Query 028498
Match_columns 208
No_of_seqs 210 out of 1671
Neff 6.2
Searched_HMMs 46136
Date Fri Mar 29 12:26:57 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028498.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/028498hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 CHL00095 clpC Clp protease ATP 99.5 2.6E-14 5.6E-19 141.7 10.8 111 81-193 1-111 (821)
2 TIGR03346 chaperone_ClpB ATP-d 99.5 5.6E-14 1.2E-18 139.9 10.7 109 85-193 1-109 (852)
3 PRK10865 protein disaggregatio 99.4 4.3E-13 9.3E-18 133.7 10.9 112 82-193 3-114 (857)
4 TIGR02639 ClpA ATP-dependent C 99.4 7.9E-13 1.7E-17 129.8 10.5 111 85-197 1-116 (731)
5 TIGR03345 VI_ClpV1 type VI sec 99.4 1.2E-12 2.6E-17 130.5 10.6 106 85-192 1-107 (852)
6 COG0542 clpA ATP-binding subun 99.3 7.5E-12 1.6E-16 122.7 9.7 108 84-196 1-111 (786)
7 PF02861 Clp_N: Clp amino term 99.3 1.2E-11 2.5E-16 81.8 6.3 53 96-148 1-53 (53)
8 KOG1051 Chaperone HSP104 and r 99.2 6.9E-11 1.5E-15 117.4 8.4 119 82-200 9-131 (898)
9 PRK11034 clpA ATP-dependent Cl 99.1 1.9E-10 4.1E-15 113.5 10.1 106 85-192 2-110 (758)
10 CHL00095 clpC Clp protease ATP 98.1 1.3E-05 2.8E-10 80.2 8.9 66 84-149 79-144 (821)
11 TIGR02639 ClpA ATP-dependent C 98.0 2.6E-05 5.6E-10 77.1 9.6 89 52-144 48-137 (731)
12 TIGR03346 chaperone_ClpB ATP-d 97.9 6.5E-05 1.4E-09 75.5 9.5 90 51-146 49-138 (852)
13 COG0542 clpA ATP-binding subun 97.5 0.00053 1.2E-08 68.2 9.3 91 50-148 47-137 (786)
14 TIGR03345 VI_ClpV1 type VI sec 97.4 0.001 2.2E-08 67.2 9.7 89 51-146 49-141 (852)
15 PRK10865 protein disaggregatio 97.1 0.0028 6.1E-08 64.0 9.6 91 50-146 53-143 (857)
16 PRK11034 clpA ATP-dependent Cl 96.9 0.0029 6.2E-08 63.2 8.1 91 51-144 48-139 (758)
17 KOG1051 Chaperone HSP104 and r 94.2 0.11 2.4E-06 52.9 6.4 84 61-149 71-154 (898)
18 PLN00154 histone H2A; Provisio 84.6 1.1 2.3E-05 35.9 3.2 44 82-130 70-113 (136)
19 cd00074 H2A Histone 2A; H2A is 83.8 1.5 3.3E-05 34.0 3.7 41 89-131 55-95 (115)
20 PTZ00017 histone H2A; Provisio 82.4 1.4 3.1E-05 35.1 3.1 46 81-131 57-102 (134)
21 KOG1756 Histone 2A [Chromatin 81.8 1.7 3.7E-05 34.4 3.3 41 89-131 62-102 (131)
22 PLN00157 histone H2A; Provisio 81.5 1.6 3.5E-05 34.7 3.1 45 82-131 57-101 (132)
23 PLN00153 histone H2A; Provisio 79.9 2 4.3E-05 34.1 3.1 45 82-131 55-99 (129)
24 PLN00156 histone H2AX; Provisi 79.8 2.3 4.9E-05 34.2 3.4 45 82-131 60-104 (139)
25 smart00414 H2A Histone 2A. 79.0 2.4 5.3E-05 32.4 3.2 45 82-131 40-84 (106)
26 PTZ00252 histone H2A; Provisio 72.8 3.9 8.4E-05 32.7 3.0 45 82-131 56-102 (134)
27 PF08369 PCP_red: Proto-chloro 55.7 20 0.00044 23.0 3.4 27 90-116 18-44 (45)
28 COG5262 HTA1 Histone H2A [Chro 54.8 16 0.00034 28.7 3.2 40 89-130 61-100 (132)
29 PF00125 Histone: Core histone 53.7 20 0.00044 24.6 3.5 31 87-117 42-72 (75)
30 PLN00035 histone H4; Provision 47.8 38 0.00083 25.8 4.4 67 55-121 17-95 (103)
31 PF00808 CBFD_NFYB_HMF: Histon 46.0 39 0.00085 22.7 3.9 28 90-117 38-65 (65)
32 PF09415 CENP-X: CENP-S associ 44.0 34 0.00075 24.2 3.4 30 86-115 33-63 (72)
33 PRK02866 cyanate hydratase; Va 43.5 1.4E+02 0.003 24.2 7.2 101 97-206 22-135 (147)
34 PF01978 TrmB: Sugar-specific 41.7 45 0.00097 22.4 3.6 40 112-151 12-51 (68)
35 cd00076 H4 Histone H4, one of 39.5 67 0.0014 23.6 4.4 38 84-121 42-79 (85)
36 PF02269 TFIID-18kDa: Transcri 35.4 22 0.00047 26.3 1.3 39 84-122 31-69 (93)
37 smart00803 TAF TATA box bindin 34.6 99 0.0021 21.3 4.5 35 83-117 30-64 (65)
38 PF09862 DUF2089: Protein of u 33.0 1.9E+02 0.0041 22.4 6.2 57 114-173 42-98 (113)
39 TIGR00673 cynS cyanate hydrata 32.3 2.7E+02 0.0058 22.7 7.2 100 98-206 26-138 (150)
40 PF02662 FlpD: Methyl-viologen 31.5 78 0.0017 24.5 3.9 17 107-123 39-55 (124)
41 KOG1659 Class 2 transcription 30.6 1.3E+02 0.0027 26.1 5.2 34 89-122 48-81 (224)
42 PF13335 Mg_chelatase_2: Magne 30.5 1E+02 0.0022 22.7 4.3 31 87-117 63-93 (96)
43 KOG1757 Histone 2A [Chromatin 29.8 16 0.00035 28.4 -0.2 33 89-121 66-98 (131)
44 COG5247 BUR6 Class 2 transcrip 29.2 71 0.0015 24.5 3.2 34 89-122 58-91 (113)
45 TIGR02337 HpaR homoprotocatech 29.0 2.4E+02 0.0052 20.8 9.7 71 110-180 30-106 (118)
46 COG0703 AroK Shikimate kinase 28.8 3.1E+02 0.0067 22.7 7.2 74 95-171 18-93 (172)
47 cd07981 TAF12 TATA Binding Pro 28.6 1.3E+02 0.0028 20.9 4.3 35 86-120 33-67 (72)
48 TIGR02928 orc1/cdc6 family rep 28.3 4.1E+02 0.009 23.3 9.1 61 87-147 241-301 (365)
49 PF13412 HTH_24: Winged helix- 26.7 1.6E+02 0.0035 18.1 4.7 39 112-150 7-45 (48)
50 PRK10265 chaperone-modulator p 26.5 80 0.0017 23.5 3.1 63 125-189 10-72 (101)
51 cd07979 TAF9 TATA Binding Prot 26.3 1.3E+02 0.0028 23.1 4.3 39 82-120 28-66 (117)
52 PF12802 MarR_2: MarR family; 25.3 1.9E+02 0.0041 18.5 4.5 40 111-150 8-49 (62)
53 PRK00411 cdc6 cell division co 25.1 4.9E+02 0.011 23.2 9.3 58 88-145 250-307 (394)
54 smart00417 H4 Histone H4. 24.7 80 0.0017 22.6 2.7 59 57-115 3-73 (74)
55 KOG0871 Class 2 transcription 24.4 87 0.0019 25.5 3.1 27 94-120 53-79 (156)
56 PTZ00015 histone H4; Provision 23.2 1.1E+02 0.0025 23.2 3.4 51 70-120 41-95 (102)
57 smart00550 Zalpha Z-DNA-bindin 23.1 2.5E+02 0.0054 19.1 5.0 40 112-151 10-51 (68)
58 PF04405 ScdA_N: Domain of Unk 22.8 1.4E+02 0.0029 20.1 3.4 22 124-145 33-54 (56)
59 PF05402 PqqD: Coenzyme PQQ sy 22.3 2.4E+02 0.0052 18.6 5.3 39 110-148 18-59 (68)
60 COG1474 CDC6 Cdc6-related prot 21.8 2.9E+02 0.0063 25.4 6.4 53 87-139 232-284 (366)
61 COG2747 FlgM Negative regulato 21.7 1.6E+02 0.0035 22.0 3.9 32 89-120 58-89 (93)
No 1
>CHL00095 clpC Clp protease ATP binding subunit
Probab=99.54 E-value=2.6e-14 Score=141.74 Aligned_cols=111 Identities=27% Similarity=0.409 Sum_probs=100.5
Q ss_pred cchhhcHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHhhcCCchHHHHHHHcCCCHHHHHHHHHHHhcCCCCCCCCCCCC
Q 028498 81 KIPKWSARAIRSFAMAELEARKLKYPNTGTEAFLMGILVEGTSTTAKFLRANGITLFKVREETLNLLGKSDLFFFSPERP 160 (208)
Q Consensus 81 m~~~fT~~a~~aL~~A~~~A~~~g~~~I~tEHLLlALL~e~~s~a~~iL~~~GVd~~~lr~~le~~l~k~~~~~~~~~~~ 160 (208)
|+++||++++++|..|+++|++++|.+|++||||+||+.++++.+.++|+.+|+|++.++..++..+++.+.. ....+
T Consensus 1 m~~rfT~~a~~vL~~A~~~A~~~~h~~V~~EHLLLaLL~~~~~~a~~iL~~~gid~~~l~~~l~~~l~~~~~~--~~~~~ 78 (821)
T CHL00095 1 MFERFTEKAIKVIMLSQEEARRLGHNFVGTEQILLGLIGEGTGIAARALKSMGVTLKDARIEVEKIIGRGTGF--VAVEI 78 (821)
T ss_pred ChhhHhHHHHHHHHHHHHHHHHhCCCcCcHHHHHHHHHhCCCchHHHHHHHcCCCHHHHHHHHHHHHhcCCCC--Ccccc
Confidence 7889999999999999999999999999999999999999889999999999999999999999988765431 12468
Q ss_pred CCCHHHHHHHHHHHHHHHHcCCceEeEEeeeee
Q 028498 161 PLTEQAQRALDWAFNEKLKSVFSVILIFSKFFE 193 (208)
Q Consensus 161 ~~S~~lkrVLe~A~~~A~~~Gd~~Isi~~~~f~ 193 (208)
++|+.++++|+.|+.+|..+|+++|+..|+|+.
T Consensus 79 ~~S~~~~~vL~~A~~~A~~~~~~~I~~eHLLlA 111 (821)
T CHL00095 79 PFTPRAKRVLEMSLEEARDLGHNYIGTEHLLLA 111 (821)
T ss_pred ccCHHHHHHHHHHHHHHHHhCCCcccHHHHHHH
Confidence 899999999999999999999999998776643
No 2
>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=99.51 E-value=5.6e-14 Score=139.91 Aligned_cols=109 Identities=15% Similarity=0.063 Sum_probs=98.0
Q ss_pred hcHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHhhcCCchHHHHHHHcCCCHHHHHHHHHHHhcCCCCCCCCCCCCCCCH
Q 028498 85 WSARAIRSFAMAELEARKLKYPNTGTEAFLMGILVEGTSTTAKFLRANGITLFKVREETLNLLGKSDLFFFSPERPPLTE 164 (208)
Q Consensus 85 fT~~a~~aL~~A~~~A~~~g~~~I~tEHLLlALL~e~~s~a~~iL~~~GVd~~~lr~~le~~l~k~~~~~~~~~~~~~S~ 164 (208)
||+.++++|..|+++|++++|.+|++||||+||+.++++.+.++|+++|+|++.+++.++..+++.+...+.+.++++|+
T Consensus 1 fT~~a~~vL~~A~~~A~~~~h~~V~~EHLLlaLl~~~~g~a~~iL~~~Gvd~~~l~~~l~~~l~~~~~~~~~~~~~~~S~ 80 (852)
T TIGR03346 1 FTEKFQEALQAAQSLALGRDHQQIEPEHLLKALLDQEGGLARRLLQKAGVNVGALRQALEKELEKLPKVSGPGGQVYLSP 80 (852)
T ss_pred CCHHHHHHHHHHHHHHHHcCCCcccHHHHHHHHHhCCccHHHHHHHHcCCCHHHHHHHHHHHhcccccCCCCCCCCCcCH
Confidence 78999999999999999999999999999999999988899999999999999999999999987654322124688999
Q ss_pred HHHHHHHHHHHHHHHcCCceEeEEeeeee
Q 028498 165 QAQRALDWAFNEKLKSVFSVILIFSKFFE 193 (208)
Q Consensus 165 ~lkrVLe~A~~~A~~~Gd~~Isi~~~~f~ 193 (208)
.++++|+.|+.+|..+|+++|++.|+|+.
T Consensus 81 ~~~~vLe~A~~~A~~~g~~~I~teHLLlA 109 (852)
T TIGR03346 81 ELNRLLNLAEKLAQKRGDEFISSEHLLLA 109 (852)
T ss_pred HHHHHHHHHHHHHHHcCCCcccHHHHHHH
Confidence 99999999999999999999998877643
No 3
>PRK10865 protein disaggregation chaperone; Provisional
Probab=99.44 E-value=4.3e-13 Score=133.71 Aligned_cols=112 Identities=12% Similarity=0.000 Sum_probs=100.5
Q ss_pred chhhcHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHhhcCCchHHHHHHHcCCCHHHHHHHHHHHhcCCCCCCCCCCCCC
Q 028498 82 IPKWSARAIRSFAMAELEARKLKYPNTGTEAFLMGILVEGTSTTAKFLRANGITLFKVREETLNLLGKSDLFFFSPERPP 161 (208)
Q Consensus 82 ~~~fT~~a~~aL~~A~~~A~~~g~~~I~tEHLLlALL~e~~s~a~~iL~~~GVd~~~lr~~le~~l~k~~~~~~~~~~~~ 161 (208)
+++||+.++++|..|+.+|++++|.+|++||||+||+.++++.+..+|+.+|+|.+.+++.++..+++.+...+...+++
T Consensus 3 ~~~~~~~~~~~l~~a~~~a~~~~~~~~~~~hll~~l~~~~~~~~~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~ 82 (857)
T PRK10865 3 LDRLTNKFQLALADAQSLALGHDNQFIEPLHLMSALLNQEGGSVRPLLTSAGINAGQLRTDINQALSRLPQVEGTGGDVQ 82 (857)
T ss_pred hHHhCHHHHHHHHHHHHHHHHcCCCcccHHHHHHHHHhCCccHHHHHHHHcCCCHHHHHHHHHHHHhhCCCCCCCCCCCC
Confidence 67899999999999999999999999999999999999988889999999999999999999999887664222124688
Q ss_pred CCHHHHHHHHHHHHHHHHcCCceEeEEeeeee
Q 028498 162 LTEQAQRALDWAFNEKLKSVFSVILIFSKFFE 193 (208)
Q Consensus 162 ~S~~lkrVLe~A~~~A~~~Gd~~Isi~~~~f~ 193 (208)
+|+.++++|+.|+.+|..+|+.+|++.|+++.
T Consensus 83 ~~~~~~~~l~~a~~~~~~~~~~~i~~~~ll~~ 114 (857)
T PRK10865 83 PSQDLVRVLNLCDKLAQKRGDNFISSELFVLA 114 (857)
T ss_pred cCHHHHHHHHHHHHHHHHcCCCcccHHHHHHH
Confidence 99999999999999999999999998777654
No 4
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=99.41 E-value=7.9e-13 Score=129.75 Aligned_cols=111 Identities=20% Similarity=0.144 Sum_probs=94.4
Q ss_pred hcHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHhhcCCchHHHHHHHcCCCHHHHHHHHHHHhc-CCCCCCC-CCCCCCC
Q 028498 85 WSARAIRSFAMAELEARKLKYPNTGTEAFLMGILVEGTSTTAKFLRANGITLFKVREETLNLLG-KSDLFFF-SPERPPL 162 (208)
Q Consensus 85 fT~~a~~aL~~A~~~A~~~g~~~I~tEHLLlALL~e~~s~a~~iL~~~GVd~~~lr~~le~~l~-k~~~~~~-~~~~~~~ 162 (208)
||++++++|..|+++|++++|.+|++||||+||+++++ +.++|+.+|+|++.+++.++..++ +.+...+ .+.++++
T Consensus 1 ~~~~a~~~L~~A~~~A~~~~h~~V~~EHLLlaLL~~~~--~~~iL~~~gid~~~l~~~l~~~l~~~~p~~~~~~~~~~~~ 78 (731)
T TIGR02639 1 ISEELERILDAALEEAKKRRHEFVTLEHILLALLFDSD--AIEILEECGGDVEALRKDLEDYLENNLPSITEENEADPEQ 78 (731)
T ss_pred CCHHHHHHHHHHHHHHHHhCCCcCcHHHHHHHHHcCch--HHHHHHHcCCCHHHHHHHHHHHHhhcCCCCCCCCCCCCCc
Confidence 58899999999999999999999999999999999865 668999999999999999999887 3333211 1245889
Q ss_pred CHHHHHHHHHHHHHHHHcCCceEeEEeee---eecCCC
Q 028498 163 TEQAQRALDWAFNEKLKSVFSVILIFSKF---FESKSP 197 (208)
Q Consensus 163 S~~lkrVLe~A~~~A~~~Gd~~Isi~~~~---f~~~~~ 197 (208)
|+.++++|+.|+.+|..+|+++|++.|+| +..+|+
T Consensus 79 S~~lk~vL~~A~~~A~~~g~~~I~teHLLLALl~~~~~ 116 (731)
T TIGR02639 79 TVGVQRVLQRALLHVKSAGKKEIGIGDILVALFDEEDS 116 (731)
T ss_pred CHHHHHHHHHHHHHHHHcCCCccCHHHHHHHHhcCccc
Confidence 99999999999999999999999987755 444444
No 5
>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=99.40 E-value=1.2e-12 Score=130.51 Aligned_cols=106 Identities=18% Similarity=0.138 Sum_probs=93.8
Q ss_pred hcHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHhhcCCchHHHHHHHcCCCHHHHHHHHHHHhcCCCCCCCCCCCCCCCH
Q 028498 85 WSARAIRSFAMAELEARKLKYPNTGTEAFLMGILVEGTSTTAKFLRANGITLFKVREETLNLLGKSDLFFFSPERPPLTE 164 (208)
Q Consensus 85 fT~~a~~aL~~A~~~A~~~g~~~I~tEHLLlALL~e~~s~a~~iL~~~GVd~~~lr~~le~~l~k~~~~~~~~~~~~~S~ 164 (208)
+|++++++|..|+++|++++|.+|++||||+||+.++++.+..+|+.+|+|++.+++.++..+.+.+.. ....+++|+
T Consensus 1 Lt~~a~~~L~~A~~~A~~~~h~~I~~eHLLlaLL~~~~~~~~~iL~~~Gvd~~~Lr~~le~~l~~~p~~--~~~~~~~S~ 78 (852)
T TIGR03345 1 LNPTSRRALEQAAALCVARGHPEVELEHWLLALLDQPDSDLAAILRHFGVDLGRLKADLARALDKLPRG--NTRTPVFSP 78 (852)
T ss_pred CCHHHHHHHHHHHHHHHHhCCCcccHHHHHHHHHhccCcHHHHHHHHcCCCHHHHHHHHHHHhccCCCC--CCCCCCcCH
Confidence 588999999999999999999999999999999999888899999999999999999999998876542 124688999
Q ss_pred HHHHHHHHHHH-HHHHcCCceEeEEeeee
Q 028498 165 QAQRALDWAFN-EKLKSVFSVILIFSKFF 192 (208)
Q Consensus 165 ~lkrVLe~A~~-~A~~~Gd~~Isi~~~~f 192 (208)
.++++|+.|+. .+..+|++||++.|+|.
T Consensus 79 ~l~~vL~~A~~~~a~~~g~~~I~teHLLl 107 (852)
T TIGR03345 79 HLVELLQEAWLLASLELGDGRIRSGHLLL 107 (852)
T ss_pred HHHHHHHHHHHHHHHHcCCCcccHHHHHH
Confidence 99999999997 45679999999876553
No 6
>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]
Probab=99.31 E-value=7.5e-12 Score=122.75 Aligned_cols=108 Identities=20% Similarity=0.218 Sum_probs=96.8
Q ss_pred hhcHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHhhcCCchHHHHHHHcCCCHHHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 028498 84 KWSARAIRSFAMAELEARKLKYPNTGTEAFLMGILVEGTSTTAKFLRANGITLFKVREETLNLLGKSDLFFFSPERPPLT 163 (208)
Q Consensus 84 ~fT~~a~~aL~~A~~~A~~~g~~~I~tEHLLlALL~e~~s~a~~iL~~~GVd~~~lr~~le~~l~k~~~~~~~~~~~~~S 163 (208)
+||++++++|..|+++|..++|+++++||||++|+.++++. .++..+|++++.++..++..+.+.+...+ . +.+|
T Consensus 1 ~~~~~~~~~l~~a~~~a~~~~h~~~~~eHll~~ll~~~~~~--~~l~~~~~~~~~l~~~~~~~~~~~~~~~~--~-~~~s 75 (786)
T COG0542 1 KLTERAQKALELAQELARMRRHEYVTPEHLLLALLDQPKGD--ELLNLCGIDLDKLRQELEEFIDKLPKVLG--S-PYLS 75 (786)
T ss_pred CcCHHHHHHHHHHHHHHHHhCCCcccHHHHHHHHHcCCchH--HHHHHcCCCHHHHHHHHHHHHhccCCCCC--C-CCCC
Confidence 48999999999999999999999999999999999998765 89999999999999999999999887643 2 8889
Q ss_pred HHHHHHHHHHHHHHHHcCCceEeEEe---eeeecCC
Q 028498 164 EQAQRALDWAFNEKLKSVFSVILIFS---KFFESKS 196 (208)
Q Consensus 164 ~~lkrVLe~A~~~A~~~Gd~~Isi~~---~~f~~~~ 196 (208)
+.++++++.|+.+|+.+|++||+..+ ++|..++
T Consensus 76 ~~~~~~~~~a~~~a~~~~~~~v~~~~llla~~~~~~ 111 (786)
T COG0542 76 PRLKRVLERAWLLAQSLGDEYVSTEHLLLALLNEPE 111 (786)
T ss_pred HHHHHHHHHHHHHHHhccCccccHHHHHHHHhcccc
Confidence 99999999999999999999999765 4444443
No 7
>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=99.27 E-value=1.2e-11 Score=81.83 Aligned_cols=53 Identities=25% Similarity=0.294 Sum_probs=49.7
Q ss_pred HHHHHHHcCCCCcCHHHHHHHHhhcCCchHHHHHHHcCCCHHHHHHHHHHHhc
Q 028498 96 AELEARKLKYPNTGTEAFLMGILVEGTSTTAKFLRANGITLFKVREETLNLLG 148 (208)
Q Consensus 96 A~~~A~~~g~~~I~tEHLLlALL~e~~s~a~~iL~~~GVd~~~lr~~le~~l~ 148 (208)
|+++|++++|.+|++||||+||++++++.+.++|+++|+|++.+++++++.++
T Consensus 1 A~~~A~~~~~~~i~~eHlL~all~~~~~~~~~il~~~~id~~~l~~~i~~~lg 53 (53)
T PF02861_consen 1 AQELARERGHQYISPEHLLLALLEDPDSIAARILKKLGIDPEQLKAAIEKALG 53 (53)
T ss_dssp HHHHHHHTTBSSE-HHHHHHHHHHHTTSHHHHHHHHTTCHHHHHHHHHHHHHC
T ss_pred CHHHHHHcCCCcccHHHHHHHHHhhhhHHHHHHHHHcCCCHHHHHHHHHHHhC
Confidence 78999999999999999999999999999999999999999999999998764
No 8
>KOG1051 consensus Chaperone HSP104 and related ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones]
Probab=99.16 E-value=6.9e-11 Score=117.39 Aligned_cols=119 Identities=13% Similarity=-0.025 Sum_probs=106.5
Q ss_pred chhhcHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHhhcCCchHHHHHHHcC-CCHHHHHHHHHHHhcCCCCCCCCCCCC
Q 028498 82 IPKWSARAIRSFAMAELEARKLKYPNTGTEAFLMGILVEGTSTTAKFLRANG-ITLFKVREETLNLLGKSDLFFFSPERP 160 (208)
Q Consensus 82 ~~~fT~~a~~aL~~A~~~A~~~g~~~I~tEHLLlALL~e~~s~a~~iL~~~G-Vd~~~lr~~le~~l~k~~~~~~~~~~~ 160 (208)
...||++|..+|..|+.+|+++||.+++|+|++.+||.++++++.+++.+.+ ++...+..-+...+.+.|...+++...
T Consensus 9 ~q~lT~~Aa~~L~~a~~~Arrrgh~qvtplH~~~~LLs~~t~~lr~ac~~~~~l~~ralelc~~v~l~rlpt~~~p~~sn 88 (898)
T KOG1051|consen 9 QQTLTEEAATVLKQAVTEARRRGHAQVTPLHVASTLLSSPTGILRRACIKSHPLQCRALELCFNVSLNRLPTSYGPPVSN 88 (898)
T ss_pred HhhhCHHHHHHHHHHHHHHHHcCCCCcchHHHHHHHHcCCchHHHHHHHhcCcccHHHHHHHHHHHHHhccCCCCCccch
Confidence 5679999999999999999999999999999999999999999999999999 999999999999999998876545567
Q ss_pred CCCHHHHHHHHHHHHHHHHcCCceEeEE---eeeeecCCCCCC
Q 028498 161 PLTEQAQRALDWAFNEKLKSVFSVILIF---SKFFESKSPSAS 200 (208)
Q Consensus 161 ~~S~~lkrVLe~A~~~A~~~Gd~~Isi~---~~~f~~~~~~~~ 200 (208)
.++..+++++..+......++++||.+. +.++..|||+.+
T Consensus 89 ~l~aalkr~qa~qrr~~~~~~~~~vkvE~~~li~silDdp~vs 131 (898)
T KOG1051|consen 89 ALMAALKRAQAHQRRGCEEQQQQAVKVELEQLILSILDDPSVS 131 (898)
T ss_pred HhHHHHHHHHHHHHhcchhhccchhhHhHHhhheeeecCchHH
Confidence 7888888888888888888999999974 557899998865
No 9
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=99.14 E-value=1.9e-10 Score=113.51 Aligned_cols=106 Identities=19% Similarity=0.121 Sum_probs=90.7
Q ss_pred hcHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHhhcCCchHHHHHHHcCCCHHHHHHHHHHHhcC-CCCCCC--CCCCCC
Q 028498 85 WSARAIRSFAMAELEARKLKYPNTGTEAFLMGILVEGTSTTAKFLRANGITLFKVREETLNLLGK-SDLFFF--SPERPP 161 (208)
Q Consensus 85 fT~~a~~aL~~A~~~A~~~g~~~I~tEHLLlALL~e~~s~a~~iL~~~GVd~~~lr~~le~~l~k-~~~~~~--~~~~~~ 161 (208)
+|+.++++|..|+.+|++++|.+|++||||++|+.+++ +..+|+.+|+|.+.+++.++..+.. .+...+ ...+++
T Consensus 2 ~~~~~~~~l~~a~~~a~~~~~~~~~~~h~l~~l~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 79 (758)
T PRK11034 2 LNQELELSLNMAFARAREHRHEFMTVEHLLLALLSNPS--AREALEACSVDLVALRQELEAFIEQTTPVLPASEEERDTQ 79 (758)
T ss_pred cCHHHHHHHHHHHHHHHHcCCCcchHHHHHHHHHcChh--HHHHHHHcCCCHHHHHHHHHHHHhhcCCcCCCCCCcCCcC
Confidence 78999999999999999999999999999999998754 8899999999999999999998863 221111 113477
Q ss_pred CCHHHHHHHHHHHHHHHHcCCceEeEEeeee
Q 028498 162 LTEQAQRALDWAFNEKLKSVFSVILIFSKFF 192 (208)
Q Consensus 162 ~S~~lkrVLe~A~~~A~~~Gd~~Isi~~~~f 192 (208)
++.+++++|+.|+.+|+.+|+++|++.|+++
T Consensus 80 ~~~~~~~~l~~a~~~~~~~~~~~i~~~~ll~ 110 (758)
T PRK11034 80 PTLSFQRVLQRAVFHVQSSGRSEVTGANVLV 110 (758)
T ss_pred CCHHHHHHHHHHHHHHHHcCCCcccHHHHHH
Confidence 8999999999999999999999999876653
No 10
>CHL00095 clpC Clp protease ATP binding subunit
Probab=98.08 E-value=1.3e-05 Score=80.17 Aligned_cols=66 Identities=38% Similarity=0.551 Sum_probs=61.7
Q ss_pred hhcHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHhhcCCchHHHHHHHcCCCHHHHHHHHHHHhcC
Q 028498 84 KWSARAIRSFAMAELEARKLKYPNTGTEAFLMGILVEGTSTTAKFLRANGITLFKVREETLNLLGK 149 (208)
Q Consensus 84 ~fT~~a~~aL~~A~~~A~~~g~~~I~tEHLLlALL~e~~s~a~~iL~~~GVd~~~lr~~le~~l~k 149 (208)
.||+.++++|..|..+|..++|.+|+++|||+||+.++++.+..+|+.+|++.+.++..+...++.
T Consensus 79 ~~S~~~~~vL~~A~~~A~~~~~~~I~~eHLLlALL~~~ds~a~~iL~~~gvd~~~L~~~l~~~l~~ 144 (821)
T CHL00095 79 PFTPRAKRVLEMSLEEARDLGHNYIGTEHLLLALLEEGEGVAARVLENLGVDLSKIRSLILNLIGE 144 (821)
T ss_pred ccCHHHHHHHHHHHHHHHHhCCCcccHHHHHHHHHhCCCchHHHHHHHcCCCHHHHHHHHHHHhcc
Confidence 589999999999999999999999999999999999988888999999999999999999877654
No 11
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=98.02 E-value=2.6e-05 Score=77.07 Aligned_cols=89 Identities=19% Similarity=0.214 Sum_probs=69.3
Q ss_pred hhhhccchhHHHHHh-cCCccCCCCCCCCCcchhhcHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHhhcCCchHHHHHH
Q 028498 52 VTKYHRSSATATVSF-SLPTTVKPETASPDKIPKWSARAIRSFAMAELEARKLKYPNTGTEAFLMGILVEGTSTTAKFLR 130 (208)
Q Consensus 52 ~~~~~~~~~~~t~i~-~~p~~~~p~~~~~~m~~~fT~~a~~aL~~A~~~A~~~g~~~I~tEHLLlALL~e~~s~a~~iL~ 130 (208)
++....+..+...+. ++|+...+ ..+. ..||+.++++|+.|..+|..+|+.+|+++|||+||+.++++.+..+|.
T Consensus 48 id~~~l~~~l~~~l~~~~p~~~~~--~~~~--~~~S~~lk~vL~~A~~~A~~~g~~~I~teHLLLALl~~~~~~a~~lL~ 123 (731)
T TIGR02639 48 GDVEALRKDLEDYLENNLPSITEE--NEAD--PEQTVGVQRVLQRALLHVKSAGKKEIGIGDILVALFDEEDSHASYFLK 123 (731)
T ss_pred CCHHHHHHHHHHHHhhcCCCCCCC--CCCC--CCcCHHHHHHHHHHHHHHHHcCCCccCHHHHHHHHhcCcccHHHHHHH
Confidence 344455566566554 56643221 0111 258999999999999999999999999999999999998888888999
Q ss_pred HcCCCHHHHHHHHH
Q 028498 131 ANGITLFKVREETL 144 (208)
Q Consensus 131 ~~GVd~~~lr~~le 144 (208)
..|++.+.+.+.+.
T Consensus 124 ~~gi~~~~l~~~l~ 137 (731)
T TIGR02639 124 SQGITRLDILEYIS 137 (731)
T ss_pred HcCCCHHHHHHHHH
Confidence 99999999988875
No 12
>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=97.87 E-value=6.5e-05 Score=75.52 Aligned_cols=90 Identities=20% Similarity=0.119 Sum_probs=70.9
Q ss_pred chhhhccchhHHHHHhcCCccCCCCCCCCCcchhhcHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHhhcCCchHHHHHH
Q 028498 51 FVTKYHRSSATATVSFSLPTTVKPETASPDKIPKWSARAIRSFAMAELEARKLKYPNTGTEAFLMGILVEGTSTTAKFLR 130 (208)
Q Consensus 51 ~~~~~~~~~~~~t~i~~~p~~~~p~~~~~~m~~~fT~~a~~aL~~A~~~A~~~g~~~I~tEHLLlALL~e~~s~a~~iL~ 130 (208)
-++....+..+...+.+.|+..++. +.+ .||+.++++|+.|..+|..+|+.+|+++|||+||+.++++ +..+|.
T Consensus 49 Gvd~~~l~~~l~~~l~~~~~~~~~~---~~~--~~S~~~~~vLe~A~~~A~~~g~~~I~teHLLlALl~e~~~-a~~iL~ 122 (852)
T TIGR03346 49 GVNVGALRQALEKELEKLPKVSGPG---GQV--YLSPELNRLLNLAEKLAQKRGDEFISSEHLLLALLDDKGT-LGKLLK 122 (852)
T ss_pred CCCHHHHHHHHHHHhcccccCCCCC---CCC--CcCHHHHHHHHHHHHHHHHcCCCcccHHHHHHHHHcCCcc-HHHHHH
Confidence 3455566667666666666533221 112 5899999999999999999999999999999999998765 578999
Q ss_pred HcCCCHHHHHHHHHHH
Q 028498 131 ANGITLFKVREETLNL 146 (208)
Q Consensus 131 ~~GVd~~~lr~~le~~ 146 (208)
.+|++.+.+++.+...
T Consensus 123 ~~gi~~~~l~~~l~~~ 138 (852)
T TIGR03346 123 EAGATADALEAAINAV 138 (852)
T ss_pred HcCCCHHHHHHHHHhh
Confidence 9999999998888653
No 13
>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]
Probab=97.49 E-value=0.00053 Score=68.22 Aligned_cols=91 Identities=26% Similarity=0.204 Sum_probs=77.6
Q ss_pred cchhhhccchhHHHHHhcCCccCCCCCCCCCcchhhcHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHhhcCCchHHHHH
Q 028498 50 RFVTKYHRSSATATVSFSLPTTVKPETASPDKIPKWSARAIRSFAMAELEARKLKYPNTGTEAFLMGILVEGTSTTAKFL 129 (208)
Q Consensus 50 ~~~~~~~~~~~~~t~i~~~p~~~~p~~~~~~m~~~fT~~a~~aL~~A~~~A~~~g~~~I~tEHLLlALL~e~~s~a~~iL 129 (208)
+-++-...+..+...+.+.|++... ..+|+.+.++++.|..+|...++.+|+++|||+|++.++++.+..+|
T Consensus 47 ~~~~~~~l~~~~~~~~~~~~~~~~~--------~~~s~~~~~~~~~a~~~a~~~~~~~v~~~~llla~~~~~~~~~~~~l 118 (786)
T COG0542 47 CGIDLDKLRQELEEFIDKLPKVLGS--------PYLSPRLKRVLERAWLLAQSLGDEYVSTEHLLLALLNEPESVAAYIL 118 (786)
T ss_pred cCCCHHHHHHHHHHHHhccCCCCCC--------CCCCHHHHHHHHHHHHHHHhccCccccHHHHHHHHhcccchHHHHHH
Confidence 3445677788888889999975543 25799999999999999999999999999999999999999999999
Q ss_pred HHcCCCHHHHHHHHHHHhc
Q 028498 130 RANGITLFKVREETLNLLG 148 (208)
Q Consensus 130 ~~~GVd~~~lr~~le~~l~ 148 (208)
...|++...+.+.+..+.+
T Consensus 119 ~~~~~~~~~~~~~~~~~~~ 137 (786)
T COG0542 119 KKLGVTRKDVEELIEELRG 137 (786)
T ss_pred HhccCCHHHHHHHHHHHhc
Confidence 9999999988666666554
No 14
>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=97.36 E-value=0.001 Score=67.15 Aligned_cols=89 Identities=17% Similarity=0.084 Sum_probs=67.4
Q ss_pred chhhhccchhHHHHHhcCCccCCCCCCCCCcchhhcHHHHHHHHHHHH-HHHHcCCCCcCHHHHHHHHhhcCCc--hHHH
Q 028498 51 FVTKYHRSSATATVSFSLPTTVKPETASPDKIPKWSARAIRSFAMAEL-EARKLKYPNTGTEAFLMGILVEGTS--TTAK 127 (208)
Q Consensus 51 ~~~~~~~~~~~~t~i~~~p~~~~p~~~~~~m~~~fT~~a~~aL~~A~~-~A~~~g~~~I~tEHLLlALL~e~~s--~a~~ 127 (208)
-++-...+..+...+.+.|+ .++. . ..+|+.++++|+.|.. .+..+|+.+|+++|||+||+.+++. .+..
T Consensus 49 Gvd~~~Lr~~le~~l~~~p~-~~~~----~--~~~S~~l~~vL~~A~~~~a~~~g~~~I~teHLLlALl~e~~~~~~~~~ 121 (852)
T TIGR03345 49 GVDLGRLKADLARALDKLPR-GNTR----T--PVFSPHLVELLQEAWLLASLELGDGRIRSGHLLLALLTDPELRRLLGS 121 (852)
T ss_pred CCCHHHHHHHHHHHhccCCC-CCCC----C--CCcCHHHHHHHHHHHHHHHHHcCCCcccHHHHHHHHHccccchhHHHH
Confidence 34555667777777777775 2111 1 1589999999999987 4667999999999999999998664 5566
Q ss_pred HHHHc-CCCHHHHHHHHHHH
Q 028498 128 FLRAN-GITLFKVREETLNL 146 (208)
Q Consensus 128 iL~~~-GVd~~~lr~~le~~ 146 (208)
++..+ |++.+.+++.+...
T Consensus 122 ~~~~~~~~~~~~~~~~~~~~ 141 (852)
T TIGR03345 122 ISPELAKIDREALREALPAL 141 (852)
T ss_pred HHHHHhCCCHHHHHHHHHHH
Confidence 78777 99999998887654
No 15
>PRK10865 protein disaggregation chaperone; Provisional
Probab=97.09 E-value=0.0028 Score=64.00 Aligned_cols=91 Identities=18% Similarity=0.147 Sum_probs=70.8
Q ss_pred cchhhhccchhHHHHHhcCCccCCCCCCCCCcchhhcHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHhhcCCchHHHHH
Q 028498 50 RFVTKYHRSSATATVSFSLPTTVKPETASPDKIPKWSARAIRSFAMAELEARKLKYPNTGTEAFLMGILVEGTSTTAKFL 129 (208)
Q Consensus 50 ~~~~~~~~~~~~~t~i~~~p~~~~p~~~~~~m~~~fT~~a~~aL~~A~~~A~~~g~~~I~tEHLLlALL~e~~s~a~~iL 129 (208)
.-++....+..+...+...|+..++. +. ..+|+.+.++|..|..+|..+++.+|+++|||+||+.+++ ....+|
T Consensus 53 ~~~~~~~l~~~~~~~~~~~~~~~~~~---~~--~~~~~~~~~~l~~a~~~~~~~~~~~i~~~~ll~~~~~~~~-~~~~~l 126 (857)
T PRK10865 53 AGINAGQLRTDINQALSRLPQVEGTG---GD--VQPSQDLVRVLNLCDKLAQKRGDNFISSELFVLAALESRG-TLADIL 126 (857)
T ss_pred cCCCHHHHHHHHHHHHhhCCCCCCCC---CC--CCcCHHHHHHHHHHHHHHHHcCCCcccHHHHHHHHHcCcc-hHHHHH
Confidence 44566677777777777777532211 11 1479999999999999999999999999999999998864 445689
Q ss_pred HHcCCCHHHHHHHHHHH
Q 028498 130 RANGITLFKVREETLNL 146 (208)
Q Consensus 130 ~~~GVd~~~lr~~le~~ 146 (208)
..+|++.+.+++.+...
T Consensus 127 ~~~~~~~~~~~~~~~~~ 143 (857)
T PRK10865 127 KAAGATTANITQAIEQM 143 (857)
T ss_pred HHcCCCHHHHHHHHHHh
Confidence 99999999998887653
No 16
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=96.94 E-value=0.0029 Score=63.18 Aligned_cols=91 Identities=15% Similarity=0.087 Sum_probs=65.9
Q ss_pred chhhhccchhHHHHHh-cCCccCCCCCCCCCcchhhcHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHhhcCCchHHHHH
Q 028498 51 FVTKYHRSSATATVSF-SLPTTVKPETASPDKIPKWSARAIRSFAMAELEARKLKYPNTGTEAFLMGILVEGTSTTAKFL 129 (208)
Q Consensus 51 ~~~~~~~~~~~~t~i~-~~p~~~~p~~~~~~m~~~fT~~a~~aL~~A~~~A~~~g~~~I~tEHLLlALL~e~~s~a~~iL 129 (208)
-++....+..+...+. ..|+...+. ..+. ..++..++++|..|..+|...++.+|+++|||+||+.++++.+..+|
T Consensus 48 ~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~--~~~~~~~~~~l~~a~~~~~~~~~~~i~~~~ll~a~~~~~~~~~~~~l 124 (758)
T PRK11034 48 SVDLVALRQELEAFIEQTTPVLPASE-EERD--TQPTLSFQRVLQRAVFHVQSSGRSEVTGANVLVAIFSEQESQAAYLL 124 (758)
T ss_pred CCCHHHHHHHHHHHHhhcCCcCCCCC-CcCC--cCCCHHHHHHHHHHHHHHHHcCCCcccHHHHHHHHhcCCcchHHHHH
Confidence 3444555566566553 334211110 0011 13677899999999999999999999999999999999888888899
Q ss_pred HHcCCCHHHHHHHHH
Q 028498 130 RANGITLFKVREETL 144 (208)
Q Consensus 130 ~~~GVd~~~lr~~le 144 (208)
...|++...+...+.
T Consensus 125 ~~~~~~~~~~~~~~~ 139 (758)
T PRK11034 125 RKHEVSRLDVVNFIS 139 (758)
T ss_pred HHcCCCHHHHHHHHH
Confidence 999999888766643
No 17
>KOG1051 consensus Chaperone HSP104 and related ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones]
Probab=94.17 E-value=0.11 Score=52.86 Aligned_cols=84 Identities=14% Similarity=0.114 Sum_probs=68.9
Q ss_pred HHHHHhcCCccCCCCCCCCCcchhhcHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHhhcCCchHHHHHHHcCCCHHHHH
Q 028498 61 TATVSFSLPTTVKPETASPDKIPKWSARAIRSFAMAELEARKLKYPNTGTEAFLMGILVEGTSTTAKFLRANGITLFKVR 140 (208)
Q Consensus 61 ~~t~i~~~p~~~~p~~~~~~m~~~fT~~a~~aL~~A~~~A~~~g~~~I~tEHLLlALL~e~~s~a~~iL~~~GVd~~~lr 140 (208)
....+.++|++.+|- .-+.++..+..+...+.....+.++++|.+||+.+.+.-.++..+.++++.+|++...++
T Consensus 71 ~~v~l~rlpt~~~p~-----~sn~l~aalkr~qa~qrr~~~~~~~~~vkvE~~~li~silDdp~vsrv~reag~~s~~vK 145 (898)
T KOG1051|consen 71 FNVSLNRLPTSYGPP-----VSNALMAALKRAQAHQRRGCEEQQQQAVKVELEQLILSILDDPSVSRVMREAGFSSSAVK 145 (898)
T ss_pred HHHHHHhccCCCCCc-----cchHhHHHHHHHHHHHHhcchhhccchhhHhHHhhheeeecCchHHHHHHHhcCChHHHH
Confidence 344569999977642 123688899999999999999999999999999666666667789999999999999999
Q ss_pred HHHHHHhcC
Q 028498 141 EETLNLLGK 149 (208)
Q Consensus 141 ~~le~~l~k 149 (208)
..+++..+.
T Consensus 146 ~~ve~~~g~ 154 (898)
T KOG1051|consen 146 SAVEQPVGQ 154 (898)
T ss_pred HHHHhhccc
Confidence 999887753
No 18
>PLN00154 histone H2A; Provisional
Probab=84.60 E-value=1.1 Score=35.88 Aligned_cols=44 Identities=9% Similarity=0.162 Sum_probs=35.3
Q ss_pred chhhcHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHhhcCCchHHHHHH
Q 028498 82 IPKWSARAIRSFAMAELEARKLKYPNTGTEAFLMGILVEGTSTTAKFLR 130 (208)
Q Consensus 82 ~~~fT~~a~~aL~~A~~~A~~~g~~~I~tEHLLlALL~e~~s~a~~iL~ 130 (208)
.|.+| .++|+.|-+.|++.+...|.+.|+.+|+-.|+ ...++|+
T Consensus 70 LEYLt---AEVLELAGNaA~d~kk~RItPrHi~lAIrnDe--EL~~Ll~ 113 (136)
T PLN00154 70 LEYLT---AEVLELAGNASKDLKVKRITPRHLQLAIRGDE--ELDTLIK 113 (136)
T ss_pred HHHHH---HHHHHHHHHHHHhhCCceecHHHhhhhccCcH--HHHHHhc
Confidence 35554 45899999999999999999999999997654 3566664
No 19
>cd00074 H2A Histone 2A; H2A is a subunit of the nucleosome. The nucleosome is an octamer containing two H2A, H2B, H3, and H4 subunits. The H2A subunit performs essential roles in maintaining structural integrity of the nucleosome, chromatin condensation, and binding of specific chromatin-associated proteins.
Probab=83.76 E-value=1.5 Score=34.03 Aligned_cols=41 Identities=15% Similarity=0.173 Sum_probs=33.6
Q ss_pred HHHHHHHHHHHHHHcCCCCcCHHHHHHHHhhcCCchHHHHHHH
Q 028498 89 AIRSFAMAELEARKLKYPNTGTEAFLMGILVEGTSTTAKFLRA 131 (208)
Q Consensus 89 a~~aL~~A~~~A~~~g~~~I~tEHLLlALL~e~~s~a~~iL~~ 131 (208)
+.++++.|.+.|+..+...|.++|+-+|+-.|. ....+|+.
T Consensus 55 ~aEIlelA~n~ak~~k~krItp~hi~lAi~nD~--EL~~L~~~ 95 (115)
T cd00074 55 TAEVLELAGNAARDNKKKRITPRHLQLAVRNDE--ELNKLLKG 95 (115)
T ss_pred HHHHHHHHHHHHHHcCCCeEcHHHHHHHHhccH--HHHHHHcC
Confidence 456889999999999999999999999998754 35556653
No 20
>PTZ00017 histone H2A; Provisional
Probab=82.37 E-value=1.4 Score=35.13 Aligned_cols=46 Identities=15% Similarity=0.129 Sum_probs=36.6
Q ss_pred cchhhcHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHhhcCCchHHHHHHH
Q 028498 81 KIPKWSARAIRSFAMAELEARKLKYPNTGTEAFLMGILVEGTSTTAKFLRA 131 (208)
Q Consensus 81 m~~~fT~~a~~aL~~A~~~A~~~g~~~I~tEHLLlALL~e~~s~a~~iL~~ 131 (208)
+.|.++. ++|+.|-+.|+..+...|.++||.+|+-.|+ ....+|..
T Consensus 57 VLEYLta---EILELAgNaa~d~kk~RItPrHi~lAI~nDe--EL~~Ll~~ 102 (134)
T PTZ00017 57 VLEYLTA---EVLELAGNAAKDNKKKRITPRHIQLAIRNDE--ELNKLLAG 102 (134)
T ss_pred HHHHHHH---HHHHHHHHHHHhcCCCeecHHHHHhhccCcH--HHHHHHcC
Confidence 3566654 4888999999999999999999999998754 35666653
No 21
>KOG1756 consensus Histone 2A [Chromatin structure and dynamics]
Probab=81.80 E-value=1.7 Score=34.37 Aligned_cols=41 Identities=17% Similarity=0.142 Sum_probs=34.7
Q ss_pred HHHHHHHHHHHHHHcCCCCcCHHHHHHHHhhcCCchHHHHHHH
Q 028498 89 AIRSFAMAELEARKLKYPNTGTEAFLMGILVEGTSTTAKFLRA 131 (208)
Q Consensus 89 a~~aL~~A~~~A~~~g~~~I~tEHLLlALL~e~~s~a~~iL~~ 131 (208)
+.++++.|-+.|++.+...|.|.|+.+|+-.|+ ...++|..
T Consensus 62 ~Aeile~agnaardnkk~ri~PrH~~lAI~NDe--EL~~lL~~ 102 (131)
T KOG1756|consen 62 TAEILELAGNAARDNKKTRITPRHLQLAIRNDE--ELNKLLGK 102 (131)
T ss_pred HHHHHHHhHHHhhhcCccccChHHHHHHHhCcH--HHHHHhcc
Confidence 457889999999999999999999999998764 36777764
No 22
>PLN00157 histone H2A; Provisional
Probab=81.47 E-value=1.6 Score=34.74 Aligned_cols=45 Identities=13% Similarity=0.124 Sum_probs=36.3
Q ss_pred chhhcHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHhhcCCchHHHHHHH
Q 028498 82 IPKWSARAIRSFAMAELEARKLKYPNTGTEAFLMGILVEGTSTTAKFLRA 131 (208)
Q Consensus 82 ~~~fT~~a~~aL~~A~~~A~~~g~~~I~tEHLLlALL~e~~s~a~~iL~~ 131 (208)
.|.++ .++|+.|-+.|+..+...|.++|+.+|+-.|+ ....+|+.
T Consensus 57 LEYLt---aEVLELAgnaa~d~kk~RItPrHi~lAI~nDe--EL~~Ll~~ 101 (132)
T PLN00157 57 LEYLA---AEVLELAGNAARDNKKSRIVPRHIQLAVRNDE--ELSKLLGG 101 (132)
T ss_pred HHHHH---HHHHHHHHHHHHhcCCccccHHHHhhcccCcH--HHHHHHcC
Confidence 45555 45899999999999999999999999997754 36667764
No 23
>PLN00153 histone H2A; Provisional
Probab=79.91 E-value=2 Score=34.10 Aligned_cols=45 Identities=16% Similarity=0.116 Sum_probs=36.0
Q ss_pred chhhcHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHhhcCCchHHHHHHH
Q 028498 82 IPKWSARAIRSFAMAELEARKLKYPNTGTEAFLMGILVEGTSTTAKFLRA 131 (208)
Q Consensus 82 ~~~fT~~a~~aL~~A~~~A~~~g~~~I~tEHLLlALL~e~~s~a~~iL~~ 131 (208)
.|.++ .++|+.|-+.|+..+...|.|+||.+|+-.|+ ....+|+.
T Consensus 55 LEYLt---aEVLELAgnaa~d~kk~RItPrHi~lAI~nDe--EL~~Ll~~ 99 (129)
T PLN00153 55 LEYLT---AEVLELAGNAARDNKKNRIVPRHIQLAIRNDE--ELGKLLGE 99 (129)
T ss_pred HHHHH---HHHHHHHHHHHHhcCCCccChHHHHhhccCcH--HHHHHHCC
Confidence 35554 45899999999999999999999999997654 36667763
No 24
>PLN00156 histone H2AX; Provisional
Probab=79.78 E-value=2.3 Score=34.21 Aligned_cols=45 Identities=13% Similarity=0.119 Sum_probs=36.1
Q ss_pred chhhcHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHhhcCCchHHHHHHH
Q 028498 82 IPKWSARAIRSFAMAELEARKLKYPNTGTEAFLMGILVEGTSTTAKFLRA 131 (208)
Q Consensus 82 ~~~fT~~a~~aL~~A~~~A~~~g~~~I~tEHLLlALL~e~~s~a~~iL~~ 131 (208)
+|.++ .++|+.|-+.|+..+...|.|+||.+|+-.|. ....+|+.
T Consensus 60 LEYLt---aEVLELAgNaa~d~kk~RItPrHi~lAIrnDe--EL~~Ll~~ 104 (139)
T PLN00156 60 LEYLA---AEVLELAGNAARDNKKNRIVPRHIQLAVRNDE--ELSKLLGS 104 (139)
T ss_pred HHHHH---HHHHHHHHHHHHHcCCCcCcHHHHHhhccCcH--HHHHHHCC
Confidence 45554 45899999999999999999999999997654 36667764
No 25
>smart00414 H2A Histone 2A.
Probab=78.96 E-value=2.4 Score=32.40 Aligned_cols=45 Identities=18% Similarity=0.189 Sum_probs=35.3
Q ss_pred chhhcHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHhhcCCchHHHHHHH
Q 028498 82 IPKWSARAIRSFAMAELEARKLKYPNTGTEAFLMGILVEGTSTTAKFLRA 131 (208)
Q Consensus 82 ~~~fT~~a~~aL~~A~~~A~~~g~~~I~tEHLLlALL~e~~s~a~~iL~~ 131 (208)
.|.++. ++|+.|-+.|+..+...|+++|+-+|+-.|+ ....+|+.
T Consensus 40 LEYLta---EILeLagn~a~~~k~~rItp~hi~lAi~nD~--EL~~L~~~ 84 (106)
T smart00414 40 LEYLTA---EVLELAGNAARDNKKRRITPRHLQLAIRNDE--ELNKLLKG 84 (106)
T ss_pred HHHHHH---HHHHHHHHHHHhcCCCccchHHHhhhccCCH--HHHHHHcC
Confidence 455554 4888999999999999999999999997654 35556654
No 26
>PTZ00252 histone H2A; Provisional
Probab=72.84 E-value=3.9 Score=32.66 Aligned_cols=45 Identities=7% Similarity=0.088 Sum_probs=34.0
Q ss_pred chhhcHHHHHHHHHHHHHHHH--cCCCCcCHHHHHHHHhhcCCchHHHHHHH
Q 028498 82 IPKWSARAIRSFAMAELEARK--LKYPNTGTEAFLMGILVEGTSTTAKFLRA 131 (208)
Q Consensus 82 ~~~fT~~a~~aL~~A~~~A~~--~g~~~I~tEHLLlALL~e~~s~a~~iL~~ 131 (208)
+|.++ .++|+.|-+.|++ .+...|.++||.+|+-.|+ ...++|+.
T Consensus 56 LEYLt---aEVLELAgnaa~d~~~kk~RItPrHi~lAIrNDe--EL~~Ll~~ 102 (134)
T PTZ00252 56 LEYLT---AELLELSVKAAAQQAKKPKRLTPRTVTLAVRHDD--DLGSLLKN 102 (134)
T ss_pred HHHHH---HHHHHHHHHHHHhccCCcccccHHHHHhhccChH--HHHHHHcC
Confidence 35554 4589999999976 4558999999999997654 36667764
No 27
>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=55.70 E-value=20 Score=23.03 Aligned_cols=27 Identities=22% Similarity=0.081 Sum_probs=20.5
Q ss_pred HHHHHHHHHHHHHcCCCCcCHHHHHHH
Q 028498 90 IRSFAMAELEARKLKYPNTGTEAFLMG 116 (208)
Q Consensus 90 ~~aL~~A~~~A~~~g~~~I~tEHLLlA 116 (208)
..+=..+..+|++.|...|+.+|+.-|
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 455567899999999999999998643
No 28
>COG5262 HTA1 Histone H2A [Chromatin structure and dynamics]
Probab=54.78 E-value=16 Score=28.72 Aligned_cols=40 Identities=20% Similarity=0.130 Sum_probs=33.1
Q ss_pred HHHHHHHHHHHHHHcCCCCcCHHHHHHHHhhcCCchHHHHHH
Q 028498 89 AIRSFAMAELEARKLKYPNTGTEAFLMGILVEGTSTTAKFLR 130 (208)
Q Consensus 89 a~~aL~~A~~~A~~~g~~~I~tEHLLlALL~e~~s~a~~iL~ 130 (208)
+.++++.|-+.|+..+...|.|-||-+|+-.|++ ...++.
T Consensus 61 ~aEilelAgNaA~d~kkkri~PrHlqlAIrnD~E--L~~l~~ 100 (132)
T COG5262 61 AAEILELAGNAARDNKKKRIIPRHLQLAIRNDEE--LNKLLG 100 (132)
T ss_pred HHHHHHHhhhhhhhcCcceechHHHHHHhcCcHH--HHHHhh
Confidence 4678999999999999999999999999987642 444444
No 29
>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=53.69 E-value=20 Score=24.64 Aligned_cols=31 Identities=13% Similarity=0.045 Sum_probs=27.4
Q ss_pred HHHHHHHHHHHHHHHHcCCCCcCHHHHHHHH
Q 028498 87 ARAIRSFAMAELEARKLKYPNTGTEAFLMGI 117 (208)
Q Consensus 87 ~~a~~aL~~A~~~A~~~g~~~I~tEHLLlAL 117 (208)
.-+.+++..|...|...+...|++.|+.+|+
T Consensus 42 ~~~~~il~~A~~~a~~~kR~tI~~~DI~~A~ 72 (75)
T PF00125_consen 42 YLLVEILEEAGNLARHAKRKTITPRDIQLAV 72 (75)
T ss_dssp HHHHHHHHHHHHHHHHTTBSEEGHHHHHHHH
T ss_pred hhhhhhhhHHHHHHhhcCCcEecHHHHHHHH
Confidence 4566788889999999999999999999987
No 30
>PLN00035 histone H4; Provisional
Probab=47.75 E-value=38 Score=25.82 Aligned_cols=67 Identities=4% Similarity=-0.142 Sum_probs=46.9
Q ss_pred hccchhHHHHHhcCCcc--------CCCCCCCCCcc----hhhcHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHhhcC
Q 028498 55 YHRSSATATVSFSLPTT--------VKPETASPDKI----PKWSARAIRSFAMAELEARKLKYPNTGTEAFLMGILVEG 121 (208)
Q Consensus 55 ~~~~~~~~t~i~~~p~~--------~~p~~~~~~m~----~~fT~~a~~aL~~A~~~A~~~g~~~I~tEHLLlALL~e~ 121 (208)
.|.|+.+...|.++|+- .+.+|.+.+.+ +-+.+-+.+++..|..+|...+-..|+.+.+.+||=..+
T Consensus 17 kr~~k~~~d~i~~ipk~~IrRLARr~GvkRIS~~ay~elr~vle~~l~~I~~dav~ya~HA~RKTV~~~DV~~Alkr~g 95 (103)
T PLN00035 17 KRHRKVLRDNIQGITKPAIRRLARRGGVKRISGLIYEETRGVLKIFLENVIRDAVTYTEHARRKTVTAMDVVYALKRQG 95 (103)
T ss_pred hHHHHHHHhhhccCCHHHHHHHHHHcCcccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHHHcC
Confidence 46666777777777742 23444433322 234567778888899999999999999999998885544
No 31
>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=45.98 E-value=39 Score=22.73 Aligned_cols=28 Identities=14% Similarity=-0.092 Sum_probs=21.8
Q ss_pred HHHHHHHHHHHHHcCCCCcCHHHHHHHH
Q 028498 90 IRSFAMAELEARKLKYPNTGTEAFLMGI 117 (208)
Q Consensus 90 ~~aL~~A~~~A~~~g~~~I~tEHLLlAL 117 (208)
..+...|.+.|.+.+...|..+|+..||
T Consensus 38 ~~l~~~A~~~a~~~~rkti~~~Dv~~Av 65 (65)
T PF00808_consen 38 QYLAKEANEIAQRDKRKTITYEDVAKAV 65 (65)
T ss_dssp HHHHHHHHHHHHHTTSSEE-HHHHHHHH
T ss_pred HHHHHHHHHHHHHcCCCccCHHHHHHHC
Confidence 3344678888999999999999999875
No 32
>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=44.01 E-value=34 Score=24.24 Aligned_cols=30 Identities=13% Similarity=-0.095 Sum_probs=22.5
Q ss_pred cHHHHHHHHHHHHHHHHcCCCC-cCHHHHHH
Q 028498 86 SARAIRSFAMAELEARKLKYPN-TGTEAFLM 115 (208)
Q Consensus 86 T~~a~~aL~~A~~~A~~~g~~~-I~tEHLLl 115 (208)
.-=+++++..|.++|+.-|... |+.+||--
T Consensus 33 ~iFV~EAv~Ra~~~a~~e~~~~~le~e~LEk 63 (72)
T PF09415_consen 33 RIFVREAVARAAEQAEAEGDEGFLEVEHLEK 63 (72)
T ss_dssp HHHHHHHHHHHHHHHHHTT-SSEE-HHHHHH
T ss_pred HHHHHHHHHHHHHHHHHcCCCCCCCHHHHHH
Confidence 3446778888999999999888 99999854
No 33
>PRK02866 cyanate hydratase; Validated
Probab=43.52 E-value=1.4e+02 Score=24.23 Aligned_cols=101 Identities=15% Similarity=0.100 Sum_probs=52.3
Q ss_pred HHHHHHcCCCCcCHHHHHHHHhhcCCchHHHHHHHcCCCHHHHHHHHHHHhcCCCCCCCCCCCC----------CCCHHH
Q 028498 97 ELEARKLKYPNTGTEAFLMGILVEGTSTTAKFLRANGITLFKVREETLNLLGKSDLFFFSPERP----------PLTEQA 166 (208)
Q Consensus 97 ~~~A~~~g~~~I~tEHLLlALL~e~~s~a~~iL~~~GVd~~~lr~~le~~l~k~~~~~~~~~~~----------~~S~~l 166 (208)
.++|...|-+.+-+--+++|--.-....+.++.+-+|++.+. ...+...-.++......+.+| .+.+.+
T Consensus 22 ~~IA~~iG~S~v~vaaa~lGQ~~ls~e~A~kla~~LgL~~~~-~~~l~~~P~rg~~~~~~ptdP~iYR~yE~v~vYG~~~ 100 (147)
T PRK02866 22 ADIAEAIGLSEVWVTAALLGQMTLPAEEAEKVAELLGLDEDA-VALLQEVPYRGSLPPAVPTDPLIYRFYEMVQVYGTTL 100 (147)
T ss_pred HHHHHHhCCCHHHHHHHHhCCCCCCHHHHHHHHHHhCCCHHH-HHHHhcCCcCCCCCCCCCCCcHHHHHHHHHHHhhHHH
Confidence 456777775555555555444333334577788888998774 344444333332110112222 145555
Q ss_pred HHHHHHHHHHHHHcCCceEe-E-E-eeeeecCCCCCCcccccc
Q 028498 167 QRALDWAFNEKLKSVFSVIL-I-F-SKFFESKSPSASGEKVRV 206 (208)
Q Consensus 167 krVLe~A~~~A~~~Gd~~Is-i-~-~~~f~~~~~~~~~~~~~~ 206 (208)
+.+++ .++||--++ | | .-.=.++||. |+.|.+
T Consensus 101 K~~i~------E~FGDGIMSAIdf~~~v~k~~dp~--Gdrv~i 135 (147)
T PRK02866 101 KALIH------EKFGDGIMSAIDFKLDVDKVEDPK--GDRVVI 135 (147)
T ss_pred HHHHH------HHhCCceeeeeeeceeeeeccCCC--CCEEEE
Confidence 55544 568998877 2 1 2222345555 666654
No 34
>PF01978 TrmB: Sugar-specific transcriptional regulator TrmB; InterPro: IPR002831 TrmB, is a protein of 38,800 apparent molecular weight, that is involved in the maltose-specific regulation of the trehalose/maltose ABC transport operon in Thermococcus litoralis. TrmB has been shown to be a maltose-specific repressor, and this inhibition is counteracted by maltose and trehalose. TrmB binds maltose and trehalose half-maximally at 20 uM and 0.5 mM sugar concentration, respectively []. Other members of this family are annotated as either transcriptional regulators or hypothetical proteins. ; PDB: 2D1H_A 3QPH_A 1SFX_A.
Probab=41.69 E-value=45 Score=22.44 Aligned_cols=40 Identities=20% Similarity=0.210 Sum_probs=33.5
Q ss_pred HHHHHHhhcCCchHHHHHHHcCCCHHHHHHHHHHHhcCCC
Q 028498 112 AFLMGILVEGTSTTAKFLRANGITLFKVREETLNLLGKSD 151 (208)
Q Consensus 112 HLLlALL~e~~s~a~~iL~~~GVd~~~lr~~le~~l~k~~ 151 (208)
.++.+|+.++...+..|-+..|++...+...+.....++-
T Consensus 12 ~vy~~Ll~~~~~t~~eIa~~l~i~~~~v~~~L~~L~~~Gl 51 (68)
T PF01978_consen 12 KVYLALLKNGPATAEEIAEELGISRSTVYRALKSLEEKGL 51 (68)
T ss_dssp HHHHHHHHHCHEEHHHHHHHHTSSHHHHHHHHHHHHHTTS
T ss_pred HHHHHHHHcCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCC
Confidence 4667777777777899999999999999999999887653
No 35
>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=39.49 E-value=67 Score=23.56 Aligned_cols=38 Identities=8% Similarity=-0.052 Sum_probs=31.5
Q ss_pred hhcHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHhhcC
Q 028498 84 KWSARAIRSFAMAELEARKLKYPNTGTEAFLMGILVEG 121 (208)
Q Consensus 84 ~fT~~a~~aL~~A~~~A~~~g~~~I~tEHLLlALL~e~ 121 (208)
-+..-+.+++..|..+|...+-..|+.+-+.++|=..+
T Consensus 42 ~l~~~l~~I~~dav~ya~Ha~RKTVt~~DV~~alkr~g 79 (85)
T cd00076 42 VLKSYLEDVIRDAVTYTEHAKRKTVTAMDVVYALKRQG 79 (85)
T ss_pred HHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHHHCC
Confidence 35667778889999999999999999999988886554
No 36
>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=35.38 E-value=22 Score=26.33 Aligned_cols=39 Identities=13% Similarity=-0.049 Sum_probs=13.0
Q ss_pred hhcHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHhhcCC
Q 028498 84 KWSARAIRSFAMAELEARKLKYPNTGTEAFLMGILVEGT 122 (208)
Q Consensus 84 ~fT~~a~~aL~~A~~~A~~~g~~~I~tEHLLlALL~e~~ 122 (208)
-..+...+++..|.+.|...|...|.+|+|+..|=.++.
T Consensus 31 iv~~~i~~l~~~A~~~a~~rg~~~i~~eDl~F~lR~D~~ 69 (93)
T PF02269_consen 31 IVREYIIELCQEAMEVAQRRGSKKIKVEDLLFLLRKDPK 69 (93)
T ss_dssp HHHHHHHHHHHHHHC------------------------
T ss_pred HHHHHHHHHHHHHHHHHhccccCcCcHHHHHHHHhcCHH
Confidence 457889999999999999999999999999999988763
No 37
>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=34.56 E-value=99 Score=21.28 Aligned_cols=35 Identities=14% Similarity=-0.086 Sum_probs=30.6
Q ss_pred hhhcHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHH
Q 028498 83 PKWSARAIRSFAMAELEARKLKYPNTGTEAFLMGI 117 (208)
Q Consensus 83 ~~fT~~a~~aL~~A~~~A~~~g~~~I~tEHLLlAL 117 (208)
+.....+.++++.|...++..+-..++++++=+||
T Consensus 30 ~~~e~rl~~i~~~A~k~~~hakRktlt~~DI~~Al 64 (65)
T smart00803 30 EDVEYRIKEIVQEALKFMRHSKRTTLTTSDIDSAL 64 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCCCeecHHHHHHHh
Confidence 34567889999999999999999999999997775
No 38
>PF09862 DUF2089: Protein of unknown function (DUF2089); InterPro: IPR018658 This family consists of various hypothetical prokaryotic proteins.
Probab=32.98 E-value=1.9e+02 Score=22.41 Aligned_cols=57 Identities=14% Similarity=0.110 Sum_probs=38.0
Q ss_pred HHHHhhcCCchHHHHHHHcCCCHHHHHHHHHHHhcCCCCCCCCCCCCCCCHHHHHHHHHH
Q 028498 114 LMGILVEGTSTTAKFLRANGITLFKVREETLNLLGKSDLFFFSPERPPLTEQAQRALDWA 173 (208)
Q Consensus 114 LlALL~e~~s~a~~iL~~~GVd~~~lr~~le~~l~k~~~~~~~~~~~~~S~~lkrVLe~A 173 (208)
+..++.. .|....+=+.+||+|..+|..+++++.+..... .....-...-..||+.-
T Consensus 42 i~~Fi~~-rGnlKe~e~~lgiSYPTvR~rLd~ii~~lg~~~--~~~~~~~~~~~~IL~~L 98 (113)
T PF09862_consen 42 IKLFIKN-RGNLKEMEKELGISYPTVRNRLDKIIEKLGYEE--DEEEEEEDERKEILDKL 98 (113)
T ss_pred HHHHHHh-cCCHHHHHHHHCCCcHHHHHHHHHHHHHhCCCC--CcccccchhHHHHHHHH
Confidence 3444444 356799999999999999999999887644311 12234455666677643
No 39
>TIGR00673 cynS cyanate hydratase. Alternate names include cyanate lyase, cyanase and cyanate hydrolase.
Probab=32.34 E-value=2.7e+02 Score=22.67 Aligned_cols=100 Identities=14% Similarity=0.016 Sum_probs=50.8
Q ss_pred HHHHHcCCCCcCHHHHHHHHhhcCCchHHHHHHHcCCCHHHHHHHHHHHhcCCCCCCCCCCCC----------CCCHHHH
Q 028498 98 LEARKLKYPNTGTEAFLMGILVEGTSTTAKFLRANGITLFKVREETLNLLGKSDLFFFSPERP----------PLTEQAQ 167 (208)
Q Consensus 98 ~~A~~~g~~~I~tEHLLlALL~e~~s~a~~iL~~~GVd~~~lr~~le~~l~k~~~~~~~~~~~----------~~S~~lk 167 (208)
++|...|-+.+-+.-+++|--.-....+.++.+-+|++.+.+ ..+...-.++......+.+| .+.+.++
T Consensus 26 ~IAe~iG~sevwvaaa~lGQ~~ls~e~A~kla~lLgL~~e~~-~~l~~~P~rg~~~~~~ptdP~iYR~yE~v~vYG~~~K 104 (150)
T TIGR00673 26 DIADGLGLAEVFVAAALYGQAAAPADEARLVGAKLDLDEDSI-LELQMAPLRGCIDPVIPTDPTMYRFYEMLQVYGTTLK 104 (150)
T ss_pred HHHHHHCCCHHHHHHHHhCCCCCCHHHHHHHHHHhCcCHHHH-HHHhcCCCCCCCCCCCCCCchHHHHHHHHHHhhHHHH
Confidence 457777755555555555543333345778888889987653 33333222321110012222 1455555
Q ss_pred HHHHHHHHHHHHcCCceEe-E-Eee-eeecCCCCCCcccccc
Q 028498 168 RALDWAFNEKLKSVFSVIL-I-FSK-FFESKSPSASGEKVRV 206 (208)
Q Consensus 168 rVLe~A~~~A~~~Gd~~Is-i-~~~-~f~~~~~~~~~~~~~~ 206 (208)
.+++ .++||--++ | |.. .=.++|| .|+.|.+
T Consensus 105 ~~i~------E~FGDGIMSAIdF~~~v~k~~dp--~Gdrv~i 138 (150)
T TIGR00673 105 AVVH------EKFGDGIMSAIDFKLDVEKVADP--GGERAVI 138 (150)
T ss_pred HHHH------HHhCcceeeeeeeceeeeeecCC--CCCEEEE
Confidence 5544 568998877 2 111 2233455 4555544
No 40
>PF02662 FlpD: Methyl-viologen-reducing hydrogenase, delta subunit; InterPro: IPR003813 Methyl-viologen-reducing hydrogenase (MVH) is one of the enzymes involved in methanogenesis and coded in the mth-flp-mvh-mrt cluster of methane genes in Methanothermobacter thermautotrophicus (Methanobacterium thermoformicicum) []. No specific functions have been assigned to the delta subunit.; GO: 0015948 methanogenesis, 0055114 oxidation-reduction process
Probab=31.53 E-value=78 Score=24.49 Aligned_cols=17 Identities=12% Similarity=0.046 Sum_probs=12.1
Q ss_pred CcCHHHHHHHHhhcCCc
Q 028498 107 NTGTEAFLMGILVEGTS 123 (208)
Q Consensus 107 ~I~tEHLLlALL~e~~s 123 (208)
.|+++|+|-|+..--|+
T Consensus 39 rv~~~~il~Af~~GADG 55 (124)
T PF02662_consen 39 RVDPEFILRAFEKGADG 55 (124)
T ss_pred ccCHHHHHHHHHcCCCE
Confidence 57888888888765444
No 41
>KOG1659 consensus Class 2 transcription repressor NC2, alpha subunit (DRAP1) [Transcription]
Probab=30.58 E-value=1.3e+02 Score=26.08 Aligned_cols=34 Identities=3% Similarity=-0.120 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHHHHcCCCCcCHHHHHHHHhhcCC
Q 028498 89 AIRSFAMAELEARKLKYPNTGTEAFLMGILVEGT 122 (208)
Q Consensus 89 a~~aL~~A~~~A~~~g~~~I~tEHLLlALL~e~~ 122 (208)
++.+++.+.++++..+...|+++||--++..++.
T Consensus 48 l~~l~~~t~~~t~~~~aKt~s~~hlkq~v~~~~~ 81 (224)
T KOG1659|consen 48 LESLLQKTLEITRSRGAKTVSSSHLKQAVESDPK 81 (224)
T ss_pred HHHHHHHHHHHHHhcCccccCHHHHHHHHhccch
Confidence 5678889999999999999999999999998764
No 42
>PF13335 Mg_chelatase_2: Magnesium chelatase, subunit ChlI
Probab=30.52 E-value=1e+02 Score=22.73 Aligned_cols=31 Identities=13% Similarity=-0.054 Sum_probs=27.0
Q ss_pred HHHHHHHHHHHHHHHHcCCCCcCHHHHHHHH
Q 028498 87 ARAIRSFAMAELEARKLKYPNTGTEAFLMGI 117 (208)
Q Consensus 87 ~~a~~aL~~A~~~A~~~g~~~I~tEHLLlAL 117 (208)
....++|..|-.+|-=.+.+.|+.+||+-||
T Consensus 63 R~~~rilrvARTIADL~~~~~I~~~hi~EAl 93 (96)
T PF13335_consen 63 RGYHRILRVARTIADLEGSERITREHIAEAL 93 (96)
T ss_pred HHHHHHHHHHHHHHhHcCCCCCCHHHHHHHH
Confidence 3566788889999999999999999999887
No 43
>KOG1757 consensus Histone 2A [Chromatin structure and dynamics]
Probab=29.82 E-value=16 Score=28.41 Aligned_cols=33 Identities=12% Similarity=0.152 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHHHHcCCCCcCHHHHHHHHhhcC
Q 028498 89 AIRSFAMAELEARKLKYPNTGTEAFLMGILVEG 121 (208)
Q Consensus 89 a~~aL~~A~~~A~~~g~~~I~tEHLLlALL~e~ 121 (208)
..++|+.|-+.++.++...|+|-||-||+-.|+
T Consensus 66 TaEVLeLAgNasKdLKvKRitprHlqLAiRGDe 98 (131)
T KOG1757|consen 66 TAEVLELAGNASKDLKVKRITPRHLQLAIRGDE 98 (131)
T ss_pred HHHHHHHcccccccceeeeccchhheeeecCcH
Confidence 357889999999999999999999999997654
No 44
>COG5247 BUR6 Class 2 transcription repressor NC2, alpha subunit (DRAP1 homolog) [Transcription]
Probab=29.17 E-value=71 Score=24.49 Aligned_cols=34 Identities=15% Similarity=0.037 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHHHHcCCCCcCHHHHHHHHhhcCC
Q 028498 89 AIRSFAMAELEARKLKYPNTGTEAFLMGILVEGT 122 (208)
Q Consensus 89 a~~aL~~A~~~A~~~g~~~I~tEHLLlALL~e~~ 122 (208)
+..++..+.++|+..+...++.|||--+...++.
T Consensus 58 l~~iv~~s~k~aR~~~skR~t~e~lk~a~~sdek 91 (113)
T COG5247 58 LTEIVGLSLKEARKKSSKRMTSEFLKRATESDEK 91 (113)
T ss_pred HHHHHHHHHHHHHhccchhhHHHHHHHHHhhhHH
Confidence 5677889999999999999999999999987753
No 45
>TIGR02337 HpaR homoprotocatechuate degradation operon regulator, HpaR. This Helix-Turn-Helix transcriptional regulator is a member of the MarR family (pfam01047) and is found in association with operons for the degradation of 4-hydroxyphenylacetic acid via homoprotocatechuate.
Probab=29.05 E-value=2.4e+02 Score=20.82 Aligned_cols=71 Identities=10% Similarity=-0.118 Sum_probs=49.0
Q ss_pred HHHHHHHHhhcCCchHHHHHHHcCCCHHHHHHHHHHHhcCCCCC---CC---CCCCCCCCHHHHHHHHHHHHHHHHc
Q 028498 110 TEAFLMGILVEGTSTTAKFLRANGITLFKVREETLNLLGKSDLF---FF---SPERPPLTEQAQRALDWAFNEKLKS 180 (208)
Q Consensus 110 tEHLLlALL~e~~s~a~~iL~~~GVd~~~lr~~le~~l~k~~~~---~~---~~~~~~~S~~lkrVLe~A~~~A~~~ 180 (208)
-.++|..|-.++.-....+-+..|++...+-..++.+..++-.. .+ -...+.+|+.-+++++.........
T Consensus 30 q~~iL~~l~~~~~~t~~ela~~~~~~~~tvs~~l~~Le~~GlI~r~~~~~D~R~~~v~LT~~G~~~~~~~~~~~~~~ 106 (118)
T TIGR02337 30 QWRILRILAEQGSMEFTQLANQACILRPSLTGILARLERDGLVTRLKASNDQRRVYISLTPKGQALYASLSPQIEEI 106 (118)
T ss_pred HHHHHHHHHHcCCcCHHHHHHHhCCCchhHHHHHHHHHHCCCEEeccCCCCCCeeEEEECHhHHHHHHHhhHHHHHH
Confidence 34466666555544468899999999999988888877653211 01 1124779999999999888776653
No 46
>COG0703 AroK Shikimate kinase [Amino acid transport and metabolism]
Probab=28.83 E-value=3.1e+02 Score=22.68 Aligned_cols=74 Identities=18% Similarity=0.212 Sum_probs=48.1
Q ss_pred HHHHHHHHcCCCCcCHHHHHHHHhhcCCchHHHHHHHcCCCHH-HHHHH-HHHHhcCCCCCCCCCCCCCCCHHHHHHHH
Q 028498 95 MAELEARKLKYPNTGTEAFLMGILVEGTSTTAKFLRANGITLF-KVREE-TLNLLGKSDLFFFSPERPPLTEQAQRALD 171 (208)
Q Consensus 95 ~A~~~A~~~g~~~I~tEHLLlALL~e~~s~a~~iL~~~GVd~~-~lr~~-le~~l~k~~~~~~~~~~~~~S~~lkrVLe 171 (208)
.+..+|+.++-.+++++|++-.=... .+..++...|-+.- .+..+ |.+.+...+.+-.-++-...+++..+.|.
T Consensus 18 IGr~LAk~L~~~F~D~D~~Ie~~~g~---sI~eIF~~~GE~~FR~~E~~vl~~l~~~~~~ViaTGGG~v~~~enr~~l~ 93 (172)
T COG0703 18 IGRALAKALNLPFIDTDQEIEKRTGM---SIAEIFEEEGEEGFRRLETEVLKELLEEDNAVIATGGGAVLSEENRNLLK 93 (172)
T ss_pred HHHHHHHHcCCCcccchHHHHHHHCc---CHHHHHHHHhHHHHHHHHHHHHHHHhhcCCeEEECCCccccCHHHHHHHH
Confidence 46788999999999999999877753 37899999986543 23322 34444433222111344667777776664
No 47
>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=28.59 E-value=1.3e+02 Score=20.92 Aligned_cols=35 Identities=9% Similarity=-0.133 Sum_probs=28.8
Q ss_pred cHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHhhc
Q 028498 86 SARAIRSFAMAELEARKLKYPNTGTEAFLMGILVE 120 (208)
Q Consensus 86 T~~a~~aL~~A~~~A~~~g~~~I~tEHLLlALL~e 120 (208)
.+-+.+++..|..+|+..|...|..+-+.+++=.+
T Consensus 33 e~fv~~v~~~a~~lAkHr~~~tv~~~Di~l~l~r~ 67 (72)
T cd07981 33 DDFVDDVVEDACRLAKHRKSDTLEVKDVQLHLERN 67 (72)
T ss_pred HHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHh
Confidence 44556778889999999999999999999888543
No 48
>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=28.31 E-value=4.1e+02 Score=23.35 Aligned_cols=61 Identities=13% Similarity=-0.047 Sum_probs=40.6
Q ss_pred HHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHhhcCCchHHHHHHHcCCCHHHHHHHHHHHh
Q 028498 87 ARAIRSFAMAELEARKLKYPNTGTEAFLMGILVEGTSTTAKFLRANGITLFKVREETLNLL 147 (208)
Q Consensus 87 ~~a~~aL~~A~~~A~~~g~~~I~tEHLLlALL~e~~s~a~~iL~~~GVd~~~lr~~le~~l 147 (208)
..+.+++..|.+.|...+...|+.+|+-.|+-.-..+.....++.+......+...+....
T Consensus 241 R~al~~l~~a~~~a~~~~~~~it~~~v~~a~~~~~~~~~~~~i~~l~~~~~~~l~ai~~~~ 301 (365)
T TIGR02928 241 RKAIDLLRVAGEIAEREGAERVTEDHVEKAQEKIEKDRLLELIRGLPTHSKLVLLAIANLA 301 (365)
T ss_pred HHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence 4666777788888988899999999999876444333445555655554444455554433
No 49
>PF13412 HTH_24: Winged helix-turn-helix DNA-binding; PDB: 1I1G_B 2IA0_B 3I4P_A 2GQQ_A 2L4A_A 2CFX_B 2DBB_B 2EFO_A 2EFQ_A 2PN6_A ....
Probab=26.69 E-value=1.6e+02 Score=18.12 Aligned_cols=39 Identities=18% Similarity=0.049 Sum_probs=28.7
Q ss_pred HHHHHHhhcCCchHHHHHHHcCCCHHHHHHHHHHHhcCC
Q 028498 112 AFLMGILVEGTSTTAKFLRANGITLFKVREETLNLLGKS 150 (208)
Q Consensus 112 HLLlALL~e~~s~a~~iL~~~GVd~~~lr~~le~~l~k~ 150 (208)
.+|..|.+++.-...++-+..|++...+...+.....++
T Consensus 7 ~Il~~l~~~~~~t~~ela~~~~is~~tv~~~l~~L~~~g 45 (48)
T PF13412_consen 7 KILNYLRENPRITQKELAEKLGISRSTVNRYLKKLEEKG 45 (48)
T ss_dssp HHHHHHHHCTTS-HHHHHHHHTS-HHHHHHHHHHHHHTT
T ss_pred HHHHHHHHcCCCCHHHHHHHhCCCHHHHHHHHHHHHHCc
Confidence 456666666655678889999999999999988877653
No 50
>PRK10265 chaperone-modulator protein CbpM; Provisional
Probab=26.49 E-value=80 Score=23.50 Aligned_cols=63 Identities=10% Similarity=-0.045 Sum_probs=45.9
Q ss_pred HHHHHHHcCCCHHHHHHHHHHHhcCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHcCCceEeEEe
Q 028498 125 TAKFLRANGITLFKVREETLNLLGKSDLFFFSPERPPLTEQAQRALDWAFNEKLKSVFSVILIFS 189 (208)
Q Consensus 125 a~~iL~~~GVd~~~lr~~le~~l~k~~~~~~~~~~~~~S~~lkrVLe~A~~~A~~~Gd~~Isi~~ 189 (208)
...++..+|++.+.+.+-++.-+-..... .++...|+...-..++.|....+.++-++.+++.
T Consensus 10 ~~Elc~~~gi~~~~l~eLve~GlIep~~~--~~~~~~F~~~~l~r~~~a~rL~~dl~in~~gial 72 (101)
T PRK10265 10 ITEFCLHTGVSEEELNEIVGLGVIEPREI--QETTWVFDDHAAIVVQRAVRLRHELALDWPGIAV 72 (101)
T ss_pred HHHHHHHHCcCHHHHHHHHHCCCeecCCC--CcccceECHHHHHHHHHHHHHHHHcCCCHHHHHH
Confidence 46788999999998888776544321111 1345678898888999999999999888776543
No 51
>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=26.27 E-value=1.3e+02 Score=23.12 Aligned_cols=39 Identities=8% Similarity=-0.009 Sum_probs=32.7
Q ss_pred chhhcHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHhhc
Q 028498 82 IPKWSARAIRSFAMAELEARKLKYPNTGTEAFLMGILVE 120 (208)
Q Consensus 82 ~~~fT~~a~~aL~~A~~~A~~~g~~~I~tEHLLlALL~e 120 (208)
.+-.-.-+.+++..|..+|+..|...|+.+.+-+|+-.-
T Consensus 28 le~~~ry~~~il~dA~~~a~hA~r~tV~~eDV~lAi~~r 66 (117)
T cd07979 28 LEFAYRYTTDVLDDAKVYSEHAGKANIDADDVKLAIQSR 66 (117)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHH
Confidence 344456778899999999999999999999999998653
No 52
>PF12802 MarR_2: MarR family; PDB: 3ECO_B 2QWW_B 3KP6_B 3KP4_B 3KP2_A 3KP5_A 3KP3_B 3KP7_A 3NQO_B 3K0L_B ....
Probab=25.31 E-value=1.9e+02 Score=18.47 Aligned_cols=40 Identities=20% Similarity=0.103 Sum_probs=30.3
Q ss_pred HHHHHHHhhcCC--chHHHHHHHcCCCHHHHHHHHHHHhcCC
Q 028498 111 EAFLMGILVEGT--STTAKFLRANGITLFKVREETLNLLGKS 150 (208)
Q Consensus 111 EHLLlALL~e~~--s~a~~iL~~~GVd~~~lr~~le~~l~k~ 150 (208)
.++|..|...++ -....+-+.+|++...+-..+..+..++
T Consensus 8 ~~vL~~l~~~~~~~~t~~~la~~l~~~~~~vs~~v~~L~~~G 49 (62)
T PF12802_consen 8 FRVLMALARHPGEELTQSELAERLGISKSTVSRIVKRLEKKG 49 (62)
T ss_dssp HHHHHHHHHSTTSGEEHHHHHHHHTS-HHHHHHHHHHHHHTT
T ss_pred HHHHHHHHHCCCCCcCHHHHHHHHCcCHHHHHHHHHHHHHCC
Confidence 456666766665 3689999999999999999988877654
No 53
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=25.08 E-value=4.9e+02 Score=23.17 Aligned_cols=58 Identities=14% Similarity=-0.014 Sum_probs=39.3
Q ss_pred HHHHHHHHHHHHHHHcCCCCcCHHHHHHHHhhcCCchHHHHHHHcCCCHHHHHHHHHH
Q 028498 88 RAIRSFAMAELEARKLKYPNTGTEAFLMGILVEGTSTTAKFLRANGITLFKVREETLN 145 (208)
Q Consensus 88 ~a~~aL~~A~~~A~~~g~~~I~tEHLLlALL~e~~s~a~~iL~~~GVd~~~lr~~le~ 145 (208)
.+.+++..|...|...+...|+.+|+-.|+-.-..+.....++.+......+..++..
T Consensus 250 ~a~~ll~~a~~~a~~~~~~~I~~~~v~~a~~~~~~~~~~~~~~~L~~~~k~~L~ai~~ 307 (394)
T PRK00411 250 VAIDLLRRAGLIAEREGSRKVTEEDVRKAYEKSEIVHLSEVLRTLPLHEKLLLRAIVR 307 (394)
T ss_pred HHHHHHHHHHHHHHHcCCCCcCHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence 3446667777788888999999999988886543445556666665555555555443
No 54
>smart00417 H4 Histone H4.
Probab=24.74 E-value=80 Score=22.58 Aligned_cols=59 Identities=3% Similarity=-0.184 Sum_probs=36.1
Q ss_pred cchhHHHHHhcCCc--------cCCCCCCCCCcch----hhcHHHHHHHHHHHHHHHHcCCCCcCHHHHHH
Q 028498 57 RSSATATVSFSLPT--------TVKPETASPDKIP----KWSARAIRSFAMAELEARKLKYPNTGTEAFLM 115 (208)
Q Consensus 57 ~~~~~~t~i~~~p~--------~~~p~~~~~~m~~----~fT~~a~~aL~~A~~~A~~~g~~~I~tEHLLl 115 (208)
.++.+...|.++|+ -.+.+|.+++.++ -+-+-+.+++..|..+|...+-..|..+.+.+
T Consensus 3 ~~~~~~d~i~gI~k~~IrRLaRr~GvkRIS~~~y~elr~vle~~l~~I~rdav~~a~ha~RKTV~~~DV~~ 73 (74)
T smart00417 3 HKKVLRDNIQGITKPAIRRLARRGGVKRISGLIYDETRNVLKSFLENVVRDAVTYTEHARRKTVTAMDVVY 73 (74)
T ss_pred hhHHHHhhhcCCCHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHhee
Confidence 34445555666663 2345554443332 34456677788888888888888888776543
No 55
>KOG0871 consensus Class 2 transcription repressor NC2, beta subunit (Dr1) [Transcription]
Probab=24.38 E-value=87 Score=25.55 Aligned_cols=27 Identities=11% Similarity=-0.055 Sum_probs=22.0
Q ss_pred HHHHHHHHHcCCCCcCHHHHHHHHhhc
Q 028498 94 AMAELEARKLKYPNTGTEAFLMGILVE 120 (208)
Q Consensus 94 ~~A~~~A~~~g~~~I~tEHLLlALL~e 120 (208)
..|.+.+.+-....|.+||++.||=.-
T Consensus 53 sEAneic~~e~KKTIa~EHV~KALe~L 79 (156)
T KOG0871|consen 53 SEANEICNKEAKKTIAPEHVIKALENL 79 (156)
T ss_pred HHHHHHHhHHhcccCCHHHHHHHHHHc
Confidence 357777888888999999999998543
No 56
>PTZ00015 histone H4; Provisional
Probab=23.23 E-value=1.1e+02 Score=23.19 Aligned_cols=51 Identities=6% Similarity=-0.136 Sum_probs=37.2
Q ss_pred ccCCCCCCCCCcc----hhhcHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHhhc
Q 028498 70 TTVKPETASPDKI----PKWSARAIRSFAMAELEARKLKYPNTGTEAFLMGILVE 120 (208)
Q Consensus 70 ~~~~p~~~~~~m~----~~fT~~a~~aL~~A~~~A~~~g~~~I~tEHLLlALL~e 120 (208)
+-.+.+|.+.+.+ +-+.+-+.+++..|..+|...+-..|..+.+.+||=..
T Consensus 41 rr~GvkRIS~d~y~e~r~vle~~l~~I~rdav~~aeHA~RKTVt~~DV~~AlKr~ 95 (102)
T PTZ00015 41 RRGGVKRISGDIYEEVRGVLKAFLENVVRDSTAYTEYARRKTVTAMDVVYALKRQ 95 (102)
T ss_pred HHcCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHHhc
Confidence 3345555544433 23556777888999999999999999999999887544
No 57
>smart00550 Zalpha Z-DNA-binding domain in adenosine deaminases. Helix-turn-helix-containing domain. Also known as Zab.
Probab=23.12 E-value=2.5e+02 Score=19.06 Aligned_cols=40 Identities=20% Similarity=0.161 Sum_probs=28.9
Q ss_pred HHHHHHhhcCC--chHHHHHHHcCCCHHHHHHHHHHHhcCCC
Q 028498 112 AFLMGILVEGT--STTAKFLRANGITLFKVREETLNLLGKSD 151 (208)
Q Consensus 112 HLLlALL~e~~--s~a~~iL~~~GVd~~~lr~~le~~l~k~~ 151 (208)
.+|..|...+. -.+..+-+.+|++...+++.+..+...+-
T Consensus 10 ~IL~~L~~~g~~~~ta~eLa~~lgl~~~~v~r~L~~L~~~G~ 51 (68)
T smart00550 10 KILEFLENSGDETSTALQLAKNLGLPKKEVNRVLYSLEKKGK 51 (68)
T ss_pred HHHHHHHHCCCCCcCHHHHHHHHCCCHHHHHHHHHHHHHCCC
Confidence 34444444434 45788999999999999999988776543
No 58
>PF04405 ScdA_N: Domain of Unknown function (DUF542) ; InterPro: IPR007500 This is a domain of unknown function found at the N terminus of genes involved in cell wall development and nitrous oxide protection. ScdA is required for normal cell growth and development; mutants have an increased level of peptidoglycan cross-linking and aberrant cellular morphology suggesting a role for ScdA in cell wall metabolism []. NorA1, NorA2, and YtfE are involved in the nitrous oxide response. NorA1 and NorA2, which are similar to YtfE, are co-transcribed with the membrane-bound nitrous oxide (NO) reductases. The genes appear to be involved in NO protection but their function is unknown [, ].
Probab=22.85 E-value=1.4e+02 Score=20.07 Aligned_cols=22 Identities=18% Similarity=0.108 Sum_probs=12.8
Q ss_pred hHHHHHHHcCCCHHHHHHHHHH
Q 028498 124 TTAKFLRANGITLFKVREETLN 145 (208)
Q Consensus 124 ~a~~iL~~~GVd~~~lr~~le~ 145 (208)
.....+++.|+|++.+.++|++
T Consensus 33 ~L~eA~~~~~ld~~~vl~~L~~ 54 (56)
T PF04405_consen 33 SLEEACEEKGLDPEEVLEELNA 54 (56)
T ss_pred hHHHHHHHcCCCHHHHHHHHHH
Confidence 3455556666666666666543
No 59
>PF05402 PqqD: Coenzyme PQQ synthesis protein D (PqqD); InterPro: IPR008792 This family contains several bacterial coenzyme PQQ synthesis protein D (PqqD) sequences. This protein is required for coenzyme pyrrolo-quinoline-quinone (PQQ) biosynthesis.; PDB: 3G2B_A.
Probab=22.25 E-value=2.4e+02 Score=18.55 Aligned_cols=39 Identities=15% Similarity=0.183 Sum_probs=23.8
Q ss_pred HHHHHHHHhhcCC---chHHHHHHHcCCCHHHHHHHHHHHhc
Q 028498 110 TEAFLMGILVEGT---STTAKFLRANGITLFKVREETLNLLG 148 (208)
Q Consensus 110 tEHLLlALL~e~~---s~a~~iL~~~GVd~~~lr~~le~~l~ 148 (208)
+...++-+++.+. .++..+.+.++++++.+++.+...+.
T Consensus 18 ~a~~Iw~~~~g~~t~~ei~~~l~~~y~~~~~~~~~dv~~fl~ 59 (68)
T PF05402_consen 18 TAAFIWELLDGPRTVEEIVDALAEEYDVDPEEAEEDVEEFLE 59 (68)
T ss_dssp HHHHHHHH--SSS-HHHHHHHHHHHTT--HHHHHHHHHHHHH
T ss_pred HHHHHHHHccCCCCHHHHHHHHHHHcCCCHHHHHHHHHHHHH
Confidence 4455666665433 24567778889999988888877664
No 60
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=21.83 E-value=2.9e+02 Score=25.37 Aligned_cols=53 Identities=11% Similarity=-0.046 Sum_probs=38.7
Q ss_pred HHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHhhcCCchHHHHHHHcCCCHHHH
Q 028498 87 ARAIRSFAMAELEARKLKYPNTGTEAFLMGILVEGTSTTAKFLRANGITLFKV 139 (208)
Q Consensus 87 ~~a~~aL~~A~~~A~~~g~~~I~tEHLLlALL~e~~s~a~~iL~~~GVd~~~l 139 (208)
..+..++..|.+.|.+.+...++.+|+-.|--+.+.......++.+-.....+
T Consensus 232 R~aidilr~A~eiAe~~~~~~v~~~~v~~a~~~~~~~~~~~~~~~L~~~~ki~ 284 (366)
T COG1474 232 RKAIDILRRAGEIAEREGSRKVSEDHVREAQEEIERDVLEEVLKTLPLHQKIV 284 (366)
T ss_pred HHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHhhHHHHHHHHHcCCHhHHHH
Confidence 56778889999999999999999999999944443444555555554433333
No 61
>COG2747 FlgM Negative regulator of flagellin synthesis (anti-sigma28 factor) [Transcription / Cell motility and secretion / Intracellular trafficking and secretion]
Probab=21.74 E-value=1.6e+02 Score=21.98 Aligned_cols=32 Identities=13% Similarity=-0.178 Sum_probs=27.4
Q ss_pred HHHHHHHHHHHHHHcCCCCcCHHHHHHHHhhc
Q 028498 89 AIRSFAMAELEARKLKYPNTGTEAFLMGILVE 120 (208)
Q Consensus 89 a~~aL~~A~~~A~~~g~~~I~tEHLLlALL~e 120 (208)
..+.-......|.+.|.-.|+++||.-+||+.
T Consensus 58 ~~~~kVeeiK~aI~~G~ykvD~~kiAd~ll~f 89 (93)
T COG2747 58 IREEKVEELKQAIENGEYKVDTEKIADKLLDF 89 (93)
T ss_pred hhHHHHHHHHHHHHcCCeeecHHHHHHHHHHH
Confidence 45566677888999999999999999999975
Done!