Query psy3662
Match_columns 132
No_of_seqs 118 out of 637
Neff 6.5
Searched_HMMs 46136
Date Fri Aug 16 22:26:54 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy3662.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/3662hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN00153 histone H2A; Provisio 100.0 1.3E-50 2.8E-55 291.6 11.4 124 1-124 1-124 (129)
2 PLN00157 histone H2A; Provisio 100.0 8.2E-50 1.8E-54 288.3 11.5 124 1-124 1-126 (132)
3 PTZ00017 histone H2A; Provisio 100.0 4E-49 8.7E-54 285.6 11.8 127 1-127 1-130 (134)
4 PLN00156 histone H2AX; Provisi 100.0 4E-49 8.8E-54 286.4 11.6 125 8-132 13-139 (139)
5 PTZ00252 histone H2A; Provisio 100.0 7.1E-48 1.5E-52 278.0 11.1 126 1-126 1-129 (134)
6 KOG1756|consensus 100.0 2.7E-46 5.9E-51 266.7 10.3 126 1-126 1-129 (131)
7 PLN00154 histone H2A; Provisio 100.0 4.2E-46 9.2E-51 269.6 11.1 111 11-122 25-136 (136)
8 cd00074 H2A Histone 2A; H2A is 100.0 1.2E-45 2.6E-50 262.5 11.2 111 9-119 5-115 (115)
9 smart00414 H2A Histone 2A. 100.0 1.1E-45 2.5E-50 259.4 9.9 106 16-121 1-106 (106)
10 COG5262 HTA1 Histone H2A [Chro 100.0 3.7E-44 8E-49 252.8 10.0 108 14-121 16-123 (132)
11 KOG1757|consensus 100.0 1.3E-40 2.9E-45 233.3 4.2 112 11-123 17-129 (131)
12 PLN00155 histone H2A; Provisio 99.9 1.5E-23 3.2E-28 131.8 4.7 58 1-58 1-58 (58)
13 PF00125 Histone: Core histone 99.6 2.9E-15 6.3E-20 98.0 5.1 73 18-90 2-75 (75)
14 PLN00035 histone H4; Provision 99.5 4.5E-14 9.7E-19 98.6 5.5 86 1-89 1-93 (103)
15 COG5247 BUR6 Class 2 transcrip 99.5 6.9E-14 1.5E-18 96.9 6.2 80 20-99 19-98 (113)
16 PTZ00015 histone H4; Provision 99.3 3E-12 6.4E-17 89.4 6.0 75 11-88 19-93 (102)
17 KOG1659|consensus 99.2 1.8E-11 3.9E-16 94.7 6.0 79 20-98 9-87 (224)
18 PF00808 CBFD_NFYB_HMF: Histon 99.2 8.7E-11 1.9E-15 75.1 6.9 64 24-87 2-65 (65)
19 cd00076 H4 Histone H4, one of 99.2 6E-11 1.3E-15 80.4 5.4 76 11-89 2-77 (85)
20 COG2036 HHT1 Histones H3 and H 99.1 1E-10 2.2E-15 80.2 5.3 67 21-88 16-82 (91)
21 smart00417 H4 Histone H4. 99.1 8.9E-11 1.9E-15 77.7 4.6 72 12-86 3-74 (74)
22 smart00803 TAF TATA box bindin 99.1 2.6E-10 5.7E-15 73.6 6.7 64 24-88 2-65 (65)
23 COG5208 HAP5 CCAAT-binding fac 98.5 2.9E-07 6.2E-12 72.1 5.9 75 23-97 108-182 (286)
24 cd07981 TAF12 TATA Binding Pro 98.4 1.3E-06 2.9E-11 57.1 6.3 66 25-90 2-67 (72)
25 KOG1657|consensus 98.3 4.6E-07 1E-11 71.7 3.5 78 21-98 71-148 (236)
26 KOG3467|consensus 98.3 1.4E-06 3.1E-11 59.2 5.3 85 1-88 1-92 (103)
27 cd07979 TAF9 TATA Binding Prot 98.3 2.6E-06 5.6E-11 60.8 6.0 63 28-91 5-67 (117)
28 PF02969 TAF: TATA box binding 97.9 7E-05 1.5E-09 48.5 6.3 64 24-88 3-66 (66)
29 smart00428 H3 Histone H3. 97.8 4.5E-05 9.7E-10 53.6 5.3 67 21-87 26-98 (105)
30 smart00576 BTP Bromodomain tra 97.8 6.9E-05 1.5E-09 49.4 5.8 59 30-89 12-70 (77)
31 cd08050 TAF6 TATA Binding Prot 97.7 7.3E-05 1.6E-09 61.9 6.2 60 28-88 3-62 (343)
32 cd08048 TAF11 TATA Binding Pro 97.4 0.00061 1.3E-08 46.1 6.3 63 25-88 17-82 (85)
33 PF15511 CENP-T: Centromere ki 97.1 0.001 2.2E-08 56.5 5.5 72 11-82 338-414 (414)
34 PF04719 TAFII28: hTAFII28-lik 97.1 0.0012 2.6E-08 45.2 4.7 64 24-88 23-88 (90)
35 PTZ00463 histone H2B; Provisio 97.0 0.0045 9.7E-08 44.2 7.3 60 29-88 33-92 (117)
36 KOG0869|consensus 97.0 0.0024 5.1E-08 47.9 5.9 66 23-88 31-97 (168)
37 KOG3219|consensus 96.9 0.00096 2.1E-08 51.5 3.8 64 23-87 111-175 (195)
38 smart00427 H2B Histone H2B. 96.8 0.0043 9.2E-08 42.4 5.8 60 29-88 6-65 (89)
39 PF15630 CENP-S: Kinetochore c 96.8 0.0063 1.4E-07 40.4 6.2 49 45-93 25-76 (76)
40 PLN00158 histone H2B; Provisio 96.8 0.0052 1.1E-07 43.9 5.9 61 28-88 31-91 (116)
41 PLN00160 histone H3; Provision 96.3 0.0082 1.8E-07 41.6 4.6 67 21-87 18-89 (97)
42 PTZ00018 histone H3; Provision 96.2 0.0091 2E-07 43.8 4.6 66 22-87 60-129 (136)
43 PF03847 TFIID_20kDa: Transcri 96.2 0.018 3.9E-07 37.4 5.5 61 29-89 4-64 (68)
44 PLN00121 histone H3; Provision 96.2 0.012 2.6E-07 43.2 5.1 66 22-87 60-129 (136)
45 PLN00161 histone H3; Provision 96.1 0.014 3.1E-07 42.7 5.2 67 21-87 52-123 (135)
46 KOG0871|consensus 96.1 0.021 4.6E-07 42.4 5.9 70 20-89 8-78 (156)
47 PF02291 TFIID-31kDa: Transcri 96.0 0.028 6E-07 40.8 6.2 61 28-89 16-76 (129)
48 PF09415 CENP-X: CENP-S associ 95.8 0.057 1.2E-06 35.4 6.7 61 26-86 1-64 (72)
49 PF07524 Bromo_TP: Bromodomain 95.6 0.048 1.1E-06 35.5 5.7 58 30-88 12-69 (77)
50 KOG1658|consensus 95.2 0.024 5.2E-07 42.4 3.4 75 23-97 58-132 (162)
51 KOG0870|consensus 95.1 0.076 1.6E-06 40.1 6.0 67 21-88 7-76 (172)
52 PLN00163 histone H4; Provision 94.9 0.0097 2.1E-07 37.6 0.5 46 1-49 1-53 (59)
53 KOG1142|consensus 94.3 0.087 1.9E-06 42.4 4.8 68 23-90 153-220 (258)
54 KOG1745|consensus 93.5 0.085 1.8E-06 38.7 3.2 66 23-88 62-131 (137)
55 KOG1744|consensus 93.2 0.45 9.8E-06 34.5 6.5 64 21-87 37-100 (127)
56 PF02269 TFIID-18kDa: Transcri 92.9 0.12 2.6E-06 35.3 3.1 62 32-93 9-70 (93)
57 cd07978 TAF13 The TATA Binding 92.7 0.64 1.4E-05 31.7 6.4 63 30-93 8-70 (92)
58 KOG3334|consensus 87.5 2.4 5.3E-05 31.4 6.1 57 30-90 19-78 (148)
59 COG5094 TAF9 Transcription ini 86.0 3.4 7.5E-05 30.1 6.0 60 30-90 20-82 (145)
60 COG5251 TAF40 Transcription in 80.9 2.2 4.7E-05 32.7 3.4 64 24-88 115-179 (199)
61 COG5150 Class 2 transcription 79.9 6.9 0.00015 28.6 5.6 66 22-89 9-77 (148)
62 PF15510 CENP-W: Centromere ki 79.0 6.6 0.00014 27.1 5.0 64 22-87 14-93 (102)
63 KOG2549|consensus 77.5 7.3 0.00016 34.7 6.1 61 27-88 14-74 (576)
64 PF02861 Clp_N: Clp amino term 76.3 2.1 4.7E-05 24.9 1.8 33 66-98 1-35 (53)
65 PF08369 PCP_red: Proto-chloro 67.5 7.6 0.00016 23.0 2.8 27 60-86 18-44 (45)
66 PF13335 Mg_chelatase_2: Magne 65.3 7.3 0.00016 26.5 2.7 47 42-88 42-94 (96)
67 COG5095 TAF6 Transcription ini 62.3 15 0.00033 31.0 4.6 61 27-88 8-68 (450)
68 TIGR02928 orc1/cdc6 family rep 60.6 37 0.00081 27.4 6.6 61 28-88 202-272 (365)
69 PF04604 L_biotic_typeA: Type- 59.7 6.9 0.00015 24.0 1.6 21 89-112 16-36 (51)
70 PF12096 DUF3572: Protein of u 56.2 12 0.00025 25.5 2.4 54 28-86 22-79 (88)
71 PRK00411 cdc6 cell division co 56.0 43 0.00093 27.4 6.3 68 22-89 201-281 (394)
72 KOG3901|consensus 53.6 20 0.00044 25.3 3.3 36 56-92 38-74 (109)
73 COG1067 LonB Predicted ATP-dep 53.4 41 0.00088 30.6 6.1 35 61-95 370-404 (647)
74 PF08539 HbrB: HbrB-like; Int 52.0 14 0.00031 27.5 2.6 84 20-119 22-106 (158)
75 PF09123 DUF1931: Domain of un 49.4 12 0.00025 27.6 1.7 54 31-85 2-55 (138)
76 COG1474 CDC6 Cdc6-related prot 48.5 58 0.0013 27.3 6.0 74 21-95 183-269 (366)
77 KOG1658|consensus 48.4 34 0.00074 25.8 4.0 72 21-97 8-79 (162)
78 PF13654 AAA_32: AAA domain; P 48.3 20 0.00044 31.5 3.3 31 59-89 475-505 (509)
79 TIGR00764 lon_rel lon-related 46.0 73 0.0016 28.6 6.5 31 60-90 361-391 (608)
80 KOG4336|consensus 42.9 54 0.0012 27.3 4.8 84 30-114 11-101 (323)
81 PHA02943 hypothetical protein; 42.8 51 0.0011 24.9 4.2 41 59-99 76-116 (165)
82 PF12767 SAGA-Tad1: Transcript 42.5 49 0.0011 26.0 4.4 41 28-69 210-250 (252)
83 PRK11034 clpA ATP-dependent Cl 41.7 34 0.00074 31.6 3.8 41 59-99 6-46 (758)
84 KOG0787|consensus 39.6 13 0.00028 31.9 0.7 69 47-118 253-323 (414)
85 smart00350 MCM minichromosome 37.3 77 0.0017 27.6 5.2 66 23-88 416-502 (509)
86 PHA02669 hypothetical protein; 36.9 45 0.00097 25.6 3.2 37 47-86 12-48 (210)
87 cd08045 TAF4 TATA Binding Prot 36.6 1.1E+02 0.0023 23.5 5.4 57 16-73 36-96 (212)
88 TIGR02639 ClpA ATP-dependent C 33.1 53 0.0011 29.9 3.6 40 59-98 5-44 (731)
89 COG5248 TAF19 Transcription in 32.8 1.3E+02 0.0028 21.5 4.7 51 43-93 25-76 (126)
90 COG3636 Predicted transcriptio 29.4 60 0.0013 22.6 2.6 53 45-97 21-82 (100)
91 PF02681 DUF212: Divergent PAP 28.5 1.2E+02 0.0026 22.3 4.2 25 48-72 5-29 (141)
92 PRK13194 pyrrolidone-carboxyla 27.6 90 0.002 24.2 3.6 40 23-62 113-152 (208)
93 PF05236 TAF4: Transcription i 26.9 1.1E+02 0.0024 24.1 4.2 56 18-73 37-95 (264)
94 PF08672 APC2: Anaphase promot 26.8 90 0.0019 19.4 2.9 13 25-37 12-24 (60)
95 KOG4654|consensus 26.8 54 0.0012 25.8 2.2 42 46-91 165-206 (252)
96 TIGR02263 benz_CoA_red_C benzo 26.8 1.1E+02 0.0025 25.5 4.3 44 54-98 136-179 (380)
97 TIGR01128 holA DNA polymerase 26.5 1.8E+02 0.004 22.5 5.3 66 27-92 113-180 (302)
98 COG3925 N-terminal domain of t 26.5 96 0.0021 21.6 3.2 29 56-87 16-45 (103)
99 COG4905 Predicted membrane pro 25.9 81 0.0017 24.8 3.0 22 48-69 71-92 (243)
100 cd05025 S-100A1 S-100A1: S-100 25.8 1.4E+02 0.0031 19.3 3.9 45 55-100 4-61 (92)
101 cd05029 S-100A6 S-100A6: S-100 25.5 2E+02 0.0044 18.8 4.8 53 55-107 5-67 (88)
102 CHL00095 clpC Clp protease ATP 25.0 67 0.0014 29.7 2.8 33 60-92 10-42 (821)
103 PRK09862 putative ATP-dependen 24.8 70 0.0015 28.2 2.8 28 61-88 463-490 (506)
104 COG4430 Uncharacterized protei 24.6 83 0.0018 24.5 2.9 48 53-100 109-159 (200)
105 PRK05574 holA DNA polymerase I 24.5 1.8E+02 0.004 23.0 5.1 63 26-92 147-215 (340)
106 TIGR03346 chaperone_ClpB ATP-d 24.2 72 0.0016 29.7 2.9 33 59-91 5-37 (852)
107 PF09077 Phage-MuB_C: Mu B tra 22.6 30 0.00064 23.0 0.1 29 59-88 48-76 (78)
108 PF00979 Reovirus_cap: Reoviru 22.1 81 0.0018 26.8 2.6 45 51-95 103-154 (367)
109 TIGR02030 BchI-ChlI magnesium 21.7 1.1E+02 0.0023 25.4 3.3 46 42-87 254-306 (337)
110 PF13376 OmdA: Bacteriocin-pro 21.5 66 0.0014 19.8 1.5 24 77-100 4-27 (63)
111 TIGR03345 VI_ClpV1 type VI sec 21.0 1.1E+02 0.0024 28.7 3.4 32 59-90 5-36 (852)
112 PF02742 Fe_dep_repr_C: Iron d 20.8 1.9E+02 0.0041 18.0 3.6 50 53-109 16-69 (71)
113 KOG1051|consensus 20.7 99 0.0021 29.4 3.1 48 54-103 8-58 (898)
114 PF09377 SBDS_C: SBDS protein 20.4 2.3E+02 0.005 20.0 4.3 30 20-49 18-47 (125)
115 TIGR02639 ClpA ATP-dependent C 20.3 1.1E+02 0.0023 28.0 3.1 34 59-92 82-115 (731)
116 PF01470 Peptidase_C15: Pyrogl 20.2 1.2E+02 0.0026 23.1 3.0 42 23-64 113-154 (202)
No 1
>PLN00153 histone H2A; Provisional
Probab=100.00 E-value=1.3e-50 Score=291.56 Aligned_cols=124 Identities=77% Similarity=1.159 Sum_probs=117.3
Q ss_pred CCCCCCCCCCCCccCCcccccccccchhHHHHHHhhCCcccccccChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceech
Q psy3662 1 MSGRGKGGKAKTKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVLEYLVAEVLELAGNAARDNKKTRIIP 80 (132)
Q Consensus 1 m~~k~~~~~~~~~~~s~s~ragl~fPv~ri~rllk~~~~~~RVs~~A~vyLaavLEyl~~eIlelA~~~A~~~~~k~Itp 80 (132)
|||++++++.+++..|+|+||||+|||+||+|+|++++|+.||+++|+|||+||||||++||||+|+|.|+++++++|+|
T Consensus 1 m~g~~~~~~~~~k~~srS~ragL~FpVgRi~R~Lr~g~~a~Rvga~A~VYLAAVLEYLtaEVLELAgnaa~d~kk~RItP 80 (129)
T PLN00153 1 MAGRGKGKTSGKKAVSRSAKAGLQFPVGRIARYLKKGKYAERIGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKNRIVP 80 (129)
T ss_pred CCCCCCCCccccCccCcccccCcccchHHHHHHHhcCchhhccCCCchHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCh
Confidence 99998765555578999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhhhhcCcHHHHhhhcCCeecCCCcCCCCcccccCCcccccC
Q psy3662 81 RHIQLAIRNDEELNKLLNGVTIAQGGVLPNIQAVLLPKKSETAK 124 (132)
Q Consensus 81 ~~i~~AI~~D~EL~~L~~~~~ia~ggv~P~i~~~~~~~k~~~~~ 124 (132)
+||++||+||+||+.||+++||++|||+|+||++|+|+|.++++
T Consensus 81 rHi~lAI~nDeEL~~Ll~~vTIa~GGV~P~i~~~l~~kk~~~~~ 124 (129)
T PLN00153 81 RHIQLAIRNDEELGKLLGEVTIASGGVLPNIHAVLLPKKTKGGK 124 (129)
T ss_pred HHHHhhccCcHHHHHHHCCCccCCCccCCCcchhhcCcccCCCc
Confidence 99999999999999999999999999999999999999876553
No 2
>PLN00157 histone H2A; Provisional
Probab=100.00 E-value=8.2e-50 Score=288.34 Aligned_cols=124 Identities=78% Similarity=1.182 Sum_probs=116.3
Q ss_pred CCCCCC--CCCCCCccCCcccccccccchhHHHHHHhhCCcccccccChHHHHHHHHHHHHHHHHHHHHHHHHhcCCcee
Q psy3662 1 MSGRGK--GGKAKTKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVLEYLVAEVLELAGNAARDNKKTRI 78 (132)
Q Consensus 1 m~~k~~--~~~~~~~~~s~s~ragl~fPv~ri~rllk~~~~~~RVs~~A~vyLaavLEyl~~eIlelA~~~A~~~~~k~I 78 (132)
|||+++ +++.+++..|+|+||||+|||+||+|+|++++|++||+++|+|||+||||||++||||+|+|.|+++++++|
T Consensus 1 ms~~g~~~~~~~~~k~~srS~ragL~FPVgRi~R~Lk~g~~a~RIg~~A~VYLAAVLEYLtaEVLELAgnaa~d~kk~RI 80 (132)
T PLN00157 1 MSGRGKRKGGGGGKKATSRSAKAGLQFPVGRIARYLKAGKYATRVGAGAPVYLAAVLEYLAAEVLELAGNAARDNKKSRI 80 (132)
T ss_pred CCCCCCCCCCccCcCCcCcccccCcccchHHHHHHHhcCchhhhcCCCcHhHHHHHHHHHHHHHHHHHHHHHHhcCCccc
Confidence 999876 444556789999999999999999999999999999999999999999999999999999999999999999
Q ss_pred chhhhhhhhcCcHHHHhhhcCCeecCCCcCCCCcccccCCcccccC
Q psy3662 79 IPRHIQLAIRNDEELNKLLNGVTIAQGGVLPNIQAVLLPKKSETAK 124 (132)
Q Consensus 79 tp~~i~~AI~~D~EL~~L~~~~~ia~ggv~P~i~~~~~~~k~~~~~ 124 (132)
+|+||++||+||+||+.||+++||++|||+|+||++|+|+|..+++
T Consensus 81 tPrHi~lAI~nDeEL~~Ll~~vtIa~GGV~P~i~~~ll~kk~~~~~ 126 (132)
T PLN00157 81 VPRHIQLAVRNDEELSKLLGGVTIAAGGVLPNIHSVLLPKKSGKSK 126 (132)
T ss_pred cHHHHhhcccCcHHHHHHHcCceecCCccCCCcchhhcCCCCCCCC
Confidence 9999999999999999999999999999999999999999875443
No 3
>PTZ00017 histone H2A; Provisional
Probab=100.00 E-value=4e-49 Score=285.57 Aligned_cols=127 Identities=76% Similarity=1.150 Sum_probs=117.1
Q ss_pred CCCCCCCC-C--CCCccCCcccccccccchhHHHHHHhhCCcccccccChHHHHHHHHHHHHHHHHHHHHHHHHhcCCce
Q psy3662 1 MSGRGKGG-K--AKTKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVLEYLVAEVLELAGNAARDNKKTR 77 (132)
Q Consensus 1 m~~k~~~~-~--~~~~~~s~s~ragl~fPv~ri~rllk~~~~~~RVs~~A~vyLaavLEyl~~eIlelA~~~A~~~~~k~ 77 (132)
|+||++.+ + .+++..|+|+||||+|||+||+|+|++++|++||+++|+|||+||||||++||||+|+|.|+++++++
T Consensus 1 ~~~~~~~~~~~~~~~k~~srS~ragL~FPVgRi~R~Lk~g~~a~RV~a~A~VYLAAVLEYLtaEILELAgNaa~d~kk~R 80 (134)
T PTZ00017 1 KGGKGKTGGGKAGKKKPVSRSAKAGLQFPVGRVHRYLKKGRYAKRVGAGAPVYLAAVLEYLTAEVLELAGNAAKDNKKKR 80 (134)
T ss_pred CCCCCcCCCCcccCcCcccccccCCcccchHHHHHHHhccchhccccccchhhhHHHHHHHHHHHHHHHHHHHHhcCCCe
Confidence 67776532 2 25567899999999999999999999999999999999999999999999999999999999999999
Q ss_pred echhhhhhhhcCcHHHHhhhcCCeecCCCcCCCCcccccCCcccccCCCC
Q psy3662 78 IIPRHIQLAIRNDEELNKLLNGVTIAQGGVLPNIQAVLLPKKSETAKGKS 127 (132)
Q Consensus 78 Itp~~i~~AI~~D~EL~~L~~~~~ia~ggv~P~i~~~~~~~k~~~~~~~~ 127 (132)
|||+||++||+||+||+.||+++||++|||+|+||++|+|++...++.++
T Consensus 81 ItPrHi~lAI~nDeEL~~Ll~~vtIa~GGV~P~i~~~l~~k~~~~~~~~~ 130 (134)
T PTZ00017 81 ITPRHIQLAIRNDEELNKLLAGVTIASGGVLPNIHKVLLPKKSKPKQGKK 130 (134)
T ss_pred ecHHHHHhhccCcHHHHHHHcCCcccCCccCCCccHhhccCCCCcccccc
Confidence 99999999999999999999999999999999999999999998777644
No 4
>PLN00156 histone H2AX; Provisional
Probab=100.00 E-value=4e-49 Score=286.45 Aligned_cols=125 Identities=75% Similarity=1.095 Sum_probs=115.8
Q ss_pred CCCCCccCCcccccccccchhHHHHHHhhCCcccccccChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhhhhhh
Q psy3662 8 GKAKTKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVLEYLVAEVLELAGNAARDNKKTRIIPRHIQLAI 87 (132)
Q Consensus 8 ~~~~~~~~s~s~ragl~fPv~ri~rllk~~~~~~RVs~~A~vyLaavLEyl~~eIlelA~~~A~~~~~k~Itp~~i~~AI 87 (132)
++++++.+|+|+||||+|||+||+|+|++++|+.||+++|+|||+||||||++||||||+|.|+++++++|+|+||++||
T Consensus 13 ~~~~~k~~srS~rAgL~FPVgRi~R~Lk~g~ya~RVga~ApVYLAAVLEYLtaEVLELAgNaa~d~kk~RItPrHi~lAI 92 (139)
T PLN00156 13 KPKATKSVSRSSKAGLQFPVGRIARFLKAGKYAERVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAV 92 (139)
T ss_pred cccccCCcCcccccCcccchHHHHHHHhcCChhhccCCccHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCcHHHHHhhc
Confidence 34456789999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCcHHHHhhhcCCeecCCCcCCCCcccccCCcccccCC--CCCCCCC
Q psy3662 88 RNDEELNKLLNGVTIAQGGVLPNIQAVLLPKKSETAKG--KSNSQEY 132 (132)
Q Consensus 88 ~~D~EL~~L~~~~~ia~ggv~P~i~~~~~~~k~~~~~~--~~~~~~~ 132 (132)
+||+||+.||+++||++|||+|+||++|+|+|+++++. .+.+|+|
T Consensus 93 rnDeEL~~Ll~~vTIa~GGV~P~i~~~l~~kk~~~~~~~~~~~~~~~ 139 (139)
T PLN00156 93 RNDEELSKLLGSVTIAAGGVLPNIHQTLLPKKVGKGKGDIGSASQEF 139 (139)
T ss_pred cCcHHHHHHHCCCccCCCccCCCccHhhccccccccccccccccCCC
Confidence 99999999999999999999999999999999866543 3457776
No 5
>PTZ00252 histone H2A; Provisional
Probab=100.00 E-value=7.1e-48 Score=277.99 Aligned_cols=126 Identities=48% Similarity=0.794 Sum_probs=110.8
Q ss_pred CCCCCCCCCCCCccCC-cccccccccchhHHHHHHhhCCcccccccChHHHHHHHHHHHHHHHHHHHHHHHHh--cCCce
Q psy3662 1 MSGRGKGGKAKTKSKT-RSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVLEYLVAEVLELAGNAARD--NKKTR 77 (132)
Q Consensus 1 m~~k~~~~~~~~~~~s-~s~ragl~fPv~ri~rllk~~~~~~RVs~~A~vyLaavLEyl~~eIlelA~~~A~~--~~~k~ 77 (132)
|+.-++++|+.++..+ +|+||||||||+||+|+|++++|++||+++|+|||+||||||++||||||+|.|++ +++++
T Consensus 1 ~~~~~~~~~~~~~~~~~rS~rAGL~FPVgRi~R~Lr~g~ya~RIga~ApVYLAAVLEYLtaEVLELAgnaa~d~~~kk~R 80 (134)
T PTZ00252 1 MATPKQAKKKASKSGSGRSAKAGLIFPVGRVGSLLRRGQYARRIGASGAVYMAAVLEYLTAELLELSVKAAAQQAKKPKR 80 (134)
T ss_pred CCCccchhhcccccccccccccCccCchHHHHHHHHcCCcccccCCccHHHHHHHHHHHHHHHHHHHHHHHHhccCCccc
Confidence 5543333433334454 99999999999999999999999999999999999999999999999999999976 67889
Q ss_pred echhhhhhhhcCcHHHHhhhcCCeecCCCcCCCCcccccCCcccccCCC
Q psy3662 78 IIPRHIQLAIRNDEELNKLLNGVTIAQGGVLPNIQAVLLPKKSETAKGK 126 (132)
Q Consensus 78 Itp~~i~~AI~~D~EL~~L~~~~~ia~ggv~P~i~~~~~~~k~~~~~~~ 126 (132)
|+|+||++||+||+||+.||+++||++|||+|+||++|++++.+.++.|
T Consensus 81 ItPrHi~lAIrNDeEL~~Ll~~vTIa~GGVlP~i~~~l~~k~~~~~~~~ 129 (134)
T PTZ00252 81 LTPRTVTLAVRHDDDLGSLLKNVTLSRGGVMPSLNKALAKKHKSGKKAK 129 (134)
T ss_pred ccHHHHHhhccChHHHHHHHcCCccCCCccCCCccHhhccccccCCCCC
Confidence 9999999999999999999999999999999999999999955555443
No 6
>KOG1756|consensus
Probab=100.00 E-value=2.7e-46 Score=266.66 Aligned_cols=126 Identities=84% Similarity=1.219 Sum_probs=116.1
Q ss_pred CCCCCCCCCC---CCccCCcccccccccchhHHHHHHhhCCcccccccChHHHHHHHHHHHHHHHHHHHHHHHHhcCCce
Q psy3662 1 MSGRGKGGKA---KTKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVLEYLVAEVLELAGNAARDNKKTR 77 (132)
Q Consensus 1 m~~k~~~~~~---~~~~~s~s~ragl~fPv~ri~rllk~~~~~~RVs~~A~vyLaavLEyl~~eIlelA~~~A~~~~~k~ 77 (132)
|+|++++++. ++...|+|.|+||||||++|+|+|++++|++||+.+|||||+||||||++||+|+|+|.|+++++.+
T Consensus 1 ~s~~~k~gk~~~~~~~~~srs~~agl~fPvgri~r~Lr~~~~~~ri~~gapV~laavLeYL~Aeile~agnaardnkk~r 80 (131)
T KOG1756|consen 1 MSGRGKGGKAKPRAKAKSSRSSRAGLQFPVGRIHRLLRKGRYAQRVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTR 80 (131)
T ss_pred CCccCCCCcccchhhhhcchhhhcccccCHHHHHHHHHccchhhhccCCChHHHHHHHHHHHHHHHHHhHHHhhhcCccc
Confidence 6777665532 3456788999999999999999999999999999999999999999999999999999999999999
Q ss_pred echhhhhhhhcCcHHHHhhhcCCeecCCCcCCCCcccccCCcccccCCC
Q psy3662 78 IIPRHIQLAIRNDEELNKLLNGVTIAQGGVLPNIQAVLLPKKSETAKGK 126 (132)
Q Consensus 78 Itp~~i~~AI~~D~EL~~L~~~~~ia~ggv~P~i~~~~~~~k~~~~~~~ 126 (132)
|+|+||++||+||+||.+|+++|+|++|||+|+||+.++||+..+..++
T Consensus 81 i~PrH~~lAI~NDeEL~~lL~~vtIa~GGvlPnI~~~lLpKk~~~~~~~ 129 (131)
T KOG1756|consen 81 ITPRHLQLAIRNDEELNKLLGKVTIAQGGVLPNIQAILLPKKTGKHKSK 129 (131)
T ss_pred cChHHHHHHHhCcHHHHHHhccceeccCCcccccchhhcccccccCCCC
Confidence 9999999999999999999999999999999999999999988775543
No 7
>PLN00154 histone H2A; Provisional
Probab=100.00 E-value=4.2e-46 Score=269.57 Aligned_cols=111 Identities=62% Similarity=0.908 Sum_probs=105.0
Q ss_pred CCccCCcccccccccchhHHHHHHhhCC-cccccccChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhhhhhhcC
Q psy3662 11 KTKSKTRSSRAGLQFPVGRIHRLLRKGN-YAERVGAGAPVYLAAVLEYLVAEVLELAGNAARDNKKTRIIPRHIQLAIRN 89 (132)
Q Consensus 11 ~~~~~s~s~ragl~fPv~ri~rllk~~~-~~~RVs~~A~vyLaavLEyl~~eIlelA~~~A~~~~~k~Itp~~i~~AI~~ 89 (132)
+++..|+|+||||||||+||+|+|+++. +.+||+.+|+|||+||||||++||||||+|.|+++++++|||+||++||+|
T Consensus 25 ~~k~~srS~rAgL~FPVgRi~r~Lk~g~~~~~RVga~ApVYLAAVLEYLtAEVLELAGNaA~d~kk~RItPrHi~lAIrn 104 (136)
T PLN00154 25 KKKPTSRSSRAGLQFPVGRIHRQLKQRVSAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRG 104 (136)
T ss_pred CcCCcCcccccCccCchHHHHHHHHhhhhhccccccchHHHHHHHHHHHHHHHHHHHHHHHHhhCCceecHHHhhhhccC
Confidence 4467899999999999999999999986 468999999999999999999999999999999999999999999999999
Q ss_pred cHHHHhhhcCCeecCCCcCCCCcccccCCcccc
Q psy3662 90 DEELNKLLNGVTIAQGGVLPNIQAVLLPKKSET 122 (132)
Q Consensus 90 D~EL~~L~~~~~ia~ggv~P~i~~~~~~~k~~~ 122 (132)
|+||+.||+ +||++|||+|+||++|++++.++
T Consensus 105 DeEL~~Ll~-~TIa~GGVlP~i~~~l~~k~~~~ 136 (136)
T PLN00154 105 DEELDTLIK-GTIAGGGVIPHIHKSLINKSTKK 136 (136)
T ss_pred cHHHHHHhc-CCccCCccCCCcchhhcccccCC
Confidence 999999996 69999999999999999997653
No 8
>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=100.00 E-value=1.2e-45 Score=262.51 Aligned_cols=111 Identities=84% Similarity=1.247 Sum_probs=106.8
Q ss_pred CCCCccCCcccccccccchhHHHHHHhhCCcccccccChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhhhhhhc
Q psy3662 9 KAKTKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVLEYLVAEVLELAGNAARDNKKTRIIPRHIQLAIR 88 (132)
Q Consensus 9 ~~~~~~~s~s~ragl~fPv~ri~rllk~~~~~~RVs~~A~vyLaavLEyl~~eIlelA~~~A~~~~~k~Itp~~i~~AI~ 88 (132)
|++++.+|+|+|+||+|||+||+|||+++.+++||+++|+|||+||||||++||+|+|+|.|+++++++|+|+||++||+
T Consensus 5 k~~~~~~s~s~ragL~fPV~ri~R~Lk~~~~a~RVs~~A~VyLaAvLEYL~aEIlelA~n~ak~~k~krItp~hi~lAi~ 84 (115)
T cd00074 5 KKKSKKRSRSARAGLQFPVGRIHRYLKKGRYAERVGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKKRITPRHLQLAVR 84 (115)
T ss_pred ccCcCccccccccCccCcHHHHHHHHHcCccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeEcHHHHHHHHh
Confidence 45567889999999999999999999998899999999999999999999999999999999999999999999999999
Q ss_pred CcHHHHhhhcCCeecCCCcCCCCcccccCCc
Q psy3662 89 NDEELNKLLNGVTIAQGGVLPNIQAVLLPKK 119 (132)
Q Consensus 89 ~D~EL~~L~~~~~ia~ggv~P~i~~~~~~~k 119 (132)
||+||++||+++||++|||+|+||+.|++++
T Consensus 85 nD~EL~~L~~~vtI~~ggv~p~i~~~l~~~~ 115 (115)
T cd00074 85 NDEELNKLLKGVTIASGGVLPNIHKVLLPKK 115 (115)
T ss_pred ccHHHHHHHcCCcccCCccCCCcchhhcCCC
Confidence 9999999999999999999999999999875
No 9
>smart00414 H2A Histone 2A.
Probab=100.00 E-value=1.1e-45 Score=259.36 Aligned_cols=106 Identities=88% Similarity=1.287 Sum_probs=103.3
Q ss_pred CcccccccccchhHHHHHHhhCCcccccccChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhhhhhhcCcHHHHh
Q psy3662 16 TRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVLEYLVAEVLELAGNAARDNKKTRIIPRHIQLAIRNDEELNK 95 (132)
Q Consensus 16 s~s~ragl~fPv~ri~rllk~~~~~~RVs~~A~vyLaavLEyl~~eIlelA~~~A~~~~~k~Itp~~i~~AI~~D~EL~~ 95 (132)
|+|+|+||+|||+||+|+|+++++++||+++|+|||+||||||++||||+|+|.|+++++++|||+||++||+||+|||.
T Consensus 1 srS~ragL~fPVgRi~r~Lk~~~~~~Rv~~~A~VyLaAvLEYLtaEILeLagn~a~~~k~~rItp~hi~lAi~nD~EL~~ 80 (106)
T smart00414 1 SRSARAGLQFPVGRIHRLLRKGTYAKRVGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKRRITPRHLQLAIRNDEELNK 80 (106)
T ss_pred CccccCCccCchHHHHHHHHcCccccccccccHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccchHHHhhhccCCHHHHH
Confidence 68999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhcCCeecCCCcCCCCcccccCCccc
Q psy3662 96 LLNGVTIAQGGVLPNIQAVLLPKKSE 121 (132)
Q Consensus 96 L~~~~~ia~ggv~P~i~~~~~~~k~~ 121 (132)
||+++||++|||+|+||++|+|+|++
T Consensus 81 L~~~vti~~ggv~p~i~~~l~~~~~~ 106 (106)
T smart00414 81 LLKGVTIAQGGVLPNIHKVLLPKKTG 106 (106)
T ss_pred HHcCcccCCCccCCCcchhhcccCCC
Confidence 99999999999999999999999763
No 10
>COG5262 HTA1 Histone H2A [Chromatin structure and dynamics]
Probab=100.00 E-value=3.7e-44 Score=252.78 Aligned_cols=108 Identities=80% Similarity=1.191 Sum_probs=104.4
Q ss_pred cCCcccccccccchhHHHHHHhhCCcccccccChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhhhhhhcCcHHH
Q psy3662 14 SKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVLEYLVAEVLELAGNAARDNKKTRIIPRHIQLAIRNDEEL 93 (132)
Q Consensus 14 ~~s~s~ragl~fPv~ri~rllk~~~~~~RVs~~A~vyLaavLEyl~~eIlelA~~~A~~~~~k~Itp~~i~~AI~~D~EL 93 (132)
..|+|.++||+|||+||+|+|+.+++..||+++|+||++||||||++||+|+|+|.|+++++++|+|+||++||+||+||
T Consensus 16 ~~s~sa~agl~fpvgrvkr~lk~~~~~~Rig~~A~Vyl~AvleYL~aEilelAgNaA~d~kkkri~PrHlqlAIrnD~EL 95 (132)
T COG5262 16 SQSRSAKAGLIFPVGRVKRLLKKGNYRMRIGAGAPVYLAAVLEYLAAEILELAGNAARDNKKKRIIPRHLQLAIRNDEEL 95 (132)
T ss_pred ccchhhhcCccccHHHHHHHHHcCccceeecCCcHHHHHHHHHHHHHHHHHHhhhhhhhcCcceechHHHHHHhcCcHHH
Confidence 56889999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhhhcCCeecCCCcCCCCcccccCCccc
Q psy3662 94 NKLLNGVTIAQGGVLPNIQAVLLPKKSE 121 (132)
Q Consensus 94 ~~L~~~~~ia~ggv~P~i~~~~~~~k~~ 121 (132)
++|+++|+|++|||+|+||+.++++..+
T Consensus 96 ~~l~~~~tIa~GGvlp~I~~~ll~k~sk 123 (132)
T COG5262 96 NKLLGDVTIAQGGVLPNINPGLLPKSSK 123 (132)
T ss_pred HHHhhhheeecCCcccccChhhhhhhhc
Confidence 9999999999999999999999998543
No 11
>KOG1757|consensus
Probab=100.00 E-value=1.3e-40 Score=233.27 Aligned_cols=112 Identities=62% Similarity=0.911 Sum_probs=104.7
Q ss_pred CCccCCcccccccccchhHHHHHHhhCCcc-cccccChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhhhhhhcC
Q psy3662 11 KTKSKTRSSRAGLQFPVGRIHRLLRKGNYA-ERVGAGAPVYLAAVLEYLVAEVLELAGNAARDNKKTRIIPRHIQLAIRN 89 (132)
Q Consensus 11 ~~~~~s~s~ragl~fPv~ri~rllk~~~~~-~RVs~~A~vyLaavLEyl~~eIlelA~~~A~~~~~k~Itp~~i~~AI~~ 89 (132)
+.+.+|+|.|+||||||+||||.|+....+ .||+.+++||++|+||||++|+||||+|.+++.+.++|||+|+++||+.
T Consensus 17 ~~k~vs~s~raGlqFpVgRihr~LK~r~t~h~rVGataavy~aaileYLTaEVLeLAgNasKdLKvKRitprHlqLAiRG 96 (131)
T KOG1757|consen 17 KAKAVSRSARAGLQFPVGRIHRHLKTRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRG 96 (131)
T ss_pred hhhhhhHHHhcccccchHHHHHHHHHhcccccccchHHHHHHHHHHHHHHHHHHHHcccccccceeeeccchhheeeecC
Confidence 456789999999999999999999986555 4999999999999999999999999999999999999999999999999
Q ss_pred cHHHHhhhcCCeecCCCcCCCCcccccCCccccc
Q psy3662 90 DEELNKLLNGVTIAQGGVLPNIQAVLLPKKSETA 123 (132)
Q Consensus 90 D~EL~~L~~~~~ia~ggv~P~i~~~~~~~k~~~~ 123 (132)
|+|||.|+ ..||++|||+||||++|+.|+++++
T Consensus 97 DeELDtLI-k~TiagGgViPhihk~l~~k~~~~~ 129 (131)
T KOG1757|consen 97 DEELDTLI-KATIAGGGVIPHIHKSLINKKGKKK 129 (131)
T ss_pred cHHHHHHH-HHhhccCccccchHHHHhccccccC
Confidence 99999999 5789999999999999999887654
No 12
>PLN00155 histone H2A; Provisional
Probab=99.89 E-value=1.5e-23 Score=131.80 Aligned_cols=58 Identities=72% Similarity=1.189 Sum_probs=53.1
Q ss_pred CCCCCCCCCCCCccCCcccccccccchhHHHHHHhhCCcccccccChHHHHHHHHHHH
Q psy3662 1 MSGRGKGGKAKTKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVLEYL 58 (132)
Q Consensus 1 m~~k~~~~~~~~~~~s~s~ragl~fPv~ri~rllk~~~~~~RVs~~A~vyLaavLEyl 58 (132)
|||++++++.+++.+|+|+||||||||+||+|+|+++++++||+.+|||||+||||||
T Consensus 1 msg~g~g~~~~~k~~srS~rAgL~FPVgri~r~Lr~g~~a~Rvga~apVYlAAVLEYL 58 (58)
T PLN00155 1 MAGRGKGKTSGKKAVSRSAKAGLQFPVGRIARYLKKGKYAERIGAGAPVYLAAVLEYL 58 (58)
T ss_pred CCCCCCCCccccCccCcccccccccchHHHHHHHhcCChhhcccCCcHHHHHHHHHhC
Confidence 8998776555556799999999999999999999999999999999999999999996
No 13
>PF00125 Histone: Core histone H2A/H2B/H3/H4 histone h2a signature histone h2b signature histone h3 signature histone h4 signature; InterPro: IPR007125 The core histones together with some other DNA binding proteins appear to form a superfamily defined by a common fold and distant sequence similarities [, ]. Some proteins contain local homology domains related to the histone fold [].; GO: 0003677 DNA binding; PDB: 2YFW_D 2YFV_B 1U35_H 2F8N_D 2PYO_D 2NQB_D 3AN2_C 3AZJ_C 3AV1_G 3AZM_G ....
Probab=99.57 E-value=2.9e-15 Score=98.01 Aligned_cols=73 Identities=44% Similarity=0.631 Sum_probs=67.2
Q ss_pred ccccccccchhHHHHHHhhCCccc-ccccChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhhhhhhcCc
Q psy3662 18 SSRAGLQFPVGRIHRLLRKGNYAE-RVGAGAPVYLAAVLEYLVAEVLELAGNAARDNKKTRIIPRHIQLAIRND 90 (132)
Q Consensus 18 s~ragl~fPv~ri~rllk~~~~~~-RVs~~A~vyLaavLEyl~~eIlelA~~~A~~~~~k~Itp~~i~~AI~~D 90 (132)
+.+..+.||+.++.+-+..+.+.. |++.+|.++|.+++||++.+|+++|++.|.++++++|+|+||+.|++.|
T Consensus 2 ~~~~~~~~~~~r~~r~i~~~~~~~~ris~~a~~~L~~~~E~~~~~il~~A~~~a~~~kR~tI~~~DI~~A~r~~ 75 (75)
T PF00125_consen 2 TRRLIPKFPFSRLLREIGEEILSKYRISSEALVALQSVLEYLLVEILEEAGNLARHAKRKTITPRDIQLAVRID 75 (75)
T ss_dssp HSHSSSHHHHHHHHHHHHHTTSSSSEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTBSEEGHHHHHHHHHHT
T ss_pred cccccCceEEeeeeehhhcccccccccccccchhhhhhhhhhhhhhhhHHHHHHhhcCCcEecHHHHHHHHhcC
Confidence 456778999999999999876664 9999999999999999999999999999999999999999999999765
No 14
>PLN00035 histone H4; Provisional
Probab=99.49 E-value=4.5e-14 Score=98.61 Aligned_cols=86 Identities=26% Similarity=0.393 Sum_probs=74.2
Q ss_pred CCCCCCCCC-------CCCccCCcccccccccchhHHHHHHhhCCcccccccChHHHHHHHHHHHHHHHHHHHHHHHHhc
Q psy3662 1 MSGRGKGGK-------AKTKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVLEYLVAEVLELAGNAARDN 73 (132)
Q Consensus 1 m~~k~~~~~-------~~~~~~s~s~ragl~fPv~ri~rllk~~~~~~RVs~~A~vyLaavLEyl~~eIlelA~~~A~~~ 73 (132)
|||++++++ ++++++.+.+-++ ||...|.|+++++ .+.|||.++...|..+||.++.+|+..|..+|.|.
T Consensus 1 m~~~~k~~~g~g~~g~kr~~k~~~d~i~~--ipk~~IrRLARr~-GvkRIS~~ay~elr~vle~~l~~I~~dav~ya~HA 77 (103)
T PLN00035 1 MSGRGKGGKGLGKGGAKRHRKVLRDNIQG--ITKPAIRRLARRG-GVKRISGLIYEETRGVLKIFLENVIRDAVTYTEHA 77 (103)
T ss_pred CCCCCCCCCCCCCCcchHHHHHHHhhhcc--CCHHHHHHHHHHc-CcccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 888877443 3555566666667 7777899999997 69999999999999999999999999999999999
Q ss_pred CCceechhhhhhhhcC
Q psy3662 74 KKTRIIPRHIQLAIRN 89 (132)
Q Consensus 74 ~~k~Itp~~i~~AI~~ 89 (132)
++++|+++||.+|+..
T Consensus 78 ~RKTV~~~DV~~Alkr 93 (103)
T PLN00035 78 RRKTVTAMDVVYALKR 93 (103)
T ss_pred CCCcCcHHHHHHHHHH
Confidence 9999999999999853
No 15
>COG5247 BUR6 Class 2 transcription repressor NC2, alpha subunit (DRAP1 homolog) [Transcription]
Probab=99.49 E-value=6.9e-14 Score=96.94 Aligned_cols=80 Identities=24% Similarity=0.460 Sum_probs=76.0
Q ss_pred ccccccchhHHHHHHhhCCcccccccChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhhhhhhcCcHHHHhhhcC
Q psy3662 20 RAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVLEYLVAEVLELAGNAARDNKKTRIIPRHIQLAIRNDEELNKLLNG 99 (132)
Q Consensus 20 ragl~fPv~ri~rllk~~~~~~RVs~~A~vyLaavLEyl~~eIlelA~~~A~~~~~k~Itp~~i~~AI~~D~EL~~L~~~ 99 (132)
+-...||++|++++|+-+.....|+..+||.....||+|+.+|+.+++..|+..+.+|||.++|..|+.+|+.+++|-..
T Consensus 19 ~~ktrFP~ar~KkIMQ~deDiGKV~q~tPVIaskalE~Fl~~iv~~s~k~aR~~~skR~t~e~lk~a~~sdekFdFL~~~ 98 (113)
T COG5247 19 KKKTRFPIARLKKIMQLDEDIGKVGQSTPVIASKALEMFLTEIVGLSLKEARKKSSKRMTSEFLKRATESDEKFDFLKNM 98 (113)
T ss_pred hhhhcCCHHHHHHHHHhhhhhhhhhhcchHHHHHHHHHHHHHHHHHHHHHHHhccchhhHHHHHHHHHhhhHHHHHHHHH
Confidence 55668999999999999989999999999999999999999999999999999999999999999999999999998743
No 16
>PTZ00015 histone H4; Provisional
Probab=99.33 E-value=3e-12 Score=89.40 Aligned_cols=75 Identities=19% Similarity=0.311 Sum_probs=65.3
Q ss_pred CCccCCcccccccccchhHHHHHHhhCCcccccccChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhhhhhhc
Q psy3662 11 KTKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVLEYLVAEVLELAGNAARDNKKTRIIPRHIQLAIR 88 (132)
Q Consensus 11 ~~~~~s~s~ragl~fPv~ri~rllk~~~~~~RVs~~A~vyLaavLEyl~~eIlelA~~~A~~~~~k~Itp~~i~~AI~ 88 (132)
+++++.+.+-.|+ |.+.|.||++++ .+.|||.++...+..+||.++.+|+..|..+|.|+++++|+++||.+|+.
T Consensus 19 r~rk~~r~~i~gI--~k~~IrRLarr~-GvkRIS~d~y~e~r~vle~~l~~I~rdav~~aeHA~RKTVt~~DV~~AlK 93 (102)
T PTZ00015 19 RQKKVLRDNIRGI--TKGAIRRLARRG-GVKRISGDIYEEVRGVLKAFLENVVRDSTAYTEYARRKTVTAMDVVYALK 93 (102)
T ss_pred hHHHHHhhcccCC--CHHHHHHHHHHc-CCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHH
Confidence 4444555555664 556799999997 79999999999999999999999999999999999999999999999974
No 17
>KOG1659|consensus
Probab=99.23 E-value=1.8e-11 Score=94.69 Aligned_cols=79 Identities=19% Similarity=0.395 Sum_probs=74.7
Q ss_pred ccccccchhHHHHHHhhCCcccccccChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhhhhhhcCcHHHHhhhc
Q psy3662 20 RAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVLEYLVAEVLELAGNAARDNKKTRIIPRHIQLAIRNDEELNKLLN 98 (132)
Q Consensus 20 ragl~fPv~ri~rllk~~~~~~RVs~~A~vyLaavLEyl~~eIlelA~~~A~~~~~k~Itp~~i~~AI~~D~EL~~L~~ 98 (132)
+-.-.||++||+++|+.+....+|...+||.+...||.|+.+|+..++..++..+.++++++||..||.+|+.|++|-.
T Consensus 9 ~~~trfp~aRiKKIMQ~dEdIGKvaqavPViisralElFl~~l~~~t~~~t~~~~aKt~s~~hlkq~v~~~~~FdFLk~ 87 (224)
T KOG1659|consen 9 KYKTRFPPARIKKIMQSDEDIGKVAQAVPVIISRALELFLESLLQKTLEITRSRGAKTVSSSHLKQAVESDPKFDFLKE 87 (224)
T ss_pred hhhccCCHHHHHHHHhhhhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHhcCccccCHHHHHHHHhccchhHHHHH
Confidence 3345799999999999999999999999999999999999999999999999999999999999999999999999873
No 18
>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=99.19 E-value=8.7e-11 Score=75.15 Aligned_cols=64 Identities=20% Similarity=0.312 Sum_probs=57.8
Q ss_pred ccchhHHHHHHhhCCcccccccChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhhhhhh
Q psy3662 24 QFPVGRIHRLLRKGNYAERVGAGAPVYLAAVLEYLVAEVLELAGNAARDNKKTRIIPRHIQLAI 87 (132)
Q Consensus 24 ~fPv~ri~rllk~~~~~~RVs~~A~vyLaavLEyl~~eIlelA~~~A~~~~~k~Itp~~i~~AI 87 (132)
.||+++|+|+||......+|+.+|...++...|.|+.+|...|...|...++++|+++||..|+
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 SLPLARVKRIMKSDPDVMRVSKEAVEAIAKAAEEFIQYLAKEANEIAQRDKRKTITYEDVAKAV 65 (65)
T ss_dssp SS-HHHHHHHHHHTSTTSEE-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSSEE-HHHHHHHH
T ss_pred CCChHHHHHHhccCCCccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCccCHHHHHHHC
Confidence 5999999999999866779999999999999999999999999999999999999999999875
No 19
>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=99.16 E-value=6e-11 Score=80.41 Aligned_cols=76 Identities=20% Similarity=0.307 Sum_probs=66.6
Q ss_pred CCccCCcccccccccchhHHHHHHhhCCcccccccChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhhhhhhcC
Q psy3662 11 KTKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVLEYLVAEVLELAGNAARDNKKTRIIPRHIQLAIRN 89 (132)
Q Consensus 11 ~~~~~s~s~ragl~fPv~ri~rllk~~~~~~RVs~~A~vyLaavLEyl~~eIlelA~~~A~~~~~k~Itp~~i~~AI~~ 89 (132)
+++++-+.+-+| +|.+.|.|+.+++ .+.|||.++...+..+||.++.+|+..|..+|.|.++++|+++||.+|+..
T Consensus 2 r~r~~~~~~~~g--i~k~~I~RLarr~-GvkRIS~d~y~e~~~~l~~~l~~I~~dav~ya~Ha~RKTVt~~DV~~alkr 77 (85)
T cd00076 2 RHRKVLRDNIKG--ITKPAIRRLARRG-GVKRISGGVYDEVRNVLKSYLEDVIRDAVTYTEHAKRKTVTAMDVVYALKR 77 (85)
T ss_pred chhHHHHHhhcc--CCHHHHHHHHHHc-CcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHHH
Confidence 344555666677 5666799999997 699999999999999999999999999999999999999999999998854
No 20
>COG2036 HHT1 Histones H3 and H4 [Chromatin structure and dynamics]
Probab=99.12 E-value=1e-10 Score=80.19 Aligned_cols=67 Identities=33% Similarity=0.420 Sum_probs=62.6
Q ss_pred cccccchhHHHHHHhhCCcccccccChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhhhhhhc
Q psy3662 21 AGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVLEYLVAEVLELAGNAARDNKKTRIIPRHIQLAIR 88 (132)
Q Consensus 21 agl~fPv~ri~rllk~~~~~~RVs~~A~vyLaavLEyl~~eIlelA~~~A~~~~~k~Itp~~i~~AI~ 88 (132)
..+-||+..|.|++++. ..+|||.+|...|..++|-++.+|.+.|...|.|.++++|+++||++|+.
T Consensus 16 ~~~~Lp~apv~Ri~r~~-~~~Rvs~~A~~~l~~~~e~~~~~i~~~A~~~A~ha~RKTV~~~DI~la~~ 82 (91)
T COG2036 16 TDLLLPKAPVRRILRKA-GAERVSSSAIEELQEALEEYLEEIAEDAVELAEHAKRKTVKAEDIKLALK 82 (91)
T ss_pred hhhhcCchHHHHHHHHH-hHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeecHHHHHHHHH
Confidence 45678999999999996 67799999999999999999999999999999999999999999999974
No 21
>smart00417 H4 Histone H4.
Probab=99.12 E-value=8.9e-11 Score=77.67 Aligned_cols=72 Identities=19% Similarity=0.221 Sum_probs=63.0
Q ss_pred CccCCcccccccccchhHHHHHHhhCCcccccccChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhhhhh
Q psy3662 12 TKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVLEYLVAEVLELAGNAARDNKKTRIIPRHIQLA 86 (132)
Q Consensus 12 ~~~~s~s~ragl~fPv~ri~rllk~~~~~~RVs~~A~vyLaavLEyl~~eIlelA~~~A~~~~~k~Itp~~i~~A 86 (132)
++++-+.+-.|+ |...|.|+++++ ++.|||.++...+..+||.++.+|+..|..+|.|.++++|+.+||..|
T Consensus 3 ~~~~~~d~i~gI--~k~~IrRLaRr~-GvkRIS~~~y~elr~vle~~l~~I~rdav~~a~ha~RKTV~~~DV~~a 74 (74)
T smart00417 3 HKKVLRDNIQGI--TKPAIRRLARRG-GVKRISGLIYDETRNVLKSFLENVVRDAVTYTEHARRKTVTAMDVVYA 74 (74)
T ss_pred hhHHHHhhhcCC--CHHHHHHHHHHc-CcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHheeC
Confidence 445556666675 555699999997 799999999999999999999999999999999999999999999754
No 22
>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=99.12 E-value=2.6e-10 Score=73.61 Aligned_cols=64 Identities=23% Similarity=0.271 Sum_probs=60.6
Q ss_pred ccchhHHHHHHhhCCcccccccChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhhhhhhc
Q psy3662 24 QFPVGRIHRLLRKGNYAERVGAGAPVYLAAVLEYLVAEVLELAGNAARDNKKTRIIPRHIQLAIR 88 (132)
Q Consensus 24 ~fPv~ri~rllk~~~~~~RVs~~A~vyLaavLEyl~~eIlelA~~~A~~~~~k~Itp~~i~~AI~ 88 (132)
.+|.+.|+|+.+.. +..|||.++...|+..+||.+.+|+..|.++++|++|+++|++||..|+.
T Consensus 2 ~~p~~~i~ria~~~-Gi~ris~~a~~~l~~~~e~rl~~i~~~A~k~~~hakRktlt~~DI~~Alk 65 (65)
T smart00803 2 WLPKETIKDVAESL-GIGNLSDEAAKLLAEDVEYRIKEIVQEALKFMRHSKRTTLTTSDIDSALR 65 (65)
T ss_pred CCCHHHHHHHHHHC-CCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCeecHHHHHHHhC
Confidence 48999999999996 68899999999999999999999999999999999999999999999863
No 23
>COG5208 HAP5 CCAAT-binding factor, subunit C [Transcription]
Probab=98.48 E-value=2.9e-07 Score=72.11 Aligned_cols=75 Identities=24% Similarity=0.410 Sum_probs=71.8
Q ss_pred cccchhHHHHHHhhCCcccccccChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhhhhhhcCcHHHHhhh
Q psy3662 23 LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVLEYLVAEVLELAGNAARDNKKTRIIPRHIQLAIRNDEELNKLL 97 (132)
Q Consensus 23 l~fPv~ri~rllk~~~~~~RVs~~A~vyLaavLEyl~~eIlelA~~~A~~~~~k~Itp~~i~~AI~~D~EL~~L~ 97 (132)
+.+|++||+++|+.+....-|++.||+.++.+.|-|++|+.-.|+-.|..+++.++.-.||..|+...+-+++|+
T Consensus 108 h~LPlARIkkvMKtdedVkMisaEaPvlFak~~EiFI~ELTmRAW~~ae~NkRRtLQksDia~Av~kSeMfDFLi 182 (286)
T COG5208 108 HNLPLARIKKVMKTDEDVKMISAEAPVLFAKITEIFIEELTMRAWINAEENKRRTLQKSDIAAAVKKSEMFDFLI 182 (286)
T ss_pred ccCcHHHHHHHHhcccchhheecccchHHHHHHHHHHHHHHHHHHHHHhHhhhhHHHHHHHHHHHHHHHHHhHHh
Confidence 459999999999998888899999999999999999999999999999999999999999999999999999998
No 24
>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=98.38 E-value=1.3e-06 Score=57.14 Aligned_cols=66 Identities=18% Similarity=0.301 Sum_probs=59.3
Q ss_pred cchhHHHHHHhhCCcccccccChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhhhhhhcCc
Q psy3662 25 FPVGRIHRLLRKGNYAERVGAGAPVYLAAVLEYLVAEVLELAGNAARDNKKTRIIPRHIQLAIRND 90 (132)
Q Consensus 25 fPv~ri~rllk~~~~~~RVs~~A~vyLaavLEyl~~eIlelA~~~A~~~~~k~Itp~~i~~AI~~D 90 (132)
++-..+..++++.....|++.+|...|..++|-|+.+|++.|...|+|.++++|.++||++++..+
T Consensus 2 ~~k~~l~~lv~~id~~~~~~~da~~~l~~~~e~fv~~v~~~a~~lAkHr~~~tv~~~Di~l~l~r~ 67 (72)
T cd07981 2 LTKRKLQELLKEIDPREQLDPDVEELLLEIADDFVDDVVEDACRLAKHRKSDTLEVKDVQLHLERN 67 (72)
T ss_pred CcHHHHHHHHHhhCCCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHh
Confidence 345678888888655679999999999999999999999999999999999999999999998654
No 25
>KOG1657|consensus
Probab=98.32 E-value=4.6e-07 Score=71.73 Aligned_cols=78 Identities=21% Similarity=0.336 Sum_probs=74.0
Q ss_pred cccccchhHHHHHHhhCCcccccccChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhhhhhhcCcHHHHhhhc
Q psy3662 21 AGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVLEYLVAEVLELAGNAARDNKKTRIIPRHIQLAIRNDEELNKLLN 98 (132)
Q Consensus 21 agl~fPv~ri~rllk~~~~~~RVs~~A~vyLaavLEyl~~eIlelA~~~A~~~~~k~Itp~~i~~AI~~D~EL~~L~~ 98 (132)
....||++||+++||.+.....|+.+|+|.++.++|+++.|+-..++..+..++++++.-.||..++.+..-+++|+.
T Consensus 71 ~~~~lPlaRiKkimK~dedv~mI~~Eapvl~aka~E~Fi~elt~~sw~~Tee~~rrtl~~sdia~av~~s~~fdFL~D 148 (236)
T KOG1657|consen 71 KNHILPLARIKKIMKSDEDVSMITAEAPVLFAKACELFITELTLRSWVHTEENKRRTLQKSDIAAAVTQSETFDFLRD 148 (236)
T ss_pred hhccCcHhhccccccccccccccchhHHHHHHHHHHHHHHHHHHHhhhhhcccccccchHHHHHHHhccCCCccceec
Confidence 356899999999999988889999999999999999999999999999999999999999999999999999999984
No 26
>KOG3467|consensus
Probab=98.31 E-value=1.4e-06 Score=59.21 Aligned_cols=85 Identities=28% Similarity=0.436 Sum_probs=73.0
Q ss_pred CCCCCCCCC-------CCCccCCcccccccccchhHHHHHHhhCCcccccccChHHHHHHHHHHHHHHHHHHHHHHHHhc
Q psy3662 1 MSGRGKGGK-------AKTKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVLEYLVAEVLELAGNAARDN 73 (132)
Q Consensus 1 m~~k~~~~~-------~~~~~~s~s~ragl~fPv~ri~rllk~~~~~~RVs~~A~vyLaavLEyl~~eIlelA~~~A~~~ 73 (132)
|+++++++| ++++++-+.+-+|++-|. |+|+.+.+ ...||+...-.....++.-++.+++-.|..++.|.
T Consensus 1 Ms~r~~g~KG~~KG~AKrHRK~LsDnIqgitKpa--IRRlARr~-GVkRi~G~~yeE~~~~~k~fl~n~i~~A~~yt~HA 77 (103)
T KOG3467|consen 1 MSGRGKGGKGLGKGGAKRHRKVLRDNIQGITKPA--IRRLARRG-GVKRISGLIYEETRGVLKVFLENVIRDAVTYTEHA 77 (103)
T ss_pred CCCcCccccccccchHHHHHHHHHhhccccchHH--HHHHHHhc-CcchhchhhHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 776655433 356667778888999998 99999996 68999999999999999999999999999999999
Q ss_pred CCceechhhhhhhhc
Q psy3662 74 KKTRIIPRHIQLAIR 88 (132)
Q Consensus 74 ~~k~Itp~~i~~AI~ 88 (132)
++++||..|+-.++.
T Consensus 78 KRKTvT~~dvv~~LK 92 (103)
T KOG3467|consen 78 KRKTVTAMDVVYALK 92 (103)
T ss_pred hhceeeHHHHHHHHH
Confidence 999999999987763
No 27
>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=98.26 E-value=2.6e-06 Score=60.78 Aligned_cols=63 Identities=17% Similarity=0.087 Sum_probs=57.9
Q ss_pred hHHHHHHhhCCcccccccChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhhhhhhcCcH
Q psy3662 28 GRIHRLLRKGNYAERVGAGAPVYLAAVLEYLVAEVLELAGNAARDNKKTRIIPRHIQLAIRNDE 91 (132)
Q Consensus 28 ~ri~rllk~~~~~~RVs~~A~vyLaavLEyl~~eIlelA~~~A~~~~~k~Itp~~i~~AI~~D~ 91 (132)
--|+++|++. +..+++..++..|...++-++.+|+..|..+|+|.++++|+.+||++||..--
T Consensus 5 ~~v~~iLk~~-Gv~~~~~~v~~~Lle~~~ry~~~il~dA~~~a~hA~r~tV~~eDV~lAi~~r~ 67 (117)
T cd07979 5 RVIAAILKSM-GITEYEPRVINQLLEFAYRYTTDVLDDAKVYSEHAGKANIDADDVKLAIQSRV 67 (117)
T ss_pred HHHHHHHHHC-CCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHh
Confidence 3589999995 68899999999999999999999999999999999999999999999996543
No 28
>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=97.86 E-value=7e-05 Score=48.51 Aligned_cols=64 Identities=22% Similarity=0.272 Sum_probs=50.3
Q ss_pred ccchhHHHHHHhhCCcccccccChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhhhhhhc
Q psy3662 24 QFPVGRIHRLLRKGNYAERVGAGAPVYLAAVLEYLVAEVLELAGNAARDNKKTRIIPRHIQLAIR 88 (132)
Q Consensus 24 ~fPv~ri~rllk~~~~~~RVs~~A~vyLaavLEyl~~eIlelA~~~A~~~~~k~Itp~~i~~AI~ 88 (132)
.||..-|+.+-..- +..-++.+++-.|+.=+||-+.||+..|.+..+|.+|+++|++||+.|++
T Consensus 3 ~~~~esvk~iAes~-Gi~~l~de~a~~La~dveyrlreiiq~a~kfm~hskR~~Lt~~Di~~ALr 66 (66)
T PF02969_consen 3 VFSQESVKDIAESL-GISNLSDEAAKALAEDVEYRLREIIQEALKFMRHSKRTKLTTDDINSALR 66 (66)
T ss_dssp ---HHHHHHHHHHT-T---B-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSB-HHHHHHHH-
T ss_pred cCCHHHHHHHHHHc-CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHHhC
Confidence 57888888888774 56689999999999999999999999999999999999999999999874
No 29
>smart00428 H3 Histone H3.
Probab=97.82 E-value=4.5e-05 Score=53.63 Aligned_cols=67 Identities=25% Similarity=0.308 Sum_probs=58.9
Q ss_pred cccccchhHHHHHHhhC--Cc----ccccccChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhhhhhh
Q psy3662 21 AGLQFPVGRIHRLLRKG--NY----AERVGAGAPVYLAAVLEYLVAEVLELAGNAARDNKKTRIIPRHIQLAI 87 (132)
Q Consensus 21 agl~fPv~ri~rllk~~--~~----~~RVs~~A~vyLaavLEyl~~eIlelA~~~A~~~~~k~Itp~~i~~AI 87 (132)
.+|.+|-..+.|++++- .+ ..|++++|...|..+.|.++.++++.|...|.|.++.+|+|+|+++|.
T Consensus 26 t~lLI~k~pF~RLVREI~~~~~~~~~~R~~~~Al~aLQeasE~ylv~lfeda~~~a~HAkRvTl~~kDi~La~ 98 (105)
T smart00428 26 TDLLIRKAPFQRLVREIAQKFTTGVDLRFQSSAIMALQEAAEAYLVGLFEDTNLLAIHAKRVTIMPKDIQLAR 98 (105)
T ss_pred cccccccccHHHHHHHHHHHcCCCCCceeeHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCccCcHhhHHHHH
Confidence 46888888888888751 11 349999999999999999999999999999999999999999999885
No 30
>smart00576 BTP Bromodomain transcription factors and PHD domain containing proteins. subdomain of archael histone-like transcription factors
Probab=97.81 E-value=6.9e-05 Score=49.44 Aligned_cols=59 Identities=19% Similarity=0.156 Sum_probs=54.0
Q ss_pred HHHHHhhCCcccccccChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhhhhhhcC
Q psy3662 30 IHRLLRKGNYAERVGAGAPVYLAAVLEYLVAEVLELAGNAARDNKKTRIIPRHIQLAIRN 89 (132)
Q Consensus 30 i~rllk~~~~~~RVs~~A~vyLaavLEyl~~eIlelA~~~A~~~~~k~Itp~~i~~AI~~ 89 (132)
|.++++.. ++.+++.+|...|+.++|-++.+|.+.+-++|.+.+|+..++.||..|+.+
T Consensus 12 Vaqil~~~-Gf~~~~~sale~ltdi~~~yl~~l~~~~~~~a~~agR~~~~~~Dv~~Al~~ 70 (77)
T smart00576 12 VAQILESA-GFDSFQESALETLTDILQSYIQELGRTAHSYAELAGRTEPNLGDVVLALEN 70 (77)
T ss_pred HHHHHHHc-CccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH
Confidence 56777775 689999999999999999999999999999999999999999999999743
No 31
>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=97.74 E-value=7.3e-05 Score=61.90 Aligned_cols=60 Identities=18% Similarity=0.281 Sum_probs=53.9
Q ss_pred hHHHHHHhhCCcccccccChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhhhhhhc
Q psy3662 28 GRIHRLLRKGNYAERVGAGAPVYLAAVLEYLVAEVLELAGNAARDNKKTRIIPRHIQLAIR 88 (132)
Q Consensus 28 ~ri~rllk~~~~~~RVs~~A~vyLaavLEyl~~eIlelA~~~A~~~~~k~Itp~~i~~AI~ 88 (132)
+-|+-+++.. +..|++.+|...|+..+||.+.+|++.|.+.+++.+|++++++||+.|++
T Consensus 3 ~~i~~ia~~~-Gi~~~~~~a~~~La~~~e~~~~~i~~~A~k~~~hskR~~l~~~Di~~Al~ 62 (343)
T cd08050 3 ESIKLIAESL-GIDSLSDEVAQLLAEDVEYRLREIIQEAAKFMRHSKRRKLTTSDVNHALR 62 (343)
T ss_pred hHHHHHHHHc-CCCcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCHHHHHHHHH
Confidence 4456666664 68899999999999999999999999999999999999999999999964
No 32
>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=97.43 E-value=0.00061 Score=46.11 Aligned_cols=63 Identities=25% Similarity=0.428 Sum_probs=55.2
Q ss_pred cchhHHHHHHhhCCcccccccChHHHHHHHHHHHHHHHHHHHHHHHHhcCC---ceechhhhhhhhc
Q psy3662 25 FPVGRIHRLLRKGNYAERVGAGAPVYLAAVLEYLVAEVLELAGNAARDNKK---TRIIPRHIQLAIR 88 (132)
Q Consensus 25 fPv~ri~rllk~~~~~~RVs~~A~vyLaavLEyl~~eIlelA~~~A~~~~~---k~Itp~~i~~AI~ 88 (132)
||-..++|++... ..+.|+.+..+.|+++-.-++.||+|.|...-...+. ..|.|+||+.|..
T Consensus 17 f~k~~iKr~~~~~-~~~~v~~~v~i~v~glaKvFVGeivE~A~~V~~~~~~~~~~Pl~P~HireA~r 82 (85)
T cd08048 17 FPKAAIKRLIQSV-TGQSVSQNVVIAVAGIAKVFVGEIVEEARDVQEEWGEANTGPLQPRHLREAYR 82 (85)
T ss_pred ccHHHHHHHHHHH-cCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCCCCCcHHHHHHHH
Confidence 7777899999885 5689999999999999999999999999988666544 7899999998864
No 33
>PF15511 CENP-T: Centromere kinetochore component CENP-T; PDB: 3B0D_T 3B0C_T 3VH5_T 3VH6_T.
Probab=97.08 E-value=0.001 Score=56.51 Aligned_cols=72 Identities=13% Similarity=0.129 Sum_probs=46.4
Q ss_pred CCccCCcccccccccchhHHHHHHhhC----Ccc-cccccChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhh
Q psy3662 11 KTKSKTRSSRAGLQFPVGRIHRLLRKG----NYA-ERVGAGAPVYLAAVLEYLVAEVLELAGNAARDNKKTRIIPRH 82 (132)
Q Consensus 11 ~~~~~s~s~ragl~fPv~ri~rllk~~----~~~-~RVs~~A~vyLaavLEyl~~eIlelA~~~A~~~~~k~Itp~~ 82 (132)
+.+++|+-......+|.+.|++++... .++ .+|+.+|.-.|..++|||...+.+--.-||.|+|||+|.+.|
T Consensus 338 k~~k~Skhgi~~P~lP~~~vK~la~~~ak~s~~sK~kiskdal~aleqasdwfFeQl~dDL~aYA~HAgRKTIdesD 414 (414)
T PF15511_consen 338 KQKKVSKHGIPYPSLPPGVVKKLAQHFAKSSGGSKMKISKDALEALEQASDWFFEQLGDDLEAYAKHAGRKTIDESD 414 (414)
T ss_dssp --------------S-HHHHHHHHHHHH-------S-B-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHH
T ss_pred cccCCCCCCCCCCCCCccHHHHHHHHHHHhhcccCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCCCCC
Confidence 455677766667889999999998752 333 499999999999999999999999999999999999999876
No 34
>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=97.08 E-value=0.0012 Score=45.22 Aligned_cols=64 Identities=20% Similarity=0.359 Sum_probs=47.0
Q ss_pred ccchhHHHHHHhhCCcc-cccccChHHHHHHHHHHHHHHHHHHHHHHHHhc-CCceechhhhhhhhc
Q psy3662 24 QFPVGRIHRLLRKGNYA-ERVGAGAPVYLAAVLEYLVAEVLELAGNAARDN-KKTRIIPRHIQLAIR 88 (132)
Q Consensus 24 ~fPv~ri~rllk~~~~~-~RVs~~A~vyLaavLEyl~~eIlelA~~~A~~~-~~k~Itp~~i~~AI~ 88 (132)
.||-+.|++++... .. +-|+....+.++++-..|+.||+|.|....... ....|+|.||+.|..
T Consensus 23 ~~~k~~ikkli~~~-~~~qsv~~~v~i~v~g~aKvFVGEiVE~A~~Vq~~~~~~~pl~P~hlreA~r 88 (90)
T PF04719_consen 23 SFNKAAIKKLINQV-LGNQSVSQNVVIAVAGIAKVFVGEIVEEARDVQEEWGETGPLQPDHLREAYR 88 (90)
T ss_dssp ---HHHHHHHHHHH-HS-S---HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT--SS--HHHHHHHHH
T ss_pred cCCHHHHHHHHHHH-cCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCcHHHHHHHH
Confidence 48888899999985 44 799999999999999999999999999886554 344799999998863
No 35
>PTZ00463 histone H2B; Provisional
Probab=97.01 E-value=0.0045 Score=44.21 Aligned_cols=60 Identities=17% Similarity=0.217 Sum_probs=52.5
Q ss_pred HHHHHHhhCCcccccccChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhhhhhhc
Q psy3662 29 RIHRLLRKGNYAERVGAGAPVYLAAVLEYLVAEVLELAGNAARDNKKTRIIPRHIQLAIR 88 (132)
Q Consensus 29 ri~rllk~~~~~~RVs~~A~vyLaavLEyl~~eIlelA~~~A~~~~~k~Itp~~i~~AI~ 88 (132)
.|++.|++-.-..-||..|.-.|...+.-+.+.|...|...|+.+++.+|++++|+.|++
T Consensus 33 YI~KVLKqVhPd~gIS~kaM~ImnSfvnDifErIA~EAs~La~~nkr~TltsrEIQtAvr 92 (117)
T PTZ00463 33 YIFKVLKQVHPDTGISRKSMNIMNSFLVDTFEKIATEASRLCKYTRRDTLSSREIQTAIR 92 (117)
T ss_pred HHHHHHHhhCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCCHHHHHHHHh
Confidence 589999885444578899998999999999999999999999999999999999999984
No 36
>KOG0869|consensus
Probab=96.97 E-value=0.0024 Score=47.86 Aligned_cols=66 Identities=15% Similarity=0.238 Sum_probs=58.2
Q ss_pred cccchhHHHHHHhhCCcc-cccccChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhhhhhhc
Q psy3662 23 LQFPVGRIHRLLRKGNYA-ERVGAGAPVYLAAVLEYLVAEVLELAGNAARDNKKTRIIPRHIQLAIR 88 (132)
Q Consensus 23 l~fPv~ri~rllk~~~~~-~RVs~~A~vyLaavLEyl~~eIlelA~~~A~~~~~k~Itp~~i~~AI~ 88 (132)
--+|++-|-||||+.--. -+|+.+|..-+--++-.|++-|.-.|...+...+||+|+.+||-+|+.
T Consensus 31 r~LPIANV~RIMK~~lP~naKIsKDAKE~vQECVSEfISFvT~EAsekC~~EkRKTIngdDllwAm~ 97 (168)
T KOG0869|consen 31 RFLPIANVSRIMKKALPANAKISKDAKETVQECVSEFISFVTGEASEKCQREKRKTINGDDLLWAMS 97 (168)
T ss_pred hhccHHHHHHHHHhcCCcccccchHHHHHHHHHHHHHHHHHhhHHHHHHHHHhcCcccHHHHHHHHH
Confidence 458999999999996333 399999999999999889999998898889999999999999999874
No 37
>KOG3219|consensus
Probab=96.95 E-value=0.00096 Score=51.45 Aligned_cols=64 Identities=23% Similarity=0.372 Sum_probs=55.0
Q ss_pred cccchhHHHHHHhhCCcccccccChHHHHHHHHHHHHHHHHHHHHHHHHhcC-Cceechhhhhhhh
Q psy3662 23 LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVLEYLVAEVLELAGNAARDNK-KTRIIPRHIQLAI 87 (132)
Q Consensus 23 l~fPv~ri~rllk~~~~~~RVs~~A~vyLaavLEyl~~eIlelA~~~A~~~~-~k~Itp~~i~~AI 87 (132)
.-||-+.|++||..-. .+-|+..+.++++++-.-|+.||+|+|.......+ ...+.|.||+.|.
T Consensus 111 s~f~Ka~iKkL~~~it-g~~v~~nv~Ia~~GiaKvFVGEvVEeAl~V~~~~~e~~PLqP~HIREA~ 175 (195)
T KOG3219|consen 111 SAFPKAQIKKLMSSIT-GQSVSENVAIAMAGIAKVFVGEVVEEALDVREEWGESGPLQPKHIREAY 175 (195)
T ss_pred hcCCHHHHHHHHHHHh-CCccCcceeeeecchhhHhHHHHHHHHHHHHHHhccCCCCCcHHHHHHH
Confidence 4699999999999853 34499999999999999999999999988865544 4569999999987
No 38
>smart00427 H2B Histone H2B.
Probab=96.84 E-value=0.0043 Score=42.42 Aligned_cols=60 Identities=23% Similarity=0.303 Sum_probs=52.6
Q ss_pred HHHHHHhhCCcccccccChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhhhhhhc
Q psy3662 29 RIHRLLRKGNYAERVGAGAPVYLAAVLEYLVAEVLELAGNAARDNKKTRIIPRHIQLAIR 88 (132)
Q Consensus 29 ri~rllk~~~~~~RVs~~A~vyLaavLEyl~~eIlelA~~~A~~~~~k~Itp~~i~~AI~ 88 (132)
.|+|.|++-.-..-|+..|.-.|...+..+...|...|...++.+++.+|++++|+.|++
T Consensus 6 Yi~kvLKqVhpd~giS~kam~imnSfvnDiferIa~EAs~L~~~nkr~TltsreIqtAvr 65 (89)
T smart00427 6 YIYKVLKQVHPDTGISSKAMSIMNSFVNDIFERIAAEASKLARYNKKSTLSSREIQTAVR 65 (89)
T ss_pred HHHHHHHHhCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCcCCHHHHHHHHH
Confidence 588999885434478999999999999999999999999999999999999999999983
No 39
>PF15630 CENP-S: Kinetochore component CENP-S; PDB: 4DRA_C 4DRB_H 3V9R_C.
Probab=96.78 E-value=0.0063 Score=40.37 Aligned_cols=49 Identities=22% Similarity=0.357 Sum_probs=37.0
Q ss_pred cChHHHHHHHHHHHHHHHHHHHHH---HHHhcCCceechhhhhhhhcCcHHH
Q psy3662 45 AGAPVYLAAVLEYLVAEVLELAGN---AARDNKKTRIIPRHIQLAIRNDEEL 93 (132)
Q Consensus 45 ~~A~vyLaavLEyl~~eIlelA~~---~A~~~~~k~Itp~~i~~AI~~D~EL 93 (132)
.-++.|++++.|-.-..+-.+|.. .|+|.||++|+++|+.+..+.++.|
T Consensus 25 ~~s~~~i~al~ELv~~q~~~~a~DLe~FAkHA~R~tI~~dDV~Ll~Rrn~~L 76 (76)
T PF15630_consen 25 EVSPQFIAALTELVYKQLENLAKDLEAFAKHAGRSTINMDDVKLLARRNPSL 76 (76)
T ss_dssp EE-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHHHHHHTTT-HHH
T ss_pred ccCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCeecHHHHHHHhhcCCCC
Confidence 356788888888887777777643 4999999999999999999999876
No 40
>PLN00158 histone H2B; Provisional
Probab=96.75 E-value=0.0052 Score=43.86 Aligned_cols=61 Identities=25% Similarity=0.317 Sum_probs=53.3
Q ss_pred hHHHHHHhhCCcccccccChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhhhhhhc
Q psy3662 28 GRIHRLLRKGNYAERVGAGAPVYLAAVLEYLVAEVLELAGNAARDNKKTRIIPRHIQLAIR 88 (132)
Q Consensus 28 ~ri~rllk~~~~~~RVs~~A~vyLaavLEyl~~eIlelA~~~A~~~~~k~Itp~~i~~AI~ 88 (132)
..|++.|++-.-..-|+..|.-.|...+..+.+.|...|...++.+++.+|++++|+.|++
T Consensus 31 ~YI~kVLKQVhPd~gIS~kaM~ImnSfvnDiferIA~EAs~La~~nkr~TltsrEIqtAvr 91 (116)
T PLN00158 31 IYIYKVLKQVHPDTGISSKAMSIMNSFINDIFEKIATEAGKLARYNKKPTVTSREIQTAVR 91 (116)
T ss_pred HHHHHHHHHhCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCcCCHHHHHHHHH
Confidence 3689999985444478899999999999999999999999999999999999999999874
No 41
>PLN00160 histone H3; Provisional
Probab=96.32 E-value=0.0082 Score=41.65 Aligned_cols=67 Identities=25% Similarity=0.229 Sum_probs=58.4
Q ss_pred cccccchhHHHHHHhhCC-----cccccccChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhhhhhh
Q psy3662 21 AGLQFPVGRIHRLLRKGN-----YAERVGAGAPVYLAAVLEYLVAEVLELAGNAARDNKKTRIIPRHIQLAI 87 (132)
Q Consensus 21 agl~fPv~ri~rllk~~~-----~~~RVs~~A~vyLaavLEyl~~eIlelA~~~A~~~~~k~Itp~~i~~AI 87 (132)
.+|.+|-..+.|++++-. ...|...+|...|--+-|.++-.++|.+.-.|.|.++.+|.|.|++++.
T Consensus 18 t~lLI~k~pF~RLVREI~~~~~~~~~Rfq~~Al~ALQeAsEayLv~lfed~~lca~HakRVTl~~kD~~L~~ 89 (97)
T PLN00160 18 TDLLIRRLPFARLVREIQMEMSREAYRWQGSAILALQEAAEAHLVGLFEDSNLCAIHGKRVTIMPKDMQLAR 89 (97)
T ss_pred hhhhhccccHHHHHHHHHHHcCCCCcEeeHHHHHHHHHHHHHHHHHHHhhhHHHHHHhcccccchhhHHHHH
Confidence 468888888888887621 1358999999999999999999999999999999999999999999874
No 42
>PTZ00018 histone H3; Provisional
Probab=96.23 E-value=0.0091 Score=43.79 Aligned_cols=66 Identities=26% Similarity=0.259 Sum_probs=58.1
Q ss_pred ccccchhHHHHHHhhC----CcccccccChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhhhhhh
Q psy3662 22 GLQFPVGRIHRLLRKG----NYAERVGAGAPVYLAAVLEYLVAEVLELAGNAARDNKKTRIIPRHIQLAI 87 (132)
Q Consensus 22 gl~fPv~ri~rllk~~----~~~~RVs~~A~vyLaavLEyl~~eIlelA~~~A~~~~~k~Itp~~i~~AI 87 (132)
+|.||-..+.|++++- ....|...+|...|--+-|.++-.++|.+...|.|.++.+|.+.|++++.
T Consensus 60 ~lLI~k~pF~RLVREI~~~~~~~~rf~~~al~aLQeaaE~yLv~lfed~~lca~HakRVTl~~kD~~L~~ 129 (136)
T PTZ00018 60 ELLIRKLPFQRLVREIAQDFKTDLRFQSSAVLALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAR 129 (136)
T ss_pred hhccccccHHHHHHHHHHHcCCcceeeHHHHHHHHHHHHHHHHHHhhhhHHHHHhhcceecchhhHHHHH
Confidence 6778888899988862 12359999999999999999999999999999999999999999999874
No 43
>PF03847 TFIID_20kDa: Transcription initiation factor TFIID subunit A; InterPro: IPR003228 Human transcription initiation factor TFIID is composed of the TATA-binding polypeptide (TBP) and at least 13 TBP-associated factors (TAFs) that collectively or individually are involved in activator-dependent transcription [].; GO: 0006352 transcription initiation, DNA-dependent, 0005669 transcription factor TFIID complex; PDB: 1H3O_B.
Probab=96.20 E-value=0.018 Score=37.35 Aligned_cols=61 Identities=16% Similarity=0.329 Sum_probs=48.6
Q ss_pred HHHHHHhhCCcccccccChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhhhhhhcC
Q psy3662 29 RIHRLLRKGNYAERVGAGAPVYLAAVLEYLVAEVLELAGNAARDNKKTRIIPRHIQLAIRN 89 (132)
Q Consensus 29 ri~rllk~~~~~~RVs~~A~vyLaavLEyl~~eIlelA~~~A~~~~~k~Itp~~i~~AI~~ 89 (132)
++..++++-.-...+..++...|..+.+-|+.+|+..|...|+|-+..++.+.||+..+..
T Consensus 4 ~l~~Lv~~iDp~~~ld~~vee~Ll~laddFv~~v~~~ac~lAKhR~s~tle~~Dv~~~Ler 64 (68)
T PF03847_consen 4 KLQELVKQIDPNEKLDPDVEELLLELADDFVDDVVSFACRLAKHRKSSTLEVKDVQLHLER 64 (68)
T ss_dssp HHHHHHHCC-SS----HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHHHHHHHHH
T ss_pred HHHHHHHHcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCCHHHHHHHHHh
Confidence 5677888865567999999999999999999999999999999999999999999987754
No 44
>PLN00121 histone H3; Provisional
Probab=96.18 E-value=0.012 Score=43.16 Aligned_cols=66 Identities=26% Similarity=0.259 Sum_probs=58.0
Q ss_pred ccccchhHHHHHHhhC----CcccccccChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhhhhhh
Q psy3662 22 GLQFPVGRIHRLLRKG----NYAERVGAGAPVYLAAVLEYLVAEVLELAGNAARDNKKTRIIPRHIQLAI 87 (132)
Q Consensus 22 gl~fPv~ri~rllk~~----~~~~RVs~~A~vyLaavLEyl~~eIlelA~~~A~~~~~k~Itp~~i~~AI 87 (132)
+|.||-..+.|++++- ....|+..+|...|--+-|.++-.++|.+.-.|.|.++.+|++.|++++.
T Consensus 60 ~lLI~k~pF~RLVREI~~~~~~~~Rf~~~Al~ALQeaaE~yLv~lfed~~lca~HakRVTl~~kD~~L~~ 129 (136)
T PLN00121 60 ELLIRKLPFQRLVREIAQDFKTDLRFQSSAVLALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAR 129 (136)
T ss_pred ccccccccHHHHHHHHHHHhCccceeeHHHHHHHHHHHHHHHHHHHhhhHHHHHHhcceecchhhHHHHH
Confidence 6778888899988862 12349999999999999999999999999999999999999999999874
No 45
>PLN00161 histone H3; Provisional
Probab=96.10 E-value=0.014 Score=42.67 Aligned_cols=67 Identities=25% Similarity=0.243 Sum_probs=57.9
Q ss_pred cccccchhHHHHHHhhC--Cc---ccccccChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhhhhhh
Q psy3662 21 AGLQFPVGRIHRLLRKG--NY---AERVGAGAPVYLAAVLEYLVAEVLELAGNAARDNKKTRIIPRHIQLAI 87 (132)
Q Consensus 21 agl~fPv~ri~rllk~~--~~---~~RVs~~A~vyLaavLEyl~~eIlelA~~~A~~~~~k~Itp~~i~~AI 87 (132)
.+|.+|-..+.|++++- .+ ..|+..+|...|--+-|.++-.++|.+.-.|.|.++.+|.|.|++++.
T Consensus 52 t~lLIpklPF~RLVREI~~~~~~~~~Rfq~~Al~ALQEAsEayLV~lFeda~lcaiHAkRVTlm~kDm~La~ 123 (135)
T PLN00161 52 TELLIRKLPFARLVREISNEMLREPFRWTAEALLALQEATEDFLVHLFEDCNLCAIHAKRVTIMPKDMQLAR 123 (135)
T ss_pred cccccccccHHHHHHHHHHhcCCCCcEeeHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccchhhHHHHH
Confidence 36778888888888762 11 358999999999999999999999999999999999999999999874
No 46
>KOG0871|consensus
Probab=96.05 E-value=0.021 Score=42.40 Aligned_cols=70 Identities=17% Similarity=0.250 Sum_probs=60.2
Q ss_pred ccccccchhHHHHHHhhCCc-ccccccChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhhhhhhcC
Q psy3662 20 RAGLQFPVGRIHRLLRKGNY-AERVGAGAPVYLAAVLEYLVAEVLELAGNAARDNKKTRIIPRHIQLAIRN 89 (132)
Q Consensus 20 ragl~fPv~ri~rllk~~~~-~~RVs~~A~vyLaavLEyl~~eIlelA~~~A~~~~~k~Itp~~i~~AI~~ 89 (132)
.-.+.+|-.-|..++++.-- .-||..+|-..+-.+.=+|+--|.-.|-..|....+++|.|+|+..|+.+
T Consensus 8 dde~sLPkAtv~KmIke~lP~d~rvakeareliincCvEFI~liSsEAneic~~e~KKTIa~EHV~KALe~ 78 (156)
T KOG0871|consen 8 DDELSLPKATVNKMIKEMLPKDVRVAKEARELIINCCVEFINLISSEANEICNKEAKKTIAPEHVIKALEN 78 (156)
T ss_pred cccccCcHHHHHHHHHHhCCcccccchHHHHHHHHHHHHHHHHHHHHHHHHHhHHhcccCCHHHHHHHHHH
Confidence 45789999999999999633 34999999988888888888888888988999999999999999999854
No 47
>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=95.98 E-value=0.028 Score=40.83 Aligned_cols=61 Identities=21% Similarity=0.151 Sum_probs=43.6
Q ss_pred hHHHHHHhhCCcccccccChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhhhhhhcC
Q psy3662 28 GRIHRLLRKGNYAERVGAGAPVYLAAVLEYLVAEVLELAGNAARDNKKTRIIPRHIQLAIRN 89 (132)
Q Consensus 28 ~ri~rllk~~~~~~RVs~~A~vyLaavLEyl~~eIlelA~~~A~~~~~k~Itp~~i~~AI~~ 89 (132)
--|+-+|++. +.......++.-|.-..--.+.+||+-|-.+|.|.+++.|+..||++||..
T Consensus 16 ~~i~~iL~~~-Gv~~yeprVv~qLLEfayRYt~~vL~DA~~ya~hA~~~~i~~~DVrLAi~~ 76 (129)
T PF02291_consen 16 RVIHLILKSM-GVTEYEPRVVNQLLEFAYRYTSDVLEDAQVYADHAGRSTIDADDVRLAIQS 76 (129)
T ss_dssp HHHHHHHHHT-T---B-THHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSB-HHHHHHHHHH
T ss_pred HHHHHHHHHc-CCcccCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccCChHHHHHHHHH
Confidence 4477888886 333444445555555555678899999999999999999999999999973
No 48
>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=95.84 E-value=0.057 Score=35.39 Aligned_cols=61 Identities=21% Similarity=0.247 Sum_probs=47.9
Q ss_pred chhHHHHHHhhC--CcccccccChHHHHHHHHHHHHHHHHHHHHHHHHhcCCce-echhhhhhh
Q psy3662 26 PVGRIHRLLRKG--NYAERVGAGAPVYLAAVLEYLVAEVLELAGNAARDNKKTR-IIPRHIQLA 86 (132)
Q Consensus 26 Pv~ri~rllk~~--~~~~RVs~~A~vyLaavLEyl~~eIlelA~~~A~~~~~k~-Itp~~i~~A 86 (132)
|..=|.|+|+.. ...-||+.+|..-++..|+-|+.|-+-.|...|...+... |..+||+..
T Consensus 1 p~~li~rll~~~f~~~~tkIs~dal~l~~eyl~iFV~EAv~Ra~~~a~~e~~~~~le~e~LEki 64 (72)
T PF09415_consen 1 PPELIARLLHEHFKDDKTKISKDALKLSAEYLRIFVREAVARAAEQAEAEGDEGFLEVEHLEKI 64 (72)
T ss_dssp -CHHHHHHHCTTSSSTT-EE-CCCHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSEE-HHHHHHH
T ss_pred ChHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCHHHHHHH
Confidence 445578888852 1234999999999999999999999999999999999888 999999864
No 49
>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=95.61 E-value=0.048 Score=35.51 Aligned_cols=58 Identities=16% Similarity=0.174 Sum_probs=51.0
Q ss_pred HHHHHhhCCcccccccChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhhhhhhc
Q psy3662 30 IHRLLRKGNYAERVGAGAPVYLAAVLEYLVAEVLELAGNAARDNKKTRIIPRHIQLAIR 88 (132)
Q Consensus 30 i~rllk~~~~~~RVs~~A~vyLaavLEyl~~eIlelA~~~A~~~~~k~Itp~~i~~AI~ 88 (132)
|-.+++.. +...++.+|..-|+.+++.++.+|...+-.+|.+.+|...++.|+..|+.
T Consensus 12 va~il~~~-GF~~~~~~al~~Ltdi~~~yl~~l~~~~~~~ae~~gRt~~~~~Dv~~al~ 69 (77)
T PF07524_consen 12 VAQILKHA-GFDSASPSALDTLTDILQRYLQELGRTAKRYAEHAGRTEPNLQDVEQALE 69 (77)
T ss_pred HHHHHHHc-CccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Confidence 44556563 57789999999999999999999999999999999999999999998873
No 50
>KOG1658|consensus
Probab=95.16 E-value=0.024 Score=42.41 Aligned_cols=75 Identities=20% Similarity=0.243 Sum_probs=65.9
Q ss_pred cccchhHHHHHHhhCCcccccccChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhhhhhhcCcHHHHhhh
Q psy3662 23 LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVLEYLVAEVLELAGNAARDNKKTRIIPRHIQLAIRNDEELNKLL 97 (132)
Q Consensus 23 l~fPv~ri~rllk~~~~~~RVs~~A~vyLaavLEyl~~eIlelA~~~A~~~~~k~Itp~~i~~AI~~D~EL~~L~ 97 (132)
.++|++||+.+++......-....+...++..-|-++.++-..++..+....++++.-+++..||..-.|+.++-
T Consensus 58 ~rLpL~rik~vvkl~pdl~l~~dea~~l~a~aaelfi~~Ln~~~~~~~q~~k~kt~qr~d~D~ai~~~de~~fle 132 (162)
T KOG1658|consen 58 SRLPLARIKQVVKLDPDLTLLNDEASQLIAKAAELFIQELNDVAYTTAQLRKRKTEQRRDYDTAIEAVDEFAFLE 132 (162)
T ss_pred hhccHHHHHhhccCCcchhhhhhHHHHHHHHHHHHHHHHHHhccchhHHHHHhhhhhhhcccccccchHHHHHHh
Confidence 689999999999986544455566666788899999999999999999999999999999999999999998887
No 51
>KOG0870|consensus
Probab=95.13 E-value=0.076 Score=40.15 Aligned_cols=67 Identities=21% Similarity=0.312 Sum_probs=56.8
Q ss_pred cccccchhHHHHHHhhCCcccc---cccChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhhhhhhc
Q psy3662 21 AGLQFPVGRIHRLLRKGNYAER---VGAGAPVYLAAVLEYLVAEVLELAGNAARDNKKTRIIPRHIQLAIR 88 (132)
Q Consensus 21 agl~fPv~ri~rllk~~~~~~R---Vs~~A~vyLaavLEyl~~eIlelA~~~A~~~~~k~Itp~~i~~AI~ 88 (132)
..|-||.+-|.|++++- ..+. |+.+|-..|+..-=-|+..+.-.|.+.|+++++++|++.|+-.|+.
T Consensus 7 ~dl~lP~AiI~rlvke~-l~E~~vsisKeA~~Ai~raAtVFv~~Lts~s~e~A~~q~rKt~sadDVl~aL~ 76 (172)
T KOG0870|consen 7 EDLNLPNAIITRLVKEV-LPESNVSISKEARLAIARAATVFVIFLTSVSNEIAKDQKRKTISADDVLKALD 76 (172)
T ss_pred HHhhccHHHHHHHHHHh-CccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCcccHHHHHHHHH
Confidence 35789999999999884 5554 7788888888777778888899999999999999999999998873
No 52
>PLN00163 histone H4; Provisional
Probab=94.87 E-value=0.0097 Score=37.58 Aligned_cols=46 Identities=39% Similarity=0.616 Sum_probs=33.9
Q ss_pred CCCCCCCCC-------CCCccCCcccccccccchhHHHHHHhhCCcccccccChHH
Q psy3662 1 MSGRGKGGK-------AKTKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPV 49 (132)
Q Consensus 1 m~~k~~~~~-------~~~~~~s~s~ragl~fPv~ri~rllk~~~~~~RVs~~A~v 49 (132)
|+|++++++ ++++++.+.+-.+++-|. |.|+.+.+ ...|||...-.
T Consensus 1 m~g~gkggkglGkggaKRhrk~lrd~i~gItKpa--IrRLARRg-GVKRIs~~iY~ 53 (59)
T PLN00163 1 MSGRGKGGKGLGKGGAKRHRKVLRDNIQGITKPA--IRRLARRG-GVKRISGLIYE 53 (59)
T ss_pred CCCCCCCCCccCCccchhHHHHHHHhhcccchHH--HHHHHHhc-CceeecchhhH
Confidence 787765432 355566777778988887 99999996 68899977443
No 53
>KOG1142|consensus
Probab=94.28 E-value=0.087 Score=42.36 Aligned_cols=68 Identities=13% Similarity=0.235 Sum_probs=60.6
Q ss_pred cccchhHHHHHHhhCCcccccccChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhhhhhhcCc
Q psy3662 23 LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVLEYLVAEVLELAGNAARDNKKTRIIPRHIQLAIRND 90 (132)
Q Consensus 23 l~fPv~ri~rllk~~~~~~RVs~~A~vyLaavLEyl~~eIlelA~~~A~~~~~k~Itp~~i~~AI~~D 90 (132)
..+-.-.++.+++.-.....+..++-.+|.-+.+-|++.|+..|...|+|-+..+|..+||++.++++
T Consensus 153 ~il~k~kl~dLvqqId~~~~LD~dVedlLleiADdFV~sii~~sC~LAKHRKsdtlEvrDIqLhLEr~ 220 (258)
T KOG1142|consen 153 PILSKRKLDDLVQQIDGTTKLDDDVEDLLLEIADDFVSSIIHRSCKLAKHRKSDTVEVRDIQLHLERN 220 (258)
T ss_pred ccccccchhHHHHhhcCcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCccchhheeeeeecc
Confidence 34455678899998655678999999999999999999999999999999999999999999999877
No 54
>KOG1745|consensus
Probab=93.50 E-value=0.085 Score=38.71 Aligned_cols=66 Identities=27% Similarity=0.270 Sum_probs=53.2
Q ss_pred cccchhHHHHHHhh----CCcccccccChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhhhhhhc
Q psy3662 23 LQFPVGRIHRLLRK----GNYAERVGAGAPVYLAAVLEYLVAEVLELAGNAARDNKKTRIIPRHIQLAIR 88 (132)
Q Consensus 23 l~fPv~ri~rllk~----~~~~~RVs~~A~vyLaavLEyl~~eIlelA~~~A~~~~~k~Itp~~i~~AI~ 88 (132)
|.++-..+.|+.++ ....-|+.++|...|-...|.++-.+.|.+--.|.|.++.+|.|.||++|..
T Consensus 62 LlI~K~PFqRlvrei~q~f~~dLrfqs~Ai~ALQeA~EayLv~LfEdtnlcAihAkRVTimpkdiQlArr 131 (137)
T KOG1745|consen 62 LLIRKLPFQRLVREIAQDFKTDLRFQSSAIAALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARR 131 (137)
T ss_pred HHhhcCcHHHHhHHHHhcccccceehHHHHHHHHHHHHHHHHHhccccchhhhccceeEecccceehhhh
Confidence 44444556666652 2223489999999999999999999999998889999999999999999864
No 55
>KOG1744|consensus
Probab=93.19 E-value=0.45 Score=34.50 Aligned_cols=64 Identities=20% Similarity=0.217 Sum_probs=50.4
Q ss_pred cccccchhHHHHHHhhCCcccccccChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhhhhhh
Q psy3662 21 AGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVLEYLVAEVLELAGNAARDNKKTRIIPRHIQLAI 87 (132)
Q Consensus 21 agl~fPv~ri~rllk~~~~~~RVs~~A~vyLaavLEyl~~eIlelA~~~A~~~~~k~Itp~~i~~AI 87 (132)
-...++| .|.+++-.-.--|+..+.-.+.+.+-.+...|+..|+..|+-.++.+|+.++|+.|+
T Consensus 37 e~~s~yv---~kvlk~Vhpd~gis~~a~~vmnsf~ndife~iA~ea~rla~y~krstisSreiqta~ 100 (127)
T KOG1744|consen 37 ESYSEYV---YKVLKQVHPDLGISSKAMGVMNSFVNDIFERIASEAGRLAHYNKRSTISSREIQTAV 100 (127)
T ss_pred Cceeeeh---hhhhhcccCCCCcCHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCcccHHHHHHHH
Confidence 3466665 446665222223788888888888888899999999999999999999999999987
No 56
>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=92.95 E-value=0.12 Score=35.25 Aligned_cols=62 Identities=11% Similarity=0.105 Sum_probs=17.7
Q ss_pred HHHhhCCcccccccChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhhhhhhcCcHHH
Q psy3662 32 RLLRKGNYAERVGAGAPVYLAAVLEYLVAEVLELAGNAARDNKKTRIIPRHIQLAIRNDEEL 93 (132)
Q Consensus 32 rllk~~~~~~RVs~~A~vyLaavLEyl~~eIlelA~~~A~~~~~k~Itp~~i~~AI~~D~EL 93 (132)
.+|--.+....-..++...+-.++--.+.+++..|...|...|+++|+.+|+..++++|+.-
T Consensus 9 ~mMy~fGD~~~P~~eTv~lvE~iv~~~i~~l~~~A~~~a~~rg~~~i~~eDl~F~lR~D~~K 70 (93)
T PF02269_consen 9 QMMYGFGDVEEPLPETVDLVEDIVREYIIELCQEAMEVAQRRGSKKIKVEDLLFLLRKDPKK 70 (93)
T ss_dssp HHHHCTTS-SS--HHHHHHHHHHHHHHHHHHHHHHHC-------------------------
T ss_pred HHHHHcCCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCcCcHHHHHHHHhcCHHH
Confidence 33433333344444455555555555555666677777888888999999999999999753
No 57
>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=92.71 E-value=0.64 Score=31.73 Aligned_cols=63 Identities=11% Similarity=0.158 Sum_probs=37.4
Q ss_pred HHHHHhhCCcccccccChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhhhhhhcCcHHH
Q psy3662 30 IHRLLRKGNYAERVGAGAPVYLAAVLEYLVAEVLELAGNAARDNKKTRIIPRHIQLAIRNDEEL 93 (132)
Q Consensus 30 i~rllk~~~~~~RVs~~A~vyLaavLEyl~~eIlelA~~~A~~~~~k~Itp~~i~~AI~~D~EL 93 (132)
|..+|--.+....-..++...+-.++-.++.+++-.|...|. .++.+|+++|+..+|.+|+.=
T Consensus 8 i~~mmy~~GD~~~P~~eTv~llE~iv~~~i~~l~~~a~~~A~-~r~~k~~~eD~~FliR~D~~K 70 (92)
T cd07978 8 IRQMMYGFGDVQNPLPETVDLLEDIVVEYIIELCHKAAEVAQ-RRRGKVKVEDLIFLLRKDPKK 70 (92)
T ss_pred HHHHHHHcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH-cCCCCCCHHHHHHHHhcCHHH
Confidence 444554433333333334444444444444455556666665 577788999999999999863
No 58
>KOG3334|consensus
Probab=87.52 E-value=2.4 Score=31.41 Aligned_cols=57 Identities=25% Similarity=0.321 Sum_probs=41.5
Q ss_pred HHHHHhhCCcccccccChHHHHHHHHHH---HHHHHHHHHHHHHHhcCCceechhhhhhhhcCc
Q psy3662 30 IHRLLRKGNYAERVGAGAPVYLAAVLEY---LVAEVLELAGNAARDNKKTRIIPRHIQLAIRND 90 (132)
Q Consensus 30 i~rllk~~~~~~RVs~~A~vyLaavLEy---l~~eIlelA~~~A~~~~~k~Itp~~i~~AI~~D 90 (132)
|+-+|++.+ |.+.-+-.+.-.||+ .+..||+-|.-++.|.++..|..+|+++|+..-
T Consensus 19 i~~iL~s~G----I~eyEprVi~qlLefa~rYtt~vL~DA~vys~HA~ka~i~~eDVrlA~~~~ 78 (148)
T KOG3334|consen 19 IASILKSLG----IQEYEPRVINQLLEFAYRYTTTVLDDAKVYSSHAKKATIDAEDVRLAIQMR 78 (148)
T ss_pred HHHHHHHcC----ccccChHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCcHHHHHHHHHHH
Confidence 677777743 233333334444554 567899999999999999999999999999653
No 59
>COG5094 TAF9 Transcription initiation factor TFIID, subunit TAF9 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=85.96 E-value=3.4 Score=30.05 Aligned_cols=60 Identities=25% Similarity=0.277 Sum_probs=48.8
Q ss_pred HHHHHhhCCcccccccChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceech---hhhhhhhcCc
Q psy3662 30 IHRLLRKGNYAERVGAGAPVYLAAVLEYLVAEVLELAGNAARDNKKTRIIP---RHIQLAIRND 90 (132)
Q Consensus 30 i~rllk~~~~~~RVs~~A~vyLaavLEyl~~eIlelA~~~A~~~~~k~Itp---~~i~~AI~~D 90 (132)
|+-+|+. ...+--+..++.-|...---.+.++|+-|.-+|.+.|+.-|++ +|+++|+..-
T Consensus 20 ihliL~S-lgi~~ye~~VplQLl~FAhRYTq~vl~Dalvya~htgrg~~a~l~veDvrLA~at~ 82 (145)
T COG5094 20 IHLILRS-LGIEEYEPKVPLQLLEFAHRYTQDVLEDALVYAKHTGRGHIATLGVEDVRLALATK 82 (145)
T ss_pred HHHHHHh-cCchhhCccchHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCcccHHHHHHHHHHH
Confidence 6666665 3566667778877777777789999999999999999998888 9999999654
No 60
>COG5251 TAF40 Transcription initiation factor TFIID, subunit TAF11 [Transcription]
Probab=80.85 E-value=2.2 Score=32.69 Aligned_cols=64 Identities=22% Similarity=0.291 Sum_probs=51.4
Q ss_pred ccchhHHHHHHhhCCcccccccChHHHHHHHHHHHHHHHHHHHHHHHHh-cCCceechhhhhhhhc
Q psy3662 24 QFPVGRIHRLLRKGNYAERVGAGAPVYLAAVLEYLVAEVLELAGNAARD-NKKTRIIPRHIQLAIR 88 (132)
Q Consensus 24 ~fPv~ri~rllk~~~~~~RVs~~A~vyLaavLEyl~~eIlelA~~~A~~-~~~k~Itp~~i~~AI~ 88 (132)
-||-..|+.+.-. ...+-|+....+++.++-.-++.||+|+|...-.. .....+.|.|++.|+.
T Consensus 115 ~lnKt~VKKlast-V~nQtVspNi~I~l~g~~KVfvGEiIElA~~Vq~~w~~sgpl~p~h~reayr 179 (199)
T COG5251 115 SLNKTQVKKLAST-VANQTVSPNIRIFLQGVGKVFVGEIIELAMIVQNKWLTSGPLIPFHKREAYR 179 (199)
T ss_pred CCCHHHHHHHHHH-HhccccCCCeeeeeechhHHHHHHHHHHHHHHHHHhcccCCCChHHHHHHHH
Confidence 4777888888766 36778999999999999999999999999765333 2344689999998874
No 61
>COG5150 Class 2 transcription repressor NC2, beta subunit (Dr1) [Transcription]
Probab=79.91 E-value=6.9 Score=28.60 Aligned_cols=66 Identities=17% Similarity=0.308 Sum_probs=42.7
Q ss_pred ccccchhHHHHHHhhCCccc--ccccCh-HHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhhhhhhcC
Q psy3662 22 GLQFPVGRIHRLLRKGNYAE--RVGAGA-PVYLAAVLEYLVAEVLELAGNAARDNKKTRIIPRHIQLAIRN 89 (132)
Q Consensus 22 gl~fPv~ri~rllk~~~~~~--RVs~~A-~vyLaavLEyl~~eIlelA~~~A~~~~~k~Itp~~i~~AI~~ 89 (132)
.+.+|-+-|...+-+. +.. -+..+| -+++-+++||+.. +.-.|...|....+++|.++||-.|+.|
T Consensus 9 e~sLPKATVqKMvS~i-Lp~dl~ftKearei~in~cieFi~~-lsseAne~ce~EaKKTIa~EHviKALen 77 (148)
T COG5150 9 ENSLPKATVQKMVSSI-LPKDLVFTKEAREIFINACIEFINM-LSSEANEACEEEAKKTIAYEHVIKALEN 77 (148)
T ss_pred cccCcHHHHHHHHHHh-ccccccccHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHhccccHHHHHHHHHh
Confidence 4677888787776553 222 233333 4566777776543 3334555677778899999999999854
No 62
>PF15510 CENP-W: Centromere kinetochore component W
Probab=79.00 E-value=6.6 Score=27.12 Aligned_cols=64 Identities=22% Similarity=0.278 Sum_probs=44.4
Q ss_pred ccccchhHHHHHHhhCCcccccccChHHH----------------HHHHHHHHHHHHHHHHHHHHHhcCCceechhhhhh
Q psy3662 22 GLQFPVGRIHRLLRKGNYAERVGAGAPVY----------------LAAVLEYLVAEVLELAGNAARDNKKTRIIPRHIQL 85 (132)
Q Consensus 22 gl~fPv~ri~rllk~~~~~~RVs~~A~vy----------------LaavLEyl~~eIlelA~~~A~~~~~k~Itp~~i~~ 85 (132)
.-.-|-+.++|++++-.-.-|+...+-.. |.-. .|+..+.|.|-.-|..++...|.++|+..
T Consensus 14 krkaPrgfLkrv~Kr~KphlRl~~~~Dllv~~~~f~~~~~~~~vhLncL--LFvhrLAEEaRtnA~EnK~~~Ik~~Hv~A 91 (102)
T PF15510_consen 14 KRKAPRGFLKRVFKRQKPHLRLETSGDLLVRFCPFSGWQWGGEVHLNCL--LFVHRLAEEARTNACENKCGTIKKEHVLA 91 (102)
T ss_pred HHhCchHHHHHHHHhcCCceeecccccHHHhhcccccccccceeehhHH--HHHHHHHHHHHHHHHHHhhccccHHHHHH
Confidence 34579999999999754444776544332 2221 24556778887778888889999999987
Q ss_pred hh
Q psy3662 86 AI 87 (132)
Q Consensus 86 AI 87 (132)
|-
T Consensus 92 aa 93 (102)
T PF15510_consen 92 AA 93 (102)
T ss_pred HH
Confidence 64
No 63
>KOG2549|consensus
Probab=77.47 E-value=7.3 Score=34.75 Aligned_cols=61 Identities=18% Similarity=0.258 Sum_probs=53.0
Q ss_pred hhHHHHHHhhCCcccccccChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhhhhhhc
Q psy3662 27 VGRIHRLLRKGNYAERVGAGAPVYLAAVLEYLVAEVLELAGNAARDNKKTRIIPRHIQLAIR 88 (132)
Q Consensus 27 v~ri~rllk~~~~~~RVs~~A~vyLaavLEyl~~eIlelA~~~A~~~~~k~Itp~~i~~AI~ 88 (132)
-..++-+.+. -+...++.+++..|+-=+||=+.||...|.+.-.+.+|.+.|-.||..|+.
T Consensus 14 ~Es~k~vAEs-lGi~nl~deaa~~La~dv~yrikEI~Q~aaKfm~hskR~kLtv~DV~~ALr 74 (576)
T KOG2549|consen 14 KESVKVVAES-LGITNLNDEAALLLAEDVEYRIKEIVQDAAKFMVHSKRTKLTVDDVDYALR 74 (576)
T ss_pred HHHHHHHHHH-hCccccCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCcCcHHHHHHHHh
Confidence 4555555554 356789999999999999999999999999999999999999999998874
No 64
>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=76.31 E-value=2.1 Score=24.90 Aligned_cols=33 Identities=30% Similarity=0.451 Sum_probs=25.1
Q ss_pred HHHHHHhcCCceechhhhhhhhcCcH--HHHhhhc
Q psy3662 66 AGNAARDNKKTRIIPRHIQLAIRNDE--ELNKLLN 98 (132)
Q Consensus 66 A~~~A~~~~~k~Itp~~i~~AI~~D~--EL~~L~~ 98 (132)
|.+.|...+...|+++||-.|+-.++ ....++.
T Consensus 1 A~~~A~~~~~~~i~~eHlL~all~~~~~~~~~il~ 35 (53)
T PF02861_consen 1 AQELARERGHQYISPEHLLLALLEDPDSIAARILK 35 (53)
T ss_dssp HHHHHHHTTBSSE-HHHHHHHHHHHTTSHHHHHHH
T ss_pred CHHHHHHcCCCcccHHHHHHHHHhhhhHHHHHHHH
Confidence 45678888999999999999987765 6666664
No 65
>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=67.52 E-value=7.6 Score=22.95 Aligned_cols=27 Identities=19% Similarity=0.182 Sum_probs=19.1
Q ss_pred HHHHHHHHHHHHhcCCceechhhhhhh
Q psy3662 60 AEVLELAGNAARDNKKTRIIPRHIQLA 86 (132)
Q Consensus 60 ~eIlelA~~~A~~~~~k~Itp~~i~~A 86 (132)
..+=..+-.+|++.|...||++++..|
T Consensus 18 ~~~r~~~E~~Ar~~G~~~IT~e~v~~A 44 (45)
T PF08369_consen 18 KKLRDAAEKYARERGYDEITVEVVDAA 44 (45)
T ss_dssp HHHHHHHHHHHHHCT-SEE-HHHHHHH
T ss_pred HHHHHHHHHHHHHcCCCeECHHHHHhh
Confidence 334455667799999999999999865
No 66
>PF13335 Mg_chelatase_2: Magnesium chelatase, subunit ChlI
Probab=65.30 E-value=7.3 Score=26.48 Aligned_cols=47 Identities=26% Similarity=0.251 Sum_probs=37.4
Q ss_pred ccccChHHHHHHHHHHHH------HHHHHHHHHHHHhcCCceechhhhhhhhc
Q psy3662 42 RVGAGAPVYLAAVLEYLV------AEVLELAGNAARDNKKTRIIPRHIQLAIR 88 (132)
Q Consensus 42 RVs~~A~vyLaavLEyl~------~eIlelA~~~A~~~~~k~Itp~~i~~AI~ 88 (132)
.++..+..+|..+++-+- .-||.+|-..|.-.+...|++.||..|+.
T Consensus 42 ~l~~~~~~~l~~~~~~~~lS~R~~~rilrvARTIADL~~~~~I~~~hi~EAl~ 94 (96)
T PF13335_consen 42 PLSSEAKKLLEQAAEKLNLSARGYHRILRVARTIADLEGSERITREHIAEALS 94 (96)
T ss_pred CCCHHHHHHHHHHHHHcCcCHHHHHHHHHHHHHHHhHcCCCCCCHHHHHHHHh
Confidence 556666666666666543 36999999999999999999999999874
No 67
>COG5095 TAF6 Transcription initiation factor TFIID, subunit TAF6 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=62.35 E-value=15 Score=30.97 Aligned_cols=61 Identities=23% Similarity=0.200 Sum_probs=50.4
Q ss_pred hhHHHHHHhhCCcccccccChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhhhhhhc
Q psy3662 27 VGRIHRLLRKGNYAERVGAGAPVYLAAVLEYLVAEVLELAGNAARDNKKTRIIPRHIQLAIR 88 (132)
Q Consensus 27 v~ri~rllk~~~~~~RVs~~A~vyLaavLEyl~~eIlelA~~~A~~~~~k~Itp~~i~~AI~ 88 (132)
..-++..... -...-|..++.-.|+-=|||=+.||++.|.+.-.+++|..+|-.||..|+.
T Consensus 8 ~et~KdvAes-lGi~Ni~Dd~l~alamDlEYRI~ev~qea~KFmvhSKRtvLt~dDis~ALr 68 (450)
T COG5095 8 KETLKDVAES-LGISNIDDDALRALAMDLEYRIKEVCQEASKFMVHSKRTVLTIDDISYALR 68 (450)
T ss_pred HHHHHHHHHH-cCCcccccHHHHHHHHhHHHHHHHHHHHHHHHhhcccceeeeHHhHHHHHH
Confidence 3344444433 245678899999999999999999999999999999999999999998875
No 68
>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=60.62 E-value=37 Score=27.35 Aligned_cols=61 Identities=20% Similarity=0.302 Sum_probs=40.8
Q ss_pred hHHHHHHhhCC----cccccccChHHHHHHHHHH------HHHHHHHHHHHHHHhcCCceechhhhhhhhc
Q psy3662 28 GRIHRLLRKGN----YAERVGAGAPVYLAAVLEY------LVAEVLELAGNAARDNKKTRIIPRHIQLAIR 88 (132)
Q Consensus 28 ~ri~rllk~~~----~~~RVs~~A~vyLaavLEy------l~~eIlelA~~~A~~~~~k~Itp~~i~~AI~ 88 (132)
..+..+|+..- ...-++.++..+++.+.+. .+.+++..|+..|...+...|+++|++.|+.
T Consensus 202 ~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~R~al~~l~~a~~~a~~~~~~~it~~~v~~a~~ 272 (365)
T TIGR02928 202 EELRDILENRAEKAFYDGVLDDGVIPLCAALAAQEHGDARKAIDLLRVAGEIAEREGAERVTEDHVEKAQE 272 (365)
T ss_pred HHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Confidence 44566665421 1123566666677766652 4456888888888888888999999998764
No 69
>PF04604 L_biotic_typeA: Type-A lantibiotic; InterPro: IPR007682 Lantibiotics are antibiotic peptides distinguished by the presence of the rare thioether amino acids lanthionine and/or methyllanthionine. They are produced by Gram-positive bacteria as gene-encoded precursor peptides and undergo post-translational modification to generate the mature peptide. Based on their structural and functional features lantibiotics are currently divided into two major groups: the flexible amphiphilic type-A and the rather rigid and globular type-B. Type-A lantibiotics act primarily by pore formation in the bacterial membrane by a mechanism involving the interaction with specific docking molecules such as the membrane precursor lipid II [].; GO: 0019748 secondary metabolic process, 0005576 extracellular region
Probab=59.70 E-value=6.9 Score=24.03 Aligned_cols=21 Identities=43% Similarity=0.805 Sum_probs=16.5
Q ss_pred CcHHHHhhhcCCeecCCCcCCCCc
Q psy3662 89 NDEELNKLLNGVTIAQGGVLPNIQ 112 (132)
Q Consensus 89 ~D~EL~~L~~~~~ia~ggv~P~i~ 112 (132)
.|+||+.+++.. .+||++.|-
T Consensus 16 s~eELd~ilGg~---g~Gv~~Tis 36 (51)
T PF04604_consen 16 SDEELDQILGGA---GNGVIKTIS 36 (51)
T ss_pred CHHHHHHHhCCC---CCCceeecc
Confidence 689999999754 678887664
No 70
>PF12096 DUF3572: Protein of unknown function (DUF3572); InterPro: IPR021955 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are about 100 amino acids in length.
Probab=56.23 E-value=12 Score=25.55 Aligned_cols=54 Identities=33% Similarity=0.490 Sum_probs=34.4
Q ss_pred hHHHHHHhhCCccc---ccccChHHHHHHHHHHHHHHH-HHHHHHHHHhcCCceechhhhhhh
Q psy3662 28 GRIHRLLRKGNYAE---RVGAGAPVYLAAVLEYLVAEV-LELAGNAARDNKKTRIIPRHIQLA 86 (132)
Q Consensus 28 ~ri~rllk~~~~~~---RVs~~A~vyLaavLEyl~~eI-lelA~~~A~~~~~k~Itp~~i~~A 86 (132)
.++.|+|-...... |-...-|.||++||+|++.+= .-++. |... .|.|+.+-.|
T Consensus 22 e~l~rFLa~TG~~p~~LR~~a~dp~FL~~VLdFl~~de~~l~af--~~a~---~~~p~~v~~A 79 (88)
T PF12096_consen 22 ERLPRFLALTGLSPDDLRAAAGDPAFLAAVLDFLLMDEAWLLAF--CDAA---GIPPEAVAAA 79 (88)
T ss_pred HHHHHHHHHhCCCHHHHHHHccChHHHHHHHHHHHcchHHHHHH--HHHc---CcChhHHHHH
Confidence 45667776644433 778889999999999999752 22222 2222 3567776655
No 71
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=55.98 E-value=43 Score=27.36 Aligned_cols=68 Identities=16% Similarity=0.286 Sum_probs=43.4
Q ss_pred ccccc---hhHHHHHHhhC---Cc-ccccccChHHHHHHHHHH------HHHHHHHHHHHHHHhcCCceechhhhhhhhc
Q psy3662 22 GLQFP---VGRIHRLLRKG---NY-AERVGAGAPVYLAAVLEY------LVAEVLELAGNAARDNKKTRIIPRHIQLAIR 88 (132)
Q Consensus 22 gl~fP---v~ri~rllk~~---~~-~~RVs~~A~vyLaavLEy------l~~eIlelA~~~A~~~~~k~Itp~~i~~AI~ 88 (132)
.+.|| ...+..+++.. .. ..-++.++..++++.... .+.+++..|+..|...+...|+.+|+..|+.
T Consensus 201 ~i~f~py~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~r~a~~ll~~a~~~a~~~~~~~I~~~~v~~a~~ 280 (394)
T PRK00411 201 EIYFPPYTADEIFDILKDRVEEGFYPGVVDDEVLDLIADLTAREHGDARVAIDLLRRAGLIAEREGSRKVTEEDVRKAYE 280 (394)
T ss_pred eeecCCCCHHHHHHHHHHHHHhhcccCCCCHhHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHH
Confidence 34554 35566666542 11 123566676676665543 2235677777788888888999999998886
Q ss_pred C
Q psy3662 89 N 89 (132)
Q Consensus 89 ~ 89 (132)
.
T Consensus 281 ~ 281 (394)
T PRK00411 281 K 281 (394)
T ss_pred H
Confidence 4
No 72
>KOG3901|consensus
Probab=53.64 E-value=20 Score=25.25 Aligned_cols=36 Identities=19% Similarity=0.371 Sum_probs=23.9
Q ss_pred HHHHHHHHHHHHHHHHhc-CCceechhhhhhhhcCcHH
Q psy3662 56 EYLVAEVLELAGNAARDN-KKTRIIPRHIQLAIRNDEE 92 (132)
Q Consensus 56 Eyl~~eIlelA~~~A~~~-~~k~Itp~~i~~AI~~D~E 92 (132)
++++..|.++ .+.|+.. ++.++.-+|+..+|+.|+-
T Consensus 38 ~iV~~Yi~el-t~~a~~~g~rgk~~veD~~f~lRkDpk 74 (109)
T KOG3901|consen 38 DIVLEYITEL-THAAMEIGKRGKVKVEDFKFLLRKDPK 74 (109)
T ss_pred HHHHHHHHHH-HHHHHHhcccCceeHHHHHHHHHhChH
Confidence 3444445555 4445554 4557899999999999974
No 73
>COG1067 LonB Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]
Probab=53.42 E-value=41 Score=30.64 Aligned_cols=35 Identities=17% Similarity=0.248 Sum_probs=29.1
Q ss_pred HHHHHHHHHHHhcCCceechhhhhhhhcCcHHHHh
Q psy3662 61 EVLELAGNAARDNKKTRIIPRHIQLAIRNDEELNK 95 (132)
Q Consensus 61 eIlelA~~~A~~~~~k~Itp~~i~~AI~~D~EL~~ 95 (132)
.|+..|+..|...+++.|+++|++.|+++..-...
T Consensus 370 ~lv~~A~~ia~~~~~~~I~ae~Ve~a~~~~~~~e~ 404 (647)
T COG1067 370 NLVREAGDIAVSEGRKLITAEDVEEALQKRELREG 404 (647)
T ss_pred HHHHHhhHHHhcCCcccCcHHHHHHHHHhhhhHHH
Confidence 56678999999999999999999999999544433
No 74
>PF08539 HbrB: HbrB-like; InterPro: IPR013745 HbrB is involved in hyphal growth and polarity [].
Probab=52.03 E-value=14 Score=27.48 Aligned_cols=84 Identities=23% Similarity=0.326 Sum_probs=49.4
Q ss_pred ccccccchhHHHHHHhhCCcccccccChHHHHH-HHHHHHHHHHHHHHHHHHHhcCCceechhhhhhhhcCcHHHHhhhc
Q psy3662 20 RAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLA-AVLEYLVAEVLELAGNAARDNKKTRIIPRHIQLAIRNDEELNKLLN 98 (132)
Q Consensus 20 ragl~fPv~ri~rllk~~~~~~RVs~~A~vyLa-avLEyl~~eIlelA~~~A~~~~~k~Itp~~i~~AI~~D~EL~~L~~ 98 (132)
..++.+|+..+-++++.- ....++...+.++. .+-|.|..-..-+.-.. .....|.-|..|..
T Consensus 22 g~~l~~~iEdlN~lv~~~-i~~~~~~~~~~~~~~dl~elL~tg~~~L~~~l---------------~~~~~~~~l~rL~e 85 (158)
T PF08539_consen 22 GERLRLPIEDLNELVRFH-IKLCIQSFPPSYFLEDLEELLTTGMYILENQL---------------NEVPDNRLLKRLVE 85 (158)
T ss_pred CCCCCcCHHHHHHHHHHH-HHHhhcccchHHHHHHHHHHHHHHHHHHHHHH---------------hhcchhHHHHHHHH
Confidence 345678898888888651 22355555444333 33333333333333221 22234445566666
Q ss_pred CCeecCCCcCCCCcccccCCc
Q psy3662 99 GVTIAQGGVLPNIQAVLLPKK 119 (132)
Q Consensus 99 ~~~ia~ggv~P~i~~~~~~~k 119 (132)
-|.+..+.|+|.+.+.++|-.
T Consensus 86 iW~~Ff~~VlP~lqavFlPLq 106 (158)
T PF08539_consen 86 IWQFFFTQVLPYLQAVFLPLQ 106 (158)
T ss_pred HHHHHhcchHHHHHHHHhhhH
Confidence 666677999999999999876
No 75
>PF09123 DUF1931: Domain of unknown function (DUF1931); InterPro: IPR015207 This entry represents a set of hypothetical bacterial proteins containing a core of six alpha-helices, where one central helix is surrounded by the other five. The exact function of this family has not, as yet, been determined []. ; PDB: 1WWS_A 1WWI_A 1R4V_A.
Probab=49.40 E-value=12 Score=27.61 Aligned_cols=54 Identities=24% Similarity=0.332 Sum_probs=36.2
Q ss_pred HHHHhhCCcccccccChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhhhh
Q psy3662 31 HRLLRKGNYAERVGAGAPVYLAAVLEYLVAEVLELAGNAARDNKKTRIIPRHIQL 85 (132)
Q Consensus 31 ~rllk~~~~~~RVs~~A~vyLaavLEyl~~eIlelA~~~A~~~~~k~Itp~~i~~ 85 (132)
+++++.. ..--|..+-.--+..+++--+.+++..|-..|+.+++..|.|.|+-.
T Consensus 2 e~lFR~a-a~LdvdK~d~~r~~d~V~~Kl~DLl~va~~~Ak~ngRdvI~~~DLPI 55 (138)
T PF09123_consen 2 ERLFRKA-AGLDVDKNDAKRYSDFVEKKLYDLLLVAQENAKANGRDVIEPRDLPI 55 (138)
T ss_dssp HHHHHHH-HS----HHHHHHHHHHHHHHHHHCCCCHHHHHHHTT-SEE-GGGS--
T ss_pred hHHHHHH-hccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeeccccCCc
Confidence 4555553 22245555566677888889999999999999999999999999753
No 76
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=48.47 E-value=58 Score=27.30 Aligned_cols=74 Identities=19% Similarity=0.286 Sum_probs=54.0
Q ss_pred cccccch---hHHHHHHhhCC----cccccccChHHHHHHHHHHH------HHHHHHHHHHHHHhcCCceechhhhhhhh
Q psy3662 21 AGLQFPV---GRIHRLLRKGN----YAERVGAGAPVYLAAVLEYL------VAEVLELAGNAARDNKKTRIIPRHIQLAI 87 (132)
Q Consensus 21 agl~fPv---~ri~rllk~~~----~~~RVs~~A~vyLaavLEyl------~~eIlelA~~~A~~~~~k~Itp~~i~~AI 87 (132)
-.+.||. ..++.+|++.. ....++.++..+.++.--+- +.++|..|++.|...+...|++.|+..|
T Consensus 183 ~~I~F~pY~a~el~~Il~~R~~~~~~~~~~~~~vl~lia~~~a~~~GDAR~aidilr~A~eiAe~~~~~~v~~~~v~~a- 261 (366)
T COG1474 183 SEIVFPPYTAEELYDILRERVEEGFSAGVIDDDVLKLIAALVAAESGDARKAIDILRRAGEIAEREGSRKVSEDHVREA- 261 (366)
T ss_pred ceeeeCCCCHHHHHHHHHHHHHhhccCCCcCccHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHhhCCCCcCHHHHHHH-
Confidence 3477886 77888886521 12367777777777555543 4689999999999999999999999999
Q ss_pred cCcHHHHh
Q psy3662 88 RNDEELNK 95 (132)
Q Consensus 88 ~~D~EL~~ 95 (132)
..+.|...
T Consensus 262 ~~~~~~~~ 269 (366)
T COG1474 262 QEEIERDV 269 (366)
T ss_pred HHHhhHHH
Confidence 44444443
No 77
>KOG1658|consensus
Probab=48.43 E-value=34 Score=25.76 Aligned_cols=72 Identities=17% Similarity=0.206 Sum_probs=51.3
Q ss_pred cccccchhHHHHHHhhCCcccccccChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhhhhhhcCcHHHHhhh
Q psy3662 21 AGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVLEYLVAEVLELAGNAARDNKKTRIIPRHIQLAIRNDEELNKLL 97 (132)
Q Consensus 21 agl~fPv~ri~rllk~~~~~~RVs~~A~vyLaavLEyl~~eIlelA~~~A~~~~~k~Itp~~i~~AI~~D~EL~~L~ 97 (132)
+...||++.++++-+.+-...--+..|.+..+..-|.|+.-...+++ ....+..-..|+..+..|++|..+-
T Consensus 8 ~~p~~p~ekvkkiak~dPey~~te~~a~~etafatE~fvq~lv~~p~-----a~l~rLpL~rik~vvkl~pdl~l~~ 79 (162)
T KOG1658|consen 8 CSPKLPMEKVKKIAKNDPEYMDTEDDAFVETAFATEQFVQVLVHLPQ-----ASLSRLPLARIKQVVKLDPDLTLLN 79 (162)
T ss_pred hCccccHHHHHHhhcCCchhhhcccchHHHHHHHHHHHHhhhhhhhh-----hhhhhccHHHHHhhccCCcchhhhh
Confidence 34679999999998876333334566777788888998887777554 3344667777788888888876644
No 78
>PF13654 AAA_32: AAA domain; PDB: 3K1J_B.
Probab=48.30 E-value=20 Score=31.49 Aligned_cols=31 Identities=29% Similarity=0.369 Sum_probs=25.3
Q ss_pred HHHHHHHHHHHHHhcCCceechhhhhhhhcC
Q psy3662 59 VAEVLELAGNAARDNKKTRIIPRHIQLAIRN 89 (132)
Q Consensus 59 ~~eIlelA~~~A~~~~~k~Itp~~i~~AI~~ 89 (132)
+.+||..|...|...+...|+.+||+.||+.
T Consensus 475 l~~ll~EA~~~A~~~~~~~I~~~~V~~Ai~~ 505 (509)
T PF13654_consen 475 LADLLREANYWARKEGAKVITAEHVEQAIEE 505 (509)
T ss_dssp HHHHHHHHHHHHHHCT-SSB-HHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHhCCCccCHHHHHHHHHc
Confidence 3678888999999999999999999999853
No 79
>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=46.03 E-value=73 Score=28.57 Aligned_cols=31 Identities=19% Similarity=0.303 Sum_probs=25.4
Q ss_pred HHHHHHHHHHHHhcCCceechhhhhhhhcCc
Q psy3662 60 AEVLELAGNAARDNKKTRIIPRHIQLAIRND 90 (132)
Q Consensus 60 ~eIlelA~~~A~~~~~k~Itp~~i~~AI~~D 90 (132)
..|+..|...|...+...|+++|++.|++.-
T Consensus 361 ~~llR~A~~iA~~~~~~~I~~ehV~~Ai~~~ 391 (608)
T TIGR00764 361 GGLVRAAGDIAKSSGKVYVTAEHVLKAKKLA 391 (608)
T ss_pred HHHHHHHHHHHHhcCCceecHHHHHHHHHHH
Confidence 4678888778888888999999999987643
No 80
>KOG4336|consensus
Probab=42.90 E-value=54 Score=27.30 Aligned_cols=84 Identities=14% Similarity=0.095 Sum_probs=62.9
Q ss_pred HHHHHhhCCcccccccChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhhhhhhcC----cHHHHhhhcCCeec--
Q psy3662 30 IHRLLRKGNYAERVGAGAPVYLAAVLEYLVAEVLELAGNAARDNKKTRIIPRHIQLAIRN----DEELNKLLNGVTIA-- 103 (132)
Q Consensus 30 i~rllk~~~~~~RVs~~A~vyLaavLEyl~~eIlelA~~~A~~~~~k~Itp~~i~~AI~~----D~EL~~L~~~~~ia-- 103 (132)
|.-++++. .+.-|+..|-.-|.-.|.-.+.+|...+-+++.+.||.--|+-||.+.+.+ =.+|...+++..++
T Consensus 11 V~~Ll~~~-gfd~is~~aletlvell~~yi~eigrq~~n~celagRT~pT~~Dv~l~Li~mnI~v~sL~~~~q~~~~sl~ 89 (323)
T KOG4336|consen 11 VSNLLKTK-GFDSISNAALETLVELLQSYIREIGRQLHNYCELAGRTIPTQGDVKLTLIEMNIKVSSLYAYFQKQEFSLW 89 (323)
T ss_pred HHHHHHHh-CchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCcHHHHHHHHHHhCCChhhhHHHHHhccchhh
Confidence 55566664 577788888888999999999999999999999999999999999876542 24667777766664
Q ss_pred -CCCcCCCCccc
Q psy3662 104 -QGGVLPNIQAV 114 (132)
Q Consensus 104 -~ggv~P~i~~~ 114 (132)
.---+|+...+
T Consensus 90 ~~~~~aP~~~~q 101 (323)
T KOG4336|consen 90 SVLIAAPENQEQ 101 (323)
T ss_pred hccccCCCcCCc
Confidence 33334554443
No 81
>PHA02943 hypothetical protein; Provisional
Probab=42.78 E-value=51 Score=24.90 Aligned_cols=41 Identities=17% Similarity=0.177 Sum_probs=35.5
Q ss_pred HHHHHHHHHHHHHhcCCceechhhhhhhhcCcHHHHhhhcC
Q psy3662 59 VAEVLELAGNAARDNKKTRIIPRHIQLAIRNDEELNKLLNG 99 (132)
Q Consensus 59 ~~eIlelA~~~A~~~~~k~Itp~~i~~AI~~D~EL~~L~~~ 99 (132)
+.++...-......++.+-|+|.++..-|..|.|-+.+|.+
T Consensus 76 v~~~~Relwrlv~s~~~kfi~p~~l~~li~kd~~a~~~~ak 116 (165)
T PHA02943 76 VFEIKRELWRLVCNSRLKFITPSRLLRLIAKDTEAHNIFAK 116 (165)
T ss_pred HHHHHHHHHHHHHhccccccChHHHHHHHHhCHHHHHHHHH
Confidence 66677777777788899999999999999999999999953
No 82
>PF12767 SAGA-Tad1: Transcriptional regulator of RNA polII, SAGA, subunit; InterPro: IPR024738 The yeast Spt-Ada-Gcn5-Acetyl (SAGA) transferase complex is a multifunctional coactivator involved in multiple cellular processes [], including regulation of transcription by RNA polymerase II [, ]. It is formed of five major modular subunits and shows a high degree of structural conservation to human TFTC and STAGA []. This entry represents Ada1 (known as Tada1 in higher eukaryotes), one of the subunits that constitute the SAGA core. It also functions as a component of the SALSA and SLIK complexes. ; GO: 0070461 SAGA-type complex
Probab=42.48 E-value=49 Score=26.05 Aligned_cols=41 Identities=12% Similarity=0.156 Sum_probs=33.4
Q ss_pred hHHHHHHhhCCcccccccChHHHHHHHHHHHHHHHHHHHHHH
Q psy3662 28 GRIHRLLRKGNYAERVGAGAPVYLAAVLEYLVAEVLELAGNA 69 (132)
Q Consensus 28 ~ri~rllk~~~~~~RVs~~A~vyLaavLEyl~~eIlelA~~~ 69 (132)
.||..+..+.+. .=|+.+|+.+|...||+++-+||+-+...
T Consensus 210 ~Rm~~ia~e~GL-~gvs~~~a~ll~~ale~~LK~lI~s~l~~ 250 (252)
T PF12767_consen 210 KRMEQIAWEHGL-GGVSDDCANLLNLALEVHLKNLIKSCLDL 250 (252)
T ss_pred HHHHHHHHHcCC-CCCCHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 566666666544 68999999999999999999999887654
No 83
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=41.72 E-value=34 Score=31.59 Aligned_cols=41 Identities=20% Similarity=0.286 Sum_probs=35.0
Q ss_pred HHHHHHHHHHHHHhcCCceechhhhhhhhcCcHHHHhhhcC
Q psy3662 59 VAEVLELAGNAARDNKKTRIIPRHIQLAIRNDEELNKLLNG 99 (132)
Q Consensus 59 ~~eIlelA~~~A~~~~~k~Itp~~i~~AI~~D~EL~~L~~~ 99 (132)
+.++++.|.+.|...+...|+|+|+-+++-.+.++..++..
T Consensus 6 ~~~~l~~a~~~a~~~~~~~~~~~h~l~~l~~~~~~~~~~~~ 46 (758)
T PRK11034 6 LELSLNMAFARAREHRHEFMTVEHLLLALLSNPSAREALEA 46 (758)
T ss_pred HHHHHHHHHHHHHHcCCCcchHHHHHHHHHcChhHHHHHHH
Confidence 45778899999999999999999999999988877776643
No 84
>KOG0787|consensus
Probab=39.59 E-value=13 Score=31.88 Aligned_cols=69 Identities=22% Similarity=0.241 Sum_probs=41.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHhc-CCceechhhhhhhhc-CcHHHHhhhcCCeecCCCcCCCCcccccCC
Q psy3662 47 APVYLAAVLEYLVAEVLELAGNAARDN-KKTRIIPRHIQLAIR-NDEELNKLLNGVTIAQGGVLPNIQAVLLPK 118 (132)
Q Consensus 47 A~vyLaavLEyl~~eIlelA~~~A~~~-~~k~Itp~~i~~AI~-~D~EL~~L~~~~~ia~ggv~P~i~~~~~~~ 118 (132)
..||+-..|+|++-||++-|....... +....-+.+|+..|. +|+++...+.| -+|||.+..-.-++.+
T Consensus 253 ~~vyvPshL~ymlfElfKNamrATve~h~~~~~~~ppI~V~V~~gdeDl~ikISD---rGGGV~~~~~drlf~Y 323 (414)
T KOG0787|consen 253 FTVYVPSHLYYMLFELFKNAMRATVEHHGDDGDELPPIKVTVAKGDEDLLIKISD---RGGGVPHRDIDRLFSY 323 (414)
T ss_pred CccccchHHHHHHHHHHHHHHHHHHHHhccCCCCCCCeEEEEecCCcceEEEEec---CCCCcChhHHHHHHhh
Confidence 346889999999999999998875443 333333666775544 55444332221 3566665544434333
No 85
>smart00350 MCM minichromosome maintenance proteins.
Probab=37.29 E-value=77 Score=27.57 Aligned_cols=66 Identities=12% Similarity=0.142 Sum_probs=47.7
Q ss_pred cccchhHHHHHHhhCC--cccccccChHHHHHHHHHHHH-------------------HHHHHHHHHHHHhcCCceechh
Q psy3662 23 LQFPVGRIHRLLRKGN--YAERVGAGAPVYLAAVLEYLV-------------------AEVLELAGNAARDNKKTRIIPR 81 (132)
Q Consensus 23 l~fPv~ri~rllk~~~--~~~RVs~~A~vyLaavLEyl~-------------------~eIlelA~~~A~~~~~k~Itp~ 81 (132)
..++...+.+++.-.+ ...+++.++..||......+= ..++.+|--.|+-..+..++++
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 3577778888876543 235788888888766544332 3467777777888899999999
Q ss_pred hhhhhhc
Q psy3662 82 HIQLAIR 88 (132)
Q Consensus 82 ~i~~AI~ 88 (132)
|+..|+.
T Consensus 496 Dv~~ai~ 502 (509)
T smart00350 496 DVEEAIR 502 (509)
T ss_pred HHHHHHH
Confidence 9999883
No 86
>PHA02669 hypothetical protein; Provisional
Probab=36.90 E-value=45 Score=25.57 Aligned_cols=37 Identities=38% Similarity=0.534 Sum_probs=23.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhhhhh
Q psy3662 47 APVYLAAVLEYLVAEVLELAGNAARDNKKTRIIPRHIQLA 86 (132)
Q Consensus 47 A~vyLaavLEyl~~eIlelA~~~A~~~~~k~Itp~~i~~A 86 (132)
|.+||++..-||+.||= ||.+-| +++.|+...--++|
T Consensus 12 avi~LTgAaiYlLiEiG-LAaERa--nKrsRvK~nMRkLa 48 (210)
T PHA02669 12 AVIYLTGAAIYLLIEIG-LAAERA--NKRSRVKANMRKLA 48 (210)
T ss_pred HHHHHHHHHHHHHHHHH-HHHHHh--hhHHHHHHHHHHHH
Confidence 67899999999999874 444433 34445444444433
No 87
>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=36.61 E-value=1.1e+02 Score=23.52 Aligned_cols=57 Identities=16% Similarity=0.155 Sum_probs=43.1
Q ss_pred CcccccccccchhHHHHHHhh----CCcccccccChHHHHHHHHHHHHHHHHHHHHHHHHhc
Q psy3662 16 TRSSRAGLQFPVGRIHRLLRK----GNYAERVGAGAPVYLAAVLEYLVAEVLELAGNAARDN 73 (132)
Q Consensus 16 s~s~ragl~fPv~ri~rllk~----~~~~~RVs~~A~vyLaavLEyl~~eIlelA~~~A~~~ 73 (132)
.++....+.|....+.+.|.. .+ ..-|+.+...+|+.++|..+..|++.+...+.|-
T Consensus 36 ~~~~~~~~fl~~~~l~~~~~~i~~~~g-~~~~~~d~~~lis~a~e~rlr~li~k~~~~s~hR 96 (212)
T cd08045 36 ARSQKDPSFLNPSPLAKKIRKIAKKHG-LKEVDEDVLDLISLALEERLRNLLEKLIEVSEHR 96 (212)
T ss_pred ccccchhhccCHHHHHHHHHHHHHHcC-CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 334455667777766666654 32 2268999999999999999999999999988873
No 88
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=33.12 E-value=53 Score=29.92 Aligned_cols=40 Identities=23% Similarity=0.343 Sum_probs=32.5
Q ss_pred HHHHHHHHHHHHHhcCCceechhhhhhhhcCcHHHHhhhc
Q psy3662 59 VAEVLELAGNAARDNKKTRIIPRHIQLAIRNDEELNKLLN 98 (132)
Q Consensus 59 ~~eIlelA~~~A~~~~~k~Itp~~i~~AI~~D~EL~~L~~ 98 (132)
+.+++..|.+.|...+...|+|+||-+|+-.+++...++.
T Consensus 5 a~~~L~~A~~~A~~~~h~~V~~EHLLlaLL~~~~~~~iL~ 44 (731)
T TIGR02639 5 LERILDAALEEAKKRRHEFVTLEHILLALLFDSDAIEILE 44 (731)
T ss_pred HHHHHHHHHHHHHHhCCCcCcHHHHHHHHHcCchHHHHHH
Confidence 3467788999999999999999999999888766555443
No 89
>COG5248 TAF19 Transcription initiation factor TFIID, subunit TAF13 [Transcription]
Probab=32.80 E-value=1.3e+02 Score=21.52 Aligned_cols=51 Identities=22% Similarity=0.188 Sum_probs=35.8
Q ss_pred cccChHHHHHHHHHHHHHHHHHHHHHHHHhc-CCceechhhhhhhhcCcHHH
Q psy3662 43 VGAGAPVYLAAVLEYLVAEVLELAGNAARDN-KKTRIIPRHIQLAIRNDEEL 93 (132)
Q Consensus 43 Vs~~A~vyLaavLEyl~~eIlelA~~~A~~~-~~k~Itp~~i~~AI~~D~EL 93 (132)
|-.-++.-.-+.=||+...+.+++.|.++-. .+..+.-+|+..|++.|+.=
T Consensus 25 vv~P~~dt~~~L~e~V~dY~~~~ctna~~~Aq~rnK~k~eDfkfaLr~DpkK 76 (126)
T COG5248 25 VVAPRYDTAEALHEYVLDYMSILCTNAHNMAQVRNKTKTEDFKFALRRDPKK 76 (126)
T ss_pred CCCcchhHHHHHHHHHHHHHHHHHHHHHHHHHhcccchHHHHHHHHhhChHH
Confidence 4444445556667888888888877765543 34457889999999999753
No 90
>COG3636 Predicted transcriptional regulator [Transcription]
Probab=29.36 E-value=60 Score=22.63 Aligned_cols=53 Identities=17% Similarity=0.219 Sum_probs=34.5
Q ss_pred cChHHHHHHHHHHHHHH-------HHHHHHHHHHhcCCceechhhhhhhhcC--cHHHHhhh
Q psy3662 45 AGAPVYLAAVLEYLVAE-------VLELAGNAARDNKKTRIIPRHIQLAIRN--DEELNKLL 97 (132)
Q Consensus 45 ~~A~vyLaavLEyl~~e-------IlelA~~~A~~~~~k~Itp~~i~~AI~~--D~EL~~L~ 97 (132)
+.+.+||.++||---.+ ++..+...+.-..+.-++-++|..+++. |+.|+.++
T Consensus 21 e~ia~yL~~~le~~d~a~i~~alg~var~~GMsqvA~~aGlsRe~LYkaLS~~GNPtf~Til 82 (100)
T COG3636 21 EAIAAYLNAALEEGDPALIAAALGVVARSRGMSQVARKAGLSREGLYKALSPGGNPTFDTIL 82 (100)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCHHHHHHHhCccHHHHHHHhCCCCCCcHHHHH
Confidence 56788999998743332 3333344444444556889999988865 56777766
No 91
>PF02681 DUF212: Divergent PAP2 family; InterPro: IPR003832 This family is related to the acid phosphatase/vanadium-dependent haloperoxidases; members of this group are uncharacterised.
Probab=28.54 E-value=1.2e+02 Score=22.29 Aligned_cols=25 Identities=20% Similarity=0.444 Sum_probs=21.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHh
Q psy3662 48 PVYLAAVLEYLVAEVLELAGNAARD 72 (132)
Q Consensus 48 ~vyLaavLEyl~~eIlelA~~~A~~ 72 (132)
.+++++++-++++++++.-.+...+
T Consensus 5 ~~l~~a~~a~~~AQ~iK~~~~~~~~ 29 (141)
T PF02681_consen 5 KVLIAALIAWFIAQFIKVFINYLKE 29 (141)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 5789999999999999998887665
No 92
>PRK13194 pyrrolidone-carboxylate peptidase; Provisional
Probab=27.60 E-value=90 Score=24.15 Aligned_cols=40 Identities=23% Similarity=0.306 Sum_probs=33.6
Q ss_pred cccchhHHHHHHhhCCcccccccChHHHHHHHHHHHHHHH
Q psy3662 23 LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVLEYLVAEV 62 (132)
Q Consensus 23 l~fPv~ri~rllk~~~~~~RVs~~A~vyLaavLEyl~~eI 62 (132)
.+||+..+-+-|++..+.-++|.+|--||+..+=|.+...
T Consensus 113 ttlp~~~l~~~l~~~gip~~~S~dAG~ylCN~iyY~sL~~ 152 (208)
T PRK13194 113 ATLPTREIVEELKKNGIPAVLSYSAGTYLCNYVMYLTLHH 152 (208)
T ss_pred CCCCHHHHHHHHHhcCCCcEEeCCCccchhHHHHHHHHHH
Confidence 4699999888888877778999999999999998866543
No 93
>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=26.91 E-value=1.1e+02 Score=24.15 Aligned_cols=56 Identities=14% Similarity=0.078 Sum_probs=33.0
Q ss_pred ccccccccchhHHHHHHhhC---CcccccccChHHHHHHHHHHHHHHHHHHHHHHHHhc
Q psy3662 18 SSRAGLQFPVGRIHRLLRKG---NYAERVGAGAPVYLAAVLEYLVAEVLELAGNAARDN 73 (132)
Q Consensus 18 s~ragl~fPv~ri~rllk~~---~~~~RVs~~A~vyLaavLEyl~~eIlelA~~~A~~~ 73 (132)
+....+.|....+.+.|++- .....|+.+...||+..+|.-+.+|++.+...|.|-
T Consensus 37 ~~~~~~fL~~~~L~~~i~~i~~~~g~~~~~~d~l~llS~A~e~rLr~lie~~~~~s~hR 95 (264)
T PF05236_consen 37 SEKEEPFLNPSPLQKRIQKIAKKHGLKSVDEDVLELLSLATEERLRNLIEKAIVLSRHR 95 (264)
T ss_dssp -------S-HHHHHHHHHHHHHCTT--EE-TCHHHHHHHHHHHHHHHHHHHHH------
T ss_pred ccccccccCHHHHHHHHHHHHHHcCCcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 34556778887777777652 123478999999999999999999999999988873
No 94
>PF08672 APC2: Anaphase promoting complex (APC) subunit 2; InterPro: IPR014786 The anaphase-promoting complex (APC) or cyclosome is a multi-subunit E3 protein ubiquitin ligase that regulates important events in mitosis such as the initiation of anaphase and exit from telophase. The APC, in conjunction with other enzymes, assembles multi-ubiquitin chains on a variety of regulatory proteins, thereby targeting them for proteolysis by the 26S proteasome. Anaphase is initiated when the APC triggers the destruction of securin, thereby allowing the protease, separase, to disrupt sister-chromatid cohesion. Securin ubiquitination by the APC is inhibited by cyclin-dependent kinase 1 (Cdk1)-dependent phosphorylation []. Forkhead Box M1 (FoxM1), which is a transcription factor that is over-expressed in many cancers, is degraded in late mitosis and early G1 phase by the APC/cyclosome (APC/C) E3 ubiquitin ligase []. The APC/C targets mitotic cyclins for destruction in mitosis and G1 phase and is then inactivated at S phase. It thereby generates alternating states of high and low cyclin-Cdk activity, which is required for the alternation of mitosis and DNA replication []. The APC/C is composed of at least 13 subunits that stay tightly associated throughout the cell cycle: APC1, APC2, APC4, APC5, APC9, APC11, CDC16, CDC23, CDC26, CDC27, DOC1, MND2 and SWM1[], []. In fission yeast the 13 subunits are known as: Apc1, Apc2, Nuc2, Apc4, Apc5, Cut9, Apc8, Apc10, Apc11, Hcn1, Apc13, Apc14 and Apc15 []. This entry represents a C-terminal domain found in APC subunit 2. ; PDB: 1LDD_A.
Probab=26.83 E-value=90 Score=19.42 Aligned_cols=13 Identities=38% Similarity=0.741 Sum_probs=11.3
Q ss_pred cchhHHHHHHhhC
Q psy3662 25 FPVGRIHRLLRKG 37 (132)
Q Consensus 25 fPv~ri~rllk~~ 37 (132)
+|++|||..|+-.
T Consensus 12 l~l~RIh~mLkmf 24 (60)
T PF08672_consen 12 LPLDRIHSMLKMF 24 (60)
T ss_dssp EEHHHHHHHHHHH
T ss_pred CCHHHHHHHHHhc
Confidence 7999999999874
No 95
>KOG4654|consensus
Probab=26.80 E-value=54 Score=25.80 Aligned_cols=42 Identities=17% Similarity=0.250 Sum_probs=31.6
Q ss_pred ChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhhhhhhcCcH
Q psy3662 46 GAPVYLAAVLEYLVAEVLELAGNAARDNKKTRIIPRHIQLAIRNDE 91 (132)
Q Consensus 46 ~A~vyLaavLEyl~~eIlelA~~~A~~~~~k~Itp~~i~~AI~~D~ 91 (132)
.|-+|+.+++||+...|-.-| .-+.-...+.+.++..|+.+-
T Consensus 165 ~AL~ni~aiiehfnpKiedya----avnhi~qlsadeV~eVikae~ 206 (252)
T KOG4654|consen 165 GALNNILAIIEHFNPKIEDYA----AVNHIPQLSADEVEEVIKAEL 206 (252)
T ss_pred HHHHHHHHHHHhcCchhhhHH----HhcccccccHHHHHHHHHHhc
Confidence 467899999999999987644 333455678888888887653
No 96
>TIGR02263 benz_CoA_red_C benzoyl-CoA reductase, subunit C. This model describes C subunit of benzoyl-CoA reductase, a 4-subunit enzyme. Many aromatic compounds are metabolized by way of benzoyl-CoA. This enzyme acts under anaerobic conditions.
Probab=26.75 E-value=1.1e+02 Score=25.50 Aligned_cols=44 Identities=25% Similarity=0.228 Sum_probs=34.6
Q ss_pred HHHHHHHHHHHHHHHHHHhcCCceechhhhhhhhcCcHHHHhhhc
Q psy3662 54 VLEYLVAEVLELAGNAARDNKKTRIIPRHIQLAIRNDEELNKLLN 98 (132)
Q Consensus 54 vLEyl~~eIlelA~~~A~~~~~k~Itp~~i~~AI~~D~EL~~L~~ 98 (132)
.++|+..|+-++.-..-...|+ +||++.|+.||..-.+...++.
T Consensus 136 ~~~Y~~~el~~l~~~LE~~~G~-~it~e~L~~aI~~~N~~R~~~~ 179 (380)
T TIGR02263 136 GGEFYTAELNELCEGLEHLSGK-KITDDAIRASIAVFNDNRKLIQ 179 (380)
T ss_pred HHHHHHHHHHHHHHHHHHHHCC-CCCHHHHHHHHHHHHHHHHHHH
Confidence 3888888888888776666565 6899999999988877766664
No 97
>TIGR01128 holA DNA polymerase III, delta subunit. subunit around DNA forming a DNA sliding clamp.
Probab=26.55 E-value=1.8e+02 Score=22.50 Aligned_cols=66 Identities=14% Similarity=0.146 Sum_probs=37.3
Q ss_pred hhHHHHHHhhC--CcccccccChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhhhhhhcCcHH
Q psy3662 27 VGRIHRLLRKG--NYAERVGAGAPVYLAAVLEYLVAEVLELAGNAARDNKKTRIIPRHIQLAIRNDEE 92 (132)
Q Consensus 27 v~ri~rllk~~--~~~~RVs~~A~vyLaavLEyl~~eIlelA~~~A~~~~~k~Itp~~i~~AI~~D~E 92 (132)
...+.+|+++. .....++.+|..||+..++.=+..+.-..-..+...+.+.||.+||+..+..+.+
T Consensus 113 ~~~~~~~i~~~~~~~g~~i~~~a~~~l~~~~~~d~~~l~~el~KL~~~~~~~~It~e~I~~~~~~~~~ 180 (302)
T TIGR01128 113 EQELPRWIQARLKKLGLRIDPDAVQLLAELVEGNLLAIAQELEKLALYAPDGKITLEDVEEAVSDSAR 180 (302)
T ss_pred HHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhCcHHHHHHHHHHHHHhhCCCCCCCHHHHHHHHhhhhc
Confidence 44555566541 1234789999999888776422222211112222223336999999987765554
No 98
>COG3925 N-terminal domain of the phosphotransferase system fructose-specific component IIB [Carbohydrate transport and metabolism]
Probab=26.52 E-value=96 Score=21.59 Aligned_cols=29 Identities=34% Similarity=0.426 Sum_probs=17.4
Q ss_pred HHHHHHHHHHHHHHHHhcCCcee-chhhhhhhh
Q psy3662 56 EYLVAEVLELAGNAARDNKKTRI-IPRHIQLAI 87 (132)
Q Consensus 56 Eyl~~eIlelA~~~A~~~~~k~I-tp~~i~~AI 87 (132)
-||+.+++..| |+..+-..| +|.|-+++|
T Consensus 16 ayl~~~vl~AA---A~ka~l~ii~tp~dAeLvi 45 (103)
T COG3925 16 AYLAHTVLGAA---AHKAGLEIIDTPNDAELVI 45 (103)
T ss_pred HHHHHHHHHHH---HHHCCCeeeCCCCcccEEE
Confidence 46666677544 556666666 676655443
No 99
>COG4905 Predicted membrane protein [Function unknown]
Probab=25.90 E-value=81 Score=24.84 Aligned_cols=22 Identities=32% Similarity=0.563 Sum_probs=18.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q psy3662 48 PVYLAAVLEYLVAEVLELAGNA 69 (132)
Q Consensus 48 ~vyLaavLEyl~~eIlelA~~~ 69 (132)
.+++..++||+++-|||.-.|.
T Consensus 71 si~ivTv~Eyvt~~ILEa~Fn~ 92 (243)
T COG4905 71 SIFIVTVLEYVTGFILEAIFNC 92 (243)
T ss_pred HHHHHHHHHHHHHHHHHHHHcC
Confidence 5679999999999999987653
No 100
>cd05025 S-100A1 S-100A1: S-100A1 domain found in proteins similar to S100A1. S100A1 is a calcium-binding protein belonging to a large S100 vertebrate-specific protein family within the EF-hand superfamily of calcium-binding proteins. Note that the S-100 hierarchy, to which this S-100A1 group belongs, contains only S-100 EF-hand domains, other EF-hands have been modeled separately. As is the case with many other members of S100 protein family, S100A1 is implicated in intracellular and extracellular regulatory activities, including interaction with myosin-associated twitchin kinase, actin-capping protein CapZ, sinapsin I, and tubulin. Structural data suggests that S100A1 proteins exist within cells as antiparallel homodimers, while heterodimers with S100A4 and S100B also has been reported. Upon binding calcium S100A1 changes conformation to expose a hydrophobic cleft which is the interaction site of S100A1 with its more that 20 known target proteins.
Probab=25.81 E-value=1.4e+02 Score=19.26 Aligned_cols=45 Identities=9% Similarity=0.206 Sum_probs=30.0
Q ss_pred HHHHHHHHHHHHHHHHH-hcCCc-eechhhhhhhhcC-----------cHHHHhhhcCC
Q psy3662 55 LEYLVAEVLELAGNAAR-DNKKT-RIIPRHIQLAIRN-----------DEELNKLLNGV 100 (132)
Q Consensus 55 LEyl~~eIlelA~~~A~-~~~~k-~Itp~~i~~AI~~-----------D~EL~~L~~~~ 100 (132)
||+-+.++ ..+..... ..+.. .|+..++..++.. ++++..++...
T Consensus 4 ~e~~~~~l-~~~F~~fDd~dg~G~~Is~~El~~~l~~~lg~~~~~~~s~~~v~~i~~~~ 61 (92)
T cd05025 4 LETAMETL-INVFHAHSGKEGDKYKLSKKELKDLLQTELSDFLDAQKDADAVDKIMKEL 61 (92)
T ss_pred HHHHHHHH-HHHHHHHhcccCCCCeECHHHHHHHHHHHHHHHccCCCCHHHHHHHHHHH
Confidence 56666444 44666664 55666 6999999988852 46677777543
No 101
>cd05029 S-100A6 S-100A6: S-100A6 domain found in proteins similar to S100A6. S100A6 is a member of the S100 domain family within EF-hand Ca2+-binding proteins superfamily. Note that the S-100 hierarchy, to which this S-100A6 group belongs, contains only S-100 EF-hand domains, other EF-hands have been modeled separately. S100 proteins exhibit unique patterns of tissue- and cell type-specific expression and have been implicated in the Ca2+-dependent regulation of diverse physiological processes, including cell cycle regulation, differentiation, growth, and metabolic control . S100A6 is normally expressed in the G1 phase of the cell cycle in neuronal cells. The function of S100A6 remains unclear, but evidence suggests that it is involved in cell cycle regulation and exocytosis. S100A6 may also be involved in tumorigenesis; the protein is overexpressed in several tumors. Ca2+ binding to S100A6 leads to a conformational change in the protein, which exposes a hydrophobic surface for interact
Probab=25.46 E-value=2e+02 Score=18.80 Aligned_cols=53 Identities=13% Similarity=0.244 Sum_probs=35.8
Q ss_pred HHHHHHHHHHHHHHHHHhcC-Cceechhhhhhhhc---------CcHHHHhhhcCCeecCCCc
Q psy3662 55 LEYLVAEVLELAGNAARDNK-KTRIIPRHIQLAIR---------NDEELNKLLNGVTIAQGGV 107 (132)
Q Consensus 55 LEyl~~eIlelA~~~A~~~~-~k~Itp~~i~~AI~---------~D~EL~~L~~~~~ia~ggv 107 (132)
||--+..|+++=-.++.++| .-.|+..++...+. .++|+..++.....-..|.
T Consensus 5 ~e~~~~~~i~~F~~y~~~~~~~g~Is~~EL~~~l~~~~~lg~k~t~~ev~~m~~~~D~d~dG~ 67 (88)
T cd05029 5 LDQAIGLLVAIFHKYSGREGDKNTLSKKELKELIQKELTIGSKLQDAEIAKLMEDLDRNKDQE 67 (88)
T ss_pred HHHHHHHHHHHHHHHHccCCCCCEECHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhcCCCCCC
Confidence 45556667777777777555 67899999988873 4577888886544433343
No 102
>CHL00095 clpC Clp protease ATP binding subunit
Probab=24.98 E-value=67 Score=29.72 Aligned_cols=33 Identities=18% Similarity=0.204 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHHhcCCceechhhhhhhhcCcHH
Q psy3662 60 AEVLELAGNAARDNKKTRIIPRHIQLAIRNDEE 92 (132)
Q Consensus 60 ~eIlelA~~~A~~~~~k~Itp~~i~~AI~~D~E 92 (132)
.+++..|...|...+...|+|+|+-+|+-.+++
T Consensus 10 ~~vL~~A~~~A~~~~h~~V~~EHLLLaLL~~~~ 42 (821)
T CHL00095 10 IKVIMLSQEEARRLGHNFVGTEQILLGLIGEGT 42 (821)
T ss_pred HHHHHHHHHHHHHhCCCcCcHHHHHHHHHhCCC
Confidence 457788999999999999999999999876644
No 103
>PRK09862 putative ATP-dependent protease; Provisional
Probab=24.77 E-value=70 Score=28.20 Aligned_cols=28 Identities=25% Similarity=0.335 Sum_probs=25.6
Q ss_pred HHHHHHHHHHHhcCCceechhhhhhhhc
Q psy3662 61 EVLELAGNAARDNKKTRIIPRHIQLAIR 88 (132)
Q Consensus 61 eIlelA~~~A~~~~~k~Itp~~i~~AI~ 88 (132)
-|+..|-..|.-.++..|+++||..|+.
T Consensus 463 rlLrvARTiADL~g~~~V~~~hv~eAl~ 490 (506)
T PRK09862 463 RLLKVARTIADIDQSDIITRQHLQEAVS 490 (506)
T ss_pred HHHHHHHHHHHHcCCCCCCHHHHHHHHH
Confidence 5888999999999999999999999985
No 104
>COG4430 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=24.61 E-value=83 Score=24.52 Aligned_cols=48 Identities=21% Similarity=0.349 Sum_probs=32.0
Q ss_pred HHHHHHHHHHHHH--HHHHH-HhcCCceechhhhhhhhcCcHHHHhhhcCC
Q psy3662 53 AVLEYLVAEVLEL--AGNAA-RDNKKTRIIPRHIQLAIRNDEELNKLLNGV 100 (132)
Q Consensus 53 avLEyl~~eIlel--A~~~A-~~~~~k~Itp~~i~~AI~~D~EL~~L~~~~ 100 (132)
-++++.++|+++. +|..+ -......+.|++++.|+..++.|...|..-
T Consensus 109 ~mi~ayL~e~~~a~~aG~~~~~~~~~e~~IPeeLq~alda~palk~~f~~L 159 (200)
T COG4430 109 RMIKAYLAEAIAAEKAGRWVALKKNEELIIPEELQDALDANPALKTAFEAL 159 (200)
T ss_pred HHHHHHHHHHHHHHhcCCccCCCcccccCCcHHHHHHHhcCHHHHHHHHhc
Confidence 3455555655533 34432 222344689999999999999999999543
No 105
>PRK05574 holA DNA polymerase III subunit delta; Reviewed
Probab=24.52 E-value=1.8e+02 Score=22.97 Aligned_cols=63 Identities=17% Similarity=0.170 Sum_probs=36.1
Q ss_pred chhHHHHHHhhC--CcccccccChHHHHHHHHHH----HHHHHHHHHHHHHHhcCCceechhhhhhhhcCcHH
Q psy3662 26 PVGRIHRLLRKG--NYAERVGAGAPVYLAAVLEY----LVAEVLELAGNAARDNKKTRIIPRHIQLAIRNDEE 92 (132)
Q Consensus 26 Pv~ri~rllk~~--~~~~RVs~~A~vyLaavLEy----l~~eIlelA~~~A~~~~~k~Itp~~i~~AI~~D~E 92 (132)
+-..+..|+++. ...-.++.+|..||+..+.. +..|+-.++. -.+...||.++|+..+..+.+
T Consensus 147 ~~~~~~~~i~~~~~~~g~~i~~~a~~~L~~~~~~d~~~l~~El~KL~l----~~~~~~It~~~I~~~i~~~~~ 215 (340)
T PRK05574 147 KEAELPQWIQQRLKQQGLQIDAAALQLLAERVEGNLLALAQELEKLAL----LYPDGKITLEDVEEAVPDSAR 215 (340)
T ss_pred CHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhCchHHHHHHHHHHHHh----hcCCCCCCHHHHHHHHhhhhc
Confidence 344455555431 12336888899888877653 3334444442 222223999999977766554
No 106
>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB. Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins.
Probab=24.21 E-value=72 Score=29.69 Aligned_cols=33 Identities=27% Similarity=0.370 Sum_probs=28.6
Q ss_pred HHHHHHHHHHHHHhcCCceechhhhhhhhcCcH
Q psy3662 59 VAEVLELAGNAARDNKKTRIIPRHIQLAIRNDE 91 (132)
Q Consensus 59 ~~eIlelA~~~A~~~~~k~Itp~~i~~AI~~D~ 91 (132)
+..+++.|...|...+...|+|+||-+|+-.++
T Consensus 5 a~~vL~~A~~~A~~~~h~~V~~EHLLlaLl~~~ 37 (852)
T TIGR03346 5 FQEALQAAQSLALGRDHQQIEPEHLLKALLDQE 37 (852)
T ss_pred HHHHHHHHHHHHHHcCCCcccHHHHHHHHHhCC
Confidence 356778899999999999999999999987765
No 107
>PF09077 Phage-MuB_C: Mu B transposition protein, C terminal ; InterPro: IPR009084 Bacteriophage Mu can integrate into the host bacterial genome and replicate via transposition. Mu requires the activity of four proteins for DNA transposition. Two of these proteins are the phage-encoded A and B transposition proteins, while the other two are host-specified accessory factors HU and IHF. These four proteins can form nucleoprotein complexes (transposomes), which enable strand transfer. The stable protein-DNA intermediate is subsequently disassembled prior to DNA replication by host proteins. The Mu B transposition protein is an ATP-dependent, DNA-binding protein required for target capture and immunity, as well as for activating transpososome function []. The C-terminal domain of the B transposition protein is believed to be involved in both DNA-binding and protein-protein contacts with the Mu A transposition protein. The structure of the C-terminal domain consists of four helices in an irregular array [].; GO: 0003677 DNA binding, 0006313 transposition, DNA-mediated; PDB: 1F6V_A.
Probab=22.62 E-value=30 Score=22.98 Aligned_cols=29 Identities=28% Similarity=0.394 Sum_probs=20.0
Q ss_pred HHHHHHHHHHHHHhcCCceechhhhhhhhc
Q psy3662 59 VAEVLELAGNAARDNKKTRIIPRHIQLAIR 88 (132)
Q Consensus 59 ~~eIlelA~~~A~~~~~k~Itp~~i~~AI~ 88 (132)
+...|.+|.-.|...+.. |+..||..|-+
T Consensus 48 l~ktLrlA~m~A~g~g~~-i~~~~i~~A~~ 76 (78)
T PF09077_consen 48 LTKTLRLAAMFAKGEGEA-ITADHIRAAWK 76 (78)
T ss_dssp HHHHHGGGT-TT-TTS---SSHHHHHHHHT
T ss_pred HHHHHHHHHHHhccCCCc-CCHHHHHHHHH
Confidence 346778888888887776 99999998863
No 108
>PF00979 Reovirus_cap: Reovirus outer capsid protein, Sigma 3; InterPro: IPR000153 Reoviruses are double-stranded RNA viruses that lack a membrane envelope. Their capsid is organised in two concentric icosahedral layers: an inner core and an outer capsid layer. The outer capsid is made up of the major proteins mu1 and sigma3, and the minor protein sigma1. The inner core structure is composed of the major core proteins lambda1 and sigma2, core spike protein lambda2, and minor core proteins lambda3 and mu2. The inner core encases the 10 segments of double-stranded RNA (dsRNA) which comprise the genome [].; GO: 0005198 structural molecule activity, 0019058 viral infectious cycle; PDB: 1FN9_A 1JMU_I.
Probab=22.05 E-value=81 Score=26.80 Aligned_cols=45 Identities=18% Similarity=0.219 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhcCCceech-------hhhhhhhcCcHHHHh
Q psy3662 51 LAAVLEYLVAEVLELAGNAARDNKKTRIIP-------RHIQLAIRNDEELNK 95 (132)
Q Consensus 51 LaavLEyl~~eIlelA~~~A~~~~~k~Itp-------~~i~~AI~~D~EL~~ 95 (132)
.++.|..++..|.+.....++......+.+ +-+..-+.-|+|+|.
T Consensus 103 yav~L~~~~d~v~~a~~~~~~~~~~~~v~~~~~~~~tEs~~~D~~idpdfWt 154 (367)
T PF00979_consen 103 YAVWLHEIADHVDEADQREVDEPGGSRVAPNDIVVRTESIRSDVAIDPDFWT 154 (367)
T ss_dssp HHHHHHHHHCTS-HHHHHHHHHC-EEEEE--GGGSSTTSTTT-TT-----TT
T ss_pred HHHHHHHHHhhcChhhcccccccccccccccceeeccccccccccccccccc
Confidence 467888889999999999999999888888 555555666766654
No 109
>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=21.70 E-value=1.1e+02 Score=25.42 Aligned_cols=46 Identities=15% Similarity=0.039 Sum_probs=31.1
Q ss_pred ccccChHHHHHHHHHHHHH-------HHHHHHHHHHHhcCCceechhhhhhhh
Q psy3662 42 RVGAGAPVYLAAVLEYLVA-------EVLELAGNAARDNKKTRIIPRHIQLAI 87 (132)
Q Consensus 42 RVs~~A~vyLaavLEyl~~-------eIlelA~~~A~~~~~k~Itp~~i~~AI 87 (132)
.|++....|++.+..-+-. .++..|--.|--.|+..++|+||+.++
T Consensus 254 ~v~d~~~~~i~~l~~~~~~~s~Ra~i~l~raArA~Aal~GR~~V~~dDv~~~a 306 (337)
T TIGR02030 254 TIPYDVLVKVAELCAELDVDGLRGELTLNRAAKALAAFEGRTEVTVDDIRRVA 306 (337)
T ss_pred cCCHHHHHHHHHHHHHHCCCCCcHHHHHHHHHHHHHHHcCCCCCCHHHHHHHH
Confidence 4555666666665554432 145556666777899999999999765
No 110
>PF13376 OmdA: Bacteriocin-protection, YdeI or OmpD-Associated
Probab=21.55 E-value=66 Score=19.79 Aligned_cols=24 Identities=13% Similarity=0.398 Sum_probs=20.5
Q ss_pred eechhhhhhhhcCcHHHHhhhcCC
Q psy3662 77 RIIPRHIQLAIRNDEELNKLLNGV 100 (132)
Q Consensus 77 ~Itp~~i~~AI~~D~EL~~L~~~~ 100 (132)
...|.||..++..|++.+..|...
T Consensus 4 ~~vP~dl~~aL~~~p~a~~~f~~l 27 (63)
T PF13376_consen 4 VEVPEDLEAALEANPEAKEFFESL 27 (63)
T ss_pred CCCCHHHHHHHHCCHHHHHHHHHC
Confidence 467999999999999999988543
No 111
>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family. Members of this protein family are homologs of ClpB, an ATPase associated with chaperone-related functions. These ClpB homologs, designated ClpV1, are a key component of the bacterial pathogenicity-associated type VI secretion system.
Probab=21.00 E-value=1.1e+02 Score=28.68 Aligned_cols=32 Identities=19% Similarity=0.169 Sum_probs=27.7
Q ss_pred HHHHHHHHHHHHHhcCCceechhhhhhhhcCc
Q psy3662 59 VAEVLELAGNAARDNKKTRIIPRHIQLAIRND 90 (132)
Q Consensus 59 ~~eIlelA~~~A~~~~~k~Itp~~i~~AI~~D 90 (132)
+.++++.|...|...+...|+|+||-+|+-.+
T Consensus 5 a~~~L~~A~~~A~~~~h~~I~~eHLLlaLL~~ 36 (852)
T TIGR03345 5 SRRALEQAAALCVARGHPEVELEHWLLALLDQ 36 (852)
T ss_pred HHHHHHHHHHHHHHhCCCcccHHHHHHHHHhc
Confidence 35678899999999999999999999998655
No 112
>PF02742 Fe_dep_repr_C: Iron dependent repressor, metal binding and dimerisation domain; InterPro: IPR001367 The diphtheria toxin repressor protein (DTXR) is a member of this group []. In Corynebacterium diphtheriae where it has been studied in some detail this protein acts as an iron-binding repressor of dipheteria toxin gene expression and may serve as a global regulator of gene expression. The N terminus may be involved in iron binding and may associate with the Tox operator. Binding of DTXR to Tox operator requires a divalent metal ion such as cobalt, ferric, manganese and nickel whereas zinc shows weak activation [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0005506 iron ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2X4H_D 2H09_A 1ON1_B 2HYF_C 2F5E_A 3R60_B 1ON2_B 2F5F_A 2F5D_A 3R61_A ....
Probab=20.76 E-value=1.9e+02 Score=18.02 Aligned_cols=50 Identities=28% Similarity=0.441 Sum_probs=26.6
Q ss_pred HHHHHHHHHHHHHHHHHHHhcCCceechhhhhhhhcCcHHHHhh---hc-CCeecCCCcCC
Q psy3662 53 AVLEYLVAEVLELAGNAARDNKKTRIIPRHIQLAIRNDEELNKL---LN-GVTIAQGGVLP 109 (132)
Q Consensus 53 avLEyl~~eIlelA~~~A~~~~~k~Itp~~i~~AI~~D~EL~~L---~~-~~~ia~ggv~P 109 (132)
.+||.|+.++|......|.. .+..|+..| +++-++.| ++ -...+.|+.+|
T Consensus 16 ~~le~fl~~~lgv~~~~a~~------~A~~iEH~i-s~e~~~~l~~~l~~~~~~P~~~~ip 69 (71)
T PF02742_consen 16 RILEEFLVEVLGVDEEEAEE------EACRIEHVI-SPETIERLCKFLGFPETCPHGNPIP 69 (71)
T ss_dssp HHHHHHHHHTTT--HHHHHH------HHHHHGCCS--HHHHHHHHHHTTCTSBETTSCBST
T ss_pred HHHHHHHHHHhCCCHHHHHH------HHHHHHccC-CHHHHHHHHHHhcCCCcCcCCCCCC
Confidence 57888888888877776655 455555555 33333333 32 22345555555
No 113
>KOG1051|consensus
Probab=20.67 E-value=99 Score=29.38 Aligned_cols=48 Identities=23% Similarity=0.323 Sum_probs=36.0
Q ss_pred HHHHHHH---HHHHHHHHHHHhcCCceechhhhhhhhcCcHHHHhhhcCCeec
Q psy3662 54 VLEYLVA---EVLELAGNAARDNKKTRIIPRHIQLAIRNDEELNKLLNGVTIA 103 (132)
Q Consensus 54 vLEyl~~---eIlelA~~~A~~~~~k~Itp~~i~~AI~~D~EL~~L~~~~~ia 103 (132)
+-|.||. .+|..|...|+..+..-+||.|+-.++-.++ ..++....+.
T Consensus 8 ~~q~lT~~Aa~~L~~a~~~Arrrgh~qvtplH~~~~LLs~~--t~~lr~ac~~ 58 (898)
T KOG1051|consen 8 VQQTLTEEAATVLKQAVTEARRRGHAQVTPLHVASTLLSSP--TGILRRACIK 58 (898)
T ss_pred hHhhhCHHHHHHHHHHHHHHHHcCCCCcchHHHHHHHHcCC--chHHHHHHHh
Confidence 3444544 5899999999999999999999999887765 4555444443
No 114
>PF09377 SBDS_C: SBDS protein C-terminal domain; InterPro: IPR018978 This entry represents the C-terminal domain of proteins that are highly conserved in species ranging from archaea to vertebrates and plants []. The family contains several Shwachman-Bodian-Diamond syndrome (SBDS, OMIM 260400) proteins from both mouse and humans. Shwachman-Diamond syndrome is an autosomal recessive disorder with clinical features that include pancreatic exocrine insufficiency, haematological dysfunction and skeletal abnormalities. It is characterised by bone marrow failure and leukemia predisposition. Members of this family play a role in RNA metabolism [, ]. In yeast Sdo1 is involved in the biogenesis of the 60S ribosomal subunit and translational activation of ribosomes. Together with the EF-2-like GTPase RIA1 (EfI1), it triggers the GTP-dependent release of TIF6 from 60S pre-ribosomes in the cytoplasm, thereby activating ribosomes for translation competence by allowing 80S ribosome assembly and facilitating TIF6 recycling to the nucleus, where it is required for 60S rRNA processing and nuclear export. This data links defective late 60S subunit maturation to an inherited bone marrow failure syndrome associated with leukemia predisposition []. A number of uncharacterised hydrophilic proteins of about 30 kDa share regions of similarity. These include, Mouse protein 22A3. Saccharomyces cerevisiae chromosome XII hypothetical protein YLR022c. Caenorhabditis elegans hypothetical protein W06E11.4. Methanocaldococcus jannaschii (Methanococcus jannaschii) hypothetical protein MJ0592. ; GO: 0042254 ribosome biogenesis; PDB: 2KDO_A 2L9N_A 2WBM_B 1P9Q_C 1T95_A.
Probab=20.38 E-value=2.3e+02 Score=19.97 Aligned_cols=30 Identities=17% Similarity=0.390 Sum_probs=20.4
Q ss_pred ccccccchhHHHHHHhhCCcccccccChHH
Q psy3662 20 RAGLQFPVGRIHRLLRKGNYAERVGAGAPV 49 (132)
Q Consensus 20 ragl~fPv~ri~rllk~~~~~~RVs~~A~v 49 (132)
+.+..+|+++|++.|++..++-....+|-.
T Consensus 18 ~T~rP~p~~~IE~Am~e~~~~v~p~ksak~ 47 (125)
T PF09377_consen 18 RTNRPYPPTRIEKAMKEAHFSVDPNKSAKQ 47 (125)
T ss_dssp TTTBTT-HHHHHHHHHHTTS-SSTTS-HHH
T ss_pred CCCCCCCHHHHHHHHHhCCcccCCCCCHHH
Confidence 568899999999999887665455555543
No 115
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=20.32 E-value=1.1e+02 Score=28.00 Aligned_cols=34 Identities=26% Similarity=0.237 Sum_probs=28.5
Q ss_pred HHHHHHHHHHHHHhcCCceechhhhhhhhcCcHH
Q psy3662 59 VAEVLELAGNAARDNKKTRIIPRHIQLAIRNDEE 92 (132)
Q Consensus 59 ~~eIlelA~~~A~~~~~k~Itp~~i~~AI~~D~E 92 (132)
+.++|+.|..+|...+...|.++|+-+|+-.|.+
T Consensus 82 lk~vL~~A~~~A~~~g~~~I~teHLLLALl~~~~ 115 (731)
T TIGR02639 82 VQRVLQRALLHVKSAGKKEIGIGDILVALFDEED 115 (731)
T ss_pred HHHHHHHHHHHHHHcCCCccCHHHHHHHHhcCcc
Confidence 3568888888899999999999999999876643
No 116
>PF01470 Peptidase_C15: Pyroglutamyl peptidase This is family C15 in the peptidase classification. ; InterPro: IPR000816 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This group of cysteine peptidases belong to MEROPS peptidase family C15 (pyroglutamyl peptidase I, clan CF). The type example being pyroglutamyl peptidase I of Bacillus amyloliquefaciens. Pyroglutamyl/pyrrolidone carboxyl peptidase (Pcp or PYRase) is an exopeptidase that hydrolytically removes the pGlu from pGlu-peptides or pGlu-proteins [, ]. PYRase has been found in prokaryotes and eukaryotes where at least two different classes have been characterised: the first containing bacterial and animal type I PYRases, and the second containing animal type II and serum PYRases. Type I and bacterial PYRases are soluble enzymes, while type II PYRases are membrane-bound. The primary application of PYRase has been its utilisation for protein or peptide sequencing, and bacterial diagnosis []. The conserved residues Cys-144 and His-168 have been identified by inhibition and mutagenesis studies [, ].; GO: 0006508 proteolysis; PDB: 1A2Z_A 1IU8_A 3RNZ_A 3RO0_D 1AUG_D 2EBJ_A 3LAC_A 1X12_B 1Z8X_B 1X10_C ....
Probab=20.22 E-value=1.2e+02 Score=23.13 Aligned_cols=42 Identities=21% Similarity=0.290 Sum_probs=28.5
Q ss_pred cccchhHHHHHHhhCCcccccccChHHHHHHHHHHHHHHHHH
Q psy3662 23 LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVLEYLVAEVLE 64 (132)
Q Consensus 23 l~fPv~ri~rllk~~~~~~RVs~~A~vyLaavLEyl~~eIle 64 (132)
..+|+..|-+-|++..+.-.+|.+|--||+-.+=|.+....+
T Consensus 113 t~lp~~~l~~~l~~~gip~~~S~dAG~YlCN~~~Y~sl~~~~ 154 (202)
T PF01470_consen 113 TTLPVRALVEALREAGIPVEISNDAGRYLCNYIYYRSLHHAE 154 (202)
T ss_dssp -BS-HHHHHHHHHHTT--EEEES---SSHHHHHHHHHHHHHH
T ss_pred cCCCHHHHHHHHHHcCCCCcccCChhhhHHHHHHHHHHHHHh
Confidence 469999998888887677799999999998888777665443
Done!