Query 032701
Match_columns 135
No_of_seqs 115 out of 495
Neff 5.7
Searched_HMMs 46136
Date Fri Mar 29 04:50:45 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032701.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/032701hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN00154 histone H2A; Provisio 100.0 7.5E-52 1.6E-56 307.8 12.2 135 1-135 1-136 (136)
2 PTZ00017 histone H2A; Provisio 100.0 7.6E-49 1.6E-53 291.6 11.2 110 24-134 14-124 (134)
3 PLN00157 histone H2A; Provisio 100.0 8.4E-49 1.8E-53 290.7 10.9 109 24-133 13-122 (132)
4 PLN00153 histone H2A; Provisio 100.0 1.2E-48 2.6E-53 288.9 10.4 110 24-134 11-121 (129)
5 PLN00156 histone H2AX; Provisi 100.0 3.4E-48 7.4E-53 289.2 11.3 110 23-133 15-125 (139)
6 PTZ00252 histone H2A; Provisio 100.0 9.7E-48 2.1E-52 284.9 10.3 108 23-131 11-121 (134)
7 smart00414 H2A Histone 2A. 100.0 3.4E-46 7.3E-51 268.5 9.6 104 29-133 1-105 (106)
8 cd00074 H2A Histone 2A; H2A is 100.0 1.3E-45 2.8E-50 268.8 11.2 110 22-132 5-115 (115)
9 KOG1756 Histone 2A [Chromatin 100.0 7.7E-46 1.7E-50 272.1 9.3 109 24-133 14-123 (131)
10 COG5262 HTA1 Histone H2A [Chro 100.0 2.8E-45 6E-50 266.5 9.0 111 24-135 13-124 (132)
11 KOG1757 Histone 2A [Chromatin 100.0 6.4E-41 1.4E-45 242.3 5.2 111 24-134 17-127 (131)
12 PLN00155 histone H2A; Provisio 99.8 1.1E-21 2.5E-26 127.1 4.2 48 24-72 11-58 (58)
13 PF00125 Histone: Core histone 99.6 7.5E-15 1.6E-19 97.8 6.2 74 31-104 2-75 (75)
14 COG5247 BUR6 Class 2 transcrip 99.5 7.8E-14 1.7E-18 99.8 7.5 80 33-113 19-98 (113)
15 KOG1659 Class 2 transcription 99.2 2.5E-11 5.3E-16 96.6 6.7 79 33-112 9-87 (224)
16 PF00808 CBFD_NFYB_HMF: Histon 98.9 5.3E-09 1.2E-13 68.2 7.3 64 37-101 2-65 (65)
17 PLN00035 histone H4; Provision 98.5 2.2E-07 4.9E-12 66.8 5.8 75 24-102 18-92 (103)
18 PTZ00015 histone H4; Provision 98.4 9.6E-07 2.1E-11 63.4 6.3 75 24-102 19-93 (102)
19 smart00803 TAF TATA box bindin 98.3 4.2E-06 9.1E-11 55.3 7.0 64 37-102 2-65 (65)
20 KOG1657 CCAAT-binding factor, 98.0 4.3E-06 9.3E-11 67.8 3.8 83 30-113 67-149 (236)
21 COG2036 HHT1 Histones H3 and H 98.0 1.5E-05 3.3E-10 56.1 5.9 66 35-102 17-82 (91)
22 COG5208 HAP5 CCAAT-binding fac 98.0 2.2E-05 4.7E-10 63.5 6.3 76 36-112 108-183 (286)
23 cd00076 H4 Histone H4, one of 97.9 3.8E-05 8.3E-10 53.4 5.5 70 30-103 8-77 (85)
24 smart00417 H4 Histone H4. 97.5 0.00029 6.2E-09 47.9 5.5 60 38-99 14-73 (74)
25 cd07981 TAF12 TATA Binding Pro 97.3 0.0016 3.5E-08 43.5 6.9 65 39-104 3-67 (72)
26 cd08048 TAF11 TATA Binding Pro 97.2 0.0019 4.2E-08 44.8 7.0 63 38-102 17-82 (85)
27 PF04719 TAFII28: hTAFII28-lik 97.0 0.0034 7.4E-08 44.1 6.3 64 38-102 24-88 (90)
28 PLN00158 histone H2B; Provisio 96.9 0.0052 1.1E-07 45.1 7.4 61 41-102 31-91 (116)
29 PF02969 TAF: TATA box binding 96.9 0.0052 1.1E-07 40.8 6.8 64 37-102 3-66 (66)
30 PTZ00463 histone H2B; Provisio 96.7 0.017 3.6E-07 42.5 8.6 60 42-102 33-92 (117)
31 cd07979 TAF9 TATA Binding Prot 96.7 0.0066 1.4E-07 44.3 6.6 61 41-103 5-65 (117)
32 KOG3219 Transcription initiati 96.6 0.0037 8.1E-08 49.5 4.6 65 36-102 111-176 (195)
33 cd08050 TAF6 TATA Binding Prot 96.2 0.015 3.2E-07 49.2 6.3 58 43-102 5-62 (343)
34 smart00427 H2B Histone H2B. 96.0 0.034 7.3E-07 39.1 6.6 60 42-102 6-65 (89)
35 smart00428 H3 Histone H3. 95.5 0.074 1.6E-06 38.4 6.7 69 34-102 26-99 (105)
36 smart00576 BTP Bromodomain tra 95.4 0.079 1.7E-06 35.5 6.4 59 43-103 12-70 (77)
37 PF09415 CENP-X: CENP-S associ 94.4 0.2 4.2E-06 33.7 6.1 62 39-100 1-64 (72)
38 KOG3467 Histone H4 [Chromatin 94.1 0.12 2.6E-06 36.5 4.7 76 23-102 17-92 (103)
39 KOG0869 CCAAT-binding factor, 94.0 0.22 4.9E-06 38.5 6.3 65 38-102 33-97 (168)
40 PF15511 CENP-T: Centromere ki 93.7 0.2 4.3E-06 43.6 6.3 73 24-96 338-414 (414)
41 KOG1744 Histone H2B [Chromatin 93.5 0.67 1.5E-05 34.6 8.0 73 28-102 29-101 (127)
42 PF15630 CENP-S: Kinetochore c 92.8 0.55 1.2E-05 31.9 6.2 48 60-107 26-76 (76)
43 KOG0871 Class 2 transcription 92.2 0.67 1.5E-05 35.6 6.6 70 33-103 8-78 (156)
44 PF03847 TFIID_20kDa: Transcri 91.2 1.4 3.1E-05 29.2 6.6 61 42-103 4-64 (68)
45 KOG1658 DNA polymerase epsilon 90.6 0.31 6.7E-06 37.6 3.3 76 35-112 57-133 (162)
46 PF02291 TFIID-31kDa: Transcri 87.9 2.9 6.2E-05 31.1 6.8 59 40-103 15-76 (129)
47 PTZ00018 histone H3; Provision 87.8 2 4.4E-05 32.3 5.9 68 35-102 60-130 (136)
48 PLN00121 histone H3; Provision 87.3 2.3 4.9E-05 32.1 5.9 68 35-102 60-130 (136)
49 PF07524 Bromo_TP: Bromodomain 87.1 3.7 8E-05 27.1 6.4 58 43-102 12-69 (77)
50 cd07978 TAF13 The TATA Binding 86.5 2.8 6E-05 29.3 5.7 36 70-106 31-69 (92)
51 PLN00160 histone H3; Provision 84.4 2.5 5.4E-05 30.1 4.7 68 35-102 19-90 (97)
52 KOG0870 DNA polymerase epsilon 83.8 5.5 0.00012 31.1 6.7 68 35-102 8-76 (172)
53 PLN00161 histone H3; Provision 83.0 4.6 0.0001 30.4 5.8 69 34-102 52-124 (135)
54 PF02861 Clp_N: Clp amino term 82.8 1.5 3.2E-05 26.2 2.6 34 80-113 1-36 (53)
55 PF02269 TFIID-18kDa: Transcri 80.9 2 4.4E-05 29.9 3.1 46 62-107 22-70 (93)
56 COG5251 TAF40 Transcription in 77.9 4.1 8.9E-05 32.1 4.2 63 38-102 116-179 (199)
57 KOG1142 Transcription initiati 74.4 6.1 0.00013 32.8 4.6 68 38-106 155-222 (258)
58 PLN00163 histone H4; Provision 71.3 1.8 4E-05 28.2 0.7 34 23-60 17-50 (59)
59 KOG1745 Histones H3 and H4 [Ch 69.9 5.7 0.00012 30.0 3.2 63 39-102 68-131 (137)
60 PF13335 Mg_chelatase_2: Magne 57.7 28 0.00061 24.1 4.7 48 55-102 41-94 (96)
61 PF08369 PCP_red: Proto-chloro 56.0 31 0.00068 20.9 4.1 27 74-100 18-44 (45)
62 PRK11034 clpA ATP-dependent Cl 48.7 31 0.00066 32.5 4.7 40 73-112 6-45 (758)
63 PF13654 AAA_32: AAA domain; P 48.6 38 0.00083 30.4 5.1 30 74-103 476-505 (509)
64 KOG3334 Transcription initiati 47.4 93 0.002 23.8 6.3 57 42-103 18-77 (148)
65 PF12096 DUF3572: Protein of u 46.7 10 0.00022 26.6 1.0 56 41-101 22-80 (88)
66 COG5150 Class 2 transcription 46.0 1.1E+02 0.0023 23.2 6.3 68 35-104 9-78 (148)
67 TIGR02639 ClpA ATP-dependent C 45.0 36 0.00078 31.5 4.6 39 74-112 6-44 (731)
68 COG3636 Predicted transcriptio 45.0 36 0.00078 24.4 3.6 53 60-112 22-83 (100)
69 COG5094 TAF9 Transcription ini 43.6 1.2E+02 0.0026 22.8 6.3 63 40-104 17-82 (145)
70 COG1067 LonB Predicted ATP-dep 40.1 38 0.00082 31.5 3.9 38 74-111 369-406 (647)
71 KOG2549 Transcription initiati 37.1 1.5E+02 0.0032 27.5 7.0 57 45-102 18-74 (576)
72 COG4430 Uncharacterized protei 36.2 37 0.00079 27.2 2.7 27 87-113 132-158 (200)
73 KOG4552 Vitamin-D-receptor int 35.5 60 0.0013 26.6 3.9 49 65-113 16-65 (272)
74 PF15510 CENP-W: Centromere ki 34.9 1.2E+02 0.0026 21.6 4.9 64 37-101 16-93 (102)
75 COG4905 Predicted membrane pro 34.5 40 0.00087 27.3 2.7 22 61-82 70-91 (243)
76 CHL00095 clpC Clp protease ATP 33.1 61 0.0013 30.5 4.1 33 74-106 10-42 (821)
77 PF04604 L_biotic_typeA: Type- 32.4 27 0.00059 22.1 1.2 22 103-126 16-37 (51)
78 TIGR01128 holA DNA polymerase 30.6 1.9E+02 0.004 22.8 6.1 67 40-106 113-180 (302)
79 PHA02943 hypothetical protein; 30.6 1.3E+02 0.0028 23.5 4.8 41 73-113 76-116 (165)
80 PF02681 DUF212: Divergent PAP 30.1 1.2E+02 0.0026 22.9 4.6 25 62-86 5-29 (141)
81 TIGR02928 orc1/cdc6 family rep 30.1 2.8E+02 0.006 22.6 7.2 62 41-102 202-272 (365)
82 TIGR03346 chaperone_ClpB ATP-d 29.9 84 0.0018 29.8 4.5 40 73-112 5-46 (852)
83 TIGR02263 benz_CoA_red_C benzo 29.8 1E+02 0.0023 26.2 4.7 45 68-113 136-180 (380)
84 PF13376 OmdA: Bacteriocin-pro 29.6 55 0.0012 20.7 2.3 23 91-113 4-26 (63)
85 KOG1658 DNA polymerase epsilon 29.5 1E+02 0.0023 23.9 4.2 74 34-113 8-81 (162)
86 PF09123 DUF1931: Domain of un 27.4 55 0.0012 24.8 2.3 53 44-98 2-54 (138)
87 TIGR03345 VI_ClpV1 type VI sec 27.3 95 0.0021 29.6 4.4 40 73-112 5-46 (852)
88 PRK00411 cdc6 cell division co 26.5 2.9E+02 0.0064 22.8 6.8 69 35-103 201-281 (394)
89 PRK10865 protein disaggregatio 25.1 1.2E+02 0.0025 29.0 4.5 39 73-111 10-50 (857)
90 cd05031 S-100A10_like S-100A10 24.8 2.2E+02 0.0047 18.9 5.7 51 69-119 3-66 (94)
91 COG1474 CDC6 Cdc6-related prot 24.3 99 0.0021 26.5 3.6 73 35-108 184-268 (366)
92 COG5095 TAF6 Transcription ini 23.5 3.5E+02 0.0075 23.8 6.6 47 56-102 22-68 (450)
93 CHL00095 clpC Clp protease ATP 22.7 1.2E+02 0.0026 28.6 4.1 33 74-106 85-117 (821)
94 PRK05574 holA DNA polymerase I 22.2 2.8E+02 0.0061 22.2 5.8 47 56-106 165-215 (340)
95 PF12767 SAGA-Tad1: Transcript 21.6 1.9E+02 0.0042 23.1 4.7 40 41-82 210-249 (252)
96 TIGR00764 lon_rel lon-related 21.4 1.3E+02 0.0028 27.6 3.9 31 74-104 361-391 (608)
97 COG0375 HybF Zn finger protein 21.2 86 0.0019 23.0 2.3 49 72-120 6-61 (115)
98 PHA01971 hypothetical protein 20.6 71 0.0015 23.8 1.7 21 84-104 12-32 (123)
99 TIGR02639 ClpA ATP-dependent C 20.4 1.3E+02 0.0027 28.0 3.7 34 73-106 82-115 (731)
100 PF09377 SBDS_C: SBDS protein 20.2 1E+02 0.0022 22.4 2.5 21 33-53 18-38 (125)
No 1
>PLN00154 histone H2A; Provisional
Probab=100.00 E-value=7.5e-52 Score=307.75 Aligned_cols=135 Identities=88% Similarity=1.234 Sum_probs=123.0
Q ss_pred CCCCCCCcccccccc-ccCCCCCCCCCCCCcccccCcccchhHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHH
Q 032701 1 MSGKGAKGLITGKTT-INNNKDKDKKKPVSRSSRAGLQFPVGRVHRLLKERAAAHGRVGATAAVYTAAILEYLTAEVLEL 79 (135)
Q Consensus 1 ~~~~~~~~~~~~~~~-~~~~~~~~~~~~~s~SsRagL~FPVsrv~r~L~~~~~~~~RIs~~ApVyLaAvLEYL~aEILel 79 (135)
|++++||+|+|||.. .+..+...+++..|||+||||||||+||+|+|+++++..+||+++|||||+||||||++|||||
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~~k~~srS~rAgL~FPVgRi~r~Lk~g~~~~~RVga~ApVYLAAVLEYLtAEVLEL 80 (136)
T PLN00154 1 MSGKGGKGLLAAKTTAAAAKKDKDKKKPTSRSSRAGLQFPVGRIHRQLKQRVSAHGRVGATAAVYTAAILEYLTAEVLEL 80 (136)
T ss_pred CCCccccccccCCcCCcccccccCCcCCcCcccccCccCchHHHHHHHHhhhhhccccccchHHHHHHHHHHHHHHHHHH
Confidence 889999999998853 2334455567899999999999999999999999984334999999999999999999999999
Q ss_pred HHHHHHhCCCceechhhHHHHhhCChHHHHHhhccccCCcccCCCccccccccCCC
Q 032701 80 AGNASKDLKVKRITPRHLQLAIRGDEELDTLIKGTIAGGGVIPHIHKSLINKSSKE 135 (135)
Q Consensus 80 Ag~~A~~~~~~rItP~hI~~aI~nD~EL~~L~~~~ia~ggv~p~i~~~l~~~~~~~ 135 (135)
|+|+|++++++||+|+||++||+||+||++||+.||++|||+|+||++|+|++.++
T Consensus 81 AGNaA~d~kk~RItPrHi~lAIrnDeEL~~Ll~~TIa~GGVlP~i~~~l~~k~~~~ 136 (136)
T PLN00154 81 AGNASKDLKVKRITPRHLQLAIRGDEELDTLIKGTIAGGGVIPHIHKSLINKSTKK 136 (136)
T ss_pred HHHHHHhhCCceecHHHhhhhccCcHHHHHHhcCCccCCccCCCcchhhcccccCC
Confidence 99999999999999999999999999999999889999999999999999999764
No 2
>PTZ00017 histone H2A; Provisional
Probab=100.00 E-value=7.6e-49 Score=291.64 Aligned_cols=110 Identities=75% Similarity=1.064 Sum_probs=106.5
Q ss_pred CCCCCCcccccCcccchhHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHHhhC
Q 032701 24 KKKPVSRSSRAGLQFPVGRVHRLLKERAAAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRG 103 (135)
Q Consensus 24 ~~~~~s~SsRagL~FPVsrv~r~L~~~~~~~~RIs~~ApVyLaAvLEYL~aEILelAg~~A~~~~~~rItP~hI~~aI~n 103 (135)
++++.|+|+||||||||+||+|||++++|+. ||+++|||||+||||||++||||||+|+|++++++||+|+||++||+|
T Consensus 14 ~~k~~srS~ragL~FPVgRi~R~Lk~g~~a~-RV~a~A~VYLAAVLEYLtaEILELAgNaa~d~kk~RItPrHi~lAI~n 92 (134)
T PTZ00017 14 KKKPVSRSAKAGLQFPVGRVHRYLKKGRYAK-RVGAGAPVYLAAVLEYLTAEVLELAGNAAKDNKKKRITPRHIQLAIRN 92 (134)
T ss_pred CcCcccccccCCcccchHHHHHHHhccchhc-cccccchhhhHHHHHHHHHHHHHHHHHHHHhcCCCeecHHHHHhhccC
Confidence 4578999999999999999999999999996 999999999999999999999999999999999999999999999999
Q ss_pred ChHHHHHhhc-cccCCcccCCCccccccccCC
Q 032701 104 DEELDTLIKG-TIAGGGVIPHIHKSLINKSSK 134 (135)
Q Consensus 104 D~EL~~L~~~-~ia~ggv~p~i~~~l~~~~~~ 134 (135)
|+||++||++ ||++|||+|+||++|+|++.+
T Consensus 93 DeEL~~Ll~~vtIa~GGV~P~i~~~l~~k~~~ 124 (134)
T PTZ00017 93 DEELNKLLAGVTIASGGVLPNIHKVLLPKKSK 124 (134)
T ss_pred cHHHHHHHcCCcccCCccCCCccHhhccCCCC
Confidence 9999999999 999999999999999999874
No 3
>PLN00157 histone H2A; Provisional
Probab=100.00 E-value=8.4e-49 Score=290.66 Aligned_cols=109 Identities=64% Similarity=0.947 Sum_probs=106.1
Q ss_pred CCCCCCcccccCcccchhHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHHhhC
Q 032701 24 KKKPVSRSSRAGLQFPVGRVHRLLKERAAAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRG 103 (135)
Q Consensus 24 ~~~~~s~SsRagL~FPVsrv~r~L~~~~~~~~RIs~~ApVyLaAvLEYL~aEILelAg~~A~~~~~~rItP~hI~~aI~n 103 (135)
+++..|+|+||||||||+||+|||++++|+. ||+++|||||+||||||++||||||+|+|++++++||+|+||++||+|
T Consensus 13 ~~k~~srS~ragL~FPVgRi~R~Lk~g~~a~-RIg~~A~VYLAAVLEYLtaEVLELAgnaa~d~kk~RItPrHi~lAI~n 91 (132)
T PLN00157 13 GKKATSRSAKAGLQFPVGRIARYLKAGKYAT-RVGAGAPVYLAAVLEYLAAEVLELAGNAARDNKKSRIVPRHIQLAVRN 91 (132)
T ss_pred CcCCcCcccccCcccchHHHHHHHhcCchhh-hcCCCcHhHHHHHHHHHHHHHHHHHHHHHHhcCCccccHHHHhhcccC
Confidence 4578999999999999999999999999996 999999999999999999999999999999999999999999999999
Q ss_pred ChHHHHHhhc-cccCCcccCCCccccccccC
Q 032701 104 DEELDTLIKG-TIAGGGVIPHIHKSLINKSS 133 (135)
Q Consensus 104 D~EL~~L~~~-~ia~ggv~p~i~~~l~~~~~ 133 (135)
|+||++||++ ||++|||+|+||++|+|+|.
T Consensus 92 DeEL~~Ll~~vtIa~GGV~P~i~~~ll~kk~ 122 (132)
T PLN00157 92 DEELSKLLGGVTIAAGGVLPNIHSVLLPKKS 122 (132)
T ss_pred cHHHHHHHcCceecCCccCCCcchhhcCCCC
Confidence 9999999999 99999999999999999986
No 4
>PLN00153 histone H2A; Provisional
Probab=100.00 E-value=1.2e-48 Score=288.90 Aligned_cols=110 Identities=65% Similarity=0.947 Sum_probs=106.2
Q ss_pred CCCCCCcccccCcccchhHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHHhhC
Q 032701 24 KKKPVSRSSRAGLQFPVGRVHRLLKERAAAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRG 103 (135)
Q Consensus 24 ~~~~~s~SsRagL~FPVsrv~r~L~~~~~~~~RIs~~ApVyLaAvLEYL~aEILelAg~~A~~~~~~rItP~hI~~aI~n 103 (135)
+++..|+|+||||||||+||+|||++++|+. ||+++|||||+||||||++||||||+|+|++++++||+|+||++||+|
T Consensus 11 ~~k~~srS~ragL~FpVgRi~R~Lr~g~~a~-Rvga~A~VYLAAVLEYLtaEVLELAgnaa~d~kk~RItPrHi~lAI~n 89 (129)
T PLN00153 11 GKKAVSRSAKAGLQFPVGRIARYLKKGKYAE-RIGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKNRIVPRHIQLAIRN 89 (129)
T ss_pred ccCccCcccccCcccchHHHHHHHhcCchhh-ccCCCchHHHHHHHHHHHHHHHHHHHHHHHhcCCCccChHHHHhhccC
Confidence 3467999999999999999999999999996 999999999999999999999999999999999999999999999999
Q ss_pred ChHHHHHhhc-cccCCcccCCCccccccccCC
Q 032701 104 DEELDTLIKG-TIAGGGVIPHIHKSLINKSSK 134 (135)
Q Consensus 104 D~EL~~L~~~-~ia~ggv~p~i~~~l~~~~~~ 134 (135)
|+||++||++ ||++|||+|+||++|+|+|.+
T Consensus 90 DeEL~~Ll~~vTIa~GGV~P~i~~~l~~kk~~ 121 (129)
T PLN00153 90 DEELGKLLGEVTIASGGVLPNIHAVLLPKKTK 121 (129)
T ss_pred cHHHHHHHCCCccCCCccCCCcchhhcCcccC
Confidence 9999999999 999999999999999999864
No 5
>PLN00156 histone H2AX; Provisional
Probab=100.00 E-value=3.4e-48 Score=289.21 Aligned_cols=110 Identities=62% Similarity=0.937 Sum_probs=107.1
Q ss_pred CCCCCCCcccccCcccchhHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHHhh
Q 032701 23 DKKKPVSRSSRAGLQFPVGRVHRLLKERAAAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIR 102 (135)
Q Consensus 23 ~~~~~~s~SsRagL~FPVsrv~r~L~~~~~~~~RIs~~ApVyLaAvLEYL~aEILelAg~~A~~~~~~rItP~hI~~aI~ 102 (135)
.+++++|+|+||||||||+||+|||++++|+. ||+++|||||+||||||++||||||+|+|++++++||+|+||++||+
T Consensus 15 ~~~k~~srS~rAgL~FPVgRi~R~Lk~g~ya~-RVga~ApVYLAAVLEYLtaEVLELAgNaa~d~kk~RItPrHi~lAIr 93 (139)
T PLN00156 15 KATKSVSRSSKAGLQFPVGRIARFLKAGKYAE-RVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAVR 93 (139)
T ss_pred cccCCcCcccccCcccchHHHHHHHhcCChhh-ccCCccHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCcHHHHHhhcc
Confidence 46788999999999999999999999999997 99999999999999999999999999999999999999999999999
Q ss_pred CChHHHHHhhc-cccCCcccCCCccccccccC
Q 032701 103 GDEELDTLIKG-TIAGGGVIPHIHKSLINKSS 133 (135)
Q Consensus 103 nD~EL~~L~~~-~ia~ggv~p~i~~~l~~~~~ 133 (135)
||+||++||++ ||++|||+|+||++|+|+|.
T Consensus 94 nDeEL~~Ll~~vTIa~GGV~P~i~~~l~~kk~ 125 (139)
T PLN00156 94 NDEELSKLLGSVTIAAGGVLPNIHQTLLPKKV 125 (139)
T ss_pred CcHHHHHHHCCCccCCCccCCCccHhhccccc
Confidence 99999999999 99999999999999999986
No 6
>PTZ00252 histone H2A; Provisional
Probab=100.00 E-value=9.7e-48 Score=284.94 Aligned_cols=108 Identities=51% Similarity=0.804 Sum_probs=101.9
Q ss_pred CCCCCCCcccccCcccchhHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHh--CCCceechhhHHHH
Q 032701 23 DKKKPVSRSSRAGLQFPVGRVHRLLKERAAAHGRVGATAAVYTAAILEYLTAEVLELAGNASKD--LKVKRITPRHLQLA 100 (135)
Q Consensus 23 ~~~~~~s~SsRagL~FPVsrv~r~L~~~~~~~~RIs~~ApVyLaAvLEYL~aEILelAg~~A~~--~~~~rItP~hI~~a 100 (135)
.++...++|+||||||||+||+|||++++|+. ||+++|||||+||||||++||||||+|+|++ ++++||+|+||++|
T Consensus 11 ~~~~~~~rS~rAGL~FPVgRi~R~Lr~g~ya~-RIga~ApVYLAAVLEYLtaEVLELAgnaa~d~~~kk~RItPrHi~lA 89 (134)
T PTZ00252 11 ASKSGSGRSAKAGLIFPVGRVGSLLRRGQYAR-RIGASGAVYMAAVLEYLTAELLELSVKAAAQQAKKPKRLTPRTVTLA 89 (134)
T ss_pred ccccccccccccCccCchHHHHHHHHcCCccc-ccCCccHHHHHHHHHHHHHHHHHHHHHHHHhccCCcccccHHHHHhh
Confidence 34444459999999999999999999999997 9999999999999999999999999999975 78899999999999
Q ss_pred hhCChHHHHHhhc-cccCCcccCCCccccccc
Q 032701 101 IRGDEELDTLIKG-TIAGGGVIPHIHKSLINK 131 (135)
Q Consensus 101 I~nD~EL~~L~~~-~ia~ggv~p~i~~~l~~~ 131 (135)
|+||+||++||++ ||++|||+|+||++|+|+
T Consensus 90 IrNDeEL~~Ll~~vTIa~GGVlP~i~~~l~~k 121 (134)
T PTZ00252 90 VRHDDDLGSLLKNVTLSRGGVMPSLNKALAKK 121 (134)
T ss_pred ccChHHHHHHHcCCccCCCccCCCccHhhccc
Confidence 9999999999999 999999999999999998
No 7
>smart00414 H2A Histone 2A.
Probab=100.00 E-value=3.4e-46 Score=268.48 Aligned_cols=104 Identities=72% Similarity=1.075 Sum_probs=101.6
Q ss_pred CcccccCcccchhHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHHhhCChHHH
Q 032701 29 SRSSRAGLQFPVGRVHRLLKERAAAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELD 108 (135)
Q Consensus 29 s~SsRagL~FPVsrv~r~L~~~~~~~~RIs~~ApVyLaAvLEYL~aEILelAg~~A~~~~~~rItP~hI~~aI~nD~EL~ 108 (135)
|+|+||||||||+||+|||++++|+. ||+++|||||+||||||++||||+|+|+|++++++||+|+||++||+||+|||
T Consensus 1 srS~ragL~fPVgRi~r~Lk~~~~~~-Rv~~~A~VyLaAvLEYLtaEILeLagn~a~~~k~~rItp~hi~lAi~nD~EL~ 79 (106)
T smart00414 1 SRSARAGLQFPVGRIHRLLRKGTYAK-RVGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKRRITPRHLQLAIRNDEELN 79 (106)
T ss_pred CccccCCccCchHHHHHHHHcCcccc-ccccccHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccchHHHhhhccCCHHHH
Confidence 68999999999999999999999986 99999999999999999999999999999999999999999999999999999
Q ss_pred HHhhc-cccCCcccCCCccccccccC
Q 032701 109 TLIKG-TIAGGGVIPHIHKSLINKSS 133 (135)
Q Consensus 109 ~L~~~-~ia~ggv~p~i~~~l~~~~~ 133 (135)
+||++ ||++|||+|+||++|+|+|.
T Consensus 80 ~L~~~vti~~ggv~p~i~~~l~~~~~ 105 (106)
T smart00414 80 KLLKGVTIAQGGVLPNIHKVLLPKKT 105 (106)
T ss_pred HHHcCcccCCCccCCCcchhhcccCC
Confidence 99999 99999999999999999983
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=1.3e-45 Score=268.81 Aligned_cols=110 Identities=71% Similarity=1.023 Sum_probs=105.8
Q ss_pred CCCCCCCCcccccCcccchhHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHHh
Q 032701 22 KDKKKPVSRSSRAGLQFPVGRVHRLLKERAAAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAI 101 (135)
Q Consensus 22 ~~~~~~~s~SsRagL~FPVsrv~r~L~~~~~~~~RIs~~ApVyLaAvLEYL~aEILelAg~~A~~~~~~rItP~hI~~aI 101 (135)
+.+++++|+|+|+||+|||+||+|||+++.++. ||+++|+|||+||||||++||||+|+|.|++.++++|+|+||++||
T Consensus 5 k~~~~~~s~s~ragL~fPV~ri~R~Lk~~~~a~-RVs~~A~VyLaAvLEYL~aEIlelA~n~ak~~k~krItp~hi~lAi 83 (115)
T cd00074 5 KKKSKKRSRSARAGLQFPVGRIHRYLKKGRYAE-RVGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKKRITPRHLQLAV 83 (115)
T ss_pred ccCcCccccccccCccCcHHHHHHHHHcCcccc-ccccchHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeEcHHHHHHHH
Confidence 446677899999999999999999999999986 9999999999999999999999999999999999999999999999
Q ss_pred hCChHHHHHhhc-cccCCcccCCCcccccccc
Q 032701 102 RGDEELDTLIKG-TIAGGGVIPHIHKSLINKS 132 (135)
Q Consensus 102 ~nD~EL~~L~~~-~ia~ggv~p~i~~~l~~~~ 132 (135)
+||+||++||++ ||++|||+|+||++|++++
T Consensus 84 ~nD~EL~~L~~~vtI~~ggv~p~i~~~l~~~~ 115 (115)
T cd00074 84 RNDEELNKLLKGVTIASGGVLPNIHKVLLPKK 115 (115)
T ss_pred hccHHHHHHHcCCcccCCccCCCcchhhcCCC
Confidence 999999999999 9999999999999999985
No 9
>KOG1756 consensus Histone 2A [Chromatin structure and dynamics]
Probab=100.00 E-value=7.7e-46 Score=272.11 Aligned_cols=109 Identities=66% Similarity=0.956 Sum_probs=106.3
Q ss_pred CCCCCCcccccCcccchhHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHHhhC
Q 032701 24 KKKPVSRSSRAGLQFPVGRVHRLLKERAAAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRG 103 (135)
Q Consensus 24 ~~~~~s~SsRagL~FPVsrv~r~L~~~~~~~~RIs~~ApVyLaAvLEYL~aEILelAg~~A~~~~~~rItP~hI~~aI~n 103 (135)
++...|+|.|+||||||+||+|+|++++|++ ||+.+|||||+||||||++||||+|+|+|+++++.+|+|+||++||+|
T Consensus 14 ~~~~~srs~~agl~fPvgri~r~Lr~~~~~~-ri~~gapV~laavLeYL~Aeile~agnaardnkk~ri~PrH~~lAI~N 92 (131)
T KOG1756|consen 14 AKAKSSRSSRAGLQFPVGRIHRLLRKGRYAQ-RVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRITPRHLQLAIRN 92 (131)
T ss_pred hhhhcchhhhcccccCHHHHHHHHHccchhh-hccCCChHHHHHHHHHHHHHHHHHhHHHhhhcCccccChHHHHHHHhC
Confidence 4778899999999999999999999999996 999999999999999999999999999999999999999999999999
Q ss_pred ChHHHHHhhc-cccCCcccCCCccccccccC
Q 032701 104 DEELDTLIKG-TIAGGGVIPHIHKSLINKSS 133 (135)
Q Consensus 104 D~EL~~L~~~-~ia~ggv~p~i~~~l~~~~~ 133 (135)
|+||++|+++ ||++|||+|+||+.||||++
T Consensus 93 DeEL~~lL~~vtIa~GGvlPnI~~~lLpKk~ 123 (131)
T KOG1756|consen 93 DEELNKLLGKVTIAQGGVLPNIQAILLPKKT 123 (131)
T ss_pred cHHHHHHhccceeccCCcccccchhhccccc
Confidence 9999999999 99999999999999999987
No 10
>COG5262 HTA1 Histone H2A [Chromatin structure and dynamics]
Probab=100.00 E-value=2.8e-45 Score=266.52 Aligned_cols=111 Identities=62% Similarity=0.908 Sum_probs=106.4
Q ss_pred CCCCCCcccccCcccchhHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHHhhC
Q 032701 24 KKKPVSRSSRAGLQFPVGRVHRLLKERAAAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRG 103 (135)
Q Consensus 24 ~~~~~s~SsRagL~FPVsrv~r~L~~~~~~~~RIs~~ApVyLaAvLEYL~aEILelAg~~A~~~~~~rItP~hI~~aI~n 103 (135)
-+...|+|.++||+|||+||+|+|+.+++.. ||++.||||++||||||++||||+|+|+|++++++||+|+|||+||+|
T Consensus 13 ~r~~~s~sa~agl~fpvgrvkr~lk~~~~~~-Rig~~A~Vyl~AvleYL~aEilelAgNaA~d~kkkri~PrHlqlAIrn 91 (132)
T COG5262 13 ARVSQSRSAKAGLIFPVGRVKRLLKKGNYRM-RIGAGAPVYLAAVLEYLAAEILELAGNAARDNKKKRIIPRHLQLAIRN 91 (132)
T ss_pred chhccchhhhcCccccHHHHHHHHHcCccce-eecCCcHHHHHHHHHHHHHHHHHHhhhhhhhcCcceechHHHHHHhcC
Confidence 4556799999999999999999999999975 999999999999999999999999999999999999999999999999
Q ss_pred ChHHHHHhhc-cccCCcccCCCccccccccCCC
Q 032701 104 DEELDTLIKG-TIAGGGVIPHIHKSLINKSSKE 135 (135)
Q Consensus 104 D~EL~~L~~~-~ia~ggv~p~i~~~l~~~~~~~ 135 (135)
|+||++|+++ ||++|||+|+|++.||+++|++
T Consensus 92 D~EL~~l~~~~tIa~GGvlp~I~~~ll~k~skK 124 (132)
T COG5262 92 DEELNKLLGDVTIAQGGVLPNINPGLLPKSSKK 124 (132)
T ss_pred cHHHHHHhhhheeecCCcccccChhhhhhhhcc
Confidence 9999999999 9999999999999999999863
No 11
>KOG1757 consensus Histone 2A [Chromatin structure and dynamics]
Probab=100.00 E-value=6.4e-41 Score=242.35 Aligned_cols=111 Identities=88% Similarity=1.237 Sum_probs=107.7
Q ss_pred CCCCCCcccccCcccchhHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHHhhC
Q 032701 24 KKKPVSRSSRAGLQFPVGRVHRLLKERAAAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRG 103 (135)
Q Consensus 24 ~~~~~s~SsRagL~FPVsrv~r~L~~~~~~~~RIs~~ApVyLaAvLEYL~aEILelAg~~A~~~~~~rItP~hI~~aI~n 103 (135)
+.+.+|+|+|+||||||+||+|.|+....+..||++.+.||.+|+||||++|+||||+|++++.+.+||||+|+|+||+.
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 57889999999999999999999999999889999999999999999999999999999999999999999999999999
Q ss_pred ChHHHHHhhccccCCcccCCCccccccccCC
Q 032701 104 DEELDTLIKGTIAGGGVIPHIHKSLINKSSK 134 (135)
Q Consensus 104 D~EL~~L~~~~ia~ggv~p~i~~~l~~~~~~ 134 (135)
|+||+.|.+.||+.|||+||||.+|+.|+.+
T Consensus 97 DeELDtLIk~TiagGgViPhihk~l~~k~~~ 127 (131)
T KOG1757|consen 97 DEELDTLIKATIAGGGVIPHIHKSLINKKGK 127 (131)
T ss_pred cHHHHHHHHHhhccCccccchHHHHhccccc
Confidence 9999999999999999999999999998865
No 12
>PLN00155 histone H2A; Provisional
Probab=99.84 E-value=1.1e-21 Score=127.07 Aligned_cols=48 Identities=65% Similarity=0.951 Sum_probs=45.4
Q ss_pred CCCCCCcccccCcccchhHHHHHHhhccccccccCcchHHHHHHHHHHH
Q 032701 24 KKKPVSRSSRAGLQFPVGRVHRLLKERAAAHGRVGATAAVYTAAILEYL 72 (135)
Q Consensus 24 ~~~~~s~SsRagL~FPVsrv~r~L~~~~~~~~RIs~~ApVyLaAvLEYL 72 (135)
+++.+|+|+||||||||+||+|+|++++|++ ||+++|||||+||||||
T Consensus 11 ~~k~~srS~rAgL~FPVgri~r~Lr~g~~a~-Rvga~apVYlAAVLEYL 58 (58)
T PLN00155 11 GKKAVSRSAKAGLQFPVGRIARYLKKGKYAE-RIGAGAPVYLAAVLEYL 58 (58)
T ss_pred ccCccCcccccccccchHHHHHHHhcCChhh-cccCCcHHHHHHHHHhC
Confidence 3467899999999999999999999999997 99999999999999997
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=99.56 E-value=7.5e-15 Score=97.78 Aligned_cols=74 Identities=41% Similarity=0.561 Sum_probs=68.9
Q ss_pred ccccCcccchhHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHHhhCC
Q 032701 31 SSRAGLQFPVGRVHRLLKERAAAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGD 104 (135)
Q Consensus 31 SsRagL~FPVsrv~r~L~~~~~~~~RIs~~ApVyLaAvLEYL~aEILelAg~~A~~~~~~rItP~hI~~aI~nD 104 (135)
+.+..+.||+.|+.+-+..+.+..+||++.|++||.+++||++.+|++.|++.|...++.+|+|+||+.|+++|
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 45678899999999999998776469999999999999999999999999999999999999999999999876
No 14
>COG5247 BUR6 Class 2 transcription repressor NC2, alpha subunit (DRAP1 homolog) [Transcription]
Probab=99.50 E-value=7.8e-14 Score=99.75 Aligned_cols=80 Identities=25% Similarity=0.455 Sum_probs=75.2
Q ss_pred ccCcccchhHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHHhhCChHHHHHhh
Q 032701 33 RAGLQFPVGRVHRLLKERAAAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDTLIK 112 (135)
Q Consensus 33 RagL~FPVsrv~r~L~~~~~~~~RIs~~ApVyLaAvLEYL~aEILelAg~~A~~~~~~rItP~hI~~aI~nD~EL~~L~~ 112 (135)
+-...||++|++++||.+++. ++|+..+||.....||+|+++|+.+++.+|+..+.+|||.+||..|+.+|+.|++|-.
T Consensus 19 ~~ktrFP~ar~KkIMQ~deDi-GKV~q~tPVIaskalE~Fl~~iv~~s~k~aR~~~skR~t~e~lk~a~~sdekFdFL~~ 97 (113)
T COG5247 19 KKKTRFPIARLKKIMQLDEDI-GKVGQSTPVIASKALEMFLTEIVGLSLKEARKKSSKRMTSEFLKRATESDEKFDFLKN 97 (113)
T ss_pred hhhhcCCHHHHHHHHHhhhhh-hhhhhcchHHHHHHHHHHHHHHHHHHHHHHHhccchhhHHHHHHHHHhhhHHHHHHHH
Confidence 556789999999999999997 5999999999999999999999999999999999999999999999999999998865
Q ss_pred c
Q 032701 113 G 113 (135)
Q Consensus 113 ~ 113 (135)
.
T Consensus 98 ~ 98 (113)
T COG5247 98 M 98 (113)
T ss_pred H
Confidence 4
No 15
>KOG1659 consensus Class 2 transcription repressor NC2, alpha subunit (DRAP1) [Transcription]
Probab=99.22 E-value=2.5e-11 Score=96.56 Aligned_cols=79 Identities=20% Similarity=0.399 Sum_probs=74.2
Q ss_pred ccCcccchhHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHHhhCChHHHHHhh
Q 032701 33 RAGLQFPVGRVHRLLKERAAAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDTLIK 112 (135)
Q Consensus 33 RagL~FPVsrv~r~L~~~~~~~~RIs~~ApVyLaAvLEYL~aEILelAg~~A~~~~~~rItP~hI~~aI~nD~EL~~L~~ 112 (135)
+-.-.||++||+++||.+... ++|...+||.+...||.|+.+|+..++.+++..+.++++++||..||.||+.|++|-.
T Consensus 9 ~~~trfp~aRiKKIMQ~dEdI-GKvaqavPViisralElFl~~l~~~t~~~t~~~~aKt~s~~hlkq~v~~~~~FdFLk~ 87 (224)
T KOG1659|consen 9 KYKTRFPPARIKKIMQSDEDI-GKVAQAVPVIISRALELFLESLLQKTLEITRSRGAKTVSSSHLKQAVESDPKFDFLKE 87 (224)
T ss_pred hhhccCCHHHHHHHHhhhhhh-hhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHhcCccccCHHHHHHHHhccchhHHHHH
Confidence 445679999999999999997 5999999999999999999999999999999999999999999999999999999864
No 16
>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=98.93 E-value=5.3e-09 Score=68.20 Aligned_cols=64 Identities=25% Similarity=0.271 Sum_probs=56.9
Q ss_pred ccchhHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHHh
Q 032701 37 QFPVGRVHRLLKERAAAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAI 101 (135)
Q Consensus 37 ~FPVsrv~r~L~~~~~~~~RIs~~ApVyLaAvLEYL~aEILelAg~~A~~~~~~rItP~hI~~aI 101 (135)
.||.++|+|+|+...... +|+..|...++-+.|.|+.+|...|...|...+++.|+++||..|+
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 SLPLARVKRIMKSDPDVM-RVSKEAVEAIAKAAEEFIQYLAKEANEIAQRDKRKTITYEDVAKAV 65 (65)
T ss_dssp SS-HHHHHHHHHHTSTTS-EE-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSSEE-HHHHHHHH
T ss_pred CCChHHHHHHhccCCCcc-chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCccCHHHHHHHC
Confidence 599999999999995544 8999999999999999999999999999999999999999999875
No 17
>PLN00035 histone H4; Provisional
Probab=98.52 E-value=2.2e-07 Score=66.76 Aligned_cols=75 Identities=17% Similarity=0.261 Sum_probs=65.0
Q ss_pred CCCCCCcccccCcccchhHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHHhh
Q 032701 24 KKKPVSRSSRAGLQFPVGRVHRLLKERAAAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIR 102 (135)
Q Consensus 24 ~~~~~s~SsRagL~FPVsrv~r~L~~~~~~~~RIs~~ApVyLaAvLEYL~aEILelAg~~A~~~~~~rItP~hI~~aI~ 102 (135)
+.+++.+-+-++ +|..-|.|+.+.... . |||.++-..|..+||.+..+|+..|...+...+++.|+.+||.+|++
T Consensus 18 r~~k~~~d~i~~--ipk~~IrRLARr~Gv-k-RIS~~ay~elr~vle~~l~~I~~dav~ya~HA~RKTV~~~DV~~Alk 92 (103)
T PLN00035 18 RHRKVLRDNIQG--ITKPAIRRLARRGGV-K-RISGLIYEETRGVLKIFLENVIRDAVTYTEHARRKTVTAMDVVYALK 92 (103)
T ss_pred HHHHHHHhhhcc--CCHHHHHHHHHHcCc-c-cchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHH
Confidence 444455555566 677779999999875 5 99999999999999999999999999999999999999999999986
No 18
>PTZ00015 histone H4; Provisional
Probab=98.39 E-value=9.6e-07 Score=63.40 Aligned_cols=75 Identities=17% Similarity=0.279 Sum_probs=63.0
Q ss_pred CCCCCCcccccCcccchhHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHHhh
Q 032701 24 KKKPVSRSSRAGLQFPVGRVHRLLKERAAAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIR 102 (135)
Q Consensus 24 ~~~~~s~SsRagL~FPVsrv~r~L~~~~~~~~RIs~~ApVyLaAvLEYL~aEILelAg~~A~~~~~~rItP~hI~~aI~ 102 (135)
+.++..+.+-.+++ ..-|.|+.+.... . |||.++-..+..+||.+..+|+..|...|...+++.|+.+||.+|++
T Consensus 19 r~rk~~r~~i~gI~--k~~IrRLarr~Gv-k-RIS~d~y~e~r~vle~~l~~I~rdav~~aeHA~RKTVt~~DV~~AlK 93 (102)
T PTZ00015 19 RQKKVLRDNIRGIT--KGAIRRLARRGGV-K-RISGDIYEEVRGVLKAFLENVVRDSTAYTEYARRKTVTAMDVVYALK 93 (102)
T ss_pred hHHHHHhhcccCCC--HHHHHHHHHHcCC-c-cchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHH
Confidence 33444455555654 4569999998866 4 99999999999999999999999999999999999999999999976
No 19
>smart00803 TAF TATA box binding protein associated factor. TAFs (TATA box binding protein associated factors) are part of the transcription initiation factor TFIID multimeric protein complex. TFIID is composed of the TATA box binding protein (TBP) and a number of TAFs. The TAFs provide binding sites for many different transcriptional activators and co-activators that modulate transcription initiation by Pol II. TAF proteins adopt a histone-like fold.
Probab=98.28 E-value=4.2e-06 Score=55.31 Aligned_cols=64 Identities=19% Similarity=0.210 Sum_probs=59.3
Q ss_pred ccchhHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHHhh
Q 032701 37 QFPVGRVHRLLKERAAAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIR 102 (135)
Q Consensus 37 ~FPVsrv~r~L~~~~~~~~RIs~~ApVyLaAvLEYL~aEILelAg~~A~~~~~~rItP~hI~~aI~ 102 (135)
.+|..-|.|+.+.... . ||+..+...|+-.+||...+|+..|...++..+++.++++||..|++
T Consensus 2 ~~p~~~i~ria~~~Gi-~-ris~~a~~~l~~~~e~rl~~i~~~A~k~~~hakRktlt~~DI~~Alk 65 (65)
T smart00803 2 WLPKETIKDVAESLGI-G-NLSDEAAKLLAEDVEYRIKEIVQEALKFMRHSKRTTLTTSDIDSALR 65 (65)
T ss_pred CCCHHHHHHHHHHCCC-c-cccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCeecHHHHHHHhC
Confidence 4788999999998876 4 99999999999999999999999999999999999999999999864
No 20
>KOG1657 consensus CCAAT-binding factor, subunit C (HAP5) [Transcription]
Probab=98.04 E-value=4.3e-06 Score=67.82 Aligned_cols=83 Identities=17% Similarity=0.201 Sum_probs=75.4
Q ss_pred cccccCcccchhHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHHhhCChHHHH
Q 032701 30 RSSRAGLQFPVGRVHRLLKERAAAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDT 109 (135)
Q Consensus 30 ~SsRagL~FPVsrv~r~L~~~~~~~~RIs~~ApVyLaAvLEYL~aEILelAg~~A~~~~~~rItP~hI~~aI~nD~EL~~ 109 (135)
...-....||.+||+++|+.+.... -|+..|||.++.++|+|+.|+-..++..+..++++.+.-.||..++.+.+-+++
T Consensus 67 ~~d~~~~~lPlaRiKkimK~dedv~-mI~~Eapvl~aka~E~Fi~elt~~sw~~Tee~~rrtl~~sdia~av~~s~~fdF 145 (236)
T KOG1657|consen 67 QLDFKNHILPLARIKKIMKSDEDVS-MITAEAPVLFAKACELFITELTLRSWVHTEENKRRTLQKSDIAAAVTQSETFDF 145 (236)
T ss_pred ccchhhccCcHhhcccccccccccc-ccchhHHHHHHHHHHHHHHHHHHHhhhhhcccccccchHHHHHHHhccCCCccc
Confidence 3334466799999999999999987 899999999999999999999999999999999999999999999999999999
Q ss_pred Hhhc
Q 032701 110 LIKG 113 (135)
Q Consensus 110 L~~~ 113 (135)
|.+.
T Consensus 146 L~Di 149 (236)
T KOG1657|consen 146 LRDI 149 (236)
T ss_pred eecc
Confidence 9864
No 21
>COG2036 HHT1 Histones H3 and H4 [Chromatin structure and dynamics]
Probab=98.03 E-value=1.5e-05 Score=56.12 Aligned_cols=66 Identities=27% Similarity=0.363 Sum_probs=59.6
Q ss_pred CcccchhHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHHhh
Q 032701 35 GLQFPVGRVHRLLKERAAAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIR 102 (135)
Q Consensus 35 gL~FPVsrv~r~L~~~~~~~~RIs~~ApVyLaAvLEYL~aEILelAg~~A~~~~~~rItP~hI~~aI~ 102 (135)
.+-+|+.=|.|+|++... + ||+.+|-..|..++|-+..+|.+.|...|...+++.|+++||++|+.
T Consensus 17 ~~~Lp~apv~Ri~r~~~~-~-Rvs~~A~~~l~~~~e~~~~~i~~~A~~~A~ha~RKTV~~~DI~la~~ 82 (91)
T COG2036 17 DLLLPKAPVRRILRKAGA-E-RVSSSAIEELQEALEEYLEEIAEDAVELAEHAKRKTVKAEDIKLALK 82 (91)
T ss_pred hhhcCchHHHHHHHHHhH-H-HhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeecHHHHHHHHH
Confidence 455666669999998766 4 99999999999999999999999999999999999999999999986
No 22
>COG5208 HAP5 CCAAT-binding factor, subunit C [Transcription]
Probab=97.95 E-value=2.2e-05 Score=63.51 Aligned_cols=76 Identities=22% Similarity=0.324 Sum_probs=70.6
Q ss_pred cccchhHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHHhhCChHHHHHhh
Q 032701 36 LQFPVGRVHRLLKERAAAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDTLIK 112 (135)
Q Consensus 36 L~FPVsrv~r~L~~~~~~~~RIs~~ApVyLaAvLEYL~aEILelAg~~A~~~~~~rItP~hI~~aI~nD~EL~~L~~ 112 (135)
+.+|..||+++|+.+...+ =|++.|||.++..-|-|++|+.-.|+-.|..++++.+.-.||-.|+...+-+++|+.
T Consensus 108 h~LPlARIkkvMKtdedVk-MisaEaPvlFak~~EiFI~ELTmRAW~~ae~NkRRtLQksDia~Av~kSeMfDFLid 183 (286)
T COG5208 108 HNLPLARIKKVMKTDEDVK-MISAEAPVLFAKITEIFIEELTMRAWINAEENKRRTLQKSDIAAAVKKSEMFDFLID 183 (286)
T ss_pred ccCcHHHHHHHHhcccchh-heecccchHHHHHHHHHHHHHHHHHHHHHhHhhhhHHHHHHHHHHHHHHHHHhHHhh
Confidence 4589999999999999987 799999999999999999999999998899998888999999999999999998884
No 23
>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=97.86 E-value=3.8e-05 Score=53.44 Aligned_cols=70 Identities=17% Similarity=0.222 Sum_probs=61.0
Q ss_pred cccccCcccchhHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHHhhC
Q 032701 30 RSSRAGLQFPVGRVHRLLKERAAAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRG 103 (135)
Q Consensus 30 ~SsRagL~FPVsrv~r~L~~~~~~~~RIs~~ApVyLaAvLEYL~aEILelAg~~A~~~~~~rItP~hI~~aI~n 103 (135)
+.+-+| +|..-|.|+.+.+.. . |||.++-.-+..+||.+..+|+..|...+...+++.|+.+||.+|++.
T Consensus 8 ~~~~~g--i~k~~I~RLarr~Gv-k-RIS~d~y~e~~~~l~~~l~~I~~dav~ya~Ha~RKTVt~~DV~~alkr 77 (85)
T cd00076 8 RDNIKG--ITKPAIRRLARRGGV-K-RISGGVYDEVRNVLKSYLEDVIRDAVTYTEHAKRKTVTAMDVVYALKR 77 (85)
T ss_pred HHhhcc--CCHHHHHHHHHHcCc-c-hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHHH
Confidence 344445 566679999999875 4 999999999999999999999999999999999999999999998863
No 24
>smart00417 H4 Histone H4.
Probab=97.51 E-value=0.00029 Score=47.92 Aligned_cols=60 Identities=15% Similarity=0.166 Sum_probs=53.9
Q ss_pred cchhHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHH
Q 032701 38 FPVGRVHRLLKERAAAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQL 99 (135)
Q Consensus 38 FPVsrv~r~L~~~~~~~~RIs~~ApVyLaAvLEYL~aEILelAg~~A~~~~~~rItP~hI~~ 99 (135)
+|..-|.|+.+.+.. . |||..+-..+..+||.+..+|+..|...+...+++.|+.+||..
T Consensus 14 I~k~~IrRLaRr~Gv-k-RIS~~~y~elr~vle~~l~~I~rdav~~a~ha~RKTV~~~DV~~ 73 (74)
T smart00417 14 ITKPAIRRLARRGGV-K-RISGLIYDETRNVLKSFLENVVRDAVTYTEHARRKTVTAMDVVY 73 (74)
T ss_pred CCHHHHHHHHHHcCc-c-hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHhee
Confidence 455569999998866 5 99999999999999999999999999999999999999999854
No 25
>cd07981 TAF12 TATA Binding Protein (TBP) Associated Factor 12 (TAF12) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex. The TATA Binding Protein (TBP) Associated Factor 12 (TAF12) is one of several TAFs that bind TBP and are involved in forming the TFIID complex. TFIID is one of the seven General Transcription Factors (GTFs) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. TFIID complex is composed of the TBP and at least 13 TAFs. TAFs are named after their electrophoretic mobility in polyacrylamide gels in different species. A new, unified nomenclature has been suggested for the pol II TAFs to show the relationship between TAF orthologs and paralogs. Several hypotheses are proposed for TAFs function such as serving as activator-bind
Probab=97.27 E-value=0.0016 Score=43.51 Aligned_cols=65 Identities=18% Similarity=0.246 Sum_probs=57.1
Q ss_pred chhHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHHhhCC
Q 032701 39 PVGRVHRLLKERAAAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGD 104 (135)
Q Consensus 39 PVsrv~r~L~~~~~~~~RIs~~ApVyLaAvLEYL~aEILelAg~~A~~~~~~rItP~hI~~aI~nD 104 (135)
+-..+..++++..... |++.+|-..|..++|-|+.+|++.|...|+..+++.|.++||++++...
T Consensus 3 ~k~~l~~lv~~id~~~-~~~~da~~~l~~~~e~fv~~v~~~a~~lAkHr~~~tv~~~Di~l~l~r~ 67 (72)
T cd07981 3 TKRKLQELLKEIDPRE-QLDPDVEELLLEIADDFVDDVVEDACRLAKHRKSDTLEVKDVQLHLERN 67 (72)
T ss_pred cHHHHHHHHHhhCCCC-CcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHh
Confidence 4456777777765544 9999999999999999999999999999999999999999999998864
No 26
>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=97.22 E-value=0.0019 Score=44.80 Aligned_cols=63 Identities=25% Similarity=0.460 Sum_probs=54.2
Q ss_pred cchhHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHhCC---CceechhhHHHHhh
Q 032701 38 FPVGRVHRLLKERAAAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLK---VKRITPRHLQLAIR 102 (135)
Q Consensus 38 FPVsrv~r~L~~~~~~~~RIs~~ApVyLaAvLEYL~aEILelAg~~A~~~~---~~rItP~hI~~aI~ 102 (135)
||-..++|++..-.. + .++....+.++++---|+.||+|.|...-...+ ...|.|+||+.|.+
T Consensus 17 f~k~~iKr~~~~~~~-~-~v~~~v~i~v~glaKvFVGeivE~A~~V~~~~~~~~~~Pl~P~HireA~r 82 (85)
T cd08048 17 FPKAAIKRLIQSVTG-Q-SVSQNVVIAVAGIAKVFVGEIVEEARDVQEEWGEANTGPLQPRHLREAYR 82 (85)
T ss_pred ccHHHHHHHHHHHcC-C-CCCchHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCCCCCcHHHHHHHH
Confidence 777779999997766 4 899999999999999999999999988755433 57899999999875
No 27
>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=96.95 E-value=0.0034 Score=44.11 Aligned_cols=64 Identities=20% Similarity=0.318 Sum_probs=46.4
Q ss_pred cchhHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHHHHHHHH-hCCCceechhhHHHHhh
Q 032701 38 FPVGRVHRLLKERAAAHGRVGATAAVYTAAILEYLTAEVLELAGNASK-DLKVKRITPRHLQLAIR 102 (135)
Q Consensus 38 FPVsrv~r~L~~~~~~~~RIs~~ApVyLaAvLEYL~aEILelAg~~A~-~~~~~rItP~hI~~aI~ 102 (135)
||-+.|++++..-...+ -|+....+.++++--.|+.||+|.|-.... +.....|.|.||+.|.+
T Consensus 24 ~~k~~ikkli~~~~~~q-sv~~~v~i~v~g~aKvFVGEiVE~A~~Vq~~~~~~~pl~P~hlreA~r 88 (90)
T PF04719_consen 24 FNKAAIKKLINQVLGNQ-SVSQNVVIAVAGIAKVFVGEIVEEARDVQEEWGETGPLQPDHLREAYR 88 (90)
T ss_dssp --HHHHHHHHHHHHS-S----HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT--SS--HHHHHHHHH
T ss_pred CCHHHHHHHHHHHcCCC-CCChhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCcHHHHHHHH
Confidence 77888999999865434 799999999999999999999999988744 45566899999998864
No 28
>PLN00158 histone H2B; Provisional
Probab=96.94 E-value=0.0052 Score=45.10 Aligned_cols=61 Identities=18% Similarity=0.244 Sum_probs=52.0
Q ss_pred hHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHHhh
Q 032701 41 GRVHRLLKERAAAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIR 102 (135)
Q Consensus 41 srv~r~L~~~~~~~~RIs~~ApVyLaAvLEYL~aEILelAg~~A~~~~~~rItP~hI~~aI~ 102 (135)
..|++.|++-.... -|++.|.-.+...+..+...|-..|...++-+++..|++++||-|++
T Consensus 31 ~YI~kVLKQVhPd~-gIS~kaM~ImnSfvnDiferIA~EAs~La~~nkr~TltsrEIqtAvr 91 (116)
T PLN00158 31 IYIYKVLKQVHPDT-GISSKAMSIMNSFINDIFEKIATEAGKLARYNKKPTVTSREIQTAVR 91 (116)
T ss_pred HHHHHHHHHhCCCC-CccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCcCCHHHHHHHHH
Confidence 47999999987765 79988888788877777777777888888889999999999999887
No 29
>PF02969 TAF: TATA box binding protein associated factor (TAF); InterPro: IPR004823 The TATA box binding protein associated factor (TAF) is part of the transcription initiation factor TFIID multimeric protein complex. TFIID plays a central role in mediating promoter responses to various activators and repressors. It binds tightly to TAFII-250 and directly interacts with TAFII-40. TFIID is composed of TATA binding protein (TBP)and a number of TBP-associated factors (TAFS). TAF proteins adopt a histone-like fold.; GO: 0006352 transcription initiation, DNA-dependent, 0005634 nucleus; PDB: 1TAF_B.
Probab=96.94 E-value=0.0052 Score=40.84 Aligned_cols=64 Identities=20% Similarity=0.228 Sum_probs=48.9
Q ss_pred ccchhHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHHhh
Q 032701 37 QFPVGRVHRLLKERAAAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIR 102 (135)
Q Consensus 37 ~FPVsrv~r~L~~~~~~~~RIs~~ApVyLaAvLEYL~aEILelAg~~A~~~~~~rItP~hI~~aI~ 102 (135)
.||..-|+.+-..-... .++..+.-.|+-=+||-+.||++-|.+..+..+++++|+.||+.|++
T Consensus 3 ~~~~esvk~iAes~Gi~--~l~de~a~~La~dveyrlreiiq~a~kfm~hskR~~Lt~~Di~~ALr 66 (66)
T PF02969_consen 3 VFSQESVKDIAESLGIS--NLSDEAAKALAEDVEYRLREIIQEALKFMRHSKRTKLTTDDINSALR 66 (66)
T ss_dssp ---HHHHHHHHHHTT-----B-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSB-HHHHHHHH-
T ss_pred cCCHHHHHHHHHHcCCC--CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHHhC
Confidence 47777776666555553 69999999999999999999999999999999999999999999874
No 30
>PTZ00463 histone H2B; Provisional
Probab=96.73 E-value=0.017 Score=42.49 Aligned_cols=60 Identities=17% Similarity=0.199 Sum_probs=48.0
Q ss_pred HHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHHhh
Q 032701 42 RVHRLLKERAAAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIR 102 (135)
Q Consensus 42 rv~r~L~~~~~~~~RIs~~ApVyLaAvLEYL~aEILelAg~~A~~~~~~rItP~hI~~aI~ 102 (135)
.|++.|++-.... -|++.|.-.|...+.=+...|-..|...++-+++..|++++||-|++
T Consensus 33 YI~KVLKqVhPd~-gIS~kaM~ImnSfvnDifErIA~EAs~La~~nkr~TltsrEIQtAvr 92 (117)
T PTZ00463 33 YIFKVLKQVHPDT-GISRKSMNIMNSFLVDTFEKIATEASRLCKYTRRDTLSSREIQTAIR 92 (117)
T ss_pred HHHHHHHhhCCCC-CccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCCHHHHHHHHh
Confidence 7999999887764 78888877666666666666666677777788999999999999987
No 31
>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=96.73 E-value=0.0066 Score=44.25 Aligned_cols=61 Identities=18% Similarity=0.122 Sum_probs=55.2
Q ss_pred hHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHHhhC
Q 032701 41 GRVHRLLKERAAAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRG 103 (135)
Q Consensus 41 srv~r~L~~~~~~~~RIs~~ApVyLaAvLEYL~aEILelAg~~A~~~~~~rItP~hI~~aI~n 103 (135)
--|+++|++... . +++..++..|.-.++-.+.+|+..|...|+..+++.|+.+||++||..
T Consensus 5 ~~v~~iLk~~Gv-~-~~~~~v~~~Lle~~~ry~~~il~dA~~~a~hA~r~tV~~eDV~lAi~~ 65 (117)
T cd07979 5 RVIAAILKSMGI-T-EYEPRVINQLLEFAYRYTTDVLDDAKVYSEHAGKANIDADDVKLAIQS 65 (117)
T ss_pred HHHHHHHHHCCC-C-ccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH
Confidence 358899998654 3 899999999999999999999999999999999999999999999984
No 32
>KOG3219 consensus Transcription initiation factor TFIID, subunit TAF11 [Transcription]
Probab=96.57 E-value=0.0037 Score=49.53 Aligned_cols=65 Identities=23% Similarity=0.341 Sum_probs=56.5
Q ss_pred cccchhHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHHHHHHH-HhCCCceechhhHHHHhh
Q 032701 36 LQFPVGRVHRLLKERAAAHGRVGATAAVYTAAILEYLTAEVLELAGNAS-KDLKVKRITPRHLQLAIR 102 (135)
Q Consensus 36 L~FPVsrv~r~L~~~~~~~~RIs~~ApVyLaAvLEYL~aEILelAg~~A-~~~~~~rItP~hI~~aI~ 102 (135)
.-||-+.|+++|..-... -|+..+.|+++++-.-|+.||+|.|.... .+.....+.|.||+.|.+
T Consensus 111 s~f~Ka~iKkL~~~itg~--~v~~nv~Ia~~GiaKvFVGEvVEeAl~V~~~~~e~~PLqP~HIREA~r 176 (195)
T KOG3219|consen 111 SAFPKAQIKKLMSSITGQ--SVSENVAIAMAGIAKVFVGEVVEEALDVREEWGESGPLQPKHIREAYR 176 (195)
T ss_pred hcCCHHHHHHHHHHHhCC--ccCcceeeeecchhhHhHHHHHHHHHHHHHHhccCCCCCcHHHHHHHH
Confidence 458999999999988763 59999999999999999999999998864 355677899999999876
No 33
>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=96.15 E-value=0.015 Score=49.20 Aligned_cols=58 Identities=17% Similarity=0.257 Sum_probs=50.4
Q ss_pred HHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHHhh
Q 032701 43 VHRLLKERAAAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIR 102 (135)
Q Consensus 43 v~r~L~~~~~~~~RIs~~ApVyLaAvLEYL~aEILelAg~~A~~~~~~rItP~hI~~aI~ 102 (135)
|+-+.+. .... |++..|...|+..+||...+|++.|.+.++..++++++++||+.|++
T Consensus 5 i~~ia~~-~Gi~-~~~~~a~~~La~~~e~~~~~i~~~A~k~~~hskR~~l~~~Di~~Al~ 62 (343)
T cd08050 5 IKLIAES-LGID-SLSDEVAQLLAEDVEYRLREIIQEAAKFMRHSKRRKLTTSDVNHALR 62 (343)
T ss_pred HHHHHHH-cCCC-cCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCHHHHHHHHH
Confidence 4334443 3444 89999999999999999999999999999999999999999999987
No 34
>smart00427 H2B Histone H2B.
Probab=96.03 E-value=0.034 Score=39.12 Aligned_cols=60 Identities=15% Similarity=0.226 Sum_probs=51.5
Q ss_pred HHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHHhh
Q 032701 42 RVHRLLKERAAAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIR 102 (135)
Q Consensus 42 rv~r~L~~~~~~~~RIs~~ApVyLaAvLEYL~aEILelAg~~A~~~~~~rItP~hI~~aI~ 102 (135)
.|+|.|++-.... -|++.|.-.+...+..+...|-..|...++-+++..|++++||.|++
T Consensus 6 Yi~kvLKqVhpd~-giS~kam~imnSfvnDiferIa~EAs~L~~~nkr~TltsreIqtAvr 65 (89)
T smart00427 6 YIYKVLKQVHPDT-GISSKAMSIMNSFVNDIFERIAAEASKLARYNKKSTLSSREIQTAVR 65 (89)
T ss_pred HHHHHHHHhCCCc-cccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCcCCHHHHHHHHH
Confidence 5889999888765 79999988888888888888888888888888999999999999987
No 35
>smart00428 H3 Histone H3.
Probab=95.47 E-value=0.074 Score=38.37 Aligned_cols=69 Identities=23% Similarity=0.223 Sum_probs=54.3
Q ss_pred cCcccchhHHHHHHhhcc---cc--ccccCcchHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHHhh
Q 032701 34 AGLQFPVGRVHRLLKERA---AA--HGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIR 102 (135)
Q Consensus 34 agL~FPVsrv~r~L~~~~---~~--~~RIs~~ApVyLaAvLEYL~aEILelAg~~A~~~~~~rItP~hI~~aI~ 102 (135)
..|.+|-.-+.|+.++-. .. .+|++++|-..|-.+.|..+.+++|.|...|...++..|+|+|++++.+
T Consensus 26 t~lLI~k~pF~RLVREI~~~~~~~~~~R~~~~Al~aLQeasE~ylv~lfeda~~~a~HAkRvTl~~kDi~La~r 99 (105)
T smart00428 26 TDLLIRKAPFQRLVREIAQKFTTGVDLRFQSSAIMALQEAAEAYLVGLFEDTNLLAIHAKRVTIMPKDIQLARR 99 (105)
T ss_pred cccccccccHHHHHHHHHHHcCCCCCceeeHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCccCcHhhHHHHHH
Confidence 345555555555554422 11 3599999999999999999999999999889888999999999998854
No 36
>smart00576 BTP Bromodomain transcription factors and PHD domain containing proteins. subdomain of archael histone-like transcription factors
Probab=95.44 E-value=0.079 Score=35.51 Aligned_cols=59 Identities=15% Similarity=0.080 Sum_probs=51.8
Q ss_pred HHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHHhhC
Q 032701 43 VHRLLKERAAAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRG 103 (135)
Q Consensus 43 v~r~L~~~~~~~~RIs~~ApVyLaAvLEYL~aEILelAg~~A~~~~~~rItP~hI~~aI~n 103 (135)
|.++++...+ . +++.+|--.|+-++|-.+.+|...+-+.+...+++..++.||.+|+.+
T Consensus 12 Vaqil~~~Gf-~-~~~~sale~ltdi~~~yl~~l~~~~~~~a~~agR~~~~~~Dv~~Al~~ 70 (77)
T smart00576 12 VAQILESAGF-D-SFQESALETLTDILQSYIQELGRTAHSYAELAGRTEPNLGDVVLALEN 70 (77)
T ss_pred HHHHHHHcCc-c-ccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH
Confidence 4567777766 4 899999999999999999999999999999999999999999998763
No 37
>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=94.39 E-value=0.2 Score=33.74 Aligned_cols=62 Identities=19% Similarity=0.244 Sum_probs=46.5
Q ss_pred chhHHHHHHhhccc-cccccCcchHHHHHHHHHHHHHHHHHHHHHHHHhCCCce-echhhHHHH
Q 032701 39 PVGRVHRLLKERAA-AHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKR-ITPRHLQLA 100 (135)
Q Consensus 39 PVsrv~r~L~~~~~-~~~RIs~~ApVyLaAvLEYL~aEILelAg~~A~~~~~~r-ItP~hI~~a 100 (135)
|..-|.|+|+.... ..-||+..|--.++..|+-|+.|.+-.|...+.+.+... |..+||+..
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 44456677764221 124899999999999999999999999999999888888 999999874
No 38
>KOG3467 consensus Histone H4 [Chromatin structure and dynamics]
Probab=94.13 E-value=0.12 Score=36.48 Aligned_cols=76 Identities=20% Similarity=0.304 Sum_probs=57.8
Q ss_pred CCCCCCCcccccCcccchhHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHHhh
Q 032701 23 DKKKPVSRSSRAGLQFPVGRVHRLLKERAAAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIR 102 (135)
Q Consensus 23 ~~~~~~s~SsRagL~FPVsrv~r~L~~~~~~~~RIs~~ApVyLaAvLEYL~aEILelAg~~A~~~~~~rItP~hI~~aI~ 102 (135)
++.+++-+.+-.|++-|. |.|+-+.+.. . ||+...--=.-.|+.-++.+++-.|...+...+++.||.-++-.++.
T Consensus 17 KrHRK~LsDnIqgitKpa--IRRlARr~GV-k-Ri~G~~yeE~~~~~k~fl~n~i~~A~~yt~HAKRKTvT~~dvv~~LK 92 (103)
T KOG3467|consen 17 KRHRKVLRDNIQGITKPA--IRRLARRGGV-K-RISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKTVTAMDVVYALK 92 (103)
T ss_pred HHHHHHHHhhccccchHH--HHHHHHhcCc-c-hhchhhHHHHHHHHHHHHHHHHHHHHHHHhhhhhceeeHHHHHHHHH
Confidence 445556666677888887 8898888876 4 89886655566677777788888888888888899999988876654
No 39
>KOG0869 consensus CCAAT-binding factor, subunit A (HAP3) [Transcription]
Probab=93.97 E-value=0.22 Score=38.50 Aligned_cols=65 Identities=20% Similarity=0.250 Sum_probs=50.7
Q ss_pred cchhHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHHhh
Q 032701 38 FPVGRVHRLLKERAAAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIR 102 (135)
Q Consensus 38 FPVsrv~r~L~~~~~~~~RIs~~ApVyLaAvLEYL~aEILelAg~~A~~~~~~rItP~hI~~aI~ 102 (135)
+|+.-|-|+|+..-..+.+|+.+|--.+--++--|++=|---|...+...+++.|+.+||-||+.
T Consensus 33 LPIANV~RIMK~~lP~naKIsKDAKE~vQECVSEfISFvT~EAsekC~~EkRKTIngdDllwAm~ 97 (168)
T KOG0869|consen 33 LPIANVSRIMKKALPANAKISKDAKETVQECVSEFISFVTGEASEKCQREKRKTINGDDLLWAMS 97 (168)
T ss_pred ccHHHHHHHHHhcCCcccccchHHHHHHHHHHHHHHHHHhhHHHHHHHHHhcCcccHHHHHHHHH
Confidence 69999999999998888899999887665555444444444455556667889999999999986
No 40
>PF15511 CENP-T: Centromere kinetochore component CENP-T; PDB: 3B0D_T 3B0C_T 3VH5_T 3VH6_T.
Probab=93.67 E-value=0.2 Score=43.58 Aligned_cols=73 Identities=16% Similarity=0.152 Sum_probs=44.4
Q ss_pred CCCCCCcccccCcccchhHHHHHHhhc----cccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhh
Q 032701 24 KKKPVSRSSRAGLQFPVGRVHRLLKER----AAAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRH 96 (135)
Q Consensus 24 ~~~~~s~SsRagL~FPVsrv~r~L~~~----~~~~~RIs~~ApVyLaAvLEYL~aEILelAg~~A~~~~~~rItP~h 96 (135)
++++.|+-.-....+|.+-|++++..- .|++.+|+..|--.|.-++|||...+-+--..+|...|+|.|.+.|
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 566677777777789999998887553 5677899999999999999999999999888889889999998765
No 41
>KOG1744 consensus Histone H2B [Chromatin structure and dynamics]
Probab=93.52 E-value=0.67 Score=34.57 Aligned_cols=73 Identities=21% Similarity=0.238 Sum_probs=50.5
Q ss_pred CCcccccCcccchhHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHHhh
Q 032701 28 VSRSSRAGLQFPVGRVHRLLKERAAAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIR 102 (135)
Q Consensus 28 ~s~SsRagL~FPVsrv~r~L~~~~~~~~RIs~~ApVyLaAvLEYL~aEILelAg~~A~~~~~~rItP~hI~~aI~ 102 (135)
.+++.+++=.|.. .|+|.|++-.-.- -|++.+.-.+-+.+.-+...|...|+..|+-+++..|+.++|+.+++
T Consensus 29 k~~~~~~~e~~s~-yv~kvlk~Vhpd~-gis~~a~~vmnsf~ndife~iA~ea~rla~y~krstisSreiqta~r 101 (127)
T KOG1744|consen 29 KKRSTRRKESYSE-YVYKVLKQVHPDL-GISSKAMGVMNSFVNDIFERIASEAGRLAHYNKRSTISSREIQTAVR 101 (127)
T ss_pred ccCcccccCceee-ehhhhhhcccCCC-CcCHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCcccHHHHHHHHH
Confidence 3344444433332 2344666654443 47777777777777666777888888889999999999999999887
No 42
>PF15630 CENP-S: Kinetochore component CENP-S; PDB: 4DRA_C 4DRB_H 3V9R_C.
Probab=92.83 E-value=0.55 Score=31.90 Aligned_cols=48 Identities=21% Similarity=0.266 Sum_probs=37.0
Q ss_pred chHHHHHHHHHHHHHHHHHHHHH---HHHhCCCceechhhHHHHhhCChHH
Q 032701 60 TAAVYTAAILEYLTAEVLELAGN---ASKDLKVKRITPRHLQLAIRGDEEL 107 (135)
Q Consensus 60 ~ApVyLaAvLEYL~aEILelAg~---~A~~~~~~rItP~hI~~aI~nD~EL 107 (135)
-+|-|++|+.|-....+-.++.. .|+..+++.|+++|+.+..+.++.|
T Consensus 26 ~s~~~i~al~ELv~~q~~~~a~DLe~FAkHA~R~tI~~dDV~Ll~Rrn~~L 76 (76)
T PF15630_consen 26 VSPQFIAALTELVYKQLENLAKDLEAFAKHAGRSTINMDDVKLLARRNPSL 76 (76)
T ss_dssp E-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHHHHHHTTT-HHH
T ss_pred cCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCeecHHHHHHHhhcCCCC
Confidence 58899999999888888777754 3677799999999999999998875
No 43
>KOG0871 consensus Class 2 transcription repressor NC2, beta subunit (Dr1) [Transcription]
Probab=92.21 E-value=0.67 Score=35.55 Aligned_cols=70 Identities=21% Similarity=0.306 Sum_probs=50.5
Q ss_pred ccCcccchhHHHHHHhhccccccccCcchHH-HHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHHhhC
Q 032701 33 RAGLQFPVGRVHRLLKERAAAHGRVGATAAV-YTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRG 103 (135)
Q Consensus 33 RagL~FPVsrv~r~L~~~~~~~~RIs~~ApV-yLaAvLEYL~aEILelAg~~A~~~~~~rItP~hI~~aI~n 103 (135)
.-.+.+|-.-|.+++++.-....||...+-- ++..++||+ .-|---|-..+....++.|.|+|+..|+.|
T Consensus 8 dde~sLPkAtv~KmIke~lP~d~rvakeareliincCvEFI-~liSsEAneic~~e~KKTIa~EHV~KALe~ 78 (156)
T KOG0871|consen 8 DDELSLPKATVNKMIKEMLPKDVRVAKEARELIINCCVEFI-NLISSEANEICNKEAKKTIAPEHVIKALEN 78 (156)
T ss_pred cccccCcHHHHHHHHHHhCCcccccchHHHHHHHHHHHHHH-HHHHHHHHHHHhHHhcccCCHHHHHHHHHH
Confidence 3478899999999999987744588886654 555556554 333334444566667889999999999875
No 44
>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=91.25 E-value=1.4 Score=29.18 Aligned_cols=61 Identities=13% Similarity=0.249 Sum_probs=46.7
Q ss_pred HHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHHhhC
Q 032701 42 RVHRLLKERAAAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRG 103 (135)
Q Consensus 42 rv~r~L~~~~~~~~RIs~~ApVyLaAvLEYL~aEILelAg~~A~~~~~~rItP~hI~~aI~n 103 (135)
++..++++-... .++...+--.|.-+.+=|+.++++.|+..|+.-+...+.+++|++.+..
T Consensus 4 ~l~~Lv~~iDp~-~~ld~~vee~Ll~laddFv~~v~~~ac~lAKhR~s~tle~~Dv~~~Ler 64 (68)
T PF03847_consen 4 KLQELVKQIDPN-EKLDPDVEELLLELADDFVDDVVSFACRLAKHRKSSTLEVKDVQLHLER 64 (68)
T ss_dssp HHHHHHHCC-SS-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHHHHHHHHH
T ss_pred HHHHHHHHcCCC-CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCCHHHHHHHHHh
Confidence 455666665443 4899999999999999999999999999999999999999999988764
No 45
>KOG1658 consensus DNA polymerase epsilon, subunit C [Replication, recombination and repair]
Probab=90.64 E-value=0.31 Score=37.62 Aligned_cols=76 Identities=20% Similarity=0.181 Sum_probs=63.6
Q ss_pred CcccchhHHHHHHhhccccccccCc-chHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHHhhCChHHHHHhh
Q 032701 35 GLQFPVGRVHRLLKERAAAHGRVGA-TAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDTLIK 112 (135)
Q Consensus 35 gL~FPVsrv~r~L~~~~~~~~RIs~-~ApVyLaAvLEYL~aEILelAg~~A~~~~~~rItP~hI~~aI~nD~EL~~L~~ 112 (135)
-+++|..||+.+++.+... ++.. .+...++-.-|-++.+|-..++..+....++.+.-+++..+|..-.|+.+|-.
T Consensus 57 l~rLpL~rik~vvkl~pdl--~l~~dea~~l~a~aaelfi~~Ln~~~~~~~q~~k~kt~qr~d~D~ai~~~de~~fle~ 133 (162)
T KOG1658|consen 57 LSRLPLARIKQVVKLDPDL--TLLNDEASQLIAKAAELFIQELNDVAYTTAQLRKRKTEQRRDYDTAIEAVDEFAFLEG 133 (162)
T ss_pred hhhccHHHHHhhccCCcch--hhhhhHHHHHHHHHHHHHHHHHHhccchhHHHHHhhhhhhhcccccccchHHHHHHhh
Confidence 3678999999999988763 5555 55556677899999999999988888888888999999999999999888874
No 46
>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=87.94 E-value=2.9 Score=31.12 Aligned_cols=59 Identities=25% Similarity=0.297 Sum_probs=41.7
Q ss_pred hhHHHHHHhhccccccccCcchHHHHHHHHHHH---HHHHHHHHHHHHHhCCCceechhhHHHHhhC
Q 032701 40 VGRVHRLLKERAAAHGRVGATAAVYTAAILEYL---TAEVLELAGNASKDLKVKRITPRHLQLAIRG 103 (135)
Q Consensus 40 Vsrv~r~L~~~~~~~~RIs~~ApVyLaAvLEYL---~aEILelAg~~A~~~~~~rItP~hI~~aI~n 103 (135)
+--|+.+|++.. |..+-|-...-.|||. +.+||+-|-.+|...++..|+..|+++||..
T Consensus 15 a~~i~~iL~~~G-----v~~yeprVv~qLLEfayRYt~~vL~DA~~ya~hA~~~~i~~~DVrLAi~~ 76 (129)
T PF02291_consen 15 ARVIHLILKSMG-----VTEYEPRVVNQLLEFAYRYTSDVLEDAQVYADHAGRSTIDADDVRLAIQS 76 (129)
T ss_dssp HHHHHHHHHHTT--------B-THHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSB-HHHHHHHHHH
T ss_pred HHHHHHHHHHcC-----CcccCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccCChHHHHHHHHH
Confidence 345777888764 4455666666667765 5788889988899999999999999999993
No 47
>PTZ00018 histone H3; Provisional
Probab=87.78 E-value=2 Score=32.33 Aligned_cols=68 Identities=24% Similarity=0.203 Sum_probs=53.7
Q ss_pred CcccchhHHHHHHhhcc---ccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHHhh
Q 032701 35 GLQFPVGRVHRLLKERA---AAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIR 102 (135)
Q Consensus 35 gL~FPVsrv~r~L~~~~---~~~~RIs~~ApVyLaAvLEYL~aEILelAg~~A~~~~~~rItP~hI~~aI~ 102 (135)
.|.+|-.-|.|+.++-. ...+|+...|-..|--+-|.++-.++|.+.--|...++..|.|+||+++.+
T Consensus 60 ~lLI~k~pF~RLVREI~~~~~~~~rf~~~al~aLQeaaE~yLv~lfed~~lca~HakRVTl~~kD~~L~~r 130 (136)
T PTZ00018 60 ELLIRKLPFQRLVREIAQDFKTDLRFQSSAVLALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARR 130 (136)
T ss_pred hhccccccHHHHHHHHHHHcCCcceeeHHHHHHHHHHHHHHHHHHhhhhHHHHHhhcceecchhhHHHHHH
Confidence 45566656666665542 123699999999999999999999999998878888888999999998843
No 48
>PLN00121 histone H3; Provisional
Probab=87.32 E-value=2.3 Score=32.08 Aligned_cols=68 Identities=24% Similarity=0.204 Sum_probs=53.3
Q ss_pred CcccchhHHHHHHhhccc---cccccCcchHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHHhh
Q 032701 35 GLQFPVGRVHRLLKERAA---AHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIR 102 (135)
Q Consensus 35 gL~FPVsrv~r~L~~~~~---~~~RIs~~ApVyLaAvLEYL~aEILelAg~~A~~~~~~rItP~hI~~aI~ 102 (135)
.|.+|-.-|.|+.++-.. ..+|+...|-..|--+-|.++-.++|.+.--|...++..|.|+||+++.+
T Consensus 60 ~lLI~k~pF~RLVREI~~~~~~~~Rf~~~Al~ALQeaaE~yLv~lfed~~lca~HakRVTl~~kD~~L~~r 130 (136)
T PLN00121 60 ELLIRKLPFQRLVREIAQDFKTDLRFQSSAVLALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARR 130 (136)
T ss_pred ccccccccHHHHHHHHHHHhCccceeeHHHHHHHHHHHHHHHHHHHhhhHHHHHHhcceecchhhHHHHHH
Confidence 555665556666554332 23699999999999999999999999998878888888999999998843
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=87.06 E-value=3.7 Score=27.06 Aligned_cols=58 Identities=16% Similarity=0.116 Sum_probs=48.9
Q ss_pred HHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHHhh
Q 032701 43 VHRLLKERAAAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIR 102 (135)
Q Consensus 43 v~r~L~~~~~~~~RIs~~ApVyLaAvLEYL~aEILelAg~~A~~~~~~rItP~hI~~aI~ 102 (135)
|-++++...+ . .++..|--.|+-+++..+.+|...+-..|...++...++.|+..++.
T Consensus 12 va~il~~~GF-~-~~~~~al~~Ltdi~~~yl~~l~~~~~~~ae~~gRt~~~~~Dv~~al~ 69 (77)
T PF07524_consen 12 VAQILKHAGF-D-SASPSALDTLTDILQRYLQELGRTAKRYAEHAGRTEPNLQDVEQALE 69 (77)
T ss_pred HHHHHHHcCc-c-ccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Confidence 3455666666 3 68999999999999999999999999999889999999999998875
No 50
>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=86.49 E-value=2.8 Score=29.32 Aligned_cols=36 Identities=14% Similarity=0.337 Sum_probs=24.8
Q ss_pred HHHHHHHHHHH---HHHHHhCCCceechhhHHHHhhCChH
Q 032701 70 EYLTAEVLELA---GNASKDLKVKRITPRHLQLAIRGDEE 106 (135)
Q Consensus 70 EYL~aEILelA---g~~A~~~~~~rItP~hI~~aI~nD~E 106 (135)
|+++..|.+++ ...|. .++.+|+++|+..+|++|+.
T Consensus 31 ~iv~~~i~~l~~~a~~~A~-~r~~k~~~eD~~FliR~D~~ 69 (92)
T cd07978 31 DIVVEYIIELCHKAAEVAQ-RRRGKVKVEDLIFLLRKDPK 69 (92)
T ss_pred HHHHHHHHHHHHHHHHHHH-cCCCCCCHHHHHHHHhcCHH
Confidence 34444444444 44444 46778899999999999996
No 51
>PLN00160 histone H3; Provisional
Probab=84.43 E-value=2.5 Score=30.10 Aligned_cols=68 Identities=22% Similarity=0.132 Sum_probs=52.3
Q ss_pred CcccchhHHHHHHhhccc----cccccCcchHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHHhh
Q 032701 35 GLQFPVGRVHRLLKERAA----AHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIR 102 (135)
Q Consensus 35 gL~FPVsrv~r~L~~~~~----~~~RIs~~ApVyLaAvLEYL~aEILelAg~~A~~~~~~rItP~hI~~aI~ 102 (135)
.|.+|-.-+.|+.++-.. ..+|+.++|-.-|--+-|..+-.++|.+.--|...++..|.|+|++++.+
T Consensus 19 ~lLI~k~pF~RLVREI~~~~~~~~~Rfq~~Al~ALQeAsEayLv~lfed~~lca~HakRVTl~~kD~~L~~r 90 (97)
T PLN00160 19 DLLIRRLPFARLVREIQMEMSREAYRWQGSAILALQEAAEAHLVGLFEDSNLCAIHGKRVTIMPKDMQLARR 90 (97)
T ss_pred hhhhccccHHHHHHHHHHHcCCCCcEeeHHHHHHHHHHHHHHHHHHHhhhHHHHHHhcccccchhhHHHHHH
Confidence 455555555555554321 22589999999999999999999999988778778888999999998854
No 52
>KOG0870 consensus DNA polymerase epsilon, subunit D [Transcription]
Probab=83.80 E-value=5.5 Score=31.09 Aligned_cols=68 Identities=21% Similarity=0.238 Sum_probs=52.0
Q ss_pred CcccchhHHHHHHhhccccc-cccCcchHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHHhh
Q 032701 35 GLQFPVGRVHRLLKERAAAH-GRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIR 102 (135)
Q Consensus 35 gL~FPVsrv~r~L~~~~~~~-~RIs~~ApVyLaAvLEYL~aEILelAg~~A~~~~~~rItP~hI~~aI~ 102 (135)
-|-||.+-|-|+.++--.-. .-|+..|...|+-.-=-|+..+...|...|++.+++.|++.|+-.|+.
T Consensus 8 dl~lP~AiI~rlvke~l~E~~vsisKeA~~Ai~raAtVFv~~Lts~s~e~A~~q~rKt~sadDVl~aL~ 76 (172)
T KOG0870|consen 8 DLNLPNAIITRLVKEVLPESNVSISKEARLAIARAATVFVIFLTSVSNEIAKDQKRKTISADDVLKALD 76 (172)
T ss_pred HhhccHHHHHHHHHHhCccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCcccHHHHHHHHH
Confidence 46789988887766543210 146777777777766677788888899999999999999999988876
No 53
>PLN00161 histone H3; Provisional
Probab=83.01 E-value=4.6 Score=30.44 Aligned_cols=69 Identities=23% Similarity=0.163 Sum_probs=52.9
Q ss_pred cCcccchhHHHHHHhhcc----ccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHHhh
Q 032701 34 AGLQFPVGRVHRLLKERA----AAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIR 102 (135)
Q Consensus 34 agL~FPVsrv~r~L~~~~----~~~~RIs~~ApVyLaAvLEYL~aEILelAg~~A~~~~~~rItP~hI~~aI~ 102 (135)
.+|.+|-.-|.|+.++-. ...+|+.+.|-..|--+-|.++-.++|.+.--|...++..|.|+||+++.+
T Consensus 52 t~lLIpklPF~RLVREI~~~~~~~~~Rfq~~Al~ALQEAsEayLV~lFeda~lcaiHAkRVTlm~kDm~La~r 124 (135)
T PLN00161 52 TELLIRKLPFARLVREISNEMLREPFRWTAEALLALQEATEDFLVHLFEDCNLCAIHAKRVTIMPKDMQLARR 124 (135)
T ss_pred cccccccccHHHHHHHHHHhcCCCCcEeeHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccchhhHHHHHH
Confidence 345555555556655432 112689999999999999999999999988778778888999999998854
No 54
>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=82.81 E-value=1.5 Score=26.20 Aligned_cols=34 Identities=26% Similarity=0.370 Sum_probs=25.7
Q ss_pred HHHHHHhCCCceechhhHHHHhhCCh--HHHHHhhc
Q 032701 80 AGNASKDLKVKRITPRHLQLAIRGDE--ELDTLIKG 113 (135)
Q Consensus 80 Ag~~A~~~~~~rItP~hI~~aI~nD~--EL~~L~~~ 113 (135)
|-..|...+...|+|+||-+++-.|+ .+..+|..
T Consensus 1 A~~~A~~~~~~~i~~eHlL~all~~~~~~~~~il~~ 36 (53)
T PF02861_consen 1 AQELARERGHQYISPEHLLLALLEDPDSIAARILKK 36 (53)
T ss_dssp HHHHHHHTTBSSE-HHHHHHHHHHHTTSHHHHHHHH
T ss_pred CHHHHHHcCCCcccHHHHHHHHHhhhhHHHHHHHHH
Confidence 34568888999999999999977655 67777754
No 55
>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=80.93 E-value=2 Score=29.89 Aligned_cols=46 Identities=15% Similarity=0.220 Sum_probs=11.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHH---HHHhCCCceechhhHHHHhhCChHH
Q 032701 62 AVYTAAILEYLTAEVLELAGN---ASKDLKVKRITPRHLQLAIRGDEEL 107 (135)
Q Consensus 62 pVyLaAvLEYL~aEILelAg~---~A~~~~~~rItP~hI~~aI~nD~EL 107 (135)
+--...+-|+++.+|.++... .|...+.++|+++|+..++++|+.-
T Consensus 22 ~eTv~lvE~iv~~~i~~l~~~A~~~a~~rg~~~i~~eDl~F~lR~D~~K 70 (93)
T PF02269_consen 22 PETVDLVEDIVREYIIELCQEAMEVAQRRGSKKIKVEDLLFLLRKDPKK 70 (93)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHC-------------------------
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhccccCcCcHHHHHHHHhcCHHH
Confidence 333444555666666665544 4556677899999999999999863
No 56
>COG5251 TAF40 Transcription initiation factor TFIID, subunit TAF11 [Transcription]
Probab=77.88 E-value=4.1 Score=32.13 Aligned_cols=63 Identities=22% Similarity=0.271 Sum_probs=48.6
Q ss_pred cchhHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHHHHHH-HHhCCCceechhhHHHHhh
Q 032701 38 FPVGRVHRLLKERAAAHGRVGATAAVYTAAILEYLTAEVLELAGNA-SKDLKVKRITPRHLQLAIR 102 (135)
Q Consensus 38 FPVsrv~r~L~~~~~~~~RIs~~ApVyLaAvLEYL~aEILelAg~~-A~~~~~~rItP~hI~~aI~ 102 (135)
||-..|+++.-.--. + -|+..-.|+|.++---|+.||+|||... -.+.-...+.|.|++.|++
T Consensus 116 lnKt~VKKlastV~n-Q-tVspNi~I~l~g~~KVfvGEiIElA~~Vq~~w~~sgpl~p~h~reayr 179 (199)
T COG5251 116 LNKTQVKKLASTVAN-Q-TVSPNIRIFLQGVGKVFVGEIIELAMIVQNKWLTSGPLIPFHKREAYR 179 (199)
T ss_pred CCHHHHHHHHHHHhc-c-ccCCCeeeeeechhHHHHHHHHHHHHHHHHHhcccCCCChHHHHHHHH
Confidence 455666666544322 4 6888899999999999999999999775 3455566789999999887
No 57
>KOG1142 consensus Transcription initiation factor TFIID, subunit TAF12 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=74.41 E-value=6.1 Score=32.75 Aligned_cols=68 Identities=10% Similarity=0.197 Sum_probs=57.8
Q ss_pred cchhHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHHhhCChH
Q 032701 38 FPVGRVHRLLKERAAAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEE 106 (135)
Q Consensus 38 FPVsrv~r~L~~~~~~~~RIs~~ApVyLaAvLEYL~aEILelAg~~A~~~~~~rItP~hI~~aI~nD~E 106 (135)
+-.-+++.+|++-.-. ..|...+--+|.-+.+=|+..|+..++..|+.-+...|..+||++.++++--
T Consensus 155 l~k~kl~dLvqqId~~-~~LD~dVedlLleiADdFV~sii~~sC~LAKHRKsdtlEvrDIqLhLEr~~N 222 (258)
T KOG1142|consen 155 LSKRKLDDLVQQIDGT-TKLDDDVEDLLLEIADDFVSSIIHRSCKLAKHRKSDTVEVRDIQLHLERNFN 222 (258)
T ss_pred ccccchhHHHHhhcCc-ccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCccchhheeeeeecccc
Confidence 3445677778776443 4899999999999999999999999999999988889999999999998744
No 58
>PLN00163 histone H4; Provisional
Probab=71.26 E-value=1.8 Score=28.22 Aligned_cols=34 Identities=21% Similarity=0.456 Sum_probs=23.8
Q ss_pred CCCCCCCcccccCcccchhHHHHHHhhccccccccCcc
Q 032701 23 DKKKPVSRSSRAGLQFPVGRVHRLLKERAAAHGRVGAT 60 (135)
Q Consensus 23 ~~~~~~s~SsRagL~FPVsrv~r~L~~~~~~~~RIs~~ 60 (135)
++.+++.+.+-.+++-|. |.|+-+.+.. . |||..
T Consensus 17 KRhrk~lrd~i~gItKpa--IrRLARRgGV-K-RIs~~ 50 (59)
T PLN00163 17 KRHRKVLRDNIQGITKPA--IRRLARRGGV-K-RISGL 50 (59)
T ss_pred hhHHHHHHHhhcccchHH--HHHHHHhcCc-e-eecch
Confidence 344455555566777777 9999988876 4 89874
No 59
>KOG1745 consensus Histones H3 and H4 [Chromatin structure and dynamics]
Probab=69.92 E-value=5.7 Score=30.01 Aligned_cols=63 Identities=22% Similarity=0.236 Sum_probs=47.5
Q ss_pred chhHHHH-HHhhccccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHHhh
Q 032701 39 PVGRVHR-LLKERAAAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIR 102 (135)
Q Consensus 39 PVsrv~r-~L~~~~~~~~RIs~~ApVyLaAvLEYL~aEILelAg~~A~~~~~~rItP~hI~~aI~ 102 (135)
|-.|+-| ..++..- ..|+.++|-.-|--..|.++-.+.|.+.--|...++-.|.|.||++|.+
T Consensus 68 PFqRlvrei~q~f~~-dLrfqs~Ai~ALQeA~EayLv~LfEdtnlcAihAkRVTimpkdiQlArr 131 (137)
T KOG1745|consen 68 PFQRLVREIAQDFKT-DLRFQSSAIAALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARR 131 (137)
T ss_pred cHHHHhHHHHhcccc-cceehHHHHHHHHHHHHHHHHHhccccchhhhccceeEecccceehhhh
Confidence 4444444 3344333 3589999998888888888888888877667778888999999999865
No 60
>PF13335 Mg_chelatase_2: Magnesium chelatase, subunit ChlI
Probab=57.73 E-value=28 Score=24.14 Aligned_cols=48 Identities=21% Similarity=0.200 Sum_probs=39.2
Q ss_pred cccCcchHHHHHHHHHHHH------HHHHHHHHHHHHhCCCceechhhHHHHhh
Q 032701 55 GRVGATAAVYTAAILEYLT------AEVLELAGNASKDLKVKRITPRHLQLAIR 102 (135)
Q Consensus 55 ~RIs~~ApVyLaAvLEYL~------aEILelAg~~A~~~~~~rItP~hI~~aI~ 102 (135)
|.++..+-.+|-.+++-+- .-||-+|-..|.-.+...|++.||..|+.
T Consensus 41 ~~l~~~~~~~l~~~~~~~~lS~R~~~rilrvARTIADL~~~~~I~~~hi~EAl~ 94 (96)
T PF13335_consen 41 CPLSSEAKKLLEQAAEKLNLSARGYHRILRVARTIADLEGSERITREHIAEALS 94 (96)
T ss_pred cCCCHHHHHHHHHHHHHcCcCHHHHHHHHHHHHHHHhHcCCCCCCHHHHHHHHh
Confidence 3577777777777777654 67888999999999999999999998874
No 61
>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=56.00 E-value=31 Score=20.86 Aligned_cols=27 Identities=15% Similarity=0.151 Sum_probs=19.8
Q ss_pred HHHHHHHHHHHHhCCCceechhhHHHH
Q 032701 74 AEVLELAGNASKDLKVKRITPRHLQLA 100 (135)
Q Consensus 74 aEILelAg~~A~~~~~~rItP~hI~~a 100 (135)
..+-..+-..|++.|...||++++..|
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 455566667899999999999999765
No 62
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=48.67 E-value=31 Score=32.55 Aligned_cols=40 Identities=18% Similarity=0.208 Sum_probs=34.7
Q ss_pred HHHHHHHHHHHHHhCCCceechhhHHHHhhCChHHHHHhh
Q 032701 73 TAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDTLIK 112 (135)
Q Consensus 73 ~aEILelAg~~A~~~~~~rItP~hI~~aI~nD~EL~~L~~ 112 (135)
+.++|+.|.+.|...+...|+|+|+-+++-.|.++..+|.
T Consensus 6 ~~~~l~~a~~~a~~~~~~~~~~~h~l~~l~~~~~~~~~~~ 45 (758)
T PRK11034 6 LELSLNMAFARAREHRHEFMTVEHLLLALLSNPSAREALE 45 (758)
T ss_pred HHHHHHHHHHHHHHcCCCcchHHHHHHHHHcChhHHHHHH
Confidence 4677889999999999999999999999998887777665
No 63
>PF13654 AAA_32: AAA domain; PDB: 3K1J_B.
Probab=48.60 E-value=38 Score=30.40 Aligned_cols=30 Identities=30% Similarity=0.325 Sum_probs=24.2
Q ss_pred HHHHHHHHHHHHhCCCceechhhHHHHhhC
Q 032701 74 AEVLELAGNASKDLKVKRITPRHLQLAIRG 103 (135)
Q Consensus 74 aEILelAg~~A~~~~~~rItP~hI~~aI~n 103 (135)
.+||..|...|...+...|+.+||+.||..
T Consensus 476 ~~ll~EA~~~A~~~~~~~I~~~~V~~Ai~~ 505 (509)
T PF13654_consen 476 ADLLREANYWARKEGAKVITAEHVEQAIEE 505 (509)
T ss_dssp HHHHHHHHHHHHHCT-SSB-HHHHHHHHHH
T ss_pred HHHHHHHHHHHHHhCCCccCHHHHHHHHHc
Confidence 677788888888889999999999999973
No 64
>KOG3334 consensus Transcription initiation factor TFIID, subunit TAF9 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=47.37 E-value=93 Score=23.82 Aligned_cols=57 Identities=25% Similarity=0.253 Sum_probs=44.7
Q ss_pred HHHHHHhhccccccccCcchHHHHHHHHHHH---HHHHHHHHHHHHHhCCCceechhhHHHHhhC
Q 032701 42 RVHRLLKERAAAHGRVGATAAVYTAAILEYL---TAEVLELAGNASKDLKVKRITPRHLQLAIRG 103 (135)
Q Consensus 42 rv~r~L~~~~~~~~RIs~~ApVyLaAvLEYL---~aEILelAg~~A~~~~~~rItP~hI~~aI~n 103 (135)
-|+.+|++. =|.++-|-.+.-.|||- +..||+.|.-++...++..|..+|+++||+.
T Consensus 18 ~i~~iL~s~-----GI~eyEprVi~qlLefa~rYtt~vL~DA~vys~HA~ka~i~~eDVrlA~~~ 77 (148)
T KOG3334|consen 18 VIASILKSL-----GIQEYEPRVINQLLEFAYRYTTTVLDDAKVYSSHAKKATIDAEDVRLAIQM 77 (148)
T ss_pred HHHHHHHHc-----CccccChHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCcHHHHHHHHHH
Confidence 366777764 36667777777778874 5678888888888889999999999999984
No 65
>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=46.74 E-value=10 Score=26.59 Aligned_cols=56 Identities=25% Similarity=0.292 Sum_probs=33.1
Q ss_pred hHHHHHHhhccccc--cccCcchHHHHHHHHHHHHHH-HHHHHHHHHHhCCCceechhhHHHHh
Q 032701 41 GRVHRLLKERAAAH--GRVGATAAVYTAAILEYLTAE-VLELAGNASKDLKVKRITPRHLQLAI 101 (135)
Q Consensus 41 srv~r~L~~~~~~~--~RIs~~ApVyLaAvLEYL~aE-ILelAg~~A~~~~~~rItP~hI~~aI 101 (135)
.++.|+|-...... .|-..+-|.||++||+||+.+ -.-++.-.+ ..|.|+.+..|-
T Consensus 22 e~l~rFLa~TG~~p~~LR~~a~dp~FL~~VLdFl~~de~~l~af~~a-----~~~~p~~v~~Ar 80 (88)
T PF12096_consen 22 ERLPRFLALTGLSPDDLRAAAGDPAFLAAVLDFLLMDEAWLLAFCDA-----AGIPPEAVAAAR 80 (88)
T ss_pred HHHHHHHHHhCCCHHHHHHHccChHHHHHHHHHHHcchHHHHHHHHH-----cCcChhHHHHHH
Confidence 34555554443331 366667899999999999843 222232222 346777776553
No 66
>COG5150 Class 2 transcription repressor NC2, beta subunit (Dr1) [Transcription]
Probab=45.97 E-value=1.1e+02 Score=23.23 Aligned_cols=68 Identities=15% Similarity=0.227 Sum_probs=41.5
Q ss_pred CcccchhHHHHHHhhcccccc-ccCcchHHHHHHHHHHHHHHHHHHHHHH-HHhCCCceechhhHHHHhhCC
Q 032701 35 GLQFPVGRVHRLLKERAAAHG-RVGATAAVYTAAILEYLTAEVLELAGNA-SKDLKVKRITPRHLQLAIRGD 104 (135)
Q Consensus 35 gL~FPVsrv~r~L~~~~~~~~-RIs~~ApVyLaAvLEYL~aEILelAg~~-A~~~~~~rItP~hI~~aI~nD 104 (135)
.+.+|-.-|.+.+-+.-.... ---..--+|+-+++||+. +|..-.|+ +.+..++.|.++|+-.|+.|=
T Consensus 9 e~sLPKATVqKMvS~iLp~dl~ftKearei~in~cieFi~--~lsseAne~ce~EaKKTIa~EHviKALenL 78 (148)
T COG5150 9 ENSLPKATVQKMVSSILPKDLVFTKEAREIFINACIEFIN--MLSSEANEACEEEAKKTIAYEHVIKALENL 78 (148)
T ss_pred cccCcHHHHHHHHHHhccccccccHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHhccccHHHHHHHHHhc
Confidence 456676666655543322110 122345689999999874 33333333 334567889999999998853
No 67
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=45.02 E-value=36 Score=31.55 Aligned_cols=39 Identities=21% Similarity=0.268 Sum_probs=32.8
Q ss_pred HHHHHHHHHHHHhCCCceechhhHHHHhhCChHHHHHhh
Q 032701 74 AEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDTLIK 112 (135)
Q Consensus 74 aEILelAg~~A~~~~~~rItP~hI~~aI~nD~EL~~L~~ 112 (135)
..+|+.|-.+|...+...|+|+||-+++-.+++...++.
T Consensus 6 ~~~L~~A~~~A~~~~h~~V~~EHLLlaLL~~~~~~~iL~ 44 (731)
T TIGR02639 6 ERILDAALEEAKKRRHEFVTLEHILLALLFDSDAIEILE 44 (731)
T ss_pred HHHHHHHHHHHHHhCCCcCcHHHHHHHHHcCchHHHHHH
Confidence 467788999999999999999999999988876656555
No 68
>COG3636 Predicted transcriptional regulator [Transcription]
Probab=44.98 E-value=36 Score=24.43 Aligned_cols=53 Identities=19% Similarity=0.218 Sum_probs=34.0
Q ss_pred chHHHHHHHHHHHHHHHHH-------HHHHHHHhCCCceechhhHHHHhhC--ChHHHHHhh
Q 032701 60 TAAVYTAAILEYLTAEVLE-------LAGNASKDLKVKRITPRHLQLAIRG--DEELDTLIK 112 (135)
Q Consensus 60 ~ApVyLaAvLEYL~aEILe-------lAg~~A~~~~~~rItP~hI~~aI~n--D~EL~~L~~ 112 (135)
.+.+||.++||=--.+.+- .+...++-..+.-++-+||..++.+ +|.|+.++.
T Consensus 22 ~ia~yL~~~le~~d~a~i~~alg~var~~GMsqvA~~aGlsRe~LYkaLS~~GNPtf~Til~ 83 (100)
T COG3636 22 AIAAYLNAALEEGDPALIAAALGVVARSRGMSQVARKAGLSREGLYKALSPGGNPTFDTILA 83 (100)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHHhcCHHHHHHHhCccHHHHHHHhCCCCCCcHHHHHH
Confidence 5789999999743333332 2222333334567889999988874 567777765
No 69
>COG5094 TAF9 Transcription initiation factor TFIID, subunit TAF9 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=43.57 E-value=1.2e+02 Score=22.83 Aligned_cols=63 Identities=19% Similarity=0.172 Sum_probs=43.3
Q ss_pred hhHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHhCCCceech---hhHHHHhhCC
Q 032701 40 VGRVHRLLKERAAAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITP---RHLQLAIRGD 104 (135)
Q Consensus 40 Vsrv~r~L~~~~~~~~RIs~~ApVyLaAvLEYL~aEILelAg~~A~~~~~~rItP---~hI~~aI~nD 104 (135)
|--|+-+|+.-.. + -.+...|+-|--.---.+.++|+-|.-.|...++..|++ +|+++|+..-
T Consensus 17 vrlihliL~Slgi-~-~ye~~VplQLl~FAhRYTq~vl~Dalvya~htgrg~~a~l~veDvrLA~at~ 82 (145)
T COG5094 17 VRLIHLILRSLGI-E-EYEPKVPLQLLEFAHRYTQDVLEDALVYAKHTGRGHIATLGVEDVRLALATK 82 (145)
T ss_pred hhHHHHHHHhcCc-h-hhCccchHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCcccHHHHHHHHHHH
Confidence 3346666664333 2 344455665544444467889999999999888888888 9999999854
No 70
>COG1067 LonB Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]
Probab=40.07 E-value=38 Score=31.51 Aligned_cols=38 Identities=18% Similarity=0.204 Sum_probs=30.3
Q ss_pred HHHHHHHHHHHHhCCCceechhhHHHHhhCChHHHHHh
Q 032701 74 AEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDTLI 111 (135)
Q Consensus 74 aEILelAg~~A~~~~~~rItP~hI~~aI~nD~EL~~L~ 111 (135)
..|+..|+..|...++..|+++|+++|+++..-....+
T Consensus 369 ~~lv~~A~~ia~~~~~~~I~ae~Ve~a~~~~~~~e~~l 406 (647)
T COG1067 369 GNLVREAGDIAVSEGRKLITAEDVEEALQKRELREGQL 406 (647)
T ss_pred HHHHHHhhHHHhcCCcccCcHHHHHHHHHhhhhHHHHH
Confidence 45667888888888899999999999999965544444
No 71
>KOG2549 consensus Transcription initiation factor TFIID, subunit TAF6 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=37.14 E-value=1.5e+02 Score=27.47 Aligned_cols=57 Identities=21% Similarity=0.274 Sum_probs=48.9
Q ss_pred HHHhhccccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHHhh
Q 032701 45 RLLKERAAAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIR 102 (135)
Q Consensus 45 r~L~~~~~~~~RIs~~ApVyLaAvLEYL~aEILelAg~~A~~~~~~rItP~hI~~aI~ 102 (135)
+.+-+.-... .|+..+.-.|+-=+||=+.||...|.+.-...++.+.|-.||..|++
T Consensus 18 k~vAEslGi~-nl~deaa~~La~dv~yrikEI~Q~aaKfm~hskR~kLtv~DV~~ALr 74 (576)
T KOG2549|consen 18 KVVAESLGIT-NLNDEAALLLAEDVEYRIKEIVQDAAKFMVHSKRTKLTVDDVDYALR 74 (576)
T ss_pred HHHHHHhCcc-ccCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCcCcHHHHHHHHh
Confidence 4444444443 69999999999999999999999999988888999999999999887
No 72
>COG4430 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=36.17 E-value=37 Score=27.21 Aligned_cols=27 Identities=26% Similarity=0.321 Sum_probs=23.6
Q ss_pred CCCceechhhHHHHhhCChHHHHHhhc
Q 032701 87 LKVKRITPRHLQLAIRGDEELDTLIKG 113 (135)
Q Consensus 87 ~~~~rItP~hI~~aI~nD~EL~~L~~~ 113 (135)
....-+.|++|+.++..++.|..+|..
T Consensus 132 ~~~e~~IPeeLq~alda~palk~~f~~ 158 (200)
T COG4430 132 KNEELIIPEELQDALDANPALKTAFEA 158 (200)
T ss_pred cccccCCcHHHHHHHhcCHHHHHHHHh
Confidence 345568999999999999999999986
No 73
>KOG4552 consensus Vitamin-D-receptor interacting protein complex component [Transcription]
Probab=35.48 E-value=60 Score=26.64 Aligned_cols=49 Identities=31% Similarity=0.240 Sum_probs=32.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhC-CCceechhhHHHHhhCChHHHHHhhc
Q 032701 65 TAAILEYLTAEVLELAGNASKDL-KVKRITPRHLQLAIRGDEELDTLIKG 113 (135)
Q Consensus 65 LaAvLEYL~aEILelAg~~A~~~-~~~rItP~hI~~aI~nD~EL~~L~~~ 113 (135)
++-=||.+..||+|.+.+--+.. -+.-=+-..|.+-+..|+||..|++-
T Consensus 16 ~~dDlE~i~kelie~l~~~~~qk~l~~gE~v~il~Ll~~kd~ef~~llkl 65 (272)
T KOG4552|consen 16 SADDLEHIVKELIETLINRDKQKMLKNGETVNILKLLDSKDDEFKTLLKL 65 (272)
T ss_pred HhhHHHHHHHHHHHHHHhhhHHHHHhcchHHHHHHHHHhccHHHHHHHHH
Confidence 34458889999999887643321 01111336778889999999888864
No 74
>PF15510 CENP-W: Centromere kinetochore component W
Probab=34.94 E-value=1.2e+02 Score=21.62 Aligned_cols=64 Identities=20% Similarity=0.279 Sum_probs=40.4
Q ss_pred ccchhHHHHHHhhccccccccCcchHHHH----------H--HHHHH--HHHHHHHHHHHHHHhCCCceechhhHHHHh
Q 032701 37 QFPVGRVHRLLKERAAAHGRVGATAAVYT----------A--AILEY--LTAEVLELAGNASKDLKVKRITPRHLQLAI 101 (135)
Q Consensus 37 ~FPVsrv~r~L~~~~~~~~RIs~~ApVyL----------a--AvLEY--L~aEILelAg~~A~~~~~~rItP~hI~~aI 101 (135)
.-|-+.++|+++.... +.|+..++-+.. . .=|.+ |+..+-|-|-.-|.+++...|.++|+..|-
T Consensus 16 kaPrgfLkrv~Kr~Kp-hlRl~~~~Dllv~~~~f~~~~~~~~vhLncLLFvhrLAEEaRtnA~EnK~~~Ik~~Hv~Aaa 93 (102)
T PF15510_consen 16 KAPRGFLKRVFKRQKP-HLRLETSGDLLVRFCPFSGWQWGGEVHLNCLLFVHRLAEEARTNACENKCGTIKKEHVLAAA 93 (102)
T ss_pred hCchHHHHHHHHhcCC-ceeecccccHHHhhcccccccccceeehhHHHHHHHHHHHHHHHHHHHhhccccHHHHHHHH
Confidence 4688999999986544 347776554430 0 11111 334555556555777788889999997664
No 75
>COG4905 Predicted membrane protein [Function unknown]
Probab=34.50 E-value=40 Score=27.28 Aligned_cols=22 Identities=32% Similarity=0.513 Sum_probs=19.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHHH
Q 032701 61 AAVYTAAILEYLTAEVLELAGN 82 (135)
Q Consensus 61 ApVyLaAvLEYL~aEILelAg~ 82 (135)
-++++..|+||+++-|||.--|
T Consensus 70 fsi~ivTv~Eyvt~~ILEa~Fn 91 (243)
T COG4905 70 FSIFIVTVLEYVTGFILEAIFN 91 (243)
T ss_pred HHHHHHHHHHHHHHHHHHHHHc
Confidence 3578999999999999998766
No 76
>CHL00095 clpC Clp protease ATP binding subunit
Probab=33.05 E-value=61 Score=30.54 Aligned_cols=33 Identities=15% Similarity=0.303 Sum_probs=28.0
Q ss_pred HHHHHHHHHHHHhCCCceechhhHHHHhhCChH
Q 032701 74 AEVLELAGNASKDLKVKRITPRHLQLAIRGDEE 106 (135)
Q Consensus 74 aEILelAg~~A~~~~~~rItP~hI~~aI~nD~E 106 (135)
.++|+.|-.+|...+...|+|+||-+++-.+++
T Consensus 10 ~~vL~~A~~~A~~~~h~~V~~EHLLLaLL~~~~ 42 (821)
T CHL00095 10 IKVIMLSQEEARRLGHNFVGTEQILLGLIGEGT 42 (821)
T ss_pred HHHHHHHHHHHHHhCCCcCcHHHHHHHHHhCCC
Confidence 456778889999999999999999999877654
No 77
>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=32.45 E-value=27 Score=22.13 Aligned_cols=22 Identities=50% Similarity=0.866 Sum_probs=16.7
Q ss_pred CChHHHHHhhccccCCcccCCCcc
Q 032701 103 GDEELDTLIKGTIAGGGVIPHIHK 126 (135)
Q Consensus 103 nD~EL~~L~~~~ia~ggv~p~i~~ 126 (135)
.|+||++++++. .+||++.|..
T Consensus 16 s~eELd~ilGg~--g~Gv~~Tis~ 37 (51)
T PF04604_consen 16 SDEELDQILGGA--GNGVIKTISH 37 (51)
T ss_pred CHHHHHHHhCCC--CCCceeeccc
Confidence 599999999763 6778777654
No 78
>TIGR01128 holA DNA polymerase III, delta subunit. subunit around DNA forming a DNA sliding clamp.
Probab=30.59 E-value=1.9e+02 Score=22.83 Aligned_cols=67 Identities=13% Similarity=0.081 Sum_probs=37.7
Q ss_pred hhHHHHHHhhcccc-ccccCcchHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHHhhCChH
Q 032701 40 VGRVHRLLKERAAA-HGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEE 106 (135)
Q Consensus 40 Vsrv~r~L~~~~~~-~~RIs~~ApVyLaAvLEYL~aEILelAg~~A~~~~~~rItP~hI~~aI~nD~E 106 (135)
...+.+|+++.--. ...|+..+.-||+..++.=+..+....-..+--.+...||.+||+..+..+.+
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 44455555442111 13699999999988877544333222222222222236999999988775554
No 79
>PHA02943 hypothetical protein; Provisional
Probab=30.56 E-value=1.3e+02 Score=23.45 Aligned_cols=41 Identities=22% Similarity=0.169 Sum_probs=33.3
Q ss_pred HHHHHHHHHHHHHhCCCceechhhHHHHhhCChHHHHHhhc
Q 032701 73 TAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDTLIKG 113 (135)
Q Consensus 73 ~aEILelAg~~A~~~~~~rItP~hI~~aI~nD~EL~~L~~~ 113 (135)
+.+++.--...-+.++.+-|+|-.+..-|..|.|-..+|..
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 45555555555667888899999999999999999999986
No 80
>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=30.10 E-value=1.2e+02 Score=22.89 Aligned_cols=25 Identities=24% Similarity=0.360 Sum_probs=21.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHh
Q 032701 62 AVYTAAILEYLTAEVLELAGNASKD 86 (135)
Q Consensus 62 pVyLaAvLEYL~aEILelAg~~A~~ 86 (135)
.+++++++-+++++++..-.+.-.+
T Consensus 5 ~~l~~a~~a~~~AQ~iK~~~~~~~~ 29 (141)
T PF02681_consen 5 KVLIAALIAWFIAQFIKVFINYLKE 29 (141)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 5789999999999999988776554
No 81
>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=30.05 E-value=2.8e+02 Score=22.59 Aligned_cols=62 Identities=23% Similarity=0.335 Sum_probs=36.9
Q ss_pred hHHHHHHhhccc-c--ccccCcchHHHHHHHHHH------HHHHHHHHHHHHHHhCCCceechhhHHHHhh
Q 032701 41 GRVHRLLKERAA-A--HGRVGATAAVYTAAILEY------LTAEVLELAGNASKDLKVKRITPRHLQLAIR 102 (135)
Q Consensus 41 srv~r~L~~~~~-~--~~RIs~~ApVyLaAvLEY------L~aEILelAg~~A~~~~~~rItP~hI~~aI~ 102 (135)
..+..+|+..-. + ..-++..+.-+++...+. ..-+++..|...|...+...|+++|++.|+.
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 345566654321 0 112455555566555542 2234666777777777788899999998765
No 82
>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=29.86 E-value=84 Score=29.78 Aligned_cols=40 Identities=25% Similarity=0.309 Sum_probs=31.2
Q ss_pred HHHHHHHHHHHHHhCCCceechhhHHHHhhCChH--HHHHhh
Q 032701 73 TAEVLELAGNASKDLKVKRITPRHLQLAIRGDEE--LDTLIK 112 (135)
Q Consensus 73 ~aEILelAg~~A~~~~~~rItP~hI~~aI~nD~E--L~~L~~ 112 (135)
+..+|+.|-..|...+...|+|+||-+++-.++. ...++.
T Consensus 5 a~~vL~~A~~~A~~~~h~~V~~EHLLlaLl~~~~g~a~~iL~ 46 (852)
T TIGR03346 5 FQEALQAAQSLALGRDHQQIEPEHLLKALLDQEGGLARRLLQ 46 (852)
T ss_pred HHHHHHHHHHHHHHcCCCcccHHHHHHHHHhCCccHHHHHHH
Confidence 3567788889999999999999999999887652 344443
No 83
>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=29.75 E-value=1e+02 Score=26.23 Aligned_cols=45 Identities=24% Similarity=0.173 Sum_probs=36.3
Q ss_pred HHHHHHHHHHHHHHHHHHhCCCceechhhHHHHhhCChHHHHHhhc
Q 032701 68 ILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDTLIKG 113 (135)
Q Consensus 68 vLEYL~aEILelAg~~A~~~~~~rItP~hI~~aI~nD~EL~~L~~~ 113 (135)
.++|+..|+-++.-...+..|+ .||++.|+.+|+.-.+...+++.
T Consensus 136 ~~~Y~~~el~~l~~~LE~~~G~-~it~e~L~~aI~~~N~~R~~~~~ 180 (380)
T TIGR02263 136 GGEFYTAELNELCEGLEHLSGK-KITDDAIRASIAVFNDNRKLIQA 180 (380)
T ss_pred HHHHHHHHHHHHHHHHHHHHCC-CCCHHHHHHHHHHHHHHHHHHHH
Confidence 4899999999988777666665 68999999999987776666654
No 84
>PF13376 OmdA: Bacteriocin-protection, YdeI or OmpD-Associated
Probab=29.60 E-value=55 Score=20.68 Aligned_cols=23 Identities=17% Similarity=0.341 Sum_probs=20.7
Q ss_pred eechhhHHHHhhCChHHHHHhhc
Q 032701 91 RITPRHLQLAIRGDEELDTLIKG 113 (135)
Q Consensus 91 rItP~hI~~aI~nD~EL~~L~~~ 113 (135)
...|.+|..++..|++.+..|..
T Consensus 4 ~~vP~dl~~aL~~~p~a~~~f~~ 26 (63)
T PF13376_consen 4 VEVPEDLEAALEANPEAKEFFES 26 (63)
T ss_pred CCCCHHHHHHHHCCHHHHHHHHH
Confidence 46899999999999999999975
No 85
>KOG1658 consensus DNA polymerase epsilon, subunit C [Replication, recombination and repair]
Probab=29.46 E-value=1e+02 Score=23.86 Aligned_cols=74 Identities=18% Similarity=0.235 Sum_probs=50.7
Q ss_pred cCcccchhHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHHhhCChHHHHHhhc
Q 032701 34 AGLQFPVGRVHRLLKERAAAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDTLIKG 113 (135)
Q Consensus 34 agL~FPVsrv~r~L~~~~~~~~RIs~~ApVyLaAvLEYL~aEILelAg~~A~~~~~~rItP~hI~~aI~nD~EL~~L~~~ 113 (135)
+..-||++.++++=+...... --+..|-+-.+...|.|+.-+..+++ ....|..-.-|+.++..|++|..+-+.
T Consensus 8 ~~p~~p~ekvkkiak~dPey~-~te~~a~~etafatE~fvq~lv~~p~-----a~l~rLpL~rik~vvkl~pdl~l~~de 81 (162)
T KOG1658|consen 8 CSPKLPMEKVKKIAKNDPEYM-DTEDDAFVETAFATEQFVQVLVHLPQ-----ASLSRLPLARIKQVVKLDPDLTLLNDE 81 (162)
T ss_pred hCccccHHHHHHhhcCCchhh-hcccchHHHHHHHHHHHHhhhhhhhh-----hhhhhccHHHHHhhccCCcchhhhhhH
Confidence 345699999998877665421 22334555678888998888887555 234567777788888888887766543
No 86
>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=27.37 E-value=55 Score=24.79 Aligned_cols=53 Identities=25% Similarity=0.245 Sum_probs=34.3
Q ss_pred HHHHhhccccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHH
Q 032701 44 HRLLKERAAAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQ 98 (135)
Q Consensus 44 ~r~L~~~~~~~~RIs~~ApVyLaAvLEYL~aEILelAg~~A~~~~~~rItP~hI~ 98 (135)
++++++.-. .-|..+-.-=+..++|-=..++++.|-..|+.+++.-|.|.||-
T Consensus 2 e~lFR~aa~--LdvdK~d~~r~~d~V~~Kl~DLl~va~~~Ak~ngRdvI~~~DLP 54 (138)
T PF09123_consen 2 ERLFRKAAG--LDVDKNDAKRYSDFVEKKLYDLLLVAQENAKANGRDVIEPRDLP 54 (138)
T ss_dssp HHHHHHHHS------HHHHHHHHHHHHHHHHHCCCCHHHHHHHTT-SEE-GGGS-
T ss_pred hHHHHHHhc--cCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeeccccCC
Confidence 445554433 13555555556677777788888899889999999999999984
No 87
>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=27.28 E-value=95 Score=29.62 Aligned_cols=40 Identities=18% Similarity=0.243 Sum_probs=30.9
Q ss_pred HHHHHHHHHHHHHhCCCceechhhHHHHhhCCh--HHHHHhh
Q 032701 73 TAEVLELAGNASKDLKVKRITPRHLQLAIRGDE--ELDTLIK 112 (135)
Q Consensus 73 ~aEILelAg~~A~~~~~~rItP~hI~~aI~nD~--EL~~L~~ 112 (135)
+.++|+.|-..|...+...|+|+||-+++-.++ .+..++.
T Consensus 5 a~~~L~~A~~~A~~~~h~~I~~eHLLlaLL~~~~~~~~~iL~ 46 (852)
T TIGR03345 5 SRRALEQAAALCVARGHPEVELEHWLLALLDQPDSDLAAILR 46 (852)
T ss_pred HHHHHHHHHHHHHHhCCCcccHHHHHHHHHhccCcHHHHHHH
Confidence 356788999999999999999999999887653 3344443
No 88
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=26.55 E-value=2.9e+02 Score=22.78 Aligned_cols=69 Identities=19% Similarity=0.287 Sum_probs=39.8
Q ss_pred Ccccc---hhHHHHHHhhcccc---ccccCcchHHHHHHHHHHH---H---HHHHHHHHHHHHhCCCceechhhHHHHhh
Q 032701 35 GLQFP---VGRVHRLLKERAAA---HGRVGATAAVYTAAILEYL---T---AEVLELAGNASKDLKVKRITPRHLQLAIR 102 (135)
Q Consensus 35 gL~FP---Vsrv~r~L~~~~~~---~~RIs~~ApVyLaAvLEYL---~---aEILelAg~~A~~~~~~rItP~hI~~aI~ 102 (135)
.+.|| ...+..+|++.-.. ..-++..+.-+++...... . -+++..|...|...+...|+.+|++.|+.
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 34553 45566666543210 1134555555555544332 1 24456666667777788999999998887
Q ss_pred C
Q 032701 103 G 103 (135)
Q Consensus 103 n 103 (135)
.
T Consensus 281 ~ 281 (394)
T PRK00411 281 K 281 (394)
T ss_pred H
Confidence 3
No 89
>PRK10865 protein disaggregation chaperone; Provisional
Probab=25.07 E-value=1.2e+02 Score=28.99 Aligned_cols=39 Identities=23% Similarity=0.186 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHHHhCCCceechhhHHHHhhCChH--HHHHh
Q 032701 73 TAEVLELAGNASKDLKVKRITPRHLQLAIRGDEE--LDTLI 111 (135)
Q Consensus 73 ~aEILelAg~~A~~~~~~rItP~hI~~aI~nD~E--L~~L~ 111 (135)
+.++|+.|...|...+...|+|+||-+++-+++. +..++
T Consensus 10 ~~~~l~~a~~~a~~~~~~~~~~~hll~~l~~~~~~~~~~~l 50 (857)
T PRK10865 10 FQLALADAQSLALGHDNQFIEPLHLMSALLNQEGGSVRPLL 50 (857)
T ss_pred HHHHHHHHHHHHHHcCCCcccHHHHHHHHHhCCccHHHHHH
Confidence 3566788888999999999999999999987653 44444
No 90
>cd05031 S-100A10_like S-100A10_like: S-100A10 domain found in proteins similar to S100A10. S100A10 is a member of the S100 family of EF-hand superfamily of calcium-binding proteins. Note that the S-100 hierarchy, to which this S-100A1_like group belongs, contains only S-100 EF-hand domains, other EF-hands have been modeled separately. S100 proteins are expressed exclusively in vertebrates, and are implicated in intracellular and extracellular regulatory activities. A unique feature of S100A10 is that it contains mutation in both of the calcium binding sites, making it calcium insensitive. S100A10 has been detected in brain, heart, gastrointestinal tract, kidney, liver, lung, spleen, testes, epidermis, aorta, and thymus. Structural data supports the homo- and hetero-dimeric as well as hetero-tetrameric nature of the protein. S100A10 has multiple binding partners in its calcium free state and is therefore involved in many diverse biological functions.
Probab=24.78 E-value=2.2e+02 Score=18.90 Aligned_cols=51 Identities=12% Similarity=0.137 Sum_probs=31.4
Q ss_pred HHHHHHHHHHHHHHHHHhCC-CceechhhHHHHhh-----------CChHHHHHhhc-cccCCc
Q 032701 69 LEYLTAEVLELAGNASKDLK-VKRITPRHLQLAIR-----------GDEELDTLIKG-TIAGGG 119 (135)
Q Consensus 69 LEYL~aEILelAg~~A~~~~-~~rItP~hI~~aI~-----------nD~EL~~L~~~-~ia~gg 119 (135)
||+...++.+.-......++ ...|+...+..++. .++++..++.. .....|
T Consensus 3 ~~~~~~~l~~~F~~~D~~dg~dG~Is~~El~~~l~~~~g~~lg~~~s~~ei~~~~~~~D~~~dg 66 (94)
T cd05031 3 LEHAMESLILTFHRYAGKDGDKNTLSRKELKKLMEKELSEFLKNQKDPMAVDKIMKDLDQNRDG 66 (94)
T ss_pred HHHHHHHHHHHHHHHhccCCCCCeECHHHHHHHHHHHhHHHhhccccHHHHHHHHHHhCCCCCC
Confidence 56666666654444444244 57899999987764 34668888865 333333
No 91
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=24.35 E-value=99 Score=26.48 Aligned_cols=73 Identities=21% Similarity=0.356 Sum_probs=49.6
Q ss_pred Ccccch---hHHHHHHhhcccc---ccccCcchHHHHHHHHHHHH------HHHHHHHHHHHHhCCCceechhhHHHHhh
Q 032701 35 GLQFPV---GRVHRLLKERAAA---HGRVGATAAVYTAAILEYLT------AEVLELAGNASKDLKVKRITPRHLQLAIR 102 (135)
Q Consensus 35 gL~FPV---srv~r~L~~~~~~---~~RIs~~ApVyLaAvLEYL~------aEILelAg~~A~~~~~~rItP~hI~~aI~ 102 (135)
.+.||. ..++.+|+++... .+.++..+--+.++...+-. -++|..|+..|...+...|++.|+..| .
T Consensus 184 ~I~F~pY~a~el~~Il~~R~~~~~~~~~~~~~vl~lia~~~a~~~GDAR~aidilr~A~eiAe~~~~~~v~~~~v~~a-~ 262 (366)
T COG1474 184 EIVFPPYTAEELYDILRERVEEGFSAGVIDDDVLKLIAALVAAESGDARKAIDILRRAGEIAEREGSRKVSEDHVREA-Q 262 (366)
T ss_pred eeeeCCCCHHHHHHHHHHHHHhhccCCCcCccHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHhhCCCCcCHHHHHHH-H
Confidence 477875 5666666554331 23556666666665544433 578999999999999999999999999 3
Q ss_pred CChHHH
Q 032701 103 GDEELD 108 (135)
Q Consensus 103 nD~EL~ 108 (135)
.+.+..
T Consensus 263 ~~~~~~ 268 (366)
T COG1474 263 EEIERD 268 (366)
T ss_pred HHhhHH
Confidence 344433
No 92
>COG5095 TAF6 Transcription initiation factor TFIID, subunit TAF6 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=23.49 E-value=3.5e+02 Score=23.77 Aligned_cols=47 Identities=26% Similarity=0.179 Sum_probs=43.1
Q ss_pred ccCcchHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHHhh
Q 032701 56 RVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIR 102 (135)
Q Consensus 56 RIs~~ApVyLaAvLEYL~aEILelAg~~A~~~~~~rItP~hI~~aI~ 102 (135)
-|...+.-.|+-=|||=+.||.+.|.+.-..+++..+|-.||..|++
T Consensus 22 Ni~Dd~l~alamDlEYRI~ev~qea~KFmvhSKRtvLt~dDis~ALr 68 (450)
T COG5095 22 NIDDDALRALAMDLEYRIKEVCQEASKFMVHSKRTVLTIDDISYALR 68 (450)
T ss_pred ccccHHHHHHHHhHHHHHHHHHHHHHHHhhcccceeeeHHhHHHHHH
Confidence 58888999999999999999999999988888999999999998876
No 93
>CHL00095 clpC Clp protease ATP binding subunit
Probab=22.74 E-value=1.2e+02 Score=28.62 Aligned_cols=33 Identities=33% Similarity=0.438 Sum_probs=27.3
Q ss_pred HHHHHHHHHHHHhCCCceechhhHHHHhhCChH
Q 032701 74 AEVLELAGNASKDLKVKRITPRHLQLAIRGDEE 106 (135)
Q Consensus 74 aEILelAg~~A~~~~~~rItP~hI~~aI~nD~E 106 (135)
.++|+.|...|...+...|++.|+-+++-.|++
T Consensus 85 ~~vL~~A~~~A~~~~~~~I~~eHLLlALL~~~d 117 (821)
T CHL00095 85 KRVLEMSLEEARDLGHNYIGTEHLLLALLEEGE 117 (821)
T ss_pred HHHHHHHHHHHHHhCCCcccHHHHHHHHHhCCC
Confidence 567788888888888889999999999876644
No 94
>PRK05574 holA DNA polymerase III subunit delta; Reviewed
Probab=22.21 E-value=2.8e+02 Score=22.24 Aligned_cols=47 Identities=23% Similarity=0.097 Sum_probs=28.9
Q ss_pred ccCcchHHHHHHHHHHHH----HHHHHHHHHHHHhCCCceechhhHHHHhhCChH
Q 032701 56 RVGATAAVYTAAILEYLT----AEVLELAGNASKDLKVKRITPRHLQLAIRGDEE 106 (135)
Q Consensus 56 RIs~~ApVyLaAvLEYL~----aEILelAg~~A~~~~~~rItP~hI~~aI~nD~E 106 (135)
.|+..|.-||+..++.=+ .|+=.++.- + .... ||.++|+..+..+.+
T Consensus 165 ~i~~~a~~~L~~~~~~d~~~l~~El~KL~l~-~--~~~~-It~~~I~~~i~~~~~ 215 (340)
T PRK05574 165 QIDAAALQLLAERVEGNLLALAQELEKLALL-Y--PDGK-ITLEDVEEAVPDSAR 215 (340)
T ss_pred CCCHHHHHHHHHHhCchHHHHHHHHHHHHhh-c--CCCC-CCHHHHHHHHhhhhc
Confidence 688889888887765422 233333322 1 1223 999999987775554
No 95
>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=21.60 E-value=1.9e+02 Score=23.08 Aligned_cols=40 Identities=15% Similarity=0.108 Sum_probs=31.6
Q ss_pred hHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHHHHH
Q 032701 41 GRVHRLLKERAAAHGRVGATAAVYTAAILEYLTAEVLELAGN 82 (135)
Q Consensus 41 srv~r~L~~~~~~~~RIs~~ApVyLaAvLEYL~aEILelAg~ 82 (135)
.||..+..+... . =|+..++-+|...||+++.+||+-+..
T Consensus 210 ~Rm~~ia~e~GL-~-gvs~~~a~ll~~ale~~LK~lI~s~l~ 249 (252)
T PF12767_consen 210 KRMEQIAWEHGL-G-GVSDDCANLLNLALEVHLKNLIKSCLD 249 (252)
T ss_pred HHHHHHHHHcCC-C-CCCHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 566666666665 2 488999999999999999999987765
No 96
>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=21.36 E-value=1.3e+02 Score=27.59 Aligned_cols=31 Identities=19% Similarity=0.195 Sum_probs=23.6
Q ss_pred HHHHHHHHHHHHhCCCceechhhHHHHhhCC
Q 032701 74 AEVLELAGNASKDLKVKRITPRHLQLAIRGD 104 (135)
Q Consensus 74 aEILelAg~~A~~~~~~rItP~hI~~aI~nD 104 (135)
..|+..|...|...+...|+.+|++.|++.-
T Consensus 361 ~~llR~A~~iA~~~~~~~I~~ehV~~Ai~~~ 391 (608)
T TIGR00764 361 GGLVRAAGDIAKSSGKVYVTAEHVLKAKKLA 391 (608)
T ss_pred HHHHHHHHHHHHhcCCceecHHHHHHHHHHH
Confidence 3456667666777788899999999987743
No 97
>COG0375 HybF Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]
Probab=21.16 E-value=86 Score=22.96 Aligned_cols=49 Identities=31% Similarity=0.410 Sum_probs=33.4
Q ss_pred HHHHHHHHHHHHHHhCCCceechhhHH---HHhhCChHHHHHhh----ccccCCcc
Q 032701 72 LTAEVLELAGNASKDLKVKRITPRHLQ---LAIRGDEELDTLIK----GTIAGGGV 120 (135)
Q Consensus 72 L~aEILelAg~~A~~~~~~rItP~hI~---~aI~nD~EL~~L~~----~~ia~ggv 120 (135)
|+..|++++...|.+++.++|+.=.+. ++-=|-+.|.+-|. +|++.|..
T Consensus 6 la~aii~~i~~~A~~~~a~~V~~V~l~IG~ls~v~~~~l~FaFev~~egT~aega~ 61 (115)
T COG0375 6 LAQAIIELIEEQAEKHGAKRVTAVWLEIGELSCVEPEALRFAFEVVAEGTIAEGAE 61 (115)
T ss_pred HHHHHHHHHHHHHHHcCCceEEEEEEEEcceeccCHHHHHHHHHHHhccCcccCCE
Confidence 567789999999999988777765553 44444555555554 27777754
No 98
>PHA01971 hypothetical protein
Probab=20.58 E-value=71 Score=23.76 Aligned_cols=21 Identities=38% Similarity=0.673 Sum_probs=16.6
Q ss_pred HHhCCCceechhhHHHHhhCC
Q 032701 84 SKDLKVKRITPRHLQLAIRGD 104 (135)
Q Consensus 84 A~~~~~~rItP~hI~~aI~nD 104 (135)
++.....||||+||+-.|...
T Consensus 12 ~kg~~aPRvT~~~Ie~~I~~e 32 (123)
T PHA01971 12 AKGLTAPRITPQHIESIIASE 32 (123)
T ss_pred HhccCCCcCCHHHHHHHhhhe
Confidence 445568899999999998743
No 99
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=20.38 E-value=1.3e+02 Score=28.03 Aligned_cols=34 Identities=24% Similarity=0.173 Sum_probs=28.4
Q ss_pred HHHHHHHHHHHHHhCCCceechhhHHHHhhCChH
Q 032701 73 TAEVLELAGNASKDLKVKRITPRHLQLAIRGDEE 106 (135)
Q Consensus 73 ~aEILelAg~~A~~~~~~rItP~hI~~aI~nD~E 106 (135)
+.++|+.|..+|...+...|.++||-+|+-.|++
T Consensus 82 lk~vL~~A~~~A~~~g~~~I~teHLLLALl~~~~ 115 (731)
T TIGR02639 82 VQRVLQRALLHVKSAGKKEIGIGDILVALFDEED 115 (731)
T ss_pred HHHHHHHHHHHHHHcCCCccCHHHHHHHHhcCcc
Confidence 3568888988898889999999999999876643
No 100
>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=20.16 E-value=1e+02 Score=22.38 Aligned_cols=21 Identities=24% Similarity=0.474 Sum_probs=16.6
Q ss_pred ccCcccchhHHHHHHhhcccc
Q 032701 33 RAGLQFPVGRVHRLLKERAAA 53 (135)
Q Consensus 33 RagL~FPVsrv~r~L~~~~~~ 53 (135)
+.+..+|+++|++.|++-.++
T Consensus 18 ~T~rP~p~~~IE~Am~e~~~~ 38 (125)
T PF09377_consen 18 RTNRPYPPTRIEKAMKEAHFS 38 (125)
T ss_dssp TTTBTT-HHHHHHHHHHTTS-
T ss_pred CCCCCCCHHHHHHHHHhCCcc
Confidence 567899999999999988774
Done!