 0.00056 1.2E-08 51.4 4.8 67 16-82 15-95 (102)
37 KOG3467|consensus 97.2 0.002 4.3E-08 48.2 7.1 68 17-86 29-97 (103)
38 PF02969 TAF: TATA box binding 96.8 0.011 2.3E-07 41.7 8.0 64 17-81 3-66 (66)
39 COG5262 HTA1 Histone H2A [Chro 96.6 0.0063 1.4E-07 47.7 6.1 70 13-82 22-91 (132)
40 smart00414 H2A Histone 2A. 96.6 0.0076 1.7E-07 45.9 6.4 69 14-82 6-74 (106)
41 KOG1744|consensus 96.6 0.0086 1.9E-07 47.2 6.8 61 23-83 43-103 (127)
42 COG5247 BUR6 Class 2 transcrip 96.5 0.0075 1.6E-07 46.2 5.9 79 16-95 22-101 (113)
43 PF02269 TFIID-18kDa: Transcri 96.4 0.004 8.6E-08 46.0 3.9 60 23-82 7-66 (93)
44 KOG3219|consensus 96.2 0.0068 1.5E-07 50.8 4.1 70 17-87 112-182 (195)
45 PTZ00017 histone H2A; Provisio 96.0 0.018 3.9E-07 45.8 5.8 70 13-82 23-92 (134)
46 PLN00154 histone H2A; Provisio 95.8 0.035 7.7E-07 44.2 6.4 69 14-82 35-104 (136)
47 KOG1142|consensus 95.7 0.024 5.1E-07 49.4 5.6 70 13-82 150-219 (258)
48 KOG1756|consensus 95.6 0.039 8.5E-07 43.6 6.0 69 13-81 23-91 (131)
49 PLN00157 histone H2A; Provisio 95.6 0.032 6.9E-07 44.2 5.5 70 13-82 22-91 (132)
50 PLN00156 histone H2AX; Provisi 95.6 0.039 8.4E-07 44.1 6.0 70 13-82 25-94 (139)
51 PLN00153 histone H2A; Provisio 95.5 0.035 7.5E-07 43.9 5.6 70 13-82 20-89 (129)
52 cd07978 TAF13 The TATA Binding 95.1 0.16 3.5E-06 37.6 7.6 73 21-96 6-78 (92)
53 KOG1745|consensus 94.9 0.018 3.9E-07 45.9 2.2 70 13-82 59-132 (137)
54 KOG1658|consensus 94.3 0.033 7.2E-07 45.4 2.5 67 16-83 58-125 (162)
55 PTZ00252 histone H2A; Provisio 93.2 0.33 7.2E-06 38.6 6.3 66 13-82 21-92 (134)
56 PF02291 TFIID-31kDa: Transcri 91.1 1.7 3.6E-05 34.2 7.9 85 13-99 6-94 (129)
57 KOG3423|consensus 89.2 2.5 5.3E-05 35.1 7.7 69 16-86 85-168 (176)
58 TIGR03015 pepcterm_ATPase puta 89.0 1.7 3.7E-05 35.6 6.9 68 18-85 192-268 (269)
59 PRK00411 cdc6 cell division co 88.6 2.3 5.1E-05 37.1 7.8 69 20-88 209-287 (394)
60 KOG4336|consensus 86.6 4.7 0.0001 36.3 8.5 64 35-100 22-85 (323)
61 PF07499 RuvA_C: RuvA, C-termi 84.7 2.6 5.6E-05 27.1 4.5 38 74-126 4-41 (47)
62 cd08045 TAF4 TATA Binding Prot 83.9 17 0.00038 30.1 10.3 72 13-84 40-120 (212)
63 TIGR02928 orc1/cdc6 family rep 82.2 6.7 0.00015 33.8 7.5 74 20-93 201-284 (365)
64 COG1067 LonB Predicted ATP-dep 82.1 1.5 3.1E-05 42.8 3.6 34 48-82 365-398 (647)
65 KOG2389|consensus 79.8 4.6 0.0001 36.8 5.7 73 13-86 25-97 (353)
66 PRK12402 replication factor C 79.3 24 0.00053 29.8 9.8 111 17-134 183-296 (337)
67 KOG2549|consensus 79.0 8.5 0.00018 37.2 7.5 65 19-84 13-77 (576)
68 TIGR01128 holA DNA polymerase 78.5 13 0.00029 30.9 7.9 70 17-86 110-181 (302)
69 TIGR02902 spore_lonB ATP-depen 76.8 9.3 0.0002 35.9 7.1 68 20-91 265-337 (531)
70 PF13335 Mg_chelatase_2: Magne 76.2 11 0.00023 27.8 5.9 48 34-81 41-94 (96)
71 PRK00080 ruvB Holliday junctio 73.6 17 0.00036 31.5 7.4 71 17-87 179-254 (328)
72 TIGR00764 lon_rel lon-related 73.1 14 0.00031 35.5 7.4 49 35-83 330-391 (608)
73 PF13654 AAA_32: AAA domain; P 71.3 13 0.00027 35.2 6.5 48 35-82 447-505 (509)
74 PF02861 Clp_N: Clp amino term 70.9 4.1 8.9E-05 25.5 2.3 26 59-84 1-26 (53)
75 TIGR02442 Cob-chelat-sub cobal 69.4 18 0.00038 34.8 7.1 54 28-81 242-302 (633)
76 KOG3334|consensus 69.3 22 0.00049 28.8 6.6 83 16-100 10-96 (148)
77 TIGR00635 ruvB Holliday juncti 69.2 24 0.00052 29.7 7.2 69 18-86 159-232 (305)
78 PRK00440 rfc replication facto 68.8 24 0.00052 29.5 7.1 64 18-83 161-226 (319)
79 PRK07452 DNA polymerase III su 65.9 24 0.00053 30.1 6.7 67 22-88 134-204 (326)
80 PRK13406 bchD magnesium chelat 65.0 16 0.00034 35.2 5.8 59 22-81 183-248 (584)
81 PRK05574 holA DNA polymerase I 64.9 41 0.00088 28.6 7.9 68 17-84 145-214 (340)
82 TIGR02030 BchI-ChlI magnesium 64.7 30 0.00065 30.9 7.2 54 27-80 246-306 (337)
83 cd04752 Commd4 COMM_Domain con 61.6 36 0.00079 27.4 6.6 51 47-104 43-94 (174)
84 TIGR02031 BchD-ChlD magnesium 56.0 40 0.00086 32.3 6.8 55 27-81 195-256 (589)
85 CHL00081 chlI Mg-protoporyphyr 55.9 33 0.00071 31.0 6.0 54 27-80 259-319 (350)
86 COG5251 TAF40 Transcription in 53.9 18 0.0004 30.3 3.7 62 17-79 115-177 (199)
87 PF07647 SAM_2: SAM domain (St 53.6 16 0.00034 24.0 2.8 25 70-94 3-27 (66)
88 PF08369 PCP_red: Proto-chloro 53.6 24 0.00052 22.7 3.5 40 39-79 4-44 (45)
89 PRK07914 hypothetical protein; 52.6 38 0.00083 29.3 5.7 63 19-82 129-193 (320)
90 KOG1757|consensus 51.9 40 0.00086 26.5 5.0 64 14-81 27-95 (131)
91 PRK13765 ATP-dependent proteas 49.0 44 0.00096 32.6 6.0 47 35-81 339-398 (637)
92 PRK09862 putative ATP-dependen 48.5 66 0.0014 30.6 6.9 57 34-90 437-499 (506)
93 PF08621 RPAP1_N: RPAP1-like, 48.5 18 0.00038 24.0 2.3 18 116-133 13-30 (49)
94 PRK13407 bchI magnesium chelat 47.8 63 0.0014 28.9 6.4 53 28-80 244-303 (334)
95 PTZ00361 26 proteosome regulat 47.5 28 0.00062 32.3 4.3 69 15-83 350-424 (438)
96 PF00536 SAM_1: SAM domain (St 47.4 20 0.00042 23.4 2.4 23 72-94 4-26 (64)
97 TIGR00368 Mg chelatase-related 47.2 49 0.0011 31.2 5.9 47 35-81 445-497 (499)
98 PRK06585 holA DNA polymerase I 47.1 86 0.0019 27.0 7.0 65 20-84 144-211 (343)
99 PF00531 Death: Death domain; 46.9 39 0.00085 22.7 4.0 28 69-96 56-83 (83)
100 KOG3901|consensus 43.5 71 0.0015 24.7 5.2 47 33-82 25-71 (109)
101 cd00166 SAM Sterile alpha moti 43.0 18 0.0004 22.8 1.7 24 72-95 3-26 (63)
102 PF03540 TFIID_30kDa: Transcri 42.8 1E+02 0.0022 20.7 6.1 46 17-64 2-48 (51)
103 PF07928 Vps54: Vps54-like pro 41.5 21 0.00046 27.9 2.2 34 66-99 63-97 (135)
104 TIGR02903 spore_lon_C ATP-depe 41.2 75 0.0016 30.6 6.2 70 21-90 356-437 (615)
105 PF13405 EF-hand_6: EF-hand do 40.7 36 0.00078 19.3 2.6 26 59-84 5-31 (31)
106 KOG2680|consensus 40.6 94 0.002 28.9 6.4 49 33-81 375-427 (454)
107 PF09339 HTH_IclR: IclR helix- 39.9 18 0.00038 23.1 1.3 17 14-30 26-42 (52)
108 COG1224 TIP49 DNA helicase TIP 38.6 84 0.0018 29.6 5.8 61 20-80 363-429 (450)
109 COG5095 TAF6 Transcription ini 38.5 1.2E+02 0.0027 28.0 6.8 59 28-86 15-73 (450)
110 PRK14971 DNA polymerase III su 38.0 72 0.0016 30.8 5.6 72 18-90 180-253 (614)
111 PRK08487 DNA polymerase III su 37.9 1.8E+02 0.0038 25.3 7.6 61 20-82 137-199 (328)
112 KOG0188|consensus 36.9 2.8E+02 0.0062 28.3 9.4 66 22-87 338-408 (895)
113 COG5162 Transcription initiati 35.9 2.2E+02 0.0047 23.9 7.3 53 34-86 103-189 (197)
114 smart00454 SAM Sterile alpha m 35.9 26 0.00056 22.2 1.6 26 70-95 3-28 (68)
115 COG1500 Predicted exosome subu 35.1 1.3E+02 0.0028 26.2 6.1 71 23-96 72-146 (234)
116 PF05236 TAF4: Transcription i 35.0 54 0.0012 27.9 3.9 72 13-84 39-119 (264)
117 COG1466 HolA DNA polymerase II 35.0 1.8E+02 0.0038 25.5 7.1 65 23-87 145-211 (334)
118 PF13690 CheX: Chemotaxis phos 34.6 1.1E+02 0.0023 21.7 4.8 46 15-63 16-61 (94)
119 PF00356 LacI: Bacterial regul 34.5 97 0.0021 19.9 4.1 32 16-50 9-40 (46)
120 PF02361 CbiQ: Cobalt transpor 34.5 62 0.0013 25.5 3.9 38 69-106 123-172 (224)
121 smart00350 MCM minichromosome 33.7 2E+02 0.0044 26.8 7.7 67 16-82 416-503 (509)
122 COG1474 CDC6 Cdc6-related prot 33.4 1.6E+02 0.0035 26.5 6.8 72 21-92 193-274 (366)
123 TIGR02454 CbiQ_TIGR cobalt ABC 32.8 75 0.0016 25.1 4.1 38 69-106 112-160 (198)
124 COG4800 Predicted transcriptio 32.7 16 0.00034 29.9 0.2 61 16-76 39-103 (170)
125 TIGR02397 dnaX_nterm DNA polym 32.5 1.2E+02 0.0025 26.0 5.5 62 20-82 178-241 (355)
126 smart00027 EH Eps15 homology d 31.4 1.1E+02 0.0023 21.7 4.3 37 58-96 14-50 (96)
127 PRK14961 DNA polymerase III su 30.5 1.3E+02 0.0028 26.6 5.6 65 18-87 178-248 (363)
128 PRK05629 hypothetical protein; 29.7 1.8E+02 0.0039 25.0 6.2 62 20-82 128-191 (318)
129 TIGR01242 26Sp45 26S proteasom 29.6 72 0.0016 28.0 3.8 32 51-82 331-362 (364)
130 cd07594 BAR_Endophilin_B The B 29.3 1.6E+02 0.0035 25.1 5.8 21 87-107 119-140 (229)
131 COG1724 Predicted RNA binding 29.3 37 0.00079 24.1 1.5 17 70-86 6-22 (66)
132 COG1239 ChlI Mg-chelatase subu 29.2 99 0.0021 29.1 4.7 54 28-81 260-320 (423)
133 KOG1029|consensus 29.1 2.2E+02 0.0049 29.4 7.4 21 143-163 428-448 (1118)
134 PRK03992 proteasome-activating 28.9 74 0.0016 28.6 3.8 35 51-85 340-374 (389)
135 COG5126 FRQ1 Ca2+-binding prot 28.6 3.2E+02 0.007 22.2 9.2 72 13-90 32-110 (160)
136 PRK09526 lacI lac repressor; R 27.9 40 0.00087 28.2 1.9 38 16-57 15-52 (342)
137 cd07617 BAR_Endophilin_B2 The 27.3 1.8E+02 0.0038 24.9 5.6 46 87-136 119-175 (220)
138 PRK10339 DNA-binding transcrip 27.0 71 0.0015 26.7 3.2 34 17-51 12-45 (327)
139 KOG0605|consensus 26.9 72 0.0016 30.9 3.5 75 17-96 391-471 (550)
140 PF01418 HTH_6: Helix-turn-hel 26.9 75 0.0016 21.9 2.8 34 59-95 37-70 (77)
141 PRK07764 DNA polymerase III su 26.5 1.5E+02 0.0033 29.9 5.8 61 18-78 179-241 (824)
142 KOG2357|consensus 26.3 4.9E+02 0.011 24.7 8.6 126 2-146 302-434 (440)
143 PF00403 HMA: Heavy-metal-asso 26.3 44 0.00096 21.4 1.5 16 71-86 47-62 (62)
144 PF09114 MotA_activ: Transcrip 26.1 1E+02 0.0022 23.3 3.5 33 21-53 51-88 (96)
145 PRK14970 DNA polymerase III su 26.1 1.6E+02 0.0034 25.7 5.3 65 20-85 169-235 (367)
146 PRK05907 hypothetical protein; 25.7 1.5E+02 0.0033 26.1 5.1 66 21-86 137-207 (311)
147 TIGR00344 alaS alanine--tRNA l 25.4 7.3E+02 0.016 25.2 10.4 71 22-92 330-405 (851)
148 PRK09111 DNA polymerase III su 25.0 1.7E+02 0.0038 28.2 5.8 63 18-81 191-255 (598)
149 PRK00117 recX recombination re 24.8 2.2E+02 0.0047 21.9 5.4 66 59-125 28-97 (157)
150 smart00354 HTH_LACI helix_turn 24.6 1.5E+02 0.0032 20.0 3.9 32 16-50 10-41 (70)
151 PRK14987 gluconate operon tran 24.0 48 0.001 27.8 1.6 37 17-57 16-52 (331)
152 PRK10423 transcriptional repre 23.9 62 0.0013 26.8 2.3 37 17-57 9-45 (327)
153 PRK14955 DNA polymerase III su 23.8 2E+02 0.0043 25.8 5.6 63 18-80 186-254 (397)
154 PRK14964 DNA polymerase III su 23.5 1.8E+02 0.0039 27.5 5.5 62 18-80 175-238 (491)
155 PRK14135 recX recombination re 23.3 4.2E+02 0.009 22.1 7.2 109 13-125 21-144 (263)
156 PRK14958 DNA polymerase III su 23.0 2.1E+02 0.0046 27.0 5.8 70 18-92 178-253 (509)
157 PF03484 B5: tRNA synthetase B 23.0 48 0.001 22.6 1.2 17 70-86 18-34 (70)
158 PF08823 PG_binding_2: Putativ 22.8 1.5E+02 0.0033 20.9 3.8 31 74-104 19-55 (74)
159 PRK03902 manganese transport t 22.7 2.4E+02 0.0052 21.3 5.2 85 14-100 30-134 (142)
160 PTZ00454 26S protease regulato 22.5 1.1E+02 0.0025 27.8 3.8 32 52-83 355-386 (398)
161 cd01392 HTH_LacI Helix-turn-he 22.3 1.7E+02 0.0038 17.8 3.7 32 16-50 7-38 (52)
162 PF12627 PolyA_pol_RNAbd: Prob 22.3 12 0.00027 24.5 -1.9 58 34-95 2-63 (64)
163 PTZ00184 calmodulin; Provision 22.0 3E+02 0.0066 19.6 5.6 38 59-96 89-126 (149)
164 PF12116 SpoIIID: Stage III sp 22.0 41 0.00088 24.8 0.7 32 14-45 27-60 (82)
165 KOG1792|consensus 21.7 1.3E+02 0.0028 25.8 3.8 55 30-84 110-166 (230)
166 PF11625 DUF3253: Protein of u 21.7 1.6E+02 0.0034 21.6 3.7 34 65-98 19-52 (83)
167 PLN02900 alanyl-tRNA synthetas 21.6 9.1E+02 0.02 25.0 11.4 71 22-92 355-433 (936)
168 PHA03328 nuclear egress lamina 21.5 89 0.0019 28.3 2.8 68 13-87 229-296 (316)
169 PRK08691 DNA polymerase III su 21.5 2.3E+02 0.0051 28.3 6.0 66 18-84 178-245 (709)
170 PRK09492 treR trehalose repres 21.1 78 0.0017 26.1 2.3 38 16-57 14-51 (315)
171 PF12010 DUF3502: Domain of un 20.7 77 0.0017 24.4 2.1 60 39-102 73-132 (134)
172 PRK14956 DNA polymerase III su 20.6 2.7E+02 0.0058 26.6 5.9 59 17-80 179-243 (484)
173 cd04750 Commd2 COMM_Domain con 20.5 4.5E+02 0.0097 21.0 6.7 35 68-102 49-84 (166)
No 1
>KOG0871|consensus
Probab=100.00 E-value=1.4e-50 Score=320.84 Aligned_cols=129 Identities=63% Similarity=1.061 Sum_probs=126.2
Q ss_pred CCCcccccCcHHHHHHHHHhhCC-CCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHHhhcCCCcc
Q psy13186 10 SNDDDELILPRASINKIIKEILP-NIRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQALDQLGFGDY 88 (170)
Q Consensus 10 ~~~~ddl~LP~AtV~riiKe~LP-~~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL~~LgF~~y 88 (170)
++++|+++||+|||+||||++|| +++|++|++++|++||++||++|||+||++|+++.||||+||||++||+.|||++|
T Consensus 5 ~~~dde~sLPkAtv~KmIke~lP~d~rvakeareliincCvEFI~liSsEAneic~~e~KKTIa~EHV~KALe~LgF~eY 84 (156)
T KOG0871|consen 5 GKEDDELSLPKATVNKMIKEMLPKDVRVAKEARELIINCCVEFINLISSEANEICNKEAKKTIAPEHVIKALENLGFGEY 84 (156)
T ss_pred ccccccccCcHHHHHHHHHHhCCcccccchHHHHHHHHHHHHHHHHHHHHHHHHHhHHhcccCCHHHHHHHHHHcchHHH
Confidence 46799999999999999999999 99999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHhhhhhhhhhhcCCCCHHHHHHHHHHHHHHHHHHH
Q psy13186 89 KSEAEEVMKDCKIVAANRKKQSNRLENLGIPEEELLRQQQELFAKAREEQ 138 (170)
Q Consensus 89 i~~l~~~l~~~Ke~~k~r~~k~~k~~~~g~~eEel~~~Q~eLF~~Ar~~~ 138 (170)
++.+.+++.+||...+.|+++++||+++|||+|||++||++||++||+|.
T Consensus 85 iee~~~vl~~~K~~~~~~~~kssk~e~~Gi~eEEL~~qQqeLf~~ARar~ 134 (156)
T KOG0871|consen 85 IEEAEEVLENCKEEAKKRRRKSSKFEKSGIPEEELLRQQQELFAKARARL 134 (156)
T ss_pred HHHHHHHHHHHHHHHHHhhhhhhhHHhcCCCHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999765
No 2
>COG5150 Class 2 transcription repressor NC2, beta subunit (Dr1) [Transcription]
Probab=100.00 E-value=3.7e-41 Score=262.36 Aligned_cols=128 Identities=41% Similarity=0.715 Sum_probs=125.6
Q ss_pred CCcccccCcHHHHHHHHHhhCC-CCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHHhhcCCCccH
Q psy13186 11 NDDDELILPRASINKIIKEILP-NIRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQALDQLGFGDYK 89 (170)
Q Consensus 11 ~~~ddl~LP~AtV~riiKe~LP-~~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL~~LgF~~yi 89 (170)
..+|+++||+|||.|+|.++|| +..+++|||+++++||.+||++||++||++|..+.||||+++||++||+.|||.+||
T Consensus 5 ~~dDe~sLPKATVqKMvS~iLp~dl~ftKearei~in~cieFi~~lsseAne~ce~EaKKTIa~EHviKALenLef~eyi 84 (148)
T COG5150 5 KNDDENSLPKATVQKMVSSILPKDLVFTKEAREIFINACIEFINMLSSEANEACEEEAKKTIAYEHVIKALENLEFEEYI 84 (148)
T ss_pred cccccccCcHHHHHHHHHHhccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHhccHHHHH
Confidence 3589999999999999999999 999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHhhhhhhhhhhcCCCCHHHHHHHHHHHHHHHHHHH
Q psy13186 90 SEAEEVMKDCKIVAANRKKQSNRLENLGIPEEELLRQQQELFAKAREEQ 138 (170)
Q Consensus 90 ~~l~~~l~~~Ke~~k~r~~k~~k~~~~g~~eEel~~~Q~eLF~~Ar~~~ 138 (170)
+.+.+.+..|+..++.|++|.+||++||+|+|||+|||.+||..||.|.
T Consensus 85 ~~~~e~~~n~k~~qK~ke~k~sKFk~SGls~eELlrQQeeLf~~ar~rf 133 (148)
T COG5150 85 ESCMEEHENYKSYQKQKESKISKFKDSGLSMEELLRQQEELFQNARLRF 133 (148)
T ss_pred HHHHHHHHHHHHHHhhchhhhhHHHhcCCCHHHHHHHHHHHHHHHHHHh
Confidence 9999999999999999999999999999999999999999999999986
No 3
>KOG0869|consensus
Probab=99.97 E-value=3.9e-32 Score=217.65 Aligned_cols=98 Identities=29% Similarity=0.630 Sum_probs=93.3
Q ss_pred CCcccccCcHHHHHHHHHhhCC-CCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHHhhcCCCccH
Q psy13186 11 NDDDELILPRASINKIIKEILP-NIRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQALDQLGFGDYK 89 (170)
Q Consensus 11 ~~~ddl~LP~AtV~riiKe~LP-~~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL~~LgF~~yi 89 (170)
..+.|..||+|+|.||||..|| +.+|||||++.+++|++|||+|||++|+++|.+++||||+++||+|||..|||++|+
T Consensus 26 ~reqDr~LPIANV~RIMK~~lP~naKIsKDAKE~vQECVSEfISFvT~EAsekC~~EkRKTIngdDllwAm~tLGFe~Y~ 105 (168)
T KOG0869|consen 26 LREQDRFLPIANVSRIMKKALPANAKISKDAKETVQECVSEFISFVTGEASEKCQREKRKTINGDDLLWAMSTLGFENYA 105 (168)
T ss_pred cchhhhhccHHHHHHHHHhcCCcccccchHHHHHHHHHHHHHHHHHhhHHHHHHHHHhcCcccHHHHHHHHHHcCcHhHH
Confidence 3578999999999999999999 999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHhhhh
Q psy13186 90 SEAEEVMKDCKIVAANRKK 108 (170)
Q Consensus 90 ~~l~~~l~~~Ke~~k~r~~ 108 (170)
++|+.+|..||+....|.+
T Consensus 106 eplkiyL~kYRe~e~e~~~ 124 (168)
T KOG0869|consen 106 EPLKIYLQKYRELEGERGR 124 (168)
T ss_pred HHHHHHHHHHHHHhhhccc
Confidence 9999999999998766543
No 4
>KOG0870|consensus
Probab=99.93 E-value=1.3e-25 Score=181.27 Aligned_cols=97 Identities=30% Similarity=0.569 Sum_probs=93.0
Q ss_pred CcccccCcHHHHHHHHHhhCC--CCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHHhhcCCCccH
Q psy13186 12 DDDELILPRASINKIIKEILP--NIRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQALDQLGFGDYK 89 (170)
Q Consensus 12 ~~ddl~LP~AtV~riiKe~LP--~~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL~~LgF~~yi 89 (170)
.++++.||+|+|.||||+.|| ++.|||||+.+|.+++++||+|||+.|+++|...+||||+++||++||.+|||..|+
T Consensus 5 ri~dl~lP~AiI~rlvke~l~E~~vsisKeA~~Ai~raAtVFv~~Lts~s~e~A~~q~rKt~sadDVl~aL~Eiefs~f~ 84 (172)
T KOG0870|consen 5 RIEDLNLPNAIITRLVKEVLPESNVSISKEARLAIARAATVFVIFLTSVSNEIAKDQKRKTISADDVLKALDEIEFSSFV 84 (172)
T ss_pred hHHHhhccHHHHHHHHHHhCccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCcccHHHHHHHHHHhchHHHh
Confidence 578999999999999999999 499999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHhhhh
Q psy13186 90 SEAEEVMKDCKIVAANRKK 108 (170)
Q Consensus 90 ~~l~~~l~~~Ke~~k~r~~ 108 (170)
++|+..|+.||..++.|+.
T Consensus 85 ~plk~~Le~yk~~~k~Kk~ 103 (172)
T KOG0870|consen 85 NPLKSALEAYKKAVKQKKL 103 (172)
T ss_pred hHHHHHHHHHHHHHHHHHH
Confidence 9999999999998887643
No 5
>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=99.74 E-value=6.6e-18 Score=115.89 Aligned_cols=63 Identities=37% Similarity=0.586 Sum_probs=57.8
Q ss_pred cCcHHHHHHHHHhhCC-CCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHH
Q psy13186 17 ILPRASINKIIKEILP-NIRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQAL 80 (170)
Q Consensus 17 ~LP~AtV~riiKe~LP-~~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL 80 (170)
.||.+.|.||||.. | +.+||+||.++|.+|+.+||.||+.+|+++|..++||||+++||..||
T Consensus 2 ~lP~a~vkri~k~~-~~~~~vs~ea~~~i~~a~e~Fi~~l~~~A~~~a~~~~rkti~~~Dv~~Av 65 (65)
T PF00808_consen 2 SLPLARVKRIMKSD-PDVMRVSKEAVEAIAKAAEEFIQYLAKEANEIAQRDKRKTITYEDVAKAV 65 (65)
T ss_dssp SS-HHHHHHHHHHT-STTSEE-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSSEE-HHHHHHHH
T ss_pred CCChHHHHHHhccC-CCccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCccCHHHHHHHC
Confidence 69999999999999 7 578999999999999999999999999999999999999999999986
No 6
>COG2036 HHT1 Histones H3 and H4 [Chromatin structure and dynamics]
Probab=99.60 E-value=2.1e-15 Score=111.86 Aligned_cols=77 Identities=26% Similarity=0.476 Sum_probs=73.1
Q ss_pred CcccccCcHHHHHHHHHhhCCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHHhhcCCCccH
Q psy13186 12 DDDELILPRASINKIIKEILPNIRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQALDQLGFGDYK 89 (170)
Q Consensus 12 ~~ddl~LP~AtV~riiKe~LP~~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL~~LgF~~yi 89 (170)
...++.||+++|.||||...+. +||.+|.+.+++|..+|+..|+..|++.|.+.|||||.++||.-|++.+||..|.
T Consensus 14 ~~~~~~Lp~apv~Ri~r~~~~~-Rvs~~A~~~l~~~~e~~~~~i~~~A~~~A~ha~RKTV~~~DI~la~~~~~~~~~~ 90 (91)
T COG2036 14 RSTDLLLPKAPVRRILRKAGAE-RVSSSAIEELQEALEEYLEEIAEDAVELAEHAKRKTVKAEDIKLALKRLGRRIYG 90 (91)
T ss_pred hhhhhhcCchHHHHHHHHHhHH-HhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeecHHHHHHHHHHhcccccc
Confidence 3578899999999999999987 9999999999999999999999999999999999999999999999999998763
No 7
>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=99.01 E-value=2.3e-09 Score=78.71 Aligned_cols=71 Identities=18% Similarity=0.230 Sum_probs=65.9
Q ss_pred cCcHHHHHHHHHhhCCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHHhhcCCCcc
Q psy13186 17 ILPRASINKIIKEILPNIRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQALDQLGFGDY 88 (170)
Q Consensus 17 ~LP~AtV~riiKe~LP~~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL~~LgF~~y 88 (170)
.||+++|.||++... -.+||.|+.+.+.++..+|+..|...|...|++.+||||+++||.-||+..|-+-|
T Consensus 13 gi~k~~I~RLarr~G-vkRIS~d~y~e~~~~l~~~l~~I~~dav~ya~Ha~RKTVt~~DV~~alkr~g~~~y 83 (85)
T cd00076 13 GITKPAIRRLARRGG-VKRISGGVYDEVRNVLKSYLEDVIRDAVTYTEHAKRKTVTAMDVVYALKRQGRTLY 83 (85)
T ss_pred cCCHHHHHHHHHHcC-cchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHHHCCCCcc
Confidence 599999999999874 45899999999999999999999999999999999999999999999999996544
No 8
>PLN00035 histone H4; Provisional
Probab=98.92 E-value=6.8e-09 Score=78.76 Aligned_cols=72 Identities=18% Similarity=0.180 Sum_probs=65.8
Q ss_pred ccCcHHHHHHHHHhhCCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHHhhcCCCcc
Q psy13186 16 LILPRASINKIIKEILPNIRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQALDQLGFGDY 88 (170)
Q Consensus 16 l~LP~AtV~riiKe~LP~~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL~~LgF~~y 88 (170)
-.||+++|.||++... --+||.++.+.+.....+|+.-|+..|...|++.+||||+++||.-||+..|=.-|
T Consensus 28 ~~ipk~~IrRLARr~G-vkRIS~~ay~elr~vle~~l~~I~~dav~ya~HA~RKTV~~~DV~~Alkr~g~~ly 99 (103)
T PLN00035 28 QGITKPAIRRLARRGG-VKRISGLIYEETRGVLKIFLENVIRDAVTYTEHARRKTVTAMDVVYALKRQGRTLY 99 (103)
T ss_pred ccCCHHHHHHHHHHcC-cccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHHHcCCcCC
Confidence 4599999999999873 45899999999999999999999999999999999999999999999998876533
No 9
>PTZ00015 histone H4; Provisional
Probab=98.86 E-value=1.6e-08 Score=76.64 Aligned_cols=73 Identities=18% Similarity=0.210 Sum_probs=66.6
Q ss_pred cccCcHHHHHHHHHhhCCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHHhhcCCCcc
Q psy13186 15 ELILPRASINKIIKEILPNIRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQALDQLGFGDY 88 (170)
Q Consensus 15 dl~LP~AtV~riiKe~LP~~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL~~LgF~~y 88 (170)
...||+++|.||++... --+||.|+.+.+..+..+|+..|...|...|++.+||||+++||.-||+..|-.-|
T Consensus 28 i~gI~k~~IrRLarr~G-vkRIS~d~y~e~r~vle~~l~~I~rdav~~aeHA~RKTVt~~DV~~AlKr~g~~~y 100 (102)
T PTZ00015 28 IRGITKGAIRRLARRGG-VKRISGDIYEEVRGVLKAFLENVVRDSTAYTEYARRKTVTAMDVVYALKRQGRTLY 100 (102)
T ss_pred ccCCCHHHHHHHHHHcC-CccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHHhcCCCCC
Confidence 44799999999999873 35899999999999999999999999999999999999999999999999886544
No 10
>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=98.80 E-value=4e-08 Score=69.39 Aligned_cols=65 Identities=18% Similarity=0.413 Sum_probs=62.8
Q ss_pred CcHHHHHHHHHhhCCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHHhh
Q psy13186 18 LPRASINKIIKEILPNIRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQALDQ 82 (170)
Q Consensus 18 LP~AtV~riiKe~LP~~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL~~ 82 (170)
||+..+..++++.-|+.+++.++.++|.+.+..|+.-|+..|...|.+.||+||.++||.-+|+.
T Consensus 2 ~~k~~l~~lv~~id~~~~~~~da~~~l~~~~e~fv~~v~~~a~~lAkHr~~~tv~~~Di~l~l~r 66 (72)
T cd07981 2 LTKRKLQELLKEIDPREQLDPDVEELLLEIADDFVDDVVEDACRLAKHRKSDTLEVKDVQLHLER 66 (72)
T ss_pred CcHHHHHHHHHhhCCCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH
Confidence 68889999999999999999999999999999999999999999999999999999999999876
No 11
>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=98.79 E-value=2.3e-08 Score=69.53 Aligned_cols=67 Identities=18% Similarity=0.332 Sum_probs=63.0
Q ss_pred cccCcHHHHHHHHHhhCCC----CcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHHh
Q psy13186 15 ELILPRASINKIIKEILPN----IRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQALD 81 (170)
Q Consensus 15 dl~LP~AtV~riiKe~LP~----~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL~ 81 (170)
...+|+..|.|+.++..++ .+||.+|.++|+..+..|+.-|...|+..|...+|+||++.||..|+.
T Consensus 3 ~~~~~~~~~~r~~r~i~~~~~~~~ris~~a~~~L~~~~E~~~~~il~~A~~~a~~~kR~tI~~~DI~~A~r 73 (75)
T PF00125_consen 3 RRLIPKFPFSRLLREIGEEILSKYRISSEALVALQSVLEYLLVEILEEAGNLARHAKRKTITPRDIQLAVR 73 (75)
T ss_dssp SHSSSHHHHHHHHHHHHHTTSSSSEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTBSEEGHHHHHHHHH
T ss_pred ccccCceEEeeeeehhhcccccccccccccchhhhhhhhhhhhhhhhHHHHHHhhcCCcEecHHHHHHHHh
Confidence 4578999999999999886 899999999999999999999999999999999999999999999875
No 12
>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=98.73 E-value=6.3e-08 Score=67.53 Aligned_cols=64 Identities=19% Similarity=0.241 Sum_probs=59.4
Q ss_pred cCcHHHHHHHHHhhCCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHHh
Q psy13186 17 ILPRASINKIIKEILPNIRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQALD 81 (170)
Q Consensus 17 ~LP~AtV~riiKe~LP~~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL~ 81 (170)
.||+++|.+|++... --+||.|+...|..-...|+.-|..+|...+++.+|||++++||-.||+
T Consensus 2 ~~p~~~i~ria~~~G-i~ris~~a~~~l~~~~e~rl~~i~~~A~k~~~hakRktlt~~DI~~Alk 65 (65)
T smart00803 2 WLPKETIKDVAESLG-IGNLSDEAAKLLAEDVEYRIKEIVQEALKFMRHSKRTTLTTSDIDSALR 65 (65)
T ss_pred CCCHHHHHHHHHHCC-CccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCeecHHHHHHHhC
Confidence 589999999999873 3379999999999999999999999999999999999999999999985
No 13
>smart00417 H4 Histone H4.
Probab=98.60 E-value=1.5e-07 Score=67.59 Aligned_cols=63 Identities=16% Similarity=0.182 Sum_probs=57.5
Q ss_pred ccCcHHHHHHHHHhhCCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHH
Q psy13186 16 LILPRASINKIIKEILPNIRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQA 79 (170)
Q Consensus 16 l~LP~AtV~riiKe~LP~~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~A 79 (170)
-.||+++|.||++... --+||.++.+.+.+...+|+..|...|...|++.+||||+++||.-|
T Consensus 12 ~gI~k~~IrRLaRr~G-vkRIS~~~y~elr~vle~~l~~I~rdav~~a~ha~RKTV~~~DV~~a 74 (74)
T smart00417 12 QGITKPAIRRLARRGG-VKRISGLIYDETRNVLKSFLENVVRDAVTYTEHARRKTVTAMDVVYA 74 (74)
T ss_pred cCCCHHHHHHHHHHcC-cchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHheeC
Confidence 3699999999999873 34799999999999999999999999999999999999999999643
No 14
>smart00428 H3 Histone H3.
Probab=98.32 E-value=2e-06 Score=65.46 Aligned_cols=69 Identities=13% Similarity=0.279 Sum_probs=63.4
Q ss_pred cccccCcHHHHHHHHHhhCC------CCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHHh
Q psy13186 13 DDELILPRASINKIIKEILP------NIRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQALD 81 (170)
Q Consensus 13 ~ddl~LP~AtV~riiKe~LP------~~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL~ 81 (170)
..++.+|+....|+++++.. +.+++.+|..+|++++..|+.-+...||..+.+.+|+||.+.|+--|..
T Consensus 25 st~lLI~k~pF~RLVREI~~~~~~~~~~R~~~~Al~aLQeasE~ylv~lfeda~~~a~HAkRvTl~~kDi~La~r 99 (105)
T smart00428 25 STDLLIRKAPFQRLVREIAQKFTTGVDLRFQSSAIMALQEAAEAYLVGLFEDTNLLAIHAKRVTIMPKDIQLARR 99 (105)
T ss_pred CcccccccccHHHHHHHHHHHcCCCCCceeeHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCccCcHhhHHHHHH
Confidence 46889999999999999873 5799999999999999999999999999999999999999999976653
No 15
>COG5208 HAP5 CCAAT-binding factor, subunit C [Transcription]
Probab=98.21 E-value=1.3e-06 Score=74.65 Aligned_cols=78 Identities=19% Similarity=0.275 Sum_probs=70.4
Q ss_pred ccccCcHHHHHHHHHhhCCCCc-ccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHHhhcCCCccHHHH
Q psy13186 14 DELILPRASINKIIKEILPNIR-VANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQALDQLGFGDYKSEA 92 (170)
Q Consensus 14 ddl~LP~AtV~riiKe~LP~~~-iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL~~LgF~~yi~~l 92 (170)
.+++||.|.|.|+||-.- +|+ ||.||..+..+.|..||.-||-.|.-.+++++|+|+--.||..|++.-++.||+=.+
T Consensus 106 k~h~LPlARIkkvMKtde-dVkMisaEaPvlFak~~EiFI~ELTmRAW~~ae~NkRRtLQksDia~Av~kSeMfDFLidi 184 (286)
T COG5208 106 KDHNLPLARIKKVMKTDE-DVKMISAEAPVLFAKITEIFIEELTMRAWINAEENKRRTLQKSDIAAAVKKSEMFDFLIDI 184 (286)
T ss_pred HhccCcHHHHHHHHhccc-chhheecccchHHHHHHHHHHHHHHHHHHHHHhHhhhhHHHHHHHHHHHHHHHHHhHHhhh
Confidence 467899999999999653 665 999999999999999999999999999999999999999999999999888876443
No 16
>smart00576 BTP Bromodomain transcription factors and PHD domain containing proteins. subdomain of archael histone-like transcription factors
Probab=98.08 E-value=3.1e-05 Score=55.00 Aligned_cols=65 Identities=17% Similarity=0.280 Sum_probs=57.9
Q ss_pred HHHHHHHHHhhCCC-CcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHHhhcCCC
Q psy13186 20 RASINKIIKEILPN-IRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQALDQLGFG 86 (170)
Q Consensus 20 ~AtV~riiKe~LP~-~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL~~LgF~ 86 (170)
+-.|.+|++.. | -+++..|.+.|.+-...|+..|+..+...|+..||++.++.||..||.++|+.
T Consensus 9 ~~~Vaqil~~~--Gf~~~~~sale~ltdi~~~yl~~l~~~~~~~a~~agR~~~~~~Dv~~Al~~~gi~ 74 (77)
T smart00576 9 RIAVAQILESA--GFDSFQESALETLTDILQSYIQELGRTAHSYAELAGRTEPNLGDVVLALENLGIS 74 (77)
T ss_pred HHHHHHHHHHc--CccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHhCcc
Confidence 44566666665 4 47899999999999999999999999999999999999999999999999974
No 17
>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=98.05 E-value=1.7e-05 Score=61.21 Aligned_cols=70 Identities=17% Similarity=0.180 Sum_probs=63.9
Q ss_pred cccccCcHHHHHHHHHhhCCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHHhh
Q psy13186 13 DDELILPRASINKIIKEILPNIRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQALDQ 82 (170)
Q Consensus 13 ~ddl~LP~AtV~riiKe~LP~~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL~~ 82 (170)
--.+.||.+.|.|+|++.-...||+.+|...+..+...+..-|...|...|...+|++|+|+||..|+..
T Consensus 16 ragL~fPV~ri~R~Lk~~~~a~RVs~~A~VyLaAvLEYL~aEIlelA~n~ak~~k~krItp~hi~lAi~n 85 (115)
T cd00074 16 RAGLQFPVGRIHRYLKKGRYAERVGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKKRITPRHLQLAVRN 85 (115)
T ss_pred ccCccCcHHHHHHHHHcCccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeEcHHHHHHHHhc
Confidence 4578999999999999854468999999999999999999999999999999999999999999999875
No 18
>KOG1657|consensus
Probab=98.01 E-value=7.5e-06 Score=69.96 Aligned_cols=75 Identities=24% Similarity=0.338 Sum_probs=67.3
Q ss_pred ccccCcHHHHHHHHHhhCCCC-cccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHHhhcCCCccH
Q psy13186 14 DELILPRASINKIIKEILPNI-RVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQALDQLGFGDYK 89 (170)
Q Consensus 14 ddl~LP~AtV~riiKe~LP~~-~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL~~LgF~~yi 89 (170)
-...||++.|.||||.. +++ .|+.||..++.+||..||..|+..|...+...+|+|+...|+-.|+..-.-.+|+
T Consensus 71 ~~~~lPlaRiKkimK~d-edv~mI~~Eapvl~aka~E~Fi~elt~~sw~~Tee~~rrtl~~sdia~av~~s~~fdFL 146 (236)
T KOG1657|consen 71 KNHILPLARIKKIMKSD-EDVSMITAEAPVLFAKACELFITELTLRSWVHTEENKRRTLQKSDIAAAVTQSETFDFL 146 (236)
T ss_pred hhccCcHhhcccccccc-ccccccchhHHHHHHHHHHHHHHHHHHHhhhhhcccccccchHHHHHHHhccCCCccce
Confidence 45689999999999976 455 6999999999999999999999999999999999999999999999876655554
No 19
>smart00427 H2B Histone H2B.
Probab=97.91 E-value=6.3e-05 Score=55.89 Aligned_cols=64 Identities=16% Similarity=0.327 Sum_probs=58.7
Q ss_pred HHHHHHHHhhCCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHHhhcC
Q psy13186 21 ASINKIIKEILPNIRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQALDQLG 84 (170)
Q Consensus 21 AtV~riiKe~LP~~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL~~Lg 84 (170)
.-|+|++|++-|++.||..+..++..-..-+..-|+.+|...|...+|+||++.+|..|..-+=
T Consensus 5 ~Yi~kvLKqVhpd~giS~kam~imnSfvnDiferIa~EAs~L~~~nkr~TltsreIqtAvrl~L 68 (89)
T smart00427 5 IYIYKVLKQVHPDTGISSKAMSIMNSFVNDIFERIAAEASKLARYNKKSTLSSREIQTAVRLIL 68 (89)
T ss_pred HHHHHHHHHhCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCcCCHHHHHHHHHHHc
Confidence 3589999999999999999999999888888889999999999999999999999999976543
No 20
>cd08048 TAF11 TATA Binding Protein (TBP) Associated Factor 11 (TAF11) 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 11 (TAF11) is one of several TAFs that bind TBP and are involved in forming the Transcription Factor IID (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. 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 TAF orthologs and paralogs. Several hypothes
Probab=97.74 E-value=0.0002 Score=52.48 Aligned_cols=67 Identities=22% Similarity=0.341 Sum_probs=61.5
Q ss_pred cCcHHHHHHHHHhhCCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCC---CccchhhHHHHHhhcC
Q psy13186 17 ILPRASINKIIKEILPNIRVANESRELVMNCCMEFIHLISSEANDICNEQQK---KTINAEHVLQALDQLG 84 (170)
Q Consensus 17 ~LP~AtV~riiKe~LP~~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~R---KTIs~edVl~AL~~Lg 84 (170)
.||+++|.|||...+ +.+++.+...+|.-.+.+||.-|..+|.++....+. .-|.|.||-.|...|.
T Consensus 16 ~f~k~~iKr~~~~~~-~~~v~~~v~i~v~glaKvFVGeivE~A~~V~~~~~~~~~~Pl~P~HireA~rrl~ 85 (85)
T cd08048 16 SFPKAAIKRLIQSVT-GQSVSQNVVIAVAGIAKVFVGEIVEEARDVQEEWGEANTGPLQPRHLREAYRRLK 85 (85)
T ss_pred hccHHHHHHHHHHHc-CCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCCCCCcHHHHHHHHHhC
Confidence 599999999999998 489999999999999999999999999999988665 7899999999988763
No 21
>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=97.71 E-value=0.00023 Score=50.17 Aligned_cols=63 Identities=19% Similarity=0.393 Sum_probs=52.2
Q ss_pred HHHHHHHHHhhCCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHHhh
Q psy13186 20 RASINKIIKEILPNIRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQALDQ 82 (170)
Q Consensus 20 ~AtV~riiKe~LP~~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL~~ 82 (170)
+..+..+|+++-|+..+..++.++|.+.+.+||.-+++.|...|++.+-.||.+.||.-.|+.
T Consensus 2 K~~l~~Lv~~iDp~~~ld~~vee~Ll~laddFv~~v~~~ac~lAKhR~s~tle~~Dv~~~Ler 64 (68)
T PF03847_consen 2 KRKLQELVKQIDPNEKLDPDVEELLLELADDFVDDVVSFACRLAKHRKSSTLEVKDVQLHLER 64 (68)
T ss_dssp HHHHHHHHHCC-SS----HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHHHHHHHHH
T ss_pred hHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCCHHHHHHHHHh
Confidence 456889999999999999999999999999999999999999999999999999999888764
No 22
>PF15630 CENP-S: Kinetochore component CENP-S; PDB: 4DRA_C 4DRB_H 3V9R_C.
Probab=97.70 E-value=0.00018 Score=51.82 Aligned_cols=60 Identities=13% Similarity=0.212 Sum_probs=51.7
Q ss_pred HHHHHHHhhC-C-CCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHHh
Q psy13186 22 SINKIIKEIL-P-NIRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQALD 81 (170)
Q Consensus 22 tV~riiKe~L-P-~~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL~ 81 (170)
+|.||+.+.. + ++.+|+.+.-+|.+.+-.++..++..---.|.+.||+||+++||+-...
T Consensus 10 ~v~ki~ee~~~~~~~~~s~~~i~al~ELv~~q~~~~a~DLe~FAkHA~R~tI~~dDV~Ll~R 71 (76)
T PF15630_consen 10 TVGKIVEEEAKEKGVEVSPQFIAALTELVYKQLENLAKDLEAFAKHAGRSTINMDDVKLLAR 71 (76)
T ss_dssp HHHHHHHHCCCCTTSEE-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHHHHHHTT
T ss_pred HHHHHHHHHHhccCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCeecHHHHHHHhh
Confidence 6889999986 3 8999999999999999999999999999999999999999999986544
No 23
>PLN00158 histone H2B; Provisional
Probab=97.68 E-value=0.00022 Score=55.32 Aligned_cols=65 Identities=15% Similarity=0.333 Sum_probs=59.5
Q ss_pred cHHHHHHHHHhhCCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHHhhc
Q psy13186 19 PRASINKIIKEILPNIRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQALDQL 83 (170)
Q Consensus 19 P~AtV~riiKe~LP~~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL~~L 83 (170)
...-|+|++|++.|++.||..+..++..-..-+..-|++||...|.-.+|+||++.+|-.|..-+
T Consensus 29 y~~YI~kVLKQVhPd~gIS~kaM~ImnSfvnDiferIA~EAs~La~~nkr~TltsrEIqtAvrLv 93 (116)
T PLN00158 29 YKIYIYKVLKQVHPDTGISSKAMSIMNSFINDIFEKIATEAGKLARYNKKPTVTSREIQTAVRLI 93 (116)
T ss_pred HHHHHHHHHHHhCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCcCCHHHHHHHHHHh
Confidence 34569999999999999999999999988888888999999999999999999999999997654
No 24
>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=97.68 E-value=0.00018 Score=63.90 Aligned_cols=66 Identities=20% Similarity=0.277 Sum_probs=58.7
Q ss_pred cHHHHHHHHHhhCCCC-cccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHHhhcCCC
Q psy13186 19 PRASINKIIKEILPNI-RVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQALDQLGFG 86 (170)
Q Consensus 19 P~AtV~riiKe~LP~~-~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL~~LgF~ 86 (170)
|..+|.-|++.. ++ ++++|+...|...+..+|.-|+.+|...+.+.+|||++++||-.||+.++.+
T Consensus 1 ~~~~i~~ia~~~--Gi~~~~~~a~~~La~~~e~~~~~i~~~A~k~~~hskR~~l~~~Di~~Al~~~n~e 67 (343)
T cd08050 1 PQESIKLIAESL--GIDSLSDEVAQLLAEDVEYRLREIIQEAAKFMRHSKRRKLTTSDVNHALRLRNVE 67 (343)
T ss_pred ChhHHHHHHHHc--CCCcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCHHHHHHHHHHhCCC
Confidence 456777777665 45 9999999999999999999999999999999999999999999999977654
No 25
>PLN00121 histone H3; Provisional
Probab=97.65 E-value=9.3e-05 Score=58.77 Aligned_cols=68 Identities=13% Similarity=0.251 Sum_probs=63.0
Q ss_pred cccccCcHHHHHHHHHhhCC----CCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHH
Q psy13186 13 DDELILPRASINKIIKEILP----NIRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQAL 80 (170)
Q Consensus 13 ~ddl~LP~AtV~riiKe~LP----~~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL 80 (170)
..++.+|+....|+|+++.. ++++..+|..+|++++.-|+.-+-..+|-.+.+.+|.||.+.|+.-|.
T Consensus 58 st~lLI~k~pF~RLVREI~~~~~~~~Rf~~~Al~ALQeaaE~yLv~lfed~~lca~HakRVTl~~kD~~L~~ 129 (136)
T PLN00121 58 STELLIRKLPFQRLVREIAQDFKTDLRFQSSAVLALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAR 129 (136)
T ss_pred ccccccccccHHHHHHHHHHHhCccceeeHHHHHHHHHHHHHHHHHHHhhhHHHHHHhcceecchhhHHHHH
Confidence 35899999999999999984 689999999999999999999999999999999999999999996664
No 26
>PTZ00463 histone H2B; Provisional
Probab=97.65 E-value=0.00026 Score=54.96 Aligned_cols=63 Identities=17% Similarity=0.384 Sum_probs=57.7
Q ss_pred HHHHHHHhhCCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHHhhcC
Q psy13186 22 SINKIIKEILPNIRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQALDQLG 84 (170)
Q Consensus 22 tV~riiKe~LP~~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL~~Lg 84 (170)
-|+|++|++.|++.||..+..+++.-..-..--|++||...|.-.+|.||++.+|-.|..-+=
T Consensus 33 YI~KVLKqVhPd~gIS~kaM~ImnSfvnDifErIA~EAs~La~~nkr~TltsrEIQtAvrLlL 95 (117)
T PTZ00463 33 YIFKVLKQVHPDTGISRKSMNIMNSFLVDTFEKIATEASRLCKYTRRDTLSSREIQTAIRLVL 95 (117)
T ss_pred HHHHHHHhhCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCCHHHHHHHHhhcc
Confidence 499999999999999999999999888888888999999999999999999999999976543
No 27
>PLN00160 histone H3; Provisional
Probab=97.63 E-value=0.00012 Score=55.23 Aligned_cols=68 Identities=13% Similarity=0.157 Sum_probs=62.3
Q ss_pred cccccCcHHHHHHHHHhhCC-----CCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHH
Q psy13186 13 DDELILPRASINKIIKEILP-----NIRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQAL 80 (170)
Q Consensus 13 ~ddl~LP~AtV~riiKe~LP-----~~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL 80 (170)
..++.+|++...|+++++.. +.++..+|..+|++++.-|+.-+-..||-.|.+.+|.||.+.|+--|.
T Consensus 17 st~lLI~k~pF~RLVREI~~~~~~~~~Rfq~~Al~ALQeAsEayLv~lfed~~lca~HakRVTl~~kD~~L~~ 89 (97)
T PLN00160 17 STDLLIRRLPFARLVREIQMEMSREAYRWQGSAILALQEAAEAHLVGLFEDSNLCAIHGKRVTIMPKDMQLAR 89 (97)
T ss_pred chhhhhccccHHHHHHHHHHHcCCCCcEeeHHHHHHHHHHHHHHHHHHHhhhHHHHHHhcccccchhhHHHHH
Confidence 46789999999999999863 489999999999999999999999999999999999999999996654
No 28
>PF04719 TAFII28: hTAFII28-like protein conserved region; InterPro: IPR006809 The general transcription factor, TFIID, consists of the TATA-binding protein (TBP) associated with a series of TBP-associated factors (TAFs) that together participate in the assembly of the transcription preinitiation complex. The conserved region is found at the C terminus of most member proteins. The crystal structure of hTAFII28 with hTAFII18 shows that this region is involved in the binding of these two subunits. The conserved region contains four alpha helices and three loops arranged as in histone H3 [, ].; GO: 0006367 transcription initiation from RNA polymerase II promoter, 0005634 nucleus; PDB: 1BH9_B 1BH8_B.
Probab=97.61 E-value=0.00031 Score=52.16 Aligned_cols=67 Identities=25% Similarity=0.358 Sum_probs=52.6
Q ss_pred cCcHHHHHHHHHhhCCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCC-CccchhhHHHHHhhc
Q psy13186 17 ILPRASINKIIKEILPNIRVANESRELVMNCCMEFIHLISSEANDICNEQQK-KTINAEHVLQALDQL 83 (170)
Q Consensus 17 ~LP~AtV~riiKe~LP~~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~R-KTIs~edVl~AL~~L 83 (170)
.||+++|.|||...+.|..|+.-...+|.-.+..||.-|-.+|.+++...+. ..|.|.|+-.|...|
T Consensus 23 ~~~k~~ikkli~~~~~~qsv~~~v~i~v~g~aKvFVGEiVE~A~~Vq~~~~~~~pl~P~hlreA~rrL 90 (90)
T PF04719_consen 23 SFNKAAIKKLINQVLGNQSVSQNVVIAVAGIAKVFVGEIVEEARDVQEEWGETGPLQPDHLREAYRRL 90 (90)
T ss_dssp ---HHHHHHHHHHHHS-S---HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT--SS--HHHHHHHHHHH
T ss_pred cCCHHHHHHHHHHHcCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCcHHHHHHHHhC
Confidence 6999999999999997799999999999999999999999999999986554 489999999998765
No 29
>PLN00161 histone H3; Provisional
Probab=97.60 E-value=0.00016 Score=57.45 Aligned_cols=68 Identities=16% Similarity=0.237 Sum_probs=62.5
Q ss_pred cccccCcHHHHHHHHHhhC----C-CCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHH
Q psy13186 13 DDELILPRASINKIIKEIL----P-NIRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQAL 80 (170)
Q Consensus 13 ~ddl~LP~AtV~riiKe~L----P-~~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL 80 (170)
..++.+|++...|+|+++. + ++++..+|..+|++++..|+.-+-..||-.|.+.+|.||.+.|+.-|.
T Consensus 51 st~lLIpklPF~RLVREI~~~~~~~~~Rfq~~Al~ALQEAsEayLV~lFeda~lcaiHAkRVTlm~kDm~La~ 123 (135)
T PLN00161 51 STELLIRKLPFARLVREISNEMLREPFRWTAEALLALQEATEDFLVHLFEDCNLCAIHAKRVTIMPKDMQLAR 123 (135)
T ss_pred ccccccccccHHHHHHHHHHhcCCCCcEeeHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccchhhHHHHH
Confidence 4678999999999999986 3 589999999999999999999999999999999999999999997664
No 30
>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=97.58 E-value=0.00041 Score=53.36 Aligned_cols=76 Identities=13% Similarity=0.146 Sum_probs=63.1
Q ss_pred HHHHHHHhhCCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHHhhcCCCccHHH-HHHHHHH
Q psy13186 22 SINKIIKEILPNIRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQALDQLGFGDYKSE-AEEVMKD 98 (170)
Q Consensus 22 tV~riiKe~LP~~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL~~LgF~~yi~~-l~~~l~~ 98 (170)
.|.+|+|+.. -.+++.+++..|.+.+..++.-|...|...|.+.||+||+++||.-|++..+-..|.++ -++++-+
T Consensus 6 ~v~~iLk~~G-v~~~~~~v~~~Lle~~~ry~~~il~dA~~~a~hA~r~tV~~eDV~lAi~~r~~~~f~~~p~~~~l~~ 82 (117)
T cd07979 6 VIAAILKSMG-ITEYEPRVINQLLEFAYRYTTDVLDDAKVYSEHAGKANIDADDVKLAIQSRVDYSFTSPPPRDFLLE 82 (117)
T ss_pred HHHHHHHHCC-CCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHhccCCCCCCcHHHHHH
Confidence 5777777762 34799999999999999999999999999999999999999999999998776555544 4455433
No 31
>PTZ00018 histone H3; Provisional
Probab=97.58 E-value=0.00014 Score=57.76 Aligned_cols=68 Identities=13% Similarity=0.251 Sum_probs=62.8
Q ss_pred cccccCcHHHHHHHHHhhCC----CCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHH
Q psy13186 13 DDELILPRASINKIIKEILP----NIRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQAL 80 (170)
Q Consensus 13 ~ddl~LP~AtV~riiKe~LP----~~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL 80 (170)
..++.+|+....|+|+++.. ++++..+|..+|++++..|+.-+-..+|-.|.+.+|.||.+.|+.-|.
T Consensus 58 st~lLI~k~pF~RLVREI~~~~~~~~rf~~~al~aLQeaaE~yLv~lfed~~lca~HakRVTl~~kD~~L~~ 129 (136)
T PTZ00018 58 STELLIRKLPFQRLVREIAQDFKTDLRFQSSAVLALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAR 129 (136)
T ss_pred cchhccccccHHHHHHHHHHHcCCcceeeHHHHHHHHHHHHHHHHHHhhhhHHHHHhhcceecchhhHHHHH
Confidence 35899999999999999973 689999999999999999999999999999999999999999996664
No 32
>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=97.49 E-value=0.001 Score=46.79 Aligned_cols=65 Identities=14% Similarity=0.297 Sum_probs=55.5
Q ss_pred HHHHHHHhhCC--CC-cccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHHhhcCCC
Q psy13186 22 SINKIIKEILP--NI-RVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQALDQLGFG 86 (170)
Q Consensus 22 tV~riiKe~LP--~~-~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL~~LgF~ 86 (170)
...+.|...+- +. .++..|.+.|.+-+..||..|++.+...|+..+|...++.||..||.++|+.
T Consensus 7 ~l~~~va~il~~~GF~~~~~~al~~Ltdi~~~yl~~l~~~~~~~ae~~gRt~~~~~Dv~~al~~~gi~ 74 (77)
T PF07524_consen 7 LLRRSVAQILKHAGFDSASPSALDTLTDILQRYLQELGRTAKRYAEHAGRTEPNLQDVEQALEEMGIS 74 (77)
T ss_pred HHHHHHHHHHHHcCccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHhCCC
Confidence 33444444443 44 6889999999999999999999999999999999999999999999999984
No 33
>PF09415 CENP-X: CENP-S associating Centromere protein X; InterPro: IPR018552 Centromere protein X (CENP-X) is a component of the CENP-S complex. The CENP-S complex is composed of at least of CENP-S and CENP-X and is essential for the stable assembly of the outer kinetchore []. CENP-X is also a DNA-binding component of the Fanconi anemia (FA) core complex involved in DNA damage repair and genome maintenance. The FA complex is composed of CENPS, FANCA, FANCB, FANCC, FANCE, FANCF, FANCG, FANCL/PHF9, FANCM, FAAP24 and CENPX. Interacts with CENPS, FANCM and FAAP24 [, ].; PDB: 4DRB_L 4DRA_H 3V9R_D.
Probab=97.43 E-value=0.00022 Score=50.81 Aligned_cols=64 Identities=16% Similarity=0.313 Sum_probs=53.8
Q ss_pred cHHHHHHHHHhhCC--CCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCc-cchhhHHHHHhh
Q psy13186 19 PRASINKIIKEILP--NIRVANESRELVMNCCMEFIHLISSEANDICNEQQKKT-INAEHVLQALDQ 82 (170)
Q Consensus 19 P~AtV~riiKe~LP--~~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKT-Is~edVl~AL~~ 82 (170)
|+.+|.||++...- .++|++||..++.+....||.--...|...+..+|..+ |..+|+-+.+-.
T Consensus 1 p~~li~rll~~~f~~~~tkIs~dal~l~~eyl~iFV~EAv~Ra~~~a~~e~~~~~le~e~LEki~pq 67 (72)
T PF09415_consen 1 PPELIARLLHEHFKDDKTKISKDALKLSAEYLRIFVREAVARAAEQAEAEGDEGFLEVEHLEKILPQ 67 (72)
T ss_dssp -CHHHHHHHCTTSSSTT-EE-CCCHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSEE-HHHHHHHCHC
T ss_pred ChHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCHHHHHHHHHH
Confidence 88999999998774 69999999999999999999999999999999999988 999999876543
No 34
>KOG1659|consensus
Probab=97.35 E-value=0.00067 Score=57.60 Aligned_cols=109 Identities=19% Similarity=0.222 Sum_probs=84.3
Q ss_pred ccCcHHHHHHHHHhhCCC-CcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHHhhcCCCccHHHHHH
Q psy13186 16 LILPRASINKIIKEILPN-IRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQALDQLGFGDYKSEAEE 94 (170)
Q Consensus 16 l~LP~AtV~riiKe~LP~-~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL~~LgF~~yi~~l~~ 94 (170)
--+|.+.|.|||...= + -+|+--+..+|.++..-|+.-|-..+.+++...+-||||++|+..|...-.-.+|+..+-.
T Consensus 12 trfp~aRiKKIMQ~dE-dIGKvaqavPViisralElFl~~l~~~t~~~t~~~~aKt~s~~hlkq~v~~~~~FdFLk~~v~ 90 (224)
T KOG1659|consen 12 TRFPPARIKKIMQSDE-DIGKVAQAVPVIISRALELFLESLLQKTLEITRSRGAKTVSSSHLKQAVESDPKFDFLKEVVE 90 (224)
T ss_pred ccCCHHHHHHHHhhhh-hhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHhcCccccCHHHHHHHHhccchhHHHHHHHH
Confidence 3689999999998643 4 4898999999999999999999999999999999999999999999999888888887655
Q ss_pred HHHHHHHH---HHhhhhhhhhhhcCCCCHHHHHHH
Q psy13186 95 VMKDCKIV---AANRKKQSNRLENLGIPEEELLRQ 126 (170)
Q Consensus 95 ~l~~~Ke~---~k~r~~k~~k~~~~g~~eEel~~~ 126 (170)
....+-.. ....+++. .+.+.+.+.+...+.
T Consensus 91 ~vpd~~~~~ee~s~t~rr~-~~~~~~~sdes~~~~ 124 (224)
T KOG1659|consen 91 KVPDRQQAEEESSMTKRRK-MLDEQQDSDESSAKL 124 (224)
T ss_pred hcCCCccchhhcccccccc-ccccccccCHHHHHH
Confidence 44333222 12223233 667777766665553
No 35
>PF15511 CENP-T: Centromere kinetochore component CENP-T; PDB: 3B0D_T 3B0C_T 3VH5_T 3VH6_T.
Probab=97.26 E-value=0.00071 Score=61.69 Aligned_cols=63 Identities=13% Similarity=0.243 Sum_probs=47.8
Q ss_pred cccccCcHHHHHHHHHhhCC-----CCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhh
Q psy13186 13 DDELILPRASINKIIKEILP-----NIRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEH 75 (170)
Q Consensus 13 ~ddl~LP~AtV~riiKe~LP-----~~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~ed 75 (170)
+.--.||.+.|.|++....- .++|+++|..+|.+|..-|--.|+.----+|.+.|||||..+|
T Consensus 347 i~~P~lP~~~vK~la~~~ak~s~~sK~kiskdal~aleqasdwfFeQl~dDL~aYA~HAgRKTIdesD 414 (414)
T PF15511_consen 347 IPYPSLPPGVVKKLAQHFAKSSGGSKMKISKDALEALEQASDWFFEQLGDDLEAYAKHAGRKTIDESD 414 (414)
T ss_dssp -----S-HHHHHHHHHHHH-------S-B-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHH
T ss_pred CCCCCCCccHHHHHHHHHHHhhcccCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCCCCC
Confidence 45567999999988877743 5899999999999999999999999999999999999999876
No 36
>PF15510 CENP-W: Centromere kinetochore component W
Probab=97.24 E-value=0.00056 Score=51.41 Aligned_cols=67 Identities=30% Similarity=0.446 Sum_probs=57.8
Q ss_pred ccCcHHHHHHHHHhhCCCCcccHHHHHH--------------HHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHHh
Q psy13186 16 LILPRASINKIIKEILPNIRVANESREL--------------VMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQALD 81 (170)
Q Consensus 16 l~LP~AtV~riiKe~LP~~~iSkdA~e~--------------i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL~ 81 (170)
..-|++.+.|++|..-|+.++...+-.+ +.--|-.|||-|+-||...|=.++-.||.++||+.|-+
T Consensus 15 rkaPrgfLkrv~Kr~KphlRl~~~~Dllv~~~~f~~~~~~~~vhLncLLFvhrLAEEaRtnA~EnK~~~Ik~~Hv~AaaK 94 (102)
T PF15510_consen 15 RKAPRGFLKRVFKRQKPHLRLETSGDLLVRFCPFSGWQWGGEVHLNCLLFVHRLAEEARTNACENKCGTIKKEHVLAAAK 94 (102)
T ss_pred HhCchHHHHHHHHhcCCceeecccccHHHhhcccccccccceeehhHHHHHHHHHHHHHHHHHHHhhccccHHHHHHHHH
Confidence 3579999999999999998887666555 55569999999999999999999999999999999866
Q ss_pred h
Q psy13186 82 Q 82 (170)
Q Consensus 82 ~ 82 (170)
.
T Consensus 95 v 95 (102)
T PF15510_consen 95 V 95 (102)
T ss_pred H
Confidence 4
No 37
>KOG3467|consensus
Probab=97.17 E-value=0.002 Score=48.23 Aligned_cols=68 Identities=18% Similarity=0.243 Sum_probs=58.8
Q ss_pred cCcHHHHHHHHHhhCCCC-cccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHHhhcCCC
Q psy13186 17 ILPRASINKIIKEILPNI-RVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQALDQLGFG 86 (170)
Q Consensus 17 ~LP~AtV~riiKe~LP~~-~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL~~LgF~ 86 (170)
.+.+-+|.||.+.. ++ +|+.-.-+-+.+...+||.-+-+.|...+++.+||||++-||+-+|+..|.-
T Consensus 29 gitKpaIRRlARr~--GVkRi~G~~yeE~~~~~k~fl~n~i~~A~~yt~HAKRKTvT~~dvv~~LKR~G~~ 97 (103)
T KOG3467|consen 29 GITKPAIRRLARRG--GVKRISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKTVTAMDVVYALKRQGRT 97 (103)
T ss_pred ccchHHHHHHHHhc--CcchhchhhHHHHHHHHHHHHHHHHHHHHHHHhhhhhceeeHHHHHHHHHHcCce
Confidence 35577888888875 45 5777777888899999999999999999999999999999999999998854
No 38
>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=96.83 E-value=0.011 Score=41.66 Aligned_cols=64 Identities=16% Similarity=0.221 Sum_probs=48.2
Q ss_pred cCcHHHHHHHHHhhCCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHHh
Q psy13186 17 ILPRASINKIIKEILPNIRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQALD 81 (170)
Q Consensus 17 ~LP~AtV~riiKe~LP~~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL~ 81 (170)
.+|..+|.-+. ++++=..++.|+...|..-++--|..|..+|.....+.+|++++++||-.||+
T Consensus 3 ~~~~esvk~iA-es~Gi~~l~de~a~~La~dveyrlreiiq~a~kfm~hskR~~Lt~~Di~~ALr 66 (66)
T PF02969_consen 3 VFSQESVKDIA-ESLGISNLSDEAAKALAEDVEYRLREIIQEALKFMRHSKRTKLTTDDINSALR 66 (66)
T ss_dssp ---HHHHHHHH-HHTT---B-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSB-HHHHHHHH-
T ss_pred cCCHHHHHHHH-HHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHHhC
Confidence 36777775544 45532379999999999999999999999999999999999999999999985
No 39
>COG5262 HTA1 Histone H2A [Chromatin structure and dynamics]
Probab=96.62 E-value=0.0063 Score=47.72 Aligned_cols=70 Identities=17% Similarity=0.236 Sum_probs=58.8
Q ss_pred cccccCcHHHHHHHHHhhCCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHHhh
Q psy13186 13 DDELILPRASINKIIKEILPNIRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQALDQ 82 (170)
Q Consensus 13 ~ddl~LP~AtV~riiKe~LP~~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL~~ 82 (170)
-.-+.+|...|.|++|..--.+||+.+|...+.-|..-.+.-|+.-|-..|...++|.|.|.|+-.|+..
T Consensus 22 ~agl~fpvgrvkr~lk~~~~~~Rig~~A~Vyl~AvleYL~aEilelAgNaA~d~kkkri~PrHlqlAIrn 91 (132)
T COG5262 22 KAGLIFPVGRVKRLLKKGNYRMRIGAGAPVYLAAVLEYLAAEILELAGNAARDNKKKRIIPRHLQLAIRN 91 (132)
T ss_pred hcCccccHHHHHHHHHcCccceeecCCcHHHHHHHHHHHHHHHHHHhhhhhhhcCcceechHHHHHHhcC
Confidence 3567899999999999543479999999999998877777777777777788899999999999988753
No 40
>smart00414 H2A Histone 2A.
Probab=96.61 E-value=0.0076 Score=45.87 Aligned_cols=69 Identities=14% Similarity=0.208 Sum_probs=58.6
Q ss_pred ccccCcHHHHHHHHHhhCCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHHhh
Q psy13186 14 DELILPRASINKIIKEILPNIRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQALDQ 82 (170)
Q Consensus 14 ddl~LP~AtV~riiKe~LP~~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL~~ 82 (170)
-.+.+|-+-|.|++|+.-...+|+..|...+.-|..-+...|-.-|-..|...+++.|+|.|+..|+..
T Consensus 6 agL~fPVgRi~r~Lk~~~~~~Rv~~~A~VyLaAvLEYLtaEILeLagn~a~~~k~~rItp~hi~lAi~n 74 (106)
T smart00414 6 AGLQFPVGRIHRLLRKGTYAKRVGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKRRITPRHLQLAIRN 74 (106)
T ss_pred CCccCchHHHHHHHHcCccccccccccHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccchHHHhhhccC
Confidence 468999999999999975567999999999988877666666666777788889999999999999865
No 41
>KOG1744|consensus
Probab=96.60 E-value=0.0086 Score=47.19 Aligned_cols=61 Identities=18% Similarity=0.398 Sum_probs=56.7
Q ss_pred HHHHHHhhCCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHHhhc
Q psy13186 23 INKIIKEILPNIRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQALDQL 83 (170)
Q Consensus 23 V~riiKe~LP~~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL~~L 83 (170)
|+|++|++-|++-|+..+..+++--...+.--|+++|+..+.-.+|.||+..+|..|..-|
T Consensus 43 v~kvlk~Vhpd~gis~~a~~vmnsf~ndife~iA~ea~rla~y~krstisSreiqta~rLl 103 (127)
T KOG1744|consen 43 VYKVLKQVHPDLGISSKAMGVMNSFVNDIFERIASEAGRLAHYNKRSTISSREIQTAVRLL 103 (127)
T ss_pred hhhhhhcccCCCCcCHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCcccHHHHHHHHHHh
Confidence 7889999999999999999999999999999999999999999999999999999886543
No 42
>COG5247 BUR6 Class 2 transcription repressor NC2, alpha subunit (DRAP1 homolog) [Transcription]
Probab=96.53 E-value=0.0075 Score=46.21 Aligned_cols=79 Identities=15% Similarity=0.151 Sum_probs=68.8
Q ss_pred ccCcHHHHHHHHHhhCCC-CcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHHhhcCCCccHHHHHH
Q psy13186 16 LILPRASINKIIKEILPN-IRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQALDQLGFGDYKSEAEE 94 (170)
Q Consensus 16 l~LP~AtV~riiKe~LP~-~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL~~LgF~~yi~~l~~ 94 (170)
-.+|.|.|.|||.-.- | -+|+.-+..+..++..-|+..|-..+.+.+...+-|.|+.+|+..|...-.=.+|+..+..
T Consensus 22 trFP~ar~KkIMQ~de-DiGKV~q~tPVIaskalE~Fl~~iv~~s~k~aR~~~skR~t~e~lk~a~~sdekFdFL~~~~~ 100 (113)
T COG5247 22 TRFPIARLKKIMQLDE-DIGKVGQSTPVIASKALEMFLTEIVGLSLKEARKKSSKRMTSEFLKRATESDEKFDFLKNMEQ 100 (113)
T ss_pred hcCCHHHHHHHHHhhh-hhhhhhhcchHHHHHHHHHHHHHHHHHHHHHHHhccchhhHHHHHHHHHhhhHHHHHHHHHHH
Confidence 3789999999998543 4 4899999999999999999999999999999999999999999999988776777776655
Q ss_pred H
Q psy13186 95 V 95 (170)
Q Consensus 95 ~ 95 (170)
+
T Consensus 101 ~ 101 (113)
T COG5247 101 F 101 (113)
T ss_pred h
Confidence 3
No 43
>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=96.45 E-value=0.004 Score=46.05 Aligned_cols=60 Identities=22% Similarity=0.268 Sum_probs=29.4
Q ss_pred HHHHHHhhCCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHHhh
Q psy13186 23 INKIIKEILPNIRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQALDQ 82 (170)
Q Consensus 23 V~riiKe~LP~~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL~~ 82 (170)
|..||-.-...-.-..|+..+|-+...+||..+...|..+|...|+++|+.+|++-+|..
T Consensus 7 I~~mMy~fGD~~~P~~eTv~lvE~iv~~~i~~l~~~A~~~a~~rg~~~i~~eDl~F~lR~ 66 (93)
T PF02269_consen 7 IRQMMYGFGDVEEPLPETVDLVEDIVREYIIELCQEAMEVAQRRGSKKIKVEDLLFLLRK 66 (93)
T ss_dssp CHHHHHCTTS-SS--HHHHHHHHHHHHHHHHHHHHHHHC---------------------
T ss_pred HHHHHHHcCCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCcCcHHHHHHHHhc
Confidence 345555443334678899999999999999999999999999999999999999999875
No 44
>KOG3219|consensus
Probab=96.15 E-value=0.0068 Score=50.83 Aligned_cols=70 Identities=20% Similarity=0.311 Sum_probs=61.7
Q ss_pred cCcHHHHHHHHHhhCCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCC-CccchhhHHHHHhhcCCCc
Q psy13186 17 ILPRASINKIIKEILPNIRVANESRELVMNCCMEFIHLISSEANDICNEQQK-KTINAEHVLQALDQLGFGD 87 (170)
Q Consensus 17 ~LP~AtV~riiKe~LP~~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~R-KTIs~edVl~AL~~LgF~~ 87 (170)
.||+++|.|||..+.... |+.-+..++.--+.+||.-|--+|.++|..-+. --|.|.||-.|...|+...
T Consensus 112 ~f~Ka~iKkL~~~itg~~-v~~nv~Ia~~GiaKvFVGEvVEeAl~V~~~~~e~~PLqP~HIREA~rrL~~qg 182 (195)
T KOG3219|consen 112 AFPKAQIKKLMSSITGQS-VSENVAIAMAGIAKVFVGEVVEEALDVREEWGESGPLQPKHIREAYRRLKLQG 182 (195)
T ss_pred cCCHHHHHHHHHHHhCCc-cCcceeeeecchhhHhHHHHHHHHHHHHHHhccCCCCCcHHHHHHHHHHHhcC
Confidence 699999999999998645 888888888889999999999999999987665 4799999999999887654
No 45
>PTZ00017 histone H2A; Provisional
Probab=96.03 E-value=0.018 Score=45.77 Aligned_cols=70 Identities=16% Similarity=0.195 Sum_probs=58.8
Q ss_pred cccccCcHHHHHHHHHhhCCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHHhh
Q psy13186 13 DDELILPRASINKIIKEILPNIRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQALDQ 82 (170)
Q Consensus 13 ~ddl~LP~AtV~riiKe~LP~~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL~~ 82 (170)
--.|.+|-.-|.|++++.-...||+..|...|.-+..-+..-|-.-|-..|...+++-|+|.||..|+..
T Consensus 23 ragL~FPVgRi~R~Lk~g~~a~RV~a~A~VYLAAVLEYLtaEILELAgNaa~d~kk~RItPrHi~lAI~n 92 (134)
T PTZ00017 23 KAGLQFPVGRVHRYLKKGRYAKRVGAGAPVYLAAVLEYLTAEVLELAGNAAKDNKKKRITPRHIQLAIRN 92 (134)
T ss_pred cCCcccchHHHHHHHhccchhccccccchhhhHHHHHHHHHHHHHHHHHHHHhcCCCeecHHHHHhhccC
Confidence 3478999999999999875567999999999988877666666666777788899999999999999853
No 46
>PLN00154 histone H2A; Provisional
Probab=95.76 E-value=0.035 Score=44.22 Aligned_cols=69 Identities=16% Similarity=0.178 Sum_probs=53.8
Q ss_pred ccccCcHHHHHHHHHhhCC-CCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHHhh
Q psy13186 14 DELILPRASINKIIKEILP-NIRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQALDQ 82 (170)
Q Consensus 14 ddl~LP~AtV~riiKe~LP-~~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL~~ 82 (170)
-.|.+|-+-|.|++|+-.. ..||+..|...+.-...-+..-|-.-|-..|...+++.|+|.||..|+..
T Consensus 35 AgL~FPVgRi~r~Lk~g~~~~~RVga~ApVYLAAVLEYLtAEVLELAGNaA~d~kk~RItPrHi~lAIrn 104 (136)
T PLN00154 35 AGLQFPVGRIHRQLKQRVSAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRG 104 (136)
T ss_pred cCccCchHHHHHHHHhhhhhccccccchHHHHHHHHHHHHHHHHHHHHHHHHhhCCceecHHHhhhhccC
Confidence 4789999999999999764 67999999988877654444444444555667788999999999999853
No 47
>KOG1142|consensus
Probab=95.69 E-value=0.024 Score=49.39 Aligned_cols=70 Identities=11% Similarity=0.368 Sum_probs=63.8
Q ss_pred cccccCcHHHHHHHHHhhCCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHHhh
Q psy13186 13 DDELILPRASINKIIKEILPNIRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQALDQ 82 (170)
Q Consensus 13 ~ddl~LP~AtV~riiKe~LP~~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL~~ 82 (170)
.....|=+--|..+++.+-++.++-+|+.++|.+.|-.||.-|+..|...|++.+..||-+-||.-.|++
T Consensus 150 ~~~~il~k~kl~dLvqqId~~~~LD~dVedlLleiADdFV~sii~~sC~LAKHRKsdtlEvrDIqLhLEr 219 (258)
T KOG1142|consen 150 GNNPILSKRKLDDLVQQIDGTTKLDDDVEDLLLEIADDFVSSIIHRSCKLAKHRKSDTVEVRDIQLHLER 219 (258)
T ss_pred CCCccccccchhHHHHhhcCcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCccchhheeeeeec
Confidence 4455666777899999998889999999999999999999999999999999999999999999999885
No 48
>KOG1756|consensus
Probab=95.57 E-value=0.039 Score=43.65 Aligned_cols=69 Identities=16% Similarity=0.191 Sum_probs=51.8
Q ss_pred cccccCcHHHHHHHHHhhCCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHHh
Q psy13186 13 DDELILPRASINKIIKEILPNIRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQALD 81 (170)
Q Consensus 13 ~ddl~LP~AtV~riiKe~LP~~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL~ 81 (170)
--.+.+|...|.|++|+.-.-.+|+.+|...+.-|..-.+.-|...|-..+..++|.-|+|.||.-|+.
T Consensus 23 ~agl~fPvgri~r~Lr~~~~~~ri~~gapV~laavLeYL~Aeile~agnaardnkk~ri~PrH~~lAI~ 91 (131)
T KOG1756|consen 23 RAGLQFPVGRIHRLLRKGRYAQRVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRITPRHLQLAIR 91 (131)
T ss_pred hcccccCHHHHHHHHHccchhhhccCCChHHHHHHHHHHHHHHHHHhHHHhhhcCccccChHHHHHHHh
Confidence 356889999999999994336899999999998554333333344444445667888999999999986
No 49
>PLN00157 histone H2A; Provisional
Probab=95.56 E-value=0.032 Score=44.24 Aligned_cols=70 Identities=16% Similarity=0.159 Sum_probs=56.2
Q ss_pred cccccCcHHHHHHHHHhhCCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHHhh
Q psy13186 13 DDELILPRASINKIIKEILPNIRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQALDQ 82 (170)
Q Consensus 13 ~ddl~LP~AtV~riiKe~LP~~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL~~ 82 (170)
--.+.+|-.-|.|++++.-...||+..|...+.-+..-.+.-|-..|-..|...+++-|+|.||..|+..
T Consensus 22 ragL~FPVgRi~R~Lk~g~~a~RIg~~A~VYLAAVLEYLtaEVLELAgnaa~d~kk~RItPrHi~lAI~n 91 (132)
T PLN00157 22 KAGLQFPVGRIARYLKAGKYATRVGAGAPVYLAAVLEYLAAEVLELAGNAARDNKKSRIVPRHIQLAVRN 91 (132)
T ss_pred ccCcccchHHHHHHHhcCchhhhcCCCcHhHHHHHHHHHHHHHHHHHHHHHHhcCCccccHHHHhhcccC
Confidence 3478999999999999965567999999988877655555555555666677889999999999999853
No 50
>PLN00156 histone H2AX; Provisional
Probab=95.56 E-value=0.039 Score=44.14 Aligned_cols=70 Identities=16% Similarity=0.157 Sum_probs=54.7
Q ss_pred cccccCcHHHHHHHHHhhCCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHHhh
Q psy13186 13 DDELILPRASINKIIKEILPNIRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQALDQ 82 (170)
Q Consensus 13 ~ddl~LP~AtV~riiKe~LP~~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL~~ 82 (170)
--.|.+|-.-|.|++++.-...||+..|...+.-+..-...-|-..|-..|...+++-|+|.||..|+..
T Consensus 25 rAgL~FPVgRi~R~Lk~g~ya~RVga~ApVYLAAVLEYLtaEVLELAgNaa~d~kk~RItPrHi~lAIrn 94 (139)
T PLN00156 25 KAGLQFPVGRIARFLKAGKYAERVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAVRN 94 (139)
T ss_pred ccCcccchHHHHHHHhcCChhhccCCccHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCcHHHHHhhccC
Confidence 3478999999999999875567999999988877654444444445555677788999999999999853
No 51
>PLN00153 histone H2A; Provisional
Probab=95.54 E-value=0.035 Score=43.90 Aligned_cols=70 Identities=14% Similarity=0.162 Sum_probs=56.8
Q ss_pred cccccCcHHHHHHHHHhhCCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHHhh
Q psy13186 13 DDELILPRASINKIIKEILPNIRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQALDQ 82 (170)
Q Consensus 13 ~ddl~LP~AtV~riiKe~LP~~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL~~ 82 (170)
--.+.+|-.-|.|++++.-...+|+..|...+.-+..-.+.-|-.-|-..|...+++-|+|.||..|+..
T Consensus 20 ragL~FpVgRi~R~Lr~g~~a~Rvga~A~VYLAAVLEYLtaEVLELAgnaa~d~kk~RItPrHi~lAI~n 89 (129)
T PLN00153 20 KAGLQFPVGRIARYLKKGKYAERIGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKNRIVPRHIQLAIRN 89 (129)
T ss_pred ccCcccchHHHHHHHhcCchhhccCCCchHHHHHHHHHHHHHHHHHHHHHHHhcCCCccChHHHHhhccC
Confidence 3578999999999999876567999999988887766555555555666677889999999999999853
No 52
>cd07978 TAF13 The TATA Binding Protein (TBP) Associated Factor 13 (TAF13) 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 13 (TAF13) is one of several TAFs that bind TBP and is involved in forming the Transcription Factor IID (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. 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. Several hy
Probab=95.08 E-value=0.16 Score=37.62 Aligned_cols=73 Identities=12% Similarity=0.217 Sum_probs=53.7
Q ss_pred HHHHHHHHhhCCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHHhhcCCCccHHHHHHHH
Q psy13186 21 ASINKIIKEILPNIRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQALDQLGFGDYKSEAEEVM 96 (170)
Q Consensus 21 AtV~riiKe~LP~~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL~~LgF~~yi~~l~~~l 96 (170)
.-|..||.-....-.-..|+..+|-+..++||.-+...|..+|. .++.-|+++|++-+|..= ...+.-+..+|
T Consensus 6 ~ei~~mmy~~GD~~~P~~eTv~llE~iv~~~i~~l~~~a~~~A~-~r~~k~~~eD~~FliR~D--~~Kl~Rl~~lL 78 (92)
T cd07978 6 KEIRQMMYGFGDVQNPLPETVDLLEDIVVEYIIELCHKAAEVAQ-RRRGKVKVEDLIFLLRKD--PKKLARLRELL 78 (92)
T ss_pred HHHHHHHHHcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH-cCCCCCCHHHHHHHHhcC--HHHHHHHHHHH
Confidence 34667777654334578899999999999999999999999999 344445999999998642 13344444444
No 53
>KOG1745|consensus
Probab=94.89 E-value=0.018 Score=45.94 Aligned_cols=70 Identities=11% Similarity=0.240 Sum_probs=62.0
Q ss_pred cccccCcHHHHHHHHHhhCC----CCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHHhh
Q psy13186 13 DDELILPRASINKIIKEILP----NIRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQALDQ 82 (170)
Q Consensus 13 ~ddl~LP~AtV~riiKe~LP----~~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL~~ 82 (170)
..|+.+++....|++++..+ |+++...|..+|++++.-|+.-|--.+|-.|.+.+|-||-|.||--|..-
T Consensus 59 stdLlI~K~PFqRlvrei~q~f~~dLrfqs~Ai~ALQeA~EayLv~LfEdtnlcAihAkRVTimpkdiQlArri 132 (137)
T KOG1745|consen 59 STDLLIRKLPFQRLVREIAQDFKTDLRFQSSAIAALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRI 132 (137)
T ss_pred hhHHHhhcCcHHHHhHHHHhcccccceehHHHHHHHHHHHHHHHHHhccccchhhhccceeEecccceehhhhc
Confidence 46888999999999997664 79999999999999999999999999999899999999999998766543
No 54
>KOG1658|consensus
Probab=94.31 E-value=0.033 Score=45.38 Aligned_cols=67 Identities=22% Similarity=0.335 Sum_probs=55.8
Q ss_pred ccCcHHHHHHHHHhhCCCCcccH-HHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHHhhc
Q psy13186 16 LILPRASINKIIKEILPNIRVAN-ESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQALDQL 83 (170)
Q Consensus 16 l~LP~AtV~riiKe~LP~~~iSk-dA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL~~L 83 (170)
..||.+.|..+++-- |++++++ ++.-+|.+++.-||..|+..+...+...+|||+.--|+=.|+..-
T Consensus 58 ~rLpL~rik~vvkl~-pdl~l~~dea~~l~a~aaelfi~~Ln~~~~~~~q~~k~kt~qr~d~D~ai~~~ 125 (162)
T KOG1658|consen 58 SRLPLARIKQVVKLD-PDLTLLNDEASQLIAKAAELFIQELNDVAYTTAQLRKRKTEQRRDYDTAIEAV 125 (162)
T ss_pred hhccHHHHHhhccCC-cchhhhhhHHHHHHHHHHHHHHHHHHhccchhHHHHHhhhhhhhcccccccch
Confidence 468888888888743 5888776 589999999999999999999999999999999887776665543
No 55
>PTZ00252 histone H2A; Provisional
Probab=93.19 E-value=0.33 Score=38.64 Aligned_cols=66 Identities=12% Similarity=0.253 Sum_probs=51.1
Q ss_pred cccccCcHHHHHHHHHhhCCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhh------CCCCccchhhHHHHHhh
Q psy13186 13 DDELILPRASINKIIKEILPNIRVANESRELVMNCCMEFIHLISSEANDICNE------QQKKTINAEHVLQALDQ 82 (170)
Q Consensus 13 ~ddl~LP~AtV~riiKe~LP~~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~------~~RKTIs~edVl~AL~~ 82 (170)
--.|.+|-.-|.|++++.-...||+.-|...+.-+ +-||++|-.+.+-+ .+++-|+|.||..|+..
T Consensus 21 rAGL~FPVgRi~R~Lr~g~ya~RIga~ApVYLAAV----LEYLtaEVLELAgnaa~d~~~kk~RItPrHi~lAIrN 92 (134)
T PTZ00252 21 KAGLIFPVGRVGSLLRRGQYARRIGASGAVYMAAV----LEYLTAELLELSVKAAAQQAKKPKRLTPRTVTLAVRH 92 (134)
T ss_pred ccCccCchHHHHHHHHcCCcccccCCccHHHHHHH----HHHHHHHHHHHHHHHHHhccCCcccccHHHHHhhccC
Confidence 45789999999999998765679999988877664 44666666665533 46688999999999853
No 56
>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=91.06 E-value=1.7 Score=34.25 Aligned_cols=85 Identities=16% Similarity=0.268 Sum_probs=46.7
Q ss_pred cccccCcHH--HHHHHHHhhCCCC-cccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHHh-hcCCCcc
Q psy13186 13 DDELILPRA--SINKIIKEILPNI-RVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQALD-QLGFGDY 88 (170)
Q Consensus 13 ~ddl~LP~A--tV~riiKe~LP~~-~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL~-~LgF~~y 88 (170)
...-.+|+. +|..|+++. || .....+...+.+.+--|+.-|-..|...+.+.+|++|+.+||--|++ .+++.-.
T Consensus 6 ~~~~~~PrDa~~i~~iL~~~--Gv~~yeprVv~qLLEfayRYt~~vL~DA~~ya~hA~~~~i~~~DVrLAi~~r~~~~f~ 83 (129)
T PF02291_consen 6 SQSKSLPRDARVIHLILKSM--GVTEYEPRVVNQLLEFAYRYTSDVLEDAQVYADHAGRSTIDADDVRLAIQSRLDHSFT 83 (129)
T ss_dssp -------HHHHHHHHHHHHT--T---B-THHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSB-HHHHHHHHHHT------
T ss_pred CCCccCChHHHHHHHHHHHc--CCcccCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHhhhcc
Confidence 345578884 344444544 44 45667888999999999999999999999999999999999999999 5677655
Q ss_pred HHHHHHHHHHH
Q psy13186 89 KSEAEEVMKDC 99 (170)
Q Consensus 89 i~~l~~~l~~~ 99 (170)
-++=++++-+.
T Consensus 84 ~pppre~llel 94 (129)
T PF02291_consen 84 QPPPREFLLEL 94 (129)
T ss_dssp -----------
T ss_pred CCCChHHHHHH
Confidence 56655665443
No 57
>KOG3423|consensus
Probab=89.16 E-value=2.5 Score=35.08 Aligned_cols=69 Identities=20% Similarity=0.334 Sum_probs=56.2
Q ss_pred ccCcHHHHHHHHHhhCCCCcccH-HHHHHHHHHHHHHHHHHHHHHHHHHhhC--------------CCCccchhhHHHHH
Q psy13186 16 LILPRASINKIIKEILPNIRVAN-ESRELVMNCCMEFIHLISSEANDICNEQ--------------QKKTINAEHVLQAL 80 (170)
Q Consensus 16 l~LP~AtV~riiKe~LP~~~iSk-dA~e~i~~c~~eFI~~lsseAnei~~~~--------------~RKTIs~edVl~AL 80 (170)
..||-+.+--+++.+ ++.+++ -.+-+|.=++-.||.-|+.-|...|+-. +|-|++-+|+-.||
T Consensus 85 P~IPDavt~~yL~~a--Gf~~~D~rv~RLvsLaAQKfvSDIa~DA~Q~~k~r~~~~~~~~k~~~kdkK~tLtmeDL~~AL 162 (176)
T KOG3423|consen 85 PTIPDAVTDHYLKKA--GFQTSDPRVKRLVSLAAQKFVSDIANDALQHSKIRTKTAIGKDKKQAKDKKYTLTMEDLSPAL 162 (176)
T ss_pred CCCcHHHHHHHHHhc--CCCcCcHHHHHHHHHHHHHHHHHHHHHHHHHhhhccccccccccccccccceeeeHHHHHHHH
Confidence 478888888888776 455444 4688999999999999999999999743 34589999999999
Q ss_pred hhcCCC
Q psy13186 81 DQLGFG 86 (170)
Q Consensus 81 ~~LgF~ 86 (170)
.+.|..
T Consensus 163 ~EyGin 168 (176)
T KOG3423|consen 163 AEYGIN 168 (176)
T ss_pred HHhCcc
Confidence 999975
No 58
>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily. Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems.
Probab=89.02 E-value=1.7 Score=35.65 Aligned_cols=68 Identities=15% Similarity=0.215 Sum_probs=54.4
Q ss_pred CcHHHHHHHHHhhCC------CCcccHHHHHHHHHHHHH---HHHHHHHHHHHHHhhCCCCccchhhHHHHHhhcCC
Q psy13186 18 LPRASINKIIKEILP------NIRVANESRELVMNCCME---FIHLISSEANDICNEQQKKTINAEHVLQALDQLGF 85 (170)
Q Consensus 18 LP~AtV~riiKe~LP------~~~iSkdA~e~i~~c~~e---FI~~lsseAnei~~~~~RKTIs~edVl~AL~~LgF 85 (170)
|...-+..++...+- +..++.++.+.|.+.|.= .|+.+...|...+...++++|++++|-.++.++.|
T Consensus 192 l~~~e~~~~l~~~l~~~g~~~~~~~~~~~~~~i~~~s~G~p~~i~~l~~~~~~~a~~~~~~~i~~~~v~~~~~~~~~ 268 (269)
T TIGR03015 192 LDREETREYIEHRLERAGNRDAPVFSEGAFDAIHRFSRGIPRLINILCDRLLLSAFLEEKREIGGEEVREVIAEIDF 268 (269)
T ss_pred CCHHHHHHHHHHHHHHcCCCCCCCcCHHHHHHHHHHcCCcccHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHhhc
Confidence 344555555554441 356999999999998775 79999999999988899999999999999999875
No 59
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=88.59 E-value=2.3 Score=37.09 Aligned_cols=69 Identities=16% Similarity=0.166 Sum_probs=50.3
Q ss_pred HHHHHHHHHhhCC----CCcccHHHHHHHHHHH------HHHHHHHHHHHHHHHhhCCCCccchhhHHHHHhhcCCCcc
Q psy13186 20 RASINKIIKEILP----NIRVANESRELVMNCC------MEFIHLISSEANDICNEQQKKTINAEHVLQALDQLGFGDY 88 (170)
Q Consensus 20 ~AtV~riiKe~LP----~~~iSkdA~e~i~~c~------~eFI~~lsseAnei~~~~~RKTIs~edVl~AL~~LgF~~y 88 (170)
..-+..|++..+- ...++.++.+.|.+.+ .-.+..+...|...|...++.+|+.+||..|+..+....+
T Consensus 209 ~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~r~a~~ll~~a~~~a~~~~~~~I~~~~v~~a~~~~~~~~~ 287 (394)
T PRK00411 209 ADEIFDILKDRVEEGFYPGVVDDEVLDLIADLTAREHGDARVAIDLLRRAGLIAEREGSRKVTEEDVRKAYEKSEIVHL 287 (394)
T ss_pred HHHHHHHHHHHHHhhcccCCCCHhHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHHHHHHHHH
Confidence 4455666665442 3358888988887776 3445566678888898899999999999999999844333
No 60
>KOG4336|consensus
Probab=86.62 E-value=4.7 Score=36.29 Aligned_cols=64 Identities=13% Similarity=0.185 Sum_probs=56.9
Q ss_pred cccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHHhhcCCCccHHHHHHHHHHHH
Q psy13186 35 RVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQALDQLGFGDYKSEAEEVMKDCK 100 (170)
Q Consensus 35 ~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL~~LgF~~yi~~l~~~l~~~K 100 (170)
.|++-|.+.+.+....+|.-|...+.-.|+..||...+.-||.-.|..+|+. ++.|..+++.+-
T Consensus 22 ~is~~aletlvell~~yi~eigrq~~n~celagRT~pT~~Dv~l~Li~mnI~--v~sL~~~~q~~~ 85 (323)
T KOG4336|consen 22 SISNAALETLVELLQSYIREIGRQLHNYCELAGRTIPTQGDVKLTLIEMNIK--VSSLYAYFQKQE 85 (323)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCcHHHHHHHHHHhCCC--hhhhHHHHHhcc
Confidence 4899999999999999999999999999999999999999999999999998 566666655443
No 61
>PF07499 RuvA_C: RuvA, C-terminal domain; InterPro: IPR011114 In prokaryotes, RuvA, RuvB, and RuvC process the universal DNA intermediate of homologous recombination, termed Holliday junction. The tetrameric DNA helicase RuvA specifically binds to the Holliday junction and facilitates the isomerization of the junction from the stacked folded configuration to the square-planar structure []. In the RuvA tetramer, each subunit consists of three domains, I, II and III, where I and II form the major core that is responsible for Holliday junction binding and base pair rearrangements of Holliday junction executed at the crossover point, whereas domain III regulates branch migration through direct contact with RuvB. The domain represents the C-terminal domain III of RuvA. This domain plays a significant role in the ATP-dependent branch migration of the hetero-duplex through direct contact with RuvB []. Within the Holliday junction, this domain makes no interaction with the DNA.; GO: 0005524 ATP binding, 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination, 0009379 Holliday junction helicase complex; PDB: 1HJP_A 1CUK_A 1C7Y_A 1IXS_A 1IXR_B 1BVS_E 2ZTC_A 2ZTD_B 2H5X_A.
Probab=84.73 E-value=2.6 Score=27.09 Aligned_cols=38 Identities=37% Similarity=0.579 Sum_probs=23.3
Q ss_pred hhHHHHHhhcCCCccHHHHHHHHHHHHHHHHhhhhhhhhhhcCCCCHHHHHHH
Q psy13186 74 EHVLQALDQLGFGDYKSEAEEVMKDCKIVAANRKKQSNRLENLGIPEEELLRQ 126 (170)
Q Consensus 74 edVl~AL~~LgF~~yi~~l~~~l~~~Ke~~k~r~~k~~k~~~~g~~eEel~~~ 126 (170)
+|++.||..|||.. .++..++.... .+.+++.|+++|+
T Consensus 4 ~d~~~AL~~LGy~~--~e~~~av~~~~-------------~~~~~~~e~~ik~ 41 (47)
T PF07499_consen 4 EDALEALISLGYSK--AEAQKAVSKLL-------------EKPGMDVEELIKQ 41 (47)
T ss_dssp HHHHHHHHHTTS-H--HHHHHHHHHHH-------------HSTTS-HHHHHHH
T ss_pred HHHHHHHHHcCCCH--HHHHHHHHHhh-------------cCCCCCHHHHHHH
Confidence 68999999999983 22222222111 1577889999884
No 62
>cd08045 TAF4 TATA Binding Protein (TBP) Associated Factor 4 (TAF4) 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 4 (TAF4) is one of several TAFs that bind TBP and are involved in forming the Transcription Factor IID (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 eukaryote. 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 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 TAF orthologs and paralogs. Several hypotheses are
Probab=83.89 E-value=17 Score=30.05 Aligned_cols=72 Identities=15% Similarity=0.203 Sum_probs=55.5
Q ss_pred cccccCcHHHHHHHHHhhCC--CC-cccHHHHHHHHHHHHHHHHHHHHHHHHHHhhC------CCCccchhhHHHHHhhc
Q psy13186 13 DDELILPRASINKIIKEILP--NI-RVANESRELVMNCCMEFIHLISSEANDICNEQ------QKKTINAEHVLQALDQL 83 (170)
Q Consensus 13 ~ddl~LP~AtV~riiKe~LP--~~-~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~------~RKTIs~edVl~AL~~L 83 (170)
.+...|....|.+.|..... ++ .|+.|...+|.-||.+++..|-.....+|.+- ...++-..||-.-|..|
T Consensus 40 ~~~~fl~~~~l~~~~~~i~~~~g~~~~~~d~~~lis~a~e~rlr~li~k~~~~s~hR~~~~~~~~r~~~~sdvr~qL~~l 119 (212)
T cd08045 40 KDPSFLNPSPLAKKIRKIAKKHGLKEVDEDVLDLISLALEERLRNLLEKLIEVSEHRVDSEKEDERYEITSDVRKQLRFL 119 (212)
T ss_pred chhhccCHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcCCCCceeecchHHHHHHHH
Confidence 44567777777777777775 44 79999999999999999999999999988753 34566667777766554
Q ss_pred C
Q psy13186 84 G 84 (170)
Q Consensus 84 g 84 (170)
.
T Consensus 120 ~ 120 (212)
T cd08045 120 E 120 (212)
T ss_pred H
Confidence 4
No 63
>TIGR02928 orc1/cdc6 family replication initiation protein. Members of this protein family are found exclusively in the archaea. This set of DNA binding proteins shows homology to the origin recognition complex subunit 1/cell division control protein 6 family in eukaryotes. Several members may be found in genome and interact with each other.
Probab=82.21 E-value=6.7 Score=33.77 Aligned_cols=74 Identities=9% Similarity=0.084 Sum_probs=49.5
Q ss_pred HHHHHHHHHhhCC----CCcccHHHHHHHHHHHH------HHHHHHHHHHHHHHhhCCCCccchhhHHHHHhhcCCCccH
Q psy13186 20 RASINKIIKEILP----NIRVANESRELVMNCCM------EFIHLISSEANDICNEQQKKTINAEHVLQALDQLGFGDYK 89 (170)
Q Consensus 20 ~AtV~riiKe~LP----~~~iSkdA~e~i~~c~~------eFI~~lsseAnei~~~~~RKTIs~edVl~AL~~LgF~~yi 89 (170)
...+..|++..+. +..++.++.+++.+.+. -.+..+-..|...|...++.+|+.+||..|+..+....+.
T Consensus 201 ~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~R~al~~l~~a~~~a~~~~~~~it~~~v~~a~~~~~~~~~~ 280 (365)
T TIGR02928 201 AEELRDILENRAEKAFYDGVLDDGVIPLCAALAAQEHGDARKAIDLLRVAGEIAEREGAERVTEDHVEKAQEKIEKDRLL 280 (365)
T ss_pred HHHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHH
Confidence 3446666665542 34578888777665442 2334455567788888899999999999999998554444
Q ss_pred HHHH
Q psy13186 90 SEAE 93 (170)
Q Consensus 90 ~~l~ 93 (170)
..+.
T Consensus 281 ~~i~ 284 (365)
T TIGR02928 281 ELIR 284 (365)
T ss_pred HHHH
Confidence 4333
No 64
>COG1067 LonB Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]
Probab=82.12 E-value=1.5 Score=42.80 Aligned_cols=34 Identities=35% Similarity=0.452 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHHHHHHhhCCCCccchhhHHHHHhh
Q psy13186 48 CMEFIHLISSEANDICNEQQKKTINAEHVLQALDQ 82 (170)
Q Consensus 48 ~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL~~ 82 (170)
-..-...|. +|+.+|..++++-|+++||.+|++.
T Consensus 365 ~rdl~~lv~-~A~~ia~~~~~~~I~ae~Ve~a~~~ 398 (647)
T COG1067 365 LRDLGNLVR-EAGDIAVSEGRKLITAEDVEEALQK 398 (647)
T ss_pred HHHHHHHHH-HhhHHHhcCCcccCcHHHHHHHHHh
Confidence 344455555 9999999999999999999999987
No 65
>KOG2389|consensus
Probab=79.84 E-value=4.6 Score=36.82 Aligned_cols=73 Identities=15% Similarity=0.237 Sum_probs=61.2
Q ss_pred cccccCcHHHHHHHHHhhCCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHHhhcCCC
Q psy13186 13 DDELILPRASINKIIKEILPNIRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQALDQLGFG 86 (170)
Q Consensus 13 ~ddl~LP~AtV~riiKe~LP~~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL~~LgF~ 86 (170)
+....|-+..|.+|+... |--..-.-|.+.|..-...||.-|+..|...++..||--.+.-||+.||++||..
T Consensus 25 ~ya~sla~~avaQIcqsl-g~~~~~~sale~Ltd~~~qyvQ~lgk~a~~~~n~anR~epnl~Div~Al~dls~s 97 (353)
T KOG2389|consen 25 EYAFSLARVAVAQICQSL-GYSSTQNSALETLTDVLQQYVQNLGKTAHRYSNLANRTEPNLFDIVLALQDLSAS 97 (353)
T ss_pred HHHHHHHHHHHHHHHHhc-CCcccccHHHHHHHHHHHHHHHHHHhhhhhhhhhcCCCCccHHHHHHHHHHhhhh
Confidence 445578888899998755 4222333489999999999999999999999999999999999999999998865
No 66
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=79.29 E-value=24 Score=29.75 Aligned_cols=111 Identities=15% Similarity=0.168 Sum_probs=62.0
Q ss_pred cCcHHHHHHHHHhhCC--CCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHHhhcCCCccHHHHHH
Q psy13186 17 ILPRASINKIIKEILP--NIRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQALDQLGFGDYKSEAEE 94 (170)
Q Consensus 17 ~LP~AtV~riiKe~LP--~~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL~~LgF~~yi~~l~~ 94 (170)
.++...+.++++..++ ++.++.++...|.+.+.-=+..+.......|. +..+|+.+||-.++.....++.+-.+-.
T Consensus 183 ~~~~~~~~~~l~~~~~~~~~~~~~~al~~l~~~~~gdlr~l~~~l~~~~~--~~~~It~~~v~~~~~~~~~~~~i~~l~~ 260 (337)
T PRK12402 183 APTDDELVDVLESIAEAEGVDYDDDGLELIAYYAGGDLRKAILTLQTAAL--AAGEITMEAAYEALGDVGTDEVIESLLD 260 (337)
T ss_pred CCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHH--cCCCCCHHHHHHHhCCCCCHHHHHHHHH
Confidence 3455677778877765 67899999999988863323333333333342 2347999999988887665544444333
Q ss_pred HHHHHHHHHHhhhhhhhhh-hcCCCCHHHHHHHHHHHHHHH
Q psy13186 95 VMKDCKIVAANRKKQSNRL-ENLGIPEEELLRQQQELFAKA 134 (170)
Q Consensus 95 ~l~~~Ke~~k~r~~k~~k~-~~~g~~eEel~~~Q~eLF~~A 134 (170)
.+.. +...+.+ +.-.++ ...|++..++++ .|+..+
T Consensus 261 ai~~-~~~~~a~-~~l~~l~~~~g~~~~~i~~---~l~~~~ 296 (337)
T PRK12402 261 AAEA-GDFTDAR-KTLDDLLIDEGLSGGEVLE---ELLRVA 296 (337)
T ss_pred HHHc-CCHHHHH-HHHHHHHHHcCCCHHHHHH---HHHHHH
Confidence 3311 0000000 011223 257888777766 454433
No 67
>KOG2549|consensus
Probab=79.01 E-value=8.5 Score=37.17 Aligned_cols=65 Identities=20% Similarity=0.240 Sum_probs=54.1
Q ss_pred cHHHHHHHHHhhCCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHHhhcC
Q psy13186 19 PRASINKIIKEILPNIRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQALDQLG 84 (170)
Q Consensus 19 P~AtV~riiKe~LP~~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL~~Lg 84 (170)
|+-+|.- |-+++.-..++.|+..+|..-...=|.-|.-+|.+.-.+.+|.+++.+||..||..+.
T Consensus 13 ~~Es~k~-vAEslGi~nl~deaa~~La~dv~yrikEI~Q~aaKfm~hskR~kLtv~DV~~ALr~~n 77 (576)
T KOG2549|consen 13 PKESVKV-VAESLGITNLNDEAALLLAEDVEYRIKEIVQDAAKFMVHSKRTKLTVDDVDYALRSLN 77 (576)
T ss_pred cHHHHHH-HHHHhCccccCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCcCcHHHHHHHHhhcc
Confidence 4555544 4455533459999999999999999999999999999999999999999999999763
No 68
>TIGR01128 holA DNA polymerase III, delta subunit. subunit around DNA forming a DNA sliding clamp.
Probab=78.46 E-value=13 Score=30.86 Aligned_cols=70 Identities=14% Similarity=0.139 Sum_probs=53.0
Q ss_pred cCcHHHHHHHHHhhCC--CCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHHhhcCCC
Q psy13186 17 ILPRASINKIIKEILP--NIRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQALDQLGFG 86 (170)
Q Consensus 17 ~LP~AtV~riiKe~LP--~~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL~~LgF~ 86 (170)
.++...+.+.|++.+. ++.|+.++...|...+.-=+..+.++-..+|.-.+.++|+.+||...+..-.-.
T Consensus 110 ~~~~~~~~~~i~~~~~~~g~~i~~~a~~~l~~~~~~d~~~l~~el~KL~~~~~~~~It~e~I~~~~~~~~~~ 181 (302)
T TIGR01128 110 TPKEQELPRWIQARLKKLGLRIDPDAVQLLAELVEGNLLAIAQELEKLALYAPDGKITLEDVEEAVSDSARF 181 (302)
T ss_pred CCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhCcHHHHHHHHHHHHHhhCCCCCCCHHHHHHHHhhhhcC
Confidence 4557777888888775 789999999999888876667777777777765444589999998887654433
No 69
>TIGR02902 spore_lonB ATP-dependent protease LonB. Members of this protein are LonB, a paralog of the ATP-dependent protease La (LonA, TIGR00763). LonB proteins are found strictly, and almost universally, in endospore-forming bacteria. This protease was shown, in Bacillus subtilis, to be expressed specifically in the forespore, during sporulation, under control of sigma(F). The lonB gene, despite location immediately upstream of lonA, was shown to be monocistronic. LonB appears able to act on sigma(H) for post-translation control, but lonB mutation did not produce an obvious sporulation defect under the conditions tested. Note that additional paralogs of LonA and LonB occur in the Clostridium lineage and this model selects only one per species as the protein that corresponds to LonB in B. subtilis.
Probab=76.82 E-value=9.3 Score=35.95 Aligned_cols=68 Identities=22% Similarity=0.342 Sum_probs=46.8
Q ss_pred HHHHHHHHHhhCC--CCcccHHHHHHHHHHHH---HHHHHHHHHHHHHHhhCCCCccchhhHHHHHhhcCCCccHHH
Q psy13186 20 RASINKIIKEILP--NIRVANESRELVMNCCM---EFIHLISSEANDICNEQQKKTINAEHVLQALDQLGFGDYKSE 91 (170)
Q Consensus 20 ~AtV~riiKe~LP--~~~iSkdA~e~i~~c~~---eFI~~lsseAnei~~~~~RKTIs~edVl~AL~~LgF~~yi~~ 91 (170)
..-+..|++..+. ++.+++++.++|...+. +.++.+ ..|..+|..++|++|+.+||.+++. .+.|.+.
T Consensus 265 ~eei~~Il~~~a~k~~i~is~~al~~I~~y~~n~Rel~nll-~~Aa~~A~~~~~~~It~~dI~~vl~---~~~~~~~ 337 (531)
T TIGR02902 265 DEEIKEIAKNAAEKIGINLEKHALELIVKYASNGREAVNIV-QLAAGIALGEGRKRILAEDIEWVAE---NGNYHPK 337 (531)
T ss_pred HHHHHHHHHHHHHHcCCCcCHHHHHHHHHhhhhHHHHHHHH-HHHHHHHhhCCCcEEcHHHHHHHhC---Ccccccc
Confidence 3345556666654 57899999998877765 334444 3455677788999999999999965 4455443
No 70
>PF13335 Mg_chelatase_2: Magnesium chelatase, subunit ChlI
Probab=76.17 E-value=11 Score=27.80 Aligned_cols=48 Identities=23% Similarity=0.365 Sum_probs=39.0
Q ss_pred CcccHHHHHHHHHHHHHH------HHHHHHHHHHHHhhCCCCccchhhHHHHHh
Q psy13186 34 IRVANESRELVMNCCMEF------IHLISSEANDICNEQQKKTINAEHVLQALD 81 (170)
Q Consensus 34 ~~iSkdA~e~i~~c~~eF------I~~lsseAnei~~~~~RKTIs~edVl~AL~ 81 (170)
..+++++..+|..++..| ++=|-.-|..||.-++...|..+||..||.
T Consensus 41 ~~l~~~~~~~l~~~~~~~~lS~R~~~rilrvARTIADL~~~~~I~~~hi~EAl~ 94 (96)
T PF13335_consen 41 CPLSSEAKKLLEQAAEKLNLSARGYHRILRVARTIADLEGSERITREHIAEALS 94 (96)
T ss_pred cCCCHHHHHHHHHHHHHcCcCHHHHHHHHHHHHHHHhHcCCCCCCHHHHHHHHh
Confidence 457778888887776654 455667799999999999999999999974
No 71
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=73.59 E-value=17 Score=31.48 Aligned_cols=71 Identities=17% Similarity=0.230 Sum_probs=50.6
Q ss_pred cCcHHHHHHHHHhhCC--CCcccHHHHHHHHHHHHH---HHHHHHHHHHHHHhhCCCCccchhhHHHHHhhcCCCc
Q psy13186 17 ILPRASINKIIKEILP--NIRVANESRELVMNCCME---FIHLISSEANDICNEQQKKTINAEHVLQALDQLGFGD 87 (170)
Q Consensus 17 ~LP~AtV~riiKe~LP--~~~iSkdA~e~i~~c~~e---FI~~lsseAnei~~~~~RKTIs~edVl~AL~~LgF~~ 87 (170)
.++...+..|++.... ++.++.++...|.+.|.= .+..+-..+...+...+...|+.++|..++..++...
T Consensus 179 ~~~~~e~~~il~~~~~~~~~~~~~~~~~~ia~~~~G~pR~a~~~l~~~~~~a~~~~~~~I~~~~v~~~l~~~~~~~ 254 (328)
T PRK00080 179 FYTVEELEKIVKRSARILGVEIDEEGALEIARRSRGTPRIANRLLRRVRDFAQVKGDGVITKEIADKALDMLGVDE 254 (328)
T ss_pred CCCHHHHHHHHHHHHHHcCCCcCHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHhCCCc
Confidence 3455666777776654 688999998888877732 2444444566666666677999999999999987663
No 72
>TIGR00764 lon_rel lon-related putative ATP-dependent protease. Members of this family from Pyrococcus horikoshii and Pyrococcus abyssi each contain a predicted intein.
Probab=73.07 E-value=14 Score=35.46 Aligned_cols=49 Identities=22% Similarity=0.241 Sum_probs=38.9
Q ss_pred cccHHHHHHHHHHHH-------------HHHHHHHHHHHHHHhhCCCCccchhhHHHHHhhc
Q psy13186 35 RVANESRELVMNCCM-------------EFIHLISSEANDICNEQQKKTINAEHVLQALDQL 83 (170)
Q Consensus 35 ~iSkdA~e~i~~c~~-------------eFI~~lsseAnei~~~~~RKTIs~edVl~AL~~L 83 (170)
.++.+|...|.+-++ -=|.-|-.+|+.+|..+++.+|+.+||..|++.-
T Consensus 330 ~~s~~Av~~Li~~~~R~ag~r~~lsl~~R~L~~llR~A~~iA~~~~~~~I~~ehV~~Ai~~~ 391 (608)
T TIGR00764 330 HFTRDAVEEIVREAQRRAGRKDHLTLRLRELGGLVRAAGDIAKSSGKVYVTAEHVLKAKKLA 391 (608)
T ss_pred cCCHHHHHHHHHHHHHHHhcccccCCCHHHHHHHHHHHHHHHHhcCCceecHHHHHHHHHHH
Confidence 688998888876544 2345566778999999999999999999998754
No 73
>PF13654 AAA_32: AAA domain; PDB: 3K1J_B.
Probab=71.35 E-value=13 Score=35.23 Aligned_cols=48 Identities=23% Similarity=0.299 Sum_probs=38.2
Q ss_pred cccHHHHHHHHHHHH-----------HHHHHHHHHHHHHHhhCCCCccchhhHHHHHhh
Q psy13186 35 RVANESRELVMNCCM-----------EFIHLISSEANDICNEQQKKTINAEHVLQALDQ 82 (170)
Q Consensus 35 ~iSkdA~e~i~~c~~-----------eFI~~lsseAnei~~~~~RKTIs~edVl~AL~~ 82 (170)
-++.+|...|.+.+. ..|.-|-.+|+-+|...++++|+++||..|++.
T Consensus 447 ~~~~~Av~~li~~~~R~~q~kLsl~~~~l~~ll~EA~~~A~~~~~~~I~~~~V~~Ai~~ 505 (509)
T PF13654_consen 447 PFDRSAVARLIEYSARLDQDKLSLRFSWLADLLREANYWARKEGAKVITAEHVEQAIEE 505 (509)
T ss_dssp -BBHHHHHHHHHHHHHCC-SEEE--HHHHHHHHHHHHHHHHHCT-SSB-HHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHHHHhCCEeCCCHHHHHHHHHHHHHHHHHhCCCccCHHHHHHHHHc
Confidence 478888888777643 367777899999999999999999999999975
No 74
>PF02861 Clp_N: Clp amino terminal domain; InterPro: IPR004176 This short domain is found in one or two copies at the amino terminus of ClpA and ClpB proteins from bacteria and eukaryotes. The function of these domains is uncertain but they may form a protein binding site []. The proteins are thought to be subunits of ATP-dependent proteases which act as chaperones to target the proteases to substrates.; GO: 0019538 protein metabolic process; PDB: 3FH2_A 3ZRJ_A 3ZRI_A 1QVR_C 3FES_C 2Y1R_F 3PXG_D 2Y1Q_A 3PXI_C 2K77_A ....
Probab=70.90 E-value=4.1 Score=25.47 Aligned_cols=26 Identities=31% Similarity=0.401 Sum_probs=20.9
Q ss_pred HHHHHhhCCCCccchhhHHHHHhhcC
Q psy13186 59 ANDICNEQQKKTINAEHVLQALDQLG 84 (170)
Q Consensus 59 Anei~~~~~RKTIs~edVl~AL~~Lg 84 (170)
|.++|...+...|+++|++.||=.-+
T Consensus 1 A~~~A~~~~~~~i~~eHlL~all~~~ 26 (53)
T PF02861_consen 1 AQELARERGHQYISPEHLLLALLEDP 26 (53)
T ss_dssp HHHHHHHTTBSSE-HHHHHHHHHHHT
T ss_pred CHHHHHHcCCCcccHHHHHHHHHhhh
Confidence 56788999999999999999976544
No 75
>TIGR02442 Cob-chelat-sub cobaltochelatase subunit. A number of genomes (actinobacteria, cyanobacteria, betaproteobacteria and pseudomonads) which apparently biosynthesize B12, encode a cobN gene but are demonstrably lacking cobS and cobT. These genomes do, however contain a homolog (modelled here) of the magnesium chelatase subunits BchI/BchD family. Aside from the cyanobacteria (which have a separate magnesium chelatase trimer), these species do not make chlorins, so do not have any use for a magnesium chelatase. Furthermore, in nearly all cases the members of this family are proximal to either CobN itself or other genes involved in cobalt transport or B12 biosynthesis.
Probab=69.37 E-value=18 Score=34.85 Aligned_cols=54 Identities=20% Similarity=0.490 Sum_probs=44.5
Q ss_pred HhhCCCCcccHHHHHHHHHHHHHHH-------HHHHHHHHHHHhhCCCCccchhhHHHHHh
Q psy13186 28 KEILPNIRVANESRELVMNCCMEFI-------HLISSEANDICNEQQKKTINAEHVLQALD 81 (170)
Q Consensus 28 Ke~LP~~~iSkdA~e~i~~c~~eFI-------~~lsseAnei~~~~~RKTIs~edVl~AL~ 81 (170)
+..+|.+.|+.+..+.|...|..+- .++...|.-+|--++|.+|+++||..|+.
T Consensus 242 r~~~~~V~is~~~~~~l~~~~~~~~i~s~Ra~i~~~r~Ara~AaL~gr~~V~~~Dv~~A~~ 302 (633)
T TIGR02442 242 RSLLPSVRISDSLIRFISELCIEFGVDGHRADIVMARAARALAALDGRRRVTAEDVREAAE 302 (633)
T ss_pred HHhCCCCCCCHHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHHHcCCCcCCHHHHHHHHH
Confidence 4456789999999999999987762 45667788888899999999999988865
No 76
>KOG3334|consensus
Probab=69.27 E-value=22 Score=28.79 Aligned_cols=83 Identities=17% Similarity=0.237 Sum_probs=59.3
Q ss_pred ccCcHHHHHHHHHhhCC--CC-cccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHHhhcCCCccHH-H
Q psy13186 16 LILPRASINKIIKEILP--NI-RVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQALDQLGFGDYKS-E 91 (170)
Q Consensus 16 l~LP~AtV~riiKe~LP--~~-~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL~~LgF~~yi~-~ 91 (170)
-.-|+. .|+|..+|- ++ -...-..-.|.+-+--++.-|-..|.-.+.+.+|.||.++||--|+...+=..|.+ +
T Consensus 10 ~~~pkD--a~~i~~iL~s~GI~eyEprVi~qlLefa~rYtt~vL~DA~vys~HA~ka~i~~eDVrlA~~~~~~~sf~~pP 87 (148)
T KOG3334|consen 10 KGVPKD--ARVIASILKSLGIQEYEPRVINQLLEFAYRYTTTVLDDAKVYSSHAKKATIDAEDVRLAIQMRVDHSFTPPP 87 (148)
T ss_pred cCCcHH--HHHHHHHHHHcCccccChHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHhccccCCCC
Confidence 345664 355555554 33 24445666677777777888888899999999999999999999999887777776 4
Q ss_pred HHHHHHHHH
Q psy13186 92 AEEVMKDCK 100 (170)
Q Consensus 92 l~~~l~~~K 100 (170)
=++++-+.-
T Consensus 88 pRe~lL~lA 96 (148)
T KOG3334|consen 88 PREFLLELA 96 (148)
T ss_pred chHHHHHHH
Confidence 455554443
No 77
>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.
Probab=69.21 E-value=24 Score=29.68 Aligned_cols=69 Identities=16% Similarity=0.215 Sum_probs=47.7
Q ss_pred CcHHHHHHHHHhhCC--CCcccHHHHHHHHHHHHH---HHHHHHHHHHHHHhhCCCCccchhhHHHHHhhcCCC
Q psy13186 18 LPRASINKIIKEILP--NIRVANESRELVMNCCME---FIHLISSEANDICNEQQKKTINAEHVLQALDQLGFG 86 (170)
Q Consensus 18 LP~AtV~riiKe~LP--~~~iSkdA~e~i~~c~~e---FI~~lsseAnei~~~~~RKTIs~edVl~AL~~LgF~ 86 (170)
++...+..+++.... ++.++.++.+.|.+.|.= ++.-+...+...+...+...|+.++|..++..++++
T Consensus 159 l~~~e~~~il~~~~~~~~~~~~~~al~~ia~~~~G~pR~~~~ll~~~~~~a~~~~~~~it~~~v~~~l~~l~~~ 232 (305)
T TIGR00635 159 YTVEELAEIVSRSAGLLNVEIEPEAALEIARRSRGTPRIANRLLRRVRDFAQVRGQKIINRDIALKALEMLMID 232 (305)
T ss_pred CCHHHHHHHHHHHHHHhCCCcCHHHHHHHHHHhCCCcchHHHHHHHHHHHHHHcCCCCcCHHHHHHHHHHhCCC
Confidence 445566677766654 578999998888776532 233344445566655666789999999999997655
No 78
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=68.83 E-value=24 Score=29.49 Aligned_cols=64 Identities=11% Similarity=0.162 Sum_probs=41.0
Q ss_pred CcHHHHHHHHHhhCC--CCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHHhhc
Q psy13186 18 LPRASINKIIKEILP--NIRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQALDQL 83 (170)
Q Consensus 18 LP~AtV~riiKe~LP--~~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL~~L 83 (170)
++...+.+++...+. ++.|+.++.+.|.+.+.--+..+-.+-...+.. .++|+.+||..++...
T Consensus 161 l~~~ei~~~l~~~~~~~~~~i~~~al~~l~~~~~gd~r~~~~~l~~~~~~--~~~it~~~v~~~~~~~ 226 (319)
T PRK00440 161 LKKEAVAERLRYIAENEGIEITDDALEAIYYVSEGDMRKAINALQAAAAT--GKEVTEEAVYKITGTA 226 (319)
T ss_pred CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHc--CCCCCHHHHHHHhCCC
Confidence 445566666666653 688999999999888653333333333333332 3689999998887554
No 79
>PRK07452 DNA polymerase III subunit delta; Validated
Probab=65.90 E-value=24 Score=30.12 Aligned_cols=67 Identities=13% Similarity=0.201 Sum_probs=51.9
Q ss_pred HHHHHHHhhCC--CCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhh--CCCCccchhhHHHHHhhcCCCcc
Q psy13186 22 SINKIIKEILP--NIRVANESRELVMNCCMEFIHLISSEANDICNE--QQKKTINAEHVLQALDQLGFGDY 88 (170)
Q Consensus 22 tV~riiKe~LP--~~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~--~~RKTIs~edVl~AL~~LgF~~y 88 (170)
.+.+.|++.+- +..|+.+|...|..++.-=...+..+-...|.- .++.+|+.+||-..+....+.-|
T Consensus 134 ~l~~~i~~~~~~~g~~i~~~a~~~L~~~~g~dl~~l~~EleKL~ly~~~~~~~It~~~V~~~v~~~~~~if 204 (326)
T PRK07452 134 GLKQLVERTAQELGVKLTPEAAELLAEAVGNDSRRLYNELEKLALYAENSTKPISAEEVKALVSNTTQNSL 204 (326)
T ss_pred HHHHHHHHHHHHcCCCCCHHHHHHHHHHhCccHHHHHHHHHHHHHhccCCCCccCHHHHHHHhccCcCcHH
Confidence 35566666554 789999999999999887677777888888765 55778999999998877665433
No 80
>PRK13406 bchD magnesium chelatase subunit D; Provisional
Probab=65.04 E-value=16 Score=35.21 Aligned_cols=59 Identities=14% Similarity=0.097 Sum_probs=48.7
Q ss_pred HHHHHHHhhCCCCcccHHHHHHHHHHHHHHH-------HHHHHHHHHHHhhCCCCccchhhHHHHHh
Q psy13186 22 SINKIIKEILPNIRVANESRELVMNCCMEFI-------HLISSEANDICNEQQKKTINAEHVLQALD 81 (170)
Q Consensus 22 tV~riiKe~LP~~~iSkdA~e~i~~c~~eFI-------~~lsseAnei~~~~~RKTIs~edVl~AL~ 81 (170)
.|.+.- +.+|++.|+.+....|.+.|..|= .++...|..+|--+||.+|+++||..|+.
T Consensus 183 ~I~~AR-~rl~~v~v~~~~l~~i~~~~~~~gv~S~Ra~i~llraARa~AaL~Gr~~V~~~dv~~Aa~ 248 (584)
T PRK13406 183 DIAAAR-ARLPAVGPPPEAIAALCAAAAALGIASLRAPLLALRAARAAAALAGRTAVEEEDLALAAR 248 (584)
T ss_pred HHHHHH-HHHccCCCCHHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Confidence 444443 356899999999999988888773 47788899999999999999999999875
No 81
>PRK05574 holA DNA polymerase III subunit delta; Reviewed
Probab=64.94 E-value=41 Score=28.56 Aligned_cols=68 Identities=13% Similarity=0.140 Sum_probs=51.4
Q ss_pred cCcHHHHHHHHHhhCC--CCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHHhhcC
Q psy13186 17 ILPRASINKIIKEILP--NIRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQALDQLG 84 (170)
Q Consensus 17 ~LP~AtV~riiKe~LP--~~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL~~Lg 84 (170)
.++...+.+.|+..+- ++.|+.++...|.+.+..=...+.++-..+|.-.+.+.|+.+||-..+..-.
T Consensus 145 ~~~~~~~~~~i~~~~~~~g~~i~~~a~~~L~~~~~~d~~~l~~El~KL~l~~~~~~It~~~I~~~i~~~~ 214 (340)
T PRK05574 145 PPKEAELPQWIQQRLKQQGLQIDAAALQLLAERVEGNLLALAQELEKLALLYPDGKITLEDVEEAVPDSA 214 (340)
T ss_pred CCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhCchHHHHHHHHHHHHhhcCCCCCCHHHHHHHHhhhh
Confidence 4566777777777775 7899999999999988877777888888887643222399999987766543
No 82
>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I. This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria.
Probab=64.66 E-value=30 Score=30.92 Aligned_cols=54 Identities=11% Similarity=0.283 Sum_probs=41.9
Q ss_pred HHhhCCCCcccHHHHHHHHHHHHHHH-------HHHHHHHHHHHhhCCCCccchhhHHHHH
Q psy13186 27 IKEILPNIRVANESRELVMNCCMEFI-------HLISSEANDICNEQQKKTINAEHVLQAL 80 (170)
Q Consensus 27 iKe~LP~~~iSkdA~e~i~~c~~eFI-------~~lsseAnei~~~~~RKTIs~edVl~AL 80 (170)
+++.+|++.|+.+....|.+.|..+= .++...|.-.|--+||..|+++||..+.
T Consensus 246 a~~~~~~V~v~d~~~~~i~~l~~~~~~~s~Ra~i~l~raArA~Aal~GR~~V~~dDv~~~a 306 (337)
T TIGR02030 246 AQNLLPQVTIPYDVLVKVAELCAELDVDGLRGELTLNRAAKALAAFEGRTEVTVDDIRRVA 306 (337)
T ss_pred HHHHhccCcCCHHHHHHHHHHHHHHCCCCCcHHHHHHHHHHHHHHHcCCCCCCHHHHHHHH
Confidence 35567899999999999988776652 2345667777888999999999998764
No 83
>cd04752 Commd4 COMM_Domain containing protein 4. The COMM Domain is found at the C-terminus of a variety of proteins; presumably all COMM_Domain containing proteins are located in the nucleus and the COMM domain plays a role in protein-protein interactions. Several family members have been shown to bind and inhibit NF-kappaB.
Probab=61.60 E-value=36 Score=27.41 Aligned_cols=51 Identities=18% Similarity=0.250 Sum_probs=38.7
Q ss_pred HHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHHhhcCCC-ccHHHHHHHHHHHHHHHH
Q psy13186 47 CCMEFIHLISSEANDICNEQQKKTINAEHVLQALDQLGFG-DYKSEAEEVMKDCKIVAA 104 (170)
Q Consensus 47 c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL~~LgF~-~yi~~l~~~l~~~Ke~~k 104 (170)
.+.+.++||-..|. |.-++++++..-|..|||+ +.++.+..++..++....
T Consensus 43 ~~va~l~fiL~~A~-------k~n~~~~~l~~eL~~lglp~e~~~~l~~~~~~~~~~l~ 94 (174)
T cd04752 43 ASIAVLSFILSSAA-------KYNVDGESLSSELQQLGLPKEHATSLCRSYEEKQSKLQ 94 (174)
T ss_pred HHHHHHHHHHHHHH-------HcCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHH
Confidence 46667777776664 3458999999999999998 677777777777776543
No 84
>TIGR02031 BchD-ChlD magnesium chelatase ATPase subunit D. This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria. Unlike subunit I (TIGR02030), this subunit is not found in archaea.
Probab=55.97 E-value=40 Score=32.28 Aligned_cols=55 Identities=13% Similarity=0.228 Sum_probs=42.1
Q ss_pred HHhhCCCCcccHHHHHHHHHHHHHH-------HHHHHHHHHHHHhhCCCCccchhhHHHHHh
Q psy13186 27 IKEILPNIRVANESRELVMNCCMEF-------IHLISSEANDICNEQQKKTINAEHVLQALD 81 (170)
Q Consensus 27 iKe~LP~~~iSkdA~e~i~~c~~eF-------I~~lsseAnei~~~~~RKTIs~edVl~AL~ 81 (170)
+++.+|.|.|+.+....|.+.|..+ -.++...|.-.|--.+|.+|+++||..|..
T Consensus 195 ar~~~~~V~i~~~~~~~l~~~~~~~gv~s~Ra~i~~~r~ArA~Aal~gr~~V~~~Dv~~a~~ 256 (589)
T TIGR02031 195 ARELLPQVTISAEQVKELVLTAASLGISGHRADLFAVRAAKAHAALHGRTEVTEEDLKLAVE 256 (589)
T ss_pred HHHhcCCccCCHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Confidence 4566788999999998888776543 123446667777889999999999988864
No 85
>CHL00081 chlI Mg-protoporyphyrin IX chelatase
Probab=55.95 E-value=33 Score=31.03 Aligned_cols=54 Identities=11% Similarity=0.349 Sum_probs=44.3
Q ss_pred HHhhCCCCcccHHHHHHHHHHHHHHH-------HHHHHHHHHHHhhCCCCccchhhHHHHH
Q psy13186 27 IKEILPNIRVANESRELVMNCCMEFI-------HLISSEANDICNEQQKKTINAEHVLQAL 80 (170)
Q Consensus 27 iKe~LP~~~iSkdA~e~i~~c~~eFI-------~~lsseAnei~~~~~RKTIs~edVl~AL 80 (170)
+++.+|.|.|+.+....|.+-|..+= .++...|.-.|--+||..++++||..+.
T Consensus 259 ar~~~~~V~v~~~~~~yi~~l~~~~~~~s~Ra~i~l~raArA~Aal~GR~~V~pdDv~~~a 319 (350)
T CHL00081 259 AQNLLPKVEIDYDLRVKISQICSELDVDGLRGDIVTNRAAKALAAFEGRTEVTPKDIFKVI 319 (350)
T ss_pred HHHhcCCCccCHHHHHHHHHHHHHHCCCCChHHHHHHHHHHHHHHHcCCCCCCHHHHHHHH
Confidence 45667899999999999999888763 3566677778888999999999998774
No 86
>COG5251 TAF40 Transcription initiation factor TFIID, subunit TAF11 [Transcription]
Probab=53.92 E-value=18 Score=30.30 Aligned_cols=62 Identities=18% Similarity=0.137 Sum_probs=44.5
Q ss_pred cCcHHHHHHHHHhhCCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCC-CccchhhHHHH
Q psy13186 17 ILPRASINKIIKEILPNIRVANESRELVMNCCMEFIHLISSEANDICNEQQK-KTINAEHVLQA 79 (170)
Q Consensus 17 ~LP~AtV~riiKe~LP~~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~R-KTIs~edVl~A 79 (170)
.||++.|.|++..++ |-.|+.-.+.+|+--+.+|+.-|---|..+-.+-+- -.+.|.|+-.|
T Consensus 115 ~lnKt~VKKlastV~-nQtVspNi~I~l~g~~KVfvGEiIElA~~Vq~~w~~sgpl~p~h~rea 177 (199)
T COG5251 115 SLNKTQVKKLASTVA-NQTVSPNIRIFLQGVGKVFVGEIIELAMIVQNKWLTSGPLIPFHKREA 177 (199)
T ss_pred CCCHHHHHHHHHHHh-ccccCCCeeeeeechhHHHHHHHHHHHHHHHHHhcccCCCChHHHHHH
Confidence 799999999999988 556666666678888888988777666555433211 24677777665
No 87
>PF07647 SAM_2: SAM domain (Sterile alpha motif); InterPro: IPR011510 The sterile alpha motif (SAM) domain is a putative protein interaction module present in a wide variety of proteins [] involved in many biological processes. The SAM domain that spreads over around 70 residues is found in diverse eukaryotic organisms []. SAM domains have been shown to homo- and hetero-oligomerise, forming multiple self-association architectures and also binding to various non-SAM domain-containing proteins [], nevertheless with a low affinity constant []. SAM domains also appear to possess the ability to bind RNA []. Smaug, a protein that helps to establish a morphogen gradient in Drosophila embryos by repressing the translation of nanos (nos) mRNA, binds to the 3' untranslated region (UTR) of nos mRNA via two similar hairpin structures. The 3D crystal structure of the Smaug RNA-binding region shows a cluster of positively charged residues on the Smaug-SAM domain, which could be the RNA-binding surface. This electropositive potential is unique among all previously determined SAM-domain structures and is conserved among Smaug-SAM homologs. These results suggest that the SAM domain might have a primary role in RNA binding. Structural analyses show that the SAM domain is arranged in a small five-helix bundle with two large interfaces []. In the case of the SAM domain of EphB2, each of these interfaces is able to form dimers. The presence of these two distinct intermonomers binding surface suggest that SAM could form extended polymeric structures []. This entry represents a second domain related to the SAM domain. ; GO: 0005515 protein binding; PDB: 1B0X_A 1X9X_B 1OW5_A 1V38_A 3BS7_A 3BS5_A 3TAD_A 3TAC_B 2K60_A 2DL0_A ....
Probab=53.60 E-value=16 Score=23.97 Aligned_cols=25 Identities=32% Similarity=0.456 Sum_probs=21.6
Q ss_pred ccchhhHHHHHhhcCCCccHHHHHH
Q psy13186 70 TINAEHVLQALDQLGFGDYKSEAEE 94 (170)
Q Consensus 70 TIs~edVl~AL~~LgF~~yi~~l~~ 94 (170)
+=++++|..-|..+||+.|.+....
T Consensus 3 ~w~~~~v~~WL~~~gl~~y~~~f~~ 27 (66)
T PF07647_consen 3 TWSPEDVAEWLKSLGLEQYADNFRE 27 (66)
T ss_dssp GHCHHHHHHHHHHTTCGGGHHHHHH
T ss_pred CCCHHHHHHHHHHCCcHHHHHHHHH
Confidence 3478999999999999999988765
No 88
>PF08369 PCP_red: Proto-chlorophyllide reductase 57 kD subunit; InterPro: IPR013580 This domain is found in bacteria and plant chloroplast proteins. It often appears at the C-terminal of nitrogenase component 1 type oxidoreductases (IPR000510 from INTERPRO) and sometimes independently in bacterial proteins such as the proto-chlorophyllide reductase subunit B of the cyanobacterium Synechocystis. This domain is also associated with chlorophyllide reductase subunit Z, converts chlorophylls (Chl) into bacteriochlorophylls (BChl) by reducing ring B of the tetrapyrrole.; GO: 0016491 oxidoreductase activity, 0015979 photosynthesis, 0015995 chlorophyll biosynthetic process, 0055114 oxidation-reduction process; PDB: 2KRU_A 2L09_A.
Probab=53.60 E-value=24 Score=22.74 Aligned_cols=40 Identities=20% Similarity=0.172 Sum_probs=23.1
Q ss_pred HHHHHHHHHHHHHHH-HHHHHHHHHHhhCCCCccchhhHHHH
Q psy13186 39 ESRELVMNCCMEFIH-LISSEANDICNEQQKKTINAEHVLQA 79 (170)
Q Consensus 39 dA~e~i~~c~~eFI~-~lsseAnei~~~~~RKTIs~edVl~A 79 (170)
||...|.+. =-|+. .+=..+-..|...|...|+.++|..|
T Consensus 4 eA~~~L~~i-P~fvR~~~r~~~E~~Ar~~G~~~IT~e~v~~A 44 (45)
T PF08369_consen 4 EAEARLDRI-PFFVRKKLRDAAEKYARERGYDEITVEVVDAA 44 (45)
T ss_dssp HHHHHHCTS--HHHHHHHHHHHHHHHHHCT-SEE-HHHHHHH
T ss_pred HHHHHHHHC-CHHHHHHHHHHHHHHHHHcCCCeECHHHHHhh
Confidence 444444432 22333 33345566778899999999999775
No 89
>PRK07914 hypothetical protein; Reviewed
Probab=52.58 E-value=38 Score=29.27 Aligned_cols=63 Identities=8% Similarity=0.188 Sum_probs=47.1
Q ss_pred cHHHHHHHHHhhCC--CCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHHhh
Q psy13186 19 PRASINKIIKEILP--NIRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQALDQ 82 (170)
Q Consensus 19 P~AtV~riiKe~LP--~~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL~~ 82 (170)
+..-+.+.|...+- +.+|+.+|..+|..++..=+..+.++-...+...+ .+|+.+||-..+..
T Consensus 129 ~~~~l~~wi~~~a~~~g~~i~~~A~~~L~~~~g~dl~~l~~EleKL~~~~~-~~It~e~V~~~v~~ 193 (320)
T PRK07914 129 KAAERADFVRKEFRSLRVKVDDDTVTALLDAVGSDLRELASACSQLVADTG-GAVDAAAVRRYHSG 193 (320)
T ss_pred CHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHCccHHHHHHHHHHHhcCCC-CCcCHHHHHHHcCC
Confidence 45666666666664 78999999999999987667777777776665334 57999999877654
No 90
>KOG1757|consensus
Probab=51.93 E-value=40 Score=26.54 Aligned_cols=64 Identities=19% Similarity=0.305 Sum_probs=47.7
Q ss_pred ccccCcHHHHHHHHHhhCC-CCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCC----CccchhhHHHHHh
Q psy13186 14 DELILPRASINKIIKEILP-NIRVANESRELVMNCCMEFIHLISSEANDICNEQQK----KTINAEHVLQALD 81 (170)
Q Consensus 14 ddl~LP~AtV~riiKe~LP-~~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~R----KTIs~edVl~AL~ 81 (170)
.-+.+|-..|.|.+|.... +.+|..-+... ..-.+.||+.|-.+.|.+..| |.|+|.|+--|+.
T Consensus 27 aGlqFpVgRihr~LK~r~t~h~rVGataavy----~aaileYLTaEVLeLAgNasKdLKvKRitprHlqLAiR 95 (131)
T KOG1757|consen 27 AGLQFPVGRIHRHLKTRTTSHGRVGATAAVY----SAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIR 95 (131)
T ss_pred cccccchHHHHHHHHHhcccccccchHHHHH----HHHHHHHHHHHHHHHcccccccceeeeccchhheeeec
Confidence 4578999999999998876 56765443322 234568999999999987665 7899999876654
No 91
>PRK13765 ATP-dependent protease Lon; Provisional
Probab=49.00 E-value=44 Score=32.58 Aligned_cols=47 Identities=21% Similarity=0.241 Sum_probs=37.4
Q ss_pred cccHHHHHHHHHHHHHH-------------HHHHHHHHHHHHhhCCCCccchhhHHHHHh
Q psy13186 35 RVANESRELVMNCCMEF-------------IHLISSEANDICNEQQKKTINAEHVLQALD 81 (170)
Q Consensus 35 ~iSkdA~e~i~~c~~eF-------------I~~lsseAnei~~~~~RKTIs~edVl~AL~ 81 (170)
.|+.+|...|.+-++.- |.-|-.+|+.+|...+++.|+.+||..|+.
T Consensus 339 ~f~~eAVa~LI~~~~R~ag~r~~lsl~~~~l~~l~r~a~~~a~~~~~~~i~~~~v~~a~~ 398 (637)
T PRK13765 339 HFDRDAVEEIIREAKRRAGRKGHLTLKLRDLGGLVRVAGDIARSEGAELTTAEHVLEAKK 398 (637)
T ss_pred CCCHHHHHHHHHHHHHHhCCccccccCHHHHHHHHHHHHHHHHhhccceecHHHHHHHHH
Confidence 58888888777765522 223667899999999999999999999974
No 92
>PRK09862 putative ATP-dependent protease; Provisional
Probab=48.48 E-value=66 Score=30.57 Aligned_cols=57 Identities=12% Similarity=0.173 Sum_probs=43.7
Q ss_pred CcccHHHHHHHHHHHHHH------HHHHHHHHHHHHhhCCCCccchhhHHHHHhhcCCCccHH
Q psy13186 34 IRVANESRELVMNCCMEF------IHLISSEANDICNEQQKKTINAEHVLQALDQLGFGDYKS 90 (170)
Q Consensus 34 ~~iSkdA~e~i~~c~~eF------I~~lsseAnei~~~~~RKTIs~edVl~AL~~LgF~~yi~ 90 (170)
+.++.++..++...+..+ .+.|..-|..+|.-+++..|+++||..|+.=-+++..+-
T Consensus 437 ~~l~~~~~~~l~~~~~~~~lS~Ra~~rlLrvARTiADL~g~~~V~~~hv~eAl~yR~~~~~~~ 499 (506)
T PRK09862 437 CKLESEDARWLEETLIHLGLSIRAWQRLLKVARTIADIDQSDIITRQHLQEAVSYRAIDRLLI 499 (506)
T ss_pred hCCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHhhcccHHHH
Confidence 467788888777655444 566778899999999999999999999998655554333
No 93
>PF08621 RPAP1_N: RPAP1-like, N-terminal; InterPro: IPR013930 Inhibition of RNA polymerase II-associated protein 1 (RPAP1) synthesis in Saccharomyces cerevisiae (Baker's yeast) results in changes in global gene expression that are similar to those caused by the loss of the RNAPII subunit Rpb11 []. This entry represents the N-terminal region of RPAP-1 that is conserved from yeast to humans.
Probab=48.48 E-value=18 Score=23.97 Aligned_cols=18 Identities=22% Similarity=0.442 Sum_probs=16.0
Q ss_pred CCCCHHHHHHHHHHHHHH
Q psy13186 116 LGIPEEELLRQQQELFAK 133 (170)
Q Consensus 116 ~g~~eEel~~~Q~eLF~~ 133 (170)
++||++|.+..|++|++.
T Consensus 13 ~~MS~eEI~~er~eL~~~ 30 (49)
T PF08621_consen 13 ASMSPEEIEEEREELLES 30 (49)
T ss_pred HhCCHHHHHHHHHHHHHh
Confidence 479999999999999864
No 94
>PRK13407 bchI magnesium chelatase subunit I; Provisional
Probab=47.79 E-value=63 Score=28.87 Aligned_cols=53 Identities=11% Similarity=0.209 Sum_probs=42.8
Q ss_pred HhhCCCCcccHHHHHHHHHHHHHHH-------HHHHHHHHHHHhhCCCCccchhhHHHHH
Q psy13186 28 KEILPNIRVANESRELVMNCCMEFI-------HLISSEANDICNEQQKKTINAEHVLQAL 80 (170)
Q Consensus 28 Ke~LP~~~iSkdA~e~i~~c~~eFI-------~~lsseAnei~~~~~RKTIs~edVl~AL 80 (170)
++.+|.|.|+.+....|.+.|..+= .++...|.-.|--+||-.|+++||-.+.
T Consensus 244 ~~~~~~V~v~~~~~~yi~~l~~~~~~~s~Ra~i~l~~aA~a~A~l~Gr~~V~~~Di~~~~ 303 (334)
T PRK13407 244 RARLPQLKTPNTVLHDCAALCIALGSDGLRGELTLLRAARALAAFEGAEAVGRSHLRSVA 303 (334)
T ss_pred HHhcCCcccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHHcCCCeeCHHHHHHHH
Confidence 5667899999999999999877653 1366777888889999999999995553
No 95
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=47.48 E-value=28 Score=32.29 Aligned_cols=69 Identities=16% Similarity=0.238 Sum_probs=42.9
Q ss_pred cccCc-HHHHHHHHHhhCCCCcccHHH--HHHHHHH---HHHHHHHHHHHHHHHHhhCCCCccchhhHHHHHhhc
Q psy13186 15 ELILP-RASINKIIKEILPNIRVANES--RELVMNC---CMEFIHLISSEANDICNEQQKKTINAEHVLQALDQL 83 (170)
Q Consensus 15 dl~LP-~AtV~riiKe~LP~~~iSkdA--~e~i~~c---~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL~~L 83 (170)
.+.+| ......|++-.+..+.++.+. .+++..+ +.-=|..|..+|-..|...+|..|+.+||..|+...
T Consensus 350 ~~~~Pd~~~R~~Il~~~~~k~~l~~dvdl~~la~~t~g~sgAdI~~i~~eA~~~Alr~~r~~Vt~~D~~~A~~~v 424 (438)
T PTZ00361 350 EFPNPDEKTKRRIFEIHTSKMTLAEDVDLEEFIMAKDELSGADIKAICTEAGLLALRERRMKVTQADFRKAKEKV 424 (438)
T ss_pred EeCCCCHHHHHHHHHHHHhcCCCCcCcCHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhcCCccCHHHHHHHHHHH
Confidence 34555 334455665554444444432 2222221 222255677889999999999999999999998764
No 96
>PF00536 SAM_1: SAM domain (Sterile alpha motif); InterPro: IPR021129 The sterile alpha motif (SAM) domain is a putative protein interaction module present in a wide variety of proteins [] involved in many biological processes. The SAM domain that spreads over around 70 residues is found in diverse eukaryotic organisms []. SAM domains have been shown to homo- and hetero-oligomerise, forming multiple self-association architectures and also binding to various non-SAM domain-containing proteins [], nevertheless with a low affinity constant []. SAM domains also appear to possess the ability to bind RNA []. Smaug, a protein that helps to establish a morphogen gradient in Drosophila embryos by repressing the translation of nanos (nos) mRNA, binds to the 3' untranslated region (UTR) of nos mRNA via two similar hairpin structures. The 3D crystal structure of the Smaug RNA-binding region shows a cluster of positively charged residues on the Smaug-SAM domain, which could be the RNA-binding surface. This electropositive potential is unique among all previously determined SAM-domain structures and is conserved among Smaug-SAM homologs. These results suggest that the SAM domain might have a primary role in RNA binding. Structural analyses show that the SAM domain is arranged in a small five-helix bundle with two large interfaces []. In the case of the SAM domain of EphB2, each of these interfaces is able to form dimers. The presence of these two distinct intermonomers binding surface suggest that SAM could form extended polymeric structures []. This entry represents type 1 SAM domains. ; PDB: 2KIV_A 3HIL_B 3KKA_A 3K1R_B 3SEN_B 3SEI_B 1V85_A 2KE7_A 2EAM_A 1WWV_A ....
Probab=47.45 E-value=20 Score=23.44 Aligned_cols=23 Identities=30% Similarity=0.476 Sum_probs=20.0
Q ss_pred chhhHHHHHhhcCCCccHHHHHH
Q psy13186 72 NAEHVLQALDQLGFGDYKSEAEE 94 (170)
Q Consensus 72 s~edVl~AL~~LgF~~yi~~l~~ 94 (170)
++++|..-|+.+|++.|++....
T Consensus 4 ~~~~V~~WL~~~~l~~y~~~F~~ 26 (64)
T PF00536_consen 4 SVEDVSEWLKSLGLEQYAENFEK 26 (64)
T ss_dssp SHHHHHHHHHHTTGGGGHHHHHH
T ss_pred CHHHHHHHHHHCCCHHHHHHHHc
Confidence 68899999999999999987743
No 97
>TIGR00368 Mg chelatase-related protein. The N-terminal end matches very strongly a pfam Mg_chelatase domain.
Probab=47.23 E-value=49 Score=31.23 Aligned_cols=47 Identities=19% Similarity=0.297 Sum_probs=41.0
Q ss_pred cccHHHHHHHHHHHHHH------HHHHHHHHHHHHhhCCCCccchhhHHHHHh
Q psy13186 35 RVANESRELVMNCCMEF------IHLISSEANDICNEQQKKTINAEHVLQALD 81 (170)
Q Consensus 35 ~iSkdA~e~i~~c~~eF------I~~lsseAnei~~~~~RKTIs~edVl~AL~ 81 (170)
.++++++.++.+++..| ++-|..-|..+|.-++...|..+||..|+.
T Consensus 445 ~l~~~~~~~l~~a~~~~~lS~R~~~rilrvArTiAdL~g~~~i~~~hv~eA~~ 497 (499)
T TIGR00368 445 KLSAIDANDLEGALNKLGLSSRATHRILKVARTIADLKEEKNISREHLAEAIE 497 (499)
T ss_pred CCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHh
Confidence 56889999999888776 566778899999999999999999999974
No 98
>PRK06585 holA DNA polymerase III subunit delta; Reviewed
Probab=47.14 E-value=86 Score=27.04 Aligned_cols=65 Identities=14% Similarity=0.199 Sum_probs=47.5
Q ss_pred HHHHHHHHHhhCC--CCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhh-CCCCccchhhHHHHHhhcC
Q psy13186 20 RASINKIIKEILP--NIRVANESRELVMNCCMEFIHLISSEANDICNE-QQKKTINAEHVLQALDQLG 84 (170)
Q Consensus 20 ~AtV~riiKe~LP--~~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~-~~RKTIs~edVl~AL~~Lg 84 (170)
...+.+.|.+.+- +.+|+.+|...|.+++.-=...+.++-..++.- .+.++|+.+||...+....
T Consensus 144 ~~~l~~~i~~~~~~~g~~i~~~a~~~L~~~~g~dl~~l~~EleKL~ly~~~~~~It~edV~~lv~~~~ 211 (343)
T PRK06585 144 ERDLARLIDDELAEAGLRITPDARALLVALLGGDRLASRNEIEKLALYAHGKGEITLDDVRAVVGDAS 211 (343)
T ss_pred HHHHHHHHHHHHHHCCCCCCHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHhCCcc
Confidence 4455555665554 789999999999999886566666777776654 4567899999988766543
No 99
>PF00531 Death: Death domain; InterPro: IPR000488 The death domain (DD) is a homotypic protein interaction module composed of a bundle of six alpha-helices. DD is related in sequence and structure to the death effector domain (DED, see IPR001875 from INTERPRO) and the caspase recruitment domain (CARD, see IPR001315 from INTERPRO), which work in similar pathways and show similar interaction properties []. DD bind each other forming oligomers. Mammals have numerous and diverse DD-containing proteins []. Within these proteins, the DD domains can be found in combination with other domains, including: CARDs, DEDs, ankyrin repeats (IPR002110 from INTERPRO), caspase-like folds, kinase domains, leucine zippers (IPR002158 from INTERPRO), leucine-rich repeats (LRR) (IPR001611 from INTERPRO), TIR domains (IPR000157 from INTERPRO), and ZU5 domains (IPR000906 from INTERPRO) []. Some DD-containing proteins are involved in the regulation of apoptosis and inflammation through their activation of caspases and NF-kappaB, which typically involves interactions with TNF (tumour necrosis factor) cytokine receptors [, ]. In humans, eight of the over 30 known TNF receptors contain DD in their cytoplasmic tails; several of these TNF receptors use caspase activation as a signalling mechanism. The DD mediates self-association of these receptors, thus giving the signal to downstream events that lead to apoptosis. Other DD-containing proteins, such as ankyrin, MyD88 and pelle, are probably not directly involved in cell death signalling. DD-containing proteins also have links to innate immunity, communicating with Toll family receptors through bipartite adapter proteins such as MyD88 [].; GO: 0005515 protein binding, 0007165 signal transduction; PDB: 3OQ9_L 3EZQ_F 1E41_A 1E3Y_A 2GF5_A 2OF5_L 3EWV_E 3G5B_A 3MOP_L 2A9I_A ....
Probab=46.92 E-value=39 Score=22.69 Aligned_cols=28 Identities=21% Similarity=0.466 Sum_probs=22.5
Q ss_pred CccchhhHHHHHhhcCCCccHHHHHHHH
Q psy13186 69 KTINAEHVLQALDQLGFGDYKSEAEEVM 96 (170)
Q Consensus 69 KTIs~edVl~AL~~LgF~~yi~~l~~~l 96 (170)
..-+..+++.||..+|..+-+..+...+
T Consensus 56 ~~at~~~L~~aL~~~~~~d~~~~i~~~~ 83 (83)
T PF00531_consen 56 PNATVDQLIQALRDIGRNDLAEKIEQML 83 (83)
T ss_dssp STSSHHHHHHHHHHTTHHHHHHHHHHH-
T ss_pred CCCcHHHHHHHHHHCCcHHHHHHHHhhC
Confidence 4457889999999999998888877653
No 100
>KOG3901|consensus
Probab=43.51 E-value=71 Score=24.69 Aligned_cols=47 Identities=17% Similarity=0.309 Sum_probs=36.8
Q ss_pred CCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHHhh
Q psy13186 33 NIRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQALDQ 82 (170)
Q Consensus 33 ~~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL~~ 82 (170)
++.=-.++.++|-..+.+||.-++..|..+. .|-.+..||++-+|..
T Consensus 25 d~nP~~~tv~~Le~iV~~Yi~elt~~a~~~g---~rgk~~veD~~f~lRk 71 (109)
T KOG3901|consen 25 DVNPYPETVDLLEDIVLEYITELTHAAMEIG---KRGKVKVEDFKFLLRK 71 (109)
T ss_pred CCCccHhHHHHHHHHHHHHHHHHHHHHHHhc---ccCceeHHHHHHHHHh
Confidence 3555678999999999999999988888877 4444567888877753
No 101
>cd00166 SAM Sterile alpha motif.; Widespread domain in signalling and nuclear proteins. In EPH-related tyrosine kinases, appears to mediate cell-cell initiated signal transduction via the binding of SH2-containing proteins to a conserved tyrosine that is phosphorylated. In many cases mediates homodimerization.
Probab=42.98 E-value=18 Score=22.82 Aligned_cols=24 Identities=33% Similarity=0.567 Sum_probs=20.3
Q ss_pred chhhHHHHHhhcCCCccHHHHHHH
Q psy13186 72 NAEHVLQALDQLGFGDYKSEAEEV 95 (170)
Q Consensus 72 s~edVl~AL~~LgF~~yi~~l~~~ 95 (170)
++++|..-|..+|+++|++.....
T Consensus 3 ~~~~V~~wL~~~~~~~y~~~f~~~ 26 (63)
T cd00166 3 SPEDVAEWLESLGLGQYADNFREN 26 (63)
T ss_pred CHHHHHHHHHHcChHHHHHHHHHc
Confidence 678999999999999888877653
No 102
>PF03540 TFIID_30kDa: Transcription initiation factor TFIID 23-30kDa subunit; InterPro: IPR003923 Transcription initiation factor TFIID is a multimeric protein complex that plays a central role in mediating promoter responses to various activators and repressors. The complex includes TATA binding protein (TBP) and various TBP-associated factors (TAFS). TFIID a bona fide RNA polymerase II-specific TATA-binding protein-associated factor (TAF) and is essential for viability []. TFIID acts to nucleate the transcription complex, recruiting the rest of the factors through a direct interaction with TFIIB. The TBP subunit of TFIID is sufficient for TATA-element binding and TFIIB interaction, and can support basal transcription. The protein belongs to the TAF2H family.; GO: 0006352 transcription initiation, DNA-dependent, 0005634 nucleus
Probab=42.81 E-value=1e+02 Score=20.68 Aligned_cols=46 Identities=17% Similarity=0.336 Sum_probs=36.8
Q ss_pred cCcHHHHHHHHHhhCCCCcccH-HHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy13186 17 ILPRASINKIIKEILPNIRVAN-ESRELVMNCCMEFIHLISSEANDICN 64 (170)
Q Consensus 17 ~LP~AtV~riiKe~LP~~~iSk-dA~e~i~~c~~eFI~~lsseAnei~~ 64 (170)
.+|-+.+.-+++.+. +..++ -..-+|.=++-.||.-|+..|...|+
T Consensus 2 ~IPD~v~~~yL~~~G--~~~~D~rv~RLvSLaaQKFisdI~~dA~q~~k 48 (51)
T PF03540_consen 2 TIPDEVTDYYLERSG--FQTSDPRVKRLVSLAAQKFISDIANDAMQYCK 48 (51)
T ss_pred CCCHHHHHHHHHHCC--CCCCCHhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 578898999888874 44433 25678888999999999999999885
No 103
>PF07928 Vps54: Vps54-like protein; InterPro: IPR012501 This family contains various proteins that are homologues of the yeast Vps54 protein, such as the rat homologue (Q9JMK8 from SWISSPROT), the human homologue (Q86YF7 from SWISSPROT), and the mouse homologue (Q8R3X1 from SWISSPROT). In yeast, Vps54 associates with Vps52 and Vps53 proteins to form a trimolecular complex that is involved in protein transport between Golgi, endosomal, and vacuolar compartments []. All Vps54 homologues contain a coiled coil region (not found in the region featured in this family) and multiple dileucine motifs []. ; GO: 0042147 retrograde transport, endosome to Golgi; PDB: 3N1E_B 3N1B_B.
Probab=41.46 E-value=21 Score=27.94 Aligned_cols=34 Identities=26% Similarity=0.241 Sum_probs=0.0
Q ss_pred CCCCccchhhHHHHHhhcCCC-ccHHHHHHHHHHH
Q psy13186 66 QQKKTINAEHVLQALDQLGFG-DYKSEAEEVMKDC 99 (170)
Q Consensus 66 ~~RKTIs~edVl~AL~~LgF~-~yi~~l~~~l~~~ 99 (170)
.|=||||+.|+--|-+.|+|- .++|.++.++..+
T Consensus 63 agLK~IT~KhLALasq~L~~~~~lip~i~~~~~~~ 97 (135)
T PF07928_consen 63 AGLKTITAKHLALASQSLSFIISLIPYIREFFERH 97 (135)
T ss_dssp -----------------------------------
T ss_pred cCcCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 578999999999999999996 8999999998877
No 104
>TIGR02903 spore_lon_C ATP-dependent protease, Lon family. Members of this protein family resemble the widely distributed ATP-dependent protease La, also called Lon and LonA. It resembles even more closely LonB, which is a LonA paralog found in genomes if and only if the species is capable of endospore formation (as in Bacillus subtilis, Clostridium tetani, and select other members of the Firmicutes) and expressed specifically in the forespore compartment. Members of this family are restricted to a subset of spore-forming species, and are very likely to participate in the program of endospore formation. We propose the designation LonC.
Probab=41.19 E-value=75 Score=30.62 Aligned_cols=70 Identities=17% Similarity=0.293 Sum_probs=45.8
Q ss_pred HHHHHHHHhhCC--CCcccHHHHHHHHHHH---HHHHHHHHHHH-------HHHHhhCCCCccchhhHHHHHhhcCCCcc
Q psy13186 21 ASINKIIKEILP--NIRVANESRELVMNCC---MEFIHLISSEA-------NDICNEQQKKTINAEHVLQALDQLGFGDY 88 (170)
Q Consensus 21 AtV~riiKe~LP--~~~iSkdA~e~i~~c~---~eFI~~lsseA-------nei~~~~~RKTIs~edVl~AL~~LgF~~y 88 (170)
.-+..|++..+. ++.++.++.++|.+++ ...++.|.... ...+...++.+|+.+||.+++..-.|..|
T Consensus 356 edi~~Il~~~a~~~~v~ls~eal~~L~~ys~~gRraln~L~~~~~~~~~~~~~~~~~~~~~~I~~edv~~~l~~~r~~~~ 435 (615)
T TIGR02903 356 EDIALIVLNAAEKINVHLAAGVEELIARYTIEGRKAVNILADVYGYALYRAAEAGKENDKVTITQDDVYEVIQISRLSPY 435 (615)
T ss_pred HHHHHHHHHHHHHcCCCCCHHHHHHHHHCCCcHHHHHHHHHHHHHHHHHHHHHhccCCCCeeECHHHHHHHhCCCcCccc
Confidence 446666666654 4678899999988864 44455443221 11123445669999999999988777766
Q ss_pred HH
Q psy13186 89 KS 90 (170)
Q Consensus 89 i~ 90 (170)
..
T Consensus 436 ~~ 437 (615)
T TIGR02903 436 EK 437 (615)
T ss_pred hh
Confidence 54
No 105
>PF13405 EF-hand_6: EF-hand domain; PDB: 2AMI_A 3QRX_A 1W7J_B 1OE9_B 1W7I_B 1KFU_S 1KFX_S 2BL0_B 1Y1X_B 3MSE_B ....
Probab=40.72 E-value=36 Score=19.27 Aligned_cols=26 Identities=23% Similarity=0.296 Sum_probs=20.4
Q ss_pred HHHHHhhCCCCccchhhHHHHHh-hcC
Q psy13186 59 ANDICNEQQKKTINAEHVLQALD-QLG 84 (170)
Q Consensus 59 Anei~~~~~RKTIs~edVl~AL~-~Lg 84 (170)
+-...-.++.-+|+.+++..+|. .||
T Consensus 5 ~F~~~D~d~dG~I~~~el~~~l~~~lG 31 (31)
T PF13405_consen 5 AFKMFDKDGDGFIDFEELRAILRKSLG 31 (31)
T ss_dssp HHHHH-TTSSSEEEHHHHHHHHHHHTT
T ss_pred HHHHHCCCCCCcCcHHHHHHHHHHhcC
Confidence 44556677888999999999999 687
No 106
>KOG2680|consensus
Probab=40.58 E-value=94 Score=28.88 Aligned_cols=49 Identities=8% Similarity=0.276 Sum_probs=39.3
Q ss_pred CCcccHHHHHHHHHHHH----HHHHHHHHHHHHHHhhCCCCccchhhHHHHHh
Q psy13186 33 NIRVANESRELVMNCCM----EFIHLISSEANDICNEQQKKTINAEHVLQALD 81 (170)
Q Consensus 33 ~~~iSkdA~e~i~~c~~----eFI~~lsseAnei~~~~~RKTIs~edVl~AL~ 81 (170)
++.++.||.++|..... -|-.+|-+.|+-+|.+.+-+++..+||-.+-.
T Consensus 375 dv~m~~~A~d~Lt~i~~~tsLRYai~Lit~a~~~~~krk~~~v~~~di~r~y~ 427 (454)
T KOG2680|consen 375 DVEMNPDALDLLTKIGEATSLRYAIHLITAASLVCLKRKGKVVEVDDIERVYR 427 (454)
T ss_pred ccccCHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhcCceeehhHHHHHHH
Confidence 58899999999987643 34455556699999999999999999988743
No 107
>PF09339 HTH_IclR: IclR helix-turn-helix domain; InterPro: IPR005471 The many bacterial transcription regulation proteins which bind DNA through a 'helix-turn-helix' motif can be classified into subfamilies on the basis of sequence similarities. One of these subfamilies, called 'iclR', groups several proteins including: gylR, a possible activator protein for the gylABX glycerol operon in Streptomyces. iclR, the repressor of the acetate operon (also known as glyoxylate bypass operon) in Escherichia coli and Salmonella typhimurium. These proteins have a Helix-Turn-Helix motif at the N terminus that is similar to that of other DNA-binding proteins [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1MKM_A 3MQ0_A 3R4K_A 2G7U_C 2O0Y_C 2XRO_F 2XRN_B 2IA2_D.
Probab=39.89 E-value=18 Score=23.10 Aligned_cols=17 Identities=18% Similarity=0.645 Sum_probs=13.5
Q ss_pred ccccCcHHHHHHHHHhh
Q psy13186 14 DELILPRASINKIIKEI 30 (170)
Q Consensus 14 ddl~LP~AtV~riiKe~ 30 (170)
+.+.+|++||+|+++.-
T Consensus 26 ~~~gl~~stv~r~L~tL 42 (52)
T PF09339_consen 26 RALGLPKSTVHRLLQTL 42 (52)
T ss_dssp HHHTS-HHHHHHHHHHH
T ss_pred HHHCcCHHHHHHHHHHH
Confidence 56789999999999864
No 108
>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]
Probab=38.61 E-value=84 Score=29.58 Aligned_cols=61 Identities=21% Similarity=0.300 Sum_probs=45.1
Q ss_pred HHHHHHHHHhhCC--CCcccHHHHHHHHHHHHH----HHHHHHHHHHHHHhhCCCCccchhhHHHHH
Q psy13186 20 RASINKIIKEILP--NIRVANESRELVMNCCME----FIHLISSEANDICNEQQKKTINAEHVLQAL 80 (170)
Q Consensus 20 ~AtV~riiKe~LP--~~~iSkdA~e~i~~c~~e----FI~~lsseAnei~~~~~RKTIs~edVl~AL 80 (170)
+.-|.-||+--.. ++-+++||.+.|....++ |..-|-+-|+.+|...|+++|..+||-.|-
T Consensus 363 ~~EireIi~iRa~ee~i~l~~~Ale~L~~ig~etSLRYa~qLL~pa~iiA~~rg~~~V~~~dVe~a~ 429 (450)
T COG1224 363 REEIREIIRIRAKEEDIELSDDALEYLTDIGEETSLRYAVQLLTPASIIAKRRGSKRVEVEDVERAK 429 (450)
T ss_pred HHHHHHHHHHhhhhhccccCHHHHHHHHhhchhhhHHHHHHhccHHHHHHHHhCCCeeehhHHHHHH
Confidence 3344444443332 688999999999877554 444555668999999999999999999883
No 109
>COG5095 TAF6 Transcription initiation factor TFIID, subunit TAF6 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=38.48 E-value=1.2e+02 Score=27.99 Aligned_cols=59 Identities=14% Similarity=0.126 Sum_probs=49.8
Q ss_pred HhhCCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHHhhcCCC
Q psy13186 28 KEILPNIRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQALDQLGFG 86 (170)
Q Consensus 28 Ke~LP~~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL~~LgF~ 86 (170)
-+++.=-.|.+|+..+|..-..-=|+-+-.+|...-.+.+|..++.+||-.||..|..+
T Consensus 15 AeslGi~Ni~Dd~l~alamDlEYRI~ev~qea~KFmvhSKRtvLt~dDis~ALr~lNVe 73 (450)
T COG5095 15 AESLGISNIDDDALRALAMDLEYRIKEVCQEASKFMVHSKRTVLTIDDISYALRSLNVE 73 (450)
T ss_pred HHHcCCcccccHHHHHHHHhHHHHHHHHHHHHHHHhhcccceeeeHHhHHHHHHhcCCC
Confidence 34453245888999898888888899999999999999999999999999999998654
No 110
>PRK14971 DNA polymerase III subunits gamma and tau; Provisional
Probab=37.97 E-value=72 Score=30.82 Aligned_cols=72 Identities=14% Similarity=0.139 Sum_probs=43.8
Q ss_pred CcHHHHHHHHHhhCC--CCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHHhhcCCCccHH
Q psy13186 18 LPRASINKIIKEILP--NIRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQALDQLGFGDYKS 90 (170)
Q Consensus 18 LP~AtV~riiKe~LP--~~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL~~LgF~~yi~ 90 (170)
|+..-+.+.++..+- ++.++.++..+|...+.-=+..+-++....+.-.+++ |+.++|...+..+..+.|..
T Consensus 180 ls~~ei~~~L~~ia~~egi~i~~~al~~La~~s~gdlr~al~~Lekl~~y~~~~-It~~~V~~~l~~~~~~~iF~ 253 (614)
T PRK14971 180 IQVADIVNHLQYVASKEGITAEPEALNVIAQKADGGMRDALSIFDQVVSFTGGN-ITYKSVIENLNILDYDYYFR 253 (614)
T ss_pred CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhccCC-ccHHHHHHHhCCCCHHHHHH
Confidence 445555566665543 6889999888888776544444444444444333433 88888887776655544433
No 111
>PRK08487 DNA polymerase III subunit delta; Validated
Probab=37.89 E-value=1.8e+02 Score=25.29 Aligned_cols=61 Identities=8% Similarity=0.087 Sum_probs=43.8
Q ss_pred HHHHHHHHHhhCC--CCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHHhh
Q psy13186 20 RASINKIIKEILP--NIRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQALDQ 82 (170)
Q Consensus 20 ~AtV~riiKe~LP--~~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL~~ 82 (170)
..-+.+.|.+.+- +.+|+.+|...|...+.-=...+..|-...+.=.+ +|+.+||-..+..
T Consensus 137 ~~~l~~~i~~~~~~~g~~i~~~a~~~L~~~~g~dl~~l~~ELeKL~ly~~--~It~edV~~~v~~ 199 (328)
T PRK08487 137 AREALELLQERAKELGLDIDQNALNHLYFIHNEDLALAANELEKLAILNE--PITLKDIQELVFG 199 (328)
T ss_pred HHHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCcHHHHHHHHHHHHHHhcC--CCCHHHHHHHhcc
Confidence 3445555655554 78999999999999877656666666666665433 7999999887644
No 112
>KOG0188|consensus
Probab=36.90 E-value=2.8e+02 Score=28.34 Aligned_cols=66 Identities=14% Similarity=0.285 Sum_probs=48.4
Q ss_pred HHHHHHHhhCCCC-cccHHHHHHHHHHHHHHHHHHHHHH---HHHHh-hCCCCccchhhHHHHHhhcCCCc
Q psy13186 22 SINKIIKEILPNI-RVANESRELVMNCCMEFIHLISSEA---NDICN-EQQKKTINAEHVLQALDQLGFGD 87 (170)
Q Consensus 22 tV~riiKe~LP~~-~iSkdA~e~i~~c~~eFI~~lsseA---nei~~-~~~RKTIs~edVl~AL~~LgF~~ 87 (170)
+|.-.|.++.|.+ +=+...+++|.+-=..|..-|..-- ...+. ..+-+||.++++..--+..||+-
T Consensus 338 vvv~~lgd~fPEl~~~~~~v~diineEE~~F~ktl~rg~~~f~r~~~~~~~s~tipGd~~w~LydTyGfPv 408 (895)
T KOG0188|consen 338 VVVETLGDAFPELKRDPQHVIDIINEEEAQFLKTLDRGRKLFDRVARELGSSKTIPGDVAWRLYDTYGFPV 408 (895)
T ss_pred HHHHHHhhhchhhhcCHHHHHHHhcHHHHHHHHHHHHHHHHHHHHHHhcCCCCcCchHHHHHHHhhcCCcH
Confidence 4666777778865 3455678888888888988887652 22233 34458999999999989999994
No 113
>COG5162 Transcription initiation factor TFIID, subunit TAF10 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=35.88 E-value=2.2e+02 Score=23.89 Aligned_cols=53 Identities=15% Similarity=0.271 Sum_probs=39.2
Q ss_pred CcccH-HHHHHHHHHHHHHHHHHHHHHHHHHhh-------------------C--------------CCCccchhhHHHH
Q psy13186 34 IRVAN-ESRELVMNCCMEFIHLISSEANDICNE-------------------Q--------------QKKTINAEHVLQA 79 (170)
Q Consensus 34 ~~iSk-dA~e~i~~c~~eFI~~lsseAnei~~~-------------------~--------------~RKTIs~edVl~A 79 (170)
+.++. -.+-+|.-.+-.||+-|+.-|-+...= . +|-+++..|+-+|
T Consensus 103 f~~~D~rvKkLl~L~aqKFvsDiA~dayqYsrIr~~~sna~~t~~~a~~f~~gg~~~i~~~~~~~dr~K~vltv~DLs~A 182 (197)
T COG5162 103 FVTSDQRVKKLLSLLAQKFVSDIAVDAYQYSRIRQGSSNAKATAQKAKRFAKGGASGIGSSGRRGDRKKPVLTVVDLSKA 182 (197)
T ss_pred ceeccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccchhhHHHHHHHHhcccccccccccccccCCceeeehHHHHH
Confidence 44444 478888889999999998666544320 1 5567899999999
Q ss_pred HhhcCCC
Q psy13186 80 LDQLGFG 86 (170)
Q Consensus 80 L~~LgF~ 86 (170)
|.+.|+.
T Consensus 183 l~EyGin 189 (197)
T COG5162 183 LEEYGIN 189 (197)
T ss_pred HHHhccc
Confidence 9998875
No 114
>smart00454 SAM Sterile alpha motif. Widespread domain in signalling and nuclear proteins. In EPH-related tyrosine kinases, appears to mediate cell-cell initiated signal transduction via the binding of SH2-containing proteins to a conserved tyrosine that is phosphorylated. In many cases mediates homodimerisation.
Probab=35.85 E-value=26 Score=22.24 Aligned_cols=26 Identities=19% Similarity=0.342 Sum_probs=21.1
Q ss_pred ccchhhHHHHHhhcCCCccHHHHHHH
Q psy13186 70 TINAEHVLQALDQLGFGDYKSEAEEV 95 (170)
Q Consensus 70 TIs~edVl~AL~~LgF~~yi~~l~~~ 95 (170)
.-++++|..-|..+||+.|++.....
T Consensus 3 ~w~~~~v~~wL~~~g~~~y~~~f~~~ 28 (68)
T smart00454 3 QWSPESVADWLESIGLEQYADNFRKN 28 (68)
T ss_pred CCCHHHHHHHHHHCChHHHHHHHHHC
Confidence 34678899999999999988877653
No 115
>COG1500 Predicted exosome subunit [Translation, ribosomal structure and biogenesis]
Probab=35.14 E-value=1.3e+02 Score=26.20 Aligned_cols=71 Identities=25% Similarity=0.317 Sum_probs=51.2
Q ss_pred HHHHHHhhCC--CCcccHHHHHHHHH-HHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHHhhcCCC-ccHHHHHHHH
Q psy13186 23 INKIIKEILP--NIRVANESRELVMN-CCMEFIHLISSEANDICNEQQKKTINAEHVLQALDQLGFG-DYKSEAEEVM 96 (170)
Q Consensus 23 V~riiKe~LP--~~~iSkdA~e~i~~-c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL~~LgF~-~yi~~l~~~l 96 (170)
+.+|+.++|- .+.+|.+-|..+.+ -=...|++||..|. ....+....|.-|-+||++++|. ++..++++-.
T Consensus 72 ~~eI~~eIl~kGeiQlTaeqR~~m~e~k~rqIi~~IsRn~I---dP~t~~P~Pp~rIe~Ameeakv~id~~K~ae~Qv 146 (234)
T COG1500 72 PDEIAEEILKKGEIQLTAEQRREMLEEKKRQIINIISRNAI---DPQTKAPHPPARIEKAMEEAKVHIDPFKSAEEQV 146 (234)
T ss_pred HHHHHHHHHhcCceeccHHHHHHHHHHHHHHHHHHHHHhcc---CCCCCCCCCHHHHHHHHHhcCcccCCCCCHHHHH
Confidence 5666666664 58899887655554 45677778887543 34566789999999999999997 6666665533
No 116
>PF05236 TAF4: Transcription initiation factor TFIID component TAF4 family; InterPro: IPR007900 Accurate transcription initiation at protein-coding genes by RNA polymerase II requires the assembly of a multiprotein complex around the mRNA start site. Transcription factor TFIID is one of the general factors involved in this process. Yeast TFIID comprises the TATA binding protein and 14 TBP-associated factors (TAFIIs), nine of which contain histone-fold domains (IPR007124 from INTERPRO). The C-terminal region of the TFIID-specific yeast TAF4 (yTAF4) containing the HFD shares strong sequence similarity with Drosophila (d)TAF4 and human TAF4. A structure/function analysis of yTAF4 demonstrates that the HFD, a short conserved C-terminal domain (CCTD), and the region separating them are all required for yTAF4 function. This region of similarity is found in Transcription initiation factor TFIID component TAF4 []. ; GO: 0006352 transcription initiation, DNA-dependent, 0005669 transcription factor TFIID complex; PDB: 1H3O_C.
Probab=35.03 E-value=54 Score=27.93 Aligned_cols=72 Identities=18% Similarity=0.169 Sum_probs=35.4
Q ss_pred cccccCcHHHHHHHHHhhCC--C-CcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCC------CccchhhHHHHHhhc
Q psy13186 13 DDELILPRASINKIIKEILP--N-IRVANESRELVMNCCMEFIHLISSEANDICNEQQK------KTINAEHVLQALDQL 83 (170)
Q Consensus 13 ~ddl~LP~AtV~riiKe~LP--~-~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~R------KTIs~edVl~AL~~L 83 (170)
.+++.|....+.+.|..+.. + ..|..|...+|.-||.++|..|-..+..+|.+-.. .+....||-..|..|
T Consensus 39 ~~~~fL~~~~L~~~i~~i~~~~g~~~~~~d~l~llS~A~e~rLr~lie~~~~~s~hR~~~~~~~~~~~~~sdv~~qlr~l 118 (264)
T PF05236_consen 39 KEEPFLNPSPLQKRIQKIAKKHGLKSVDEDVLELLSLATEERLRNLIEKAIVLSRHRRDSSKSDPRYEIRSDVRKQLRFL 118 (264)
T ss_dssp -----S-HHHHHHHHHHHHHCTT--EE-TCHHHHHHHHHHHHHHHHHHHHH-----------------------------
T ss_pred ccccccCHHHHHHHHHHHHHHcCCcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccCCCcccccchHHHHHHHHH
Confidence 56677888888888887774 3 57999999999999999999999999998875221 122345555555444
Q ss_pred C
Q psy13186 84 G 84 (170)
Q Consensus 84 g 84 (170)
.
T Consensus 119 ~ 119 (264)
T PF05236_consen 119 E 119 (264)
T ss_dssp -
T ss_pred H
Confidence 3
No 117
>COG1466 HolA DNA polymerase III, delta subunit [DNA replication, recombination, and repair]
Probab=34.95 E-value=1.8e+02 Score=25.45 Aligned_cols=65 Identities=15% Similarity=0.196 Sum_probs=48.0
Q ss_pred HHHHHHhhCC--CCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHHhhcCCCc
Q psy13186 23 INKIIKEILP--NIRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQALDQLGFGD 87 (170)
Q Consensus 23 V~riiKe~LP--~~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL~~LgF~~ 87 (170)
+.+.|+..+- +++|+++|.+.+..+..-=...+.++-+..+--.+-++|+.+||..++-+-.-.+
T Consensus 145 l~~~i~~~~~~~~l~i~~~a~~~L~~~~~~nl~~i~~Ei~KL~l~~~~~~I~~~~V~~~v~~~~~~~ 211 (334)
T COG1466 145 LPQWIKKRAKELGLKIDQEAIQLLLEALGGNLLAIAQEIEKLALYAGDKEITLEDVEEVVSDVAEFN 211 (334)
T ss_pred HHHHHHHHHHHcCCCCCHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCCcCCHHHHHHHHhccccCC
Confidence 4445555443 7999999999999998866777777777777654444999999998877644443
No 118
>PF13690 CheX: Chemotaxis phosphatase CheX; PDB: 3HM4_B 3H4Y_A 3H2D_A 3IIC_B.
Probab=34.61 E-value=1.1e+02 Score=21.71 Aligned_cols=46 Identities=17% Similarity=0.228 Sum_probs=35.2
Q ss_pred cccCcHHHHHHHHHhhCCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy13186 15 ELILPRASINKIIKEILPNIRVANESRELVMNCCMEFIHLISSEANDIC 63 (170)
Q Consensus 15 dl~LP~AtV~riiKe~LP~~~iSkdA~e~i~~c~~eFI~~lsseAnei~ 63 (170)
-+.+|+.+..+|++. + +.. ..+.-+.+.++..||.+.|+.-+....
T Consensus 16 ~l~~~~~~a~~la~~-m-g~~-~~~~~e~~~da~~El~NiI~G~~~~~l 61 (94)
T PF13690_consen 16 ILSFDEELAKKLASA-M-GEE-EEEDDEMVQDALGELANIIAGNAKSEL 61 (94)
T ss_dssp EEEE-HHHHHHHHHH-H-SSS--SSHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred EEEECHHHHHHHHHH-h-CCC-CcchhHHHHHHHHHHHHHHHHHHHHHc
Confidence 467899999999997 5 444 334788899999999999998877555
No 119
>PF00356 LacI: Bacterial regulatory proteins, lacI family; InterPro: IPR000843 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. These proteins are very diverse, but for convenience may be grouped into subfamilies on the basis of sequence similarity. One such family groups together a range of proteins, including ascG, ccpA, cytR, ebgR, fruR, galR, galS, lacI, malI, opnR, purF, rafR, rbtR and scrR [, ]. Within this family, the HTH motif is situated towards the N terminus.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 3KJX_C 1ZAY_A 1VPW_A 2PUA_A 1QQA_A 1PNR_A 1JFT_A 1QP4_A 2PUD_A 1JH9_A ....
Probab=34.51 E-value=97 Score=19.89 Aligned_cols=32 Identities=19% Similarity=0.417 Sum_probs=25.7
Q ss_pred ccCcHHHHHHHHHhhCCCCcccHHHHHHHHHHHHH
Q psy13186 16 LILPRASINKIIKEILPNIRVANESRELVMNCCME 50 (170)
Q Consensus 16 l~LP~AtV~riiKe~LP~~~iSkdA~e~i~~c~~e 50 (170)
..+..+||.|++... -+||.++++-|.+.+.+
T Consensus 9 agvS~~TVSr~ln~~---~~vs~~tr~rI~~~a~~ 40 (46)
T PF00356_consen 9 AGVSKSTVSRVLNGP---PRVSEETRERILEAAEE 40 (46)
T ss_dssp HTSSHHHHHHHHTTC---SSSTHHHHHHHHHHHHH
T ss_pred HCcCHHHHHHHHhCC---CCCCHHHHHHHHHHHHH
Confidence 457789999999875 48899999988887665
No 120
>PF02361 CbiQ: Cobalt transport protein; InterPro: IPR003339 Cobalt transport proteins are most often found in cobalamin (vitamin B12) biosynthesis operons. Salmonella typhimurium synthesizes cobalamin (vitamin B12) de novo under anaerobic conditions. Not all Salmonella and Pseudomonas cobalamin synthetic genes have apparent homologs in the other species suggesting that the cobalamin biosynthetic pathways differ between the two organisms [].; GO: 0015087 cobalt ion transmembrane transporter activity, 0006824 cobalt ion transport, 0009236 cobalamin biosynthetic process
Probab=34.48 E-value=62 Score=25.54 Aligned_cols=38 Identities=18% Similarity=0.154 Sum_probs=31.9
Q ss_pred CccchhhHHHHHhhcCCCc------------cHHHHHHHHHHHHHHHHhh
Q psy13186 69 KTINAEHVLQALDQLGFGD------------YKSEAEEVMKDCKIVAANR 106 (170)
Q Consensus 69 KTIs~edVl~AL~~LgF~~------------yi~~l~~~l~~~Ke~~k~r 106 (170)
.|.+++|++.+|+.++++. |+|.+.+....-++..+.|
T Consensus 123 ~tt~~~~l~~~l~~l~~P~~~~~~~i~l~~r~ip~l~~~~~~i~~A~~~R 172 (224)
T PF02361_consen 123 LTTSPSDLISALRKLRLPYPKIALMISLTLRFIPLLLEEFKRIREAQRLR 172 (224)
T ss_pred HHCCHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 4779999999999999998 8888888777777777765
No 121
>smart00350 MCM minichromosome maintenance proteins.
Probab=33.73 E-value=2e+02 Score=26.80 Aligned_cols=67 Identities=10% Similarity=0.148 Sum_probs=47.0
Q ss_pred ccCcHHHHHHHHHhhCC--CCcccHHHHHHHHHHHHHHH-------------------HHHHHHHHHHHhhCCCCccchh
Q psy13186 16 LILPRASINKIIKEILP--NIRVANESRELVMNCCMEFI-------------------HLISSEANDICNEQQKKTINAE 74 (170)
Q Consensus 16 l~LP~AtV~riiKe~LP--~~~iSkdA~e~i~~c~~eFI-------------------~~lsseAnei~~~~~RKTIs~e 74 (170)
..+|...+.+.|.-+=- .-.+|+++.+.|.+.+...= ..|-.-|--.|.-.+|.+|+++
T Consensus 416 ~~~~~~~l~~yi~~ar~~~~P~ls~~~~~~i~~~y~~~R~~~~~~~~~~~~~~t~R~l~sliRla~A~A~l~~r~~V~~~ 495 (509)
T smart00350 416 VPISQEFLRKYIAYAREKIKPKLSEEAAEKLVKAYVDLRKEDSQSEARSSIPITVRQLESIIRLSEAHAKMRLSDVVEEA 495 (509)
T ss_pred ccCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHhcccccccccccccCcCHHHHHHHHHHHHHHHHHcCCCccCHH
Confidence 46788888887754421 12589999999877654421 3344556666788999999999
Q ss_pred hHHHHHhh
Q psy13186 75 HVLQALDQ 82 (170)
Q Consensus 75 dVl~AL~~ 82 (170)
||..|+.-
T Consensus 496 Dv~~ai~l 503 (509)
T smart00350 496 DVEEAIRL 503 (509)
T ss_pred HHHHHHHH
Confidence 99998753
No 122
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=33.44 E-value=1.6e+02 Score=26.53 Aligned_cols=72 Identities=13% Similarity=0.183 Sum_probs=47.0
Q ss_pred HHHHHHHHhhCC----CCcccHHHHHHHHHHH------HHHHHHHHHHHHHHHhhCCCCccchhhHHHHHhhcCCCccHH
Q psy13186 21 ASINKIIKEILP----NIRVANESRELVMNCC------MEFIHLISSEANDICNEQQKKTINAEHVLQALDQLGFGDYKS 90 (170)
Q Consensus 21 AtV~riiKe~LP----~~~iSkdA~e~i~~c~------~eFI~~lsseAnei~~~~~RKTIs~edVl~AL~~LgF~~yi~ 90 (170)
.-+..|++.-.- +-.++.++..++..-+ ..+-.-+...|-++|+.+++.+|+++||..|-...+..-+..
T Consensus 193 ~el~~Il~~R~~~~~~~~~~~~~vl~lia~~~a~~~GDAR~aidilr~A~eiAe~~~~~~v~~~~v~~a~~~~~~~~~~~ 272 (366)
T COG1474 193 EELYDILRERVEEGFSAGVIDDDVLKLIAALVAAESGDARKAIDILRRAGEIAEREGSRKVSEDHVREAQEEIERDVLEE 272 (366)
T ss_pred HHHHHHHHHHHHhhccCCCcCccHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHhhHHHHHH
Confidence 345555555442 3456666666555321 223345557799999999999999999999977776654444
Q ss_pred HH
Q psy13186 91 EA 92 (170)
Q Consensus 91 ~l 92 (170)
.+
T Consensus 273 ~~ 274 (366)
T COG1474 273 VL 274 (366)
T ss_pred HH
Confidence 43
No 123
>TIGR02454 CbiQ_TIGR cobalt ABC transporter, permease protein CbiQ. This model represents the permease component of the cobalt-specific ABC transporter. This model finds permeases which are generally next to the other subunits of the complex (CbiN and CbiO) or the cobalamin biosynthesis protein CbiM which is a transmembrane protein which likely interacts with the complex in some manner. In genomes which possess all of these subunits the ATPase is most likely running in the direction of import (for the biosynthesis of coenzyme B12). In other genomes, this subunit may be involved in the export of cobalt and/or other closely related heavy metals.
Probab=32.76 E-value=75 Score=25.05 Aligned_cols=38 Identities=24% Similarity=0.243 Sum_probs=28.1
Q ss_pred CccchhhHHHHHhhcCCC-----------ccHHHHHHHHHHHHHHHHhh
Q psy13186 69 KTINAEHVLQALDQLGFG-----------DYKSEAEEVMKDCKIVAANR 106 (170)
Q Consensus 69 KTIs~edVl~AL~~LgF~-----------~yi~~l~~~l~~~Ke~~k~r 106 (170)
.|.++.|++.+|+.+|++ .|+|.+.+..+.-++.++.|
T Consensus 112 ~TT~~~~l~~~l~~l~~P~~~~~~~~l~~Rfip~l~~e~~~i~~Aq~aR 160 (198)
T TIGR02454 112 LTTPFPELLSALRRLGVPPLLVEILLLTYRYLFVLLEELRRMLLAQRSR 160 (198)
T ss_pred HcCCHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 467999999999999987 45566666666666666655
No 124
>COG4800 Predicted transcriptional regulator with an HTH domain [Transcription]
Probab=32.66 E-value=16 Score=29.91 Aligned_cols=61 Identities=25% Similarity=0.224 Sum_probs=36.0
Q ss_pred ccCcHHHHHHHHHhhCCCC----cccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhH
Q psy13186 16 LILPRASINKIIKEILPNI----RVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHV 76 (170)
Q Consensus 16 l~LP~AtV~riiKe~LP~~----~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edV 76 (170)
-.+|.+|++||++..-|++ +|=+--|+.=-+-...||-.|+....----..++|-|++.-+
T Consensus 39 anIP~StLYKil~G~dpr~~tl~~I~ktir~~ek~en~~fiA~IAAR~vL~~i~~~kk~i~gk~~ 103 (170)
T COG4800 39 ANIPLSTLYKILKGSDPRYDTLTRIFKTIRSYEKKENIGFIALIAARYVLEEIKFGKKGINGKSY 103 (170)
T ss_pred cCCCHHHHHHHHhCCCccHHHHHHHHHHHHHHHhccCCCeeeeeehHHHHHHHHhhhccccCcee
Confidence 4799999999999987753 232322332233344666666655444344556666666443
No 125
>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau. This model represents the well-conserved first ~ 365 amino acids of the translation of the dnaX gene. The full-length product of the dnaX gene in the model bacterium E. coli is the DNA polymerase III tau subunit. A translational frameshift leads to early termination and a truncated protein subunit gamma, about 1/3 shorter than tau and present in roughly equal amounts. This frameshift mechanism is not necessarily universal for species with DNA polymerase III but appears conserved in the exterme thermophile Thermus thermophilis.
Probab=32.50 E-value=1.2e+02 Score=25.96 Aligned_cols=62 Identities=21% Similarity=0.208 Sum_probs=36.1
Q ss_pred HHHHHHHHHhhCC--CCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHHhh
Q psy13186 20 RASINKIIKEILP--NIRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQALDQ 82 (170)
Q Consensus 20 ~AtV~riiKe~LP--~~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL~~ 82 (170)
...+..+++..+- ++.|+.++...|.+.+.--+..+..+....+.-.+ +.|+.+||-.++..
T Consensus 178 ~~~l~~~l~~~~~~~g~~i~~~a~~~l~~~~~g~~~~a~~~lekl~~~~~-~~it~~~v~~~~~~ 241 (355)
T TIGR02397 178 LEDIVERLKKILDKEGIKIEDEALELIARAADGSLRDALSLLDQLISFGN-GNITYEDVNELLGL 241 (355)
T ss_pred HHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCChHHHHHHHHHHHhhcC-CCCCHHHHHHHhCC
Confidence 4555556665443 67888888888777654433444344333333223 44888888666543
No 126
>smart00027 EH Eps15 homology domain. Pair of EF hand motifs that recognise proteins containing Asn-Pro-Phe (NPF) sequences.
Probab=31.38 E-value=1.1e+02 Score=21.66 Aligned_cols=37 Identities=11% Similarity=0.122 Sum_probs=27.1
Q ss_pred HHHHHHhhCCCCccchhhHHHHHhhcCCCccHHHHHHHH
Q psy13186 58 EANDICNEQQKKTINAEHVLQALDQLGFGDYKSEAEEVM 96 (170)
Q Consensus 58 eAnei~~~~~RKTIs~edVl~AL~~LgF~~yi~~l~~~l 96 (170)
.+-..+..++.-+|+.++|..+|..+|+.. +.+...+
T Consensus 14 ~~F~~~D~d~~G~Is~~el~~~l~~~~~~~--~ev~~i~ 50 (96)
T smart00027 14 QIFRSLDKNQDGTVTGAQAKPILLKSGLPQ--TLLAKIW 50 (96)
T ss_pred HHHHHhCCCCCCeEeHHHHHHHHHHcCCCH--HHHHHHH
Confidence 345566778888999999999999999863 3344443
No 127
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=30.53 E-value=1.3e+02 Score=26.62 Aligned_cols=65 Identities=22% Similarity=0.247 Sum_probs=38.2
Q ss_pred CcHHHHHHHHHhhCC--CCcccHHHHHHHHHHHH----HHHHHHHHHHHHHHhhCCCCccchhhHHHHHhhcCCCc
Q psy13186 18 LPRASINKIIKEILP--NIRVANESRELVMNCCM----EFIHLISSEANDICNEQQKKTINAEHVLQALDQLGFGD 87 (170)
Q Consensus 18 LP~AtV~riiKe~LP--~~~iSkdA~e~i~~c~~----eFI~~lsseAnei~~~~~RKTIs~edVl~AL~~LgF~~ 87 (170)
++...+..+++..+. ++.++.++...|.+.+. .-++++-.. +.. ++..|+.+||..++.......
T Consensus 178 l~~~el~~~L~~~~~~~g~~i~~~al~~ia~~s~G~~R~al~~l~~~----~~~-~~~~It~~~v~~~l~~~~~~~ 248 (363)
T PRK14961 178 ISEEKIFNFLKYILIKESIDTDEYALKLIAYHAHGSMRDALNLLEHA----INL-GKGNINIKNVTDMLGLLNEKQ 248 (363)
T ss_pred CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHH----HHh-cCCCCCHHHHHHHHCCCCHHH
Confidence 334555555555443 57788888887776542 333333222 222 467899999988876554433
No 128
>PRK05629 hypothetical protein; Validated
Probab=29.70 E-value=1.8e+02 Score=25.04 Aligned_cols=62 Identities=6% Similarity=0.081 Sum_probs=43.3
Q ss_pred HHHHHHHHHhhCC--CCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHHhh
Q psy13186 20 RASINKIIKEILP--NIRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQALDQ 82 (170)
Q Consensus 20 ~AtV~riiKe~LP--~~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL~~ 82 (170)
..-+.+.|.+.+- +.+|+.+|...|..++..=...+.++--..|.-. ..+|+.+||-..+..
T Consensus 128 ~~~l~~wi~~~~~~~g~~i~~~A~~~L~~~~g~dl~~l~~EleKL~~~~-~~~It~e~V~~~v~~ 191 (318)
T PRK05629 128 PRERPGWVTQEFKNHGVRPTPDVVHALLEGVGSDLRELASAISQLVEDT-QGNVTVEKVRAYYVG 191 (318)
T ss_pred HHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHCccHHHHHHHHHHHHhcC-CCCcCHHHHHHHhCC
Confidence 3344444444443 6899999999999988766667777777666533 457999999776443
No 129
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=29.57 E-value=72 Score=28.05 Aligned_cols=32 Identities=13% Similarity=0.307 Sum_probs=27.1
Q ss_pred HHHHHHHHHHHHHhhCCCCccchhhHHHHHhh
Q psy13186 51 FIHLISSEANDICNEQQKKTINAEHVLQALDQ 82 (170)
Q Consensus 51 FI~~lsseAnei~~~~~RKTIs~edVl~AL~~ 82 (170)
-|..|..+|...|...++..|+.+|+..|+..
T Consensus 331 dl~~l~~~A~~~a~~~~~~~i~~~d~~~a~~~ 362 (364)
T TIGR01242 331 DLKAICTEAGMFAIREERDYVTMDDFIKAVEK 362 (364)
T ss_pred HHHHHHHHHHHHHHHhCCCccCHHHHHHHHHH
Confidence 34566778888888899999999999999875
No 130
>cd07594 BAR_Endophilin_B The Bin/Amphiphysin/Rvs (BAR) domain of Endophilin-B. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Endophilins play roles in synaptic vesicle formation, virus budding, mitochondrial morphology maintenance, receptor-mediated endocytosis inhibition, and endosomal sorting. Endophilins contain an N-terminal N-BAR domain (BAR domain with an additional N-terminal amphipathic helix), followed by a variable region containing proline clusters, and a C-terminal SH3 domain. They are classified into two types, A and B. Vertebrates contain two endophilin-B isoforms. Endophilin-B proteins are cytoplasmic proteins expressed mainly in the heart, placenta, and skeletal muscle.
Probab=29.30 E-value=1.6e+02 Score=25.11 Aligned_cols=21 Identities=19% Similarity=0.447 Sum_probs=16.5
Q ss_pred ccHHHHHHHHH-HHHHHHHhhh
Q psy13186 87 DYKSEAEEVMK-DCKIVAANRK 107 (170)
Q Consensus 87 ~yi~~l~~~l~-~~Ke~~k~r~ 107 (170)
.|+.+|..+++ .+++..+.|+
T Consensus 119 ~fl~pL~~~l~~dik~i~k~RK 140 (229)
T cd07594 119 NFLQPLRNFLEGDMKTISKERK 140 (229)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 68888888887 8888877664
No 131
>COG1724 Predicted RNA binding protein (dsRBD-like fold), HicA family [General function prediction only]
Probab=29.29 E-value=37 Score=24.11 Aligned_cols=17 Identities=35% Similarity=0.667 Sum_probs=15.2
Q ss_pred ccchhhHHHHHhhcCCC
Q psy13186 70 TINAEHVLQALDQLGFG 86 (170)
Q Consensus 70 TIs~edVl~AL~~LgF~ 86 (170)
.+++.+|+++|+.+||.
T Consensus 6 ~~~~ke~ik~Le~~Gf~ 22 (66)
T COG1724 6 RMKAKEVIKALEKDGFQ 22 (66)
T ss_pred cCCHHHHHHHHHhCCcE
Confidence 46889999999999996
No 132
>COG1239 ChlI Mg-chelatase subunit ChlI [Coenzyme metabolism]
Probab=29.16 E-value=99 Score=29.05 Aligned_cols=54 Identities=9% Similarity=0.353 Sum_probs=44.4
Q ss_pred HhhCCCCcccHHHHHHHHHHHHHHHH-------HHHHHHHHHHhhCCCCccchhhHHHHHh
Q psy13186 28 KEILPNIRVANESRELVMNCCMEFIH-------LISSEANDICNEQQKKTINAEHVLQALD 81 (170)
Q Consensus 28 Ke~LP~~~iSkdA~e~i~~c~~eFI~-------~lsseAnei~~~~~RKTIs~edVl~AL~ 81 (170)
++.||.+.++.++...|.+.|..+-. .+...|..++.-.||.+++.+||-.|+.
T Consensus 260 r~~l~~V~l~~~~~~~ia~~~~~~~v~g~radi~~~r~a~a~aa~~Gr~~v~~~Di~~a~~ 320 (423)
T COG1239 260 RSLLSEVELDDDAETKIAELCARLAVDGHRADIVVVRAAKALAALRGRTEVEEEDIREAAE 320 (423)
T ss_pred HhccccccCcHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHHHhcCceeeehhhHHHHHh
Confidence 35567899999999999999887743 4677788888889999999999988865
No 133
>KOG1029|consensus
Probab=29.12 E-value=2.2e+02 Score=29.36 Aligned_cols=21 Identities=24% Similarity=0.254 Sum_probs=9.9
Q ss_pred HHHHHHHHHHHHHHHHhhhhc
Q psy13186 143 LSQWQHIQEITSQQKQQEESD 163 (170)
Q Consensus 143 ~~~~~~~~~~~~~~~~~~~~~ 163 (170)
+|+|.--+.+...|-+++++-
T Consensus 428 eqe~iv~~nak~~ql~~elet 448 (1118)
T KOG1029|consen 428 EQEWIVYLNAKKKQLQQELET 448 (1118)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 444444444444455554443
No 134
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=28.89 E-value=74 Score=28.60 Aligned_cols=35 Identities=17% Similarity=0.243 Sum_probs=28.6
Q ss_pred HHHHHHHHHHHHHhhCCCCccchhhHHHHHhhcCC
Q psy13186 51 FIHLISSEANDICNEQQKKTINAEHVLQALDQLGF 85 (170)
Q Consensus 51 FI~~lsseAnei~~~~~RKTIs~edVl~AL~~LgF 85 (170)
=|.-|..+|...|.+.+++.|+.+|+..|+...-.
T Consensus 340 dl~~l~~eA~~~a~~~~~~~i~~~d~~~A~~~~~~ 374 (389)
T PRK03992 340 DLKAICTEAGMFAIRDDRTEVTMEDFLKAIEKVMG 374 (389)
T ss_pred HHHHHHHHHHHHHHHcCCCCcCHHHHHHHHHHHhc
Confidence 34566777888888889999999999999987644
No 135
>COG5126 FRQ1 Ca2+-binding protein (EF-Hand superfamily) [Signal transduction mechanisms / Cytoskeleton / Cell division and chromosome partitioning / General function prediction only]
Probab=28.60 E-value=3.2e+02 Score=22.19 Aligned_cols=72 Identities=17% Similarity=0.230 Sum_probs=43.4
Q ss_pred cccccCcHHHHHHHHHhhCCCCcccHHHHHHHHHHH-----HHHHHHHHHHHHHHHhhCCCCccchhhHHHHHhhcCCC-
Q psy13186 13 DDELILPRASINKIIKEILPNIRVANESRELVMNCC-----MEFIHLISSEANDICNEQQKKTINAEHVLQALDQLGFG- 86 (170)
Q Consensus 13 ~ddl~LP~AtV~riiKe~LP~~~iSkdA~e~i~~c~-----~eFI~~lsseAnei~~~~~RKTIs~edVl~AL~~LgF~- 86 (170)
+.+-.||+.-+..|++ .+|-.--..++..++..-- .-|=.||+..+...+ ++-+.+.+.+|.+..+-+
T Consensus 32 d~~G~I~~~el~~ilr-~lg~~~s~~ei~~l~~~~d~~~~~idf~~Fl~~ms~~~~-----~~~~~Eel~~aF~~fD~d~ 105 (160)
T COG5126 32 DSDGLIDRNELGKILR-SLGFNPSEAEINKLFEEIDAGNETVDFPEFLTVMSVKLK-----RGDKEEELREAFKLFDKDH 105 (160)
T ss_pred CCCCCCcHHHHHHHHH-HcCCCCcHHHHHHHHHhccCCCCccCHHHHHHHHHHHhc-----cCCcHHHHHHHHHHhCCCC
Confidence 4566899999999999 7773333344555554433 334445554444433 555677777777776665
Q ss_pred -ccHH
Q psy13186 87 -DYKS 90 (170)
Q Consensus 87 -~yi~ 90 (170)
.||+
T Consensus 106 dG~Is 110 (160)
T COG5126 106 DGYIS 110 (160)
T ss_pred Cceec
Confidence 4553
No 136
>PRK09526 lacI lac repressor; Reviewed
Probab=27.91 E-value=40 Score=28.18 Aligned_cols=38 Identities=13% Similarity=0.301 Sum_probs=30.7
Q ss_pred ccCcHHHHHHHHHhhCCCCcccHHHHHHHHHHHHHHHHHHHH
Q psy13186 16 LILPRASINKIIKEILPNIRVANESRELVMNCCMEFIHLISS 57 (170)
Q Consensus 16 l~LP~AtV~riiKe~LP~~~iSkdA~e~i~~c~~eFI~~lss 57 (170)
...=++||.|++... -+||.+++.-|.+++.+ +.|.-.
T Consensus 15 aGVS~~TVSrvLn~~---~~vs~~tr~rV~~~a~e-lgY~pn 52 (342)
T PRK09526 15 AGVSYQTVSRVLNQA---SHVSAKTREKVEAAMAE-LNYVPN 52 (342)
T ss_pred hCCCHHHHHHHhcCC---CCCCHHHHHHHHHHHHH-HCCCcC
Confidence 356689999999753 46999999999999999 677643
No 137
>cd07617 BAR_Endophilin_B2 The Bin/Amphiphysin/Rvs (BAR) domain of Endophilin-B2. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Endophilins play roles in synaptic vesicle formation, virus budding, mitochondrial morphology maintenance, receptor-mediated endocytosis inhibition, and endosomal sorting. Endophilins contain an N-terminal N-BAR domain (BAR domain with an additional N-terminal amphipathic helix), followed by a variable region containing proline clusters, and a C-terminal SH3 domain. They are classified into two types, A and B. Vertebrates contain two endophilin-B isoforms. Endophilin-B proteins are cytoplasmic proteins expressed mainly in the heart, placenta, and skeletal muscle. Endophilin-B2, also called SH3GLB2 (SH3-domain GRB2-like endophilin B2), is a cytoplasmic protein that interacts with the apoptosis inducer Bax. It is overexpressed in prostate cancer metastasis and has been identified
Probab=27.27 E-value=1.8e+02 Score=24.94 Aligned_cols=46 Identities=24% Similarity=0.402 Sum_probs=29.5
Q ss_pred ccHHHHHHHHH-HHHHHHHhhhh----------hhhhhhcCCCCHHHHHHHHHHHHHHHHH
Q psy13186 87 DYKSEAEEVMK-DCKIVAANRKK----------QSNRLENLGIPEEELLRQQQELFAKARE 136 (170)
Q Consensus 87 ~yi~~l~~~l~-~~Ke~~k~r~~----------k~~k~~~~g~~eEel~~~Q~eLF~~Ar~ 136 (170)
.|+.++..+++ .+|+..+.|++ +++|+++ ++ +=+++.+.=|+.+..
T Consensus 119 ~fl~pL~~~l~~dlk~i~k~RKkLe~rRLd~D~~K~r~~k---ae-~elr~A~~kf~~~~E 175 (220)
T cd07617 119 NFLTPLRNFLEGDWKTISKERRLLQNRRLDLDACKARLKK---AE-HELRVAQTEFDRQAE 175 (220)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc---cH-HHHHHHHHHHHHHHH
Confidence 57888888887 77777776643 3345554 23 455666666766655
No 138
>PRK10339 DNA-binding transcriptional repressor EbgR; Provisional
Probab=26.95 E-value=71 Score=26.73 Aligned_cols=34 Identities=12% Similarity=0.395 Sum_probs=26.4
Q ss_pred cCcHHHHHHHHHhhCCCCcccHHHHHHHHHHHHHH
Q psy13186 17 ILPRASINKIIKEILPNIRVANESRELVMNCCMEF 51 (170)
Q Consensus 17 ~LP~AtV~riiKe~LP~~~iSkdA~e~i~~c~~eF 51 (170)
.+-++||.|.+... |+.+||.++++-|.+++.+.
T Consensus 12 gVS~~TVSrvln~~-~~~~vs~~tr~rV~~~a~~l 45 (327)
T PRK10339 12 GVSLATVSRVLNDD-PTLNVKEETKHRILEIAEKL 45 (327)
T ss_pred CCCHHhhhhhhcCC-CCCCcCHHHHHHHHHHHHHh
Confidence 45688999999754 45579999999998887663
No 139
>KOG0605|consensus
Probab=26.95 E-value=72 Score=30.91 Aligned_cols=75 Identities=15% Similarity=0.281 Sum_probs=53.4
Q ss_pred cCcHHHHHHHHHhh--C--C-CCcccHHHHHHHHHHHHHHHHHHH-HHHHHHHhhCCCCccchhhHHHHHhhcCCCccHH
Q psy13186 17 ILPRASINKIIKEI--L--P-NIRVANESRELVMNCCMEFIHLIS-SEANDICNEQQKKTINAEHVLQALDQLGFGDYKS 90 (170)
Q Consensus 17 ~LP~AtV~riiKe~--L--P-~~~iSkdA~e~i~~c~~eFI~~ls-seAnei~~~~~RKTIs~edVl~AL~~LgF~~yi~ 90 (170)
+-|.+|-.||+.-. | | ++.+|.+|+++|.+||..=.+=|- .-+.+|=.+.-=++|.=+||... . +-|+|
T Consensus 391 ~tp~~T~rkI~nwr~~l~fP~~~~~s~eA~DLI~rll~d~~~RLG~~G~~EIK~HPfF~~v~W~~l~~~----~-apfvP 465 (550)
T KOG0605|consen 391 ETPQETYRKIVNWRETLKFPEEVDLSDEAKDLITRLLCDPENRLGSKGAEEIKKHPFFKGVDWDHLREM----P-APFVP 465 (550)
T ss_pred CCHHHHHHHHHHHhhhccCCCcCcccHHHHHHHHHHhcCHHHhcCcccHHHHhcCCccccCCcchhhcC----C-CCCCC
Confidence 56999999999755 5 5 799999999999999887666665 33455555555577887777543 1 45666
Q ss_pred HHHHHH
Q psy13186 91 EAEEVM 96 (170)
Q Consensus 91 ~l~~~l 96 (170)
.|...+
T Consensus 466 ~v~~~~ 471 (550)
T KOG0605|consen 466 QVNSEL 471 (550)
T ss_pred CCCCcc
Confidence 655543
No 140
>PF01418 HTH_6: Helix-turn-helix domain, rpiR family; InterPro: IPR000281 This domain contains a helix-turn-helix motif []. Every member of this family is N-terminal to a SIS domain IPR001347 from INTERPRO. Members of this family are probably regulators of genes involved in phosphosugar metobolism.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 2O3F_B 3IWF_B.
Probab=26.89 E-value=75 Score=21.92 Aligned_cols=34 Identities=12% Similarity=0.366 Sum_probs=23.9
Q ss_pred HHHHHhhCCCCccchhhHHHHHhhcCCCccHHHHHHH
Q psy13186 59 ANDICNEQQKKTINAEHVLQALDQLGFGDYKSEAEEV 95 (170)
Q Consensus 59 Anei~~~~~RKTIs~edVl~AL~~LgF~~yi~~l~~~ 95 (170)
..++|..-+ |++.=|+.-.+.|||.+|-+--...
T Consensus 37 i~elA~~~~---vS~sti~Rf~kkLG~~gf~efk~~l 70 (77)
T PF01418_consen 37 ISELAEKAG---VSPSTIVRFCKKLGFSGFKEFKIAL 70 (77)
T ss_dssp HHHHHHHCT---S-HHHHHHHHHHCTTTCHHHHHHHH
T ss_pred HHHHHHHcC---CCHHHHHHHHHHhCCCCHHHHHHHH
Confidence 455554443 6888999999999999987644433
No 141
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=26.49 E-value=1.5e+02 Score=29.91 Aligned_cols=61 Identities=11% Similarity=0.121 Sum_probs=36.0
Q ss_pred CcHHHHHHHHHhhCC--CCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHH
Q psy13186 18 LPRASINKIIKEILP--NIRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQ 78 (170)
Q Consensus 18 LP~AtV~riiKe~LP--~~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~ 78 (170)
|+...|.+++++.+- ++.|++++..+|.+.+.-=+..+-++...++.-.+...|+.+||..
T Consensus 179 l~~~~l~~~L~~il~~EGv~id~eal~lLa~~sgGdlR~Al~eLEKLia~~~~~~IT~e~V~a 241 (824)
T PRK07764 179 VPPEVMRGYLERICAQEGVPVEPGVLPLVIRAGGGSVRDSLSVLDQLLAGAGPEGVTYERAVA 241 (824)
T ss_pred CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHhhcCCCCCCHHHHHH
Confidence 456777777777764 6888888888777765433333333333444333344576665543
No 142
>KOG2357|consensus
Probab=26.26 E-value=4.9e+02 Score=24.72 Aligned_cols=126 Identities=22% Similarity=0.261 Sum_probs=65.0
Q ss_pred CCCCCCCCCCCcccccCcHHHHHHHHHhhCC-CCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHH
Q psy13186 2 SDVGLDPISNDDDELILPRASINKIIKEILP-NIRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQAL 80 (170)
Q Consensus 2 ~~~~~~~~~~~~ddl~LP~AtV~riiKe~LP-~~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL 80 (170)
||.-.+|+..++...-||.+....+.+-.+| ......+.+.++. ||-|+-..+-.. -+|-+=+-++
T Consensus 302 SDQ~sgP~~~~E~~t~~P~~~~~~l~~fnlp~~~k~me~iv~i~~-----li~ylid~~~~~-------~lS~~~k~kt- 368 (440)
T KOG2357|consen 302 SDQFSGPIDQEEGETKLPEAKRMLLFKFNLPLLNKDMEDIVEILN-----LIFYLIDKAKKL-------FLSKDAKAKT- 368 (440)
T ss_pred ecCCCCCcccccccccCchhhhhheeccCccchHHHHHHHHHHHH-----HHHHHHHHHHhh-------hchHHHHhhh-
Confidence 4555555444455559999999999999988 4344444444443 666655444322 1222111111
Q ss_pred hhcCCCccHHHHHHHHHHHHHHHHh-----hhh-hhhhhhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy13186 81 DQLGFGDYKSEAEEVMKDCKIVAAN-----RKK-QSNRLENLGIPEEELLRQQQELFAKAREEQAAADLSQW 146 (170)
Q Consensus 81 ~~LgF~~yi~~l~~~l~~~Ke~~k~-----r~~-k~~k~~~~g~~eEel~~~Q~eLF~~Ar~~~~~~~~~~~ 146 (170)
+-++....+.......+.|.+... ++| ++.+++.+|=+ ..|.++=++.|.|+++..|--+
T Consensus 369 -~~~RQ~~~e~~~K~th~~rqEaaQ~kk~Ek~Ka~kekl~a~~d~-----Ek~rr~EakerkR~~K~~~pKM 434 (440)
T KOG2357|consen 369 -DKNRQRVEEEFLKLTHAARQEAAQEKKAEKKKAEKEKLKASGDP-----EKQRRKEAKERKRQAKKKQPKM 434 (440)
T ss_pred -hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCH-----HHHHHHHHHHHHHHHHhcChhh
Confidence 111222222222333333332211 122 45677777755 3466777888888887776533
No 143
>PF00403 HMA: Heavy-metal-associated domain; InterPro: IPR006121 Proteins that transport heavy metals in micro-organisms and mammals share similarities in their sequences and structures. These proteins provide an important focus for research, some being involved in bacterial resistance to toxic metals, such as lead and cadmium, while others are involved in inherited human syndromes, such as Wilson's and Menke's diseases []. A conserved domain has been found in a number of these heavy metal transport or detoxification proteins []. The domain, which has been termed Heavy-Metal-Associated (HMA), contains two conserved cysteines that are probably involved in metal binding. Structure solution of the fourth HMA domain of the Menke's copper transporting ATPase shows a well-defined structure comprising a four-stranded antiparallel beta-sheet and two alpha helices packed in an alpha-beta sandwich fold []. This fold is common to other domains and is classified as "ferredoxin-like".; GO: 0046872 metal ion binding, 0030001 metal ion transport; PDB: 2VOY_A 1P6T_A 1KQK_A 2RML_A 1JWW_A 3K7R_F 1FES_A 1CC8_A 1FD8_A 2GGP_A ....
Probab=26.25 E-value=44 Score=21.42 Aligned_cols=16 Identities=19% Similarity=0.634 Sum_probs=14.1
Q ss_pred cchhhHHHHHhhcCCC
Q psy13186 71 INAEHVLQALDQLGFG 86 (170)
Q Consensus 71 Is~edVl~AL~~LgF~ 86 (170)
+++++|..+++.+||+
T Consensus 47 ~~~~~i~~~i~~~Gy~ 62 (62)
T PF00403_consen 47 TSIEKIIEAIEKAGYE 62 (62)
T ss_dssp SCHHHHHHHHHHTTSE
T ss_pred CCHHHHHHHHHHhCcC
Confidence 6779999999999984
No 144
>PF09114 MotA_activ: Transcription factor MotA, activation domain; InterPro: IPR015198 Transcription factor MotA is required for the activation of middle promoters in Bacteriophage T4, in addition to phage T4 co-activator AsiA, and sigma-70-containing Escherichia coli RNA polymerase. Phage T4 middle promoters have the sigma70 -10 DNA element, but not the -35 element; instead, they have a MotA box at -30 to which the transcription factor MotA binds []. MotA and AsiA interact with the C-terminal of sigma70 (region 4), which normally binds the -35 element and the beta-flap, thereby diverting sigma70 away from host promoters that require -35 element-binding to phage T4 middle promoters. Transcription factor MotA has two domains: an N-terminal domain required for binding to sigma70, and a C-terminal domain required for binding to the -30 MotA box element in the phage T4 middle promoter. This entry represents the N-terminal (activation) domain of MotA factors that binds sigma70. The N-terminal domain adopts an almost completely alpha-helical topology, with five alpha-helices and a short, two-stranded, beta-ribbon. Four alpha helices (alpha1, alpha3, alpha4 and alpha5) are amphipathic and pack their hydrophobic surfaces around the central helix alpha2 [].; PDB: 1BJA_B 1I1S_A.
Probab=26.13 E-value=1e+02 Score=23.32 Aligned_cols=33 Identities=15% Similarity=0.334 Sum_probs=26.0
Q ss_pred HHHHHHHHhhCC-----CCcccHHHHHHHHHHHHHHHH
Q psy13186 21 ASINKIIKEILP-----NIRVANESRELVMNCCMEFIH 53 (170)
Q Consensus 21 AtV~riiKe~LP-----~~~iSkdA~e~i~~c~~eFI~ 53 (170)
++|.++||.-|= +..++.++.++|++++..|-.
T Consensus 51 SNIGvLIKkglIEKSGDGlv~T~~g~~Ii~~AA~l~a~ 88 (96)
T PF09114_consen 51 SNIGVLIKKGLIEKSGDGLVITEEGMDIIIQAAELWAQ 88 (96)
T ss_dssp HHHHHHHHTTSEEEETTEEEE-HHHHHHHHHHHHHHHH
T ss_pred HhHHHHHHcCcccccCCceEEechHHHHHHHHHHHHHh
Confidence 457779998882 578999999999999998743
No 145
>PRK14970 DNA polymerase III subunits gamma and tau; Provisional
Probab=26.06 E-value=1.6e+02 Score=25.73 Aligned_cols=65 Identities=14% Similarity=0.159 Sum_probs=37.8
Q ss_pred HHHHHHHHHhhCC--CCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHHhhcCC
Q psy13186 20 RASINKIIKEILP--NIRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQALDQLGF 85 (170)
Q Consensus 20 ~AtV~riiKe~LP--~~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL~~LgF 85 (170)
...+..++...+- ++.|++++.+.|..-+.-=+..+-.+-...+.-.++. |+.+||...+....-
T Consensus 169 ~~~l~~~l~~~~~~~g~~i~~~al~~l~~~~~gdlr~~~~~lekl~~y~~~~-it~~~v~~~~~~~~~ 235 (367)
T PRK14970 169 IKDIKEHLAGIAVKEGIKFEDDALHIIAQKADGALRDALSIFDRVVTFCGKN-ITRQAVTENLNILDY 235 (367)
T ss_pred HHHHHHHHHHHHHHcCCCCCHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCC-CCHHHHHHHhCCCCH
Confidence 4566666665443 6889999988887754422333333333333322333 888888777665543
No 146
>PRK05907 hypothetical protein; Provisional
Probab=25.68 E-value=1.5e+02 Score=26.10 Aligned_cols=66 Identities=12% Similarity=0.085 Sum_probs=45.9
Q ss_pred HHHHHHHHhhCC--CCcccHHHHHHHHHHHH-HHHHHHHHHHHHHHhh-CCCCccchhhHHHHHh-hcCCC
Q psy13186 21 ASINKIIKEILP--NIRVANESRELVMNCCM-EFIHLISSEANDICNE-QQKKTINAEHVLQALD-QLGFG 86 (170)
Q Consensus 21 AtV~riiKe~LP--~~~iSkdA~e~i~~c~~-eFI~~lsseAnei~~~-~~RKTIs~edVl~AL~-~LgF~ 86 (170)
..+.+-|...+- +.+|+++|...+...+. -=+..+..|-...|.- ..+++|+.+||-..+. .+.|.
T Consensus 137 ~~L~~Wi~~~~~~~g~~i~~~a~~~L~~~~~~~nL~~l~~EleKL~ly~g~~~~It~e~V~~lv~~s~e~n 207 (311)
T PRK05907 137 KRIAQLLIQRAKELGISCSLGLASLFVSKFPQTGLFEILSEFQKLLCQMGKKESLEASDIQSFVVKKEAAS 207 (311)
T ss_pred HHHHHHHHHHHHHcCCCcCHHHHHHHHHHccCCCHHHHHHHHHHHHHhcCCCCeECHHHHHHHhcCccccc
Confidence 444444444443 68999999999988773 4455667777777664 6788999999987744 45554
No 147
>TIGR00344 alaS alanine--tRNA ligase. The model describes alanine--tRNA ligase. This enzyme catalyzes the reaction (tRNAala + L-alanine + ATP = L-alanyl-tRNAala + pyrophosphate + AMP).
Probab=25.39 E-value=7.3e+02 Score=25.23 Aligned_cols=71 Identities=14% Similarity=0.316 Sum_probs=40.0
Q ss_pred HHHHHHHhhCCCCcccHH-HHHHHHHHHHHHHHHHHHHHH---HHHhhCCCCccchhhHHHHHhhcCCC-ccHHHH
Q psy13186 22 SINKIIKEILPNIRVANE-SRELVMNCCMEFIHLISSEAN---DICNEQQKKTINAEHVLQALDQLGFG-DYKSEA 92 (170)
Q Consensus 22 tV~riiKe~LP~~~iSkd-A~e~i~~c~~eFI~~lsseAn---ei~~~~~RKTIs~edVl~AL~~LgF~-~yi~~l 92 (170)
+|..+|++..|+++-..+ .+.+|..--.-|..-|..--. +...+.+.++|+++++++--+..||+ |.+..+
T Consensus 330 ~~~~~m~~~ypel~~~~~~i~~ii~~Ee~~f~~tl~~G~~~l~~~~~~~~~~~i~g~~af~LydTyGfP~dlt~~~ 405 (851)
T TIGR00344 330 TLIEVLGDYYPELKEKQEFVEQILELEEERFAKTLERGLRLFEKLLKKLGKKELDGEDAFKLYDTYGFPVELTKEI 405 (851)
T ss_pred HHHHHHhhhChHhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCccCHHHHHHHHHccCCCHHHHHHH
Confidence 455566666666543333 344444444445544443111 11111134689999999999999999 555444
No 148
>PRK09111 DNA polymerase III subunits gamma and tau; Validated
Probab=25.02 E-value=1.7e+02 Score=28.25 Aligned_cols=63 Identities=14% Similarity=0.135 Sum_probs=41.6
Q ss_pred CcHHHHHHHHHhhCC--CCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHHh
Q psy13186 18 LPRASINKIIKEILP--NIRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQALD 81 (170)
Q Consensus 18 LP~AtV~riiKe~LP--~~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL~ 81 (170)
++...+.+.++..+. ++.|+.++..+|.+.+.--+..+.++....+.. +...|+.+||-..+.
T Consensus 191 l~~~el~~~L~~i~~kegi~i~~eAl~lIa~~a~Gdlr~al~~Ldkli~~-g~g~It~e~V~~llg 255 (598)
T PRK09111 191 IEADVLAAHLSRIAAKEGVEVEDEALALIARAAEGSVRDGLSLLDQAIAH-GAGEVTAEAVRDMLG 255 (598)
T ss_pred CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHhh-cCCCcCHHHHHHHhC
Confidence 445555666666554 688999999999888765555555555444333 345799999876653
No 149
>PRK00117 recX recombination regulator RecX; Reviewed
Probab=24.81 E-value=2.2e+02 Score=21.94 Aligned_cols=66 Identities=14% Similarity=0.164 Sum_probs=40.0
Q ss_pred HHHHHhhCCCCccchhhHHHHHhhcCCCccHHHHHHHHHHHHHHHH----hhhhhhhhhhcCCCCHHHHHH
Q psy13186 59 ANDICNEQQKKTINAEHVLQALDQLGFGDYKSEAEEVMKDCKIVAA----NRKKQSNRLENLGIPEEELLR 125 (170)
Q Consensus 59 Anei~~~~~RKTIs~edVl~AL~~LgF~~yi~~l~~~l~~~Ke~~k----~r~~k~~k~~~~g~~eEel~~ 125 (170)
..++-.+=.+|.++++.|-.+|..|--.+|+... .+...|-.... .+.+=..+|..-|++.+-+-.
T Consensus 28 ~~el~~kL~~kg~~~~~i~~vl~~l~~~~~ldD~-~~a~~~~~~~~~~~~g~~~I~~~L~~kGi~~~~I~~ 97 (157)
T PRK00117 28 RAELRRKLAAKGFSEEVIEAVLDRLKEEGLLDDE-RFAESFVRSRARKGYGPRRIRQELRQKGVDREIIEE 97 (157)
T ss_pred HHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCHH-HHHHHHHHHHHhCCchHHHHHHHHHHcCCCHHHHHH
Confidence 3444445566788888888888877666777665 44444433321 122235677888988765444
No 150
>smart00354 HTH_LACI helix_turn _helix lactose operon repressor.
Probab=24.56 E-value=1.5e+02 Score=19.97 Aligned_cols=32 Identities=25% Similarity=0.386 Sum_probs=19.6
Q ss_pred ccCcHHHHHHHHHhhCCCCcccHHHHHHHHHHHHH
Q psy13186 16 LILPRASINKIIKEILPNIRVANESRELVMNCCME 50 (170)
Q Consensus 16 l~LP~AtV~riiKe~LP~~~iSkdA~e~i~~c~~e 50 (170)
..+..+||.|++... -.|+.+++..|.+++.+
T Consensus 10 ~gvS~~TVSr~ln~~---~~v~~~t~~~i~~~~~~ 41 (70)
T smart00354 10 AGVSKATVSRVLNGN---GRVSEETREKVLAAMEE 41 (70)
T ss_pred HCCCHHHHHHHHCCC---CCCCHHHHHHHHHHHHH
Confidence 456677777766542 33566776666665554
No 151
>PRK14987 gluconate operon transcriptional regulator; Provisional
Probab=23.95 E-value=48 Score=27.75 Aligned_cols=37 Identities=11% Similarity=0.196 Sum_probs=29.5
Q ss_pred cCcHHHHHHHHHhhCCCCcccHHHHHHHHHHHHHHHHHHHH
Q psy13186 17 ILPRASINKIIKEILPNIRVANESRELVMNCCMEFIHLISS 57 (170)
Q Consensus 17 ~LP~AtV~riiKe~LP~~~iSkdA~e~i~~c~~eFI~~lss 57 (170)
..-++||.|++... -+||.+++.-|.+.+.+ +.|.-.
T Consensus 16 gVS~~TVSrvLn~~---~~vs~~tr~rV~~~a~e-lgY~pn 52 (331)
T PRK14987 16 GVTKMTVSRFLRNP---EQVSVALRGKIAAALDE-LGYIPN 52 (331)
T ss_pred CCCHHHhhhhhCCC---CCCCHHHHHHHHHHHHH-hCCCcc
Confidence 56689999998653 47999999999999888 667543
No 152
>PRK10423 transcriptional repressor RbsR; Provisional
Probab=23.89 E-value=62 Score=26.79 Aligned_cols=37 Identities=14% Similarity=0.123 Sum_probs=28.7
Q ss_pred cCcHHHHHHHHHhhCCCCcccHHHHHHHHHHHHHHHHHHHH
Q psy13186 17 ILPRASINKIIKEILPNIRVANESRELVMNCCMEFIHLISS 57 (170)
Q Consensus 17 ~LP~AtV~riiKe~LP~~~iSkdA~e~i~~c~~eFI~~lss 57 (170)
..=++||.|.+... -+||.++++-|.+.+.+. .|.-.
T Consensus 9 gVS~~TVSrvLn~~---~~vs~~tr~rV~~~a~~l-gY~pn 45 (327)
T PRK10423 9 GVSTSTVSHVINKD---RFVSEAITAKVEAAIKEL-NYAPS 45 (327)
T ss_pred CCcHHHHHHHhCCC---CCCCHHHHHHHHHHHHHH-CCCcc
Confidence 45689999999753 369999999999998874 55543
No 153
>PRK14955 DNA polymerase III subunits gamma and tau; Provisional
Probab=23.77 E-value=2e+02 Score=25.85 Aligned_cols=63 Identities=16% Similarity=0.222 Sum_probs=38.3
Q ss_pred CcHHHHHHHHHhhCC--CCcccHHHHHHHHHHHHHHHHHHHHHHHHHHh----hCCCCccchhhHHHHH
Q psy13186 18 LPRASINKIIKEILP--NIRVANESRELVMNCCMEFIHLISSEANDICN----EQQKKTINAEHVLQAL 80 (170)
Q Consensus 18 LP~AtV~riiKe~LP--~~~iSkdA~e~i~~c~~eFI~~lsseAnei~~----~~~RKTIs~edVl~AL 80 (170)
|+...+.+.++..+. ++.|+.++.++|...+.-=+..+-.+....+. ....++|+.+||...+
T Consensus 186 l~~~ei~~~l~~~~~~~g~~i~~~al~~l~~~s~g~lr~a~~~L~kl~~~~~~~~~~~~It~~~v~~~v 254 (397)
T PRK14955 186 IPLEEIQQQLQGICEAEGISVDADALQLIGRKAQGSMRDAQSILDQVIAFSVESEGEGSIRYDKVAELL 254 (397)
T ss_pred CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhccccCCCCccCHHHHHHHH
Confidence 334445555555443 57789998888877766544444444333322 2456799998887655
No 154
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=23.45 E-value=1.8e+02 Score=27.55 Aligned_cols=62 Identities=16% Similarity=0.146 Sum_probs=37.6
Q ss_pred CcHHHHHHHHHhhCC--CCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHH
Q psy13186 18 LPRASINKIIKEILP--NIRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQAL 80 (170)
Q Consensus 18 LP~AtV~riiKe~LP--~~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL 80 (170)
++...+.+.++..+- ++.|+.++..+|.+.+.-=+..+-+.-...+.-.+ .+|+.++|...|
T Consensus 175 l~~~el~~~L~~ia~~Egi~i~~eAL~lIa~~s~GslR~alslLdqli~y~~-~~It~e~V~~ll 238 (491)
T PRK14964 175 IPTDKLVEHLVDIAKKENIEHDEESLKLIAENSSGSMRNALFLLEQAAIYSN-NKISEKSVRDLL 238 (491)
T ss_pred ccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcC-CCCCHHHHHHHH
Confidence 444555555555553 68899999999888764333333333333333333 479999987654
No 155
>PRK14135 recX recombination regulator RecX; Provisional
Probab=23.25 E-value=4.2e+02 Score=22.12 Aligned_cols=109 Identities=15% Similarity=0.179 Sum_probs=63.6
Q ss_pred cccccCcHHHHHHHHHhhCC-CCcccHHHHHHHHHH------HHHHHHHHHH---HHHHHHhhCCCCccchhhHHHHHhh
Q psy13186 13 DDELILPRASINKIIKEILP-NIRVANESRELVMNC------CMEFIHLISS---EANDICNEQQKKTINAEHVLQALDQ 82 (170)
Q Consensus 13 ~ddl~LP~AtV~riiKe~LP-~~~iSkdA~e~i~~c------~~eFI~~lss---eAnei~~~~~RKTIs~edVl~AL~~ 82 (170)
...+.++..++.+. .|. ++.++.+...-|... -.--+.||+. ...++..+=.+|.++++.|-.+|..
T Consensus 21 ~~~~~~~~~~~~~~---~L~~g~~l~~~~~~~i~~~~~~~~a~~~Al~~L~~r~~s~~el~~kL~~kg~~~~~Ie~vl~~ 97 (263)
T PRK14135 21 KYAFSVDEDTLVKF---MLKKGKELDEEDLEEIQYADQVSKGKNLALYYLSYQMRTEKEVRDYLKKHEISEEIISEVIDK 97 (263)
T ss_pred CeEEEeeHHHHHHh---cCcCCCcCCHHHHHHHHHHHHHHHHHHHHHHHhhhccccHHHHHHHHHHCCCCHHHHHHHHHH
Confidence 34566777666554 332 677777755444432 2222444443 2345555556788888888888887
Q ss_pred cCCCccHHHHHHHHHHHHHHHH-----hhhhhhhhhhcCCCCHHHHHH
Q psy13186 83 LGFGDYKSEAEEVMKDCKIVAA-----NRKKQSNRLENLGIPEEELLR 125 (170)
Q Consensus 83 LgF~~yi~~l~~~l~~~Ke~~k-----~r~~k~~k~~~~g~~eEel~~ 125 (170)
|--.+|+.. ..+...|-.... .+.+=..+|..-|++.+..-.
T Consensus 98 l~~~~~ldD-~~~a~~~~~~~~~~~~~g~~~I~~kL~~kGi~~~~Ie~ 144 (263)
T PRK14135 98 LKEEKYIDD-KEYAESYVRTNINTGDKGPRVIKQKLLQKGIEDEIIEE 144 (263)
T ss_pred HHHcCCCCH-HHHHHHHHHHHHhccccchHHHHHHHHHcCCCHHHHHH
Confidence 777777776 444444433221 122335778888998865543
No 156
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=23.02 E-value=2.1e+02 Score=26.96 Aligned_cols=70 Identities=16% Similarity=0.172 Sum_probs=41.5
Q ss_pred CcHHHHHHHHHhhCC--CCcccHHHHHHHHHHHH----HHHHHHHHHHHHHHhhCCCCccchhhHHHHHhhcCCCccHHH
Q psy13186 18 LPRASINKIIKEILP--NIRVANESRELVMNCCM----EFIHLISSEANDICNEQQKKTINAEHVLQALDQLGFGDYKSE 91 (170)
Q Consensus 18 LP~AtV~riiKe~LP--~~~iSkdA~e~i~~c~~----eFI~~lsseAnei~~~~~RKTIs~edVl~AL~~LgF~~yi~~ 91 (170)
||...|.+.++..+- ++.+++++..+|.+.+. ..+++|-. + ++. +...|+.+||...+....-.....-
T Consensus 178 l~~~~i~~~l~~il~~egi~~~~~al~~ia~~s~GslR~al~lLdq-~--ia~--~~~~It~~~V~~~lg~~~~~~i~~l 252 (509)
T PRK14958 178 LPPLQIAAHCQHLLKEENVEFENAALDLLARAANGSVRDALSLLDQ-S--IAY--GNGKVLIADVKTMLGTIEPLLLFDI 252 (509)
T ss_pred CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCcHHHHHHHHHH-H--Hhc--CCCCcCHHHHHHHHCCCCHHHHHHH
Confidence 566666666655554 68889999888877653 33333321 1 222 4567999999877654444333333
Q ss_pred H
Q psy13186 92 A 92 (170)
Q Consensus 92 l 92 (170)
+
T Consensus 253 l 253 (509)
T PRK14958 253 L 253 (509)
T ss_pred H
Confidence 3
No 157
>PF03484 B5: tRNA synthetase B5 domain; InterPro: IPR005147 Domain B5 is found in phenylalanine-tRNA synthetase beta subunits. This domain has been shown to bind DNA through a winged helix-turn-helix motif []. Phenylalanine-tRNA synthetase may influence common cellular processes via DNA binding, in addition to its aminoacylation function.; GO: 0000287 magnesium ion binding, 0003723 RNA binding, 0005524 ATP binding, 0006432 phenylalanyl-tRNA aminoacylation; PDB: 2AKW_B 1B70_B 1B7Y_B 2ALY_B 2IY5_B 2AMC_B 3PCO_D 2CXI_C 1JJC_B 1EIY_B ....
Probab=23.00 E-value=48 Score=22.60 Aligned_cols=17 Identities=35% Similarity=0.751 Sum_probs=12.4
Q ss_pred ccchhhHHHHHhhcCCC
Q psy13186 70 TINAEHVLQALDQLGFG 86 (170)
Q Consensus 70 TIs~edVl~AL~~LgF~ 86 (170)
.|++++|...|+.|||.
T Consensus 18 ~i~~~~i~~~L~~lg~~ 34 (70)
T PF03484_consen 18 DISPEEIIKILKRLGFK 34 (70)
T ss_dssp ---HHHHHHHHHHTT-E
T ss_pred CCCHHHHHHHHHHCCCE
Confidence 78999999999999997
No 158
>PF08823 PG_binding_2: Putative peptidoglycan binding domain; InterPro: IPR014927 This entry may be a peptidoglycan binding domain.
Probab=22.83 E-value=1.5e+02 Score=20.94 Aligned_cols=31 Identities=23% Similarity=0.462 Sum_probs=26.1
Q ss_pred hhHHHHHhhcCC------CccHHHHHHHHHHHHHHHH
Q psy13186 74 EHVLQALDQLGF------GDYKSEAEEVMKDCKIVAA 104 (170)
Q Consensus 74 edVl~AL~~LgF------~~yi~~l~~~l~~~Ke~~k 104 (170)
..|-.+|..||| +.|-+.++..+..|-...+
T Consensus 19 ~evq~~L~~lGyy~g~~~g~~d~a~~~Al~~~~g~EN 55 (74)
T PF08823_consen 19 REVQEALKRLGYYKGEADGVWDEATEDALRAWAGTEN 55 (74)
T ss_pred HHHHHHHHHcCCccCCCCCcccHHHHHHHHHHHHHhh
Confidence 457889999999 7888999999998887655
No 159
>PRK03902 manganese transport transcriptional regulator; Provisional
Probab=22.74 E-value=2.4e+02 Score=21.33 Aligned_cols=85 Identities=9% Similarity=0.216 Sum_probs=48.0
Q ss_pred ccccCcHHHHHHHHHhhCC----------CCcccHHHHHHHHHH------HHHHHHHHHH---HHH-HHHhhCCCCccch
Q psy13186 14 DELILPRASINKIIKEILP----------NIRVANESRELVMNC------CMEFIHLISS---EAN-DICNEQQKKTINA 73 (170)
Q Consensus 14 ddl~LP~AtV~riiKe~LP----------~~~iSkdA~e~i~~c------~~eFI~~lss---eAn-ei~~~~~RKTIs~ 73 (170)
+.+.++.++|.++|+..-- .+.++...+.+.... ...|+.+|.. .+. +.|.-+ -.|++
T Consensus 30 ~~l~vs~~svs~~l~~L~~~Gli~~~~~~~i~LT~~G~~~a~~~~~~h~~~e~~l~~l~~~~~~~~~~a~~iE--H~ls~ 107 (142)
T PRK03902 30 EALSVHPSSVTKMVQKLDKDEYLIYEKYRGLVLTPKGKKIGKRLVYRHELLEQFLRIIGVDESKIYNDVEGIE--HHLSW 107 (142)
T ss_pred HHhCCChhHHHHHHHHHHHCCCEEEecCceEEECHHHHHHHHHHHHHHHHHHHHHHHhCcCHHHHHHHHHHHh--hcCCH
Confidence 4578889999999865432 255777776654432 2555555432 221 222222 23455
Q ss_pred hhHHHHHhhcCCCccHHHHHHHHHHHH
Q psy13186 74 EHVLQALDQLGFGDYKSEAEEVMKDCK 100 (170)
Q Consensus 74 edVl~AL~~LgF~~yi~~l~~~l~~~K 100 (170)
+-+-.--.-++|..+.|.+.+.+..|+
T Consensus 108 e~~~rl~~~~~~~~~~p~~~~~~~~~~ 134 (142)
T PRK03902 108 NAIDRIGDLVQYFEEDPDRLETLRAVQ 134 (142)
T ss_pred HHHHHHHHHHcchhhCcHHHHHHHHHH
Confidence 444444445778777777766555554
No 160
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=22.55 E-value=1.1e+02 Score=27.83 Aligned_cols=32 Identities=16% Similarity=0.146 Sum_probs=27.4
Q ss_pred HHHHHHHHHHHHhhCCCCccchhhHHHHHhhc
Q psy13186 52 IHLISSEANDICNEQQKKTINAEHVLQALDQL 83 (170)
Q Consensus 52 I~~lsseAnei~~~~~RKTIs~edVl~AL~~L 83 (170)
|..|..+|.-.|...++..|+.+|+..|+...
T Consensus 355 I~~l~~eA~~~A~r~~~~~i~~~df~~A~~~v 386 (398)
T PTZ00454 355 IAAICQEAGMQAVRKNRYVILPKDFEKGYKTV 386 (398)
T ss_pred HHHHHHHHHHHHHHcCCCccCHHHHHHHHHHH
Confidence 66677888888999999999999999998763
No 161
>cd01392 HTH_LacI Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators. HTH-DNA binding domain of the LacI (lactose operon repressor) family of bacterial transcriptional regulators and their putative homologs found in plants. The LacI family has more than 500 members distributed among almost all bacterial species. The monomeric proteins of the LacI family contain common structural features that include a small DNA-binding domain with a helix-turn-helix motif in the N-terminus, a regulatory ligand-binding domain which exhibits the type I periplasmic binding protein fold in the C-terminus for oligomerization and for effector binding, and an approximately 18-amino acid linker connecting these two functional domains. In LacI-like transcriptional regulators, the ligands are monosaccharides including lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars, with a few exceptions. When the C-terminal domain of the LacI family repre
Probab=22.33 E-value=1.7e+02 Score=17.82 Aligned_cols=32 Identities=25% Similarity=0.377 Sum_probs=16.1
Q ss_pred ccCcHHHHHHHHHhhCCCCcccHHHHHHHHHHHHH
Q psy13186 16 LILPRASINKIIKEILPNIRVANESRELVMNCCME 50 (170)
Q Consensus 16 l~LP~AtV~riiKe~LP~~~iSkdA~e~i~~c~~e 50 (170)
+.+..+||.++++.. ..|+.+.+..|.+++.+
T Consensus 7 ~gvs~~tvs~~l~g~---~~vs~~~~~~i~~~~~~ 38 (52)
T cd01392 7 AGVSVATVSRVLNGK---PRVSEETRERVLAAAEE 38 (52)
T ss_pred HCcCHHHHHHHHcCC---CCCCHHHHHHHHHHHHH
Confidence 345566666666532 24555555555444433
No 162
>PF12627 PolyA_pol_RNAbd: Probable RNA and SrmB- binding site of polymerase A; PDB: 1OU5_B 3H38_A 3H3A_B 3H39_B 3H37_A 3AQN_A 3AQK_A 3AQM_B 3AQL_B 1MIY_A ....
Probab=22.25 E-value=12 Score=24.49 Aligned_cols=58 Identities=24% Similarity=0.418 Sum_probs=30.4
Q ss_pred CcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCcc---chhhHHHHHhhcCCCccH-HHHHHH
Q psy13186 34 IRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTI---NAEHVLQALDQLGFGDYK-SEAEEV 95 (170)
Q Consensus 34 ~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTI---s~edVl~AL~~LgF~~yi-~~l~~~ 95 (170)
.+|.+++..+|.+++. .+..|+.+ .-..+=.|.+ ++...+..|.++|+-+|+ |.+..+
T Consensus 2 F~ie~~t~~ai~~~~~-~L~~is~E---Ri~~El~kil~~~~~~~~~~~l~~~gll~~ifP~l~~a 63 (64)
T PF12627_consen 2 FKIEPETEEAIKENAE-LLSKISKE---RIREELEKILSSPNPSRAFKLLDELGLLEYIFPELDAA 63 (64)
T ss_dssp -EE-HHHHHHHHHHGG-GGGGS-HH---HHHHHHHHHHTSTTHHHHHHHHHHTTCHHHHSTTHHT-
T ss_pred CccCHHHHHHHHHHHH-HHhcCCHH---HHHHHHHHHHcCCCHHHHHHHHHHcCCHHHHCcccccc
Confidence 4567777777776655 34444322 2222222222 566777888888977663 665543
No 163
>PTZ00184 calmodulin; Provisional
Probab=22.04 E-value=3e+02 Score=19.62 Aligned_cols=38 Identities=18% Similarity=0.253 Sum_probs=26.1
Q ss_pred HHHHHhhCCCCccchhhHHHHHhhcCCCccHHHHHHHH
Q psy13186 59 ANDICNEQQKKTINAEHVLQALDQLGFGDYKSEAEEVM 96 (170)
Q Consensus 59 Anei~~~~~RKTIs~edVl~AL~~LgF~~yi~~l~~~l 96 (170)
+-..+..++.-.|+.+++..+|..+|+.---..+...+
T Consensus 89 ~F~~~D~~~~g~i~~~e~~~~l~~~~~~~~~~~~~~~~ 126 (149)
T PTZ00184 89 AFKVFDRDGNGFISAAELRHVMTNLGEKLTDEEVDEMI 126 (149)
T ss_pred HHHhhCCCCCCeEeHHHHHHHHHHHCCCCCHHHHHHHH
Confidence 34445556777899999999999998764444444443
No 164
>PF12116 SpoIIID: Stage III sporulation protein D; InterPro: IPR014208 Members of this entry represent the transcriptional regulator SpoIIID, or stage III sporulation protein D. It is present in genomes if, and only if, the species is capable of endospore formation. In Bacillus subtilis SpoIIID is a DNA binding protein that is involved in gene repression as well as activation [].; PDB: 2L0K_A.
Probab=22.02 E-value=41 Score=24.83 Aligned_cols=32 Identities=25% Similarity=0.402 Sum_probs=24.0
Q ss_pred ccccCcHHHHHHHHHhhCC--CCcccHHHHHHHH
Q psy13186 14 DELILPRASINKIIKEILP--NIRVANESRELVM 45 (170)
Q Consensus 14 ddl~LP~AtV~riiKe~LP--~~~iSkdA~e~i~ 45 (170)
..+.++++||.|=|.+-|| |-.+..+++.+|.
T Consensus 27 k~FGvSKSTVHkDvteRL~~in~~La~eV~~vL~ 60 (82)
T PF12116_consen 27 KVFGVSKSTVHKDVTERLPKINPELAREVRKVLD 60 (82)
T ss_dssp HHHTS-HHHHHHHHTTHHHHH-HHHHHHHHHHHH
T ss_pred HHHCCcHHHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence 3467899999999999999 6667777776664
No 165
>KOG1792|consensus
Probab=21.70 E-value=1.3e+02 Score=25.77 Aligned_cols=55 Identities=24% Similarity=0.210 Sum_probs=45.5
Q ss_pred hCC-CCcccHHHHHHHHHHHHHHHHHHHHHHHHHH-hhCCCCccchhhHHHHHhhcC
Q psy13186 30 ILP-NIRVANESRELVMNCCMEFIHLISSEANDIC-NEQQKKTINAEHVLQALDQLG 84 (170)
Q Consensus 30 ~LP-~~~iSkdA~e~i~~c~~eFI~~lsseAnei~-~~~~RKTIs~edVl~AL~~Lg 84 (170)
.+| ++.++++....+..+++.-|+..+++.++++ .++.+.-+...=.++.+.-+|
T Consensus 110 ~lp~~i~ipee~~~~~a~~~~~~in~~l~~l~~ia~~~d~~~~lk~~v~lw~lS~vG 166 (230)
T KOG1792|consen 110 YLPVEITIPEEFVLALASSLRVEINQALSELRDIALGRDLKDFLKVAVGLWILSYVG 166 (230)
T ss_pred cCCceeecCHHHHHHHHHHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHH
Confidence 567 8999999999999999999999999999995 566555555555777777777
No 166
>PF11625 DUF3253: Protein of unknown function (DUF3253); InterPro: IPR021660 This bacterial family of proteins has no known function. ; PDB: 2NS0_A.
Probab=21.67 E-value=1.6e+02 Score=21.65 Aligned_cols=34 Identities=21% Similarity=0.209 Sum_probs=23.0
Q ss_pred hCCCCccchhhHHHHHhhcCCCccHHHHHHHHHH
Q psy13186 65 EQQKKTINAEHVLQALDQLGFGDYKSEAEEVMKD 98 (170)
Q Consensus 65 ~~~RKTIs~edVl~AL~~LgF~~yi~~l~~~l~~ 98 (170)
...-|||-|.+|-.||.-=++-++.+++..+...
T Consensus 19 R~~~ktiCPSevARal~~~~WR~lm~~vR~~A~~ 52 (83)
T PF11625_consen 19 RGPGKTICPSEVARALGPDDWRDLMPPVRAAARR 52 (83)
T ss_dssp S-TT--B-HHHHHHHH-TTS-GGGHHHHHHHHHH
T ss_pred cCCCCccCHHHHHHHHCchhhHHHHHHHHHHHHH
Confidence 4557999999999999877788899888887643
No 167
>PLN02900 alanyl-tRNA synthetase
Probab=21.55 E-value=9.1e+02 Score=24.96 Aligned_cols=71 Identities=11% Similarity=0.250 Sum_probs=40.3
Q ss_pred HHHHHHHhhCCCCcccHH-HHHHHHHHHHHHHHHHHHH------HHHHHhhCCCCccchhhHHHHHhhcCCC-ccHHHH
Q psy13186 22 SINKIIKEILPNIRVANE-SRELVMNCCMEFIHLISSE------ANDICNEQQKKTINAEHVLQALDQLGFG-DYKSEA 92 (170)
Q Consensus 22 tV~riiKe~LP~~~iSkd-A~e~i~~c~~eFI~~lsse------Anei~~~~~RKTIs~edVl~AL~~LgF~-~yi~~l 92 (170)
+|..+|++..|.+.-..+ .+.+|..--.-|..-|..- ....+...++++|++++++.--+..||+ |.+..+
T Consensus 355 ~v~~~~~~~ypel~~~~~~I~~ii~~EE~~F~~tl~~G~~~l~~~i~~~~~~~~~~l~g~~af~LydTyGfP~dlt~~i 433 (936)
T PLN02900 355 VVVELSGDVFPEVKKNEKRITEIIAEEELSFGKTLEKGIEKFKKALAAAKANGGPVLSGKDAFLLYDTYGFPVDLTELM 433 (936)
T ss_pred HHHHHHhccCcHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCcCCHHHHHHHHhccCCCHHHHHHH
Confidence 455666666775543322 2333333333444433321 1111234456789999999999999999 555544
No 168
>PHA03328 nuclear egress lamina protein UL31; Provisional
Probab=21.50 E-value=89 Score=28.31 Aligned_cols=68 Identities=16% Similarity=0.314 Sum_probs=43.0
Q ss_pred cccccCcHHHHHHHHHhhCCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHHhhcCCCc
Q psy13186 13 DDELILPRASINKIIKEILPNIRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQALDQLGFGD 87 (170)
Q Consensus 13 ~ddl~LP~AtV~riiKe~LP~~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL~~LgF~~ 87 (170)
...+-||-.-|..|+-. +|+.+|+-|.- -+-||..++...--.......-||+++||..++.+|+|++
T Consensus 229 ~~slHL~~~~L~~Ll~n-~~gY~i~adv~------~~~fvL~v~~~~~~~~~~~~~~~V~~~dIy~k~~dL~f~d 296 (316)
T PHA03328 229 GKSLHLHYRLIDRLLTA-CPGYRIIAHVW------QTTFVLVVRRDAERQTTDADVPAVSAEDIYCKMCDLNFDG 296 (316)
T ss_pred CCcccchHHHHHHHHHh-CCCCeEEEEEe------cceEEEEEeeCCCCCCccccccccCHHHHHHHHhCCCCCh
Confidence 35566776666555554 57755544321 1234444443222234556778999999999999999985
No 169
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=21.47 E-value=2.3e+02 Score=28.31 Aligned_cols=66 Identities=9% Similarity=0.087 Sum_probs=39.0
Q ss_pred CcHHHHHHHHHhhCC--CCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHHhhcC
Q psy13186 18 LPRASINKIIKEILP--NIRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQALDQLG 84 (170)
Q Consensus 18 LP~AtV~riiKe~LP--~~~iSkdA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL~~Lg 84 (170)
|+..-|...++..+. ++.|+.++..+|.+.+.-=+..+-+.-...+.. +...|+.++|...|...+
T Consensus 178 Ls~eeI~~~L~~Il~kEgi~id~eAL~~Ia~~A~GslRdAlnLLDqaia~-g~g~It~e~V~~lLG~~d 245 (709)
T PRK08691 178 MTAQQVADHLAHVLDSEKIAYEPPALQLLGRAAAGSMRDALSLLDQAIAL-GSGKVAENDVRQMIGAVD 245 (709)
T ss_pred CCHHHHHHHHHHHHHHcCCCcCHHHHHHHHHHhCCCHHHHHHHHHHHHHh-cCCCcCHHHHHHHHcccC
Confidence 445555666666664 688999999998888642222222221111111 345688888887766655
No 170
>PRK09492 treR trehalose repressor; Provisional
Probab=21.10 E-value=78 Score=26.10 Aligned_cols=38 Identities=16% Similarity=0.204 Sum_probs=29.5
Q ss_pred ccCcHHHHHHHHHhhCCCCcccHHHHHHHHHHHHHHHHHHHH
Q psy13186 16 LILPRASINKIIKEILPNIRVANESRELVMNCCMEFIHLISS 57 (170)
Q Consensus 16 l~LP~AtV~riiKe~LP~~~iSkdA~e~i~~c~~eFI~~lss 57 (170)
..+-++||.|.+... -+||.++++-|.+++.+ +.|.-.
T Consensus 14 agVS~~TVSrvLn~~---~~vs~~tr~rV~~~a~e-lgY~pn 51 (315)
T PRK09492 14 SGVGKSTVSRVLNNE---SGVSEETRERVEAVINQ-HGFSPS 51 (315)
T ss_pred hCCCHHHHhHHhCCC---CCCCHHHHHHHHHHHHH-HCCCcC
Confidence 366789999999753 47999999999998877 446543
No 171
>PF12010 DUF3502: Domain of unknown function (DUF3502); InterPro: IPR022627 This domain is about 140 amino acids in length and is functionally uncharacterised. It is found in bacteria C-terminal to PF01547 from PFAM.
Probab=20.74 E-value=77 Score=24.38 Aligned_cols=60 Identities=7% Similarity=0.112 Sum_probs=40.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCccchhhHHHHHhhcCCCccHHHHHHHHHHHHHH
Q psy13186 39 ESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVLQALDQLGFGDYKSEAEEVMKDCKIV 102 (170)
Q Consensus 39 dA~e~i~~c~~eFI~~lsseAnei~~~~~RKTIs~edVl~AL~~LgF~~yi~~l~~~l~~~Ke~ 102 (170)
..+.-|..|..+.-.|...-..=... ---.-..+...|+.-|++..+.++..-+++|+..
T Consensus 73 ~Vk~Eiaa~~~v~~~Y~~~L~~G~vd----~e~~~~~~~~kLk~AGidkV~~E~QkQlda~~~~ 132 (134)
T PF12010_consen 73 PVKNEIAACSNVWSEYYPPLETGLVD----PEEALPEFNEKLKAAGIDKVIAELQKQLDAFLAA 132 (134)
T ss_pred hhHHHHHHHHHHHHHHHHHHHccCCC----HHHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHh
Confidence 45667777777766665543322111 0112456778899999999999999999999754
No 172
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=20.60 E-value=2.7e+02 Score=26.56 Aligned_cols=59 Identities=5% Similarity=0.161 Sum_probs=36.0
Q ss_pred cCcHHHHHHHHHhhCC--CCcccHHHHHHHHHHH----HHHHHHHHHHHHHHHhhCCCCccchhhHHHHH
Q psy13186 17 ILPRASINKIIKEILP--NIRVANESRELVMNCC----MEFIHLISSEANDICNEQQKKTINAEHVLQAL 80 (170)
Q Consensus 17 ~LP~AtV~riiKe~LP--~~~iSkdA~e~i~~c~----~eFI~~lsseAnei~~~~~RKTIs~edVl~AL 80 (170)
.||...|...++..+. ++.++.++..+|.+.+ .-.+++|=... .. +...|+.++|...|
T Consensus 179 ~ls~~~i~~~L~~i~~~Egi~~e~eAL~~Ia~~S~Gd~RdAL~lLeq~i-~~----~~~~it~~~V~~~l 243 (484)
T PRK14956 179 KVPLSVLQDYSEKLCKIENVQYDQEGLFWIAKKGDGSVRDMLSFMEQAI-VF----TDSKLTGVKIRKMI 243 (484)
T ss_pred CCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCChHHHHHHHHHHHH-Hh----CCCCcCHHHHHHHh
Confidence 4555566666666654 6888999998888763 34444442211 11 12358999987665
No 173
>cd04750 Commd2 COMM_Domain containing protein 2. The COMM Domain is found at the C-terminus of a variety of proteins; presumably all COMM_Domain containing proteins are located in the nucleus and the COMM domain plays a role in protein-protein interactions. Several family members have been shown to bind and inhibit NF-kappaB.
Probab=20.47 E-value=4.5e+02 Score=20.99 Aligned_cols=35 Identities=14% Similarity=0.268 Sum_probs=25.4
Q ss_pred CCccchhhHHHHHhhcCCC-ccHHHHHHHHHHHHHH
Q psy13186 68 KKTINAEHVLQALDQLGFG-DYKSEAEEVMKDCKIV 102 (170)
Q Consensus 68 RKTIs~edVl~AL~~LgF~-~yi~~l~~~l~~~Ke~ 102 (170)
|..++.+++...|..|||+ +.+..+..++..++..
T Consensus 49 K~~l~~~~~~~~L~~l~~~~e~~~~l~~~y~~~~~~ 84 (166)
T cd04750 49 KLKLSERDFQDSIEFLGFSDDLNEILLQLYESNRKE 84 (166)
T ss_pred hccCCHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHH
Confidence 3448999999999999998 4566666655555543
Done!