Query psy9662
Match_columns 110
No_of_seqs 106 out of 523
Neff 6.3
Searched_HMMs 46136
Date Sat Aug 17 01:23:37 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy9662.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/9662hhsearch_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 1.6E-46 3.5E-51 263.9 7.7 105 3-107 32-136 (136)
2 PTZ00252 histone H2A; Provisio 100.0 1.7E-46 3.6E-51 263.1 7.6 106 3-109 19-128 (134)
3 PLN00153 histone H2A; Provisio 100.0 1.6E-46 3.4E-51 262.5 7.4 105 3-108 18-123 (129)
4 PLN00157 histone H2A; Provisio 100.0 3.5E-46 7.7E-51 261.6 7.6 105 3-108 20-125 (132)
5 PLN00156 histone H2AX; Provisi 100.0 4.6E-46 9.9E-51 262.6 7.3 105 3-108 23-128 (139)
6 PTZ00017 histone H2A; Provisio 100.0 5.7E-46 1.2E-50 261.2 7.5 105 3-108 21-126 (134)
7 smart00414 H2A Histone 2A. 100.0 2.2E-45 4.8E-50 250.2 7.8 103 3-106 3-106 (106)
8 KOG1756|consensus 100.0 4.6E-44 1E-48 248.2 5.9 105 3-108 21-126 (131)
9 cd00074 H2A Histone 2A; H2A is 100.0 1.4E-43 3.1E-48 244.3 7.4 101 3-104 14-115 (115)
10 COG5262 HTA1 Histone H2A [Chro 100.0 4E-43 8.7E-48 241.0 6.2 104 3-107 20-124 (132)
11 KOG1757|consensus 100.0 9.3E-38 2E-42 213.3 5.4 107 3-109 24-130 (131)
12 PLN00155 histone H2A; Provisio 99.7 6E-18 1.3E-22 103.6 2.7 41 3-44 18-58 (58)
13 PF00125 Histone: Core histone 99.6 6.4E-16 1.4E-20 97.9 3.9 74 3-76 2-75 (75)
14 COG5247 BUR6 Class 2 transcrip 99.4 1E-13 2.2E-18 93.6 4.3 82 5-87 19-100 (113)
15 KOG1659|consensus 99.2 1.2E-11 2.7E-16 92.8 4.0 78 6-84 10-87 (224)
16 PF00808 CBFD_NFYB_HMF: Histon 99.2 3.9E-11 8.4E-16 74.4 5.1 64 9-73 2-65 (65)
17 smart00803 TAF TATA box bindin 99.1 2E-10 4.3E-15 72.0 5.2 64 9-74 2-65 (65)
18 COG2036 HHT1 Histones H3 and H 99.1 7.2E-11 1.6E-15 78.6 3.3 68 5-74 15-82 (91)
19 PLN00035 histone H4; Provision 98.9 1.4E-09 3E-14 73.9 4.4 63 10-74 30-92 (103)
20 smart00417 H4 Histone H4. 98.9 3.8E-09 8.2E-14 67.9 5.0 61 10-72 14-74 (74)
21 cd00076 H4 Histone H4, one of 98.9 2.6E-09 5.7E-14 70.3 4.3 64 10-75 14-77 (85)
22 PTZ00015 histone H4; Provision 98.8 4.5E-09 9.8E-14 71.3 4.4 63 10-74 31-93 (102)
23 cd07979 TAF9 TATA Binding Prot 98.3 1.3E-06 2.8E-11 60.4 4.2 62 13-76 5-66 (117)
24 cd07981 TAF12 TATA Binding Pro 98.2 1.9E-06 4E-11 54.7 4.5 66 10-76 2-67 (72)
25 KOG1657|consensus 98.2 1.2E-06 2.5E-11 67.3 3.4 76 8-84 73-148 (236)
26 COG5208 HAP5 CCAAT-binding fac 98.1 3.3E-06 7.1E-11 64.4 3.5 77 8-85 108-184 (286)
27 smart00576 BTP Bromodomain tra 97.8 2.8E-05 6.1E-10 49.7 4.0 59 15-75 12-70 (77)
28 PF02969 TAF: TATA box binding 97.8 3.9E-05 8.3E-10 48.3 4.5 64 9-74 3-66 (66)
29 cd08050 TAF6 TATA Binding Prot 97.8 3.6E-05 7.8E-10 61.5 4.5 68 12-81 2-71 (343)
30 smart00428 H3 Histone H3. 97.7 2.7E-05 5.9E-10 53.1 3.1 71 4-74 24-99 (105)
31 cd08048 TAF11 TATA Binding Pro 97.4 0.00035 7.5E-09 45.9 4.6 63 10-74 17-82 (85)
32 KOG0869|consensus 97.3 0.00038 8.3E-09 50.6 4.3 75 9-83 32-111 (168)
33 smart00427 H2B Histone H2B. 97.1 0.00093 2E-08 44.4 4.1 60 14-74 6-65 (89)
34 PLN00158 histone H2B; Provisio 97.0 0.0014 3E-08 45.4 4.2 61 13-74 31-91 (116)
35 PF15630 CENP-S: Kinetochore c 96.8 0.0025 5.3E-08 41.1 4.5 48 32-79 26-76 (76)
36 PTZ00463 histone H2B; Provisio 96.8 0.0023 5.1E-08 44.3 4.4 60 14-74 33-92 (117)
37 KOG3219|consensus 96.3 0.0026 5.7E-08 47.6 2.1 64 8-73 111-175 (195)
38 PLN00160 histone H3; Provision 96.3 0.0033 7.1E-08 42.4 2.3 71 4-74 16-90 (97)
39 PF04719 TAFII28: hTAFII28-lik 96.2 0.0048 1E-07 41.0 3.0 64 10-74 24-88 (90)
40 KOG0871|consensus 96.2 0.0086 1.9E-07 43.2 4.4 73 3-75 6-78 (156)
41 PF15511 CENP-T: Centromere ki 96.2 0.0074 1.6E-07 49.6 4.6 62 7-68 349-414 (414)
42 PLN00121 histone H3; Provision 96.1 0.0053 1.1E-07 43.7 2.7 70 4-73 57-129 (136)
43 PF02291 TFIID-31kDa: Transcri 96.0 0.011 2.5E-07 41.6 4.2 62 12-75 15-76 (129)
44 PF09415 CENP-X: CENP-S associ 96.0 0.019 4.2E-07 36.5 4.8 61 11-71 1-63 (72)
45 PF07524 Bromo_TP: Bromodomain 95.9 0.015 3.2E-07 36.8 3.9 58 15-74 12-69 (77)
46 PLN00161 histone H3; Provision 95.9 0.015 3.3E-07 41.3 4.3 71 4-74 50-124 (135)
47 PF03847 TFIID_20kDa: Transcri 95.9 0.016 3.6E-07 36.4 4.0 61 14-75 4-64 (68)
48 PTZ00018 histone H3; Provision 95.8 0.0079 1.7E-07 42.8 2.7 70 4-73 57-129 (136)
49 KOG0870|consensus 95.5 0.018 3.9E-07 42.3 3.6 74 1-74 2-76 (172)
50 PF02269 TFIID-18kDa: Transcri 94.4 0.072 1.6E-06 35.3 3.8 68 15-83 7-74 (93)
51 KOG1745|consensus 94.3 0.063 1.4E-06 38.2 3.6 63 11-74 68-131 (137)
52 KOG1142|consensus 94.0 0.13 2.8E-06 40.1 5.0 69 10-79 155-223 (258)
53 KOG1658|consensus 93.8 0.088 1.9E-06 38.3 3.6 75 8-83 58-132 (162)
54 KOG3467|consensus 93.1 0.18 3.9E-06 33.6 4.0 58 14-73 34-91 (103)
55 KOG1744|consensus 93.1 0.18 3.8E-06 35.5 4.1 59 15-74 43-101 (127)
56 cd07978 TAF13 The TATA Binding 91.8 0.46 9.9E-06 31.5 4.7 65 15-81 8-72 (92)
57 COG5094 TAF9 Transcription ini 86.8 1.6 3.5E-05 30.8 4.6 63 12-76 17-82 (145)
58 KOG3334|consensus 86.1 1.5 3.3E-05 31.6 4.2 57 14-75 18-77 (148)
59 COG5150 Class 2 transcription 85.1 2 4.2E-05 30.5 4.3 71 4-75 6-77 (148)
60 PF02861 Clp_N: Clp amino term 77.9 0.82 1.8E-05 25.9 0.3 32 52-83 1-34 (53)
61 PF15510 CENP-W: Centromere ki 65.9 8.8 0.00019 25.8 3.1 61 10-73 17-93 (102)
62 COG5251 TAF40 Transcription in 65.8 4.2 9.2E-05 30.2 1.7 65 8-74 114-179 (199)
63 COG5095 TAF6 Transcription ini 65.2 14 0.00031 30.3 4.7 63 10-74 6-68 (450)
64 KOG2549|consensus 63.7 13 0.00028 32.2 4.4 61 12-74 14-74 (576)
65 PF09123 DUF1931: Domain of un 62.3 4.4 9.6E-05 28.9 1.2 56 15-72 1-56 (138)
66 PF08369 PCP_red: Proto-chloro 61.6 10 0.00023 21.7 2.5 27 46-72 18-44 (45)
67 PF13654 AAA_32: AAA domain; P 60.3 2.8 6.1E-05 35.5 -0.1 59 9-75 447-505 (509)
68 PF12096 DUF3572: Protein of u 58.9 6.6 0.00014 26.0 1.5 35 13-47 22-58 (88)
69 PF13335 Mg_chelatase_2: Magne 54.3 6.9 0.00015 25.8 1.1 48 27-74 41-94 (96)
70 KOG4336|consensus 52.6 16 0.00034 29.5 2.9 68 15-84 11-82 (323)
71 KOG3901|consensus 46.8 16 0.00035 25.0 1.9 28 53-80 48-76 (109)
72 PRK11034 clpA ATP-dependent Cl 42.4 21 0.00045 31.8 2.5 39 45-83 6-44 (758)
73 TIGR02928 orc1/cdc6 family rep 41.6 36 0.00077 26.5 3.5 46 29-74 221-272 (365)
74 PF04604 L_biotic_typeA: Type- 40.5 15 0.00033 21.9 0.9 22 75-98 16-37 (51)
75 COG1067 LonB Predicted ATP-dep 40.3 18 0.00039 31.8 1.7 70 8-83 337-406 (647)
76 PF05236 TAF4: Transcription i 39.4 59 0.0013 24.9 4.3 44 14-59 52-95 (264)
77 PRK00411 cdc6 cell division co 38.4 42 0.00091 26.4 3.5 48 28-75 228-281 (394)
78 COG1474 CDC6 Cdc6-related prot 37.2 24 0.00052 28.6 1.9 68 13-81 193-269 (366)
79 TIGR01128 holA DNA polymerase 36.6 51 0.0011 24.7 3.5 61 15-78 120-180 (302)
80 COG0375 HybF Zn finger protein 36.1 64 0.0014 22.3 3.6 48 44-91 6-60 (115)
81 PHA02943 hypothetical protein; 35.8 45 0.00097 24.5 2.9 40 45-84 76-115 (165)
82 TIGR02639 ClpA ATP-dependent C 35.6 29 0.00063 30.5 2.3 39 45-83 5-43 (731)
83 TIGR00764 lon_rel lon-related 34.7 26 0.00056 30.3 1.8 30 46-75 361-390 (608)
84 PRK05574 holA DNA polymerase I 33.9 55 0.0012 25.1 3.4 58 14-78 154-215 (340)
85 COG4905 Predicted membrane pro 33.0 47 0.001 25.4 2.7 22 33-54 70-91 (243)
86 COG3636 Predicted transcriptio 30.7 54 0.0012 22.2 2.5 58 31-88 21-87 (100)
87 CHL00095 clpC Clp protease ATP 30.0 32 0.00069 30.7 1.6 33 46-78 10-42 (821)
88 cd08045 TAF4 TATA Binding Prot 29.7 1.6E+02 0.0035 21.8 5.2 44 14-59 53-96 (212)
89 PF02681 DUF212: Divergent PAP 29.0 1.2E+02 0.0027 21.5 4.2 25 34-58 5-29 (141)
90 PF09453 HIRA_B: HIRA B motif; 28.9 26 0.00057 17.7 0.6 13 58-70 8-20 (24)
91 KOG0787|consensus 28.6 38 0.00083 28.2 1.7 63 32-95 252-315 (414)
92 KOG1658|consensus 28.1 74 0.0016 23.3 3.0 72 6-83 8-79 (162)
93 TIGR03346 chaperone_ClpB ATP-d 28.0 36 0.00078 30.5 1.6 33 45-77 5-37 (852)
94 PF04823 Herpes_UL49_2: Herpes 27.9 28 0.0006 23.4 0.7 11 74-84 67-77 (96)
95 PF08539 HbrB: HbrB-like; Int 27.6 84 0.0018 22.6 3.2 83 5-104 22-106 (158)
96 smart00350 MCM minichromosome 26.9 79 0.0017 26.5 3.4 66 9-74 417-502 (509)
97 PF12767 SAGA-Tad1: Transcript 26.4 1.4E+02 0.003 22.7 4.4 42 13-56 210-251 (252)
98 PF09077 Phage-MuB_C: Mu B tra 26.0 19 0.0004 23.2 -0.4 28 46-74 49-76 (78)
99 PF04157 EAP30: EAP30/Vps36 fa 25.7 1.4E+02 0.0031 22.1 4.3 59 27-96 18-76 (223)
100 TIGR03345 VI_ClpV1 type VI sec 25.6 41 0.00088 30.4 1.5 32 45-76 5-36 (852)
101 PRK05629 hypothetical protein; 24.7 1E+02 0.0022 23.9 3.5 62 13-83 133-198 (318)
102 TIGR02263 benz_CoA_red_C benzo 23.3 77 0.0017 25.6 2.6 44 40-84 136-179 (380)
103 PRK07452 DNA polymerase III su 23.0 1.2E+02 0.0025 23.4 3.5 65 15-84 139-205 (326)
104 KOG1051|consensus 22.2 54 0.0012 30.1 1.6 37 45-83 16-52 (898)
105 cd00390 Urease_gamma Urease ga 21.8 68 0.0015 21.5 1.7 49 40-91 32-87 (96)
106 cd07910 MiaE MiaE tRNA-modifyi 21.6 1.9E+02 0.0042 21.5 4.2 65 14-85 67-139 (180)
107 PRK06585 holA DNA polymerase I 21.3 1.1E+02 0.0024 23.7 3.1 59 14-78 150-212 (343)
108 PRK10865 protein disaggregatio 21.3 61 0.0013 29.2 1.8 33 45-77 10-42 (857)
109 TIGR02639 ClpA ATP-dependent C 20.8 60 0.0013 28.5 1.6 33 45-77 82-114 (731)
110 PF00979 Reovirus_cap: Reoviru 20.7 68 0.0015 26.4 1.8 46 36-81 102-154 (367)
111 PRK07914 hypothetical protein; 20.4 1.1E+02 0.0024 23.7 3.0 57 14-78 136-196 (320)
112 PRK13241 ureA urease subunit g 20.0 84 0.0018 21.3 1.8 51 39-92 34-91 (100)
No 1
>PLN00154 histone H2A; Provisional
Probab=100.00 E-value=1.6e-46 Score=263.94 Aligned_cols=105 Identities=81% Similarity=1.155 Sum_probs=100.3
Q ss_pred cccCCCccchhhhhhhhhcCCCcccccCchhHHHHHHHHHHHHHHHHHHHHHHHhhcCCceeccccccccccCchhhhhh
Q psy9662 3 EWEQQPNFPVGRIHRHLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDSL 82 (110)
Q Consensus 3 ~~ragl~fPV~ri~r~Lk~~~~~~~Rvs~~A~vyLaavLEyl~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~nD~EL~~L 82 (110)
+.||||||||+||+|+|++++++.+||+++|||||+||||||++||||+|+|.|++++++||+|+||++||+||+||++|
T Consensus 32 S~rAgL~FPVgRi~r~Lk~g~~~~~RVga~ApVYLAAVLEYLtAEVLELAGNaA~d~kk~RItPrHi~lAIrnDeEL~~L 111 (136)
T PLN00154 32 SSRAGLQFPVGRIHRQLKQRVSAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDTL 111 (136)
T ss_pred ccccCccCchHHHHHHHHhhhhhccccccchHHHHHHHHHHHHHHHHHHHHHHHHhhCCceecHHHhhhhccCcHHHHHH
Confidence 46899999999999999998754589999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhhcCCcccccccccccCCcCCC
Q psy9662 83 IKATIAGGGVIPHIHKSLIGKKGTQ 107 (110)
Q Consensus 83 ~~~~i~~~g~~p~~~~~~~~~k~~~ 107 (110)
|+.||++|||+|+||++++++|++|
T Consensus 112 l~~TIa~GGVlP~i~~~l~~k~~~~ 136 (136)
T PLN00154 112 IKGTIAGGGVIPHIHKSLINKSTKK 136 (136)
T ss_pred hcCCccCCccCCCcchhhcccccCC
Confidence 9999999999999999999998765
No 2
>PTZ00252 histone H2A; Provisional
Probab=100.00 E-value=1.7e-46 Score=263.09 Aligned_cols=106 Identities=46% Similarity=0.705 Sum_probs=98.7
Q ss_pred cccCCCccchhhhhhhhhcCCCcccccCchhHHHHHHHHHHHHHHHHHHHHHHHhh--cCCceeccccccccccCchhhh
Q psy9662 3 EWEQQPNFPVGRIHRHLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKD--LKVKRITPRHLQLAIRGDEELD 80 (110)
Q Consensus 3 ~~ragl~fPV~ri~r~Lk~~~~~~~Rvs~~A~vyLaavLEyl~~EIlelA~~~A~~--~~~k~I~p~hI~~Ai~nD~EL~ 80 (110)
+.||||||||+||+|+|++++| +.||+++|||||+||||||++||||+|+|.|++ ++++||+|+||++||+||+||+
T Consensus 19 S~rAGL~FPVgRi~R~Lr~g~y-a~RIga~ApVYLAAVLEYLtaEVLELAgnaa~d~~~kk~RItPrHi~lAIrNDeEL~ 97 (134)
T PTZ00252 19 SAKAGLIFPVGRVGSLLRRGQY-ARRIGASGAVYMAAVLEYLTAELLELSVKAAAQQAKKPKRLTPRTVTLAVRHDDDLG 97 (134)
T ss_pred ccccCccCchHHHHHHHHcCCc-ccccCCccHHHHHHHHHHHHHHHHHHHHHHHHhccCCcccccHHHHHhhccChHHHH
Confidence 4689999999999999999886 589999999999999999999999999999976 6789999999999999999999
Q ss_pred hhhh-hhhcCCcccccccccccCC-cCCCCC
Q psy9662 81 SLIK-ATIAGGGVIPHIHKSLIGK-KGTQKP 109 (110)
Q Consensus 81 ~L~~-~~i~~~g~~p~~~~~~~~~-k~~~~~ 109 (110)
+||+ +||++|||+|+||++++++ |+++|+
T Consensus 98 ~Ll~~vTIa~GGVlP~i~~~l~~k~~~~~~~ 128 (134)
T PTZ00252 98 SLLKNVTLSRGGVMPSLNKALAKKHKSGKKA 128 (134)
T ss_pred HHHcCCccCCCccCCCccHhhccccccCCCC
Confidence 9996 8999999999999999999 555553
No 3
>PLN00153 histone H2A; Provisional
Probab=100.00 E-value=1.6e-46 Score=262.47 Aligned_cols=105 Identities=58% Similarity=0.823 Sum_probs=99.9
Q ss_pred cccCCCccchhhhhhhhhcCCCcccccCchhHHHHHHHHHHHHHHHHHHHHHHHhhcCCceeccccccccccCchhhhhh
Q psy9662 3 EWEQQPNFPVGRIHRHLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDSL 82 (110)
Q Consensus 3 ~~ragl~fPV~ri~r~Lk~~~~~~~Rvs~~A~vyLaavLEyl~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~nD~EL~~L 82 (110)
+.||||||||+||+|+|++++| +.||+++|||||+||||||++||||+|+|.|+++++++|+|+||++||+||+||++|
T Consensus 18 S~ragL~FpVgRi~R~Lr~g~~-a~Rvga~A~VYLAAVLEYLtaEVLELAgnaa~d~kk~RItPrHi~lAI~nDeEL~~L 96 (129)
T PLN00153 18 SAKAGLQFPVGRIARYLKKGKY-AERIGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKNRIVPRHIQLAIRNDEELGKL 96 (129)
T ss_pred ccccCcccchHHHHHHHhcCch-hhccCCCchHHHHHHHHHHHHHHHHHHHHHHHhcCCCccChHHHHhhccCcHHHHHH
Confidence 4689999999999999999886 589999999999999999999999999999999999999999999999999999999
Q ss_pred hh-hhhcCCcccccccccccCCcCCCC
Q psy9662 83 IK-ATIAGGGVIPHIHKSLIGKKGTQK 108 (110)
Q Consensus 83 ~~-~~i~~~g~~p~~~~~~~~~k~~~~ 108 (110)
|+ +||++|||+|+||++|+++|++++
T Consensus 97 l~~vTIa~GGV~P~i~~~l~~kk~~~~ 123 (129)
T PLN00153 97 LGEVTIASGGVLPNIHAVLLPKKTKGG 123 (129)
T ss_pred HCCCccCCCccCCCcchhhcCcccCCC
Confidence 96 899999999999999999987544
No 4
>PLN00157 histone H2A; Provisional
Probab=100.00 E-value=3.5e-46 Score=261.57 Aligned_cols=105 Identities=57% Similarity=0.825 Sum_probs=100.0
Q ss_pred cccCCCccchhhhhhhhhcCCCcccccCchhHHHHHHHHHHHHHHHHHHHHHHHhhcCCceeccccccccccCchhhhhh
Q psy9662 3 EWEQQPNFPVGRIHRHLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDSL 82 (110)
Q Consensus 3 ~~ragl~fPV~ri~r~Lk~~~~~~~Rvs~~A~vyLaavLEyl~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~nD~EL~~L 82 (110)
+.||||||||+||+|+|+++++ +.||+++|+|||+||||||++||||+|+|.|+++++++|+|+||++||+||+||++|
T Consensus 20 S~ragL~FPVgRi~R~Lk~g~~-a~RIg~~A~VYLAAVLEYLtaEVLELAgnaa~d~kk~RItPrHi~lAI~nDeEL~~L 98 (132)
T PLN00157 20 SAKAGLQFPVGRIARYLKAGKY-ATRVGAGAPVYLAAVLEYLAAEVLELAGNAARDNKKSRIVPRHIQLAVRNDEELSKL 98 (132)
T ss_pred ccccCcccchHHHHHHHhcCch-hhhcCCCcHhHHHHHHHHHHHHHHHHHHHHHHhcCCccccHHHHhhcccCcHHHHHH
Confidence 4689999999999999999886 589999999999999999999999999999999999999999999999999999999
Q ss_pred hh-hhhcCCcccccccccccCCcCCCC
Q psy9662 83 IK-ATIAGGGVIPHIHKSLIGKKGTQK 108 (110)
Q Consensus 83 ~~-~~i~~~g~~p~~~~~~~~~k~~~~ 108 (110)
|+ +||++|||+|+||++|+++|++++
T Consensus 99 l~~vtIa~GGV~P~i~~~ll~kk~~~~ 125 (132)
T PLN00157 99 LGGVTIAAGGVLPNIHSVLLPKKSGKS 125 (132)
T ss_pred HcCceecCCccCCCcchhhcCCCCCCC
Confidence 96 899999999999999999998554
No 5
>PLN00156 histone H2AX; Provisional
Probab=100.00 E-value=4.6e-46 Score=262.63 Aligned_cols=105 Identities=56% Similarity=0.828 Sum_probs=99.8
Q ss_pred cccCCCccchhhhhhhhhcCCCcccccCchhHHHHHHHHHHHHHHHHHHHHHHHhhcCCceeccccccccccCchhhhhh
Q psy9662 3 EWEQQPNFPVGRIHRHLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDSL 82 (110)
Q Consensus 3 ~~ragl~fPV~ri~r~Lk~~~~~~~Rvs~~A~vyLaavLEyl~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~nD~EL~~L 82 (110)
+.||||||||+||+|+|++++| +.||+++|||||+||||||++||||+|+|.|++++++||+|+||++||+||+||++|
T Consensus 23 S~rAgL~FPVgRi~R~Lk~g~y-a~RVga~ApVYLAAVLEYLtaEVLELAgNaa~d~kk~RItPrHi~lAIrnDeEL~~L 101 (139)
T PLN00156 23 SSKAGLQFPVGRIARFLKAGKY-AERVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAVRNDEELSKL 101 (139)
T ss_pred ccccCcccchHHHHHHHhcCCh-hhccCCccHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCcHHHHHhhccCcHHHHHH
Confidence 4689999999999999999886 589999999999999999999999999999999999999999999999999999999
Q ss_pred hh-hhhcCCcccccccccccCCcCCCC
Q psy9662 83 IK-ATIAGGGVIPHIHKSLIGKKGTQK 108 (110)
Q Consensus 83 ~~-~~i~~~g~~p~~~~~~~~~k~~~~ 108 (110)
|+ +||++|||+|+||++|+|+|++++
T Consensus 102 l~~vTIa~GGV~P~i~~~l~~kk~~~~ 128 (139)
T PLN00156 102 LGSVTIAAGGVLPNIHQTLLPKKVGKG 128 (139)
T ss_pred HCCCccCCCccCCCccHhhcccccccc
Confidence 96 899999999999999999988543
No 6
>PTZ00017 histone H2A; Provisional
Probab=100.00 E-value=5.7e-46 Score=261.24 Aligned_cols=105 Identities=64% Similarity=0.897 Sum_probs=100.1
Q ss_pred cccCCCccchhhhhhhhhcCCCcccccCchhHHHHHHHHHHHHHHHHHHHHHHHhhcCCceeccccccccccCchhhhhh
Q psy9662 3 EWEQQPNFPVGRIHRHLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDSL 82 (110)
Q Consensus 3 ~~ragl~fPV~ri~r~Lk~~~~~~~Rvs~~A~vyLaavLEyl~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~nD~EL~~L 82 (110)
+.||||||||+||+|+|+++++ +.||+++|||||+||||||++||||+|+|.|+++++++|+|+||++||+||+||++|
T Consensus 21 S~ragL~FPVgRi~R~Lk~g~~-a~RV~a~A~VYLAAVLEYLtaEILELAgNaa~d~kk~RItPrHi~lAI~nDeEL~~L 99 (134)
T PTZ00017 21 SAKAGLQFPVGRVHRYLKKGRY-AKRVGAGAPVYLAAVLEYLTAEVLELAGNAAKDNKKKRITPRHIQLAIRNDEELNKL 99 (134)
T ss_pred cccCCcccchHHHHHHHhccch-hccccccchhhhHHHHHHHHHHHHHHHHHHHHhcCCCeecHHHHHhhccCcHHHHHH
Confidence 4689999999999999999876 589999999999999999999999999999999999999999999999999999999
Q ss_pred h-hhhhcCCcccccccccccCCcCCCC
Q psy9662 83 I-KATIAGGGVIPHIHKSLIGKKGTQK 108 (110)
Q Consensus 83 ~-~~~i~~~g~~p~~~~~~~~~k~~~~ 108 (110)
| ++||++|||+|+||++|+++|+++|
T Consensus 100 l~~vtIa~GGV~P~i~~~l~~k~~~~~ 126 (134)
T PTZ00017 100 LAGVTIASGGVLPNIHKVLLPKKSKPK 126 (134)
T ss_pred HcCCcccCCccCCCccHhhccCCCCcc
Confidence 9 4899999999999999999988665
No 7
>smart00414 H2A Histone 2A.
Probab=100.00 E-value=2.2e-45 Score=250.22 Aligned_cols=103 Identities=65% Similarity=0.914 Sum_probs=98.5
Q ss_pred cccCCCccchhhhhhhhhcCCCcccccCchhHHHHHHHHHHHHHHHHHHHHHHHhhcCCceeccccccccccCchhhhhh
Q psy9662 3 EWEQQPNFPVGRIHRHLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDSL 82 (110)
Q Consensus 3 ~~ragl~fPV~ri~r~Lk~~~~~~~Rvs~~A~vyLaavLEyl~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~nD~EL~~L 82 (110)
+.||||||||+||+|+|+++++ +.||+++|+|||+||||||++||||+|+|.|+++++++|+|+||++||+||+||++|
T Consensus 3 S~ragL~fPVgRi~r~Lk~~~~-~~Rv~~~A~VyLaAvLEYLtaEILeLagn~a~~~k~~rItp~hi~lAi~nD~EL~~L 81 (106)
T smart00414 3 SARAGLQFPVGRIHRLLRKGTY-AKRVGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKRRITPRHLQLAIRNDEELNKL 81 (106)
T ss_pred cccCCccCchHHHHHHHHcCcc-ccccccccHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccchHHHhhhccCCHHHHHH
Confidence 4699999999999999999886 489999999999999999999999999999999999999999999999999999999
Q ss_pred hh-hhhcCCcccccccccccCCcCC
Q psy9662 83 IK-ATIAGGGVIPHIHKSLIGKKGT 106 (110)
Q Consensus 83 ~~-~~i~~~g~~p~~~~~~~~~k~~ 106 (110)
|+ +||++|||+|+||++++++|+.
T Consensus 82 ~~~vti~~ggv~p~i~~~l~~~~~~ 106 (106)
T smart00414 82 LKGVTIAQGGVLPNIHKVLLPKKTG 106 (106)
T ss_pred HcCcccCCCccCCCcchhhcccCCC
Confidence 96 7999999999999999998863
No 8
>KOG1756|consensus
Probab=100.00 E-value=4.6e-44 Score=248.18 Aligned_cols=105 Identities=60% Similarity=0.858 Sum_probs=100.2
Q ss_pred cccCCCccchhhhhhhhhcCCCcccccCchhHHHHHHHHHHHHHHHHHHHHHHHhhcCCceeccccccccccCchhhhhh
Q psy9662 3 EWEQQPNFPVGRIHRHLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDSL 82 (110)
Q Consensus 3 ~~ragl~fPV~ri~r~Lk~~~~~~~Rvs~~A~vyLaavLEyl~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~nD~EL~~L 82 (110)
+.|+||||||++|+|+|+++++ +.||+.+|||||+||||||++||+|+|+|.|+++++++|+|+||++||+||+||++|
T Consensus 21 s~~agl~fPvgri~r~Lr~~~~-~~ri~~gapV~laavLeYL~Aeile~agnaardnkk~ri~PrH~~lAI~NDeEL~~l 99 (131)
T KOG1756|consen 21 SSRAGLQFPVGRIHRLLRKGRY-AQRVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRITPRHLQLAIRNDEELNKL 99 (131)
T ss_pred hhhcccccCHHHHHHHHHccch-hhhccCCChHHHHHHHHHHHHHHHHHhHHHhhhcCccccChHHHHHHHhCcHHHHHH
Confidence 5789999999999999999775 599999999999999999999999999999999999999999999999999999999
Q ss_pred h-hhhhcCCcccccccccccCCcCCCC
Q psy9662 83 I-KATIAGGGVIPHIHKSLIGKKGTQK 108 (110)
Q Consensus 83 ~-~~~i~~~g~~p~~~~~~~~~k~~~~ 108 (110)
+ ++||+||||+|+|++.+||+|+.+-
T Consensus 100 L~~vtIa~GGvlPnI~~~lLpKk~~~~ 126 (131)
T KOG1756|consen 100 LGKVTIAQGGVLPNIQAILLPKKTGKH 126 (131)
T ss_pred hccceeccCCcccccchhhcccccccC
Confidence 9 5999999999999999999998653
No 9
>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=1.4e-43 Score=244.28 Aligned_cols=101 Identities=66% Similarity=0.936 Sum_probs=96.8
Q ss_pred cccCCCccchhhhhhhhhcCCCcccccCchhHHHHHHHHHHHHHHHHHHHHHHHhhcCCceeccccccccccCchhhhhh
Q psy9662 3 EWEQQPNFPVGRIHRHLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDSL 82 (110)
Q Consensus 3 ~~ragl~fPV~ri~r~Lk~~~~~~~Rvs~~A~vyLaavLEyl~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~nD~EL~~L 82 (110)
+.||||+|||+||+|||+++.+ ++||+++|+|||+||||||++||+|+|+|.|+++++++|+|+||++||+||+||++|
T Consensus 14 s~ragL~fPV~ri~R~Lk~~~~-a~RVs~~A~VyLaAvLEYL~aEIlelA~n~ak~~k~krItp~hi~lAi~nD~EL~~L 92 (115)
T cd00074 14 SARAGLQFPVGRIHRYLKKGRY-AERVGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKKRITPRHLQLAVRNDEELNKL 92 (115)
T ss_pred ccccCccCcHHHHHHHHHcCcc-ccccccchHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeEcHHHHHHHHhccHHHHHH
Confidence 4689999999999999999775 599999999999999999999999999999999999999999999999999999999
Q ss_pred hh-hhhcCCcccccccccccCCc
Q psy9662 83 IK-ATIAGGGVIPHIHKSLIGKK 104 (110)
Q Consensus 83 ~~-~~i~~~g~~p~~~~~~~~~k 104 (110)
|+ +||++|||+|+||++++++|
T Consensus 93 ~~~vtI~~ggv~p~i~~~l~~~~ 115 (115)
T cd00074 93 LKGVTIASGGVLPNIHKVLLPKK 115 (115)
T ss_pred HcCCcccCCccCCCcchhhcCCC
Confidence 96 89999999999999999875
No 10
>COG5262 HTA1 Histone H2A [Chromatin structure and dynamics]
Probab=100.00 E-value=4e-43 Score=241.00 Aligned_cols=104 Identities=56% Similarity=0.819 Sum_probs=99.1
Q ss_pred cccCCCccchhhhhhhhhcCCCcccccCchhHHHHHHHHHHHHHHHHHHHHHHHhhcCCceeccccccccccCchhhhhh
Q psy9662 3 EWEQQPNFPVGRIHRHLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDSL 82 (110)
Q Consensus 3 ~~ragl~fPV~ri~r~Lk~~~~~~~Rvs~~A~vyLaavLEyl~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~nD~EL~~L 82 (110)
+.++||+|||+||+|+|+.+++ ..||+++|+||++||||||++||+|+|+|.|++++++||+|+||++||+||+||++|
T Consensus 20 sa~agl~fpvgrvkr~lk~~~~-~~Rig~~A~Vyl~AvleYL~aEilelAgNaA~d~kkkri~PrHlqlAIrnD~EL~~l 98 (132)
T COG5262 20 SAKAGLIFPVGRVKRLLKKGNY-RMRIGAGAPVYLAAVLEYLAAEILELAGNAARDNKKKRIIPRHLQLAIRNDEELNKL 98 (132)
T ss_pred hhhcCccccHHHHHHHHHcCcc-ceeecCCcHHHHHHHHHHHHHHHHHHhhhhhhhcCcceechHHHHHHhcCcHHHHHH
Confidence 5789999999999999998775 589999999999999999999999999999999999999999999999999999999
Q ss_pred hh-hhhcCCcccccccccccCCcCCC
Q psy9662 83 IK-ATIAGGGVIPHIHKSLIGKKGTQ 107 (110)
Q Consensus 83 ~~-~~i~~~g~~p~~~~~~~~~k~~~ 107 (110)
.. |||++|||+|+|++.++++.++|
T Consensus 99 ~~~~tIa~GGvlp~I~~~ll~k~skK 124 (132)
T COG5262 99 LGDVTIAQGGVLPNINPGLLPKSSKK 124 (132)
T ss_pred hhhheeecCCcccccChhhhhhhhcc
Confidence 96 99999999999999999987655
No 11
>KOG1757|consensus
Probab=100.00 E-value=9.3e-38 Score=213.27 Aligned_cols=107 Identities=88% Similarity=1.213 Sum_probs=102.3
Q ss_pred cccCCCccchhhhhhhhhcCCCcccccCchhHHHHHHHHHHHHHHHHHHHHHHHhhcCCceeccccccccccCchhhhhh
Q psy9662 3 EWEQQPNFPVGRIHRHLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDSL 82 (110)
Q Consensus 3 ~~ragl~fPV~ri~r~Lk~~~~~~~Rvs~~A~vyLaavLEyl~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~nD~EL~~L 82 (110)
..|+||||||+||+|+|+.+.....||++.+.||.+++||||++|+||+|+|.+++-+.+||||+|+++||+.|+||+.|
T Consensus 24 s~raGlqFpVgRihr~LK~r~t~h~rVGataavy~aaileYLTaEVLeLAgNasKdLKvKRitprHlqLAiRGDeELDtL 103 (131)
T KOG1757|consen 24 SARAGLQFPVGRIHRHLKTRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDTL 103 (131)
T ss_pred HHhcccccchHHHHHHHHHhcccccccchHHHHHHHHHHHHHHHHHHHHcccccccceeeeccchhheeeecCcHHHHHH
Confidence 36899999999999999998766689999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhhcCCcccccccccccCCcCCCCC
Q psy9662 83 IKATIAGGGVIPHIHKSLIGKKGTQKP 109 (110)
Q Consensus 83 ~~~~i~~~g~~p~~~~~~~~~k~~~~~ 109 (110)
.+.||++|||+|+||++++-+++++++
T Consensus 104 Ik~TiagGgViPhihk~l~~k~~~~~~ 130 (131)
T KOG1757|consen 104 IKATIAGGGVIPHIHKSLINKKGKKKT 130 (131)
T ss_pred HHHhhccCccccchHHHHhccccccCC
Confidence 999999999999999999999988875
No 12
>PLN00155 histone H2A; Provisional
Probab=99.70 E-value=6e-18 Score=103.63 Aligned_cols=41 Identities=51% Similarity=0.719 Sum_probs=38.2
Q ss_pred cccCCCccchhhhhhhhhcCCCcccccCchhHHHHHHHHHHH
Q psy9662 3 EWEQQPNFPVGRIHRHLKNRTTSHGRVGATAAVYSAAILEYL 44 (110)
Q Consensus 3 ~~ragl~fPV~ri~r~Lk~~~~~~~Rvs~~A~vyLaavLEyl 44 (110)
+.||||||||+||+|+|+++++ +.||+++|||||+||||||
T Consensus 18 S~rAgL~FPVgri~r~Lr~g~~-a~Rvga~apVYlAAVLEYL 58 (58)
T PLN00155 18 SAKAGLQFPVGRIARYLKKGKY-AERIGAGAPVYLAAVLEYL 58 (58)
T ss_pred ccccccccchHHHHHHHhcCCh-hhcccCCcHHHHHHHHHhC
Confidence 4689999999999999999886 5899999999999999997
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=99.60 E-value=6.4e-16 Score=97.91 Aligned_cols=74 Identities=41% Similarity=0.588 Sum_probs=67.1
Q ss_pred cccCCCccchhhhhhhhhcCCCcccccCchhHHHHHHHHHHHHHHHHHHHHHHHhhcCCceeccccccccccCc
Q psy9662 3 EWEQQPNFPVGRIHRHLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGD 76 (110)
Q Consensus 3 ~~ragl~fPV~ri~r~Lk~~~~~~~Rvs~~A~vyLaavLEyl~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~nD 76 (110)
.++..+.||+.|+.+-+..+.....|++++|.++|.+++||++.+|++.|++.|.++++++|+|+||+.|+++|
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 45678899999999999987543259999999999999999999999999999999999999999999999865
No 14
>COG5247 BUR6 Class 2 transcription repressor NC2, alpha subunit (DRAP1 homolog) [Transcription]
Probab=99.44 E-value=1e-13 Score=93.62 Aligned_cols=82 Identities=24% Similarity=0.438 Sum_probs=75.4
Q ss_pred cCCCccchhhhhhhhhcCCCcccccCchhHHHHHHHHHHHHHHHHHHHHHHHhhcCCceeccccccccccCchhhhhhhh
Q psy9662 5 EQQPNFPVGRIHRHLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDSLIK 84 (110)
Q Consensus 5 ragl~fPV~ri~r~Lk~~~~~~~Rvs~~A~vyLaavLEyl~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~nD~EL~~L~~ 84 (110)
+-...||++|++++||.+.+ ..+|+..+||..+..||+++.+|+.++++.|+..+.+|||.+||..|+.+|+.+++|-.
T Consensus 19 ~~ktrFP~ar~KkIMQ~deD-iGKV~q~tPVIaskalE~Fl~~iv~~s~k~aR~~~skR~t~e~lk~a~~sdekFdFL~~ 97 (113)
T COG5247 19 KKKTRFPIARLKKIMQLDED-IGKVGQSTPVIASKALEMFLTEIVGLSLKEARKKSSKRMTSEFLKRATESDEKFDFLKN 97 (113)
T ss_pred hhhhcCCHHHHHHHHHhhhh-hhhhhhcchHHHHHHHHHHHHHHHHHHHHHHHhccchhhHHHHHHHHHhhhHHHHHHHH
Confidence 34467999999999999886 58999999999999999999999999999999999999999999999999999999976
Q ss_pred hhh
Q psy9662 85 ATI 87 (110)
Q Consensus 85 ~~i 87 (110)
...
T Consensus 98 ~~~ 100 (113)
T COG5247 98 MEQ 100 (113)
T ss_pred HHH
Confidence 443
No 15
>KOG1659|consensus
Probab=99.20 E-value=1.2e-11 Score=92.81 Aligned_cols=78 Identities=22% Similarity=0.380 Sum_probs=73.3
Q ss_pred CCCccchhhhhhhhhcCCCcccccCchhHHHHHHHHHHHHHHHHHHHHHHHhhcCCceeccccccccccCchhhhhhhh
Q psy9662 6 QQPNFPVGRIHRHLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDSLIK 84 (110)
Q Consensus 6 agl~fPV~ri~r~Lk~~~~~~~Rvs~~A~vyLaavLEyl~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~nD~EL~~L~~ 84 (110)
--..||++||++|||.+.+ ..+|....||.++..||.|+.+|+..++..++..+-|+++++|+..||.+|+.|++|-.
T Consensus 10 ~~trfp~aRiKKIMQ~dEd-IGKvaqavPViisralElFl~~l~~~t~~~t~~~~aKt~s~~hlkq~v~~~~~FdFLk~ 87 (224)
T KOG1659|consen 10 YKTRFPPARIKKIMQSDED-IGKVAQAVPVIISRALELFLESLLQKTLEITRSRGAKTVSSSHLKQAVESDPKFDFLKE 87 (224)
T ss_pred hhccCCHHHHHHHHhhhhh-hhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHhcCccccCHHHHHHHHhccchhHHHHH
Confidence 3456999999999999885 58999999999999999999999999999999999999999999999999999999965
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=99.19 E-value=3.9e-11 Score=74.40 Aligned_cols=64 Identities=23% Similarity=0.223 Sum_probs=56.8
Q ss_pred ccchhhhhhhhhcCCCcccccCchhHHHHHHHHHHHHHHHHHHHHHHHhhcCCceeccccccccc
Q psy9662 9 NFPVGRIHRHLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAI 73 (110)
Q Consensus 9 ~fPV~ri~r~Lk~~~~~~~Rvs~~A~vyLaavLEyl~~EIlelA~~~A~~~~~k~I~p~hI~~Ai 73 (110)
.||+++|+|+||.... ..+|+.+|...++.+.|.++.++...|...|.++++++|+++||..|+
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 SLPLARVKRIMKSDPD-VMRVSKEAVEAIAKAAEEFIQYLAKEANEIAQRDKRKTITYEDVAKAV 65 (65)
T ss_dssp SS-HHHHHHHHHHTST-TSEE-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSSEE-HHHHHHHH
T ss_pred CCChHHHHHHhccCCC-ccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCccCHHHHHHHC
Confidence 5999999999999843 479999999999999999999999999999999999999999998775
No 17
>smart00803 TAF TATA box binding protein associated factor. TAFs (TATA box binding protein associated factors) are part of the transcription initiation factor TFIID multimeric protein complex. TFIID is composed of the TATA box binding protein (TBP) and a number of TAFs. The TAFs provide binding sites for many different transcriptional activators and co-activators that modulate transcription initiation by Pol II. TAF proteins adopt a histone-like fold.
Probab=99.09 E-value=2e-10 Score=72.00 Aligned_cols=64 Identities=22% Similarity=0.215 Sum_probs=60.4
Q ss_pred ccchhhhhhhhhcCCCcccccCchhHHHHHHHHHHHHHHHHHHHHHHHhhcCCceecccccccccc
Q psy9662 9 NFPVGRIHRHLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIR 74 (110)
Q Consensus 9 ~fPV~ri~r~Lk~~~~~~~Rvs~~A~vyLaavLEyl~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~ 74 (110)
.+|.+.|.|+.+..| ..||+.++...|+..+||.+.+|++.|.+.++|++|++++++||..|++
T Consensus 2 ~~p~~~i~ria~~~G--i~ris~~a~~~l~~~~e~rl~~i~~~A~k~~~hakRktlt~~DI~~Alk 65 (65)
T smart00803 2 WLPKETIKDVAESLG--IGNLSDEAAKLLAEDVEYRIKEIVQEALKFMRHSKRTTLTTSDIDSALR 65 (65)
T ss_pred CCCHHHHHHHHHHCC--CccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCeecHHHHHHHhC
Confidence 589999999999987 4799999999999999999999999999999999999999999998864
No 18
>COG2036 HHT1 Histones H3 and H4 [Chromatin structure and dynamics]
Probab=99.09 E-value=7.2e-11 Score=78.57 Aligned_cols=68 Identities=22% Similarity=0.259 Sum_probs=63.1
Q ss_pred cCCCccchhhhhhhhhcCCCcccccCchhHHHHHHHHHHHHHHHHHHHHHHHhhcCCceecccccccccc
Q psy9662 5 EQQPNFPVGRIHRHLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIR 74 (110)
Q Consensus 5 ragl~fPV~ri~r~Lk~~~~~~~Rvs~~A~vyLaavLEyl~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~ 74 (110)
...+.+|+..|.|+|++.+ ..||+++|...|..++|-++.+|.+.|...|.|.||++|+++||++|++
T Consensus 15 ~~~~~Lp~apv~Ri~r~~~--~~Rvs~~A~~~l~~~~e~~~~~i~~~A~~~A~ha~RKTV~~~DI~la~~ 82 (91)
T COG2036 15 STDLLLPKAPVRRILRKAG--AERVSSSAIEELQEALEEYLEEIAEDAVELAEHAKRKTVKAEDIKLALK 82 (91)
T ss_pred hhhhhcCchHHHHHHHHHh--HHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeecHHHHHHHHH
Confidence 3456799999999999987 3799999999999999999999999999999999999999999999874
No 19
>PLN00035 histone H4; Provisional
Probab=98.92 E-value=1.4e-09 Score=73.90 Aligned_cols=63 Identities=14% Similarity=0.161 Sum_probs=60.3
Q ss_pred cchhhhhhhhhcCCCcccccCchhHHHHHHHHHHHHHHHHHHHHHHHhhcCCceecccccccccc
Q psy9662 10 FPVGRIHRHLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIR 74 (110)
Q Consensus 10 fPV~ri~r~Lk~~~~~~~Rvs~~A~vyLaavLEyl~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~ 74 (110)
+|...|.|+++..+ +.|||+++...|..+||.+..+|+..|..+|.|.++++|+.+||..|++
T Consensus 30 ipk~~IrRLARr~G--vkRIS~~ay~elr~vle~~l~~I~~dav~ya~HA~RKTV~~~DV~~Alk 92 (103)
T PLN00035 30 ITKPAIRRLARRGG--VKRISGLIYEETRGVLKIFLENVIRDAVTYTEHARRKTVTAMDVVYALK 92 (103)
T ss_pred CCHHHHHHHHHHcC--cccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHH
Confidence 89999999999987 4899999999999999999999999999999999999999999998875
No 20
>smart00417 H4 Histone H4.
Probab=98.88 E-value=3.8e-09 Score=67.89 Aligned_cols=61 Identities=15% Similarity=0.114 Sum_probs=57.3
Q ss_pred cchhhhhhhhhcCCCcccccCchhHHHHHHHHHHHHHHHHHHHHHHHhhcCCceecccccccc
Q psy9662 10 FPVGRIHRHLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLA 72 (110)
Q Consensus 10 fPV~ri~r~Lk~~~~~~~Rvs~~A~vyLaavLEyl~~EIlelA~~~A~~~~~k~I~p~hI~~A 72 (110)
+|...|.|+++.+| +.|||+++-..+..+||.+..+|+..|..+|.+.++|+|+.+||..|
T Consensus 14 I~k~~IrRLaRr~G--vkRIS~~~y~elr~vle~~l~~I~rdav~~a~ha~RKTV~~~DV~~a 74 (74)
T smart00417 14 ITKPAIRRLARRGG--VKRISGLIYDETRNVLKSFLENVVRDAVTYTEHARRKTVTAMDVVYA 74 (74)
T ss_pred CCHHHHHHHHHHcC--cchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHheeC
Confidence 78899999999987 48999999999999999999999999999999999999999998754
No 21
>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=98.88 E-value=2.6e-09 Score=70.28 Aligned_cols=64 Identities=16% Similarity=0.132 Sum_probs=60.4
Q ss_pred cchhhhhhhhhcCCCcccccCchhHHHHHHHHHHHHHHHHHHHHHHHhhcCCceeccccccccccC
Q psy9662 10 FPVGRIHRHLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRG 75 (110)
Q Consensus 10 fPV~ri~r~Lk~~~~~~~Rvs~~A~vyLaavLEyl~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~n 75 (110)
+|...|.|+.+.+| ..|||.++-..+..+||.+..+|+..|..+|.|.++++|+++||..|++.
T Consensus 14 i~k~~I~RLarr~G--vkRIS~d~y~e~~~~l~~~l~~I~~dav~ya~Ha~RKTVt~~DV~~alkr 77 (85)
T cd00076 14 ITKPAIRRLARRGG--VKRISGGVYDEVRNVLKSYLEDVIRDAVTYTEHAKRKTVTAMDVVYALKR 77 (85)
T ss_pred CCHHHHHHHHHHcC--cchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHHH
Confidence 88999999999987 48999999999999999999999999999999999999999999988763
No 22
>PTZ00015 histone H4; Provisional
Probab=98.83 E-value=4.5e-09 Score=71.27 Aligned_cols=63 Identities=14% Similarity=0.168 Sum_probs=59.8
Q ss_pred cchhhhhhhhhcCCCcccccCchhHHHHHHHHHHHHHHHHHHHHHHHhhcCCceecccccccccc
Q psy9662 10 FPVGRIHRHLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIR 74 (110)
Q Consensus 10 fPV~ri~r~Lk~~~~~~~Rvs~~A~vyLaavLEyl~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~ 74 (110)
+|...|.|+++..+ +.|||+++-..+..+||.+..+|+..|..+|.|+++++|+.+||.+|++
T Consensus 31 I~k~~IrRLarr~G--vkRIS~d~y~e~r~vle~~l~~I~rdav~~aeHA~RKTVt~~DV~~AlK 93 (102)
T PTZ00015 31 ITKGAIRRLARRGG--VKRISGDIYEEVRGVLKAFLENVVRDSTAYTEYARRKTVTAMDVVYALK 93 (102)
T ss_pred CCHHHHHHHHHHcC--CccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHH
Confidence 78899999999987 4899999999999999999999999999999999999999999998875
No 23
>cd07979 TAF9 TATA Binding Protein (TBP) Associated Factor 9 (TAF9) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex. The TATA Binding Protein (TBP) Associated Factor 9 (TAF9) is one of several TAFs that bind TBP and are involved in forming the TFIID complex. TFIID is one of seven General Transcription Factors (GTF) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. The TFIID complex is composed of the TBP and at least 13 TAFs. TAFs from various species were originally named by their predicted molecular weight or their electrophoretic mobility in polyacrylamide gels. A new, unified nomenclature for the pol II TAFs has been suggested to show the relationship between TAFs orthologs and paralogs. Human TAF9 has a paralogue gene (TAF9L) whi
Probab=98.26 E-value=1.3e-06 Score=60.42 Aligned_cols=62 Identities=19% Similarity=0.075 Sum_probs=57.2
Q ss_pred hhhhhhhhcCCCcccccCchhHHHHHHHHHHHHHHHHHHHHHHHhhcCCceeccccccccccCc
Q psy9662 13 GRIHRHLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGD 76 (110)
Q Consensus 13 ~ri~r~Lk~~~~~~~Rvs~~A~vyLaavLEyl~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~nD 76 (110)
.-|+++|++.| ..+++..++..|...++-++.+|+..|..+|+|.||++|+.+||++|++.-
T Consensus 5 ~~v~~iLk~~G--v~~~~~~v~~~Lle~~~ry~~~il~dA~~~a~hA~r~tV~~eDV~lAi~~r 66 (117)
T cd07979 5 RVIAAILKSMG--ITEYEPRVINQLLEFAYRYTTDVLDDAKVYSEHAGKANIDADDVKLAIQSR 66 (117)
T ss_pred HHHHHHHHHCC--CCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHH
Confidence 45889999987 379999999999999999999999999999999999999999999998753
No 24
>cd07981 TAF12 TATA Binding Protein (TBP) Associated Factor 12 (TAF12) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex. The TATA Binding Protein (TBP) Associated Factor 12 (TAF12) is one of several TAFs that bind TBP and are involved in forming the TFIID complex. TFIID is one of the seven General Transcription Factors (GTFs) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. TFIID complex is composed of the TBP and at least 13 TAFs. TAFs are named after their electrophoretic mobility in polyacrylamide gels in different species. A new, unified nomenclature has been suggested for the pol II TAFs to show the relationship between TAF orthologs and paralogs. Several hypotheses are proposed for TAFs function such as serving as activator-bind
Probab=98.24 E-value=1.9e-06 Score=54.74 Aligned_cols=66 Identities=15% Similarity=0.210 Sum_probs=57.9
Q ss_pred cchhhhhhhhhcCCCcccccCchhHHHHHHHHHHHHHHHHHHHHHHHhhcCCceeccccccccccCc
Q psy9662 10 FPVGRIHRHLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGD 76 (110)
Q Consensus 10 fPV~ri~r~Lk~~~~~~~Rvs~~A~vyLaavLEyl~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~nD 76 (110)
++-..+..++++-.. ..|++.+|...|..+.|-++.++++.|...|+|.|+++|.++||+++++.+
T Consensus 2 ~~k~~l~~lv~~id~-~~~~~~da~~~l~~~~e~fv~~v~~~a~~lAkHr~~~tv~~~Di~l~l~r~ 67 (72)
T cd07981 2 LTKRKLQELLKEIDP-REQLDPDVEELLLEIADDFVDDVVEDACRLAKHRKSDTLEVKDVQLHLERN 67 (72)
T ss_pred CcHHHHHHHHHhhCC-CCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHh
Confidence 344567778887543 379999999999999999999999999999999999999999999998754
No 25
>KOG1657|consensus
Probab=98.21 E-value=1.2e-06 Score=67.27 Aligned_cols=76 Identities=20% Similarity=0.231 Sum_probs=71.6
Q ss_pred CccchhhhhhhhhcCCCcccccCchhHHHHHHHHHHHHHHHHHHHHHHHhhcCCceeccccccccccCchhhhhhhh
Q psy9662 8 PNFPVGRIHRHLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDSLIK 84 (110)
Q Consensus 8 l~fPV~ri~r~Lk~~~~~~~Rvs~~A~vyLaavLEyl~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~nD~EL~~L~~ 84 (110)
..||++||+++||.+... .-|+.+||+.++.+.|+++.|+-..|+..+..++++.+.-.||..++.+..-+++|..
T Consensus 73 ~~lPlaRiKkimK~dedv-~mI~~Eapvl~aka~E~Fi~elt~~sw~~Tee~~rrtl~~sdia~av~~s~~fdFL~D 148 (236)
T KOG1657|consen 73 HILPLARIKKIMKSDEDV-SMITAEAPVLFAKACELFITELTLRSWVHTEENKRRTLQKSDIAAAVTQSETFDFLRD 148 (236)
T ss_pred ccCcHhhccccccccccc-cccchhHHHHHHHHHHHHHHHHHHHhhhhhcccccccchHHHHHHHhccCCCccceec
Confidence 569999999999998864 7999999999999999999999999999999999999999999999999999999984
No 26
>COG5208 HAP5 CCAAT-binding factor, subunit C [Transcription]
Probab=98.08 E-value=3.3e-06 Score=64.41 Aligned_cols=77 Identities=25% Similarity=0.307 Sum_probs=71.5
Q ss_pred CccchhhhhhhhhcCCCcccccCchhHHHHHHHHHHHHHHHHHHHHHHHhhcCCceeccccccccccCchhhhhhhhh
Q psy9662 8 PNFPVGRIHRHLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDSLIKA 85 (110)
Q Consensus 8 l~fPV~ri~r~Lk~~~~~~~Rvs~~A~vyLaavLEyl~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~nD~EL~~L~~~ 85 (110)
+.+|++||+++|+.+.+. .-|++.||+.++..-|-++.|+.=.|.-.|..++|.++.-.||-.|++..+-+++|..+
T Consensus 108 h~LPlARIkkvMKtdedV-kMisaEaPvlFak~~EiFI~ELTmRAW~~ae~NkRRtLQksDia~Av~kSeMfDFLidi 184 (286)
T COG5208 108 HNLPLARIKKVMKTDEDV-KMISAEAPVLFAKITEIFIEELTMRAWINAEENKRRTLQKSDIAAAVKKSEMFDFLIDI 184 (286)
T ss_pred ccCcHHHHHHHHhcccch-hheecccchHHHHHHHHHHHHHHHHHHHHHhHhhhhHHHHHHHHHHHHHHHHHhHHhhh
Confidence 459999999999998864 78999999999999999999999999999999999999999999999999999999853
No 27
>smart00576 BTP Bromodomain transcription factors and PHD domain containing proteins. subdomain of archael histone-like transcription factors
Probab=97.82 E-value=2.8e-05 Score=49.73 Aligned_cols=59 Identities=14% Similarity=0.039 Sum_probs=53.9
Q ss_pred hhhhhhcCCCcccccCchhHHHHHHHHHHHHHHHHHHHHHHHhhcCCceeccccccccccC
Q psy9662 15 IHRHLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRG 75 (110)
Q Consensus 15 i~r~Lk~~~~~~~Rvs~~A~vyLaavLEyl~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~n 75 (110)
|.++|+..|. .+++.+|...|+.++|-.+.++.+.+.++|.+.||+..++.||..|+.+
T Consensus 12 Vaqil~~~Gf--~~~~~sale~ltdi~~~yl~~l~~~~~~~a~~agR~~~~~~Dv~~Al~~ 70 (77)
T smart00576 12 VAQILESAGF--DSFQESALETLTDILQSYIQELGRTAHSYAELAGRTEPNLGDVVLALEN 70 (77)
T ss_pred HHHHHHHcCc--cccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH
Confidence 5678898873 7999999999999999999999999999999999999999999988743
No 28
>PF02969 TAF: TATA box binding protein associated factor (TAF); InterPro: IPR004823 The TATA box binding protein associated factor (TAF) is part of the transcription initiation factor TFIID multimeric protein complex. TFIID plays a central role in mediating promoter responses to various activators and repressors. It binds tightly to TAFII-250 and directly interacts with TAFII-40. TFIID is composed of TATA binding protein (TBP)and a number of TBP-associated factors (TAFS). TAF proteins adopt a histone-like fold.; GO: 0006352 transcription initiation, DNA-dependent, 0005634 nucleus; PDB: 1TAF_B.
Probab=97.82 E-value=3.9e-05 Score=48.29 Aligned_cols=64 Identities=19% Similarity=0.185 Sum_probs=51.1
Q ss_pred ccchhhhhhhhhcCCCcccccCchhHHHHHHHHHHHHHHHHHHHHHHHhhcCCceecccccccccc
Q psy9662 9 NFPVGRIHRHLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIR 74 (110)
Q Consensus 9 ~fPV~ri~r~Lk~~~~~~~Rvs~~A~vyLaavLEyl~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~ 74 (110)
.||..-|+.+-..-|. ..++.++.-.|+.=+||-+.||++.|.+..+|++|++++++||+.|++
T Consensus 3 ~~~~esvk~iAes~Gi--~~l~de~a~~La~dveyrlreiiq~a~kfm~hskR~~Lt~~Di~~ALr 66 (66)
T PF02969_consen 3 VFSQESVKDIAESLGI--SNLSDEAAKALAEDVEYRLREIIQEALKFMRHSKRTKLTTDDINSALR 66 (66)
T ss_dssp ---HHHHHHHHHHTT-----B-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSB-HHHHHHHH-
T ss_pred cCCHHHHHHHHHHcCC--CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHHhC
Confidence 5788888888887773 589999999999999999999999999999999999999999998864
No 29
>cd08050 TAF6 TATA Binding Protein (TBP) Associated Factor 6 (TAF6) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex. The TATA Binding Protein (TBP) Associated Factor 6 (TAF6) is one of several TAFs that bind TBP and are involved in forming Transcription Factor IID (TFIID) complex. TFIID is one of seven General Transcription Factors (GTFs) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. TFIID complex is composed of the TBP and at least 13 TAFs. TAFs are named after their electrophoretic mobility in polyacrylamide gels in different species. A new, unified nomenclature has been suggested for the pol II TAFs to show the relationship between TAF orthologs and paralogs. Several hypotheses are proposed for TAFs functions such as serving as
Probab=97.75 E-value=3.6e-05 Score=61.50 Aligned_cols=68 Identities=19% Similarity=0.177 Sum_probs=57.9
Q ss_pred hhhhhhhhhcCCCcccccCchhHHHHHHHHHHHHHHHHHHHHHHHhhcCCceecccccccccc--Cchhhhh
Q psy9662 12 VGRIHRHLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIR--GDEELDS 81 (110)
Q Consensus 12 V~ri~r~Lk~~~~~~~Rvs~~A~vyLaavLEyl~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~--nD~EL~~ 81 (110)
.+-|+-+.+..| ..|++.+|...|+..+||.+.+|++.|.+.+++++|++++++||+.|++ |.+.|+.
T Consensus 2 ~~~i~~ia~~~G--i~~~~~~a~~~La~~~e~~~~~i~~~A~k~~~hskR~~l~~~Di~~Al~~~n~eplyG 71 (343)
T cd08050 2 QESIKLIAESLG--IDSLSDEVAQLLAEDVEYRLREIIQEAAKFMRHSKRRKLTTSDVNHALRLRNVEPLYG 71 (343)
T ss_pred hhHHHHHHHHcC--CCcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCHHHHHHHHHHhCCCcccC
Confidence 345666777766 4799999999999999999999999999999999999999999999976 4444443
No 30
>smart00428 H3 Histone H3.
Probab=97.74 E-value=2.7e-05 Score=53.07 Aligned_cols=71 Identities=17% Similarity=0.119 Sum_probs=59.0
Q ss_pred ccCCCccchhhhhhhhhcCCC---c--ccccCchhHHHHHHHHHHHHHHHHHHHHHHHhhcCCceecccccccccc
Q psy9662 4 WEQQPNFPVGRIHRHLKNRTT---S--HGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIR 74 (110)
Q Consensus 4 ~ragl~fPV~ri~r~Lk~~~~---~--~~Rvs~~A~vyLaavLEyl~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~ 74 (110)
+..+|.+|-..+.|+.++-.. . ..|++++|...|-.+.|.++.+++|.|...|.|.++.+|+|+|+++|.+
T Consensus 24 kst~lLI~k~pF~RLVREI~~~~~~~~~~R~~~~Al~aLQeasE~ylv~lfeda~~~a~HAkRvTl~~kDi~La~r 99 (105)
T smart00428 24 KSTDLLIRKAPFQRLVREIAQKFTTGVDLRFQSSAIMALQEAAEAYLVGLFEDTNLLAIHAKRVTIMPKDIQLARR 99 (105)
T ss_pred cCcccccccccHHHHHHHHHHHcCCCCCceeeHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCccCcHhhHHHHHH
Confidence 455677777777777665221 0 2599999999999999999999999999999999999999999998853
No 31
>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=97.39 E-value=0.00035 Score=45.90 Aligned_cols=63 Identities=27% Similarity=0.422 Sum_probs=55.7
Q ss_pred cchhhhhhhhhcCCCcccccCchhHHHHHHHHHHHHHHHHHHHHHHHhhcC---Cceecccccccccc
Q psy9662 10 FPVGRIHRHLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLK---VKRITPRHLQLAIR 74 (110)
Q Consensus 10 fPV~ri~r~Lk~~~~~~~Rvs~~A~vyLaavLEyl~~EIlelA~~~A~~~~---~k~I~p~hI~~Ai~ 74 (110)
||-..++|++..-.. ..++.+..+.|+++---++.||.|.|...-.+.+ ...|.|+||+.|.+
T Consensus 17 f~k~~iKr~~~~~~~--~~v~~~v~i~v~glaKvFVGeivE~A~~V~~~~~~~~~~Pl~P~HireA~r 82 (85)
T cd08048 17 FPKAAIKRLIQSVTG--QSVSQNVVIAVAGIAKVFVGEIVEEARDVQEEWGEANTGPLQPRHLREAYR 82 (85)
T ss_pred ccHHHHHHHHHHHcC--CCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCCCCCcHHHHHHHH
Confidence 889999999997653 6999999999999999999999999999776654 48999999998865
No 32
>KOG0869|consensus
Probab=97.30 E-value=0.00038 Score=50.57 Aligned_cols=75 Identities=16% Similarity=0.154 Sum_probs=64.4
Q ss_pred ccchhhhhhhhhcCCCcccccCchhHHHHHHHHHHHHHHHHHHHHHHHhhcCCceecccccccccc-----Cchhhhhhh
Q psy9662 9 NFPVGRIHRHLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIR-----GDEELDSLI 83 (110)
Q Consensus 9 ~fPV~ri~r~Lk~~~~~~~Rvs~~A~vyLaavLEyl~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~-----nD~EL~~L~ 83 (110)
-+|++-|-||||+.-...-+|+.+|.-.+--++--|++-|.-.|...|...+||+|+.+||-+|+. |-.|+..++
T Consensus 32 ~LPIANV~RIMK~~lP~naKIsKDAKE~vQECVSEfISFvT~EAsekC~~EkRKTIngdDllwAm~tLGFe~Y~eplkiy 111 (168)
T KOG0869|consen 32 FLPIANVSRIMKKALPANAKISKDAKETVQECVSEFISFVTGEASEKCQREKRKTINGDDLLWAMSTLGFENYAEPLKIY 111 (168)
T ss_pred hccHHHHHHHHHhcCCcccccchHHHHHHHHHHHHHHHHHhhHHHHHHHHHhcCcccHHHHHHHHHHcCcHhHHHHHHHH
Confidence 389999999999987656799999999999999888899999999999999999999999998875 445555554
No 33
>smart00427 H2B Histone H2B.
Probab=97.08 E-value=0.00093 Score=44.35 Aligned_cols=60 Identities=17% Similarity=0.201 Sum_probs=54.1
Q ss_pred hhhhhhhcCCCcccccCchhHHHHHHHHHHHHHHHHHHHHHHHhhcCCceecccccccccc
Q psy9662 14 RIHRHLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIR 74 (110)
Q Consensus 14 ri~r~Lk~~~~~~~Rvs~~A~vyLaavLEyl~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~ 74 (110)
.|+|.|++-... .-|++.|.-.|...+..+...|...|.+.++-+++++|++++|+.|++
T Consensus 6 Yi~kvLKqVhpd-~giS~kam~imnSfvnDiferIa~EAs~L~~~nkr~TltsreIqtAvr 65 (89)
T smart00427 6 YIYKVLKQVHPD-TGISSKAMSIMNSFVNDIFERIAAEASKLARYNKKSTLSSREIQTAVR 65 (89)
T ss_pred HHHHHHHHhCCC-ccccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCcCCHHHHHHHHH
Confidence 588999986643 689999999999999999999999999999999999999999999986
No 34
>PLN00158 histone H2B; Provisional
Probab=96.95 E-value=0.0014 Score=45.42 Aligned_cols=61 Identities=20% Similarity=0.220 Sum_probs=54.4
Q ss_pred hhhhhhhhcCCCcccccCchhHHHHHHHHHHHHHHHHHHHHHHHhhcCCceecccccccccc
Q psy9662 13 GRIHRHLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIR 74 (110)
Q Consensus 13 ~ri~r~Lk~~~~~~~Rvs~~A~vyLaavLEyl~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~ 74 (110)
..|+|.|++-... .-|++.|.-.|...+..++..|...|.+.++-+++.+|++++|+.|++
T Consensus 31 ~YI~kVLKQVhPd-~gIS~kaM~ImnSfvnDiferIA~EAs~La~~nkr~TltsrEIqtAvr 91 (116)
T PLN00158 31 IYIYKVLKQVHPD-TGISSKAMSIMNSFINDIFEKIATEAGKLARYNKKPTVTSREIQTAVR 91 (116)
T ss_pred HHHHHHHHHhCCC-CCccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCcCCHHHHHHHHH
Confidence 3589999986543 689999999999999999999999999999999999999999999986
No 35
>PF15630 CENP-S: Kinetochore component CENP-S; PDB: 4DRA_C 4DRB_H 3V9R_C.
Probab=96.84 E-value=0.0025 Score=41.08 Aligned_cols=48 Identities=21% Similarity=0.257 Sum_probs=38.0
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHH---HHhhcCCceeccccccccccCchhh
Q psy9662 32 TAAVYSAAILEYLTAEVLELAGN---ASKDLKVKRITPRHLQLAIRGDEEL 79 (110)
Q Consensus 32 ~A~vyLaavLEyl~~EIlelA~~---~A~~~~~k~I~p~hI~~Ai~nD~EL 79 (110)
-+|.+++++.|-....+-.+|.. .|+|.||++|+++|+.+..+.++.|
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 56888888888888888877755 7899999999999999999998875
No 36
>PTZ00463 histone H2B; Provisional
Probab=96.81 E-value=0.0023 Score=44.33 Aligned_cols=60 Identities=18% Similarity=0.174 Sum_probs=53.4
Q ss_pred hhhhhhhcCCCcccccCchhHHHHHHHHHHHHHHHHHHHHHHHhhcCCceecccccccccc
Q psy9662 14 RIHRHLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIR 74 (110)
Q Consensus 14 ri~r~Lk~~~~~~~Rvs~~A~vyLaavLEyl~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~ 74 (110)
.|++.|++-... .-|++.|.-.|...+.-+...|...|.+.|+-+++.+|++++|+.|++
T Consensus 33 YI~KVLKqVhPd-~gIS~kaM~ImnSfvnDifErIA~EAs~La~~nkr~TltsrEIQtAvr 92 (117)
T PTZ00463 33 YIFKVLKQVHPD-TGISRKSMNIMNSFLVDTFEKIATEASRLCKYTRRDTLSSREIQTAIR 92 (117)
T ss_pred HHHHHHHhhCCC-CCccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCCHHHHHHHHh
Confidence 488999986543 689999999999999999999999999999999999999999999987
No 37
>KOG3219|consensus
Probab=96.28 E-value=0.0026 Score=47.60 Aligned_cols=64 Identities=23% Similarity=0.366 Sum_probs=54.8
Q ss_pred CccchhhhhhhhhcCCCcccccCchhHHHHHHHHHHHHHHHHHHHHHHHhhc-CCceeccccccccc
Q psy9662 8 PNFPVGRIHRHLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDL-KVKRITPRHLQLAI 73 (110)
Q Consensus 8 l~fPV~ri~r~Lk~~~~~~~Rvs~~A~vyLaavLEyl~~EIlelA~~~A~~~-~~k~I~p~hI~~Ai 73 (110)
--||-+.|++++..-.. .-|+..+.+.++++-.-|+.||+|+|....... ....+.|.||+.|+
T Consensus 111 s~f~Ka~iKkL~~~itg--~~v~~nv~Ia~~GiaKvFVGEvVEeAl~V~~~~~e~~PLqP~HIREA~ 175 (195)
T KOG3219|consen 111 SAFPKAQIKKLMSSITG--QSVSENVAIAMAGIAKVFVGEVVEEALDVREEWGESGPLQPKHIREAY 175 (195)
T ss_pred hcCCHHHHHHHHHHHhC--CccCcceeeeecchhhHhHHHHHHHHHHHHHHhccCCCCCcHHHHHHH
Confidence 35999999999998653 359999999999999999999999998876553 45689999999776
No 38
>PLN00160 histone H3; Provisional
Probab=96.25 E-value=0.0033 Score=42.35 Aligned_cols=71 Identities=17% Similarity=0.044 Sum_probs=58.7
Q ss_pred ccCCCccchhhhhhhhhcCC----CcccccCchhHHHHHHHHHHHHHHHHHHHHHHHhhcCCceecccccccccc
Q psy9662 4 WEQQPNFPVGRIHRHLKNRT----TSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIR 74 (110)
Q Consensus 4 ~ragl~fPV~ri~r~Lk~~~----~~~~Rvs~~A~vyLaavLEyl~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~ 74 (110)
+..+|.+|-.++.|+.++-. ....|..++|...|--+-|.++-.++|-+..-|.|.++-+|.|+|++++.+
T Consensus 16 kst~lLI~k~pF~RLVREI~~~~~~~~~Rfq~~Al~ALQeAsEayLv~lfed~~lca~HakRVTl~~kD~~L~~r 90 (97)
T PLN00160 16 KSTDLLIRRLPFARLVREIQMEMSREAYRWQGSAILALQEAAEAHLVGLFEDSNLCAIHGKRVTIMPKDMQLARR 90 (97)
T ss_pred cchhhhhccccHHHHHHHHHHHcCCCCcEeeHHHHHHHHHHHHHHHHHHHhhhHHHHHHhcccccchhhHHHHHH
Confidence 45567777777777766532 112699999999999999999999999999999999999999999998754
No 39
>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=96.23 E-value=0.0048 Score=40.96 Aligned_cols=64 Identities=20% Similarity=0.329 Sum_probs=46.4
Q ss_pred cchhhhhhhhhcCCCcccccCchhHHHHHHHHHHHHHHHHHHHHHHHhhc-CCceecccccccccc
Q psy9662 10 FPVGRIHRHLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDL-KVKRITPRHLQLAIR 74 (110)
Q Consensus 10 fPV~ri~r~Lk~~~~~~~Rvs~~A~vyLaavLEyl~~EIlelA~~~A~~~-~~k~I~p~hI~~Ai~ 74 (110)
||-+.|+++++.-.. ..-|+....+.++++--.++.||+|.|....... ....|.|.|++.|.+
T Consensus 24 ~~k~~ikkli~~~~~-~qsv~~~v~i~v~g~aKvFVGEiVE~A~~Vq~~~~~~~pl~P~hlreA~r 88 (90)
T PF04719_consen 24 FNKAAIKKLINQVLG-NQSVSQNVVIAVAGIAKVFVGEIVEEARDVQEEWGETGPLQPDHLREAYR 88 (90)
T ss_dssp --HHHHHHHHHHHHS--S---HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT--SS--HHHHHHHHH
T ss_pred CCHHHHHHHHHHHcC-CCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCcHHHHHHHH
Confidence 888999999998432 2689999999999999999999999999877654 345999999997753
No 40
>KOG0871|consensus
Probab=96.22 E-value=0.0086 Score=43.20 Aligned_cols=73 Identities=15% Similarity=0.163 Sum_probs=59.5
Q ss_pred cccCCCccchhhhhhhhhcCCCcccccCchhHHHHHHHHHHHHHHHHHHHHHHHhhcCCceeccccccccccC
Q psy9662 3 EWEQQPNFPVGRIHRHLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRG 75 (110)
Q Consensus 3 ~~ragl~fPV~ri~r~Lk~~~~~~~Rvs~~A~vyLaavLEyl~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~n 75 (110)
...-.+.+|-+-|.+++++.-....||..+|--.+-.+==+|+.-|--.|...|....+|+|.|+|+..|+.|
T Consensus 6 ~~dde~sLPkAtv~KmIke~lP~d~rvakeareliincCvEFI~liSsEAneic~~e~KKTIa~EHV~KALe~ 78 (156)
T KOG0871|consen 6 KEDDELSLPKATVNKMIKEMLPKDVRVAKEARELIINCCVEFINLISSEANEICNKEAKKTIAPEHVIKALEN 78 (156)
T ss_pred cccccccCcHHHHHHHHHHhCCcccccchHHHHHHHHHHHHHHHHHHHHHHHHHhHHhcccCCHHHHHHHHHH
Confidence 3456789999999999999765236999988877766666666778888888898889999999999988765
No 41
>PF15511 CENP-T: Centromere kinetochore component CENP-T; PDB: 3B0D_T 3B0C_T 3VH5_T 3VH6_T.
Probab=96.21 E-value=0.0074 Score=49.58 Aligned_cols=62 Identities=13% Similarity=0.146 Sum_probs=44.0
Q ss_pred CCccchhhhhhhhhc----CCCcccccCchhHHHHHHHHHHHHHHHHHHHHHHHhhcCCceecccc
Q psy9662 7 QPNFPVGRIHRHLKN----RTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRH 68 (110)
Q Consensus 7 gl~fPV~ri~r~Lk~----~~~~~~Rvs~~A~vyLaavLEyl~~EIlelA~~~A~~~~~k~I~p~h 68 (110)
+..+|-+.|++++.. +++...+|+.+|.-.|..++||+...+-+==..+|+|.|||+|.+.|
T Consensus 349 ~P~lP~~~vK~la~~~ak~s~~sK~kiskdal~aleqasdwfFeQl~dDL~aYA~HAgRKTIdesD 414 (414)
T PF15511_consen 349 YPSLPPGVVKKLAQHFAKSSGGSKMKISKDALEALEQASDWFFEQLGDDLEAYAKHAGRKTIDESD 414 (414)
T ss_dssp ---S-HHHHHHHHHHHH-------S-B-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHH
T ss_pred CCCCCccHHHHHHHHHHHhhcccCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCCCCC
Confidence 345888888876654 34455899999999999999999999999999999999999998865
No 42
>PLN00121 histone H3; Provisional
Probab=96.07 E-value=0.0053 Score=43.66 Aligned_cols=70 Identities=16% Similarity=0.092 Sum_probs=58.3
Q ss_pred ccCCCccchhhhhhhhhcCCC---cccccCchhHHHHHHHHHHHHHHHHHHHHHHHhhcCCceeccccccccc
Q psy9662 4 WEQQPNFPVGRIHRHLKNRTT---SHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAI 73 (110)
Q Consensus 4 ~ragl~fPV~ri~r~Lk~~~~---~~~Rvs~~A~vyLaavLEyl~~EIlelA~~~A~~~~~k~I~p~hI~~Ai 73 (110)
+..+|.+|-..+.|+.++-.. ...|+.++|...|--+-|.++-.++|-+.--|.|.++-+|.|+|++++.
T Consensus 57 kst~lLI~k~pF~RLVREI~~~~~~~~Rf~~~Al~ALQeaaE~yLv~lfed~~lca~HakRVTl~~kD~~L~~ 129 (136)
T PLN00121 57 KSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVLALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAR 129 (136)
T ss_pred cccccccccccHHHHHHHHHHHhCccceeeHHHHHHHHHHHHHHHHHHHhhhHHHHHHhcceecchhhHHHHH
Confidence 345677777777777765321 1269999999999999999999999999999999999999999999874
No 43
>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=96.04 E-value=0.011 Score=41.56 Aligned_cols=62 Identities=21% Similarity=0.119 Sum_probs=45.5
Q ss_pred hhhhhhhhhcCCCcccccCchhHHHHHHHHHHHHHHHHHHHHHHHhhcCCceeccccccccccC
Q psy9662 12 VGRIHRHLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRG 75 (110)
Q Consensus 12 V~ri~r~Lk~~~~~~~Rvs~~A~vyLaavLEyl~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~n 75 (110)
+--|+-+|++.|. .......+.-|.-..--.+.+||+-|..+|.|.+++.|+..||++||..
T Consensus 15 a~~i~~iL~~~Gv--~~yeprVv~qLLEfayRYt~~vL~DA~~ya~hA~~~~i~~~DVrLAi~~ 76 (129)
T PF02291_consen 15 ARVIHLILKSMGV--TEYEPRVVNQLLEFAYRYTSDVLEDAQVYADHAGRSTIDADDVRLAIQS 76 (129)
T ss_dssp HHHHHHHHHHTT-----B-THHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSB-HHHHHHHHHH
T ss_pred HHHHHHHHHHcCC--cccCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccCChHHHHHHHHH
Confidence 3457789998873 3455555666655555678999999999999999999999999999973
No 44
>PF09415 CENP-X: CENP-S associating Centromere protein X; InterPro: IPR018552 Centromere protein X (CENP-X) is a component of the CENP-S complex. The CENP-S complex is composed of at least of CENP-S and CENP-X and is essential for the stable assembly of the outer kinetchore []. CENP-X is also a DNA-binding component of the Fanconi anemia (FA) core complex involved in DNA damage repair and genome maintenance. The FA complex is composed of CENPS, FANCA, FANCB, FANCC, FANCE, FANCF, FANCG, FANCL/PHF9, FANCM, FAAP24 and CENPX. Interacts with CENPS, FANCM and FAAP24 [, ].; PDB: 4DRB_L 4DRA_H 3V9R_D.
Probab=95.99 E-value=0.019 Score=36.52 Aligned_cols=61 Identities=20% Similarity=0.222 Sum_probs=47.1
Q ss_pred chhhhhhhhhcCCC-cccccCchhHHHHHHHHHHHHHHHHHHHHHHHhhcCCce-eccccccc
Q psy9662 11 PVGRIHRHLKNRTT-SHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKR-ITPRHLQL 71 (110)
Q Consensus 11 PV~ri~r~Lk~~~~-~~~Rvs~~A~vyLaavLEyl~~EIlelA~~~A~~~~~k~-I~p~hI~~ 71 (110)
|-.-|.|+|+.... ..-||+.+|...++..|+-|+.|-+-+|...|+..|... +..+|++.
T Consensus 1 p~~li~rll~~~f~~~~tkIs~dal~l~~eyl~iFV~EAv~Ra~~~a~~e~~~~~le~e~LEk 63 (72)
T PF09415_consen 1 PPELIARLLHEHFKDDKTKISKDALKLSAEYLRIFVREAVARAAEQAEAEGDEGFLEVEHLEK 63 (72)
T ss_dssp -CHHHHHHHCTTSSSTT-EE-CCCHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSEE-HHHHHH
T ss_pred ChHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCHHHHHH
Confidence 44567788875331 226999999999999999999999999999999988888 99999885
No 45
>PF07524 Bromo_TP: Bromodomain associated; InterPro: IPR006565 This bromodomain is found in eukaryotic transcription factors and PHD domain containing proteins (IPR001965 from INTERPRO). The tandem PHD finger-bromodomain is found in many chromatin-associated proteins. It is involved in gene silencing by the human co-repressor KRAB-associated protein 1 (KAP1). The tandem PHD finger-bromodomain of KAP1 has a distinct structure that joins the two protein modules. The first helix, alpha(Z), of an atypical bromodomain forms the central hydrophobic core that anchors the other three helices of the bromodomain on one side and the zinc binding PHD finger on the other []. The Rap1 GTPase-activating protein, Sipa1, is modulated by the cellular bromodomain protein, Brd4. Brd4 belongs to the BET family and is a multifunctional protein involved in transcription, replication, the signal transduction pathway, and cell cycle progression. All of these functions are linked to its association with acetylated chromatin. It has tandem bromodomains []. The dysregulation of the Brd4-associated pathways may play an important role in breast cancer progression []. Bovine papillomavirus type 1 E2 also binds to chromosomes in a complex with Brd4. Interaction with Brd4 is additionally important for E2-mediated transcriptional regulation [, ].
Probab=95.88 E-value=0.015 Score=36.77 Aligned_cols=58 Identities=14% Similarity=0.075 Sum_probs=51.4
Q ss_pred hhhhhhcCCCcccccCchhHHHHHHHHHHHHHHHHHHHHHHHhhcCCceecccccccccc
Q psy9662 15 IHRHLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIR 74 (110)
Q Consensus 15 i~r~Lk~~~~~~~Rvs~~A~vyLaavLEyl~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~ 74 (110)
|..+++..|+ ..++.+|.-.|+.+++.++.++...+-.+|.+.||...++.|+..|+.
T Consensus 12 va~il~~~GF--~~~~~~al~~Ltdi~~~yl~~l~~~~~~~ae~~gRt~~~~~Dv~~al~ 69 (77)
T PF07524_consen 12 VAQILKHAGF--DSASPSALDTLTDILQRYLQELGRTAKRYAEHAGRTEPNLQDVEQALE 69 (77)
T ss_pred HHHHHHHcCc--cccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Confidence 4567787773 699999999999999999999999999999999999999999997763
No 46
>PLN00161 histone H3; Provisional
Probab=95.87 E-value=0.015 Score=41.26 Aligned_cols=71 Identities=18% Similarity=0.081 Sum_probs=58.0
Q ss_pred ccCCCccchhhhhhhhhcCC----CcccccCchhHHHHHHHHHHHHHHHHHHHHHHHhhcCCceecccccccccc
Q psy9662 4 WEQQPNFPVGRIHRHLKNRT----TSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIR 74 (110)
Q Consensus 4 ~ragl~fPV~ri~r~Lk~~~----~~~~Rvs~~A~vyLaavLEyl~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~ 74 (110)
+..+|.+|-..+.|+.++-. ....|+.++|...|--+-|.++-.++|-+.-.|.|.++-+|.|.|++++.+
T Consensus 50 kst~lLIpklPF~RLVREI~~~~~~~~~Rfq~~Al~ALQEAsEayLV~lFeda~lcaiHAkRVTlm~kDm~La~r 124 (135)
T PLN00161 50 KSTELLIRKLPFARLVREISNEMLREPFRWTAEALLALQEATEDFLVHLFEDCNLCAIHAKRVTIMPKDMQLARR 124 (135)
T ss_pred cccccccccccHHHHHHHHHHhcCCCCcEeeHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccchhhHHHHHH
Confidence 34567777777777766531 112699999999999999999999999999999999999999999997743
No 47
>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=95.85 E-value=0.016 Score=36.43 Aligned_cols=61 Identities=11% Similarity=0.221 Sum_probs=47.0
Q ss_pred hhhhhhhcCCCcccccCchhHHHHHHHHHHHHHHHHHHHHHHHhhcCCceeccccccccccC
Q psy9662 14 RIHRHLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRG 75 (110)
Q Consensus 14 ri~r~Lk~~~~~~~Rvs~~A~vyLaavLEyl~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~n 75 (110)
++..++++-.. ...+..++--.|..+.+-|+..+++.|+..|++.+..++.++||+..+..
T Consensus 4 ~l~~Lv~~iDp-~~~ld~~vee~Ll~laddFv~~v~~~ac~lAKhR~s~tle~~Dv~~~Ler 64 (68)
T PF03847_consen 4 KLQELVKQIDP-NEKLDPDVEELLLELADDFVDDVVSFACRLAKHRKSSTLEVKDVQLHLER 64 (68)
T ss_dssp HHHHHHHCC-S-S----HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHHHHHHHHH
T ss_pred HHHHHHHHcCC-CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCCHHHHHHHHHh
Confidence 56667777543 47999999999999999999999999999999999999999999977643
No 48
>PTZ00018 histone H3; Provisional
Probab=95.82 E-value=0.0079 Score=42.77 Aligned_cols=70 Identities=16% Similarity=0.093 Sum_probs=58.5
Q ss_pred ccCCCccchhhhhhhhhcCC---CcccccCchhHHHHHHHHHHHHHHHHHHHHHHHhhcCCceeccccccccc
Q psy9662 4 WEQQPNFPVGRIHRHLKNRT---TSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAI 73 (110)
Q Consensus 4 ~ragl~fPV~ri~r~Lk~~~---~~~~Rvs~~A~vyLaavLEyl~~EIlelA~~~A~~~~~k~I~p~hI~~Ai 73 (110)
+..+|.+|-..+.|+.++-. ....|+.++|...|--+-|.++-.++|-+..-|.|.++.+|.|+|++++.
T Consensus 57 kst~lLI~k~pF~RLVREI~~~~~~~~rf~~~al~aLQeaaE~yLv~lfed~~lca~HakRVTl~~kD~~L~~ 129 (136)
T PTZ00018 57 KSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVLALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAR 129 (136)
T ss_pred ccchhccccccHHHHHHHHHHHcCCcceeeHHHHHHHHHHHHHHHHHHhhhhHHHHHhhcceecchhhHHHHH
Confidence 34567777777777777632 11269999999999999999999999999999999999999999999874
No 49
>KOG0870|consensus
Probab=95.52 E-value=0.018 Score=42.25 Aligned_cols=74 Identities=19% Similarity=0.162 Sum_probs=60.7
Q ss_pred CccccCCCccchhhhhhhhhcCCCcc-cccCchhHHHHHHHHHHHHHHHHHHHHHHHhhcCCceecccccccccc
Q psy9662 1 MAEWEQQPNFPVGRIHRHLKNRTTSH-GRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIR 74 (110)
Q Consensus 1 ~~~~ragl~fPV~ri~r~Lk~~~~~~-~Rvs~~A~vyLaavLEyl~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~ 74 (110)
|+++=.-|.||-+-|-|+.++.-... .-|+.+|...|+..---|+..+.-.|.+.|+++++++|++.|+-.|+.
T Consensus 2 e~eri~dl~lP~AiI~rlvke~l~E~~vsisKeA~~Ai~raAtVFv~~Lts~s~e~A~~q~rKt~sadDVl~aL~ 76 (172)
T KOG0870|consen 2 EDERIEDLNLPNAIITRLVKEVLPESNVSISKEARLAIARAATVFVIFLTSVSNEIAKDQKRKTISADDVLKALD 76 (172)
T ss_pred cchhHHHhhccHHHHHHHHHHhCccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCcccHHHHHHHHH
Confidence 44555678899999998877644211 368888988888888888899999999999999999999999998874
No 50
>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=94.36 E-value=0.072 Score=35.26 Aligned_cols=68 Identities=13% Similarity=0.067 Sum_probs=19.7
Q ss_pred hhhhhhcCCCcccccCchhHHHHHHHHHHHHHHHHHHHHHHHhhcCCceeccccccccccCchhhhhhh
Q psy9662 15 IHRHLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDSLI 83 (110)
Q Consensus 15 i~r~Lk~~~~~~~Rvs~~A~vyLaavLEyl~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~nD~EL~~L~ 83 (110)
|..+|---|+. ..-..++...+-.++--.+.+++..|.+.|...|+++|+++|+.-++++|+.-..-+
T Consensus 7 I~~mMy~fGD~-~~P~~eTv~lvE~iv~~~i~~l~~~A~~~a~~rg~~~i~~eDl~F~lR~D~~Kl~Rl 74 (93)
T PF02269_consen 7 IRQMMYGFGDV-EEPLPETVDLVEDIVREYIIELCQEAMEVAQRRGSKKIKVEDLLFLLRKDPKKLARL 74 (93)
T ss_dssp CHHHHHCTTS--SS--HHHHHHHHHHHHHHHHHHHHHHHC-----------------------------
T ss_pred HHHHHHHcCCC-CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCcCcHHHHHHHHhcCHHHHHHH
Confidence 34455544443 334445555555444444567777777888888899999999999999998644433
No 51
>KOG1745|consensus
Probab=94.29 E-value=0.063 Score=38.23 Aligned_cols=63 Identities=24% Similarity=0.220 Sum_probs=51.2
Q ss_pred chhhhhh-hhhcCCCcccccCchhHHHHHHHHHHHHHHHHHHHHHHHhhcCCceecccccccccc
Q psy9662 11 PVGRIHR-HLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIR 74 (110)
Q Consensus 11 PV~ri~r-~Lk~~~~~~~Rvs~~A~vyLaavLEyl~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~ 74 (110)
|-.|+-| +.++... -.|+.++|...|--..|.+.-.++|-+.--|-|.++-+|.|.||++|.+
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 3333332 2699999999999999999999999999999999999999999999865
No 52
>KOG1142|consensus
Probab=93.96 E-value=0.13 Score=40.14 Aligned_cols=69 Identities=9% Similarity=0.172 Sum_probs=59.5
Q ss_pred cchhhhhhhhhcCCCcccccCchhHHHHHHHHHHHHHHHHHHHHHHHhhcCCceeccccccccccCchhh
Q psy9662 10 FPVGRIHRHLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEEL 79 (110)
Q Consensus 10 fPV~ri~r~Lk~~~~~~~Rvs~~A~vyLaavLEyl~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~nD~EL 79 (110)
+-..+++.++++-. ....+..++--+|.-+.+-|+..|...|+..|+|.++.+|..+||++.++++.-+
T Consensus 155 l~k~kl~dLvqqId-~~~~LD~dVedlLleiADdFV~sii~~sC~LAKHRKsdtlEvrDIqLhLEr~~Nm 223 (258)
T KOG1142|consen 155 LSKRKLDDLVQQID-GTTKLDDDVEDLLLEIADDFVSSIIHRSCKLAKHRKSDTVEVRDIQLHLERNFNM 223 (258)
T ss_pred ccccchhHHHHhhc-CcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCccchhheeeeeeccccc
Confidence 44556777888753 2379999999999999999999999999999999999999999999999877543
No 53
>KOG1658|consensus
Probab=93.77 E-value=0.088 Score=38.29 Aligned_cols=75 Identities=21% Similarity=0.196 Sum_probs=65.0
Q ss_pred CccchhhhhhhhhcCCCcccccCchhHHHHHHHHHHHHHHHHHHHHHHHhhcCCceeccccccccccCchhhhhhh
Q psy9662 8 PNFPVGRIHRHLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDSLI 83 (110)
Q Consensus 8 l~fPV~ri~r~Lk~~~~~~~Rvs~~A~vyLaavLEyl~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~nD~EL~~L~ 83 (110)
.++|++||+.+++.+-+. .-....+...++..-|-++.++-..++..+....++++.-+++..||..-+|+.++.
T Consensus 58 ~rLpL~rik~vvkl~pdl-~l~~dea~~l~a~aaelfi~~Ln~~~~~~~q~~k~kt~qr~d~D~ai~~~de~~fle 132 (162)
T KOG1658|consen 58 SRLPLARIKQVVKLDPDL-TLLNDEASQLIAKAAELFIQELNDVAYTTAQLRKRKTEQRRDYDTAIEAVDEFAFLE 132 (162)
T ss_pred hhccHHHHHhhccCCcch-hhhhhHHHHHHHHHHHHHHHHHHhccchhHHHHHhhhhhhhcccccccchHHHHHHh
Confidence 579999999999987642 344456677778899999999999999999899999999999999999999998887
No 54
>KOG3467|consensus
Probab=93.13 E-value=0.18 Score=33.57 Aligned_cols=58 Identities=17% Similarity=0.184 Sum_probs=49.6
Q ss_pred hhhhhhhcCCCcccccCchhHHHHHHHHHHHHHHHHHHHHHHHhhcCCceeccccccccc
Q psy9662 14 RIHRHLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAI 73 (110)
Q Consensus 14 ri~r~Lk~~~~~~~Rvs~~A~vyLaavLEyl~~EIlelA~~~A~~~~~k~I~p~hI~~Ai 73 (110)
-|.|+-+.++. .||+...--....|+--++.+++-.|..++.|.++++||..||-.++
T Consensus 34 aIRRlARr~GV--kRi~G~~yeE~~~~~k~fl~n~i~~A~~yt~HAKRKTvT~~dvv~~L 91 (103)
T KOG3467|consen 34 AIRRLARRGGV--KRISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKTVTAMDVVYAL 91 (103)
T ss_pred HHHHHHHhcCc--chhchhhHHHHHHHHHHHHHHHHHHHHHHHhhhhhceeeHHHHHHHH
Confidence 47788888773 79998888888888888889999999999999999999988876543
No 55
>KOG1744|consensus
Probab=93.12 E-value=0.18 Score=35.54 Aligned_cols=59 Identities=19% Similarity=0.202 Sum_probs=47.8
Q ss_pred hhhhhhcCCCcccccCchhHHHHHHHHHHHHHHHHHHHHHHHhhcCCceecccccccccc
Q psy9662 15 IHRHLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIR 74 (110)
Q Consensus 15 i~r~Lk~~~~~~~Rvs~~A~vyLaavLEyl~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~ 74 (110)
|.|.|++--.. .-|++.+.-.+-+.+-.+...|+..|+..|+-+++.+|+.++|+.|++
T Consensus 43 v~kvlk~Vhpd-~gis~~a~~vmnsf~ndife~iA~ea~rla~y~krstisSreiqta~r 101 (127)
T KOG1744|consen 43 VYKVLKQVHPD-LGISSKAMGVMNSFVNDIFERIASEAGRLAHYNKRSTISSREIQTAVR 101 (127)
T ss_pred hhhhhhcccCC-CCcCHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCcccHHHHHHHHH
Confidence 44466654332 348888888888888888999999999999999999999999998764
No 56
>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=91.82 E-value=0.46 Score=31.47 Aligned_cols=65 Identities=11% Similarity=0.053 Sum_probs=40.4
Q ss_pred hhhhhhcCCCcccccCchhHHHHHHHHHHHHHHHHHHHHHHHhhcCCceeccccccccccCchhhhh
Q psy9662 15 IHRHLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDS 81 (110)
Q Consensus 15 i~r~Lk~~~~~~~Rvs~~A~vyLaavLEyl~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~nD~EL~~ 81 (110)
|..+|---|+. ..-..++...+-.++--.+.+++-.|.+.|. .++.+|+++|+.-++++|+.=..
T Consensus 8 i~~mmy~~GD~-~~P~~eTv~llE~iv~~~i~~l~~~a~~~A~-~r~~k~~~eD~~FliR~D~~Kl~ 72 (92)
T cd07978 8 IRQMMYGFGDV-QNPLPETVDLLEDIVVEYIIELCHKAAEVAQ-RRRGKVKVEDLIFLLRKDPKKLA 72 (92)
T ss_pred HHHHHHHcCCC-CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH-cCCCCCCHHHHHHHHhcCHHHHH
Confidence 55566655543 2223344444444444444566666666766 57778899999999999986433
No 57
>COG5094 TAF9 Transcription initiation factor TFIID, subunit TAF9 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=86.80 E-value=1.6 Score=30.85 Aligned_cols=63 Identities=21% Similarity=0.128 Sum_probs=49.7
Q ss_pred hhhhhhhhhcCCCcccccCchhHHHHHHHHHHHHHHHHHHHHHHHhhcCCceecc---ccccccccCc
Q psy9662 12 VGRIHRHLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITP---RHLQLAIRGD 76 (110)
Q Consensus 12 V~ri~r~Lk~~~~~~~Rvs~~A~vyLaavLEyl~~EIlelA~~~A~~~~~k~I~p---~hI~~Ai~nD 76 (110)
|--|+-+|+.-+ ..-.+...|.-|-..---.+..+|+-|.-+|++.|+..|++ +||++|+..-
T Consensus 17 vrlihliL~Slg--i~~ye~~VplQLl~FAhRYTq~vl~Dalvya~htgrg~~a~l~veDvrLA~at~ 82 (145)
T COG5094 17 VRLIHLILRSLG--IEEYEPKVPLQLLEFAHRYTQDVLEDALVYAKHTGRGHIATLGVEDVRLALATK 82 (145)
T ss_pred hhHHHHHHHhcC--chhhCccchHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCcccHHHHHHHHHHH
Confidence 445777787655 25666677777766666678999999999999999998888 9999998754
No 58
>KOG3334|consensus
Probab=86.14 E-value=1.5 Score=31.57 Aligned_cols=57 Identities=26% Similarity=0.232 Sum_probs=42.3
Q ss_pred hhhhhhhcCCCcccccCchhHHHHHHHHHH---HHHHHHHHHHHHHhhcCCceeccccccccccC
Q psy9662 14 RIHRHLKNRTTSHGRVGATAAVYSAAILEY---LTAEVLELAGNASKDLKVKRITPRHLQLAIRG 75 (110)
Q Consensus 14 ri~r~Lk~~~~~~~Rvs~~A~vyLaavLEy---l~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~n 75 (110)
-|+.+|++-| |.+.-|-...-.||+ .+..||+-|.=++.|.++..|..+|+++|+..
T Consensus 18 ~i~~iL~s~G-----I~eyEprVi~qlLefa~rYtt~vL~DA~vys~HA~ka~i~~eDVrlA~~~ 77 (148)
T KOG3334|consen 18 VIASILKSLG-----IQEYEPRVINQLLEFAYRYTTTVLDDAKVYSSHAKKATIDAEDVRLAIQM 77 (148)
T ss_pred HHHHHHHHcC-----ccccChHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCcHHHHHHHHHH
Confidence 3566777755 233334444555555 56789999999999999999999999999864
No 59
>COG5150 Class 2 transcription repressor NC2, beta subunit (Dr1) [Transcription]
Probab=85.15 E-value=2 Score=30.54 Aligned_cols=71 Identities=13% Similarity=0.212 Sum_probs=47.3
Q ss_pred ccCCCccchhhhhhhhhcCCCcccccCc-hhHHHHHHHHHHHHHHHHHHHHHHHhhcCCceeccccccccccC
Q psy9662 4 WEQQPNFPVGRIHRHLKNRTTSHGRVGA-TAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRG 75 (110)
Q Consensus 4 ~ragl~fPV~ri~r~Lk~~~~~~~Rvs~-~A~vyLaavLEyl~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~n 75 (110)
..-++.+|-+-|.+...+.-....-+.. .--+++.+++||+- -+--.|...|.+..+|+|.|+||-.|+.|
T Consensus 6 ~dDe~sLPKATVqKMvS~iLp~dl~ftKearei~in~cieFi~-~lsseAne~ce~EaKKTIa~EHviKALen 77 (148)
T COG5150 6 NDDENSLPKATVQKMVSSILPKDLVFTKEAREIFINACIEFIN-MLSSEANEACEEEAKKTIAYEHVIKALEN 77 (148)
T ss_pred ccccccCcHHHHHHHHHHhccccccccHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHhccccHHHHHHHHHh
Confidence 3456778888888766654321123333 44577888888873 33344555666678999999999998865
No 60
>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=77.93 E-value=0.82 Score=25.90 Aligned_cols=32 Identities=25% Similarity=0.371 Sum_probs=24.2
Q ss_pred HHHHHhhcCCceeccccccccccCch--hhhhhh
Q psy9662 52 AGNASKDLKVKRITPRHLQLAIRGDE--ELDSLI 83 (110)
Q Consensus 52 A~~~A~~~~~k~I~p~hI~~Ai~nD~--EL~~L~ 83 (110)
|.+.|...+...|+|+|+-+|+-.|+ ....++
T Consensus 1 A~~~A~~~~~~~i~~eHlL~all~~~~~~~~~il 34 (53)
T PF02861_consen 1 AQELARERGHQYISPEHLLLALLEDPDSIAARIL 34 (53)
T ss_dssp HHHHHHHTTBSSE-HHHHHHHHHHHTTSHHHHHH
T ss_pred CHHHHHHcCCCcccHHHHHHHHHhhhhHHHHHHH
Confidence 45678889999999999999976655 555555
No 61
>PF15510 CENP-W: Centromere kinetochore component W
Probab=65.91 E-value=8.8 Score=25.77 Aligned_cols=61 Identities=21% Similarity=0.258 Sum_probs=43.1
Q ss_pred cchhhhhhhhhcCCCcccccCchhHHH----------------HHHHHHHHHHHHHHHHHHHHhhcCCceeccccccccc
Q psy9662 10 FPVGRIHRHLKNRTTSHGRVGATAAVY----------------SAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAI 73 (110)
Q Consensus 10 fPV~ri~r~Lk~~~~~~~Rvs~~A~vy----------------LaavLEyl~~EIlelA~~~A~~~~~k~I~p~hI~~Ai 73 (110)
-|-+..+|+++.... ..|+..++-.. | -+| .++..+.|.|-..|.+++-..|.++|+..|-
T Consensus 17 aPrgfLkrv~Kr~Kp-hlRl~~~~Dllv~~~~f~~~~~~~~vhL-ncL-LFvhrLAEEaRtnA~EnK~~~Ik~~Hv~Aaa 93 (102)
T PF15510_consen 17 APRGFLKRVFKRQKP-HLRLETSGDLLVRFCPFSGWQWGGEVHL-NCL-LFVHRLAEEARTNACENKCGTIKKEHVLAAA 93 (102)
T ss_pred CchHHHHHHHHhcCC-ceeecccccHHHhhcccccccccceeeh-hHH-HHHHHHHHHHHHHHHHHhhccccHHHHHHHH
Confidence 588889999986543 36776544332 1 122 2447788889888889999999999998654
No 62
>COG5251 TAF40 Transcription initiation factor TFIID, subunit TAF11 [Transcription]
Probab=65.77 E-value=4.2 Score=30.24 Aligned_cols=65 Identities=15% Similarity=0.236 Sum_probs=51.5
Q ss_pred CccchhhhhhhhhcCCCcccccCchhHHHHHHHHHHHHHHHHHHHHHHHhh-cCCceecccccccccc
Q psy9662 8 PNFPVGRIHRHLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKD-LKVKRITPRHLQLAIR 74 (110)
Q Consensus 8 l~fPV~ri~r~Lk~~~~~~~Rvs~~A~vyLaavLEyl~~EIlelA~~~A~~-~~~k~I~p~hI~~Ai~ 74 (110)
--||-..|+++...-- ..-|+....+++.++---++.||+|+|...-.+ .......|.|++.|++
T Consensus 114 t~lnKt~VKKlastV~--nQtVspNi~I~l~g~~KVfvGEiIElA~~Vq~~w~~sgpl~p~h~reayr 179 (199)
T COG5251 114 TSLNKTQVKKLASTVA--NQTVSPNIRIFLQGVGKVFVGEIIELAMIVQNKWLTSGPLIPFHKREAYR 179 (199)
T ss_pred cCCCHHHHHHHHHHHh--ccccCCCeeeeeechhHHHHHHHHHHHHHHHHHhcccCCCChHHHHHHHH
Confidence 3477888888877643 368999999999999999999999999876543 3345788999998875
No 63
>COG5095 TAF6 Transcription initiation factor TFIID, subunit TAF6 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=65.23 E-value=14 Score=30.26 Aligned_cols=63 Identities=19% Similarity=0.129 Sum_probs=53.6
Q ss_pred cchhhhhhhhhcCCCcccccCchhHHHHHHHHHHHHHHHHHHHHHHHhhcCCceecccccccccc
Q psy9662 10 FPVGRIHRHLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIR 74 (110)
Q Consensus 10 fPV~ri~r~Lk~~~~~~~Rvs~~A~vyLaavLEyl~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~ 74 (110)
+...-++..-..-|. .-|..++.-.|+-=+||=+.||.+.|.+.-.+++|...|-.||..|.+
T Consensus 6 ws~et~KdvAeslGi--~Ni~Dd~l~alamDlEYRI~ev~qea~KFmvhSKRtvLt~dDis~ALr 68 (450)
T COG5095 6 WSKETLKDVAESLGI--SNIDDDALRALAMDLEYRIKEVCQEASKFMVHSKRTVLTIDDISYALR 68 (450)
T ss_pred ecHHHHHHHHHHcCC--cccccHHHHHHHHhHHHHHHHHHHHHHHHhhcccceeeeHHhHHHHHH
Confidence 445556666665553 578999999999999999999999999999999999999999998876
No 64
>KOG2549|consensus
Probab=63.66 E-value=13 Score=32.20 Aligned_cols=61 Identities=18% Similarity=0.163 Sum_probs=52.3
Q ss_pred hhhhhhhhhcCCCcccccCchhHHHHHHHHHHHHHHHHHHHHHHHhhcCCceecccccccccc
Q psy9662 12 VGRIHRHLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIR 74 (110)
Q Consensus 12 V~ri~r~Lk~~~~~~~Rvs~~A~vyLaavLEyl~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~ 74 (110)
-.-++-+.+.-| ..-+..++.-.|+-=+||=+.||...|.+.-++.+|.+.|-.||..|++
T Consensus 14 ~Es~k~vAEslG--i~nl~deaa~~La~dv~yrikEI~Q~aaKfm~hskR~kLtv~DV~~ALr 74 (576)
T KOG2549|consen 14 KESVKVVAESLG--ITNLNDEAALLLAEDVEYRIKEIVQDAAKFMVHSKRTKLTVDDVDYALR 74 (576)
T ss_pred HHHHHHHHHHhC--ccccCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCcCcHHHHHHHHh
Confidence 444555555555 2579999999999999999999999999999999999999999998886
No 65
>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=62.30 E-value=4.4 Score=28.92 Aligned_cols=56 Identities=20% Similarity=0.199 Sum_probs=38.7
Q ss_pred hhhhhhcCCCcccccCchhHHHHHHHHHHHHHHHHHHHHHHHhhcCCceecccccccc
Q psy9662 15 IHRHLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLA 72 (110)
Q Consensus 15 i~r~Lk~~~~~~~Rvs~~A~vyLaavLEyl~~EIlelA~~~A~~~~~k~I~p~hI~~A 72 (110)
++|+++... ..-|..+-.--+..+++-=..+++..|...|+.|||-.|.|.|+-.+
T Consensus 1 fe~lFR~aa--~LdvdK~d~~r~~d~V~~Kl~DLl~va~~~Ak~ngRdvI~~~DLPIT 56 (138)
T PF09123_consen 1 FERLFRKAA--GLDVDKNDAKRYSDFVEKKLYDLLLVAQENAKANGRDVIEPRDLPIT 56 (138)
T ss_dssp HHHHHHHHH--S----HHHHHHHHHHHHHHHHHCCCCHHHHHHHTT-SEE-GGGS---
T ss_pred ChHHHHHHh--ccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeeccccCCcc
Confidence 356666643 14666777777888888889999999999999999999999998643
No 66
>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=61.58 E-value=10 Score=21.68 Aligned_cols=27 Identities=15% Similarity=0.151 Sum_probs=18.5
Q ss_pred HHHHHHHHHHHhhcCCceecccccccc
Q psy9662 46 AEVLELAGNASKDLKVKRITPRHLQLA 72 (110)
Q Consensus 46 ~EIlelA~~~A~~~~~k~I~p~hI~~A 72 (110)
..+=..+-.+|++.|...||++++..|
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 344445566899999999999998754
No 67
>PF13654 AAA_32: AAA domain; PDB: 3K1J_B.
Probab=60.34 E-value=2.8 Score=35.52 Aligned_cols=59 Identities=22% Similarity=0.286 Sum_probs=38.4
Q ss_pred ccchhhhhhhhhcCCCcccccCchhHHHHHHHHHHHHHHHHHHHHHHHhhcCCceeccccccccccC
Q psy9662 9 NFPVGRIHRHLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRG 75 (110)
Q Consensus 9 ~fPV~ri~r~Lk~~~~~~~Rvs~~A~vyLaavLEyl~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~n 75 (110)
.|.-+-+.++++-+ .|.+.+ .|+..+..+ .++|..|..+|+..+.+.|+.+||+.|++.
T Consensus 447 ~~~~~Av~~li~~~----~R~~q~---kLsl~~~~l-~~ll~EA~~~A~~~~~~~I~~~~V~~Ai~~ 505 (509)
T PF13654_consen 447 PFDRSAVARLIEYS----ARLDQD---KLSLRFSWL-ADLLREANYWARKEGAKVITAEHVEQAIEE 505 (509)
T ss_dssp -BBHHHHHHHHHHH----HHCC-S---EEE--HHHH-HHHHHHHHHHHHHCT-SSB-HHHHHHHHHH
T ss_pred CCCHHHHHHHHHHH----HHHhCC---EeCCCHHHH-HHHHHHHHHHHHHhCCCccCHHHHHHHHHc
Confidence 56666666666642 244333 344444444 789999999999999999999999999853
No 68
>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=58.93 E-value=6.6 Score=25.95 Aligned_cols=35 Identities=29% Similarity=0.373 Sum_probs=26.5
Q ss_pred hhhhhhhhcCCCcc--cccCchhHHHHHHHHHHHHHH
Q psy9662 13 GRIHRHLKNRTTSH--GRVGATAAVYSAAILEYLTAE 47 (110)
Q Consensus 13 ~ri~r~Lk~~~~~~--~Rvs~~A~vyLaavLEyl~~E 47 (110)
.++.|+|-..|... .|-..+-|.||.+||+|++.+
T Consensus 22 e~l~rFLa~TG~~p~~LR~~a~dp~FL~~VLdFl~~d 58 (88)
T PF12096_consen 22 ERLPRFLALTGLSPDDLRAAAGDPAFLAAVLDFLLMD 58 (88)
T ss_pred HHHHHHHHHhCCCHHHHHHHccChHHHHHHHHHHHcc
Confidence 45677777766332 477788999999999999864
No 69
>PF13335 Mg_chelatase_2: Magnesium chelatase, subunit ChlI
Probab=54.31 E-value=6.9 Score=25.75 Aligned_cols=48 Identities=21% Similarity=0.178 Sum_probs=39.2
Q ss_pred cccCchhHHHHHHHHHHH------HHHHHHHHHHHHhhcCCceecccccccccc
Q psy9662 27 GRVGATAAVYSAAILEYL------TAEVLELAGNASKDLKVKRITPRHLQLAIR 74 (110)
Q Consensus 27 ~Rvs~~A~vyLaavLEyl------~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~ 74 (110)
..+++.+-.+|..+++-+ ..-||.+|-..|.-.+...|++.||..|+.
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 366777777777777765 457899999999999999999999998863
No 70
>KOG4336|consensus
Probab=52.55 E-value=16 Score=29.49 Aligned_cols=68 Identities=13% Similarity=0.063 Sum_probs=55.3
Q ss_pred hhhhhhcCCCcccccCchhHHHHHHHHHHHHHHHHHHHHHHHhhcCCceecccccccccc----Cchhhhhhhh
Q psy9662 15 IHRHLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIR----GDEELDSLIK 84 (110)
Q Consensus 15 i~r~Lk~~~~~~~Rvs~~A~vyLaavLEyl~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~----nD~EL~~L~~ 84 (110)
|.-+|++.+. .-++..|-.-|.-.+.-.+.+|.+.+-|++...||.--|+-|+.+... +=.+|...|+
T Consensus 11 V~~Ll~~~gf--d~is~~aletlvell~~yi~eigrq~~n~celagRT~pT~~Dv~l~Li~mnI~v~sL~~~~q 82 (323)
T KOG4336|consen 11 VSNLLKTKGF--DSISNAALETLVELLQSYIREIGRQLHNYCELAGRTIPTQGDVKLTLIEMNIKVSSLYAYFQ 82 (323)
T ss_pred HHHHHHHhCc--hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCcHHHHHHHHHHhCCChhhhHHHHH
Confidence 4557777762 679999999999999999999999999999999999999999987754 2345666663
No 71
>KOG3901|consensus
Probab=46.80 E-value=16 Score=25.00 Aligned_cols=28 Identities=14% Similarity=0.272 Sum_probs=19.5
Q ss_pred HHHHhhc-CCceeccccccccccCchhhh
Q psy9662 53 GNASKDL-KVKRITPRHLQLAIRGDEELD 80 (110)
Q Consensus 53 ~~~A~~~-~~k~I~p~hI~~Ai~nD~EL~ 80 (110)
.+.|+.. ++-++.-+|+..+++.|+-=.
T Consensus 48 t~~a~~~g~rgk~~veD~~f~lRkDpkK~ 76 (109)
T KOG3901|consen 48 THAAMEIGKRGKVKVEDFKFLLRKDPKKL 76 (109)
T ss_pred HHHHHHhcccCceeHHHHHHHHHhChHHH
Confidence 3444443 456788999999999997533
No 72
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=42.42 E-value=21 Score=31.83 Aligned_cols=39 Identities=18% Similarity=0.205 Sum_probs=33.9
Q ss_pred HHHHHHHHHHHHhhcCCceeccccccccccCchhhhhhh
Q psy9662 45 TAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDSLI 83 (110)
Q Consensus 45 ~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~nD~EL~~L~ 83 (110)
+.++++.|.+.|...+...|+|+|+-+++-.+.++..++
T Consensus 6 ~~~~l~~a~~~a~~~~~~~~~~~h~l~~l~~~~~~~~~~ 44 (758)
T PRK11034 6 LELSLNMAFARAREHRHEFMTVEHLLLALLSNPSAREAL 44 (758)
T ss_pred HHHHHHHHHHHHHHcCCCcchHHHHHHHHHcChhHHHHH
Confidence 467888999999999999999999999998887766665
No 73
>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=41.56 E-value=36 Score=26.46 Aligned_cols=46 Identities=20% Similarity=0.273 Sum_probs=32.5
Q ss_pred cCchhHHHHHHHHHH------HHHHHHHHHHHHHhhcCCceecccccccccc
Q psy9662 29 VGATAAVYSAAILEY------LTAEVLELAGNASKDLKVKRITPRHLQLAIR 74 (110)
Q Consensus 29 vs~~A~vyLaavLEy------l~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~ 74 (110)
++.++.-+++...+. .+-.+++.|...|...++..|+++|++.|+.
T Consensus 221 ~~~~~l~~i~~~~~~~~Gd~R~al~~l~~a~~~a~~~~~~~it~~~v~~a~~ 272 (365)
T TIGR02928 221 LDDGVIPLCAALAAQEHGDARKAIDLLRVAGEIAEREGAERVTEDHVEKAQE 272 (365)
T ss_pred CChhHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Confidence 555666666665542 3445777788778777888999999998764
No 74
>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=40.53 E-value=15 Score=21.91 Aligned_cols=22 Identities=45% Similarity=0.777 Sum_probs=16.1
Q ss_pred CchhhhhhhhhhhcCCcccccccc
Q psy9662 75 GDEELDSLIKATIAGGGVIPHIHK 98 (110)
Q Consensus 75 nD~EL~~L~~~~i~~~g~~p~~~~ 98 (110)
.|+||++++... .+||++-|.+
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 689999998532 7788876654
No 75
>COG1067 LonB Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]
Probab=40.26 E-value=18 Score=31.78 Aligned_cols=70 Identities=16% Similarity=0.192 Sum_probs=44.5
Q ss_pred CccchhhhhhhhhcCCCcccccCchhHHHHHHHHHHHHHHHHHHHHHHHhhcCCceeccccccccccCchhhhhhh
Q psy9662 8 PNFPVGRIHRHLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDSLI 83 (110)
Q Consensus 8 l~fPV~ri~r~Lk~~~~~~~Rvs~~A~vyLaavLEyl~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~nD~EL~~L~ 83 (110)
.+|--+-+.+++++... |. +---.|+..+-.| ..++..|+..|...+++.|+++|++.|+++..-....+
T Consensus 337 p~~~~~Av~~li~~a~R---~A--g~~~~Ltl~~rdl-~~lv~~A~~ia~~~~~~~I~ae~Ve~a~~~~~~~e~~l 406 (647)
T COG1067 337 PHLDKDAVEELIREAAR---RA--GDQNKLTLRLRDL-GNLVREAGDIAVSEGRKLITAEDVEEALQKRELREGQL 406 (647)
T ss_pred CCCCHHHHHHHHHHHHH---hc--cccceeccCHHHH-HHHHHHhhHHHhcCCcccCcHHHHHHHHHhhhhHHHHH
Confidence 34444555555554321 11 2222344444454 55677999999999999999999999999965555444
No 76
>PF05236 TAF4: Transcription initiation factor TFIID component TAF4 family; InterPro: IPR007900 Accurate transcription initiation at protein-coding genes by RNA polymerase II requires the assembly of a multiprotein complex around the mRNA start site. Transcription factor TFIID is one of the general factors involved in this process. Yeast TFIID comprises the TATA binding protein and 14 TBP-associated factors (TAFIIs), nine of which contain histone-fold domains (IPR007124 from INTERPRO). The C-terminal region of the TFIID-specific yeast TAF4 (yTAF4) containing the HFD shares strong sequence similarity with Drosophila (d)TAF4 and human TAF4. A structure/function analysis of yTAF4 demonstrates that the HFD, a short conserved C-terminal domain (CCTD), and the region separating them are all required for yTAF4 function. This region of similarity is found in Transcription initiation factor TFIID component TAF4 []. ; GO: 0006352 transcription initiation, DNA-dependent, 0005669 transcription factor TFIID complex; PDB: 1H3O_C.
Probab=39.40 E-value=59 Score=24.87 Aligned_cols=44 Identities=18% Similarity=0.056 Sum_probs=28.9
Q ss_pred hhhhhhhcCCCcccccCchhHHHHHHHHHHHHHHHHHHHHHHHhhc
Q psy9662 14 RIHRHLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDL 59 (110)
Q Consensus 14 ri~r~Lk~~~~~~~Rvs~~A~vyLaavLEyl~~EIlelA~~~A~~~ 59 (110)
+|.++.++.+ ...+..+...+|+.+.|.-+.+|++-+...|+|-
T Consensus 52 ~i~~i~~~~g--~~~~~~d~l~llS~A~e~rLr~lie~~~~~s~hR 95 (264)
T PF05236_consen 52 RIQKIAKKHG--LKSVDEDVLELLSLATEERLRNLIEKAIVLSRHR 95 (264)
T ss_dssp HHHHHHHCTT----EE-TCHHHHHHHHHHHHHHHHHHHHH------
T ss_pred HHHHHHHHcC--CcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 3444555444 2579999999999999999999999999988764
No 77
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=38.45 E-value=42 Score=26.41 Aligned_cols=48 Identities=15% Similarity=0.117 Sum_probs=32.9
Q ss_pred ccCchhHHHHHHHHHHH------HHHHHHHHHHHHhhcCCceeccccccccccC
Q psy9662 28 RVGATAAVYSAAILEYL------TAEVLELAGNASKDLKVKRITPRHLQLAIRG 75 (110)
Q Consensus 28 Rvs~~A~vyLaavLEyl------~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~n 75 (110)
-++.++.-+++...... +-.++..|...|...++..|+++|++.|+..
T Consensus 228 ~~~~~~l~~i~~~~~~~~Gd~r~a~~ll~~a~~~a~~~~~~~I~~~~v~~a~~~ 281 (394)
T PRK00411 228 VVDDEVLDLIADLTAREHGDARVAIDLLRRAGLIAEREGSRKVTEEDVRKAYEK 281 (394)
T ss_pred CCCHhHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHHH
Confidence 35556666665555331 2355677777787778899999999988863
No 78
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=37.18 E-value=24 Score=28.58 Aligned_cols=68 Identities=19% Similarity=0.279 Sum_probs=46.6
Q ss_pred hhhhhhhhcCCC---cccccCchhHHHHHHHHHHH------HHHHHHHHHHHHhhcCCceeccccccccccCchhhhh
Q psy9662 13 GRIHRHLKNRTT---SHGRVGATAAVYSAAILEYL------TAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDS 81 (110)
Q Consensus 13 ~ri~r~Lk~~~~---~~~Rvs~~A~vyLaavLEyl------~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~nD~EL~~ 81 (110)
..++.+|+++.. ....++.++..+.++.-.+- +-+++..|++.|...+...++++|+..| ..+.|...
T Consensus 193 ~el~~Il~~R~~~~~~~~~~~~~vl~lia~~~a~~~GDAR~aidilr~A~eiAe~~~~~~v~~~~v~~a-~~~~~~~~ 269 (366)
T COG1474 193 EELYDILRERVEEGFSAGVIDDDVLKLIAALVAAESGDARKAIDILRRAGEIAEREGSRKVSEDHVREA-QEEIERDV 269 (366)
T ss_pred HHHHHHHHHHHHhhccCCCcCccHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHhhCCCCcCHHHHHHH-HHHhhHHH
Confidence 455556655331 11466767777776554443 4689999999999999999999999999 33344333
No 79
>TIGR01128 holA DNA polymerase III, delta subunit. subunit around DNA forming a DNA sliding clamp.
Probab=36.58 E-value=51 Score=24.75 Aligned_cols=61 Identities=16% Similarity=0.096 Sum_probs=35.9
Q ss_pred hhhhhhcCCCcccccCchhHHHHHHHHHHHHHHHHHHHHHHHhhcCCceeccccccccccCchh
Q psy9662 15 IHRHLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEE 78 (110)
Q Consensus 15 i~r~Lk~~~~~~~Rvs~~A~vyLaavLEyl~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~nD~E 78 (110)
|...+++.+ ..++.++..+|...++.=+..+...--+.+--.+.+.|+.+||+..+..+.+
T Consensus 120 i~~~~~~~g---~~i~~~a~~~l~~~~~~d~~~l~~el~KL~~~~~~~~It~e~I~~~~~~~~~ 180 (302)
T TIGR01128 120 IQARLKKLG---LRIDPDAVQLLAELVEGNLLAIAQELEKLALYAPDGKITLEDVEEAVSDSAR 180 (302)
T ss_pred HHHHHHHcC---CCCCHHHHHHHHHHhCcHHHHHHHHHHHHHhhCCCCCCCHHHHHHHHhhhhc
Confidence 344444433 5899999999988776433333222222222223346999999977765555
No 80
>COG0375 HybF Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]
Probab=36.11 E-value=64 Score=22.28 Aligned_cols=48 Identities=27% Similarity=0.360 Sum_probs=33.6
Q ss_pred HHHHHHHHHHHHHhhcCCceecccccccccc---Cchhhhhhhh----hhhcCCc
Q psy9662 44 LTAEVLELAGNASKDLKVKRITPRHLQLAIR---GDEELDSLIK----ATIAGGG 91 (110)
Q Consensus 44 l~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~---nD~EL~~L~~----~~i~~~g 91 (110)
++..++++..+.|++++-++|+.=.++..-- |-+.|.+-|. .|++.|-
T Consensus 6 la~aii~~i~~~A~~~~a~~V~~V~l~IG~ls~v~~~~l~FaFev~~egT~aega 60 (115)
T COG0375 6 LAQAIIELIEEQAEKHGAKRVTAVWLEIGELSCVEPEALRFAFEVVAEGTIAEGA 60 (115)
T ss_pred HHHHHHHHHHHHHHHcCCceEEEEEEEEcceeccCHHHHHHHHHHHhccCcccCC
Confidence 5678999999999999998888877765443 4444555563 4555553
No 81
>PHA02943 hypothetical protein; Provisional
Probab=35.79 E-value=45 Score=24.46 Aligned_cols=40 Identities=23% Similarity=0.186 Sum_probs=34.4
Q ss_pred HHHHHHHHHHHHhhcCCceeccccccccccCchhhhhhhh
Q psy9662 45 TAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDSLIK 84 (110)
Q Consensus 45 ~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~nD~EL~~L~~ 84 (110)
+.+++..-...-++++.+-|+|.++..-|..|.|-..+|.
T Consensus 76 v~~~~Relwrlv~s~~~kfi~p~~l~~li~kd~~a~~~~a 115 (165)
T PHA02943 76 VFEIKRELWRLVCNSRLKFITPSRLLRLIAKDTEAHNIFA 115 (165)
T ss_pred HHHHHHHHHHHHHhccccccChHHHHHHHHhCHHHHHHHH
Confidence 5666666667777889999999999999999999999994
No 82
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=35.57 E-value=29 Score=30.46 Aligned_cols=39 Identities=21% Similarity=0.250 Sum_probs=32.2
Q ss_pred HHHHHHHHHHHHhhcCCceeccccccccccCchhhhhhh
Q psy9662 45 TAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDSLI 83 (110)
Q Consensus 45 ~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~nD~EL~~L~ 83 (110)
+..+++.|.++|+..+...|+|+|+-+++-.+++...++
T Consensus 5 a~~~L~~A~~~A~~~~h~~V~~EHLLlaLL~~~~~~~iL 43 (731)
T TIGR02639 5 LERILDAALEEAKKRRHEFVTLEHILLALLFDSDAIEIL 43 (731)
T ss_pred HHHHHHHHHHHHHHhCCCcCcHHHHHHHHHcCchHHHHH
Confidence 356788999999999999999999999988776654544
No 83
>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=34.69 E-value=26 Score=30.33 Aligned_cols=30 Identities=20% Similarity=0.205 Sum_probs=24.7
Q ss_pred HHHHHHHHHHHhhcCCceeccccccccccC
Q psy9662 46 AEVLELAGNASKDLKVKRITPRHLQLAIRG 75 (110)
Q Consensus 46 ~EIlelA~~~A~~~~~k~I~p~hI~~Ai~n 75 (110)
..|+..|...|+..++..|+.+|++.|++.
T Consensus 361 ~~llR~A~~iA~~~~~~~I~~ehV~~Ai~~ 390 (608)
T TIGR00764 361 GGLVRAAGDIAKSSGKVYVTAEHVLKAKKL 390 (608)
T ss_pred HHHHHHHHHHHHhcCCceecHHHHHHHHHH
Confidence 467777877888888899999999988663
No 84
>PRK05574 holA DNA polymerase III subunit delta; Reviewed
Probab=33.94 E-value=55 Score=25.06 Aligned_cols=58 Identities=24% Similarity=0.191 Sum_probs=35.5
Q ss_pred hhhhhhhcCCCcccccCchhHHHHHHHHHH----HHHHHHHHHHHHHhhcCCceeccccccccccCchh
Q psy9662 14 RIHRHLKNRTTSHGRVGATAAVYSAAILEY----LTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEE 78 (110)
Q Consensus 14 ri~r~Lk~~~~~~~Rvs~~A~vyLaavLEy----l~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~nD~E 78 (110)
.|...+++.+ ..++.+|..+|...+.. +..|+-.++.- .+...|+.++|+..+..+.+
T Consensus 154 ~i~~~~~~~g---~~i~~~a~~~L~~~~~~d~~~l~~El~KL~l~----~~~~~It~~~I~~~i~~~~~ 215 (340)
T PRK05574 154 WIQQRLKQQG---LQIDAAALQLLAERVEGNLLALAQELEKLALL----YPDGKITLEDVEEAVPDSAR 215 (340)
T ss_pred HHHHHHHHcC---CCCCHHHHHHHHHHhCchHHHHHHHHHHHHhh----cCCCCCCHHHHHHHHhhhhc
Confidence 4555556544 48999999998877653 33333333322 22223999999977765554
No 85
>COG4905 Predicted membrane protein [Function unknown]
Probab=32.97 E-value=47 Score=25.39 Aligned_cols=22 Identities=32% Similarity=0.495 Sum_probs=18.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHHH
Q psy9662 33 AAVYSAAILEYLTAEVLELAGN 54 (110)
Q Consensus 33 A~vyLaavLEyl~~EIlelA~~ 54 (110)
.++++..|+||+++-|||.--|
T Consensus 70 fsi~ivTv~Eyvt~~ILEa~Fn 91 (243)
T COG4905 70 FSIFIVTVLEYVTGFILEAIFN 91 (243)
T ss_pred HHHHHHHHHHHHHHHHHHHHHc
Confidence 4678999999999999998755
No 86
>COG3636 Predicted transcriptional regulator [Transcription]
Probab=30.66 E-value=54 Score=22.17 Aligned_cols=58 Identities=22% Similarity=0.291 Sum_probs=37.1
Q ss_pred chhHHHHHHHHHH-----HHHH--HHHHHHHHHhhcCCceecccccccccc--Cchhhhhhhhhhhc
Q psy9662 31 ATAAVYSAAILEY-----LTAE--VLELAGNASKDLKVKRITPRHLQLAIR--GDEELDSLIKATIA 88 (110)
Q Consensus 31 ~~A~vyLaavLEy-----l~~E--IlelA~~~A~~~~~k~I~p~hI~~Ai~--nD~EL~~L~~~~i~ 88 (110)
+.+.+||.++||- +++- ++..+...+.-.++..++-+|+-.+.+ .|+.|+.++++.-+
T Consensus 21 e~ia~yL~~~le~~d~a~i~~alg~var~~GMsqvA~~aGlsRe~LYkaLS~~GNPtf~Til~V~kA 87 (100)
T COG3636 21 EAIAAYLNAALEEGDPALIAAALGVVARSRGMSQVARKAGLSREGLYKALSPGGNPTFDTILAVLKA 87 (100)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCHHHHHHHhCccHHHHHHHhCCCCCCcHHHHHHHHHH
Confidence 4778899999974 3322 223333444444556788899998887 56788888765433
No 87
>CHL00095 clpC Clp protease ATP binding subunit
Probab=29.99 E-value=32 Score=30.66 Aligned_cols=33 Identities=15% Similarity=0.303 Sum_probs=28.3
Q ss_pred HHHHHHHHHHHhhcCCceeccccccccccCchh
Q psy9662 46 AEVLELAGNASKDLKVKRITPRHLQLAIRGDEE 78 (110)
Q Consensus 46 ~EIlelA~~~A~~~~~k~I~p~hI~~Ai~nD~E 78 (110)
.++++.|...|+..+...|+|+|+-+++-.+++
T Consensus 10 ~~vL~~A~~~A~~~~h~~V~~EHLLLaLL~~~~ 42 (821)
T CHL00095 10 IKVIMLSQEEARRLGHNFVGTEQILLGLIGEGT 42 (821)
T ss_pred HHHHHHHHHHHHHhCCCcCcHHHHHHHHHhCCC
Confidence 567788999999999999999999999876543
No 88
>cd08045 TAF4 TATA Binding Protein (TBP) Associated Factor 4 (TAF4) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex. The TATA Binding Protein (TBP) Associated Factor 4 (TAF4) is one of several TAFs that bind TBP and are involved in forming the Transcription Factor IID (TFIID) complex. TFIID is one of seven General Transcription Factors (GTF) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryote. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. TFIID complex is composed of the TBP and at least 13 TAFs. TAFs from various species were originally named by their predicted molecular weight or their electrophoretic mobility in polyacrylamide gels. A new, unified nomenclature for the pol II TAFs has been suggested to show the relationship between TAF orthologs and paralogs. Several hypotheses are
Probab=29.71 E-value=1.6e+02 Score=21.76 Aligned_cols=44 Identities=18% Similarity=0.084 Sum_probs=35.4
Q ss_pred hhhhhhhcCCCcccccCchhHHHHHHHHHHHHHHHHHHHHHHHhhc
Q psy9662 14 RIHRHLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDL 59 (110)
Q Consensus 14 ri~r~Lk~~~~~~~Rvs~~A~vyLaavLEyl~~EIlelA~~~A~~~ 59 (110)
++.+++++.+. .-++.+...+|+.++|.-+..|++-+...+.+-
T Consensus 53 ~~~~i~~~~g~--~~~~~d~~~lis~a~e~rlr~li~k~~~~s~hR 96 (212)
T cd08045 53 KIRKIAKKHGL--KEVDEDVLDLISLALEERLRNLLEKLIEVSEHR 96 (212)
T ss_pred HHHHHHHHcCC--CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 44555665552 378999999999999999999999999988764
No 89
>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=29.02 E-value=1.2e+02 Score=21.54 Aligned_cols=25 Identities=24% Similarity=0.344 Sum_probs=21.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhh
Q psy9662 34 AVYSAAILEYLTAEVLELAGNASKD 58 (110)
Q Consensus 34 ~vyLaavLEyl~~EIlelA~~~A~~ 58 (110)
.+++++.+-++++++++.-.+.-++
T Consensus 5 ~~l~~a~~a~~~AQ~iK~~~~~~~~ 29 (141)
T PF02681_consen 5 KVLIAALIAWFIAQFIKVFINYLKE 29 (141)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 5788999999999999999887654
No 90
>PF09453 HIRA_B: HIRA B motif; InterPro: IPR019015 The HirA B (Histone regulatory homologue A binding) motif is the essential binding interface between IPR011494 from INTERPRO and ASF1a, of approx. 40 residues. It forms an antiparallel beta-hairpin that binds perpendicular to the strands of the beta-sandwich of ASF1a N-terminal core domain, via beta-sheet, salt bridge and van der Waals interactions []. The two histone chaperone proteins, HIRA and ASF1a, form a heterodimer with histones H3 and H4. HIRA is the human orthologue of Hir proteins known to silence histone gene expression and create transcriptionally silent heterochromatin in yeast, flies, plants and humans. The HIR complex is composed of HIR1, HIR2, HIR3 and HPC2, and interacts with ASF1. The HIR complex cooperates with ASF1 to promote replication-independent chromatin assembly. The HIR complex is also required for the periodic repression of three of the four histone gene loci during cell cycle as well as for autogenous regulation of the HTA1-HTB1 locus by H2A and H2B. DNA-binding by the HIR complex may repress transcription by inhibiting nucleosome remodeling by the SWI/SNF complex. The HIR complex may also be required for transcriptional silencing of centromeric, telomeric and mating-type loci in the absence of CAF-1. ; GO: 0003682 chromatin binding, 0006355 regulation of transcription, DNA-dependent, 0016568 chromatin modification, 0005634 nucleus; PDB: 2I32_E.
Probab=28.94 E-value=26 Score=17.72 Aligned_cols=13 Identities=31% Similarity=0.378 Sum_probs=7.0
Q ss_pred hcCCceecccccc
Q psy9662 58 DLKVKRITPRHLQ 70 (110)
Q Consensus 58 ~~~~k~I~p~hI~ 70 (110)
.+|++||+|--|.
T Consensus 8 k~GKkRi~P~lis 20 (24)
T PF09453_consen 8 KDGKKRIAPTLIS 20 (24)
T ss_dssp TTS-EEEE-EE--
T ss_pred cCCceEeccEEee
Confidence 4689999986553
No 91
>KOG0787|consensus
Probab=28.62 E-value=38 Score=28.23 Aligned_cols=63 Identities=25% Similarity=0.305 Sum_probs=40.6
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHhhc-CCceeccccccccccCchhhhhhhhhhhcCCccccc
Q psy9662 32 TAAVYSAAILEYLTAEVLELAGNASKDL-KVKRITPRHLQLAIRGDEELDSLIKATIAGGGVIPH 95 (110)
Q Consensus 32 ~A~vyLaavLEyl~~EIlelA~~~A~~~-~~k~I~p~hI~~Ai~nD~EL~~L~~~~i~~~g~~p~ 95 (110)
...||+-.-|+|+..||+.-|..+..+. +...-.+.+|...|-+..| +-++++.=.+|||.+.
T Consensus 252 ~~~vyvPshL~ymlfElfKNamrATve~h~~~~~~~ppI~V~V~~gde-Dl~ikISDrGGGV~~~ 315 (414)
T KOG0787|consen 252 SFTVYVPSHLYYMLFELFKNAMRATVEHHGDDGDELPPIKVTVAKGDE-DLLIKISDRGGGVPHR 315 (414)
T ss_pred cCccccchHHHHHHHHHHHHHHHHHHHHhccCCCCCCCeEEEEecCCc-ceEEEEecCCCCcChh
Confidence 3447888999999999999999866553 3343337778876664444 3344522235666543
No 92
>KOG1658|consensus
Probab=28.05 E-value=74 Score=23.27 Aligned_cols=72 Identities=18% Similarity=0.242 Sum_probs=49.0
Q ss_pred CCCccchhhhhhhhhcCCCcccccCchhHHHHHHHHHHHHHHHHHHHHHHHhhcCCceeccccccccccCchhhhhhh
Q psy9662 6 QQPNFPVGRIHRHLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDSLI 83 (110)
Q Consensus 6 agl~fPV~ri~r~Lk~~~~~~~Rvs~~A~vyLaavLEyl~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~nD~EL~~L~ 83 (110)
+...||+++++++-+..--+ .--+..|-+-.+...|.|+--+..+++ ..-.|..-..|+..++.|++|..+.
T Consensus 8 ~~p~~p~ekvkkiak~dPey-~~te~~a~~etafatE~fvq~lv~~p~-----a~l~rLpL~rik~vvkl~pdl~l~~ 79 (162)
T KOG1658|consen 8 CSPKLPMEKVKKIAKNDPEY-MDTEDDAFVETAFATEQFVQVLVHLPQ-----ASLSRLPLARIKQVVKLDPDLTLLN 79 (162)
T ss_pred hCccccHHHHHHhhcCCchh-hhcccchHHHHHHHHHHHHhhhhhhhh-----hhhhhccHHHHHhhccCCcchhhhh
Confidence 45669999999998876521 233445666788888888777777554 2344556667777777777776665
No 93
>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=27.99 E-value=36 Score=30.50 Aligned_cols=33 Identities=27% Similarity=0.316 Sum_probs=28.7
Q ss_pred HHHHHHHHHHHHhhcCCceeccccccccccCch
Q psy9662 45 TAEVLELAGNASKDLKVKRITPRHLQLAIRGDE 77 (110)
Q Consensus 45 ~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~nD~ 77 (110)
+..+++.|...|+..+...|+|+|+-+++-.++
T Consensus 5 a~~vL~~A~~~A~~~~h~~V~~EHLLlaLl~~~ 37 (852)
T TIGR03346 5 FQEALQAAQSLALGRDHQQIEPEHLLKALLDQE 37 (852)
T ss_pred HHHHHHHHHHHHHHcCCCcccHHHHHHHHHhCC
Confidence 456788999999999999999999999987665
No 94
>PF04823 Herpes_UL49_2: Herpesvirus UL49 tegument protein; InterPro: IPR006908 This is a family of herpesvirus UL49 tegument proteins. It was shown that interactions between herpesvirus envelope and tegument proteins may play a role in secondary envelopment during herpesvirus virion maturation.
Probab=27.88 E-value=28 Score=23.40 Aligned_cols=11 Identities=55% Similarity=0.894 Sum_probs=9.6
Q ss_pred cCchhhhhhhh
Q psy9662 74 RGDEELDSLIK 84 (110)
Q Consensus 74 ~nD~EL~~L~~ 84 (110)
++|+||+.|++
T Consensus 67 rtneeLd~lL~ 77 (96)
T PF04823_consen 67 RTNEELDRLLE 77 (96)
T ss_pred CChHHHHHHHH
Confidence 58999999994
No 95
>PF08539 HbrB: HbrB-like; InterPro: IPR013745 HbrB is involved in hyphal growth and polarity [].
Probab=27.58 E-value=84 Score=22.60 Aligned_cols=83 Identities=11% Similarity=0.167 Sum_probs=48.4
Q ss_pred cCCCccchhhhhhhhhcCCCcccccCchhHH-HHHHHHHHHHHHHHHHHHHHHhhcCCceeccccccccccCchhhhhhh
Q psy9662 5 EQQPNFPVGRIHRHLKNRTTSHGRVGATAAV-YSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDSLI 83 (110)
Q Consensus 5 ragl~fPV~ri~r~Lk~~~~~~~Rvs~~A~v-yLaavLEyl~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~nD~EL~~L~ 83 (110)
..++..|+.-+-++++.- -...+++..+. ++...-|.|..-...+.... .....|.-|..|.
T Consensus 22 g~~l~~~iEdlN~lv~~~--i~~~~~~~~~~~~~~dl~elL~tg~~~L~~~l---------------~~~~~~~~l~rL~ 84 (158)
T PF08539_consen 22 GERLRLPIEDLNELVRFH--IKLCIQSFPPSYFLEDLEELLTTGMYILENQL---------------NEVPDNRLLKRLV 84 (158)
T ss_pred CCCCCcCHHHHHHHHHHH--HHHhhcccchHHHHHHHHHHHHHHHHHHHHHH---------------hhcchhHHHHHHH
Confidence 456778888877776541 12344444333 33344444444444444333 1223445566666
Q ss_pred h-hhhcCCcccccccccccCCc
Q psy9662 84 K-ATIAGGGVIPHIHKSLIGKK 104 (110)
Q Consensus 84 ~-~~i~~~g~~p~~~~~~~~~k 104 (110)
. |.+.-+.|+|.+....+|-.
T Consensus 85 eiW~~Ff~~VlP~lqavFlPLq 106 (158)
T PF08539_consen 85 EIWQFFFTQVLPYLQAVFLPLQ 106 (158)
T ss_pred HHHHHHhcchHHHHHHHHhhhH
Confidence 5 78888999999988888865
No 96
>smart00350 MCM minichromosome maintenance proteins.
Probab=26.91 E-value=79 Score=26.52 Aligned_cols=66 Identities=12% Similarity=0.083 Sum_probs=42.3
Q ss_pred ccchhhhhhhhhcCCC-cccccCchhHHHHHHHHHHHH-------------------HHHHHHHHHHHhhcCCceecccc
Q psy9662 9 NFPVGRIHRHLKNRTT-SHGRVGATAAVYSAAILEYLT-------------------AEVLELAGNASKDLKVKRITPRH 68 (110)
Q Consensus 9 ~fPV~ri~r~Lk~~~~-~~~Rvs~~A~vyLaavLEyl~-------------------~EIlelA~~~A~~~~~k~I~p~h 68 (110)
.++...+.+++.-.+. ...+++.++.-||...-..+= ..++.+|-..|+-.++..++++|
T Consensus 417 ~~~~~~l~~yi~~ar~~~~P~ls~~~~~~i~~~y~~~R~~~~~~~~~~~~~~t~R~l~sliRla~A~A~l~~r~~V~~~D 496 (509)
T smart00350 417 PISQEFLRKYIAYAREKIKPKLSEEAAEKLVKAYVDLRKEDSQSEARSSIPITVRQLESIIRLSEAHAKMRLSDVVEEAD 496 (509)
T ss_pred cCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHhcccccccccccccCcCHHHHHHHHHHHHHHHHHcCCCccCHHH
Confidence 4666667776655432 124677777777755433322 34566777777778888888888
Q ss_pred cccccc
Q psy9662 69 LQLAIR 74 (110)
Q Consensus 69 I~~Ai~ 74 (110)
+..|++
T Consensus 497 v~~ai~ 502 (509)
T smart00350 497 VEEAIR 502 (509)
T ss_pred HHHHHH
Confidence 887763
No 97
>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=26.45 E-value=1.4e+02 Score=22.68 Aligned_cols=42 Identities=14% Similarity=0.075 Sum_probs=34.3
Q ss_pred hhhhhhhhcCCCcccccCchhHHHHHHHHHHHHHHHHHHHHHHH
Q psy9662 13 GRIHRHLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNAS 56 (110)
Q Consensus 13 ~ri~r~Lk~~~~~~~Rvs~~A~vyLaavLEyl~~EIlelA~~~A 56 (110)
.|+..+..+.|- .=|+.+++.+|...||+++.+||+-+...+
T Consensus 210 ~Rm~~ia~e~GL--~gvs~~~a~ll~~ale~~LK~lI~s~l~~~ 251 (252)
T PF12767_consen 210 KRMEQIAWEHGL--GGVSDDCANLLNLALEVHLKNLIKSCLDLV 251 (252)
T ss_pred HHHHHHHHHcCC--CCCCHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 566677776663 479999999999999999999999887643
No 98
>PF09077 Phage-MuB_C: Mu B transposition protein, C terminal ; InterPro: IPR009084 Bacteriophage Mu can integrate into the host bacterial genome and replicate via transposition. Mu requires the activity of four proteins for DNA transposition. Two of these proteins are the phage-encoded A and B transposition proteins, while the other two are host-specified accessory factors HU and IHF. These four proteins can form nucleoprotein complexes (transposomes), which enable strand transfer. The stable protein-DNA intermediate is subsequently disassembled prior to DNA replication by host proteins. The Mu B transposition protein is an ATP-dependent, DNA-binding protein required for target capture and immunity, as well as for activating transpososome function []. The C-terminal domain of the B transposition protein is believed to be involved in both DNA-binding and protein-protein contacts with the Mu A transposition protein. The structure of the C-terminal domain consists of four helices in an irregular array [].; GO: 0003677 DNA binding, 0006313 transposition, DNA-mediated; PDB: 1F6V_A.
Probab=26.01 E-value=19 Score=23.23 Aligned_cols=28 Identities=29% Similarity=0.308 Sum_probs=19.5
Q ss_pred HHHHHHHHHHHhhcCCceecccccccccc
Q psy9662 46 AEVLELAGNASKDLKVKRITPRHLQLAIR 74 (110)
Q Consensus 46 ~EIlelA~~~A~~~~~k~I~p~hI~~Ai~ 74 (110)
...|.+|...|..++.. |+.+||+.|.+
T Consensus 49 ~ktLrlA~m~A~g~g~~-i~~~~i~~A~~ 76 (78)
T PF09077_consen 49 TKTLRLAAMFAKGEGEA-ITADHIRAAWK 76 (78)
T ss_dssp HHHHGGGT-TT-TTS---SSHHHHHHHHT
T ss_pred HHHHHHHHHHhccCCCc-CCHHHHHHHHH
Confidence 56778888888877766 99999998764
No 99
>PF04157 EAP30: EAP30/Vps36 family; InterPro: IPR007286 EAP30 is a subunit of the ELL complex. The ELL is an 80kDa RNA polymerase II transcription factor. ELL interacts with three other proteins to form the complex known as ELL complex. The ELL complex is capable of increasing that catalytic rate of transcription elongation, but is unable to repress initiation of transcription by RNA polymerase II as is the case of ELL. EAP30 is thought to lead to the derepression of ELL's transcriptional inhibitory activity. ; PDB: 2ZME_A 3CUQ_A 1W7P_D 1U5T_B.
Probab=25.72 E-value=1.4e+02 Score=22.09 Aligned_cols=59 Identities=24% Similarity=0.184 Sum_probs=38.8
Q ss_pred cccCchhHHHHHHHHHHHHHHHHHHHHHHHhhcCCceeccccccccccCchhhhhhhhhhhcCCcccccc
Q psy9662 27 GRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDSLIKATIAGGGVIPHI 96 (110)
Q Consensus 27 ~Rvs~~A~vyLaavLEyl~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~nD~EL~~L~~~~i~~~g~~p~~ 96 (110)
....+.+-.-|.+.++.+ .++.+++-+.+...+. .+.+|+++..-|...+.+-||.|..
T Consensus 18 ~~~~~~a~~dl~~L~~qa-~~~~~~l~~fa~k~~~----------~i~~~~~~r~~f~~~~~~lGvdp~~ 76 (223)
T PF04157_consen 18 ELGMQLAFQDLEALMSQA-KDFVELLENFARKHKS----------EIKSDPEFRSQFQSMCASLGVDPLA 76 (223)
T ss_dssp ---TCCCHHHHHHHHHHH-HHHHHHHHHHHHHHCC----------CCCCSHHHHHHHHHHHHHHT--CHC
T ss_pred HHhHHHHHHHHHHHHHHH-HHHHHHHHHHHHHhhc----------cccCCchHHHHHHHHHHHcCCCccc
Confidence 444456666776666554 7788888887765433 4678999888898888888998843
No 100
>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=25.56 E-value=41 Score=30.35 Aligned_cols=32 Identities=19% Similarity=0.150 Sum_probs=27.8
Q ss_pred HHHHHHHHHHHHhhcCCceeccccccccccCc
Q psy9662 45 TAEVLELAGNASKDLKVKRITPRHLQLAIRGD 76 (110)
Q Consensus 45 ~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~nD 76 (110)
+.++++.|...|...+...|+|+|+-+|+-.+
T Consensus 5 a~~~L~~A~~~A~~~~h~~I~~eHLLlaLL~~ 36 (852)
T TIGR03345 5 SRRALEQAAALCVARGHPEVELEHWLLALLDQ 36 (852)
T ss_pred HHHHHHHHHHHHHHhCCCcccHHHHHHHHHhc
Confidence 45778899999999999999999999988654
No 101
>PRK05629 hypothetical protein; Validated
Probab=24.70 E-value=1e+02 Score=23.90 Aligned_cols=62 Identities=18% Similarity=0.143 Sum_probs=39.8
Q ss_pred hhhhhhhhcCCCcccccCchhHHHHHHHHH----HHHHHHHHHHHHHHhhcCCceeccccccccccCchhhhhhh
Q psy9662 13 GRIHRHLKNRTTSHGRVGATAAVYSAAILE----YLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDSLI 83 (110)
Q Consensus 13 ~ri~r~Lk~~~~~~~Rvs~~A~vyLaavLE----yl~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~nD~EL~~L~ 83 (110)
..|...+++.+ ..++.+|..||...++ .+-.|+=.++. .. ..+||.+||+..+....|. .+|
T Consensus 133 ~wi~~~~~~~g---~~i~~~A~~~L~~~~g~dl~~l~~EleKL~~----~~-~~~It~e~V~~~v~~~~~~-~iF 198 (318)
T PRK05629 133 GWVTQEFKNHG---VRPTPDVVHALLEGVGSDLRELASAISQLVE----DT-QGNVTVEKVRAYYVGVAEV-SGF 198 (318)
T ss_pred HHHHHHHHHcC---CCCCHHHHHHHHHHHCccHHHHHHHHHHHHh----cC-CCCcCHHHHHHHhCCCccc-hHH
Confidence 34555666554 5899999988887654 34444444432 12 3469999999887766653 444
No 102
>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=23.27 E-value=77 Score=25.59 Aligned_cols=44 Identities=27% Similarity=0.177 Sum_probs=34.6
Q ss_pred HHHHHHHHHHHHHHHHHhhcCCceeccccccccccCchhhhhhhh
Q psy9662 40 ILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDSLIK 84 (110)
Q Consensus 40 vLEyl~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~nD~EL~~L~~ 84 (110)
.++|+..|+-++.-...+..|++ |+++.++.||+.-.+...+++
T Consensus 136 ~~~Y~~~el~~l~~~LE~~~G~~-it~e~L~~aI~~~N~~R~~~~ 179 (380)
T TIGR02263 136 GGEFYTAELNELCEGLEHLSGKK-ITDDAIRASIAVFNDNRKLIQ 179 (380)
T ss_pred HHHHHHHHHHHHHHHHHHHHCCC-CCHHHHHHHHHHHHHHHHHHH
Confidence 38888888888887776666554 899999999987777777763
No 103
>PRK07452 DNA polymerase III subunit delta; Validated
Probab=23.03 E-value=1.2e+02 Score=23.40 Aligned_cols=65 Identities=9% Similarity=0.070 Sum_probs=37.7
Q ss_pred hhhhhhcCCCcccccCchhHHHHHHHHHHHHHHHHHHHHHHHhh--cCCceeccccccccccCchhhhhhhh
Q psy9662 15 IHRHLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKD--LKVKRITPRHLQLAIRGDEELDSLIK 84 (110)
Q Consensus 15 i~r~Lk~~~~~~~Rvs~~A~vyLaavLEyl~~EIlelA~~~A~~--~~~k~I~p~hI~~Ai~nD~EL~~L~~ 84 (110)
|...+++.+ ..++.+|..+|...+..=...+.-.--+.+-- .+..+|+++||+..+... + ...|.
T Consensus 139 i~~~~~~~g---~~i~~~a~~~L~~~~g~dl~~l~~EleKL~ly~~~~~~~It~~~V~~~v~~~-~-~~if~ 205 (326)
T PRK07452 139 VERTAQELG---VKLTPEAAELLAEAVGNDSRRLYNELEKLALYAENSTKPISAEEVKALVSNT-T-QNSLQ 205 (326)
T ss_pred HHHHHHHcC---CCCCHHHHHHHHHHhCccHHHHHHHHHHHHHhccCCCCccCHHHHHHHhccC-c-CcHHH
Confidence 444444443 58999999999887664322222222222222 236689999999887654 4 34543
No 104
>KOG1051|consensus
Probab=22.23 E-value=54 Score=30.08 Aligned_cols=37 Identities=19% Similarity=0.298 Sum_probs=30.7
Q ss_pred HHHHHHHHHHHHhhcCCceeccccccccccCchhhhhhh
Q psy9662 45 TAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDSLI 83 (110)
Q Consensus 45 ~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~nD~EL~~L~ 83 (110)
++.+|..|..+|+..|+.-+||.|+-.|+=.++ ..++
T Consensus 16 Aa~~L~~a~~~Arrrgh~qvtplH~~~~LLs~~--t~~l 52 (898)
T KOG1051|consen 16 AATVLKQAVTEARRRGHAQVTPLHVASTLLSSP--TGIL 52 (898)
T ss_pred HHHHHHHHHHHHHHcCCCCcchHHHHHHHHcCC--chHH
Confidence 456889999999999999999999998876665 3444
No 105
>cd00390 Urease_gamma Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of external and internally-generated urea as a nitrogen source. The enzyme consists of three subunits, alpha, beta and gamma, which can exist as separate proteins or can be fused on a single protein chain. The alpha-beta-gamma heterotrimer forms multimers, mainly trimers. The large alpha subunit is the catalytic domain containing an active site with a bi-nickel center complexed by a carbamylated lysine. The beta and gamma subunits play a role in subunit association to form the higher order trimers.
Probab=21.79 E-value=68 Score=21.53 Aligned_cols=49 Identities=20% Similarity=0.234 Sum_probs=32.1
Q ss_pred HHHHHHHHHHHHHHH-----HHhhcCCceeccccccccccCchhhhhhhh--hhhcCCc
Q psy9662 40 ILEYLTAEVLELAGN-----ASKDLKVKRITPRHLQLAIRGDEELDSLIK--ATIAGGG 91 (110)
Q Consensus 40 vLEyl~~EIlelA~~-----~A~~~~~k~I~p~hI~~Ai~nD~EL~~L~~--~~i~~~g 91 (110)
++-|++.+++|.|-+ ...+.+++-++.+|+.-.| +|+-..++ .||+.|-
T Consensus 32 AvAlIs~~v~E~aRdG~svaelm~~g~~~L~~d~Vm~GV---~emi~~vqVEatFpDGT 87 (96)
T cd00390 32 AVALIADEILEGARDGKSVAELMSLGKTVLTRDDVMEGV---PEMLHDVQVEATFPDGT 87 (96)
T ss_pred HHHHHHHHHHHHhhcCCCHHHHHHHHhhhCCHHhcccCH---HHhhcceeEEEEeCCCC
Confidence 455778888888733 4456788888888888666 34433333 4676664
No 106
>cd07910 MiaE MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain. MiaE is a nonheme diiron monooxygenase that catalyzes the posttranscriptional allylic hydroxylation of a modified nucleoside in tRNA called 2-methylthio-N-6-isopentenyl adenosine (ms2i6A). ms2i6A is found at position 37, next to the anticodon at the 3' position in almost all eukaryotic and bacterial tRNA's that read codons beginning with uridine. The miaE gene is absent in Escherichia coli, a finding consistent with the absence of the hydroxylated derivative of ms2i6A in this species.
Probab=21.64 E-value=1.9e+02 Score=21.47 Aligned_cols=65 Identities=18% Similarity=0.224 Sum_probs=46.1
Q ss_pred hhhhhhhcCCCcccccCchhHHHHHHHH--------HHHHHHHHHHHHHHHhhcCCceeccccccccccCchhhhhhhhh
Q psy9662 14 RIHRHLKNRTTSHGRVGATAAVYSAAIL--------EYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDSLIKA 85 (110)
Q Consensus 14 ri~r~Lk~~~~~~~Rvs~~A~vyLaavL--------Eyl~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~nD~EL~~L~~~ 85 (110)
+|..+|+++|....+++ ++.|..... ++|++-+|--|.=+|+.+-|-..-..|+ .|+||..++..
T Consensus 67 qV~~im~~Rgi~l~~~~--~~~Ya~~L~k~vR~~~p~~llD~Llv~alIEARScERF~lLa~~l-----~D~eL~~FY~~ 139 (180)
T cd07910 67 QVLKIMKKRGIPLGPDS--KDPYASGLRKLVRKGEPERLLDRLLVAALIEARSCERFALLAPAL-----PDPELKKFYRG 139 (180)
T ss_pred HHHHHHHHcCCCCCCCC--CCHHHHHHHHHcccCChHHHHHHHHHHHHHHHHhHHHHHHHhccC-----CCHHHHHHHHH
Confidence 67889998874223443 444666655 7888999999988998877755555555 68999888753
No 107
>PRK06585 holA DNA polymerase III subunit delta; Reviewed
Probab=21.31 E-value=1.1e+02 Score=23.71 Aligned_cols=59 Identities=19% Similarity=0.112 Sum_probs=39.3
Q ss_pred hhhhhhhcCCCcccccCchhHHHHHHHHHH----HHHHHHHHHHHHHhhcCCceeccccccccccCchh
Q psy9662 14 RIHRHLKNRTTSHGRVGATAAVYSAAILEY----LTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEE 78 (110)
Q Consensus 14 ri~r~Lk~~~~~~~Rvs~~A~vyLaavLEy----l~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~nD~E 78 (110)
.|...+++.+ .+|+.+|..+|...++. +..|+-.++.- + .+..+||.+||+..+....|
T Consensus 150 ~i~~~~~~~g---~~i~~~a~~~L~~~~g~dl~~l~~EleKL~ly-~--~~~~~It~edV~~lv~~~~e 212 (343)
T PRK06585 150 LIDDELAEAG---LRITPDARALLVALLGGDRLASRNEIEKLALY-A--HGKGEITLDDVRAVVGDASA 212 (343)
T ss_pred HHHHHHHHCC---CCCCHHHHHHHHHHhCCCHHHHHHHHHHHHHh-c--CCCCCCCHHHHHHHhCCccc
Confidence 3555555544 58999999999888775 33444444432 2 23457999999988776655
No 108
>PRK10865 protein disaggregation chaperone; Provisional
Probab=21.30 E-value=61 Score=29.23 Aligned_cols=33 Identities=24% Similarity=0.142 Sum_probs=28.5
Q ss_pred HHHHHHHHHHHHhhcCCceeccccccccccCch
Q psy9662 45 TAEVLELAGNASKDLKVKRITPRHLQLAIRGDE 77 (110)
Q Consensus 45 ~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~nD~ 77 (110)
+.++++.|...|...+...|+|+|+-+++-+++
T Consensus 10 ~~~~l~~a~~~a~~~~~~~~~~~hll~~l~~~~ 42 (857)
T PRK10865 10 FQLALADAQSLALGHDNQFIEPLHLMSALLNQE 42 (857)
T ss_pred HHHHHHHHHHHHHHcCCCcccHHHHHHHHHhCC
Confidence 456778899999999999999999999997765
No 109
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=20.80 E-value=60 Score=28.52 Aligned_cols=33 Identities=24% Similarity=0.151 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHHhhcCCceeccccccccccCch
Q psy9662 45 TAEVLELAGNASKDLKVKRITPRHLQLAIRGDE 77 (110)
Q Consensus 45 ~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~nD~ 77 (110)
+.++|+.|...|...+...|.++|+-+|+-.|.
T Consensus 82 lk~vL~~A~~~A~~~g~~~I~teHLLLALl~~~ 114 (731)
T TIGR02639 82 VQRVLQRALLHVKSAGKKEIGIGDILVALFDEE 114 (731)
T ss_pred HHHHHHHHHHHHHHcCCCccCHHHHHHHHhcCc
Confidence 367888999999999999999999999987653
No 110
>PF00979 Reovirus_cap: Reovirus outer capsid protein, Sigma 3; InterPro: IPR000153 Reoviruses are double-stranded RNA viruses that lack a membrane envelope. Their capsid is organised in two concentric icosahedral layers: an inner core and an outer capsid layer. The outer capsid is made up of the major proteins mu1 and sigma3, and the minor protein sigma1. The inner core structure is composed of the major core proteins lambda1 and sigma2, core spike protein lambda2, and minor core proteins lambda3 and mu2. The inner core encases the 10 segments of double-stranded RNA (dsRNA) which comprise the genome [].; GO: 0005198 structural molecule activity, 0019058 viral infectious cycle; PDB: 1FN9_A 1JMU_I.
Probab=20.73 E-value=68 Score=26.44 Aligned_cols=46 Identities=15% Similarity=0.147 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhcCCceecc-------ccccccccCchhhhh
Q psy9662 36 YSAAILEYLTAEVLELAGNASKDLKVKRITP-------RHLQLAIRGDEELDS 81 (110)
Q Consensus 36 yLaavLEyl~~EIlelA~~~A~~~~~k~I~p-------~hI~~Ai~nD~EL~~ 81 (110)
--++.|..++..+.+.....++..+..++.| +-+..-+.-|+|+|.
T Consensus 102 ~yav~L~~~~d~v~~a~~~~~~~~~~~~v~~~~~~~~tEs~~~D~~idpdfWt 154 (367)
T PF00979_consen 102 QYAVWLHEIADHVDEADQREVDEPGGSRVAPNDIVVRTESIRSDVAIDPDFWT 154 (367)
T ss_dssp HHHHHHHHHHCTS-HHHHHHHHHC-EEEEE--GGGSSTTSTTT-TT-----TT
T ss_pred HHHHHHHHHHhhcChhhcccccccccccccccceeeccccccccccccccccc
Confidence 4567788888999999999999999999998 666667777777775
No 111
>PRK07914 hypothetical protein; Reviewed
Probab=20.40 E-value=1.1e+02 Score=23.70 Aligned_cols=57 Identities=11% Similarity=0.123 Sum_probs=36.0
Q ss_pred hhhhhhhcCCCcccccCchhHHHHHHHHH----HHHHHHHHHHHHHHhhcCCceeccccccccccCchh
Q psy9662 14 RIHRHLKNRTTSHGRVGATAAVYSAAILE----YLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEE 78 (110)
Q Consensus 14 ri~r~Lk~~~~~~~Rvs~~A~vyLaavLE----yl~~EIlelA~~~A~~~~~k~I~p~hI~~Ai~nD~E 78 (110)
.|...+++.+ ..++.+|..+|...++ .+..|+-.++ -..+ ..|+.++|+..+....|
T Consensus 136 wi~~~a~~~g---~~i~~~A~~~L~~~~g~dl~~l~~EleKL~----~~~~-~~It~e~V~~~v~~~~~ 196 (320)
T PRK07914 136 FVRKEFRSLR---VKVDDDTVTALLDAVGSDLRELASACSQLV----ADTG-GAVDAAAVRRYHSGKAE 196 (320)
T ss_pred HHHHHHHHcC---CCCCHHHHHHHHHHHCccHHHHHHHHHHHh----cCCC-CCcCHHHHHHHcCCCee
Confidence 3444555443 4799999988887663 3333333332 1223 56999999988887666
No 112
>PRK13241 ureA urease subunit gamma; Provisional
Probab=20.01 E-value=84 Score=21.27 Aligned_cols=51 Identities=16% Similarity=0.165 Sum_probs=33.3
Q ss_pred HHHHHHHHHHHHHHHH-----HHhhcCCceeccccccccccCchhhhhhhh--hhhcCCcc
Q psy9662 39 AILEYLTAEVLELAGN-----ASKDLKVKRITPRHLQLAIRGDEELDSLIK--ATIAGGGV 92 (110)
Q Consensus 39 avLEyl~~EIlelA~~-----~A~~~~~k~I~p~hI~~Ai~nD~EL~~L~~--~~i~~~g~ 92 (110)
-++-|++.+|+|.|-. ...+.+++-++.+|+.-.| +|+-..++ .||+.|--
T Consensus 34 EAvAlI~~~v~E~aRdG~svaelm~~g~~~L~~ddVm~GV---~emi~~vqVEatFpDGTk 91 (100)
T PRK13241 34 EAVALISDALLEGARDGKTVAELMSYGRTVLTRDDVMEGV---PEMIPDVQVEATFPDGTK 91 (100)
T ss_pred HHHHHHHHHHHHHhhCCCCHHHHHHHhhhhCCHHhcccCH---HHhhcceeEEEEcCCCCE
Confidence 3456788889988733 4456688888888888665 33333333 57776643
Done!