Query 048759
Match_columns 442
No_of_seqs 256 out of 1350
Neff 8.1
Searched_HMMs 46136
Date Fri Mar 29 12:53:09 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/048759.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/048759hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03196 MOC1-like protein; Pr 100.0 1.4E-90 3E-95 715.0 31.4 442 1-442 45-487 (487)
2 PF02536 mTERF: mTERF; InterP 100.0 4.5E-55 9.8E-60 438.2 8.3 335 53-393 2-345 (345)
3 PLN03196 MOC1-like protein; Pr 100.0 1.3E-51 2.9E-56 425.4 23.5 339 18-368 91-439 (487)
4 PF02536 mTERF: mTERF; InterP 100.0 6.7E-41 1.4E-45 335.6 8.4 305 24-339 2-319 (345)
5 KOG1267 Mitochondrial transcri 100.0 3.9E-29 8.5E-34 255.8 15.6 314 47-376 90-410 (413)
6 KOG1267 Mitochondrial transcri 99.9 8E-23 1.7E-27 209.3 12.9 279 78-373 89-374 (413)
7 smart00733 Mterf Mitochondrial 97.2 0.0003 6.5E-09 43.6 2.5 30 315-345 2-31 (31)
8 smart00733 Mterf Mitochondrial 96.8 0.00077 1.7E-08 41.7 1.8 25 138-163 5-29 (31)
9 PF11955 PORR: Plant organelle 94.8 0.26 5.7E-06 49.1 10.6 49 280-329 242-293 (335)
10 cd04790 HTH_Cfa-like_unk Helix 82.9 8.3 0.00018 34.6 8.7 41 269-315 126-166 (172)
11 cd04790 HTH_Cfa-like_unk Helix 82.6 2.5 5.4E-05 38.0 5.1 48 189-243 119-166 (172)
12 COG1125 OpuBA ABC-type proline 71.2 8.4 0.00018 36.9 5.3 65 293-357 70-137 (309)
13 COG1393 ArsC Arsenate reductas 68.3 7.6 0.00016 32.5 4.0 42 20-64 15-56 (117)
14 PF11955 PORR: Plant organelle 67.9 8.7 0.00019 38.4 5.0 47 282-328 103-152 (335)
15 PF04695 Pex14_N: Peroxisomal 64.0 6.4 0.00014 33.9 2.8 38 101-142 12-49 (136)
16 PF14490 HHH_4: Helix-hairpin- 64.0 14 0.00031 29.4 4.7 24 80-103 8-31 (94)
17 PF04695 Pex14_N: Peroxisomal 61.8 14 0.00031 31.7 4.6 37 285-324 15-51 (136)
18 PF03960 ArsC: ArsC family; I 61.7 22 0.00049 29.0 5.6 21 91-111 70-90 (110)
19 PF02631 RecX: RecX family; I 61.5 88 0.0019 25.9 9.3 106 187-319 10-118 (121)
20 PF00627 UBA: UBA/TS-N domain; 57.0 14 0.0003 23.8 2.9 23 298-320 4-26 (37)
21 smart00165 UBA Ubiquitin assoc 54.4 19 0.00041 23.0 3.2 23 298-320 3-25 (37)
22 PF14490 HHH_4: Helix-hairpin- 52.2 46 0.001 26.4 5.8 26 187-212 7-32 (94)
23 cd00194 UBA Ubiquitin Associat 51.1 23 0.00049 22.7 3.2 23 298-320 3-25 (38)
24 PRK00117 recX recombination re 50.5 72 0.0016 27.8 7.3 58 45-105 42-103 (157)
25 PF12196 hNIFK_binding: FHA Ki 49.2 7.9 0.00017 25.6 0.7 13 427-439 28-40 (41)
26 PF02022 Integrase_Zn: Integra 49.2 25 0.00054 23.4 3.1 30 294-323 6-36 (40)
27 TIGR00601 rad23 UV excision re 48.9 1.3E+02 0.0029 30.6 9.7 31 324-358 331-361 (378)
28 PRK14136 recX recombination re 46.4 45 0.00097 32.8 5.6 109 44-176 192-302 (309)
29 PRK09875 putative hydrolase; P 45.3 1.3E+02 0.0028 29.5 8.8 27 116-142 262-288 (292)
30 COG1125 OpuBA ABC-type proline 44.3 43 0.00093 32.3 5.0 118 276-401 90-241 (309)
31 PF03960 ArsC: ArsC family; I 43.4 19 0.00042 29.4 2.4 22 306-327 69-90 (110)
32 TIGR01616 nitro_assoc nitrogen 43.0 20 0.00044 30.4 2.5 17 308-324 73-89 (126)
33 PRK14135 recX recombination re 42.9 1.5E+02 0.0032 28.3 8.8 25 295-319 233-258 (263)
34 cd01104 HTH_MlrA-CarA Helix-Tu 41.2 1.3E+02 0.0029 21.6 6.5 20 298-317 48-67 (68)
35 PRK10026 arsenate reductase; P 39.6 81 0.0017 27.3 5.7 20 128-147 76-95 (141)
36 PF02631 RecX: RecX family; I 38.9 30 0.00064 28.8 2.9 56 45-102 8-67 (121)
37 PRK00117 recX recombination re 38.3 2.7E+02 0.0057 24.1 13.2 70 228-320 82-153 (157)
38 PRK01655 spxA transcriptional 37.7 97 0.0021 26.3 5.9 102 17-137 10-114 (131)
39 PF11212 DUF2999: Protein of u 37.3 92 0.002 23.5 4.8 57 81-145 2-61 (82)
40 PRK13344 spxA transcriptional 37.3 1E+02 0.0022 26.3 5.9 20 92-111 74-93 (132)
41 COG2137 OraA Uncharacterized p 36.8 3.2E+02 0.0068 24.6 10.2 107 188-319 54-163 (174)
42 cd02977 ArsC_family Arsenate R 36.2 92 0.002 25.0 5.3 19 92-110 74-92 (105)
43 cd03032 ArsC_Spx Arsenate Redu 36.0 1E+02 0.0022 25.3 5.7 20 92-111 74-93 (115)
44 PF06084 Cytomega_TRL10: Cytom 35.5 34 0.00073 28.2 2.5 13 420-432 137-149 (150)
45 KOG3671 Actin regulatory prote 34.3 19 0.00042 37.3 1.1 11 421-431 555-565 (569)
46 PRK10026 arsenate reductase; P 34.2 1.1E+02 0.0024 26.5 5.7 19 92-110 76-94 (141)
47 KOG2023 Nuclear transport rece 33.8 21 0.00045 38.6 1.3 14 421-434 352-365 (885)
48 PRK14134 recX recombination re 33.8 3.3E+02 0.0072 26.4 9.6 92 224-319 182-278 (283)
49 PRK07562 ribonucleotide-diphos 33.5 1.5E+02 0.0032 34.9 7.9 56 192-252 716-774 (1220)
50 cd04788 HTH_NolA-AlbR Helix-Tu 32.7 1.5E+02 0.0032 23.6 5.9 24 298-321 48-71 (96)
51 TIGR01617 arsC_related transcr 31.4 88 0.0019 25.8 4.5 79 20-112 13-95 (117)
52 TIGR01448 recD_rel helicase, p 31.1 3E+02 0.0065 30.7 9.8 83 80-172 77-163 (720)
53 COG3747 Phage terminase, small 31.0 44 0.00096 29.0 2.6 104 166-277 30-134 (160)
54 PRK14134 recX recombination re 30.4 1.4E+02 0.0031 29.0 6.5 57 43-103 90-150 (283)
55 cd03034 ArsC_ArsC Arsenate Red 29.8 1.9E+02 0.0041 23.6 6.3 22 91-112 72-93 (112)
56 PF03884 DUF329: Domain of unk 29.1 32 0.00069 24.9 1.2 24 408-431 34-57 (57)
57 TIGR00014 arsC arsenate reduct 29.1 2E+02 0.0043 23.6 6.3 21 92-112 74-94 (114)
58 cd03033 ArsC_15kD Arsenate Red 28.4 1.2E+02 0.0025 25.1 4.7 21 307-327 71-91 (113)
59 PF07499 RuvA_C: RuvA, C-termi 27.6 76 0.0017 21.7 2.9 22 82-103 5-26 (47)
60 cd03036 ArsC_like Arsenate Red 27.6 2.1E+02 0.0046 23.3 6.2 81 17-112 9-95 (111)
61 PRK00116 ruvA Holliday junctio 27.1 1.2E+02 0.0026 27.6 5.0 25 116-140 149-173 (192)
62 PF14117 DUF4287: Domain of un 27.0 2.3E+02 0.005 20.8 5.4 44 269-317 11-55 (61)
63 PRK12559 transcriptional regul 26.9 1.6E+02 0.0035 25.0 5.5 101 20-139 14-116 (131)
64 PRK14136 recX recombination re 26.4 6.4E+02 0.014 24.9 11.5 132 157-320 170-302 (309)
65 cd04768 HTH_BmrR-like Helix-Tu 26.3 1.7E+02 0.0037 23.2 5.2 24 298-321 48-71 (96)
66 cd01106 HTH_TipAL-Mta Helix-Tu 25.9 2.1E+02 0.0045 22.9 5.8 24 298-321 48-71 (103)
67 cd04781 HTH_MerR-like_sg6 Heli 25.6 2E+02 0.0042 23.9 5.7 23 298-320 47-69 (120)
68 PF10007 DUF2250: Uncharacteri 25.3 67 0.0014 25.7 2.6 43 20-63 10-53 (92)
69 cd01392 HTH_LacI Helix-turn-he 25.1 1.6E+02 0.0035 19.8 4.4 13 234-246 7-19 (52)
70 COG3956 Protein containing tet 25.1 3.1E+02 0.0066 27.5 7.5 69 206-280 319-393 (488)
71 PRK13344 spxA transcriptional 24.8 2.2E+02 0.0048 24.1 6.0 21 45-65 10-30 (132)
72 cd04763 HTH_MlrA-like Helix-Tu 24.4 2.8E+02 0.0061 20.1 5.9 20 298-317 48-67 (68)
73 PF00356 LacI: Bacterial regul 24.4 1.8E+02 0.0039 19.9 4.3 16 233-248 8-23 (46)
74 PF13443 HTH_26: Cro/C1-type H 24.0 1.3E+02 0.0028 21.3 3.8 15 269-283 18-32 (63)
75 cd04780 HTH_MerR-like_sg5 Heli 23.7 2.7E+02 0.0057 22.1 5.9 37 298-340 48-85 (95)
76 COG1393 ArsC Arsenate reductas 23.6 2.6E+02 0.0057 23.3 6.0 42 44-93 10-53 (117)
77 PF12244 DUF3606: Protein of u 22.9 87 0.0019 22.5 2.6 22 264-285 23-44 (57)
78 COG3620 Predicted transcriptio 22.8 70 0.0015 28.4 2.4 78 27-130 15-98 (187)
79 KOG0772 Uncharacterized conser 22.5 42 0.0009 35.2 1.1 19 417-435 132-150 (641)
80 PF04220 YihI: Der GTPase acti 22.3 34 0.00074 30.5 0.4 59 365-435 107-165 (169)
81 cd01107 HTH_BmrR Helix-Turn-He 22.2 2.6E+02 0.0057 22.6 5.7 25 298-322 49-73 (108)
82 cd04782 HTH_BltR Helix-Turn-He 22.0 2.4E+02 0.0053 22.3 5.4 22 298-319 48-69 (97)
83 cd01109 HTH_YyaN Helix-Turn-He 21.9 2.4E+02 0.0052 23.0 5.5 22 298-319 48-69 (113)
84 PF02787 CPSase_L_D3: Carbamoy 21.7 52 0.0011 27.8 1.4 28 80-108 13-40 (123)
85 PF15539 CAF1-p150_C2: CAF1 co 21.5 49 0.0011 31.6 1.3 38 385-433 212-249 (292)
86 KOG0400 40S ribosomal protein 21.4 3.1E+02 0.0066 23.4 5.8 59 44-102 29-93 (151)
87 cd08306 Death_FADD Fas-associa 20.5 2.1E+02 0.0046 22.2 4.6 39 83-125 16-54 (86)
88 cd03035 ArsC_Yffb Arsenate Red 20.5 2.8E+02 0.0061 22.4 5.5 18 129-146 73-90 (105)
89 PRK10853 putative reductase; P 20.5 1.1E+02 0.0025 25.4 3.2 17 310-326 76-92 (118)
90 PF11212 DUF2999: Protein of u 20.5 3.6E+02 0.0078 20.4 5.4 47 189-243 2-48 (82)
91 PRK14137 recX recombination re 20.5 4.5E+02 0.0097 24.1 7.4 105 21-139 59-178 (195)
92 cd04775 HTH_Cfa-like Helix-Tur 20.4 3.1E+02 0.0068 21.9 5.7 22 298-319 48-69 (102)
93 cd04770 HTH_HMRTR Helix-Turn-H 20.1 2.4E+02 0.0052 23.3 5.2 23 298-320 48-70 (123)
No 1
>PLN03196 MOC1-like protein; Provisional
Probab=100.00 E-value=1.4e-90 Score=715.05 Aligned_cols=442 Identities=68% Similarity=1.157 Sum_probs=432.5
Q ss_pred CCcceeeeEeeccccchhhHHHHHHHHhCCCCCccccCCCCCccHHHHHHHHHHHHHCCCCccccccCCccccccccccc
Q 048759 1 MPSVTWGVVQGKKEKLVNRVKICDYLKSLGIIPDELENLELPSTIEVMEERVMFLQKLGLTIDDINEYPLMLGCSMRKNM 80 (442)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~L~~~Gi~~~~i~~~~~~~~~~~~~~~l~~L~~lG~s~~~i~~~P~ll~~~~~~~l 80 (442)
|||||||.|++|.++..+...+++||+++||+++.+.++.+|++++.++++++||+++|++.++|+++|.+|++++.+++
T Consensus 45 ~~~~~~~~~~~~~~~~~~~~~~~~~L~~lgi~~~~l~~~~~p~~~~~~~~~l~~L~s~G~~~~~i~~~P~iL~~~v~~~l 124 (487)
T PLN03196 45 RPSVTWGLLEMKKEKLVNREKVLDFLRGIGIDPDELDGLELPSTVDVMRERVEFLHKLGLTIEDINEYPLVLGCSVKKNM 124 (487)
T ss_pred CCchHHHHHHhhhhhhhhHHHHHHHHHHcCCCchhhhccCCCccHHHHHHHHHHHHHcCCChHHhccCcHHhhcCHhhhh
Confidence 79999999999999999999999999999999999999989999999999999999999999999999999999999999
Q ss_pred hHHHHHHHHcCCChhhHHHHHHhCCccccccccccHHHHHHHHHhCCCCCChHHHHHhhcCcccccccchhHHHHHHHHH
Q 048759 81 IPVFSYLEKIGIAKSKLGEFVKKYPQVLHASVVVELMPVVKFLRGLDVEKEDIGYVLMKYPELLGFKLEGTMSTSVAYLV 160 (442)
Q Consensus 81 ~~~l~~L~~lG~s~~~i~~lv~~~P~lL~~~~~~~l~~~v~fL~~lG~~~~~i~~il~~~P~lL~~s~e~~l~~~v~~L~ 160 (442)
.|+++||.++|++..++++++.++|++|.+++++++.|+++||+++|++++++++++.++|++|++++++++.++++||+
T Consensus 125 ~Pvl~fL~~lG~s~~~i~~lI~~~P~lL~~sve~~L~P~v~fL~~lGvs~~~i~~~l~r~P~LL~~~~e~~l~p~v~fL~ 204 (487)
T PLN03196 125 IPVLDYLEKLGVTRSSLPELLRRYPQVLHASVVVDLAPVVKYLQGLDVKRQDIPRVLERYPELLGFKLEGTMSTSVAYLV 204 (487)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHhCCceecccHHHHHHHHHHHHHHcCCCHHHHHHHHHhCchhhcCCHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhCCCccccccccccCCceeecccccchHHHHHHHHhcCCChHHHHHHHHhcchhcccCcccchhhhHHHHHhhcCChHH
Q 048759 161 SIGVSPRDIGPMVTQYPYFLGMRVGTMIKPLVDYLVSLGLPIKILARMLEKRVYILGYDLEETVKPNVDCLISFGIRREK 240 (442)
Q Consensus 161 ~lG~~~~~i~~li~~~P~lL~~s~~~~l~p~v~~L~~lG~~~~~i~~~l~~~P~il~~s~e~~l~~~v~~L~~~G~~~~~ 240 (442)
++|++.++|++++.++|++|+++++++++|+++||+++|++.+++.+++.++|++|+++++++++|++++|+++|+++++
T Consensus 205 ~lGvs~~~i~~il~~~P~iL~~sve~~i~P~v~fL~~lGv~~~~I~~il~~~P~iL~~sle~~lkp~v~~L~elGv~~~~ 284 (487)
T PLN03196 205 SIGVAPRDIGPMLTRFPEILGMRVGNNIKPKVDYLESLGLPRLAVARILEKRPYILGFDLEETVKPNVECLLEFGVRKEA 284 (487)
T ss_pred HcCCCHHHHHHHHHhCcHHhhcChhhhHHHHHHHHHHcCCCHHHHHHHHHhCCceeEcCHHHhHHHHHHHHHHcCCCHHH
Confidence 99999999999999999999999999999999999999999999999999999999999998999999999999999999
Q ss_pred HHHHHHhCCcccccChhhhhhhHHHHHHHhcCCChhHHHHHHHhcccccchhhhhHHHHHHHHHhcCCChhHHHHHHhhc
Q 048759 241 LASVIAQYPQIIGLPLKAKMSSQLYFFNLKLKIDPDEFAQVVEKMPQVVSLNQHVIMKSVEFLLGRGIPSGDLAKMVVQC 320 (442)
Q Consensus 241 i~~~i~~~P~iL~~~~~~~l~~~~~~l~~~lG~~~~~v~~~i~~~P~il~~s~~~l~~k~~fl~~~G~s~~~i~~~v~~~ 320 (442)
+..++.++|.+++++.++++++++.|+.+++|++++++..++.++|.++++|+++|++|++||.++||+.++|..|++++
T Consensus 285 i~~lI~~~P~iL~~s~e~kl~~~~~fL~~~lG~s~e~i~~~v~k~P~il~lSe~kl~~kvefL~~~Gls~edI~~mv~k~ 364 (487)
T PLN03196 285 LPSVIAQYPDILGLDLKAKLAEQQYWLTSKLKIDPEDFGRVIEKLPQIVSLNRNVALKHVEFLRGRGFSAQDVAKMVVRC 364 (487)
T ss_pred HHHHHHhCCceeEecHHHhhhHHHHHHHHhhCCCHHHHHHHHHhcchhhcccHHHHHHHHHHHHHcCCCHHHHHHHHHhC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CcccccChhhhHhHHHHHHHHhCCChhhHhhcCcccccccccccHHHHHHHHHcCCCcchhhhhcCChhhHHHHHhhccc
Q 048759 321 PQLIACRVELMKNSFYFFKSEMGRPIKELIEFPEYFTYSLESRIKPRYQRLQSKGIRCSMNWFLNCSDQRFEERLLGNYI 400 (442)
Q Consensus 321 P~iL~~S~e~l~~r~~fL~~~mg~~~~~v~~~P~~L~~Slekri~pR~~~L~~~G~~~~l~~~l~~sd~~F~~~~~~~~~ 400 (442)
|++|++|.++|++|++||+++||++.++|+++|+||+||||+||+|||++|+++|+.+++.+++++||++|+++|+.+|.
T Consensus 365 P~lL~~S~~~l~~k~dFlvneMg~~~~~Iv~fP~~LsySLEkRI~PR~~~L~~kGl~~sL~~~L~~sd~~F~~r~v~~y~ 444 (487)
T PLN03196 365 PQILALNLEIMKPSLEFFKKEMKRPLKELVEFPAYFTYGLESRIKPRYERVAKKGIKCSLAWFLNCSDDKFEQRMSGDFI 444 (487)
T ss_pred CceeeccHHHHHHHHHHHHHHhCCCHHHHHhChHHhccChhhhhHHHHHHHHHcCCCCCHHHHhccCHHHHHHHHhhhcc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccccCCCccccCCeecCCCCCCCCCcccCC-ccceeeecccCC
Q 048759 401 ESESSGPSFCIGGKLVLPGSEVVSDEEDES-DDEVLYKRTVSL 442 (442)
Q Consensus 401 e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~ 442 (442)
|+|++.+.++.+|++..+|++.++|||+|| |||++|.|||++
T Consensus 445 e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 487 (487)
T PLN03196 445 EGEEMEPLFSMGGKLEMPGSESVSDEEDDDDDDEVLYRRTVSL 487 (487)
T ss_pred cccccCCCcccCCcccCCCCccccCcccccchHHHHhhhhccC
Confidence 999999999999999999999988876654 556699999985
No 2
>PF02536 mTERF: mTERF; InterPro: IPR003690 This family currently contains one sequence of known function human mitochondrial transcription termination factor (mTERF), a multizipper protein but binds to DNA as a monomer, with evidence pointing to intramolecular leucine zipper interactions []. The precursors contain a mitochondrial targeting sequence, and the mature mTERF exhibits three leucine zippers, of which one is bipartite, and two widely spaced basic domains. Both basic domains and the three leucine zipper motifs are necessary for DNA binding. The leucine zippers are not implicated in a dimerisation role as in other leucine zippers []. The rest of the family consists of hypothetical proteins none of which have any functional information.; PDB: 3M66_A 3OPG_A 3MVA_O 3MVB_O 3N7Q_A 3N6S_A.
Probab=100.00 E-value=4.5e-55 Score=438.16 Aligned_cols=335 Identities=33% Similarity=0.646 Sum_probs=266.2
Q ss_pred HHHHHCCCCccccc----cCCccccccccccchHHHHHHHHcCCChhhHHHHHHhCCccccccccccHHHHHHHHHhCCC
Q 048759 53 MFLQKLGLTIDDIN----EYPLMLGCSMRKNMIPVFSYLEKIGIAKSKLGEFVKKYPQVLHASVVVELMPVVKFLRGLDV 128 (442)
Q Consensus 53 ~~L~~lG~s~~~i~----~~P~ll~~~~~~~l~~~l~~L~~lG~s~~~i~~lv~~~P~lL~~~~~~~l~~~v~fL~~lG~ 128 (442)
++|+++||++.+|. ++|.++.+++++++.|+++||.+.|++..+++++++++|.++.++.++++.|+++||+++|+
T Consensus 2 ~~~~~~gf~~~~i~~~i~~~P~~l~~~~~~~l~pk~~fl~s~G~s~~~i~~il~~~P~il~~s~~~~i~p~~~~L~~~~~ 81 (345)
T PF02536_consen 2 DLLKNHGFSDSQISKLIRRYPRLLLCDPEKTLLPKLEFLRSLGFSSSDIAKILSKNPQILSRSLEKNIIPVFDFLKSIGL 81 (345)
T ss_dssp HHHHHHHHHTS-HHHHHH-H-HHHHT-SS-HHHHHHHHHHHTT--HHHHHHHHHH-GGGGGS--HHHHHHHHHHHTTTSS
T ss_pred hHHHHcCCCHHHHHHHHHhCCceEEecCccchhHHHHHHHHCCCCHHHHHHHHHhChHHHhccchhhHHHHHHHHHHHcC
Confidence 57889999999986 69999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCChHHHHHhhcCcccccccchhHHHHHHHHHHhCCCccccccccccCCceeecccccchHHHHHHHHhcCCChHHHHHH
Q 048759 129 EKEDIGYVLMKYPELLGFKLEGTMSTSVAYLVSIGVSPRDIGPMVTQYPYFLGMRVGTMIKPLVDYLVSLGLPIKILARM 208 (442)
Q Consensus 129 ~~~~i~~il~~~P~lL~~s~e~~l~~~v~~L~~lG~~~~~i~~li~~~P~lL~~s~~~~l~p~v~~L~~lG~~~~~i~~~ 208 (442)
+++++.+++.++|++|+.+.+.++.++++||+++|++.+.+.+++..+|..+... +++++.++++.++|++++++.++
T Consensus 82 s~~d~~~~l~r~p~~l~~~~~~~l~~~v~~L~~lGv~~~~~~~~l~~~~~~~~~~--~~~~~~v~~l~~lG~~~~~~~~v 159 (345)
T PF02536_consen 82 SDEDIVKVLKRYPRILSFSVEENLSPNVAFLRSLGVPPSQIISLLISRPPLFLSS--EKIKERVEFLKELGFDPEKIGRV 159 (345)
T ss_dssp -HHHHHHHHHH-SHHHHS---HHHHHHHHHHHHTT--HHHHHHHHHH-CHHHHS---HHHHCHHHHHCCCTSSHHHHCCC
T ss_pred CHHHHHHHHHhcchhhccchHhhhhhhhhHHhhcCCcHHHHHHHHHhcCccccch--hHHHHHHHHHHHhCCCchhhccc
Confidence 9999999999999999999888999999999999999988888888888876555 58999999999999999999999
Q ss_pred HHhcchhcccCcccchhhhHHHHHhhcCChHHHHHHHHhCCcccccChhhhhhhHHHHHHHhcCCChhHHHHHHHhcccc
Q 048759 209 LEKRVYILGYDLEETVKPNVDCLISFGIRREKLASVIAQYPQIIGLPLKAKMSSQLYFFNLKLKIDPDEFAQVVEKMPQV 288 (442)
Q Consensus 209 l~~~P~il~~s~e~~l~~~v~~L~~~G~~~~~i~~~i~~~P~iL~~~~~~~l~~~~~~l~~~lG~~~~~v~~~i~~~P~i 288 (442)
+..+|+++..+.++.+++++++|+++|++.+++.+++.++|.++..+.++.+++...++ ...|...+ .++.++|.+
T Consensus 160 i~~~P~~l~~~~~~~~~~~v~~L~~~G~~~~~i~~~l~~~P~~l~~s~~~~l~~~~~l~-~~~~~~~~---~~i~~~p~i 235 (345)
T PF02536_consen 160 IAKNPRLLLSDSESELKPKVEFLRSLGFSKEDIGKLLRKCPRLLSLSVEKILEPVLYLL-SSGGVEEE---RVIKKFPQI 235 (345)
T ss_dssp HHHHHHHHCGSCCCCCHHHHHHHHHCTT-GHHHHHHHHHTTTGGGCGCHC------------------------------
T ss_pred ccccchhhccccHHHHHHHHHHHHhhcccchhhhHHhhcccceeccccccccccccccc-cccccccc---ccccccccc
Confidence 99999888888778999999999999999999999999999999999998777665554 44555544 889999999
Q ss_pred cchhhhhHHHHHHHHHhcCCChhHHHHHHhhcCcccccChhhhHhHHHHHHHHhCCChhhHhhcCcccccccccccHHH-
Q 048759 289 VSLNQHVIMKSVEFLLGRGIPSGDLAKMVVQCPQLIACRVELMKNSFYFFKSEMGRPIKELIEFPEYFTYSLESRIKPR- 367 (442)
Q Consensus 289 l~~s~~~l~~k~~fl~~~G~s~~~i~~~v~~~P~iL~~S~e~l~~r~~fL~~~mg~~~~~v~~~P~~L~~Slekri~pR- 367 (442)
+..+.+++.++++||.++|||.+++++|+.++|++|++|.+++++|++||+++||++.++|+++|++|+||+|+||+||
T Consensus 236 l~~~~~~l~~~i~~L~~lG~s~~ei~~mv~~~P~iL~~s~e~l~~k~~fl~~~m~~~~~~i~~~P~~l~~sLe~ri~PR~ 315 (345)
T PF02536_consen 236 LSLSEEKLKPKIEFLQSLGFSEEEIAKMVRRFPQILSYSIEKLKPKFEFLVKEMGLPLEEIVEFPQYLSYSLEKRIKPRY 315 (345)
T ss_dssp -THHHHHHHHHHHHHHTTT--HHHHHHHHHHSGGGGGS-HHHHHHHHHHHHHCCT--HHHHHHSCHHHCS-HHHHHHHHH
T ss_pred cccchHhHHHHHHHHHHhcCcHHHHHHHHHhCcchhhcchhhhhHHHHHHHHHhCcCHHHHhhCCceeEechhhhhhhHH
Confidence 9999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred --HHHHHHcC--CCcchhhhhcCChhhHHH
Q 048759 368 --YQRLQSKG--IRCSMNWFLNCSDQRFEE 393 (442)
Q Consensus 368 --~~~L~~~G--~~~~l~~~l~~sd~~F~~ 393 (442)
+++|+++| ..+++.+++.+||++|++
T Consensus 316 ~~~~~l~~~g~~~~~sl~~~l~~s~~~F~~ 345 (345)
T PF02536_consen 316 EVLKVLKSKGLIINPSLSSMLSCSDEEFLK 345 (345)
T ss_dssp HHHHTT--TTTGGGGGS-HHHHHHHHHHT-
T ss_pred HHHHHHHHCcCCCCCCHHHHhhccHHHhcC
Confidence 56788999 678999999999999974
No 3
>PLN03196 MOC1-like protein; Provisional
Probab=100.00 E-value=1.3e-51 Score=425.39 Aligned_cols=339 Identities=24% Similarity=0.461 Sum_probs=313.4
Q ss_pred hhHHHHHHHHhCCCCCccccCCCC--CccH-HHHHHHHHHHHHCCCCccccc----cCCccccccccccchHHHHHHHHc
Q 048759 18 NRVKICDYLKSLGIIPDELENLEL--PSTI-EVMEERVMFLQKLGLTIDDIN----EYPLMLGCSMRKNMIPVFSYLEKI 90 (442)
Q Consensus 18 ~~~~~~~~L~~~Gi~~~~i~~~~~--~~~~-~~~~~~l~~L~~lG~s~~~i~----~~P~ll~~~~~~~l~~~l~~L~~l 90 (442)
.....++||+++|++.++|++++. .+++ ..+.++++||+++|++.+++. ++|.+|.++++.++.|+++||+++
T Consensus 91 ~~~~~l~~L~s~G~~~~~i~~~P~iL~~~v~~~l~Pvl~fL~~lG~s~~~i~~lI~~~P~lL~~sve~~L~P~v~fL~~l 170 (487)
T PLN03196 91 VMRERVEFLHKLGLTIEDINEYPLVLGCSVKKNMIPVLDYLEKLGVTRSSLPELLRRYPQVLHASVVVDLAPVVKYLQGL 170 (487)
T ss_pred HHHHHHHHHHHcCCChHHhccCcHHhhcCHhhhhHHHHHHHHHcCCCHHHHHHHHHhCCceecccHHHHHHHHHHHHHHc
Confidence 345689999999999999998863 3454 589999999999999999986 899999999999999999999999
Q ss_pred CCChhhHHHHHHhCCccccccccccHHHHHHHHHhCCCCCChHHHHHhhcCcccccccchhHHHHHHHHHHhCCCccccc
Q 048759 91 GIAKSKLGEFVKKYPQVLHASVVVELMPVVKFLRGLDVEKEDIGYVLMKYPELLGFKLEGTMSTSVAYLVSIGVSPRDIG 170 (442)
Q Consensus 91 G~s~~~i~~lv~~~P~lL~~~~~~~l~~~v~fL~~lG~~~~~i~~il~~~P~lL~~s~e~~l~~~v~~L~~lG~~~~~i~ 170 (442)
|++.+++.+++.++|++|++++++++.|+++||+++|++++++++++.++|.+|+++++++++|+++||+++|++.++|+
T Consensus 171 Gvs~~~i~~~l~r~P~LL~~~~e~~l~p~v~fL~~lGvs~~~i~~il~~~P~iL~~sve~~i~P~v~fL~~lGv~~~~I~ 250 (487)
T PLN03196 171 DVKRQDIPRVLERYPELLGFKLEGTMSTSVAYLVSIGVAPRDIGPMLTRFPEILGMRVGNNIKPKVDYLESLGLPRLAVA 250 (487)
T ss_pred CCCHHHHHHHHHhCchhhcCCHHHHHHHHHHHHHHcCCCHHHHHHHHHhCcHHhhcChhhhHHHHHHHHHHcCCCHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccccCCceeecccccchHHHHHHHHhcCCChHHHHHHHHhcchhcccCcccchhhhHHHHH-hhcCChHHHHHHHHhCC
Q 048759 171 PMVTQYPYFLGMRVGTMIKPLVDYLVSLGLPIKILARMLEKRVYILGYDLEETVKPNVDCLI-SFGIRREKLASVIAQYP 249 (442)
Q Consensus 171 ~li~~~P~lL~~s~~~~l~p~v~~L~~lG~~~~~i~~~l~~~P~il~~s~e~~l~~~v~~L~-~~G~~~~~i~~~i~~~P 249 (442)
+++.++|++|+++++++++|++++|+++|++++.+..++.++|.++++++++++.+++.+|. ++|++++++.+++.++|
T Consensus 251 ~il~~~P~iL~~sle~~lkp~v~~L~elGv~~~~i~~lI~~~P~iL~~s~e~kl~~~~~fL~~~lG~s~e~i~~~v~k~P 330 (487)
T PLN03196 251 RILEKRPYILGFDLEETVKPNVECLLEFGVRKEALPSVIAQYPDILGLDLKAKLAEQQYWLTSKLKIDPEDFGRVIEKLP 330 (487)
T ss_pred HHHHhCCceeEcCHHHhHHHHHHHHHHcCCCHHHHHHHHHhCCceeEecHHHhhhHHHHHHHHhhCCCHHHHHHHHHhcc
Confidence 99999999999999999999999999999999999999999999999999989999999996 69999999999999999
Q ss_pred cccccChhhhhhhHHHHHHHhcCCChhHHHHHHHhcccccchhhhhHHHHHHHHH-hcCCChhHHHHHHhhcCcccccCh
Q 048759 250 QIIGLPLKAKMSSQLYFFNLKLKIDPDEFAQVVEKMPQVVSLNQHVIMKSVEFLL-GRGIPSGDLAKMVVQCPQLIACRV 328 (442)
Q Consensus 250 ~iL~~~~~~~l~~~~~~l~~~lG~~~~~v~~~i~~~P~il~~s~~~l~~k~~fl~-~~G~s~~~i~~~v~~~P~iL~~S~ 328 (442)
.+++++.+ +++++++|| .++||+.+++..|++++|.++++|.+++++|++||. +||++.++| .++|++|+||+
T Consensus 331 ~il~lSe~-kl~~kvefL-~~~Gls~edI~~mv~k~P~lL~~S~~~l~~k~dFlvneMg~~~~~I----v~fP~~LsySL 404 (487)
T PLN03196 331 QIVSLNRN-VALKHVEFL-RGRGFSAQDVAKMVVRCPQILALNLEIMKPSLEFFKKEMKRPLKEL----VEFPAYFTYGL 404 (487)
T ss_pred hhhcccHH-HHHHHHHHH-HHcCCCHHHHHHHHHhCCceeeccHHHHHHHHHHHHHHhCCCHHHH----HhChHHhccCh
Confidence 99999865 799999999 579999999999999999999999999999999999 699999998 59999999999
Q ss_pred h-hhHhHHHHHHHHhCCChhhHhhcCcccccccccccHHHH
Q 048759 329 E-LMKNSFYFFKSEMGRPIKELIEFPEYFTYSLESRIKPRY 368 (442)
Q Consensus 329 e-~l~~r~~fL~~~mg~~~~~v~~~P~~L~~Slekri~pR~ 368 (442)
| +|+||+++|. +.|+.. ....+|.+| |+++.-|+
T Consensus 405 EkRI~PR~~~L~-~kGl~~----sL~~~L~~s-d~~F~~r~ 439 (487)
T PLN03196 405 ESRIKPRYERVA-KKGIKC----SLAWFLNCS-DDKFEQRM 439 (487)
T ss_pred hhhhHHHHHHHH-HcCCCC----CHHHHhccC-HHHHHHHH
Confidence 9 9999999987 577632 222456665 55666665
No 4
>PF02536 mTERF: mTERF; InterPro: IPR003690 This family currently contains one sequence of known function human mitochondrial transcription termination factor (mTERF), a multizipper protein but binds to DNA as a monomer, with evidence pointing to intramolecular leucine zipper interactions []. The precursors contain a mitochondrial targeting sequence, and the mature mTERF exhibits three leucine zippers, of which one is bipartite, and two widely spaced basic domains. Both basic domains and the three leucine zipper motifs are necessary for DNA binding. The leucine zippers are not implicated in a dimerisation role as in other leucine zippers []. The rest of the family consists of hypothetical proteins none of which have any functional information.; PDB: 3M66_A 3OPG_A 3MVA_O 3MVB_O 3N7Q_A 3N6S_A.
Probab=100.00 E-value=6.7e-41 Score=335.65 Aligned_cols=305 Identities=30% Similarity=0.546 Sum_probs=232.9
Q ss_pred HHHHhCCCCCccccCCC-------CCccHHHHHHHHHHHHHCCCCccccc----cCCccccccccccchHHHHHHHHcCC
Q 048759 24 DYLKSLGIIPDELENLE-------LPSTIEVMEERVMFLQKLGLTIDDIN----EYPLMLGCSMRKNMIPVFSYLEKIGI 92 (442)
Q Consensus 24 ~~L~~~Gi~~~~i~~~~-------~~~~~~~~~~~l~~L~~lG~s~~~i~----~~P~ll~~~~~~~l~~~l~~L~~lG~ 92 (442)
+.|++.|.+...|.+.. +..+-..+.++++||.++|++..++. ++|.++..+..+++.|.++||+++|+
T Consensus 2 ~~~~~~gf~~~~i~~~i~~~P~~l~~~~~~~l~pk~~fl~s~G~s~~~i~~il~~~P~il~~s~~~~i~p~~~~L~~~~~ 81 (345)
T PF02536_consen 2 DLLKNHGFSDSQISKLIRRYPRLLLCDPEKTLLPKLEFLRSLGFSSSDIAKILSKNPQILSRSLEKNIIPVFDFLKSIGL 81 (345)
T ss_dssp HHHHHHHHHTS-HHHHHH-H-HHHHT-SS-HHHHHHHHHHHTT--HHHHHHHHHH-GGGGGS--HHHHHHHHHHHTTTSS
T ss_pred hHHHHcCCCHHHHHHHHHhCCceEEecCccchhHHHHHHHHCCCCHHHHHHHHHhChHHHhccchhhHHHHHHHHHHHcC
Confidence 57888898888877652 12455689999999999999999985 89999999988899999999999999
Q ss_pred ChhhHHHHHHhCCccccccccccHHHHHHHHHhCCCCCChHHHHHhhcCcccccccchhHHHHHHHHHHhCCCccccccc
Q 048759 93 AKSKLGEFVKKYPQVLHASVVVELMPVVKFLRGLDVEKEDIGYVLMKYPELLGFKLEGTMSTSVAYLVSIGVSPRDIGPM 172 (442)
Q Consensus 93 s~~~i~~lv~~~P~lL~~~~~~~l~~~v~fL~~lG~~~~~i~~il~~~P~lL~~s~e~~l~~~v~~L~~lG~~~~~i~~l 172 (442)
+++++.+++.++|+++..+.+.++.+++.||+++|++.+.+.+++..+|.++... +.+.+.++++.++|++++++.++
T Consensus 82 s~~d~~~~l~r~p~~l~~~~~~~l~~~v~~L~~lGv~~~~~~~~l~~~~~~~~~~--~~~~~~v~~l~~lG~~~~~~~~v 159 (345)
T PF02536_consen 82 SDEDIVKVLKRYPRILSFSVEENLSPNVAFLRSLGVPPSQIISLLISRPPLFLSS--EKIKERVEFLKELGFDPEKIGRV 159 (345)
T ss_dssp -HHHHHHHHHH-SHHHHS---HHHHHHHHHHHHTT--HHHHHHHHHH-CHHHHS---HHHHCHHHHHCCCTSSHHHHCCC
T ss_pred CHHHHHHHHHhcchhhccchHhhhhhhhhHHhhcCCcHHHHHHHHHhcCccccch--hHHHHHHHHHHHhCCCchhhccc
Confidence 9999999999999999998877999999999999999988888898888877665 67999999999999999999999
Q ss_pred cccCCceeecccccchHHHHHHHHhcCCChHHHHHHHHhcchhcccCcccchhhhHHHHHhhcCChHHHHHHHHhCCccc
Q 048759 173 VTQYPYFLGMRVGTMIKPLVDYLVSLGLPIKILARMLEKRVYILGYDLEETVKPNVDCLISFGIRREKLASVIAQYPQII 252 (442)
Q Consensus 173 i~~~P~lL~~s~~~~l~p~v~~L~~lG~~~~~i~~~l~~~P~il~~s~e~~l~~~v~~L~~~G~~~~~i~~~i~~~P~iL 252 (442)
+..+|+++.++.+++++|+++||+++|++.+++.+++.++|+++..++++.+++...++...|...+ .++.++|.++
T Consensus 160 i~~~P~~l~~~~~~~~~~~v~~L~~~G~~~~~i~~~l~~~P~~l~~s~~~~l~~~~~l~~~~~~~~~---~~i~~~p~il 236 (345)
T PF02536_consen 160 IAKNPRLLLSDSESELKPKVEFLRSLGFSKEDIGKLLRKCPRLLSLSVEKILEPVLYLLSSGGVEEE---RVIKKFPQIL 236 (345)
T ss_dssp HHHHHHHHCGSCCCCCHHHHHHHHHCTT-GHHHHHHHHHTTTGGGCGCHC------------------------------
T ss_pred ccccchhhccccHHHHHHHHHHHHhhcccchhhhHHhhcccceeccccccccccccccccccccccc---cccccccccc
Confidence 9999998888888899999999999999999999999999999999998556655545444444444 8899999999
Q ss_pred ccChhhhhhhHHHHHHHhcCCChhHHHHHHHhcccccchhhhhHHHHHHHHH-hcCCChhHHHHHHhhcCcccccChh-h
Q 048759 253 GLPLKAKMSSQLYFFNLKLKIDPDEFAQVVEKMPQVVSLNQHVIMKSVEFLL-GRGIPSGDLAKMVVQCPQLIACRVE-L 330 (442)
Q Consensus 253 ~~~~~~~l~~~~~~l~~~lG~~~~~v~~~i~~~P~il~~s~~~l~~k~~fl~-~~G~s~~~i~~~v~~~P~iL~~S~e-~ 330 (442)
.++ .+++.+++++| .++||+.+++.+|+.++|+++++|.+++++|++||. +||++.++| .++|++|+||+| +
T Consensus 237 ~~~-~~~l~~~i~~L-~~lG~s~~ei~~mv~~~P~iL~~s~e~l~~k~~fl~~~m~~~~~~i----~~~P~~l~~sLe~r 310 (345)
T PF02536_consen 237 SLS-EEKLKPKIEFL-QSLGFSEEEIAKMVRRFPQILSYSIEKLKPKFEFLVKEMGLPLEEI----VEFPQYLSYSLEKR 310 (345)
T ss_dssp THH-HHHHHHHHHHH-HTTT--HHHHHHHHHHSGGGGGS-HHHHHHHHHHHHHCCT--HHHH----HHSCHHHCS-HHHH
T ss_pred ccc-hHhHHHHHHHH-HHhcCcHHHHHHHHHhCcchhhcchhhhhHHHHHHHHHhCcCHHHH----hhCCceeEechhhh
Confidence 988 45799999999 679999999999999999999999999999999999 699999998 599999999999 8
Q ss_pred hHhHHHHHH
Q 048759 331 MKNSFYFFK 339 (442)
Q Consensus 331 l~~r~~fL~ 339 (442)
|+||++++.
T Consensus 311 i~PR~~~~~ 319 (345)
T PF02536_consen 311 IKPRYEVLK 319 (345)
T ss_dssp HHHHHHHHH
T ss_pred hhhHHHHHH
Confidence 999955553
No 5
>KOG1267 consensus Mitochondrial transcription termination factor, mTERF [Transcription; General function prediction only]
Probab=99.96 E-value=3.9e-29 Score=255.78 Aligned_cols=314 Identities=26% Similarity=0.478 Sum_probs=275.9
Q ss_pred HHHHHHHHHHHCCCCccccc----cCCccccccccccchHHHHHHHHcCCChhhHHHHHHhCCccccccccccHHHHHHH
Q 048759 47 VMEERVMFLQKLGLTIDDIN----EYPLMLGCSMRKNMIPVFSYLEKIGIAKSKLGEFVKKYPQVLHASVVVELMPVVKF 122 (442)
Q Consensus 47 ~~~~~l~~L~~lG~s~~~i~----~~P~ll~~~~~~~l~~~l~~L~~lG~s~~~i~~lv~~~P~lL~~~~~~~l~~~v~f 122 (442)
+...++++|.++|++..+++ .+|.++..+.++.+.+.+.+|...|++...+.++++..|.++..+...++.+.++|
T Consensus 90 ~p~s~~~~l~s~g~~~~~i~s~i~~~p~ll~~~~~~~l~~~~~~l~~~g~~~s~l~~i~s~~~~il~~~~~~~~~~~~~~ 169 (413)
T KOG1267|consen 90 NPSSVLSSLRSLGFTDSQISSIILSSPKLLYLSSENILKPKLRLLDSLGLPSSELSSIVSVVPKILLKSKGESLSTFIEF 169 (413)
T ss_pred CcHHHHHHHHhcCCchhhcccccccCchhhhccchhhhhhhhhhhhccCccccccchhhhccHHHHHhhcCCchhhHHHH
Confidence 33567889999999999986 67999999999889999989999999999999999999999988877899999999
Q ss_pred HHhCC--CCCChHHHHHhhcCcccccccchhHHHHHHHHHHhCCCccccccccccCCceeecccccchHHHHHHHHhcCC
Q 048759 123 LRGLD--VEKEDIGYVLMKYPELLGFKLEGTMSTSVAYLVSIGVSPRDIGPMVTQYPYFLGMRVGTMIKPLVDYLVSLGL 200 (442)
Q Consensus 123 L~~lG--~~~~~i~~il~~~P~lL~~s~e~~l~~~v~~L~~lG~~~~~i~~li~~~P~lL~~s~~~~l~p~v~~L~~lG~ 200 (442)
|++++ .....+.+.+...|..... +..+. ++++++++|...+++..++..+|....... .+...+.++.++|+
T Consensus 170 l~~~~~~~~~s~~~~~~~~~~~~~~~--~~~v~-~~~~~~~lg~~~~~L~~~l~~~~~~~~~~~--~l~~~~~~i~~~g~ 244 (413)
T KOG1267|consen 170 LKSIPPELLSSVVERLLTPVPSFLLN--ENSVE-RLDIRRELGVKPRLLKSLLESQPRPVLLYL--KLKARLPFLLTLGF 244 (413)
T ss_pred hhccchhhhhhHHHHhcccccccccc--ccccc-cchhhHHhCCCHHHHHHHHhcCccceeeeh--hhhhhhhhHHHhcc
Confidence 99974 7777788777777644332 22344 889999999999999999999999987654 57778899999998
Q ss_pred ChHHHHHHHHhcchhcccCcccchhhhHHHHHhhcCChHHHHHHHHhCCcccccChhhhhhhHHHHHHHhcCCChhHHHH
Q 048759 201 PIKILARMLEKRVYILGYDLEETVKPNVDCLISFGIRREKLASVIAQYPQIIGLPLKAKMSSQLYFFNLKLKIDPDEFAQ 280 (442)
Q Consensus 201 ~~~~i~~~l~~~P~il~~s~e~~l~~~v~~L~~~G~~~~~i~~~i~~~P~iL~~~~~~~l~~~~~~l~~~lG~~~~~v~~ 280 (442)
.+.. +++...|.+++++.++++++++++|+++|++.+++..|+.++|++|+.+.+.++.. .+++.+. .+ +
T Consensus 245 ~p~~--~~~v~~~~~~~~~~~~~i~~kv~~l~~~Gf~~~di~~~~~k~P~~l~~s~~~~~~~-~~~~~~~---~~-~--- 314 (413)
T KOG1267|consen 245 DPKT--REFVKAPILLSYSSEKTLEPKVEVLKSLGFSREEIWKMVKKCPQILGYSVKKNLKT-TEYLLKN---PK-H--- 314 (413)
T ss_pred CCch--hHHHhhhhhhcccccccHHHHHHHHHHcCCCHHHHHHHHHhCchheEeehhhhhHH-HHHHHhc---ch-h---
Confidence 8865 77888999999999999999999999999999999999999999999998865554 4445344 22 2
Q ss_pred HHHhcccccchhhhhHHHHHHHHHhcCCChhHHHHHHhhcCcccccChh-hhHhHHHHHHHHhCCChhhHhhcCcccccc
Q 048759 281 VVEKMPQVVSLNQHVIMKSVEFLLGRGIPSGDLAKMVVQCPQLIACRVE-LMKNSFYFFKSEMGRPIKELIEFPEYFTYS 359 (442)
Q Consensus 281 ~i~~~P~il~~s~~~l~~k~~fl~~~G~s~~~i~~~v~~~P~iL~~S~e-~l~~r~~fL~~~mg~~~~~v~~~P~~L~~S 359 (442)
+.++|+++..++.++.++++|+...|++..++..|+.++|+++.+|++ .++++.+|+.+.|+++.+.++.+|+++.|+
T Consensus 315 -~~k~p~~l~~s~~~l~~~ie~l~~~g~~~~q~~~~~~~~Pq~l~~s~~~~~~~~~~~~~~~~~~p~~~~~~~p~~~~y~ 393 (413)
T KOG1267|consen 315 -ILKFPQLLRSSEDKLKPRIEFLLSLGFSDVQILEMVKRFPQYLSFSLEKILKRKYEYLLKGLLRPLSALVSFPAFFGYS 393 (413)
T ss_pred -hhhhhhhhhccchhhhhhHHHHHHcCCcHHHHHHHHhhccHHhhhhHHhhhhhhHHHHHHHcCchHHHHhccchhhccc
Confidence 789999999999999999999999999999999999999999999999 999999999999999999999999999999
Q ss_pred cccccHHHHHHHHHcCC
Q 048759 360 LESRIKPRYQRLQSKGI 376 (442)
Q Consensus 360 lekri~pR~~~L~~~G~ 376 (442)
+++|+.||+.....+|.
T Consensus 394 le~ri~pr~~~~~~~~~ 410 (413)
T KOG1267|consen 394 LEKRIRPRFNVIKKLGV 410 (413)
T ss_pred hhhcchhHHHHHHHHhc
Confidence 99999999998777664
No 6
>KOG1267 consensus Mitochondrial transcription termination factor, mTERF [Transcription; General function prediction only]
Probab=99.89 E-value=8e-23 Score=209.32 Aligned_cols=279 Identities=22% Similarity=0.365 Sum_probs=244.0
Q ss_pred ccchHHHHHHHHcCCChhhHHHHHHhCCccccccccccHHHHHHHHHhCCCCCChHHHHHhhcCcccccccchhHHHHHH
Q 048759 78 KNMIPVFSYLEKIGIAKSKLGEFVKKYPQVLHASVVVELMPVVKFLRGLDVEKEDIGYVLMKYPELLGFKLEGTMSTSVA 157 (442)
Q Consensus 78 ~~l~~~l~~L~~lG~s~~~i~~lv~~~P~lL~~~~~~~l~~~v~fL~~lG~~~~~i~~il~~~P~lL~~s~e~~l~~~v~ 157 (442)
.+...++++|+++|++..++..++..+|.++..+.++.+.|+..+|...|++...+.+++...|.+|+.+...++.+.++
T Consensus 89 ~~p~s~~~~l~s~g~~~~~i~s~i~~~p~ll~~~~~~~l~~~~~~l~~~g~~~s~l~~i~s~~~~il~~~~~~~~~~~~~ 168 (413)
T KOG1267|consen 89 VNPSSVLSSLRSLGFTDSQISSIILSSPKLLYLSSENILKPKLRLLDSLGLPSSELSSIVSVVPKILLKSKGESLSTFIE 168 (413)
T ss_pred cCcHHHHHHHHhcCCchhhcccccccCchhhhccchhhhhhhhhhhhccCccccccchhhhccHHHHHhhcCCchhhHHH
Confidence 46788999999999999999999999999999999999999999999999999999999999999999888788999999
Q ss_pred HHHHhC--CCccccccccccCCceeecccccchHHHHHHHHhcCCChHHHHHHHHhcchhcccCcccchhhhHHHHHhhc
Q 048759 158 YLVSIG--VSPRDIGPMVTQYPYFLGMRVGTMIKPLVDYLVSLGLPIKILARMLEKRVYILGYDLEETVKPNVDCLISFG 235 (442)
Q Consensus 158 ~L~~lG--~~~~~i~~li~~~P~lL~~s~~~~l~p~v~~L~~lG~~~~~i~~~l~~~P~il~~s~e~~l~~~v~~L~~~G 235 (442)
|+++++ .....+.+++...|..... +..++ ++++++++|..+..+...+..+|+.+.... .+...+.++..+|
T Consensus 169 ~l~~~~~~~~~s~~~~~~~~~~~~~~~--~~~v~-~~~~~~~lg~~~~~L~~~l~~~~~~~~~~~--~l~~~~~~i~~~g 243 (413)
T KOG1267|consen 169 FLKSIPPELLSSVVERLLTPVPSFLLN--ENSVE-RLDIRRELGVKPRLLKSLLESQPRPVLLYL--KLKARLPFLLTLG 243 (413)
T ss_pred HhhccchhhhhhHHHHhcccccccccc--ccccc-cchhhHHhCCCHHHHHHHHhcCccceeeeh--hhhhhhhhHHHhc
Confidence 999984 7777777777777644322 23455 899999999999999999999999887653 6778889999999
Q ss_pred CChHHHHHHHHhCCcccccChhhhhhhHHHHHHHhcCCChhHHHHHHHhcccccchhhhhHHHHHHHHHhcCCChhHHHH
Q 048759 236 IRREKLASVIAQYPQIIGLPLKAKMSSQLYFFNLKLKIDPDEFAQVVEKMPQVVSLNQHVIMKSVEFLLGRGIPSGDLAK 315 (442)
Q Consensus 236 ~~~~~i~~~i~~~P~iL~~~~~~~l~~~~~~l~~~lG~~~~~v~~~i~~~P~il~~s~~~l~~k~~fl~~~G~s~~~i~~ 315 (442)
+++.+ +++..+|.++..+.+++++++++++ ..+||+.+++..|+.++|.++++|.+++..++.|+.+. .++
T Consensus 244 ~~p~~--~~~v~~~~~~~~~~~~~i~~kv~~l-~~~Gf~~~di~~~~~k~P~~l~~s~~~~~~~~~~~~~~---~~~--- 314 (413)
T KOG1267|consen 244 FDPKT--REFVKAPILLSYSSEKTLEPKVEVL-KSLGFSREEIWKMVKKCPQILGYSVKKNLKTTEYLLKN---PKH--- 314 (413)
T ss_pred cCCch--hHHHhhhhhhcccccccHHHHHHHH-HHcCCCHHHHHHHHHhCchheEeehhhhhHHHHHHHhc---chh---
Confidence 88887 7888999999999999999999999 67799999999999999999999999999999999965 344
Q ss_pred HHhhcCcccccChhhhHhHHHHHHHHhCCChhhHh----hcCcccccccccccHHHH-HHHHH
Q 048759 316 MVVQCPQLIACRVELMKNSFYFFKSEMGRPIKELI----EFPEYFTYSLESRIKPRY-QRLQS 373 (442)
Q Consensus 316 ~v~~~P~iL~~S~e~l~~r~~fL~~~mg~~~~~v~----~~P~~L~~Slekri~pR~-~~L~~ 373 (442)
+.++|+++.++..++.++++|+. ..|++..+++ .+|++++||+++ +.++. +++..
T Consensus 315 -~~k~p~~l~~s~~~l~~~ie~l~-~~g~~~~q~~~~~~~~Pq~l~~s~~~-~~~~~~~~~~~ 374 (413)
T KOG1267|consen 315 -ILKFPQLLRSSEDKLKPRIEFLL-SLGFSDVQILEMVKRFPQYLSFSLEK-ILKRKYEYLLK 374 (413)
T ss_pred -hhhhhhhhhccchhhhhhHHHHH-HcCCcHHHHHHHHhhccHHhhhhHHh-hhhhhHHHHHH
Confidence 57999999999999999999999 6888876653 479999999998 55555 55544
No 7
>smart00733 Mterf Mitochondrial termination factor repeats. Human mitochondrial termination factor is a DNA-binding protein that acts as a transcription termination factor. Six repeats occur in human mTERF, that also are present in numerous plant proteins.
Probab=97.18 E-value=0.0003 Score=43.63 Aligned_cols=30 Identities=27% Similarity=0.494 Sum_probs=23.4
Q ss_pred HHHhhcCcccccChhhhHhHHHHHHHHhCCC
Q 048759 315 KMVVQCPQLIACRVELMKNSFYFFKSEMGRP 345 (442)
Q Consensus 315 ~~v~~~P~iL~~S~e~l~~r~~fL~~~mg~~ 345 (442)
.++.++|.+|++|.++|+++++||. ++|++
T Consensus 2 ~~~~~~P~il~~~~~~l~~~~~~l~-~~g~~ 31 (31)
T smart00733 2 KILKKFPQILGYSEKKLKPKVEFLK-ELGFS 31 (31)
T ss_pred chhhhCcCcccccHHHhhHHHHHHH-HcCCC
Confidence 3567888888888668888888888 77764
No 8
>smart00733 Mterf Mitochondrial termination factor repeats. Human mitochondrial termination factor is a DNA-binding protein that acts as a transcription termination factor. Six repeats occur in human mTERF, that also are present in numerous plant proteins.
Probab=96.79 E-value=0.00077 Score=41.72 Aligned_cols=25 Identities=32% Similarity=0.812 Sum_probs=9.6
Q ss_pred hhcCcccccccchhHHHHHHHHHHhC
Q 048759 138 MKYPELLGFKLEGTMSTSVAYLVSIG 163 (442)
Q Consensus 138 ~~~P~lL~~s~e~~l~~~v~~L~~lG 163 (442)
.++|.+|+++ +++++++++||+++|
T Consensus 5 ~~~P~il~~~-~~~l~~~~~~l~~~g 29 (31)
T smart00733 5 KKFPQILGYS-EKKLKPKVEFLKELG 29 (31)
T ss_pred hhCcCccccc-HHHhhHHHHHHHHcC
Confidence 3334444333 233333333333333
No 9
>PF11955 PORR: Plant organelle RNA recognition domain; InterPro: IPR021099 The plant organelle RNA recognition (PORR) domain, previously known as DUF860, is a component of group II intron ribonucleoprotein particles in maize chloroplasts. It is required for the splicing of the introns with which it associates, and promotes splicing in the context of a heterodimer with the RNase III-domain protein RNC1. Proteins containing this domain are predicted to localise to mitochondria or chloroplasts []. It seems likely that most PORR proteins function in organellar RNA metabolism [].
Probab=94.76 E-value=0.26 Score=49.06 Aligned_cols=49 Identities=12% Similarity=0.335 Sum_probs=34.7
Q ss_pred HHHHhcccccchhhhh--HHHHHHHHH-hcCCChhHHHHHHhhcCcccccChh
Q 048759 280 QVVEKMPQVVSLNQHV--IMKSVEFLL-GRGIPSGDLAKMVVQCPQLIACRVE 329 (442)
Q Consensus 280 ~~i~~~P~il~~s~~~--l~~k~~fl~-~~G~s~~~i~~~v~~~P~iL~~S~e 329 (442)
+++.-...+|++..++ ...++..|+ ++|++ +.+..++.+||.|+-.|..
T Consensus 242 RaVaVlHElLSLTveKr~~~~~L~~fr~ef~lp-~k~~~~l~rHPgIFYvS~k 293 (335)
T PF11955_consen 242 RAVAVLHELLSLTVEKRTEVDHLTHFRKEFGLP-QKFRRLLLRHPGIFYVSLK 293 (335)
T ss_pred HHHHHHHHHHHhhhhhhccHHHHHHHHHHhCCc-HHHHHHHHhCCCeEEEecc
Confidence 3555566777777443 345677777 58887 6777888888888888776
No 10
>cd04790 HTH_Cfa-like_unk Helix-Turn-Helix DNA binding domain of putative Cfa-like transcription regulators. Putative helix-turn-helix (HTH) MerR-like transcription regulator; conserved, Cfa-like, unknown proteins (~172 a.a.). The N-terminal domain of these proteins appears to be related to the HTH domain of Cfa, a cyclopropane fatty acid synthase. These Cfa-like proteins have a unique C-terminal domain with conserved histidines (motif HXXFX7HXXF). Based on sequence similarity of the N-terminal domains, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domain
Probab=82.93 E-value=8.3 Score=34.60 Aligned_cols=41 Identities=17% Similarity=0.256 Sum_probs=24.3
Q ss_pred HhcCCChhHHHHHHHhcccccchhhhhHHHHHHHHHhcCCChhHHHH
Q 048759 269 LKLKIDPDEFAQVVEKMPQVVSLNQHVIMKSVEFLLGRGIPSGDLAK 315 (442)
Q Consensus 269 ~~lG~~~~~v~~~i~~~P~il~~s~~~l~~k~~fl~~~G~s~~~i~~ 315 (442)
...|+++++...+-..+- ...=..-.+||.++|++.+++..
T Consensus 126 ~~~g~~~~~m~~wh~~fe------~~~p~~h~~~l~~~g~~~~~~~~ 166 (172)
T cd04790 126 KAAGMDEADMRRWHIEFE------KMEPEAHQEFLQSLGIPEDEIER 166 (172)
T ss_pred HHcCCChHHHHHHHHHHH------HhCcHHHHHHHHHcCCCHHHHHH
Confidence 566777766544322210 00112457899999999999853
No 11
>cd04790 HTH_Cfa-like_unk Helix-Turn-Helix DNA binding domain of putative Cfa-like transcription regulators. Putative helix-turn-helix (HTH) MerR-like transcription regulator; conserved, Cfa-like, unknown proteins (~172 a.a.). The N-terminal domain of these proteins appears to be related to the HTH domain of Cfa, a cyclopropane fatty acid synthase. These Cfa-like proteins have a unique C-terminal domain with conserved histidines (motif HXXFX7HXXF). Based on sequence similarity of the N-terminal domains, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domain
Probab=82.56 E-value=2.5 Score=38.02 Aligned_cols=48 Identities=19% Similarity=0.214 Sum_probs=27.7
Q ss_pred HHHHHHHHhcCCChHHHHHHHHhcchhcccCcccchhhhHHHHHhhcCChHHHHH
Q 048759 189 KPLVDYLVSLGLPIKILARMLEKRVYILGYDLEETVKPNVDCLISFGIRREKLAS 243 (442)
Q Consensus 189 ~p~v~~L~~lG~~~~~i~~~l~~~P~il~~s~e~~l~~~v~~L~~~G~~~~~i~~ 243 (442)
...++.++.+|+++.++.+.=. .+=...++ .-.+||..+|++.+++..
T Consensus 119 ~~w~~l~~~~g~~~~~m~~wh~---~fe~~~p~----~h~~~l~~~g~~~~~~~~ 166 (172)
T cd04790 119 EKWVAILKAAGMDEADMRRWHI---EFEKMEPE----AHQEFLQSLGIPEDEIER 166 (172)
T ss_pred HHHHHHHHHcCCChHHHHHHHH---HHHHhCcH----HHHHHHHHcCCCHHHHHH
Confidence 3455666778888776533211 11122333 456788888888877654
No 12
>COG1125 OpuBA ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]
Probab=71.20 E-value=8.4 Score=36.93 Aligned_cols=65 Identities=14% Similarity=0.230 Sum_probs=36.6
Q ss_pred hhhHHHHHHHHH-hcC-CChhHHHHHHhhcCcccccChhhhHhHHHHHHHHhCCChh-hHhhcCcccc
Q 048759 293 QHVIMKSVEFLL-GRG-IPSGDLAKMVVQCPQLIACRVELMKNSFYFFKSEMGRPIK-ELIEFPEYFT 357 (442)
Q Consensus 293 ~~~l~~k~~fl~-~~G-~s~~~i~~~v~~~P~iL~~S~e~l~~r~~fL~~~mg~~~~-~v~~~P~~L~ 357 (442)
.-.++.++-|.. ..| |+.-.+.+=+.-.|.++.++.++++.|.+-|.+.+|+++. +.-.||.=|+
T Consensus 70 ~~~LRr~IGYviQqigLFPh~Tv~eNIa~VP~L~~w~k~~i~~r~~ELl~lvgL~p~~~~~RyP~eLS 137 (309)
T COG1125 70 PVELRRKIGYVIQQIGLFPHLTVAENIATVPKLLGWDKERIKKRADELLDLVGLDPSEYADRYPHELS 137 (309)
T ss_pred HHHHHHhhhhhhhhcccCCCccHHHHHHhhhhhcCCCHHHHHHHHHHHHHHhCCCHHHHhhcCchhcC
Confidence 334555555554 344 4555555555566666666666666666666666666653 3334554443
No 13
>COG1393 ArsC Arsenate reductase and related proteins, glutaredoxin family [Inorganic ion transport and metabolism]
Probab=68.26 E-value=7.6 Score=32.53 Aligned_cols=42 Identities=26% Similarity=0.366 Sum_probs=20.2
Q ss_pred HHHHHHHHhCCCCCccccCCCCCccHHHHHHHHHHHHHCCCCccc
Q 048759 20 VKICDYLKSLGIIPDELENLELPSTIEVMEERVMFLQKLGLTIDD 64 (442)
Q Consensus 20 ~~~~~~L~~~Gi~~~~i~~~~~~~~~~~~~~~l~~L~~lG~s~~~ 64 (442)
.+...||+..||+...+.-...+-+.+.+ .++++..|.+-++
T Consensus 15 rka~~~L~~~gi~~~~~~y~~~~~s~~eL---~~~l~~~g~~~~~ 56 (117)
T COG1393 15 RKALAWLEEHGIEYTFIDYLKTPPSREEL---KKILSKLGDGVEE 56 (117)
T ss_pred HHHHHHHHHcCCCcEEEEeecCCCCHHHH---HHHHHHcCccHHH
Confidence 34566666666665532222223333333 4555555554444
No 14
>PF11955 PORR: Plant organelle RNA recognition domain; InterPro: IPR021099 The plant organelle RNA recognition (PORR) domain, previously known as DUF860, is a component of group II intron ribonucleoprotein particles in maize chloroplasts. It is required for the splicing of the introns with which it associates, and promotes splicing in the context of a heterodimer with the RNase III-domain protein RNC1. Proteins containing this domain are predicted to localise to mitochondria or chloroplasts []. It seems likely that most PORR proteins function in organellar RNA metabolism [].
Probab=67.91 E-value=8.7 Score=38.38 Aligned_cols=47 Identities=15% Similarity=0.338 Sum_probs=35.3
Q ss_pred HHhcccccchhhh-hH-HHHHHHHH-hcCCChhHHHHHHhhcCcccccCh
Q 048759 282 VEKMPQVVSLNQH-VI-MKSVEFLL-GRGIPSGDLAKMVVQCPQLIACRV 328 (442)
Q Consensus 282 i~~~P~il~~s~~-~l-~~k~~fl~-~~G~s~~~i~~~v~~~P~iL~~S~ 328 (442)
+.+.-.+|.+|.+ .| -.++..+. ++|++.+-...++.++|..+....
T Consensus 103 v~rL~KLLMMS~~~rlpL~ki~~l~~dLGLP~Df~~~lv~~yP~~Frvv~ 152 (335)
T PF11955_consen 103 VERLRKLLMMSKDRRLPLSKIAHLRRDLGLPDDFRDSLVPKYPDYFRVVD 152 (335)
T ss_pred HHHHHHHhccCCCCcccHHHHHHHHHHcCCChhhccchhhhCCCCcEEee
Confidence 3444456677633 33 46788898 799999999999999999988755
No 15
>PF04695 Pex14_N: Peroxisomal membrane anchor protein (Pex14p) conserved region; InterPro: IPR006785 This conserved region defines a group of peroxisomal membrane anchor proteins which bind the PTS1 (peroxisomal targeting signal) receptor and are required for the import of PTS1-containing proteins into peroxisomes. Loss of functional Pex14p results in defects in both the PTS1 and PTS2-dependent import pathways. Deletion analysis of this conserved region implicates it in selective peroxisome degradation. In the majority of members this region is situated at the N terminus of the protein [, ].; GO: 0005777 peroxisome, 0016020 membrane; PDB: 2W85_A 2W84_A 3FF5_B.
Probab=64.04 E-value=6.4 Score=33.90 Aligned_cols=38 Identities=21% Similarity=0.284 Sum_probs=22.5
Q ss_pred HHhCCccccccccccHHHHHHHHHhCCCCCChHHHHHhhcCc
Q 048759 101 VKKYPQVLHASVVVELMPVVKFLRGLDVEKEDIGYVLMKYPE 142 (442)
Q Consensus 101 v~~~P~lL~~~~~~~l~~~v~fL~~lG~~~~~i~~il~~~P~ 142 (442)
+..+|.+-... +..+++||++-|++.++|...+.+.+.
T Consensus 12 FL~~p~V~~sp----~~~k~~FL~sKGLt~~EI~~al~~a~~ 49 (136)
T PF04695_consen 12 FLQDPKVRNSP----LEKKIAFLESKGLTEEEIDEALGRAGS 49 (136)
T ss_dssp HHCTTTCCCS-----HHHHHHHHHHCT--HHHHHHHHHHHT-
T ss_pred HhCCcccccCC----HHHHHHHHHcCCCCHHHHHHHHHhcCC
Confidence 34566665443 456777888778877777777766443
No 16
>PF14490 HHH_4: Helix-hairpin-helix containing domain; PDB: 3GPL_A 3E1S_A 3GP8_A.
Probab=64.02 E-value=14 Score=29.45 Aligned_cols=24 Identities=17% Similarity=0.382 Sum_probs=11.8
Q ss_pred chHHHHHHHHcCCChhhHHHHHHh
Q 048759 80 MIPVFSYLEKIGIAKSKLGEFVKK 103 (442)
Q Consensus 80 l~~~l~~L~~lG~s~~~i~~lv~~ 103 (442)
...++.||..+|++...+.++...
T Consensus 8 ~~~~~~~L~~~gl~~~~a~kl~~~ 31 (94)
T PF14490_consen 8 LRELMAFLQEYGLSPKLAMKLYKK 31 (94)
T ss_dssp -HHHHHHHHHTT--HHHHHHHHHH
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHH
Confidence 445566666666666555554443
No 17
>PF04695 Pex14_N: Peroxisomal membrane anchor protein (Pex14p) conserved region; InterPro: IPR006785 This conserved region defines a group of peroxisomal membrane anchor proteins which bind the PTS1 (peroxisomal targeting signal) receptor and are required for the import of PTS1-containing proteins into peroxisomes. Loss of functional Pex14p results in defects in both the PTS1 and PTS2-dependent import pathways. Deletion analysis of this conserved region implicates it in selective peroxisome degradation. In the majority of members this region is situated at the N terminus of the protein [, ].; GO: 0005777 peroxisome, 0016020 membrane; PDB: 2W85_A 2W84_A 3FF5_B.
Probab=61.83 E-value=14 Score=31.69 Aligned_cols=37 Identities=16% Similarity=0.296 Sum_probs=25.0
Q ss_pred cccccchhhhhHHHHHHHHHhcCCChhHHHHHHhhcCccc
Q 048759 285 MPQVVSLNQHVIMKSVEFLLGRGIPSGDLAKMVVQCPQLI 324 (442)
Q Consensus 285 ~P~il~~s~~~l~~k~~fl~~~G~s~~~i~~~v~~~P~iL 324 (442)
.|.+-..+ +.+|++||++=|++.+||-+++.+.+.--
T Consensus 15 ~p~V~~sp---~~~k~~FL~sKGLt~~EI~~al~~a~~~~ 51 (136)
T PF04695_consen 15 DPKVRNSP---LEKKIAFLESKGLTEEEIDEALGRAGSPP 51 (136)
T ss_dssp TTTCCCS----HHHHHHHHHHCT--HHHHHHHHHHHT--S
T ss_pred CcccccCC---HHHHHHHHHcCCCCHHHHHHHHHhcCCcc
Confidence 45544433 56899999988999999999998886654
No 18
>PF03960 ArsC: ArsC family; InterPro: IPR006660 Several bacterial taxon have a chromosomal resistance system, encoded by the ars operon, for the detoxification of arsenate, arsenite, and antimonite []. This system transports arsenite and antimonite out of the cell. The pump is composed of two polypeptides, the products of the arsA and arsB genes. This two-subunit enzyme produces resistance to arsenite and antimonite. Arsenate, however, must first be reduced to arsenite before it is extruded. A third gene, arsC, expands the substrate specificity to allow for arsenate pumping and resistance. ArsC is an approximately 150-residue arsenate reductase that uses reduced glutathione (GSH) to convert arsenate to arsenite with a redox active cysteine residue in the active site. ArsC forms an active quaternary complex with GSH, arsenate, and glutaredoxin 1 (Grx1). The three ligands must be present simultaneously for reduction to occur []. The arsC family also comprises the Spx proteins which are GRAM-positive bacterial transcription factors that regulate the transcription of multiple genes in response to disulphide stress []. The arsC protein structure has been solved []. It belongs to the thioredoxin superfamily fold which is defined by a beta-sheet core surrounded by alpha-helices. The active cysteine residue of ArsC is located in the loop between the first beta-strand and the first helix, which is also conserved in the Spx protein and its homologues.; PDB: 2KOK_A 1SK1_A 1SK2_A 1JZW_A 1J9B_A 1S3C_A 1SD8_A 1SD9_A 1I9D_A 1SK0_A ....
Probab=61.67 E-value=22 Score=29.02 Aligned_cols=21 Identities=14% Similarity=0.392 Sum_probs=12.3
Q ss_pred CCChhhHHHHHHhCCcccccc
Q 048759 91 GIAKSKLGEFVKKYPQVLHAS 111 (442)
Q Consensus 91 G~s~~~i~~lv~~~P~lL~~~ 111 (442)
.++.+++..++..+|.++.+.
T Consensus 70 ~~s~~e~i~~l~~~p~LikRP 90 (110)
T PF03960_consen 70 DLSDEELIELLLENPKLIKRP 90 (110)
T ss_dssp TSBHHHHHHHHHHSGGGB-SS
T ss_pred hhhhHHHHHHHHhChhheeCC
Confidence 455666666666666666554
No 19
>PF02631 RecX: RecX family; InterPro: IPR003783 RecX is a putative bacterial regulatory protein []. The gene encoding RecX is found downstream of recA, and it is suggested that the RecX protein might be regulator of RecA activity by interaction with the RecA protein or filament [].; GO: 0006282 regulation of DNA repair; PDB: 3DFG_A 3D5L_B 3C1D_B 3E3V_A.
Probab=61.46 E-value=88 Score=25.91 Aligned_cols=106 Identities=17% Similarity=0.233 Sum_probs=50.3
Q ss_pred chHHHHHHHHhcCCChHH-H-HHHHHhcchhcccCcccchhhhHHHHHhhcCChHHHHHHHHhCCcccccChhhhhhhHH
Q 048759 187 MIKPLVDYLVSLGLPIKI-L-ARMLEKRVYILGYDLEETVKPNVDCLISFGIRREKLASVIAQYPQIIGLPLKAKMSSQL 264 (442)
Q Consensus 187 ~l~p~v~~L~~lG~~~~~-i-~~~l~~~P~il~~s~e~~l~~~v~~L~~~G~~~~~i~~~i~~~P~iL~~~~~~~l~~~~ 264 (442)
.+...+++|.+.|+-.+. . ...+..+-..=+.++. ....-|++.|++.+.+...+... +..+..
T Consensus 10 ~I~~vi~~l~~~gyidD~~ya~~~v~~~~~~~~~G~~----~I~~~L~~kGi~~~~i~~~l~~~------~~~e~a---- 75 (121)
T PF02631_consen 10 AIEEVIDRLKELGYIDDERYAESYVRSRLRRKGKGPR----RIRQKLKQKGIDREIIEEALEEY------DEEEEA---- 75 (121)
T ss_dssp HHHHHHHHHHHTTSS-HHHHHHHHHHHHHHHTT--HH----HHHHHHHHTT--HHHHHHHHTCS-------HHHHH----
T ss_pred HHHHHHHHHHHcCCCCHHHHHHHHHHHhcccccccHH----HHHHHHHHHCCChHHHHHHHHHh------hHHHHH----
Confidence 466677788877776542 1 1222222111122322 33455777899988887766521 111111
Q ss_pred HHHHHhcCCChhHHHHHHHhcccccchhhhhHHHH-HHHHHhcCCChhHHHHHHhh
Q 048759 265 YFFNLKLKIDPDEFAQVVEKMPQVVSLNQHVIMKS-VEFLLGRGIPSGDLAKMVVQ 319 (442)
Q Consensus 265 ~~l~~~lG~~~~~v~~~i~~~P~il~~s~~~l~~k-~~fl~~~G~s~~~i~~~v~~ 319 (442)
...+-+++......+......| +.+|..-||+.+.|..++.+
T Consensus 76 -------------~~~~~kk~~~~~~~~~~~~~~K~~~~L~rrGF~~~~i~~vi~~ 118 (121)
T PF02631_consen 76 -------------LELAEKKYRRYRKPSDRKRKQKLIRFLMRRGFSYDVIRRVISE 118 (121)
T ss_dssp -------------HHHHHHHHHHTTTS-CHHHHHHHHHHHHHTT--HHHHHHHCHH
T ss_pred -------------HHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCCHHHHHHHHhh
Confidence 1111222333322333444455 78888999999999877654
No 20
>PF00627 UBA: UBA/TS-N domain; InterPro: IPR000449 UBA domains are a commonly occurring sequence motif of approximately 45 amino acid residues that are found in diverse proteins involved in the ubiquitin/proteasome pathway, DNA excision-repair, and cell signalling via protein kinases []. The human homologue of yeast Rad23A is one example of a nucleotide excision-repair protein that contains both an internal and a C-terminal UBA domain. The solution structure of human Rad23A UBA(2) showed that the domain forms a compact three-helix bundle []. Comparison of the structures of UBA(1) and UBA(2) reveals that both form very similar folds and have a conserved large hydrophobic surface patch which may be a common protein-interacting surface present in diverse UBA domains. Evidence that ubiquitin binds to UBA domains leads to the prediction that the hydrophobic surface patch of UBA domains interacts with the hydrophobic surface on the five-stranded beta-sheet of ubiquitin []. This domain is similar in sequence to the N-terminal domain of translation elongation factor EF1B (or EF-Ts) from bacteria, mitochondria and chloroplasts. More information about EF1B (EF-Ts) proteins can be found at Protein of the Month: Elongation Factors [].; GO: 0005515 protein binding; PDB: 2DAI_A 2OO9_C 2JUJ_A 1WHC_A 1YLA_A 2O25_B 3K9O_A 3K9P_A 3F92_A 3E46_A ....
Probab=57.03 E-value=14 Score=23.84 Aligned_cols=23 Identities=17% Similarity=0.375 Sum_probs=16.0
Q ss_pred HHHHHHHhcCCChhHHHHHHhhc
Q 048759 298 KSVEFLLGRGIPSGDLAKMVVQC 320 (442)
Q Consensus 298 ~k~~fl~~~G~s~~~i~~~v~~~ 320 (442)
.+++-|.+|||+.++..+++..+
T Consensus 4 ~~v~~L~~mGf~~~~~~~AL~~~ 26 (37)
T PF00627_consen 4 EKVQQLMEMGFSREQAREALRAC 26 (37)
T ss_dssp HHHHHHHHHTS-HHHHHHHHHHT
T ss_pred HHHHHHHHcCCCHHHHHHHHHHc
Confidence 45677777888888887777655
No 21
>smart00165 UBA Ubiquitin associated domain. Present in Rad23, SNF1-like kinases. The newly-found UBA in p62 is known to bind ubiquitin.
Probab=54.37 E-value=19 Score=22.97 Aligned_cols=23 Identities=17% Similarity=0.290 Sum_probs=16.5
Q ss_pred HHHHHHHhcCCChhHHHHHHhhc
Q 048759 298 KSVEFLLGRGIPSGDLAKMVVQC 320 (442)
Q Consensus 298 ~k~~fl~~~G~s~~~i~~~v~~~ 320 (442)
.+++-|.+|||+.+++...+..+
T Consensus 3 ~~v~~L~~mGf~~~~a~~aL~~~ 25 (37)
T smart00165 3 EKIDQLLEMGFSREEALKALRAA 25 (37)
T ss_pred HHHHHHHHcCCCHHHHHHHHHHh
Confidence 45667778888888887766655
No 22
>PF14490 HHH_4: Helix-hairpin-helix containing domain; PDB: 3GPL_A 3E1S_A 3GP8_A.
Probab=52.17 E-value=46 Score=26.44 Aligned_cols=26 Identities=23% Similarity=0.452 Sum_probs=13.3
Q ss_pred chHHHHHHHHhcCCChHHHHHHHHhc
Q 048759 187 MIKPLVDYLVSLGLPIKILARMLEKR 212 (442)
Q Consensus 187 ~l~p~v~~L~~lG~~~~~i~~~l~~~ 212 (442)
.++..+.||.++|++.....++...+
T Consensus 7 ~~~~~~~~L~~~gl~~~~a~kl~~~y 32 (94)
T PF14490_consen 7 GLRELMAFLQEYGLSPKLAMKLYKKY 32 (94)
T ss_dssp --HHHHHHHHHTT--HHHHHHHHHHH
T ss_pred HHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence 34556677777777766555554443
No 23
>cd00194 UBA Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been suggested that UBA domains are involved in conferring protein target specificity. The domain, a compact three helix bundle, has a conserved GFP-loop and the proline is thought to be critical for binding. The UBA domain is distinct from the conserved three helical domain seen in the N-terminus of EF-TS and eukaryotic NAC proteins.
Probab=51.09 E-value=23 Score=22.72 Aligned_cols=23 Identities=22% Similarity=0.279 Sum_probs=16.2
Q ss_pred HHHHHHHhcCCChhHHHHHHhhc
Q 048759 298 KSVEFLLGRGIPSGDLAKMVVQC 320 (442)
Q Consensus 298 ~k~~fl~~~G~s~~~i~~~v~~~ 320 (442)
.+++-|.+|||+.+.+..++..+
T Consensus 3 ~~v~~L~~mGf~~~~~~~AL~~~ 25 (38)
T cd00194 3 EKLEQLLEMGFSREEARKALRAT 25 (38)
T ss_pred HHHHHHHHcCCCHHHHHHHHHHh
Confidence 45667777888888777666554
No 24
>PRK00117 recX recombination regulator RecX; Reviewed
Probab=50.53 E-value=72 Score=27.81 Aligned_cols=58 Identities=17% Similarity=0.168 Sum_probs=37.6
Q ss_pred HHHHHHHHHHHHHCCCCccc-cc-cC--CccccccccccchHHHHHHHHcCCChhhHHHHHHhCC
Q 048759 45 IEVMEERVMFLQKLGLTIDD-IN-EY--PLMLGCSMRKNMIPVFSYLEKIGIAKSKLGEFVKKYP 105 (442)
Q Consensus 45 ~~~~~~~l~~L~~lG~s~~~-i~-~~--P~ll~~~~~~~l~~~l~~L~~lG~s~~~i~~lv~~~P 105 (442)
.+.+..+|+.|...|+=.+. .+ .+ -... .......+.+.|..-|++.+.|..++...+
T Consensus 42 ~~~i~~vl~~l~~~~~ldD~~~a~~~~~~~~~---~~~g~~~I~~~L~~kGi~~~~I~~~l~~~~ 103 (157)
T PRK00117 42 EEVIEAVLDRLKEEGLLDDERFAESFVRSRAR---KGYGPRRIRQELRQKGVDREIIEEALAELD 103 (157)
T ss_pred HHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHh---CCchHHHHHHHHHHcCCCHHHHHHHHHHcC
Confidence 45667778999888865554 21 10 0101 112345688899999999999998888653
No 25
>PF12196 hNIFK_binding: FHA Ki67 binding domain of hNIFK; InterPro: IPR021043 This entry represents eukaryotic proteins that contain a domain of approximately 40 amino acids in length. These proteins are found in association with PF00076 from PFAM. There are two conserved sequence motifs: TPVCTP and LERRKS. This domain is found on the human nucleolar protein hNIFK. It binds to the fork-head-associated domain of human Ki67. High-affinity binding requires sequential phosphorylation by two kinases, CDK1 and GSK3, yielding pThr238, pThr234 and pSer230. This interaction is involved in cell cycle regulation []. ; PDB: 2AFF_B.
Probab=49.21 E-value=7.9 Score=25.56 Aligned_cols=13 Identities=38% Similarity=0.976 Sum_probs=8.4
Q ss_pred ccCCccceeeecc
Q 048759 427 EDESDDEVLYKRT 439 (442)
Q Consensus 427 ~~~~~~~~~~~~~ 439 (442)
|||.||||.+|..
T Consensus 28 dDd~D~EIv~K~P 40 (41)
T PF12196_consen 28 DDDEDDEIVFKQP 40 (41)
T ss_dssp GGGGS-SEEESS-
T ss_pred CCCcCCeeEeccC
Confidence 5667889988864
No 26
>PF02022 Integrase_Zn: Integrase Zinc binding domain The structure of the N-terminal zinc binding domain.; InterPro: IPR003308 Retroviral integrase mediates integration of a DNA copy of the viral genome into the host chromosome. Integrase is composed of three domains: an N-terminal zinc binding domain, a central catalytic core and a C-terminal DNA-binding domain [, ]. Often found as part of the POL polyprotein.; GO: 0008270 zinc ion binding; PDB: 1E0E_A 3F9K_F 1E27_C 1K6Y_B 1WJD_A 1WJB_A 1WJF_A 1WJE_B 3HPG_B 3HPH_C ....
Probab=49.17 E-value=25 Score=23.43 Aligned_cols=30 Identities=27% Similarity=0.338 Sum_probs=22.4
Q ss_pred hhHHHHHHHHH-hcCCChhHHHHHHhhcCcc
Q 048759 294 HVIMKSVEFLL-GRGIPSGDLAKMVVQCPQL 323 (442)
Q Consensus 294 ~~l~~k~~fl~-~~G~s~~~i~~~v~~~P~i 323 (442)
+++-.+...|. ++|++.....++|..||.+
T Consensus 6 ~k~H~n~~~L~~~f~ip~~vAk~IV~~C~~C 36 (40)
T PF02022_consen 6 EKYHSNAKALRHKFGIPRLVAKQIVNQCPKC 36 (40)
T ss_dssp HHHHH-HHHHHHHHT--HHHHHHHHHHSCCH
T ss_pred HHHccCHHHHHHHHccCHHHHHHHHHHCHHH
Confidence 45566788888 7999999999999999975
No 27
>TIGR00601 rad23 UV excision repair protein Rad23. All proteins in this family for which functions are known are components of a multiprotein complex used for targeting nucleotide excision repair to specific parts of the genome. In humans, Rad23 complexes with the XPC protein. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=48.88 E-value=1.3e+02 Score=30.59 Aligned_cols=31 Identities=23% Similarity=0.256 Sum_probs=18.3
Q ss_pred cccChhhhHhHHHHHHHHhCCChhhHhhcCccccc
Q 048759 324 IACRVELMKNSFYFFKSEMGRPIKELIEFPEYFTY 358 (442)
Q Consensus 324 L~~S~e~l~~r~~fL~~~mg~~~~~v~~~P~~L~~ 358 (442)
+.++.+- +.-++-|. .||++...++. +||+|
T Consensus 331 i~lT~eE-~~AIeRL~-~LGF~r~~viq--aY~AC 361 (378)
T TIGR00601 331 IQVTPEE-KEAIERLC-ALGFDRGLVIQ--AYFAC 361 (378)
T ss_pred cccCHHH-HHHHHHHH-HcCCCHHHHHH--HHHhc
Confidence 4555541 13344455 67888777764 67777
No 28
>PRK14136 recX recombination regulator RecX; Provisional
Probab=46.39 E-value=45 Score=32.77 Aligned_cols=109 Identities=14% Similarity=0.099 Sum_probs=58.8
Q ss_pred cHHHHHHHHHHHHHCCCCccccc--cCCccccccccccchHHHHHHHHcCCChhhHHHHHHhCCccccccccccHHHHHH
Q 048759 44 TIEVMEERVMFLQKLGLTIDDIN--EYPLMLGCSMRKNMIPVFSYLEKIGIAKSKLGEFVKKYPQVLHASVVVELMPVVK 121 (442)
Q Consensus 44 ~~~~~~~~l~~L~~lG~s~~~i~--~~P~ll~~~~~~~l~~~l~~L~~lG~s~~~i~~lv~~~P~lL~~~~~~~l~~~v~ 121 (442)
+.+.+..+|+.|.+.|+=.+.-- .+=..... ..-...+..-|+.-|++.+.|...+.... +........
T Consensus 192 ~ee~IE~VIerLke~gYLDDeRFAesyVr~R~~--kkGp~rIrqELrQKGId~eLIEqALeeie-------EDE~E~A~~ 262 (309)
T PRK14136 192 ESDSVEPLLDALEREGWLSDARFAESLVHRRAS--RVGSARIVSELKRHAVGDALVESVGAQLR-------ETEFERAQA 262 (309)
T ss_pred CHHHHHHHHHHHHHcCCcCHHHHHHHHHHHHhh--chhHHHHHHHHHHcCCCHHHHHHHHHhcc-------HhHHHHHHH
Confidence 44577788999998887666521 00000000 11234577888889999988888776331 111222222
Q ss_pred HHHhCCCCCChHHHHHhhcCcccccccchhHHHHHHHHHHhCCCccccccccccC
Q 048759 122 FLRGLDVEKEDIGYVLMKYPELLGFKLEGTMSTSVAYLVSIGVSPRDIGPMVTQY 176 (442)
Q Consensus 122 fL~~lG~~~~~i~~il~~~P~lL~~s~e~~l~~~v~~L~~lG~~~~~i~~li~~~ 176 (442)
.++. ++..+ ..+. ......+.||..-|++.+.|.++|..+
T Consensus 263 L~eK-------------K~~~~-~~d~-kek~K~iRfL~rRGFS~D~I~~vLk~~ 302 (309)
T PRK14136 263 VWRK-------------KFGAL-PQTP-AERAKQARFLAARGFSSATIVKLLKVG 302 (309)
T ss_pred HHHH-------------Hhccc-CcCH-HHHHHHHHHHHHCCCCHHHHHHHHHhc
Confidence 2221 11110 0111 122344678888888888888777654
No 29
>PRK09875 putative hydrolase; Provisional
Probab=45.25 E-value=1.3e+02 Score=29.50 Aligned_cols=27 Identities=22% Similarity=0.363 Sum_probs=22.0
Q ss_pred HHHHHHHHHhCCCCCChHHHHHhhcCc
Q 048759 116 LMPVVKFLRGLDVEKEDIGYVLMKYPE 142 (442)
Q Consensus 116 l~~~v~fL~~lG~~~~~i~~il~~~P~ 142 (442)
+...+-.|+..|+++++|.+++..||.
T Consensus 262 ~~~~ip~L~~~Gvse~~I~~m~~~NP~ 288 (292)
T PRK09875 262 LTTFIPQLRQSGFSQADVDVMLRENPS 288 (292)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHHCHH
Confidence 455666788889999999999999985
No 30
>COG1125 OpuBA ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]
Probab=44.32 E-value=43 Score=32.30 Aligned_cols=118 Identities=17% Similarity=0.313 Sum_probs=60.0
Q ss_pred hHHHHHHHhcccccchhhhhHHHHHHHHHh-cCCChhH------------------HHHHHhhcCcccccCh-----h--
Q 048759 276 DEFAQVVEKMPQVVSLNQHVIMKSVEFLLG-RGIPSGD------------------LAKMVVQCPQLIACRV-----E-- 329 (442)
Q Consensus 276 ~~v~~~i~~~P~il~~s~~~l~~k~~fl~~-~G~s~~~------------------i~~~v~~~P~iL~~S~-----e-- 329 (442)
-.+..-|.-.|.+++-+.+.++++++-|.+ +|++.++ +++++...|.++.... |
T Consensus 90 ~Tv~eNIa~VP~L~~w~k~~i~~r~~ELl~lvgL~p~~~~~RyP~eLSGGQQQRVGv~RALAadP~ilLMDEPFgALDpI 169 (309)
T COG1125 90 LTVAENIATVPKLLGWDKERIKKRADELLDLVGLDPSEYADRYPHELSGGQQQRVGVARALAADPPILLMDEPFGALDPI 169 (309)
T ss_pred ccHHHHHHhhhhhcCCCHHHHHHHHHHHHHHhCCCHHHHhhcCchhcCcchhhHHHHHHHHhcCCCeEeecCCccccChh
Confidence 344555555666666666666666666653 6666543 3445555565554432 1
Q ss_pred ---hhHhHHHHHHHHhCCChhhHhhcCcccccccccccHH--HHHHHHHcCCC---cchhhhhcCChhhHHHHHhhcccc
Q 048759 330 ---LMKNSFYFFKSEMGRPIKELIEFPEYFTYSLESRIKP--RYQRLQSKGIR---CSMNWFLNCSDQRFEERLLGNYIE 401 (442)
Q Consensus 330 ---~l~~r~~fL~~~mg~~~~~v~~~P~~L~~Slekri~p--R~~~L~~~G~~---~~l~~~l~~sd~~F~~~~~~~~~e 401 (442)
.++.-+.-+..++|... .+.++.++.-++- |...+ ..|.. .....++..+..+|++.|......
T Consensus 170 ~R~~lQ~e~~~lq~~l~kTi-------vfVTHDidEA~kLadri~vm-~~G~i~Q~~~P~~il~~Pan~FV~~f~g~~~~ 241 (309)
T COG1125 170 TRKQLQEEIKELQKELGKTI-------VFVTHDIDEALKLADRIAVM-DAGEIVQYDTPDEILANPANDFVEDFFGESER 241 (309)
T ss_pred hHHHHHHHHHHHHHHhCCEE-------EEEecCHHHHHhhhceEEEe-cCCeEEEeCCHHHHHhCccHHHHHHHhccccc
Confidence 22222222233333221 3334443322111 11111 23432 345678888999999999877644
No 31
>PF03960 ArsC: ArsC family; InterPro: IPR006660 Several bacterial taxon have a chromosomal resistance system, encoded by the ars operon, for the detoxification of arsenate, arsenite, and antimonite []. This system transports arsenite and antimonite out of the cell. The pump is composed of two polypeptides, the products of the arsA and arsB genes. This two-subunit enzyme produces resistance to arsenite and antimonite. Arsenate, however, must first be reduced to arsenite before it is extruded. A third gene, arsC, expands the substrate specificity to allow for arsenate pumping and resistance. ArsC is an approximately 150-residue arsenate reductase that uses reduced glutathione (GSH) to convert arsenate to arsenite with a redox active cysteine residue in the active site. ArsC forms an active quaternary complex with GSH, arsenate, and glutaredoxin 1 (Grx1). The three ligands must be present simultaneously for reduction to occur []. The arsC family also comprises the Spx proteins which are GRAM-positive bacterial transcription factors that regulate the transcription of multiple genes in response to disulphide stress []. The arsC protein structure has been solved []. It belongs to the thioredoxin superfamily fold which is defined by a beta-sheet core surrounded by alpha-helices. The active cysteine residue of ArsC is located in the loop between the first beta-strand and the first helix, which is also conserved in the Spx protein and its homologues.; PDB: 2KOK_A 1SK1_A 1SK2_A 1JZW_A 1J9B_A 1S3C_A 1SD8_A 1SD9_A 1I9D_A 1SK0_A ....
Probab=43.45 E-value=19 Score=29.44 Aligned_cols=22 Identities=18% Similarity=0.451 Sum_probs=16.0
Q ss_pred cCCChhHHHHHHhhcCcccccC
Q 048759 306 RGIPSGDLAKMVVQCPQLIACR 327 (442)
Q Consensus 306 ~G~s~~~i~~~v~~~P~iL~~S 327 (442)
-.++.+++..++..+|.++...
T Consensus 69 ~~~s~~e~i~~l~~~p~LikRP 90 (110)
T PF03960_consen 69 DDLSDEELIELLLENPKLIKRP 90 (110)
T ss_dssp TTSBHHHHHHHHHHSGGGB-SS
T ss_pred hhhhhHHHHHHHHhChhheeCC
Confidence 4578888888888888776543
No 32
>TIGR01616 nitro_assoc nitrogenase-associated protein. This model describes a small family of uncharacterized proteins found so far in alpha and gamma proteobacteria and in Nostoc sp. PCC 7120, a cyanobacterium. The gene for this protein is associated with nitrogenase genes. This family shows sequence similarity to TIGR00014, a glutaredoxin-dependent arsenate reductase that converts arsentate to arsenite for disposal. This family is one of several included in Pfam model pfam03960.
Probab=42.97 E-value=20 Score=30.37 Aligned_cols=17 Identities=29% Similarity=0.403 Sum_probs=8.3
Q ss_pred CChhHHHHHHhhcCccc
Q 048759 308 IPSGDLAKMVVQCPQLI 324 (442)
Q Consensus 308 ~s~~~i~~~v~~~P~iL 324 (442)
++.+++.+++..+|.++
T Consensus 73 ls~~e~i~lm~~~P~LI 89 (126)
T TIGR01616 73 IDEASALALMVSDPLLI 89 (126)
T ss_pred CCHHHHHHHHHhCcCeE
Confidence 34445555555555443
No 33
>PRK14135 recX recombination regulator RecX; Provisional
Probab=42.85 E-value=1.5e+02 Score=28.26 Aligned_cols=25 Identities=12% Similarity=0.283 Sum_probs=17.5
Q ss_pred hHHHH-HHHHHhcCCChhHHHHHHhh
Q 048759 295 VIMKS-VEFLLGRGIPSGDLAKMVVQ 319 (442)
Q Consensus 295 ~l~~k-~~fl~~~G~s~~~i~~~v~~ 319 (442)
+...| +.||..-||+.+.|..++..
T Consensus 233 k~k~K~~~~L~rrGF~~~~I~~~l~~ 258 (263)
T PRK14135 233 ELKQKLKQALYRKGFSYDDIDSFLRE 258 (263)
T ss_pred HHHHHHHHHHHHCCCCHHHHHHHHHH
Confidence 34444 57777889999988776654
No 34
>cd01104 HTH_MlrA-CarA Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA. Helix-turn-helix (HTH) transcription regulator MlrA (merR-like regulator A), N-terminal domain. The MlrA protein, also known as YehV, has been shown to control cell-cell aggregation by co-regulating the expression of curli and extracellular matrix production in Escherichia coli and Salmonella typhimurium. Its close homolog, CarA from Myxococcus xanthus, is involved in activation of the carotenoid biosynthesis genes by light. These proteins belong to the MerR superfamily of transcription regulators that promote expression of several stress regulon genes by reconfiguring the spacer between the -35 and -10 promoter elements. Their conserved N-terminal domains contain predicted HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules. Many MlrA- and CarA-like proteins in this group appear to lack the long dimerization helix seen i
Probab=41.18 E-value=1.3e+02 Score=21.61 Aligned_cols=20 Identities=15% Similarity=0.275 Sum_probs=16.0
Q ss_pred HHHHHHHhcCCChhHHHHHH
Q 048759 298 KSVEFLLGRGIPSGDLAKMV 317 (442)
Q Consensus 298 ~k~~fl~~~G~s~~~i~~~v 317 (442)
..+..+.+.|++.++|.+++
T Consensus 48 ~~i~~l~~~g~~l~~i~~~~ 67 (68)
T cd01104 48 RLIRRLTSEGVRISQAAALA 67 (68)
T ss_pred HHHHHHHHCCCCHHHHHHHh
Confidence 45777778999999998765
No 35
>PRK10026 arsenate reductase; Provisional
Probab=39.60 E-value=81 Score=27.33 Aligned_cols=20 Identities=10% Similarity=0.217 Sum_probs=9.9
Q ss_pred CCCChHHHHHhhcCcccccc
Q 048759 128 VEKEDIGYVLMKYPELLGFK 147 (442)
Q Consensus 128 ~~~~~i~~il~~~P~lL~~s 147 (442)
++.+++..++..+|.|+-..
T Consensus 76 ls~~e~l~ll~~~P~LIKRP 95 (141)
T PRK10026 76 FTDDQLIDFMLQHPILINRP 95 (141)
T ss_pred CCHHHHHHHHHhCccceeCc
Confidence 34444555555555555443
No 36
>PF02631 RecX: RecX family; InterPro: IPR003783 RecX is a putative bacterial regulatory protein []. The gene encoding RecX is found downstream of recA, and it is suggested that the RecX protein might be regulator of RecA activity by interaction with the RecA protein or filament [].; GO: 0006282 regulation of DNA repair; PDB: 3DFG_A 3D5L_B 3C1D_B 3E3V_A.
Probab=38.87 E-value=30 Score=28.82 Aligned_cols=56 Identities=23% Similarity=0.265 Sum_probs=28.1
Q ss_pred HHHHHHHHHHHHHCCCCccccc--cC--CccccccccccchHHHHHHHHcCCChhhHHHHHH
Q 048759 45 IEVMEERVMFLQKLGLTIDDIN--EY--PLMLGCSMRKNMIPVFSYLEKIGIAKSKLGEFVK 102 (442)
Q Consensus 45 ~~~~~~~l~~L~~lG~s~~~i~--~~--P~ll~~~~~~~l~~~l~~L~~lG~s~~~i~~lv~ 102 (442)
.+.+..+|+.|...|+=.+.-- .+ -.+- ........+.+-|..-|++.+.|...+.
T Consensus 8 ~e~I~~vi~~l~~~gyidD~~ya~~~v~~~~~--~~~~G~~~I~~~L~~kGi~~~~i~~~l~ 67 (121)
T PF02631_consen 8 EEAIEEVIDRLKELGYIDDERYAESYVRSRLR--RKGKGPRRIRQKLKQKGIDREIIEEALE 67 (121)
T ss_dssp HHHHHHHHHHHHHTTSS-HHHHHHHHHHHHHH--HTT--HHHHHHHHHHTT--HHHHHHHHT
T ss_pred HHHHHHHHHHHHHcCCCCHHHHHHHHHHHhcc--cccccHHHHHHHHHHHCCChHHHHHHHH
Confidence 3456666777777666544421 00 0110 0011234567778878888887777766
No 37
>PRK00117 recX recombination regulator RecX; Reviewed
Probab=38.28 E-value=2.7e+02 Score=24.15 Aligned_cols=70 Identities=16% Similarity=0.233 Sum_probs=39.1
Q ss_pred HHHHHhhcCChHHHHHHHHhCCcccccChhhhhhhHHHHHHHhcCCChhHHHHHH-HhcccccchhhhhHHHH-HHHHHh
Q 048759 228 VDCLISFGIRREKLASVIAQYPQIIGLPLKAKMSSQLYFFNLKLKIDPDEFAQVV-EKMPQVVSLNQHVIMKS-VEFLLG 305 (442)
Q Consensus 228 v~~L~~~G~~~~~i~~~i~~~P~iL~~~~~~~l~~~~~~l~~~lG~~~~~v~~~i-~~~P~il~~s~~~l~~k-~~fl~~ 305 (442)
..-|+..|++.+.+..++...+ .+.. +. +..++ +++...-..+. ..+.| +.+|..
T Consensus 82 ~~~L~~kGi~~~~I~~~l~~~~----~d~~---e~---------------a~~~~~k~~~~~~~~~~-~~k~Ki~~~L~r 138 (157)
T PRK00117 82 RQELRQKGVDREIIEEALAELD----IDWE---EL---------------ARELARKKFRRPLPDDA-KEKAKLVRFLAR 138 (157)
T ss_pred HHHHHHcCCCHHHHHHHHHHcC----ccHH---HH---------------HHHHHHHHcCCCCCCCH-HHHHHHHHHHHH
Confidence 4556677888888877776543 1111 11 11111 22222222222 34444 678888
Q ss_pred cCCChhHHHHHHhhc
Q 048759 306 RGIPSGDLAKMVVQC 320 (442)
Q Consensus 306 ~G~s~~~i~~~v~~~ 320 (442)
-||+.+.|...+...
T Consensus 139 kGF~~~~I~~~l~~~ 153 (157)
T PRK00117 139 RGFSMDVIQRVLRNA 153 (157)
T ss_pred CCCCHHHHHHHHHhh
Confidence 899999998777654
No 38
>PRK01655 spxA transcriptional regulator Spx; Reviewed
Probab=37.67 E-value=97 Score=26.27 Aligned_cols=102 Identities=19% Similarity=0.217 Sum_probs=46.5
Q ss_pred hhh-HHHHHHHHhCCCCCccccCCCCCccHHHHHHHHHHHHHCCCCccccccCCccccccccccchHHHHHHH--HcCCC
Q 048759 17 VNR-VKICDYLKSLGIIPDELENLELPSTIEVMEERVMFLQKLGLTIDDINEYPLMLGCSMRKNMIPVFSYLE--KIGIA 93 (442)
Q Consensus 17 ~~~-~~~~~~L~~~Gi~~~~i~~~~~~~~~~~~~~~l~~L~~lG~s~~~i~~~P~ll~~~~~~~l~~~l~~L~--~lG~s 93 (442)
|++ .+...||.+.||+...+.-...+.+.+ ...++++.+|...+++- ... .....-|. .-.++
T Consensus 10 C~~C~ka~~~L~~~gi~~~~idi~~~~~~~~---eL~~~l~~~~~g~~~li------n~~-----~~~~k~l~~~~~~ls 75 (131)
T PRK01655 10 CTSCRKAKAWLEEHDIPFTERNIFSSPLTID---EIKQILRMTEDGTDEII------STR-----SKVFQKLNVDVESLS 75 (131)
T ss_pred ChHHHHHHHHHHHcCCCcEEeeccCChhhHH---HHHHHHHHhcCCHHHHH------hcC-----cHHHHhCCCCcccCC
Confidence 444 346677887787765433222222323 33555555554444331 000 00111110 01345
Q ss_pred hhhHHHHHHhCCccccccccccHHHHHHHHHhCCCCCChHHHHH
Q 048759 94 KSKLGEFVKKYPQVLHASVVVELMPVVKFLRGLDVEKEDIGYVL 137 (442)
Q Consensus 94 ~~~i~~lv~~~P~lL~~~~~~~l~~~v~fL~~lG~~~~~i~~il 137 (442)
.+++-.++..+|.++.+.+-.+ ... .-+|++.+++..++
T Consensus 76 ~~e~i~ll~~~p~LikRPIi~~-~~~----~~vG~~~e~~~~~l 114 (131)
T PRK01655 76 LQDLIKLISDNPGLLRRPIIID-EKR----LQVGYNEDEIRAFL 114 (131)
T ss_pred HHHHHHHHHhCcceEeCCEEEE-CCE----EEecCCHHHHHHHh
Confidence 5666677777777766553210 000 12566666665555
No 39
>PF11212 DUF2999: Protein of unknown function (DUF2999); InterPro: IPR021376 This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Probab=37.28 E-value=92 Score=23.54 Aligned_cols=57 Identities=16% Similarity=0.393 Sum_probs=38.0
Q ss_pred hHHHHHHHHcCCChhhHHHHHHhCCccccccccccHHHHHHHHHhCCCCCChHHH---HHhhcCcccc
Q 048759 81 IPVFSYLEKIGIAKSKLGEFVKKYPQVLHASVVVELMPVVKFLRGLDVEKEDIGY---VLMKYPELLG 145 (442)
Q Consensus 81 ~~~l~~L~~lG~s~~~i~~lv~~~P~lL~~~~~~~l~~~v~fL~~lG~~~~~i~~---il~~~P~lL~ 145 (442)
.|+++.|++..+|+++|..++.. ++ .|-.-.+.....+|++.+.+.. .+-.+|.++.
T Consensus 2 NPIia~LKehnvsd~qi~elFq~----lT----~NPl~AMa~i~qLGip~eKLQ~lm~~VMqnP~Lik 61 (82)
T PF11212_consen 2 NPIIAILKEHNVSDEQINELFQA----LT----QNPLAAMATIQQLGIPQEKLQQLMAQVMQNPALIK 61 (82)
T ss_pred chHHHHHHHcCCCHHHHHHHHHH----Hh----hCHHHHHHHHHHcCCCHHHHHHHHHHHhcChHHHH
Confidence 47888888888998888887753 22 2334456677788888776543 3445666553
No 40
>PRK13344 spxA transcriptional regulator Spx; Reviewed
Probab=37.26 E-value=1e+02 Score=26.29 Aligned_cols=20 Identities=10% Similarity=0.484 Sum_probs=10.8
Q ss_pred CChhhHHHHHHhCCcccccc
Q 048759 92 IAKSKLGEFVKKYPQVLHAS 111 (442)
Q Consensus 92 ~s~~~i~~lv~~~P~lL~~~ 111 (442)
++.+++-.++..+|.++.+.
T Consensus 74 ls~~e~i~ll~~~P~LikRP 93 (132)
T PRK13344 74 LSVNEVIDLIQENPRILKSP 93 (132)
T ss_pred CCHHHHHHHHHhCccceeCc
Confidence 34455555566666665544
No 41
>COG2137 OraA Uncharacterized protein conserved in bacteria [General function prediction only]
Probab=36.83 E-value=3.2e+02 Score=24.60 Aligned_cols=107 Identities=16% Similarity=0.124 Sum_probs=53.9
Q ss_pred hHHHHHHHHhcCCChH-HHHHH-HHhcchhcccCcccchhhhHHHHHhhcCChHHHHHHHHhCCcccccChhhhhhhHHH
Q 048759 188 IKPLVDYLVSLGLPIK-ILARM-LEKRVYILGYDLEETVKPNVDCLISFGIRREKLASVIAQYPQIIGLPLKAKMSSQLY 265 (442)
Q Consensus 188 l~p~v~~L~~lG~~~~-~i~~~-l~~~P~il~~s~e~~l~~~v~~L~~~G~~~~~i~~~i~~~P~iL~~~~~~~l~~~~~ 265 (442)
+...+.+|.+.|.-.+ ..... ++.. .--+.++. + .-.-|.+.|++.+.|..++... +..+-.+.
T Consensus 54 Ie~Vi~~l~~~~~ldD~~fAe~~i~~r-~~~g~G~~-r---l~qeL~qkGi~~~~Ie~aL~~~------~~~~~~~~--- 119 (174)
T COG2137 54 IEEVIDRLAEEGYLDDTRFAEAYIRSR-SRKGKGPA-R---LKQELKQKGIDDEIIEEALELI------DEEDEQER--- 119 (174)
T ss_pred HHHHHHHHHHcCcccHHHHHHHHHHHH-HhcccChH-H---HHHHHHHcCCCHHHHHHHHhcc------chHHHHHH---
Confidence 5667788877766553 22222 2221 11112222 2 2344667799988887765521 11111111
Q ss_pred HHHHhcCCChhHHHHHHHhcccccchhhhhHHHH-HHHHHhcCCChhHHHHHHhh
Q 048759 266 FFNLKLKIDPDEFAQVVEKMPQVVSLNQHVIMKS-VEFLLGRGIPSGDLAKMVVQ 319 (442)
Q Consensus 266 ~l~~~lG~~~~~v~~~i~~~P~il~~s~~~l~~k-~~fl~~~G~s~~~i~~~v~~ 319 (442)
....+..+++.--.....+.+.| ..+|..-||+.+.|..++..
T Consensus 120 -----------a~~~~~kk~~~~~~~~~~~~k~Ki~r~L~~rGFs~~~i~~~l~~ 163 (174)
T COG2137 120 -----------ARKVLRKKFKRENKPPDKKEKAKIQRFLLRRGFSYEVIKEALNE 163 (174)
T ss_pred -----------HHHHHHHHhCccccCcchhHHHHHHHHHHHcCCCHHHHHHHHHH
Confidence 11122333333322234455566 56777889999999877654
No 42
>cd02977 ArsC_family Arsenate Reductase (ArsC) family; composed of TRX-fold arsenic reductases and similar proteins including the transcriptional regulator, Spx. ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], using reducing equivalents derived from glutathione (GSH) via glutaredoxin (GRX), through a single catalytic cysteine. This family of predominantly bacterial enzymes is unrelated to two other families of arsenate reductases which show similarity to low-molecular-weight acid phosphatases and phosphotyrosyl phosphatases. Spx is a general regulator that exerts negative and positive control over transcription initiation by binding to the C-terminal domain of the alpha subunit of RNA polymerase.
Probab=36.20 E-value=92 Score=24.99 Aligned_cols=19 Identities=11% Similarity=0.347 Sum_probs=9.4
Q ss_pred CChhhHHHHHHhCCccccc
Q 048759 92 IAKSKLGEFVKKYPQVLHA 110 (442)
Q Consensus 92 ~s~~~i~~lv~~~P~lL~~ 110 (442)
++.+++-.++..+|.++.+
T Consensus 74 ls~~e~~~~l~~~p~LikR 92 (105)
T cd02977 74 LSDEEALELMAEHPKLIKR 92 (105)
T ss_pred CCHHHHHHHHHhCcCeeeC
Confidence 4444555555555555443
No 43
>cd03032 ArsC_Spx Arsenate Reductase (ArsC) family, Spx subfamily; Spx is a unique RNA polymerase (RNAP)-binding protein present in bacilli and some mollicutes. It inhibits transcription by binding to the C-terminal domain of the alpha subunit of RNAP, disrupting complex formation between RNAP and certain transcriptional activator proteins like ResD and ComA. In response to oxidative stress, Spx can also activate transcription, making it a general regulator that exerts both positive and negative control over transcription initiation. Spx has been shown to exert redox-sensitive transcriptional control over genes like trxA (TRX) and trxB (TRX reductase), genes that function in thiol homeostasis. This redox-sensitive activity is dependent on the presence of a CXXC motif, present in some members of the Spx subfamily, that acts as a thiol/disulfide switch. Spx has also been shown to repress genes in a sulfate-dependent manner independent of the presence of the CXXC motif.
Probab=35.96 E-value=1e+02 Score=25.30 Aligned_cols=20 Identities=20% Similarity=0.389 Sum_probs=12.1
Q ss_pred CChhhHHHHHHhCCcccccc
Q 048759 92 IAKSKLGEFVKKYPQVLHAS 111 (442)
Q Consensus 92 ~s~~~i~~lv~~~P~lL~~~ 111 (442)
++.+++-.++..+|.++.+.
T Consensus 74 ls~~e~i~~l~~~p~LikRP 93 (115)
T cd03032 74 LSLSELIRLISEHPSLLRRP 93 (115)
T ss_pred CCHHHHHHHHHhChhheeCC
Confidence 45555666666666666554
No 44
>PF06084 Cytomega_TRL10: Cytomegalovirus TRL10 protein; InterPro: IPR009284 This family consists of several Cytomegalovirus TRL10 proteins. TRL10 represents a structural component of the virus particle and like the other HCMV envelope glycoproteins, is present in a disulphide-linked complex [].
Probab=35.50 E-value=34 Score=28.20 Aligned_cols=13 Identities=54% Similarity=0.734 Sum_probs=6.4
Q ss_pred CCCCCCcccCCcc
Q 048759 420 SEVVSDEEDESDD 432 (442)
Q Consensus 420 ~~~~~~~~~~~~~ 432 (442)
.+-.|||||||||
T Consensus 137 ~~~~dd~e~ed~~ 149 (150)
T PF06084_consen 137 PNGTDDEEDEDDD 149 (150)
T ss_pred CCCCCcccccccC
Confidence 3344555555554
No 45
>KOG3671 consensus Actin regulatory protein (Wiskott-Aldrich syndrome protein) [Signal transduction mechanisms; Cytoskeleton]
Probab=34.25 E-value=19 Score=37.29 Aligned_cols=11 Identities=45% Similarity=0.697 Sum_probs=4.2
Q ss_pred CCCCCcccCCc
Q 048759 421 EVVSDEEDESD 431 (442)
Q Consensus 421 ~~~~~~~~~~~ 431 (442)
++++|||||+|
T Consensus 555 d~deDe~d~~d 565 (569)
T KOG3671|consen 555 DEDEDEDDEND 565 (569)
T ss_pred ccccccccccc
Confidence 33333333333
No 46
>PRK10026 arsenate reductase; Provisional
Probab=34.21 E-value=1.1e+02 Score=26.47 Aligned_cols=19 Identities=16% Similarity=0.405 Sum_probs=8.9
Q ss_pred CChhhHHHHHHhCCccccc
Q 048759 92 IAKSKLGEFVKKYPQVLHA 110 (442)
Q Consensus 92 ~s~~~i~~lv~~~P~lL~~ 110 (442)
++.+++-.++..+|.++-+
T Consensus 76 ls~~e~l~ll~~~P~LIKR 94 (141)
T PRK10026 76 FTDDQLIDFMLQHPILINR 94 (141)
T ss_pred CCHHHHHHHHHhCccceeC
Confidence 3444444455555555443
No 47
>KOG2023 consensus Nuclear transport receptor Karyopherin-beta2/Transportin (importin beta superfamily) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=33.75 E-value=21 Score=38.61 Aligned_cols=14 Identities=21% Similarity=0.634 Sum_probs=7.0
Q ss_pred CCCCCcccCCccce
Q 048759 421 EVVSDEEDESDDEV 434 (442)
Q Consensus 421 ~~~~~~~~~~~~~~ 434 (442)
|+|||||++||||.
T Consensus 352 ~eDdddDe~DDdD~ 365 (885)
T KOG2023|consen 352 DEDDDDDEDDDDDA 365 (885)
T ss_pred cccccccccccccc
Confidence 44444444455554
No 48
>PRK14134 recX recombination regulator RecX; Provisional
Probab=33.75 E-value=3.3e+02 Score=26.44 Aligned_cols=92 Identities=15% Similarity=0.140 Sum_probs=47.0
Q ss_pred hhhhHHHHHhhcCChHHHHHHHHhCCcccccChhhhhhhHHHHHHHhcCCChhH-HHH-HHHhcccccchh--hhhHHHH
Q 048759 224 VKPNVDCLISFGIRREKLASVIAQYPQIIGLPLKAKMSSQLYFFNLKLKIDPDE-FAQ-VVEKMPQVVSLN--QHVIMKS 299 (442)
Q Consensus 224 l~~~v~~L~~~G~~~~~i~~~i~~~P~iL~~~~~~~l~~~~~~l~~~lG~~~~~-v~~-~i~~~P~il~~s--~~~l~~k 299 (442)
-+....+|..-||+.+.+..++...-.--.+..+++ -+-+........-+ ... +-++++.+..-. ..++..|
T Consensus 182 k~Kl~~~L~rrGFs~~~I~~vl~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~a~kr~~~~~~~e~d~~k~~~K 257 (283)
T PRK14134 182 YKKLGPYLISRGYSSNIAEWILNELIKNEALYKDNN----SQNIENNIKDENIEELHNLARKRYDIIIKSEDDKNKIYRR 257 (283)
T ss_pred HHHHHHHHHHCCCCHHHHHHHHHHHHhHhhhhhhcc----ccchhhccccChHHHHHHHHHHHHhhhhcccccHHHHHHH
Confidence 345678999999999998887754100000000000 00000111222211 222 223344443222 2356666
Q ss_pred -HHHHHhcCCChhHHHHHHhh
Q 048759 300 -VEFLLGRGIPSGDLAKMVVQ 319 (442)
Q Consensus 300 -~~fl~~~G~s~~~i~~~v~~ 319 (442)
+.||..-||+.++|..++..
T Consensus 258 l~~~L~rkGf~~e~I~~vl~~ 278 (283)
T PRK14134 258 LSNYLLRRGYSWEEVKKSLNE 278 (283)
T ss_pred HHHHHHhCCCCHHHHHHHHHH
Confidence 68888999999999877753
No 49
>PRK07562 ribonucleotide-diphosphate reductase subunit alpha; Validated
Probab=33.46 E-value=1.5e+02 Score=34.90 Aligned_cols=56 Identities=20% Similarity=0.124 Sum_probs=31.4
Q ss_pred HHHHHhcCCChHHHHHHHHh---cchhcccCcccchhhhHHHHHhhcCChHHHHHHHHhCCccc
Q 048759 192 VDYLVSLGLPIKILARMLEK---RVYILGYDLEETVKPNVDCLISFGIRREKLASVIAQYPQII 252 (442)
Q Consensus 192 v~~L~~lG~~~~~i~~~l~~---~P~il~~s~e~~l~~~v~~L~~~G~~~~~i~~~i~~~P~iL 252 (442)
..-|+++|...+++..++.. +..+-... .-....|+..||+++++.++=...|..+
T Consensus 716 ~~~L~~lG~~~~~i~~i~~~~~~~Gsl~~~~-----~i~~~~l~~~Gf~~~~~~~~~~~l~~~f 774 (1220)
T PRK07562 716 PEALRTLGYSESQIAEIEAYAVGHGTLNQAP-----GINHSTLKAKGFTDEKIEKVEAALKSAF 774 (1220)
T ss_pred HHHHHHcCCCHHHHHHHHHHhhcCCCccCCC-----CCCHHHHhhcCCcHHHHHHHHHHhhhhh
Confidence 34566788877777666642 22222211 1234567778888888776544444433
No 50
>cd04788 HTH_NolA-AlbR Helix-Turn-Helix DNA binding domain of the transcription regulators NolA and AlbR. Helix-turn-helix (HTH) transcription regulators NolA and AlbR, N-terminal domain. In Bradyrhizobium (Arachis) sp. NC92, NolA is required for efficient nodulation of host plants. In Xanthomonas albilineans, AlbR regulates the expression of the pathotoxin, albicidin. These proteins are putatively comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the C-terminal domains are often unrelated and bind specific coactivator molecules. They share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=32.71 E-value=1.5e+02 Score=23.56 Aligned_cols=24 Identities=8% Similarity=0.065 Sum_probs=19.4
Q ss_pred HHHHHHHhcCCChhHHHHHHhhcC
Q 048759 298 KSVEFLLGRGIPSGDLAKMVVQCP 321 (442)
Q Consensus 298 ~k~~fl~~~G~s~~~i~~~v~~~P 321 (442)
..+..++++|++.++|..++....
T Consensus 48 ~~I~~lr~~G~~l~eI~~~l~~~~ 71 (96)
T cd04788 48 HQIIALRRLGFSLREIGRALDGPD 71 (96)
T ss_pred HHHHHHHHcCCCHHHHHHHHhCCC
Confidence 457788889999999998887544
No 51
>TIGR01617 arsC_related transcriptional regulator, Spx/MgsR family. This model represents a portion of the proteins within the larger set covered by Pfam model pfam03960. That larger family includes a glutaredoxin-dependent arsenate reductase (TIGR00014). Characterized members of this family include Spx and MgsR from Bacillus subtili. Spx is a global regulator for response to thiol-specific oxidative stress. It interacts with RNA polymerase. MgsR (modulator of the general stress response, also called YqgZ) provides a second level of regulation for more than a third of the proteins in the B. subtilis general stress regulon controlled by Sigma-B.
Probab=31.44 E-value=88 Score=25.79 Aligned_cols=79 Identities=18% Similarity=0.131 Sum_probs=41.1
Q ss_pred HHHHHHHHhCCCCCccccCCCCCccHHHHHHHHHHHHHCCCCccccc--cCCccccccccccchHHHHHHHH--cCCChh
Q 048759 20 VKICDYLKSLGIIPDELENLELPSTIEVMEERVMFLQKLGLTIDDIN--EYPLMLGCSMRKNMIPVFSYLEK--IGIAKS 95 (442)
Q Consensus 20 ~~~~~~L~~~Gi~~~~i~~~~~~~~~~~~~~~l~~L~~lG~s~~~i~--~~P~ll~~~~~~~l~~~l~~L~~--lG~s~~ 95 (442)
.....||+..|++...+.-.. +........++++..|...+++- +.+..-... +.. -.++.+
T Consensus 13 ~ka~~~L~~~~i~~~~idi~~---~~~~~~el~~l~~~~~~~~~~lin~~~~~~k~l~-----------~~~~~~~ls~~ 78 (117)
T TIGR01617 13 KKARRWLEANGIEYQFIDIGE---DGPTREELLDILSLLEDGIDPLLNTRGQSYRALN-----------TSNTFLDLSDK 78 (117)
T ss_pred HHHHHHHHHcCCceEEEecCC---ChhhHHHHHHHHHHcCCCHHHheeCCCcchhhCC-----------chhhcccCCHH
Confidence 346788888888765433221 22223334566677776555542 111110000 000 245667
Q ss_pred hHHHHHHhCCccccccc
Q 048759 96 KLGEFVKKYPQVLHASV 112 (442)
Q Consensus 96 ~i~~lv~~~P~lL~~~~ 112 (442)
++-.++..+|.++.+.+
T Consensus 79 e~~~~i~~~p~LikRPI 95 (117)
T TIGR01617 79 EALELLAEDPALLRRPL 95 (117)
T ss_pred HHHHHHHhCcceEecCE
Confidence 77777778888776654
No 52
>TIGR01448 recD_rel helicase, putative, RecD/TraA family. This model describes a family similar to RecD, the exodeoxyribonuclease V alpha chain of TIGR01447. Members of this family, however, are not found in a context of RecB and RecC and are longer by about 200 amino acids at the amino end. Chlamydia muridarum has both a member of this family and a RecD.
Probab=31.12 E-value=3e+02 Score=30.69 Aligned_cols=83 Identities=16% Similarity=0.229 Sum_probs=45.1
Q ss_pred chHHHHHHHH---cCCChhhHHHHHHhCCccccccccccHHHHHHHHHhC-CCCCChHHHHHhhcCcccccccchhHHHH
Q 048759 80 MIPVFSYLEK---IGIAKSKLGEFVKKYPQVLHASVVVELMPVVKFLRGL-DVEKEDIGYVLMKYPELLGFKLEGTMSTS 155 (442)
Q Consensus 80 l~~~l~~L~~---lG~s~~~i~~lv~~~P~lL~~~~~~~l~~~v~fL~~l-G~~~~~i~~il~~~P~lL~~s~e~~l~~~ 155 (442)
...++.||.+ -|+.+....+++..++.=... .+..-.+-|.++ |++++.+..+...+.. .......
T Consensus 77 ~~~i~~yL~s~~~~GIG~~~A~~iv~~fg~~~~~----~i~~~~~~L~~v~gi~~~~~~~i~~~~~~------~~~~~~~ 146 (720)
T TIGR01448 77 KEGIVAYLSSRSIKGVGKKLAQRIVKTFGEAAFD----VLDDDPEKLLEVPGISKANLEKFVSQWSQ------QGDERRL 146 (720)
T ss_pred HHHHHHHHhcCCCCCcCHHHHHHHHHHhCHhHHH----HHHhCHHHHhcCCCCCHHHHHHHHHHHHH------hHHHHHH
Confidence 3567788874 367777777777665432222 222233445554 6666666666554411 1124555
Q ss_pred HHHHHHhCCCccccccc
Q 048759 156 VAYLVSIGVSPRDIGPM 172 (442)
Q Consensus 156 v~~L~~lG~~~~~i~~l 172 (442)
+.||.++|++.+.+.++
T Consensus 147 ~~~L~~~gi~~~~a~ki 163 (720)
T TIGR01448 147 LAGLQGLGIGIKLAQRI 163 (720)
T ss_pred HHHHHHcCCCHHHHHHH
Confidence 66666667665444333
No 53
>COG3747 Phage terminase, small subunit [DNA replication, recombination, and repair]
Probab=31.03 E-value=44 Score=29.01 Aligned_cols=104 Identities=15% Similarity=0.173 Sum_probs=55.7
Q ss_pred ccccccccccCCceeecccccchHHHHHHHHhcCCChHHHHHHHHhcchhcccCcccchhhhHHHHHhhcCChHHH-HHH
Q 048759 166 PRDIGPMVTQYPYFLGMRVGTMIKPLVDYLVSLGLPIKILARMLEKRVYILGYDLEETVKPNVDCLISFGIRREKL-ASV 244 (442)
Q Consensus 166 ~~~i~~li~~~P~lL~~s~~~~l~p~v~~L~~lG~~~~~i~~~l~~~P~il~~s~e~~l~~~v~~L~~~G~~~~~i-~~~ 244 (442)
+..+.+..-+.|..|.---...++.++-+|.+++.-...=..+|..|. ...+ .....++.++..|+.-..- ...
T Consensus 30 ~~~~~r~~pkaPdwLd~~A~~~Wrrvvp~L~e~~ll~~~D~~~Le~YC----~~ys-iY~~av~~lkk~G~ii~~~~~g~ 104 (160)
T COG3747 30 DAKFGRLAPKAPDWLDPTAKKEWRRVVPFLEELKLLKPADLTLLELYC----VAYS-IYRNAVAHLKKHGFIITNQFSGR 104 (160)
T ss_pred CccccccCCCCccccCHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHH----HHHH-HHHHHHHHHHHcceeeeccccce
Confidence 344566677788888666666788899999877654432223343332 1111 3345666777767654321 112
Q ss_pred HHhCCcccccChhhhhhhHHHHHHHhcCCChhH
Q 048759 245 IAQYPQIIGLPLKAKMSSQLYFFNLKLKIDPDE 277 (442)
Q Consensus 245 i~~~P~iL~~~~~~~l~~~~~~l~~~lG~~~~~ 277 (442)
+.++|.+-..+- ....+.-+..++|+++..
T Consensus 105 ~krNPav~~~sd---A~~~l~klaSeLGltP~a 134 (160)
T COG3747 105 VKRNPAVQAASD---AIRNLLKLASELGLTPSA 134 (160)
T ss_pred ecCChHHHHHHH---HHHHHHHHHHHhCCChHH
Confidence 455555443331 112222344677777754
No 54
>PRK14134 recX recombination regulator RecX; Provisional
Probab=30.43 E-value=1.4e+02 Score=28.95 Aligned_cols=57 Identities=14% Similarity=0.083 Sum_probs=36.4
Q ss_pred ccHHHHHHHHHHHHHCCCCcccc-c-c--CCccccccccccchHHHHHHHHcCCChhhHHHHHHh
Q 048759 43 STIEVMEERVMFLQKLGLTIDDI-N-E--YPLMLGCSMRKNMIPVFSYLEKIGIAKSKLGEFVKK 103 (442)
Q Consensus 43 ~~~~~~~~~l~~L~~lG~s~~~i-~-~--~P~ll~~~~~~~l~~~l~~L~~lG~s~~~i~~lv~~ 103 (442)
.+.+.+..+|+.|.+.|+=.+.- + . .-.+-. .....+-.-|+.-|++.+.|..++..
T Consensus 90 ~~~~~Ie~vI~~L~e~~yldD~ryA~~yv~~~~~~----~G~~~I~~eL~qKGI~~~iIe~al~~ 150 (283)
T PRK14134 90 YDEDAVNRVIRFLKEYNFIDDDKYCDMYIREKINS----YGRNKIKYTLLNKGIKENIIIEKINN 150 (283)
T ss_pred CCHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHh----hhHHHHHHHHHHCCCCHHHHHHHHHh
Confidence 34567778888998888766653 1 0 001101 12345677888889999888887764
No 55
>cd03034 ArsC_ArsC Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the detoxification of arsenic, using reducing equivalents derived from glutathione (GSH) via glutaredoxin (GRX). ArsC contains a single catalytic cysteine, within a thioredoxin fold, that forms a covalent thiolate-As(V) intermediate, which is reduced by GRX through a mixed GSH-arsenate intermediate. This family of predominantly bacterial enzymes is unrelated to two other families of arsenate reductases which show similarity to low-molecular-weight acid phosphatases and phosphotyrosyl phosphatases.
Probab=29.80 E-value=1.9e+02 Score=23.64 Aligned_cols=22 Identities=9% Similarity=0.261 Sum_probs=14.2
Q ss_pred CCChhhHHHHHHhCCccccccc
Q 048759 91 GIAKSKLGEFVKKYPQVLHASV 112 (442)
Q Consensus 91 G~s~~~i~~lv~~~P~lL~~~~ 112 (442)
+++.+++-.++..+|.++.+.+
T Consensus 72 ~ls~~e~i~ll~~~P~LikRPI 93 (112)
T cd03034 72 ELSDEELIDAMAAHPILIERPI 93 (112)
T ss_pred CCCHHHHHHHHHhCcCcccCCE
Confidence 4566666667777777766553
No 56
>PF03884 DUF329: Domain of unknown function (DUF329); InterPro: IPR005584 The biological function of these short proteins is unknown, but they contain four conserved cysteines, suggesting that they all bind zinc. YacG (Q5X8H6 from SWISSPROT) from Escherichia coli has been shown to bind zinc and contains the structural motifs typical of zinc-binding proteins []. The conserved four cysteine motif in these proteins (-C-X(2)-C-X(15)-C-X(3)-C-) is not found in other zinc-binding proteins with known structures.; GO: 0008270 zinc ion binding; PDB: 1LV3_A.
Probab=29.14 E-value=32 Score=24.88 Aligned_cols=24 Identities=25% Similarity=0.357 Sum_probs=9.9
Q ss_pred ccccCCeecCCCCCCCCCcccCCc
Q 048759 408 SFCIGGKLVLPGSEVVSDEEDESD 431 (442)
Q Consensus 408 ~~~~~~~~~~~~~~~~~~~~~~~~ 431 (442)
..-++|.-.++|.+.++|++++||
T Consensus 34 g~W~~e~Y~Ip~~~~~~~~~~~d~ 57 (57)
T PF03884_consen 34 GRWANEEYRIPGEPDDEDEDSEDD 57 (57)
T ss_dssp S-SSSSS----SSS-SS-S-SS--
T ss_pred HHHhcCCcccCCCCCCcccccccC
Confidence 345678888899888666666554
No 57
>TIGR00014 arsC arsenate reductase (glutaredoxin). composed of two polypeptides, the products of the arsA and arsB genes. The pump alone produces resistance to arsenite and antimonite. This protein, ArsC, catalyzes the reduction of arsenate to arsenite, and thus extends resistance to include arsenate.
Probab=29.10 E-value=2e+02 Score=23.63 Aligned_cols=21 Identities=14% Similarity=0.286 Sum_probs=13.0
Q ss_pred CChhhHHHHHHhCCccccccc
Q 048759 92 IAKSKLGEFVKKYPQVLHASV 112 (442)
Q Consensus 92 ~s~~~i~~lv~~~P~lL~~~~ 112 (442)
++.+++-.++..+|.++.+.+
T Consensus 74 ls~~e~i~~l~~~P~LikRPI 94 (114)
T TIGR00014 74 LSDQELLDAMVAHPILLERPI 94 (114)
T ss_pred CCHHHHHHHHHHCcCcccCCe
Confidence 455566666777777665543
No 58
>cd03033 ArsC_15kD Arsenate Reductase (ArsC) family, 15kD protein subfamily; composed of proteins of unknown function with similarity to thioredoxin-fold arsenic reductases, ArsC. It is encoded by an ORF present in a gene cluster associated with nitrogen fixation that also encodes dinitrogenase reductase ADP-ribosyltransferase (DRAT) and dinitrogenase reductase activating glycohydrolase (DRAG). ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], using reducing equivalents derived from glutathione via glutaredoxin, through a single catalytic cysteine.
Probab=28.39 E-value=1.2e+02 Score=25.11 Aligned_cols=21 Identities=14% Similarity=0.260 Sum_probs=13.5
Q ss_pred CCChhHHHHHHhhcCcccccC
Q 048759 307 GIPSGDLAKMVVQCPQLIACR 327 (442)
Q Consensus 307 G~s~~~i~~~v~~~P~iL~~S 327 (442)
.+|.+++.+++..+|.++.-.
T Consensus 71 ~ls~~e~~~ll~~~P~LikRP 91 (113)
T cd03033 71 ALDEEEALALMIADPLLIRRP 91 (113)
T ss_pred CCCHHHHHHHHHhCcceeeCC
Confidence 456667777777777665543
No 59
>PF07499 RuvA_C: RuvA, C-terminal domain; InterPro: IPR011114 In prokaryotes, RuvA, RuvB, and RuvC process the universal DNA intermediate of homologous recombination, termed Holliday junction. The tetrameric DNA helicase RuvA specifically binds to the Holliday junction and facilitates the isomerization of the junction from the stacked folded configuration to the square-planar structure []. In the RuvA tetramer, each subunit consists of three domains, I, II and III, where I and II form the major core that is responsible for Holliday junction binding and base pair rearrangements of Holliday junction executed at the crossover point, whereas domain III regulates branch migration through direct contact with RuvB. The domain represents the C-terminal domain III of RuvA. This domain plays a significant role in the ATP-dependent branch migration of the hetero-duplex through direct contact with RuvB []. Within the Holliday junction, this domain makes no interaction with the DNA.; GO: 0005524 ATP binding, 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination, 0009379 Holliday junction helicase complex; PDB: 1HJP_A 1CUK_A 1C7Y_A 1IXS_A 1IXR_B 1BVS_E 2ZTC_A 2ZTD_B 2H5X_A.
Probab=27.64 E-value=76 Score=21.66 Aligned_cols=22 Identities=23% Similarity=0.297 Sum_probs=13.5
Q ss_pred HHHHHHHHcCCChhhHHHHHHh
Q 048759 82 PVFSYLEKIGIAKSKLGEFVKK 103 (442)
Q Consensus 82 ~~l~~L~~lG~s~~~i~~lv~~ 103 (442)
.+++-|.++|+++.++.+++.+
T Consensus 5 d~~~AL~~LGy~~~e~~~av~~ 26 (47)
T PF07499_consen 5 DALEALISLGYSKAEAQKAVSK 26 (47)
T ss_dssp HHHHHHHHTTS-HHHHHHHHHH
T ss_pred HHHHHHHHcCCCHHHHHHHHHH
Confidence 4566666677776666666654
No 60
>cd03036 ArsC_like Arsenate Reductase (ArsC) family, unknown subfamily; uncharacterized proteins containing a CXXC motif with similarity to thioredoxin (TRX)-fold arsenic reductases, ArsC. Proteins containing a redox active CXXC motif like TRX and glutaredoxin (GRX) function as protein disulfide oxidoreductases, altering the redox state of target proteins via the reversible oxidation of the active site dithiol. ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], using reducing equivalents derived from glutathione via GRX, through a single catalytic cysteine.
Probab=27.56 E-value=2.1e+02 Score=23.30 Aligned_cols=81 Identities=16% Similarity=0.227 Sum_probs=42.4
Q ss_pred hhh-HHHHHHHHhCCCCCccccCCCCCccHHHHHHHHHHHHHCCCCccccc-cCCccccccccccchHHHHHHH---H-c
Q 048759 17 VNR-VKICDYLKSLGIIPDELENLELPSTIEVMEERVMFLQKLGLTIDDIN-EYPLMLGCSMRKNMIPVFSYLE---K-I 90 (442)
Q Consensus 17 ~~~-~~~~~~L~~~Gi~~~~i~~~~~~~~~~~~~~~l~~L~~lG~s~~~i~-~~P~ll~~~~~~~l~~~l~~L~---~-l 90 (442)
|++ .+..+||++.|++...+.-...+.+.+.+ .+++...|...+++- +.. ....-|. . -
T Consensus 9 C~~c~ka~~~L~~~~i~~~~idi~~~~~~~~el---~~~~~~~~~~~~~l~~~~~------------~~~~~l~~~~~~~ 73 (111)
T cd03036 9 CSTCRKAKKWLDEHGVDYTAIDIVEEPPSKEEL---KKWLEKSGLPLKKFFNTSG------------KSYRELGLKDKLP 73 (111)
T ss_pred CHHHHHHHHHHHHcCCceEEecccCCcccHHHH---HHHHHHcCCCHHHHHhcCC------------chHHhCCcccccc
Confidence 444 34678888888886653322223333333 455566665544431 110 0111110 1 1
Q ss_pred CCChhhHHHHHHhCCccccccc
Q 048759 91 GIAKSKLGEFVKKYPQVLHASV 112 (442)
Q Consensus 91 G~s~~~i~~lv~~~P~lL~~~~ 112 (442)
+++.+++-.++..+|.++.+.+
T Consensus 74 ~~s~~e~~~~l~~~p~LikRPI 95 (111)
T cd03036 74 SLSEEEALELLSSDGMLIKRPF 95 (111)
T ss_pred cCCHHHHHHHHHhCcCeeeCCE
Confidence 4566777788888888876654
No 61
>PRK00116 ruvA Holliday junction DNA helicase RuvA; Reviewed
Probab=27.13 E-value=1.2e+02 Score=27.65 Aligned_cols=25 Identities=20% Similarity=0.189 Sum_probs=12.9
Q ss_pred HHHHHHHHHhCCCCCChHHHHHhhc
Q 048759 116 LMPVVKFLRGLDVEKEDIGYVLMKY 140 (442)
Q Consensus 116 l~~~v~fL~~lG~~~~~i~~il~~~ 140 (442)
+...+.+|.++|+++.++.+++.++
T Consensus 149 ~~ev~~aL~~LG~~~~~a~~~~~~~ 173 (192)
T PRK00116 149 LEEAVSALVALGYKPKEASKAVAKI 173 (192)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHHH
Confidence 3445555555555555555555443
No 62
>PF14117 DUF4287: Domain of unknown function (DUF4287)
Probab=27.04 E-value=2.3e+02 Score=20.77 Aligned_cols=44 Identities=18% Similarity=0.185 Sum_probs=24.0
Q ss_pred HhcCCChhHHHHHHHhcccccchhhhhHHHHHHHHH-hcCCChhHHHHHH
Q 048759 269 LKLKIDPDEFAQVVEKMPQVVSLNQHVIMKSVEFLL-GRGIPSGDLAKMV 317 (442)
Q Consensus 269 ~~lG~~~~~v~~~i~~~P~il~~s~~~l~~k~~fl~-~~G~s~~~i~~~v 317 (442)
+..|-+.++...++...|... +-.+.+++|. +.|++.-....++
T Consensus 11 ~kTGk~~~~W~~~~~~~~~~~-----k~~e~v~WLK~ehgLghGhA~Aiv 55 (61)
T PF14117_consen 11 KKTGKTLDEWLALAREGGPLT-----KHGEIVAWLKDEHGLGHGHANAIV 55 (61)
T ss_pred HHHCcCHHHHHHHHHHhCCCC-----cHHHHHHHHHHHHCCChHHHHHHH
Confidence 455666666666666665222 2235666666 4666655544443
No 63
>PRK12559 transcriptional regulator Spx; Provisional
Probab=26.94 E-value=1.6e+02 Score=24.98 Aligned_cols=101 Identities=14% Similarity=0.137 Sum_probs=52.6
Q ss_pred HHHHHHHHhCCCCCccccCCCCCccHHHHHHHHHHHHHCCCCccccccCCccccccccccchHHHHHHH--HcCCChhhH
Q 048759 20 VKICDYLKSLGIIPDELENLELPSTIEVMEERVMFLQKLGLTIDDINEYPLMLGCSMRKNMIPVFSYLE--KIGIAKSKL 97 (442)
Q Consensus 20 ~~~~~~L~~~Gi~~~~i~~~~~~~~~~~~~~~l~~L~~lG~s~~~i~~~P~ll~~~~~~~l~~~l~~L~--~lG~s~~~i 97 (442)
.+...||+..|++...+.-...+-+.+.+ ..+|+.+|+..+++- ... .....-|. .-+++.+++
T Consensus 14 rkA~~~L~~~gi~~~~~di~~~~~s~~el---~~~l~~~~~g~~~li------n~~-----~~~~k~l~~~~~~ls~~e~ 79 (131)
T PRK12559 14 RKAKAWLEENQIDYTEKNIVSNSMTVDEL---KSILRLTEEGATEII------STR-----SKTFQDLNINIEELSLNEF 79 (131)
T ss_pred HHHHHHHHHcCCCeEEEEeeCCcCCHHHH---HHHHHHcCCCHHHHH------hcC-----cHHHHhCCCCcccCCHHHH
Confidence 34678888888886654332334444444 455556555544431 000 01111111 124566777
Q ss_pred HHHHHhCCccccccccccHHHHHHHHHhCCCCCChHHHHHhh
Q 048759 98 GEFVKKYPQVLHASVVVELMPVVKFLRGLDVEKEDIGYVLMK 139 (442)
Q Consensus 98 ~~lv~~~P~lL~~~~~~~l~~~v~fL~~lG~~~~~i~~il~~ 139 (442)
-.++..+|.++-+.+-.+ .. =.-+|++.+++..++.+
T Consensus 80 i~ll~~~P~LikRPIi~~--~~---~~~iGf~~e~~~~~l~~ 116 (131)
T PRK12559 80 YKLIIEHPLMLRRPIMLD--EK---RLQIGFNDEEIRKFLPR 116 (131)
T ss_pred HHHHHhCcceEeCCEEEe--CC---EEEEcCCHHHHHHHhhH
Confidence 788888888887664211 00 01267777777666633
No 64
>PRK14136 recX recombination regulator RecX; Provisional
Probab=26.39 E-value=6.4e+02 Score=24.91 Aligned_cols=132 Identities=20% Similarity=0.214 Sum_probs=65.6
Q ss_pred HHHHHhCCCccccccccccCCceeecccccchHHHHHHHHhcCCChHH-HHHHHHhcchhcccCcccchhhhHHHHHhhc
Q 048759 157 AYLVSIGVSPRDIGPMVTQYPYFLGMRVGTMIKPLVDYLVSLGLPIKI-LARMLEKRVYILGYDLEETVKPNVDCLISFG 235 (442)
Q Consensus 157 ~~L~~lG~~~~~i~~li~~~P~lL~~s~~~~l~p~v~~L~~lG~~~~~-i~~~l~~~P~il~~s~e~~l~~~v~~L~~~G 235 (442)
.||..---+..+|.+=|.+. .++- ..+...|++|++.|+-.+. ......+. ..-.... .....-|++.|
T Consensus 170 ~lLSrReRSe~ELr~KL~kk----G~~e-e~IE~VIerLke~gYLDDeRFAesyVr~-R~~kkGp----~rIrqELrQKG 239 (309)
T PRK14136 170 GYLSRREYSRAELARKLAPY----ADES-DSVEPLLDALEREGWLSDARFAESLVHR-RASRVGS----ARIVSELKRHA 239 (309)
T ss_pred HHhhcccccHHHHHHHHHHc----CCCH-HHHHHHHHHHHHcCCcCHHHHHHHHHHH-HhhchhH----HHHHHHHHHcC
Confidence 34443355566666655544 3333 3677788888877776542 22222211 1111111 12234566778
Q ss_pred CChHHHHHHHHhCCcccccChhhhhhhHHHHHHHhcCCChhHHHHHHHhcccccchhhhhHHHHHHHHHhcCCChhHHHH
Q 048759 236 IRREKLASVIAQYPQIIGLPLKAKMSSQLYFFNLKLKIDPDEFAQVVEKMPQVVSLNQHVIMKSVEFLLGRGIPSGDLAK 315 (442)
Q Consensus 236 ~~~~~i~~~i~~~P~iL~~~~~~~l~~~~~~l~~~lG~~~~~v~~~i~~~P~il~~s~~~l~~k~~fl~~~G~s~~~i~~ 315 (442)
++.+.|...+.... ++-++.-...+. +++..+ ........+.+.||..-||+.+.|..
T Consensus 240 Id~eLIEqALeeie-------EDE~E~A~~L~e--------------KK~~~~-~~d~kek~K~iRfL~rRGFS~D~I~~ 297 (309)
T PRK14136 240 VGDALVESVGAQLR-------ETEFERAQAVWR--------------KKFGAL-PQTPAERAKQARFLAARGFSSATIVK 297 (309)
T ss_pred CCHHHHHHHHHhcc-------HhHHHHHHHHHH--------------HHhccc-CcCHHHHHHHHHHHHHCCCCHHHHHH
Confidence 88888777665321 011111111111 122211 11122233447888888999999987
Q ss_pred HHhhc
Q 048759 316 MVVQC 320 (442)
Q Consensus 316 ~v~~~ 320 (442)
++..+
T Consensus 298 vLk~~ 302 (309)
T PRK14136 298 LLKVG 302 (309)
T ss_pred HHHhc
Confidence 77654
No 65
>cd04768 HTH_BmrR-like Helix-Turn-Helix DNA binding domain of BmrR-like transcription regulators. Helix-turn-helix (HTH) BmrR-like transcription regulators (TipAL, Mta, SkgA, BmrR, and BltR), N-terminal domain. These proteins have been shown to regulate expression of specific regulons in response to various toxic substances, antibiotics, or oxygen radicals in Bacillus subtilis, Streptomyces, and Caulobacter crescentus. They are comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain HTH motifs that mediate DNA binding, while the C-terminal domains are often unrelated and bind specific coactivator molecules. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=26.33 E-value=1.7e+02 Score=23.17 Aligned_cols=24 Identities=13% Similarity=0.193 Sum_probs=19.3
Q ss_pred HHHHHHHhcCCChhHHHHHHhhcC
Q 048759 298 KSVEFLLGRGIPSGDLAKMVVQCP 321 (442)
Q Consensus 298 ~k~~fl~~~G~s~~~i~~~v~~~P 321 (442)
..+.+|+++|++.++|..++....
T Consensus 48 ~~I~~lr~~G~~l~~I~~~l~~~~ 71 (96)
T cd04768 48 QFILFLRELGFSLAEIKELLDTEM 71 (96)
T ss_pred HHHHHHHHcCCCHHHHHHHHhcCc
Confidence 457788889999999998887543
No 66
>cd01106 HTH_TipAL-Mta Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA. Helix-turn-helix (HTH) TipAL, Mta, and SkgA transcription regulators, and related proteins, N-terminal domain. TipAL regulates resistance to and activation by numerous cyclic thiopeptide antibiotics, such as thiostrepton. Mta is a global transcriptional regulator; the N-terminal DNA-binding domain of Mta interacts directly with the promoters of mta, bmr, blt, and ydfK, and induces transcription of these multidrug-efflux transport genes. SkgA has been shown to control stationary-phase expression of catalase-peroxidase in Caulobacter crescentus. These proteins are comprised of distinct domains that harbor an N-terminal active (DNA-binding) site and a regulatory (effector-binding) site. The conserved N-terminal domain of these transcription regulators contains winged HTH motifs that mediate DNA binding. These proteins share the N-terminal DNA binding domain with other transcrip
Probab=25.93 E-value=2.1e+02 Score=22.92 Aligned_cols=24 Identities=13% Similarity=0.281 Sum_probs=18.9
Q ss_pred HHHHHHHhcCCChhHHHHHHhhcC
Q 048759 298 KSVEFLLGRGIPSGDLAKMVVQCP 321 (442)
Q Consensus 298 ~k~~fl~~~G~s~~~i~~~v~~~P 321 (442)
..+.++++.|+|.++|..++....
T Consensus 48 ~~i~~lr~~g~~l~~i~~~~~~~~ 71 (103)
T cd01106 48 QQILFLKELGFSLKEIKELLKDPS 71 (103)
T ss_pred HHHHHHHHcCCCHHHHHHHHHcCc
Confidence 456778889999999988886654
No 67
>cd04781 HTH_MerR-like_sg6 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 6) with at least two conserved cysteines present in the C-terminal portion of the protein. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, an
Probab=25.61 E-value=2e+02 Score=23.87 Aligned_cols=23 Identities=9% Similarity=0.145 Sum_probs=17.0
Q ss_pred HHHHHHHhcCCChhHHHHHHhhc
Q 048759 298 KSVEFLLGRGIPSGDLAKMVVQC 320 (442)
Q Consensus 298 ~k~~fl~~~G~s~~~i~~~v~~~ 320 (442)
..+.++.++|+|.++|..++...
T Consensus 47 ~~I~~lr~~G~~L~eI~~~l~~~ 69 (120)
T cd04781 47 ALIALGRAAGFSLDEIQAMLSHD 69 (120)
T ss_pred HHHHHHHHcCCCHHHHHHHHhcc
Confidence 35677777888888888777654
No 68
>PF10007 DUF2250: Uncharacterized protein conserved in archaea (DUF2250); InterPro: IPR019254 Members of this family of hypothetical archaeal proteins have no known function.
Probab=25.28 E-value=67 Score=25.68 Aligned_cols=43 Identities=26% Similarity=0.292 Sum_probs=33.2
Q ss_pred HHHHHHHHhCCCCCcc-ccCCCCCccHHHHHHHHHHHHHCCCCcc
Q 048759 20 VKICDYLKSLGIIPDE-LENLELPSTIEVMEERVMFLQKLGLTID 63 (442)
Q Consensus 20 ~~~~~~L~~~Gi~~~~-i~~~~~~~~~~~~~~~l~~L~~lG~s~~ 63 (442)
..++.+|...|.+.+| +++ ....+.+.+...+.-|+++|+=+.
T Consensus 10 ~~IL~hl~~~~~Dy~k~ia~-~l~~~~~~v~~~l~~Le~~GLler 53 (92)
T PF10007_consen 10 LKILQHLKKAGPDYAKSIAR-RLKIPLEEVREALEKLEEMGLLER 53 (92)
T ss_pred HHHHHHHHHHCCCcHHHHHH-HHCCCHHHHHHHHHHHHHCCCeEE
Confidence 5688999999999887 443 345677888888888988887544
No 69
>cd01392 HTH_LacI Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators. HTH-DNA binding domain of the LacI (lactose operon repressor) family of bacterial transcriptional regulators and their putative homologs found in plants. The LacI family has more than 500 members distributed among almost all bacterial species. The monomeric proteins of the LacI family contain common structural features that include a small DNA-binding domain with a helix-turn-helix motif in the N-terminus, a regulatory ligand-binding domain which exhibits the type I periplasmic binding protein fold in the C-terminus for oligomerization and for effector binding, and an approximately 18-amino acid linker connecting these two functional domains. In LacI-like transcriptional regulators, the ligands are monosaccharides including lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars, with a few exceptions. When the C-terminal domain of the LacI family repre
Probab=25.15 E-value=1.6e+02 Score=19.84 Aligned_cols=13 Identities=15% Similarity=0.358 Sum_probs=6.2
Q ss_pred hcCChHHHHHHHH
Q 048759 234 FGIRREKLASVIA 246 (442)
Q Consensus 234 ~G~~~~~i~~~i~ 246 (442)
+|++...+.+++.
T Consensus 7 ~gvs~~tvs~~l~ 19 (52)
T cd01392 7 AGVSVATVSRVLN 19 (52)
T ss_pred HCcCHHHHHHHHc
Confidence 4555555544443
No 70
>COG3956 Protein containing tetrapyrrole methyltransferase domain and MazG-like (predicted pyrophosphatase) domain [General function prediction only]
Probab=25.09 E-value=3.1e+02 Score=27.51 Aligned_cols=69 Identities=14% Similarity=0.225 Sum_probs=33.2
Q ss_pred HHHHHhcchhcccCcccchhhhHHHH---Hh--hcCChHHHHHHHHhCCcccc-cChhhhhhhHHHHHHHhcCCChhHHH
Q 048759 206 ARMLEKRVYILGYDLEETVKPNVDCL---IS--FGIRREKLASVIAQYPQIIG-LPLKAKMSSQLYFFNLKLKIDPDEFA 279 (442)
Q Consensus 206 ~~~l~~~P~il~~s~e~~l~~~v~~L---~~--~G~~~~~i~~~i~~~P~iL~-~~~~~~l~~~~~~l~~~lG~~~~~v~ 279 (442)
.+||++||.+|+-.--+.....++-. +. -+... -...+.+.|.+|. +....+++.+ ....||+...+.
T Consensus 319 ~KMIrRHPHvF~d~qve~~~dv~e~WdeiKkae~~~qs--~ts~l~~ipK~lpal~~a~klqkK----aakvgFD~~~ve 392 (488)
T COG3956 319 EKMIRRHPHVFKDEQVEDSTDVLEKWDEIKKAEKDLQS--YTSELKKIPKILPALILAEKLQKK----AAKVGFDWANVE 392 (488)
T ss_pred HHHHHhCcccccccccccHHHHHHHHHHHHHHhcCCCc--chhHHhhhhhhhHHHHHHHHHHHH----HHhcCCCHHhHH
Confidence 37899999999742111333333222 22 12111 1234455666553 2222233333 356788877665
Q ss_pred H
Q 048759 280 Q 280 (442)
Q Consensus 280 ~ 280 (442)
.
T Consensus 393 ~ 393 (488)
T COG3956 393 E 393 (488)
T ss_pred H
Confidence 3
No 71
>PRK13344 spxA transcriptional regulator Spx; Reviewed
Probab=24.82 E-value=2.2e+02 Score=24.14 Aligned_cols=21 Identities=10% Similarity=0.121 Sum_probs=14.3
Q ss_pred HHHHHHHHHHHHHCCCCcccc
Q 048759 45 IEVMEERVMFLQKLGLTIDDI 65 (442)
Q Consensus 45 ~~~~~~~l~~L~~lG~s~~~i 65 (442)
.+.-+...+||++.|++-+.+
T Consensus 10 C~~crkA~~~L~~~~i~~~~~ 30 (132)
T PRK13344 10 CTSCKKAKTWLNAHQLSYKEQ 30 (132)
T ss_pred CHHHHHHHHHHHHcCCCeEEE
Confidence 344566778888888776665
No 72
>cd04763 HTH_MlrA-like Helix-Turn-Helix DNA binding domain of MlrA-like transcription regulators. Helix-turn-helix (HTH) transcription regulator MlrA (merR-like regulator A) and related proteins, N-terminal domain. The MlrA protein, also known as YehV, has been shown to control cell-cell aggregation by co-regulating the expression of curli and extracellular matrix production in Escherichia coli and Salmonella typhimurium. Its close homolog, CarA from Myxococcus xanthus, is involved in activation of the carotenoid biosynthesis genes by light. These proteins belong to the MerR superfamily of transcription regulators that promote expression of several stress regulon genes by reconfiguring the spacer between the -35 and -10 promoter elements. Their conserved N-terminal domains contain predicted HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules. Many MlrA-like proteins in this group appear to lack the long dimerization helix seen
Probab=24.44 E-value=2.8e+02 Score=20.08 Aligned_cols=20 Identities=10% Similarity=0.340 Sum_probs=15.8
Q ss_pred HHHHHHHhcCCChhHHHHHH
Q 048759 298 KSVEFLLGRGIPSGDLAKMV 317 (442)
Q Consensus 298 ~k~~fl~~~G~s~~~i~~~v 317 (442)
..+..|.+.|++.++|+.++
T Consensus 48 ~~i~~l~~~g~~l~~i~~~l 67 (68)
T cd04763 48 LEIKRWIDNGVQVSKVKKLL 67 (68)
T ss_pred HHHHHHHHcCCCHHHHHHHh
Confidence 45777778999999998665
No 73
>PF00356 LacI: Bacterial regulatory proteins, lacI family; InterPro: IPR000843 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. These proteins are very diverse, but for convenience may be grouped into subfamilies on the basis of sequence similarity. One such family groups together a range of proteins, including ascG, ccpA, cytR, ebgR, fruR, galR, galS, lacI, malI, opnR, purF, rafR, rbtR and scrR [, ]. Within this family, the HTH motif is situated towards the N terminus.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 3KJX_C 1ZAY_A 1VPW_A 2PUA_A 1QQA_A 1PNR_A 1JFT_A 1QP4_A 2PUD_A 1JH9_A ....
Probab=24.37 E-value=1.8e+02 Score=19.87 Aligned_cols=16 Identities=13% Similarity=0.312 Sum_probs=9.0
Q ss_pred hhcCChHHHHHHHHhC
Q 048759 233 SFGIRREKLASVIAQY 248 (442)
Q Consensus 233 ~~G~~~~~i~~~i~~~ 248 (442)
.+|++...+.+++...
T Consensus 8 ~agvS~~TVSr~ln~~ 23 (46)
T PF00356_consen 8 EAGVSKSTVSRVLNGP 23 (46)
T ss_dssp HHTSSHHHHHHHHTTC
T ss_pred HHCcCHHHHHHHHhCC
Confidence 3566666666655544
No 74
>PF13443 HTH_26: Cro/C1-type HTH DNA-binding domain; PDB: 3TYR_A 3TYS_A 3B7H_A.
Probab=23.99 E-value=1.3e+02 Score=21.32 Aligned_cols=15 Identities=13% Similarity=0.290 Sum_probs=6.0
Q ss_pred HhcCCChhHHHHHHH
Q 048759 269 LKLKIDPDEFAQVVE 283 (442)
Q Consensus 269 ~~lG~~~~~v~~~i~ 283 (442)
+..|+++..+.+++.
T Consensus 18 ~~~gis~~tl~~~~~ 32 (63)
T PF13443_consen 18 RKTGISRSTLSRILN 32 (63)
T ss_dssp HHHT--HHHHHHHHT
T ss_pred HHHCcCHHHHHHHHh
Confidence 344555555444443
No 75
>cd04780 HTH_MerR-like_sg5 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 5), N-terminal domain. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=23.72 E-value=2.7e+02 Score=22.14 Aligned_cols=37 Identities=8% Similarity=0.189 Sum_probs=26.6
Q ss_pred HHHHHHHh-cCCChhHHHHHHhhcCcccccChhhhHhHHHHHHH
Q 048759 298 KSVEFLLG-RGIPSGDLAKMVVQCPQLIACRVELMKNSFYFFKS 340 (442)
Q Consensus 298 ~k~~fl~~-~G~s~~~i~~~v~~~P~iL~~S~e~l~~r~~fL~~ 340 (442)
..+..|.+ +|++.++|..++.. ..-+.+-.+.+++..
T Consensus 48 ~~I~~L~~~~G~~l~~I~~~l~~------~~~~~~~~~~~~~~~ 85 (95)
T cd04780 48 RLIRALQQEGGLPISQIKEVLDA------IADASLPSTLLALAV 85 (95)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHh------cCcccHHHHHHHHHH
Confidence 45777874 89999999887765 333377777777764
No 76
>COG1393 ArsC Arsenate reductase and related proteins, glutaredoxin family [Inorganic ion transport and metabolism]
Probab=23.60 E-value=2.6e+02 Score=23.27 Aligned_cols=42 Identities=17% Similarity=0.253 Sum_probs=27.6
Q ss_pred cHHHHHHHHHHHHHCCCCccccc--cCCccccccccccchHHHHHHHHcCCC
Q 048759 44 TIEVMEERVMFLQKLGLTIDDIN--EYPLMLGCSMRKNMIPVFSYLEKIGIA 93 (442)
Q Consensus 44 ~~~~~~~~l~~L~~lG~s~~~i~--~~P~ll~~~~~~~l~~~l~~L~~lG~s 93 (442)
+.+..+.+.+||+..|++.+.+. +.|- +.....+++...|.+
T Consensus 10 ~C~t~rka~~~L~~~gi~~~~~~y~~~~~--------s~~eL~~~l~~~g~~ 53 (117)
T COG1393 10 NCSTCRKALAWLEEHGIEYTFIDYLKTPP--------SREELKKILSKLGDG 53 (117)
T ss_pred CChHHHHHHHHHHHcCCCcEEEEeecCCC--------CHHHHHHHHHHcCcc
Confidence 44567888999999999887653 2221 224566666666665
No 77
>PF12244 DUF3606: Protein of unknown function (DUF3606); InterPro: IPR022037 This family of proteins is found in bacteria. Proteins in this family are typically between 58 and 85 amino acids in length. There is a single completely conserved residue G that may be functionally important.
Probab=22.91 E-value=87 Score=22.51 Aligned_cols=22 Identities=5% Similarity=0.381 Sum_probs=17.2
Q ss_pred HHHHHHhcCCChhHHHHHHHhc
Q 048759 264 LYFFNLKLKIDPDEFAQVVEKM 285 (442)
Q Consensus 264 ~~~l~~~lG~~~~~v~~~i~~~ 285 (442)
+.+|.+.+|++++++..+|.+.
T Consensus 23 v~ywa~~~gvt~~~L~~AV~~v 44 (57)
T PF12244_consen 23 VRYWAKRFGVTEEQLREAVRAV 44 (57)
T ss_pred HHHHHHHHCcCHHHHHHHHHHH
Confidence 4567788999998888877654
No 78
>COG3620 Predicted transcriptional regulator with C-terminal CBS domains [Transcription]
Probab=22.77 E-value=70 Score=28.39 Aligned_cols=78 Identities=19% Similarity=0.281 Sum_probs=0.0
Q ss_pred HhCCCCCccccCCCCCccHHHHHHHHHHHHHCCCCccccc------cCCccccccccccchHHHHHHHHcCCChhhHHHH
Q 048759 27 KSLGIIPDELENLELPSTIEVMEERVMFLQKLGLTIDDIN------EYPLMLGCSMRKNMIPVFSYLEKIGIAKSKLGEF 100 (442)
Q Consensus 27 ~~~Gi~~~~i~~~~~~~~~~~~~~~l~~L~~lG~s~~~i~------~~P~ll~~~~~~~l~~~l~~L~~lG~s~~~i~~l 100 (442)
+.+||+.+++++ ..|.|..-|+ -.|++ ..+..++++|.+.-=..-....+
T Consensus 15 k~LGitQ~dLA~------------------~aGVSQ~~IArlE~G~vdPrl------St~k~Il~aL~e~e~~~ita~~i 70 (187)
T COG3620 15 KELGITQKDLAR------------------RAGVSQPYIARLEAGKVDPRL------STVKRILEALEEAEKTRITAKTI 70 (187)
T ss_pred HHcCCCHHHHHH------------------HcCccHHHHHHHhcCCCCccH------HHHHHHHHHHHHhhcceEeHhhh
Q ss_pred HHhCCccccccccccHHHHHHHHHhCCCCC
Q 048759 101 VKKYPQVLHASVVVELMPVVKFLRGLDVEK 130 (442)
Q Consensus 101 v~~~P~lL~~~~~~~l~~~v~fL~~lG~~~ 130 (442)
..+. +.++++++.+...++.++..|+|.
T Consensus 71 M~sp--vv~v~pdDsi~~vv~lM~~~g~SQ 98 (187)
T COG3620 71 MHSP--VVSVSPDDSISDVVNLMRDKGISQ 98 (187)
T ss_pred ccCC--eeEECchhhHHHHHHHHHHcCCcc
No 79
>KOG0772 consensus Uncharacterized conserved protein, contains WD40 repeat [Function unknown]
Probab=22.54 E-value=42 Score=35.15 Aligned_cols=19 Identities=26% Similarity=0.435 Sum_probs=14.0
Q ss_pred CCCCCCCCCcccCCcccee
Q 048759 417 LPGSEVVSDEEDESDDEVL 435 (442)
Q Consensus 417 ~~~~~~~~~~~~~~~~~~~ 435 (442)
.+|.|+++|||+|+|+|+-
T Consensus 132 ~e~~ddd~e~deD~~~e~~ 150 (641)
T KOG0772|consen 132 PEGEDDDSEEDEDEDEEES 150 (641)
T ss_pred CcCccccccccccccchhc
Confidence 4778888777777777764
No 80
>PF04220 YihI: Der GTPase activator (YihI); InterPro: IPR007336 This entry contains Escherichia coli (strain K12) YihI. YihI activates the GTPase activity of Der, a 50S ribosomal subunit stability factor and can therefore be considered a GAP (GTPase activating)-like protein. The stimulation is specific to Der as YihI does not stimulate the GTPase activity of Era or ObgE. The interaction of YihI with Der requires only the C-terminal 78 amino acids of YihI []. A yihI deletion mutant is viable and shows a shorter lag period, but the same post-lag growth rate as a wild-type strain. yihI is expressed during the lag period. Overexpression of yihI inhibits cell growth and biogenesis of the 50S ribosomal subunit []. YihI is an unusual, highly hydrophilic protein with an uneven distribution of charged residues, resulting in an N-terminal region with high pI and a C-terminal region with low pI [].
Probab=22.29 E-value=34 Score=30.53 Aligned_cols=59 Identities=25% Similarity=0.337 Sum_probs=36.3
Q ss_pred HHHHHHHHHcCCCcchhhhhcCChhhHHHHHhhcccccccCCCccccCCeecCCCCCCCCCcccCCcccee
Q 048759 365 KPRYQRLQSKGIRCSMNWFLNCSDQRFEERLLGNYIESESSGPSFCIGGKLVLPGSEVVSDEEDESDDEVL 435 (442)
Q Consensus 365 ~pR~~~L~~~G~~~~l~~~l~~sd~~F~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 435 (442)
-+|...|..+ ..-...|+..|..|+.....+|.+- =.++++.-+++++||++++|||++
T Consensus 107 D~rL~~LLdr---le~Ge~Ls~~dQ~yvD~~LdRi~~L---------m~~LGi~~ddd~e~~~~~~~dDll 165 (169)
T PF04220_consen 107 DERLNQLLDR---LEEGETLSAEDQKYVDEKLDRIEEL---------MEELGIEDDDDDEEEEEESDDDLL 165 (169)
T ss_pred cHHHHHHHHH---HHCCCcCCHHHHHHHHHHHHHHHHH---------HHHhCCCcccccccccccchhHHh
Confidence 3566655443 1112345677888888888888772 134566666666666777777764
No 81
>cd01107 HTH_BmrR Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator. Helix-turn-helix (HTH) multidrug-efflux transporter transcription regulator, BmrR and YdfL of Bacillus subtilis, and related proteins; N-terminal domain. Bmr is a membrane protein which causes the efflux of a variety of toxic substances and antibiotics. BmrR is comprised of two distinct domains that harbor a regulatory (effector-binding) site and an active (DNA-binding) site. The conserved N-terminal domain contains a winged HTH motif that mediates DNA binding, while the C-terminal domain binds coactivating, toxic compounds. BmrR shares the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=22.23 E-value=2.6e+02 Score=22.63 Aligned_cols=25 Identities=12% Similarity=0.352 Sum_probs=19.9
Q ss_pred HHHHHHHhcCCChhHHHHHHhhcCc
Q 048759 298 KSVEFLLGRGIPSGDLAKMVVQCPQ 322 (442)
Q Consensus 298 ~k~~fl~~~G~s~~~i~~~v~~~P~ 322 (442)
..+..++++|+|.++|..++...+.
T Consensus 49 ~~I~~lr~~G~sl~~i~~l~~~~~~ 73 (108)
T cd01107 49 NRIKYLRDLGFPLEEIKEILDADND 73 (108)
T ss_pred HHHHHHHHcCCCHHHHHHHHhcCCH
Confidence 4577778899999999988877664
No 82
>cd04782 HTH_BltR Helix-Turn-Helix DNA binding domain of the BltR transcription regulator. Helix-turn-helix (HTH) multidrug-efflux transporter transcription regulator, BltR (BmrR-like transporter) of Bacillus subtilis, and related proteins; N-terminal domain. Blt, like Bmr, is a membrane protein which causes the efflux of a variety of toxic substances and antibiotics. These regulators are comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the C-terminal domains are often unrelated and bind specific coactivator molecules. They share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=22.01 E-value=2.4e+02 Score=22.32 Aligned_cols=22 Identities=14% Similarity=0.194 Sum_probs=17.7
Q ss_pred HHHHHHHhcCCChhHHHHHHhh
Q 048759 298 KSVEFLLGRGIPSGDLAKMVVQ 319 (442)
Q Consensus 298 ~k~~fl~~~G~s~~~i~~~v~~ 319 (442)
..+.+|+++|+|.++|..++..
T Consensus 48 ~~I~~lr~~G~~l~eI~~~l~~ 69 (97)
T cd04782 48 DIILLLKELGISLKEIKDYLDN 69 (97)
T ss_pred HHHHHHHHcCCCHHHHHHHHhc
Confidence 4577888899999999887754
No 83
>cd01109 HTH_YyaN Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB. Putative helix-turn-helix (HTH) MerR-like transcription regulators of Bacillus subtilis, YyaN and YraB, and related proteins; N-terminal domain. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=21.89 E-value=2.4e+02 Score=22.97 Aligned_cols=22 Identities=14% Similarity=0.232 Sum_probs=17.2
Q ss_pred HHHHHHHhcCCChhHHHHHHhh
Q 048759 298 KSVEFLLGRGIPSGDLAKMVVQ 319 (442)
Q Consensus 298 ~k~~fl~~~G~s~~~i~~~v~~ 319 (442)
..+.+++++|||.++|..++..
T Consensus 48 ~~I~~lr~~G~sL~eI~~~l~~ 69 (113)
T cd01109 48 EFIKCLRNTGMSIKDIKEYAEL 69 (113)
T ss_pred HHHHHHHHcCCCHHHHHHHHHH
Confidence 4577788899999999887754
No 84
>PF02787 CPSase_L_D3: Carbamoyl-phosphate synthetase large chain, oligomerisation domain; InterPro: IPR005480 Carbamoyl phosphate synthase (CPSase) is a heterodimeric enzyme composed of a small and a large subunit (with the exception of CPSase III, see below). CPSase catalyses the synthesis of carbamoyl phosphate from biocarbonate, ATP and glutamine (6.3.5.5 from EC) or ammonia (6.3.4.16 from EC), and represents the first committed step in pyrimidine and arginine biosynthesis in prokaryotes and eukaryotes, and in the urea cycle in most terrestrial vertebrates [, ]. CPSase has three active sites, one in the small subunit and two in the large subunit. The small subunit contains the glutamine binding site and catalyses the hydrolysis of glutamine to glutamate and ammonia. The large subunit has two homologous carboxy phosphate domains, both of which have ATP-binding sites; however, the N-terminal carboxy phosphate domain catalyses the phosphorylation of biocarbonate, while the C-terminal domain catalyses the phosphorylation of the carbamate intermediate []. The carboxy phosphate domain found duplicated in the large subunit of CPSase is also present as a single copy in the biotin-dependent enzymes acetyl-CoA carboxylase (6.4.1.2 from EC) (ACC), propionyl-CoA carboxylase (6.4.1.3 from EC) (PCCase), pyruvate carboxylase (6.4.1.1 from EC) (PC) and urea carboxylase (6.3.4.6 from EC). Most prokaryotes carry one form of CPSase that participates in both arginine and pyrimidine biosynthesis, however certain bacteria can have separate forms. The large subunit in bacterial CPSase has four structural domains: the carboxy phosphate domain 1, the oligomerisation domain, the carbamoyl phosphate domain 2 and the allosteric domain []. CPSase heterodimers from Escherichia coli contain two molecular tunnels: an ammonia tunnel and a carbamate tunnel. These inter-domain tunnels connect the three distinct active sites, and function as conduits for the transport of unstable reaction intermediates (ammonia and carbamate) between successive active sites []. The catalytic mechanism of CPSase involves the diffusion of carbamate through the interior of the enzyme from the site of synthesis within the N-terminal domain of the large subunit to the site of phosphorylation within the C-terminal domain. Eukaryotes have two distinct forms of CPSase: a mitochondrial enzyme (CPSase I) that participates in both arginine biosynthesis and the urea cycle; and a cytosolic enzyme (CPSase II) involved in pyrimidine biosynthesis. CPSase II occurs as part of a multi-enzyme complex along with aspartate transcarbamoylase and dihydroorotase; this complex is referred to as the CAD protein []. The hepatic expression of CPSase is transcriptionally regulated by glucocorticoids and/or cAMP []. There is a third form of the enzyme, CPSase III, found in fish, which uses glutamine as a nitrogen source instead of ammonia []. CPSase III is closely related to CPSase I, and is composed of a single polypeptide that may have arisen from gene fusion of the glutaminase and synthetase domains []. This entry represents the oligomerisation domain found in the large subunit of carbamoyl phosphate synthases as well as in certain other carboxy phsophate domain-containing enzymes.; GO: 0006807 nitrogen compound metabolic process; PDB: 1M6V_C 1CS0_C 1C30_E 1C3O_G 1BXR_A 1T36_E 1A9X_A 1KEE_G 1CE8_A 1JDB_H ....
Probab=21.66 E-value=52 Score=27.75 Aligned_cols=28 Identities=21% Similarity=0.370 Sum_probs=13.2
Q ss_pred chHHHHHHHHcCCChhhHHHHHHhCCccc
Q 048759 80 MIPVFSYLEKIGIAKSKLGEFVKKYPQVL 108 (442)
Q Consensus 80 l~~~l~~L~~lG~s~~~i~~lv~~~P~lL 108 (442)
+..+.+.|+. |++.++|..+-.-+|..|
T Consensus 13 lf~i~eAlrr-G~sveeI~e~T~ID~wFL 40 (123)
T PF02787_consen 13 LFAIAEALRR-GYSVEEIHELTKIDPWFL 40 (123)
T ss_dssp HHHHHHHHHT-TB-HHHHHHHH---HHHH
T ss_pred HHHHHHHHHc-CCCHHHHHHHHCccHHHH
Confidence 3344444433 667667666666666554
No 85
>PF15539 CAF1-p150_C2: CAF1 complex subunit p150, region binding to CAF1-p60 at C-term
Probab=21.53 E-value=49 Score=31.63 Aligned_cols=38 Identities=18% Similarity=0.235 Sum_probs=21.1
Q ss_pred cCChhhHHHHHhhcccccccCCCccccCCeecCCCCCCCCCcccCCccc
Q 048759 385 NCSDQRFEERLLGNYIESESSGPSFCIGGKLVLPGSEVVSDEEDESDDE 433 (442)
Q Consensus 385 ~~sd~~F~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 433 (442)
+++=..|+.+. +|.+ .-|-.+.+||--|-+||+|+|||
T Consensus 212 sm~it~fmkk~--~~~~---------q~~~~d~dgfqadtee~eeed~d 249 (292)
T PF15539_consen 212 SMCITKFMKKR--RHDE---------QVGAGDMDGFQADTEEDEEEDGD 249 (292)
T ss_pred cccHHHHHHhc--Cccc---------ccccccCcccccCcccccccCCC
Confidence 34446777764 2222 13455667777776666555544
No 86
>KOG0400 consensus 40S ribosomal protein S13 [Translation, ribosomal structure and biogenesis]
Probab=21.42 E-value=3.1e+02 Score=23.42 Aligned_cols=59 Identities=24% Similarity=0.245 Sum_probs=35.1
Q ss_pred cHHHHHHHHHHHHHCCCCccccc---cCCccccccccccchHHHHHHHHcCCCh---hhHHHHHH
Q 048759 44 TIEVMEERVMFLQKLGLTIDDIN---EYPLMLGCSMRKNMIPVFSYLEKIGIAK---SKLGEFVK 102 (442)
Q Consensus 44 ~~~~~~~~l~~L~~lG~s~~~i~---~~P~ll~~~~~~~l~~~l~~L~~lG~s~---~~i~~lv~ 102 (442)
+.+.+.+-+--|.+-|+++.||+ +..+-+..-..-+=..++.+|++.|+.+ +|+-.++.
T Consensus 29 ~~ddvkeqI~K~akKGltpsqIGviLRDshGi~q~r~v~G~kI~Rilk~~Gl~PeiPeDLy~lik 93 (151)
T KOG0400|consen 29 TADDVKEQIYKLAKKGLTPSQIGVILRDSHGIGQVRFVTGNKILRILKSNGLAPEIPEDLYHLIK 93 (151)
T ss_pred CHHHHHHHHHHHHHcCCChhHceeeeecccCcchhheechhHHHHHHHHcCCCCCCcHHHHHHHH
Confidence 56788888888889999999986 2222111000001135788888888763 34444443
No 87
>cd08306 Death_FADD Fas-associated Death Domain protein-protein interaction domain. Death domain (DD) found in FAS-associated via death domain (FADD). FADD is a component of the death-inducing signaling complex (DISC) and serves as an adaptor in the signaling pathway of death receptor proteins. It modulates apoptosis as well as non-apoptotic processes such as cell cycle progression, survival, innate immune signaling, and hematopoiesis. FADD contains an N-terminal DED and a C-terminal DD. Its DD interacts with the DD of the activated death receptor, FAS, and its DED recruits the initiator caspases, caspase-8 and -10, to the DISC complex via a homotypic interaction with the N-terminal DED of the caspase. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain),
Probab=20.55 E-value=2.1e+02 Score=22.25 Aligned_cols=39 Identities=10% Similarity=0.222 Sum_probs=26.0
Q ss_pred HHHHHHHcCCChhhHHHHHHhCCccccccccccHHHHHHHHHh
Q 048759 83 VFSYLEKIGIAKSKLGEFVKKYPQVLHASVVVELMPVVKFLRG 125 (442)
Q Consensus 83 ~l~~L~~lG~s~~~i~~lv~~~P~lL~~~~~~~l~~~v~fL~~ 125 (442)
.-++-+.+|++..+|..+-..+|. ++.+.....+..++.
T Consensus 16 Wk~laR~LGlse~~Id~i~~~~~~----~~~eq~~~mL~~W~~ 54 (86)
T cd08306 16 WRKLARKLGLSETKIESIEEAHPR----NLREQVRQSLREWKK 54 (86)
T ss_pred HHHHHHHcCCCHHHHHHHHHHCCC----CHHHHHHHHHHHHHH
Confidence 344456889999999988888873 233455666665554
No 88
>cd03035 ArsC_Yffb Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine suggest that it is likely to function as a glutathione (GSH)-dependent thiol reductase. ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], using reducing equivalents derived from GSH via glutaredoxin, through a single catalytic cysteine.
Probab=20.49 E-value=2.8e+02 Score=22.42 Aligned_cols=18 Identities=11% Similarity=0.224 Sum_probs=8.4
Q ss_pred CCChHHHHHhhcCccccc
Q 048759 129 EKEDIGYVLMKYPELLGF 146 (442)
Q Consensus 129 ~~~~i~~il~~~P~lL~~ 146 (442)
+.+++..++..+|.++..
T Consensus 73 s~~e~~~~l~~~p~LikR 90 (105)
T cd03035 73 DAAKAIALMLEHPSLIKR 90 (105)
T ss_pred CHHHHHHHHHhCcCeeec
Confidence 344444444455544443
No 89
>PRK10853 putative reductase; Provisional
Probab=20.48 E-value=1.1e+02 Score=25.40 Aligned_cols=17 Identities=18% Similarity=0.393 Sum_probs=12.1
Q ss_pred hhHHHHHHhhcCccccc
Q 048759 310 SGDLAKMVVQCPQLIAC 326 (442)
Q Consensus 310 ~~~i~~~v~~~P~iL~~ 326 (442)
.+++.+++..+|.++.-
T Consensus 76 ~~e~~~ll~~~P~LikR 92 (118)
T PRK10853 76 AASAAALMLEQPAIIKR 92 (118)
T ss_pred HHHHHHHHHhCcCeeec
Confidence 46677788888877654
No 90
>PF11212 DUF2999: Protein of unknown function (DUF2999); InterPro: IPR021376 This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Probab=20.48 E-value=3.6e+02 Score=20.44 Aligned_cols=47 Identities=15% Similarity=0.283 Sum_probs=26.1
Q ss_pred HHHHHHHHhcCCChHHHHHHHHhcchhcccCcccchhhhHHHHHhhcCChHHHHH
Q 048759 189 KPLVDYLVSLGLPIKILARMLEKRVYILGYDLEETVKPNVDCLISFGIRREKLAS 243 (442)
Q Consensus 189 ~p~v~~L~~lG~~~~~i~~~l~~~P~il~~s~e~~l~~~v~~L~~~G~~~~~i~~ 243 (442)
.|.+..|++..++++.+..++... +-++ -..+..+.++|++++.+..
T Consensus 2 NPIia~LKehnvsd~qi~elFq~l----T~NP----l~AMa~i~qLGip~eKLQ~ 48 (82)
T PF11212_consen 2 NPIIAILKEHNVSDEQINELFQAL----TQNP----LAAMATIQQLGIPQEKLQQ 48 (82)
T ss_pred chHHHHHHHcCCCHHHHHHHHHHH----hhCH----HHHHHHHHHcCCCHHHHHH
Confidence 356677777777776665544321 1111 1244555667777776544
No 91
>PRK14137 recX recombination regulator RecX; Provisional
Probab=20.48 E-value=4.5e+02 Score=24.06 Aligned_cols=105 Identities=13% Similarity=0.029 Sum_probs=0.0
Q ss_pred HHHHHHHhCCCCCccccCCCCCccHHHHHHHHHHHHHCCCCccccccCCccccccccccchHHHHHHHHcCCChhhHHHH
Q 048759 21 KICDYLKSLGIIPDELENLELPSTIEVMEERVMFLQKLGLTIDDINEYPLMLGCSMRKNMIPVFSYLEKIGIAKSKLGEF 100 (442)
Q Consensus 21 ~~~~~L~~~Gi~~~~i~~~~~~~~~~~~~~~l~~L~~lG~s~~~i~~~P~ll~~~~~~~l~~~l~~L~~lG~s~~~i~~l 100 (442)
++-++|+..|++.+ .+..+|+.|.+.|+=.+.--+.-. ......-...+-.-|+.-|++.+.|...
T Consensus 59 ELr~KL~~kg~~~e------------~Ie~vI~rL~e~gyLDD~rfAe~~--~~~k~~Gp~rI~~eL~qKGI~~~lI~~a 124 (195)
T PRK14137 59 ELRAKLERRSEDEA------------LVTEVLERVQELGYQDDAQVARAE--NSRRGVGALRVRQTLRRRGVEETLIEET 124 (195)
T ss_pred HHHHHHHhcCCCHH------------HHHHHHHHHHHcCCCCHHHHHHHH--HHhcCchHHHHHHHHHHcCCCHHHHHHH
Q ss_pred HHhCCcc---------------ccccccccHHHHHHHHHhCCCCCChHHHHHhh
Q 048759 101 VKKYPQV---------------LHASVVVELMPVVKFLRGLDVEKEDIGYVLMK 139 (442)
Q Consensus 101 v~~~P~l---------------L~~~~~~~l~~~v~fL~~lG~~~~~i~~il~~ 139 (442)
+...-.- ........-...+.||..-||+.+.|..++..
T Consensus 125 l~~~d~ede~e~a~~l~~KK~~~~~~~~~~k~K~~~~L~rRGFs~~~I~~al~~ 178 (195)
T PRK14137 125 LAARDPQEEQQEARNLLERRWSSFARKRDPRASAYAFLARRGFSGAVIWPAIRE 178 (195)
T ss_pred HHhcCchhHHHHHHHHHHHhccccCcchhHHHHHHHHHHHCCCCHHHHHHHHHH
No 92
>cd04775 HTH_Cfa-like Helix-Turn-Helix DNA binding domain of Cfa-like transcription regulators. Putative helix-turn-helix (HTH) MerR-like transcription regulators; the HTH domain of Cfa, a cyclopropane fatty acid synthase, and other related methyltransferases, as well as, the N-terminal domain of a conserved, uncharacterized ~172 a.a. protein. Based on sequence similarity of the N-terminal domain, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimil
Probab=20.35 E-value=3.1e+02 Score=21.93 Aligned_cols=22 Identities=27% Similarity=0.546 Sum_probs=17.3
Q ss_pred HHHHHHHhcCCChhHHHHHHhh
Q 048759 298 KSVEFLLGRGIPSGDLAKMVVQ 319 (442)
Q Consensus 298 ~k~~fl~~~G~s~~~i~~~v~~ 319 (442)
..+..+.+.|++.++|..++..
T Consensus 48 ~~I~~l~~~G~~l~ei~~~~~~ 69 (102)
T cd04775 48 EKIVFLQAGGLPLEEIAGCLAQ 69 (102)
T ss_pred HHHHHHHHCCCCHHHHHHHHcC
Confidence 4577778899999999887754
No 93
>cd04770 HTH_HMRTR Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators. Helix-turn-helix (HTH) heavy metal resistance transcription regulators (HMRTR): MerR1 (mercury), CueR (copper), CadR (cadmium), PbrR (lead), ZntR (zinc), and other related proteins. These transcription regulators mediate responses to heavy metal stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=20.15 E-value=2.4e+02 Score=23.30 Aligned_cols=23 Identities=4% Similarity=0.118 Sum_probs=17.7
Q ss_pred HHHHHHHhcCCChhHHHHHHhhc
Q 048759 298 KSVEFLLGRGIPSGDLAKMVVQC 320 (442)
Q Consensus 298 ~k~~fl~~~G~s~~~i~~~v~~~ 320 (442)
..+.+++++|+|.++|..++...
T Consensus 48 ~~I~~lr~~G~sl~eI~~~l~~~ 70 (123)
T cd04770 48 RFIRRAQALGFSLAEIRELLSLR 70 (123)
T ss_pred HHHHHHHHCCCCHHHHHHHHHhh
Confidence 45777888899999998877643
Done!