Query 012919
Match_columns 453
No_of_seqs 248 out of 1362
Neff 7.6
Searched_HMMs 46136
Date Fri Mar 29 07:40:36 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/012919.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/012919hhsearch_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 7.6E-57 1.6E-61 470.7 25.6 382 25-439 58-451 (487)
2 PLN03196 MOC1-like protein; Pr 100.0 2.7E-44 5.9E-49 376.2 26.0 341 85-438 63-419 (487)
3 PF02536 mTERF: mTERF; InterP 100.0 9.8E-46 2.1E-50 374.4 8.3 302 91-425 3-345 (345)
4 PF02536 mTERF: mTERF; InterP 100.0 3.1E-34 6.8E-39 290.4 12.1 276 157-438 2-325 (345)
5 KOG1267 Mitochondrial transcri 99.9 1.4E-24 3.1E-29 224.9 13.7 272 132-409 71-411 (413)
6 KOG1267 Mitochondrial transcri 99.7 2.9E-17 6.2E-22 170.4 16.2 308 31-375 92-409 (413)
7 smart00733 Mterf Mitochondrial 96.8 0.001 2.2E-08 41.9 2.5 25 246-270 5-29 (31)
8 smart00733 Mterf Mitochondrial 96.8 0.00094 2E-08 42.0 2.2 28 348-376 3-30 (31)
9 PF11955 PORR: Plant organelle 90.7 2.9 6.4E-05 42.3 11.4 40 319-359 250-291 (335)
10 cd04790 HTH_Cfa-like_unk Helix 90.4 0.84 1.8E-05 41.7 6.7 114 155-279 50-167 (172)
11 cd04790 HTH_Cfa-like_unk Helix 70.5 38 0.00083 30.8 9.5 16 332-347 151-166 (172)
12 KOG0011 Nucleotide excision re 69.6 46 0.00099 33.4 10.2 119 146-284 129-261 (340)
13 TIGR00601 rad23 UV excision re 62.4 69 0.0015 33.1 10.4 45 148-201 152-196 (378)
14 PF04695 Pex14_N: Peroxisomal 62.2 11 0.00024 33.0 4.0 29 328-356 23-51 (136)
15 cd03211 GST_C_Metaxin2 GST_C f 59.7 66 0.0014 27.4 8.4 90 16-113 24-118 (126)
16 PF00627 UBA: UBA/TS-N domain; 56.8 33 0.00072 22.5 4.8 35 153-195 3-37 (37)
17 PF00627 UBA: UBA/TS-N domain; 55.9 30 0.00066 22.7 4.4 23 261-283 4-26 (37)
18 PRK00117 recX recombination re 51.8 62 0.0013 28.6 7.2 29 27-55 25-53 (157)
19 PF11212 DUF2999: Protein of u 51.2 36 0.00077 26.3 4.5 48 153-208 2-49 (82)
20 PF14490 HHH_4: Helix-hairpin- 50.1 54 0.0012 26.5 6.0 72 150-246 6-78 (94)
21 PF11955 PORR: Plant organelle 48.9 64 0.0014 32.8 7.5 148 141-291 107-292 (335)
22 COG1513 CynS Cyanate lyase [In 48.4 88 0.0019 27.1 7.0 67 29-112 5-75 (151)
23 PRK14136 recX recombination re 46.9 87 0.0019 31.3 7.8 38 26-63 175-220 (309)
24 PF04695 Pex14_N: Peroxisomal 46.2 19 0.00041 31.5 2.9 29 259-287 23-51 (136)
25 smart00165 UBA Ubiquitin assoc 44.6 73 0.0016 20.6 4.9 23 154-176 3-25 (37)
26 PF13744 HTH_37: Helix-turn-he 44.1 63 0.0014 25.2 5.3 60 24-98 10-74 (80)
27 cd00194 UBA Ubiquitin Associat 43.3 79 0.0017 20.5 5.0 36 153-196 2-37 (38)
28 PF02631 RecX: RecX family; I 43.2 1.4E+02 0.0031 25.0 7.9 110 221-351 8-118 (121)
29 PRK14135 recX recombination re 42.2 1.7E+02 0.0036 28.3 9.2 133 29-176 124-259 (263)
30 PF02022 Integrase_Zn: Integra 38.5 26 0.00057 23.9 2.0 23 35-57 13-36 (40)
31 PRK00117 recX recombination re 37.6 2.8E+02 0.0062 24.3 10.4 73 262-352 81-153 (157)
32 PF11212 DUF2999: Protein of u 37.5 1.2E+02 0.0027 23.4 5.6 49 225-280 2-50 (82)
33 PF07499 RuvA_C: RuvA, C-termi 36.2 54 0.0012 22.9 3.4 25 152-176 3-27 (47)
34 PF14698 ASL_C2: Argininosucci 35.7 35 0.00075 26.2 2.5 24 31-54 5-28 (70)
35 PRK14135 recX recombination re 33.9 4.3E+02 0.0094 25.3 10.9 24 260-283 179-202 (263)
36 COG2137 OraA Uncharacterized p 33.5 3.8E+02 0.0082 24.5 9.9 21 262-282 143-163 (174)
37 PF05902 4_1_CTD: 4.1 protein 31.8 26 0.00055 29.6 1.3 23 2-32 75-97 (114)
38 PRK14136 recX recombination re 31.0 5.2E+02 0.011 26.0 10.4 81 156-246 169-250 (309)
39 TIGR01448 recD_rel helicase, p 30.7 1.2E+02 0.0025 34.3 6.7 90 148-247 73-166 (720)
40 PRK00116 ruvA Holliday junctio 28.6 1.5E+02 0.0033 27.3 6.1 25 259-283 149-173 (192)
41 PF07671 DUF1601: Protein of u 26.5 41 0.00089 22.5 1.3 24 35-58 6-29 (37)
42 PF08069 Ribosomal_S13_N: Ribo 25.7 49 0.0011 24.7 1.7 36 247-282 21-56 (60)
43 PHA02119 hypothetical protein 23.5 68 0.0015 24.5 2.2 15 152-166 56-70 (87)
44 PF03960 ArsC: ArsC family; I 23.0 1.9E+02 0.0041 23.8 5.1 85 257-360 7-91 (110)
45 smart00354 HTH_LACI helix_turn 22.9 1.8E+02 0.0038 21.9 4.5 39 234-275 10-48 (70)
46 PF02330 MAM33: Mitochondrial 22.7 84 0.0018 29.2 3.2 28 28-55 159-186 (204)
47 PF14490 HHH_4: Helix-hairpin- 22.0 2.1E+02 0.0045 23.0 5.0 24 223-246 7-30 (94)
48 COG3068 Uncharacterized protei 21.9 1.3E+02 0.0028 27.0 3.9 51 28-87 95-147 (194)
49 KOG3120 Predicted haloacid deh 21.9 2E+02 0.0043 27.6 5.3 44 151-200 58-101 (256)
50 cd08808 CARD_CARD11_CARMA1 Cas 21.6 2.6E+02 0.0057 22.5 5.2 57 25-98 15-77 (86)
51 cd01392 HTH_LacI Helix-turn-he 21.6 2.2E+02 0.0047 19.6 4.5 38 234-274 7-44 (52)
52 KOG2561 Adaptor protein NUB1, 21.4 5E+02 0.011 27.5 8.5 122 218-351 259-398 (568)
53 PF13413 HTH_25: Helix-turn-he 21.1 2E+02 0.0043 21.4 4.3 53 39-101 8-61 (62)
54 PRK00116 ruvA Holliday junctio 20.9 2.6E+02 0.0056 25.8 6.0 25 224-248 149-173 (192)
55 PF00531 Death: Death domain; 20.5 2.7E+02 0.0058 21.1 5.3 53 39-98 21-73 (83)
56 cd08319 Death_RAIDD Death doma 20.3 2.6E+02 0.0057 22.2 5.1 66 193-280 18-83 (83)
57 COG2522 Predicted transcriptio 20.2 84 0.0018 26.9 2.4 13 29-41 35-48 (119)
58 PF13543 KSR1-SAM: SAM like do 20.2 2.1E+02 0.0044 24.9 4.7 51 228-281 70-123 (129)
59 COG1125 OpuBA ABC-type proline 20.0 1.5E+02 0.0033 29.1 4.3 65 223-290 72-139 (309)
No 1
>PLN03196 MOC1-like protein; Provisional
Probab=100.00 E-value=7.6e-57 Score=470.72 Aligned_cols=382 Identities=26% Similarity=0.450 Sum_probs=331.0
Q ss_pred HHHHHHHHHHHHHHHcCCChHHHHHHhhcChHHHHHHHhhhHhhhhhhhcccCccchHHHHHhhHHHHHHhhhhhhhhHH
Q 012919 25 EKEEAKAVLTLFLKKQGLSKGVAARTINKSDLFIDHLVSRLHSVHKSRYLVGRELTTLEIRDALTPYLESLLEEYGNVLV 104 (453)
Q Consensus 25 ~~~~a~~~~~~~l~~~g~~~~~a~~i~~~s~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lEslg~~~~~~l~ 104 (453)
++.+.++.+.+||..-|+....++..- -|..++.+- ..+.||+|+|++... +
T Consensus 58 ~~~~~~~~~~~~L~~lgi~~~~l~~~~--~p~~~~~~~------------------------~~l~~L~s~G~~~~~-i- 109 (487)
T PLN03196 58 EKLVNREKVLDFLRGIGIDPDELDGLE--LPSTVDVMR------------------------ERVEFLHKLGLTIED-I- 109 (487)
T ss_pred hhhhhHHHHHHHHHHcCCCchhhhccC--CCccHHHHH------------------------HHHHHHHHcCCChHH-h-
Confidence 566788999999999999988876633 233333222 334566666665333 2
Q ss_pred HHHHcCCCCCCcccccccccCCCCCCCCChH------HHhhccccccCCCCCChHHHHHHHHhcCCCHHHHHHHHHhCCC
Q 012919 105 DLVENFPNAPPPAKQKAVAPVSPPVSTLDSK------KLKAISRVSELDSSGDLRPQILYLIELGMDLEKIKLITRRFPA 178 (453)
Q Consensus 105 ~~v~~~p~~~~~~~~~~~~~~~~~~~~~d~~------~~~a~~r~l~~~~~~~l~~~l~~L~~lGls~~~i~~iv~~~P~ 178 (453)
.+||.+++.+......|+..|+..++.. .+..-++++..+.+.++.|+++||+++|++.++|.+++.++|+
T Consensus 110 ---~~~P~iL~~~v~~~l~Pvl~fL~~lG~s~~~i~~lI~~~P~lL~~sve~~L~P~v~fL~~lGvs~~~i~~~l~r~P~ 186 (487)
T PLN03196 110 ---NEYPLVLGCSVKKNMIPVLDYLEKLGVTRSSLPELLRRYPQVLHASVVVDLAPVVKYLQGLDVKRQDIPRVLERYPE 186 (487)
T ss_pred ---ccCcHHhhcCHhhhhHHHHHHHHHcCCCHHHHHHHHHhCCceecccHHHHHHHHHHHHHHcCCCHHHHHHHHHhCch
Confidence 1456666555555555555554322211 1122344556677889999999999999999999999999999
Q ss_pred ccccCcCCChHHHHHHHHhCCCCCCCHHHHHhhCCCcccCCcccchHHHHHHHHHhCCChhhHHHHHHhcccccccchh-
Q 012919 179 FSYYSLEGKIKPVVEFLLDLGIPKAQIPTILGKRPQLCGISLSENLIPTMTFLENLGVDKTQWAKVIQRFPAVLTYSRQ- 257 (453)
Q Consensus 179 lL~~~~~~~l~~~v~fL~~lG~~~~~I~~ii~~~P~lL~~s~e~~l~~~l~fL~~lGvs~~~i~~il~~~P~iL~~s~~- 257 (453)
+|++++++++.|+++||.++|+++++|++++.++|++|+++++++++|+++||+++|++.+++++++.++|++|+++.+
T Consensus 187 LL~~~~e~~l~p~v~fL~~lGvs~~~i~~il~~~P~iL~~sve~~i~P~v~fL~~lGv~~~~I~~il~~~P~iL~~sle~ 266 (487)
T PLN03196 187 LLGFKLEGTMSTSVAYLVSIGVAPRDIGPMLTRFPEILGMRVGNNIKPKVDYLESLGLPRLAVARILEKRPYILGFDLEE 266 (487)
T ss_pred hhcCCHHHHHHHHHHHHHHcCCCHHHHHHHHHhCcHHhhcChhhhHHHHHHHHHHcCCCHHHHHHHHHhCCceeEcCHHH
Confidence 9999999899999999999999999999999999999999999999999999999999999999999999999999997
Q ss_pred hHHHHHHHHHHcCCChHHHHHHhhhCCceeEechhhcHHHHHHHHh-hcCCChh---HHHhhcccccccccccccchhHH
Q 012919 258 KVKQTVDFLYEMGLSAESIGKVLTRCPNIISYSIEEKLRPTAEYFR-SLGVDVS---VLLQRCPQSLGCSIEANLKPVTE 333 (453)
Q Consensus 258 ~l~~~v~fL~~lG~~~~~i~~il~~~P~iL~~s~e~~l~~~v~~L~-~lG~~~~---~ii~~~P~iL~~s~e~~l~~~~~ 333 (453)
+++++++||.++|++++.++.++.++|.++++++++++.++++|+. ++|++.. .++.++|++++++. +++.++++
T Consensus 267 ~lkp~v~~L~elGv~~~~i~~lI~~~P~iL~~s~e~kl~~~~~fL~~~lG~s~e~i~~~v~k~P~il~lSe-~kl~~kve 345 (487)
T PLN03196 267 TVKPNVECLLEFGVRKEALPSVIAQYPDILGLDLKAKLAEQQYWLTSKLKIDPEDFGRVIEKLPQIVSLNR-NVALKHVE 345 (487)
T ss_pred hHHHHHHHHHHcCCCHHHHHHHHHhCCceeEecHHHhhhHHHHHHHHhhCCCHHHHHHHHHhcchhhcccH-HHHHHHHH
Confidence 6999999999999999999999999999999999889999999996 6999865 46889999999994 78999999
Q ss_pred HHHHhCCChHHHHHHhhhccccccccchhhHhHHHHHHH-HcCCChHHHhhcCccccccccccchhhHHHHHHhCcccCh
Q 012919 334 FFLERGFTVEEIGTMISRFGALYTFSLTENLIPKWEFFL-TMDYDKSELVKFPQYFGYSLEERIKPRYARVKVHGVKLLL 412 (453)
Q Consensus 334 ~L~~~G~s~eev~~mi~~~P~lL~~sl~~~L~~k~~fL~-~~g~~~~~l~~~P~~L~~Sle~rIkpR~~~L~~lg~~~~L 412 (453)
||.++|++.+++..||.++|++|++|+ ++|++|++||. +||++.++|++||+||+||+|+||+|||++|++.|.++++
T Consensus 346 fL~~~Gls~edI~~mv~k~P~lL~~S~-~~l~~k~dFlvneMg~~~~~Iv~fP~~LsySLEkRI~PR~~~L~~kGl~~sL 424 (487)
T PLN03196 346 FLRGRGFSAQDVAKMVVRCPQILALNL-EIMKPSLEFFKKEMKRPLKELVEFPAYFTYGLESRIKPRYERVAKKGIKCSL 424 (487)
T ss_pred HHHHcCCCHHHHHHHHHhCCceeeccH-HHHHHHHHHHHHHhCCCHHHHHhChHHhccChhhhhHHHHHHHHHcCCCCCH
Confidence 999999999999999999999999995 99999999999 8999999999999999999999999999999999999999
Q ss_pred hhhhccchHhHHHHHHHHHHhhhccCC
Q 012919 413 NQVLSLSGSNFENVLKKKIEKALSDGG 439 (453)
Q Consensus 413 ~~~L~~sd~~F~~~~~~~~~~~~~~~~ 439 (453)
.++|++||++|+++|+.+|++....++
T Consensus 425 ~~~L~~sd~~F~~r~v~~y~e~~~~~~ 451 (487)
T PLN03196 425 AWFLNCSDDKFEQRMSGDFIEGEEMEP 451 (487)
T ss_pred HHHhccCHHHHHHHHhhhcccccccCC
Confidence 999999999999999999999887776
No 2
>PLN03196 MOC1-like protein; Provisional
Probab=100.00 E-value=2.7e-44 Score=376.15 Aligned_cols=341 Identities=21% Similarity=0.409 Sum_probs=295.8
Q ss_pred HHhhHHHHHHhhhhhhhhHHHHHHcCCCCCCcccccccccCCCCC--CCCChHHHhhccccccCCCCCChHHHHHHHHhc
Q 012919 85 RDALTPYLESLLEEYGNVLVDLVENFPNAPPPAKQKAVAPVSPPV--STLDSKKLKAISRVSELDSSGDLRPQILYLIEL 162 (453)
Q Consensus 85 ~~~~~~~lEslg~~~~~~l~~~v~~~p~~~~~~~~~~~~~~~~~~--~~~d~~~~~a~~r~l~~~~~~~l~~~l~~L~~l 162 (453)
|..++.||++||+...+. .+++. +.+++ .+.+.+.++ .|++.+.+...+.++..+.+.++.|+++||.++
T Consensus 63 ~~~~~~~L~~lgi~~~~l-----~~~~~--p~~~~-~~~~~l~~L~s~G~~~~~i~~~P~iL~~~v~~~l~Pvl~fL~~l 134 (487)
T PLN03196 63 REKVLDFLRGIGIDPDEL-----DGLEL--PSTVD-VMRERVEFLHKLGLTIEDINEYPLVLGCSVKKNMIPVLDYLEKL 134 (487)
T ss_pred HHHHHHHHHHcCCCchhh-----hccCC--CccHH-HHHHHHHHHHHcCCChHHhccCcHHhhcCHhhhhHHHHHHHHHc
Confidence 446788999999986662 11221 22232 333444453 455555555667888889999999999999999
Q ss_pred CCCHHHHHHHHHhCCCccccCcCCChHHHHHHHHhCCCCCCCHHHHHhhCCCcccCCcccchHHHHHHHHHhCCChhhHH
Q 012919 163 GMDLEKIKLITRRFPAFSYYSLEGKIKPVVEFLLDLGIPKAQIPTILGKRPQLCGISLSENLIPTMTFLENLGVDKTQWA 242 (453)
Q Consensus 163 Gls~~~i~~iv~~~P~lL~~~~~~~l~~~v~fL~~lG~~~~~I~~ii~~~P~lL~~s~e~~l~~~l~fL~~lGvs~~~i~ 242 (453)
|++..+|++++.++|.+|.++++.++.|+++||+++|++.++|++++.++|++|+++++.++.++++||+++|+++++++
T Consensus 135 G~s~~~i~~lI~~~P~lL~~sve~~L~P~v~fL~~lGvs~~~i~~~l~r~P~LL~~~~e~~l~p~v~fL~~lGvs~~~i~ 214 (487)
T PLN03196 135 GVTRSSLPELLRRYPQVLHASVVVDLAPVVKYLQGLDVKRQDIPRVLERYPELLGFKLEGTMSTSVAYLVSIGVAPRDIG 214 (487)
T ss_pred CCCHHHHHHHHHhCCceecccHHHHHHHHHHHHHHcCCCHHHHHHHHHhCchhhcCCHHHHHHHHHHHHHHcCCCHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhcccccccchhh-HHHHHHHHHHcCCChHHHHHHhhhCCceeEechhhcHHHHHHHHhhcCCCh---hHHHhhccc
Q 012919 243 KVIQRFPAVLTYSRQK-VKQTVDFLYEMGLSAESIGKVLTRCPNIISYSIEEKLRPTAEYFRSLGVDV---SVLLQRCPQ 318 (453)
Q Consensus 243 ~il~~~P~iL~~s~~~-l~~~v~fL~~lG~~~~~i~~il~~~P~iL~~s~e~~l~~~v~~L~~lG~~~---~~ii~~~P~ 318 (453)
+++.++|+||+++.++ ++++++||+++|++.++|++++.++|++|+++++++++|++++|+++|++. ..++.++|.
T Consensus 215 ~il~~~P~iL~~sve~~i~P~v~fL~~lGv~~~~I~~il~~~P~iL~~sle~~lkp~v~~L~elGv~~~~i~~lI~~~P~ 294 (487)
T PLN03196 215 PMLTRFPEILGMRVGNNIKPKVDYLESLGLPRLAVARILEKRPYILGFDLEETVKPNVECLLEFGVRKEALPSVIAQYPD 294 (487)
T ss_pred HHHHhCcHHhhcChhhhHHHHHHHHHHcCCCHHHHHHHHHhCCceeEcCHHHhHHHHHHHHHHcCCCHHHHHHHHHhCCc
Confidence 9999999999999975 999999999999999999999999999999999889999999999999985 568899999
Q ss_pred ccccccccccchhHHHHH-HhCCChHHHHHHhhhccccccccchhhHhHHHHHHHHcCCChHHH----hhcCcccccccc
Q 012919 319 SLGCSIEANLKPVTEFFL-ERGFTVEEIGTMISRFGALYTFSLTENLIPKWEFFLTMDYDKSEL----VKFPQYFGYSLE 393 (453)
Q Consensus 319 iL~~s~e~~l~~~~~~L~-~~G~s~eev~~mi~~~P~lL~~sl~~~L~~k~~fL~~~g~~~~~l----~~~P~~L~~Sle 393 (453)
++++++++++.++++||. ++|++.+++..++.++|.++++| ++++++|++||.++|++.+++ .++|++|+||.
T Consensus 295 iL~~s~e~kl~~~~~fL~~~lG~s~e~i~~~v~k~P~il~lS-e~kl~~kvefL~~~Gls~edI~~mv~k~P~lL~~S~- 372 (487)
T PLN03196 295 ILGLDLKAKLAEQQYWLTSKLKIDPEDFGRVIEKLPQIVSLN-RNVALKHVEFLRGRGFSAQDVAKMVVRCPQILALNL- 372 (487)
T ss_pred eeEecHHHhhhHHHHHHHHhhCCCHHHHHHHHHhcchhhccc-HHHHHHHHHHHHHcCCCHHHHHHHHHhCCceeeccH-
Confidence 999999999999999996 79999999999999999999999 799999999999999999987 69999999998
Q ss_pred ccchhhHHHHHH-hCcccC----hhhhhccchHhHHHHHHHHHHhhhccC
Q 012919 394 ERIKPRYARVKV-HGVKLL----LNQVLSLSGSNFENVLKKKIEKALSDG 438 (453)
Q Consensus 394 ~rIkpR~~~L~~-lg~~~~----L~~~L~~sd~~F~~~~~~~~~~~~~~~ 438 (453)
++|+++++|+.. +|.... ..++|+.|= .++++.||.-+.+.|
T Consensus 373 ~~l~~k~dFlvneMg~~~~~Iv~fP~~LsySL---EkRI~PR~~~L~~kG 419 (487)
T PLN03196 373 EIMKPSLEFFKKEMKRPLKELVEFPAYFTYGL---ESRIKPRYERVAKKG 419 (487)
T ss_pred HHHHHHHHHHHHHhCCCHHHHHhChHHhccCh---hhhhHHHHHHHHHcC
Confidence 589999999874 665421 245666652 256677777666555
No 3
>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=9.8e-46 Score=374.43 Aligned_cols=302 Identities=35% Similarity=0.627 Sum_probs=197.8
Q ss_pred HHHHhhhhhhhhHHHHHHcCCCCCCcccccccccCCCCCCCCChHHHhhccccccCCCCCChHHHHHHHHhcCCCHHHHH
Q 012919 91 YLESLLEEYGNVLVDLVENFPNAPPPAKQKAVAPVSPPVSTLDSKKLKAISRVSELDSSGDLRPQILYLIELGMDLEKIK 170 (453)
Q Consensus 91 ~lEslg~~~~~~l~~~v~~~p~~~~~~~~~~~~~~~~~~~~~d~~~~~a~~r~l~~~~~~~l~~~l~~L~~lGls~~~i~ 170 (453)
+|++.|.+. ..+..+++++|.++ ..+++.++.|+++||.+.|++..+++
T Consensus 3 ~~~~~gf~~-~~i~~~i~~~P~~l------------------------------~~~~~~~l~pk~~fl~s~G~s~~~i~ 51 (345)
T PF02536_consen 3 LLKNHGFSD-SQISKLIRRYPRLL------------------------------LCDPEKTLLPKLEFLRSLGFSSSDIA 51 (345)
T ss_dssp HHHHHHHHT-S-HHHHHH-H-HHH------------------------------HT-SS-HHHHHHHHHHHTT--HHHHH
T ss_pred HHHHcCCCH-HHHHHHHHhCCceE------------------------------EecCccchhHHHHHHHHCCCCHHHHH
Confidence 567777763 33666778777753 34566666666666666666666666
Q ss_pred HHHHhCCCccccCcCCChHHHHHHHHhCCCCCCCHHHHHhhCCCcccCCcccchHHHHHHHHHhCCChhhHHHHHHhccc
Q 012919 171 LITRRFPAFSYYSLEGKIKPVVEFLLDLGIPKAQIPTILGKRPQLCGISLSENLIPTMTFLENLGVDKTQWAKVIQRFPA 250 (453)
Q Consensus 171 ~iv~~~P~lL~~~~~~~l~~~v~fL~~lG~~~~~I~~ii~~~P~lL~~s~e~~l~~~l~fL~~lGvs~~~i~~il~~~P~ 250 (453)
+++.++|.++..++++++.|.++||+++|++++++.+++.++|++|..+.+.++.+++.||+++|++.+.+.+++...|.
T Consensus 52 ~il~~~P~il~~s~~~~i~p~~~~L~~~~~s~~d~~~~l~r~p~~l~~~~~~~l~~~v~~L~~lGv~~~~~~~~l~~~~~ 131 (345)
T PF02536_consen 52 KILSKNPQILSRSLEKNIIPVFDFLKSIGLSDEDIVKVLKRYPRILSFSVEENLSPNVAFLRSLGVPPSQIISLLISRPP 131 (345)
T ss_dssp HHHHH-GGGGGS--HHHHHHHHHHHTTTSS-HHHHHHHHHH-SHHHHS---HHHHHHHHHHHHTT--HHHHHHHHHH-CH
T ss_pred HHHHhChHHHhccchhhHHHHHHHHHHHcCCHHHHHHHHHhcchhhccchHhhhhhhhhHHhhcCCcHHHHHHHHHhcCc
Confidence 66666666666665566666666666666666666666666666666655456666666666666666655666666655
Q ss_pred ccccchhhHHHHHHHHHHcCCChHHHHHHhhhCCceeEechhhcHHHHHHHHhhcCCCh---hHHHhhcccccccccc--
Q 012919 251 VLTYSRQKVKQTVDFLYEMGLSAESIGKVLTRCPNIISYSIEEKLRPTAEYFRSLGVDV---SVLLQRCPQSLGCSIE-- 325 (453)
Q Consensus 251 iL~~s~~~l~~~v~fL~~lG~~~~~i~~il~~~P~iL~~s~e~~l~~~v~~L~~lG~~~---~~ii~~~P~iL~~s~e-- 325 (453)
++... +++.+.++++.++|++++++++++.++|+++....+++++++++||+++|++. .+++.++|.++.++.+
T Consensus 132 ~~~~~-~~~~~~v~~l~~lG~~~~~~~~vi~~~P~~l~~~~~~~~~~~v~~L~~~G~~~~~i~~~l~~~P~~l~~s~~~~ 210 (345)
T PF02536_consen 132 LFLSS-EKIKERVEFLKELGFDPEKIGRVIAKNPRLLLSDSESELKPKVEFLRSLGFSKEDIGKLLRKCPRLLSLSVEKI 210 (345)
T ss_dssp HHHS--HHHHCHHHHHCCCTSSHHHHCCCHHHHHHHHCGSCCCCCHHHHHHHHHCTT-GHHHHHHHHHTTTGGGCGCHC-
T ss_pred cccch-hHHHHHHHHHHHhCCCchhhcccccccchhhccccHHHHHHHHHHHHhhcccchhhhHHhhcccceeccccccc
Confidence 44444 55666666666666666666666666665555555556666666666666642 3445555555555543
Q ss_pred ------------------------------cccchhHHHHHHhCCChHHHHHHhhhccccccccchhhHhHHHHHHH-Hc
Q 012919 326 ------------------------------ANLKPVTEFFLERGFTVEEIGTMISRFGALYTFSLTENLIPKWEFFL-TM 374 (453)
Q Consensus 326 ------------------------------~~l~~~~~~L~~~G~s~eev~~mi~~~P~lL~~sl~~~L~~k~~fL~-~~ 374 (453)
+++.++++||.++|++.+|+++|+.++|.+|++|. +++++|++||. +|
T Consensus 211 l~~~~~l~~~~~~~~~~~i~~~p~il~~~~~~l~~~i~~L~~lG~s~~ei~~mv~~~P~iL~~s~-e~l~~k~~fl~~~m 289 (345)
T PF02536_consen 211 LEPVLYLLSSGGVEEERVIKKFPQILSLSEEKLKPKIEFLQSLGFSEEEIAKMVRRFPQILSYSI-EKLKPKFEFLVKEM 289 (345)
T ss_dssp --------------------------THHHHHHHHHHHHHHTTT--HHHHHHHHHHSGGGGGS-H-HHHHHHHHHHHHCC
T ss_pred ccccccccccccccccccccccccccccchHhHHHHHHHHHHhcCcHHHHHHHHHhCcchhhcch-hhhhHHHHHHHHHh
Confidence 36889999999999999999999999999999995 67999999999 79
Q ss_pred CCChHHHhhcCccccccccccchhh---HHHHHHhC--cccChhhhhccchHhHHH
Q 012919 375 DYDKSELVKFPQYFGYSLEERIKPR---YARVKVHG--VKLLLNQVLSLSGSNFEN 425 (453)
Q Consensus 375 g~~~~~l~~~P~~L~~Sle~rIkpR---~~~L~~lg--~~~~L~~~L~~sd~~F~~ 425 (453)
|++.++|++||++|+||+|+||+|| +++++..| .++++.+||.+||++|++
T Consensus 290 ~~~~~~i~~~P~~l~~sLe~ri~PR~~~~~~l~~~g~~~~~sl~~~l~~s~~~F~~ 345 (345)
T PF02536_consen 290 GLPLEEIVEFPQYLSYSLEKRIKPRYEVLKVLKSKGLIINPSLSSMLSCSDEEFLK 345 (345)
T ss_dssp T--HHHHHHSCHHHCS-HHHHHHHHHHHHHTT--TTTGGGGGS-HHHHHHHHHHT-
T ss_pred CcCHHHHhhCCceeEechhhhhhhHHHHHHHHHHCcCCCCCCHHHHhhccHHHhcC
Confidence 9999999999999999999999999 55566678 778899999999999974
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=3.1e-34 Score=290.36 Aligned_cols=276 Identities=31% Similarity=0.582 Sum_probs=221.2
Q ss_pred HHHHhcCCCHHHHHHHHHhCCCccccCcCCChHHHHHHHHhCCCCCCCHHHHHhhCCCcccCCcccchHHHHHHHHHhCC
Q 012919 157 LYLIELGMDLEKIKLITRRFPAFSYYSLEGKIKPVVEFLLDLGIPKAQIPTILGKRPQLCGISLSENLIPTMTFLENLGV 236 (453)
Q Consensus 157 ~~L~~lGls~~~i~~iv~~~P~lL~~~~~~~l~~~v~fL~~lG~~~~~I~~ii~~~P~lL~~s~e~~l~~~l~fL~~lGv 236 (453)
++|+++|+++++|.++++++|.++.++.++++.|+++||.+.|++..+++++++++|++|..++++++.|.++||+++|+
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 57899999999999999999999999999999999999999999999999999999999999988999999999999999
Q ss_pred ChhhHHHHHHhcccccccchh-hHHHHHHHHHHcCCChHHHHHHhhhCCceeEechhhcHHHHHHHHhhcCCChh---HH
Q 012919 237 DKTQWAKVIQRFPAVLTYSRQ-KVKQTVDFLYEMGLSAESIGKVLTRCPNIISYSIEEKLRPTAEYFRSLGVDVS---VL 312 (453)
Q Consensus 237 s~~~i~~il~~~P~iL~~s~~-~l~~~v~fL~~lG~~~~~i~~il~~~P~iL~~s~e~~l~~~v~~L~~lG~~~~---~i 312 (453)
+++++.+++.++|++|+.+.+ ++.+++.||+++|++++.+.+++..+|..+... +++++.++++.++|++.. ++
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 999999999999999998775 699999999999999998888888888877665 589999999999999964 56
Q ss_pred HhhcccccccccccccchhHHHHHHhCCChHHHHHHhhhccccccccchh------------------------------
Q 012919 313 LQRCPQSLGCSIEANLKPVTEFFLERGFTVEEIGTMISRFGALYTFSLTE------------------------------ 362 (453)
Q Consensus 313 i~~~P~iL~~s~e~~l~~~~~~L~~~G~s~eev~~mi~~~P~lL~~sl~~------------------------------ 362 (453)
+.++|.++..+.+++++++++||+++|++.+++.+++.++|.++.+|+++
T Consensus 160 i~~~P~~l~~~~~~~~~~~v~~L~~~G~~~~~i~~~l~~~P~~l~~s~~~~l~~~~~l~~~~~~~~~~~i~~~p~il~~~ 239 (345)
T PF02536_consen 160 IAKNPRLLLSDSESELKPKVEFLRSLGFSKEDIGKLLRKCPRLLSLSVEKILEPVLYLLSSGGVEEERVIKKFPQILSLS 239 (345)
T ss_dssp HHHHHHHHCGSCCCCCHHHHHHHHHCTT-GHHHHHHHHHTTTGGGCGCHC---------------------------THH
T ss_pred ccccchhhccccHHHHHHHHHHHHhhcccchhhhHHhhcccceecccccccccccccccccccccccccccccccccccc
Confidence 88999988888889999999999999999999999999999999999754
Q ss_pred --hHhHHHHHHHHcCCChHHH----hhcCccccccccccchhhHHHHHH-hCcccC----hhhhhccchHhHHHHHHHH-
Q 012919 363 --NLIPKWEFFLTMDYDKSEL----VKFPQYFGYSLEERIKPRYARVKV-HGVKLL----LNQVLSLSGSNFENVLKKK- 430 (453)
Q Consensus 363 --~L~~k~~fL~~~g~~~~~l----~~~P~~L~~Sle~rIkpR~~~L~~-lg~~~~----L~~~L~~sd~~F~~~~~~~- 430 (453)
++.++++||.++|++.+++ .++|++|.+|.|+ ++|+++|+.. .|.... ...+|+.| ..++++.|
T Consensus 240 ~~~l~~~i~~L~~lG~s~~ei~~mv~~~P~iL~~s~e~-l~~k~~fl~~~m~~~~~~i~~~P~~l~~s---Le~ri~PR~ 315 (345)
T PF02536_consen 240 EEKLKPKIEFLQSLGFSEEEIAKMVRRFPQILSYSIEK-LKPKFEFLVKEMGLPLEEIVEFPQYLSYS---LEKRIKPRY 315 (345)
T ss_dssp HHHHHHHHHHHHTTT--HHHHHHHHHHSGGGGGS-HHH-HHHHHHHHHHCCT--HHHHHHSCHHHCS----HHHHHHHHH
T ss_pred hHhHHHHHHHHHHhcCcHHHHHHHHHhCcchhhcchhh-hhHHHHHHHHHhCcCHHHHhhCCceeEec---hhhhhhhHH
Confidence 5899999999999999886 6899999999985 9999999875 444311 12345544 34667777
Q ss_pred --HHhhhccC
Q 012919 431 --IEKALSDG 438 (453)
Q Consensus 431 --~~~~~~~~ 438 (453)
|..+.+.|
T Consensus 316 ~~~~~l~~~g 325 (345)
T PF02536_consen 316 EVLKVLKSKG 325 (345)
T ss_dssp HHHHTT--TT
T ss_pred HHHHHHHHCc
Confidence 66676666
No 5
>KOG1267 consensus Mitochondrial transcription termination factor, mTERF [Transcription; General function prediction only]
Probab=99.91 E-value=1.4e-24 Score=224.85 Aligned_cols=272 Identities=33% Similarity=0.525 Sum_probs=210.8
Q ss_pred CChHHHhhccccccCCCCCChHHHHHHHHhcCCCHHHHHHHHHhCCCccccCcCCChHHHHHHHHhCCCCCCCHHHHHhh
Q 012919 132 LDSKKLKAISRVSELDSSGDLRPQILYLIELGMDLEKIKLITRRFPAFSYYSLEGKIKPVVEFLLDLGIPKAQIPTILGK 211 (453)
Q Consensus 132 ~d~~~~~a~~r~l~~~~~~~l~~~l~~L~~lGls~~~i~~iv~~~P~lL~~~~~~~l~~~v~fL~~lG~~~~~I~~ii~~ 211 (453)
.+...+....+-+......+...++++|.++|++..+|.+++..+|.++..+.++.+.|+..+|...|++...+.+++..
T Consensus 71 ~~~~~~~~~~~~~~~~~~~~p~s~~~~l~s~g~~~~~i~s~i~~~p~ll~~~~~~~l~~~~~~l~~~g~~~s~l~~i~s~ 150 (413)
T KOG1267|consen 71 LSIKLARKLSREVSSEDSVNPSSVLSSLRSLGFTDSQISSIILSSPKLLYLSSENILKPKLRLLDSLGLPSSELSSIVSV 150 (413)
T ss_pred cchhhHHHHHHHHHhhhccCcHHHHHHHHhcCCchhhcccccccCchhhhccchhhhhhhhhhhhccCccccccchhhhc
Confidence 33444444444455567788999999999999999999999999999998888888888888888999999999999888
Q ss_pred CCCcccCCcccchHHHHHHHH-----------------------------------HhCCChhhHHHHHHhcccccc---
Q 012919 212 RPQLCGISLSENLIPTMTFLE-----------------------------------NLGVDKTQWAKVIQRFPAVLT--- 253 (453)
Q Consensus 212 ~P~lL~~s~e~~l~~~l~fL~-----------------------------------~lGvs~~~i~~il~~~P~iL~--- 253 (453)
.|.+|+.+..+++.+.++|++ ++|+..+++...+..+|+.+.
T Consensus 151 ~~~il~~~~~~~~~~~~~~l~~~~~~~~~s~~~~~~~~~~~~~~~~~~v~~~~~~~~lg~~~~~L~~~l~~~~~~~~~~~ 230 (413)
T KOG1267|consen 151 VPKILLKSKGESLSTFIEFLKSIPPELLSSVVERLLTPVPSFLLNENSVERLDIRRELGVKPRLLKSLLESQPRPVLLYL 230 (413)
T ss_pred cHHHHHhhcCCchhhHHHHhhccchhhhhhHHHHhccccccccccccccccchhhHHhCCCHHHHHHHHhcCccceeeeh
Confidence 888776554445555554444 455555556544444444332
Q ss_pred -----------c------------------ch-hhHHHHHHHHHHcCCChHHHHHHhhhCCceeEechhhcHHHHHHHHh
Q 012919 254 -----------Y------------------SR-QKVKQTVDFLYEMGLSAESIGKVLTRCPNIISYSIEEKLRPTAEYFR 303 (453)
Q Consensus 254 -----------~------------------s~-~~l~~~v~fL~~lG~~~~~i~~il~~~P~iL~~s~e~~l~~~v~~L~ 303 (453)
+ +. +.+++++++|+++|++.++|.+++.++|++|+++.+ ++..+++|+.
T Consensus 231 ~l~~~~~~i~~~g~~p~~~~~v~~~~~~~~~~~~~i~~kv~~l~~~Gf~~~di~~~~~k~P~~l~~s~~-~~~~~~~~~~ 309 (413)
T KOG1267|consen 231 KLKARLPFLLTLGFDPKTREFVKAPILLSYSSEKTLEPKVEVLKSLGFSREEIWKMVKKCPQILGYSVK-KNLKTTEYLL 309 (413)
T ss_pred hhhhhhhhHHHhccCCchhHHHhhhhhhcccccccHHHHHHHHHHcCCCHHHHHHHHHhCchheEeehh-hhhHHHHHHH
Confidence 1 22 347777777777777777777777777777777764 4555666666
Q ss_pred hcCCChhHHHhhcccccccccccccchhHHHHHHhCCChHHHHHHhhhccccccccchhhHhHHHHHHH-HcCCChHHHh
Q 012919 304 SLGVDVSVLLQRCPQSLGCSIEANLKPVTEFFLERGFTVEEIGTMISRFGALYTFSLTENLIPKWEFFL-TMDYDKSELV 382 (453)
Q Consensus 304 ~lG~~~~~ii~~~P~iL~~s~e~~l~~~~~~L~~~G~s~eev~~mi~~~P~lL~~sl~~~L~~k~~fL~-~~g~~~~~l~ 382 (453)
+. ..+ +.++|+++.++ +..+.++++|+...|++..++..|+.++|+++.+|+++.++++.+|+. .|+++.++++
T Consensus 310 ~~---~~~-~~k~p~~l~~s-~~~l~~~ie~l~~~g~~~~q~~~~~~~~Pq~l~~s~~~~~~~~~~~~~~~~~~p~~~~~ 384 (413)
T KOG1267|consen 310 KN---PKH-ILKFPQLLRSS-EDKLKPRIEFLLSLGFSDVQILEMVKRFPQYLSFSLEKILKRKYEYLLKGLLRPLSALV 384 (413)
T ss_pred hc---chh-hhhhhhhhhcc-chhhhhhHHHHHHcCCcHHHHHHHHhhccHHhhhhHHhhhhhhHHHHHHHcCchHHHHh
Confidence 55 222 66777777555 567999999999999999999999999999999997558999999998 7999999999
Q ss_pred hcCccccccccccchhhHHHHHHhCcc
Q 012919 383 KFPQYFGYSLEERIKPRYARVKVHGVK 409 (453)
Q Consensus 383 ~~P~~L~~Sle~rIkpR~~~L~~lg~~ 409 (453)
.+|+++.|++|+|+.||+....+++.+
T Consensus 385 ~~p~~~~y~le~ri~pr~~~~~~~~~~ 411 (413)
T KOG1267|consen 385 SFPAFFGYSLEKRIRPRFNVIKKLGVK 411 (413)
T ss_pred ccchhhccchhhcchhHHHHHHHHhcc
Confidence 999999999999999999999888765
No 6
>KOG1267 consensus Mitochondrial transcription termination factor, mTERF [Transcription; General function prediction only]
Probab=99.74 E-value=2.9e-17 Score=170.44 Aligned_cols=308 Identities=23% Similarity=0.348 Sum_probs=235.8
Q ss_pred HHHHHHHHHcCCChHHHHHHhhcChHHHHHHHhhhHhhhhhhhcccCccchHHHHH---hhHH--HHHHhhhhhhhhHHH
Q 012919 31 AVLTLFLKKQGLSKGVAARTINKSDLFIDHLVSRLHSVHKSRYLVGRELTTLEIRD---ALTP--YLESLLEEYGNVLVD 105 (453)
Q Consensus 31 ~~~~~~l~~~g~~~~~a~~i~~~s~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~--~lEslg~~~~~~l~~ 105 (453)
..+.++|+..|++.+.-+.|...+|..+..=.+++-..|. +.+...+++.+.+.+ + +| ++.++|.+ ....++
T Consensus 92 ~s~~~~l~s~g~~~~~i~s~i~~~p~ll~~~~~~~l~~~~-~~l~~~g~~~s~l~~i~s~-~~~il~~~~~~~-~~~~~~ 168 (413)
T KOG1267|consen 92 SSVLSSLRSLGFTDSQISSIILSSPKLLYLSSENILKPKL-RLLDSLGLPSSELSSIVSV-VPKILLKSKGES-LSTFIE 168 (413)
T ss_pred HHHHHHHHhcCCchhhcccccccCchhhhccchhhhhhhh-hhhhccCccccccchhhhc-cHHHHHhhcCCc-hhhHHH
Confidence 4456789999999999999999998888666666655444 334444555544433 3 34 66677744 334677
Q ss_pred HHHcCCCCCCcccccccccCCCCCCCCChHHHhhcccccc-CCCCCChHHHHHHHHhcCCCHHHHHHHHHhCCCccccCc
Q 012919 106 LVENFPNAPPPAKQKAVAPVSPPVSTLDSKKLKAISRVSE-LDSSGDLRPQILYLIELGMDLEKIKLITRRFPAFSYYSL 184 (453)
Q Consensus 106 ~v~~~p~~~~~~~~~~~~~~~~~~~~~d~~~~~a~~r~l~-~~~~~~l~~~l~~L~~lGls~~~i~~iv~~~P~lL~~~~ 184 (453)
+|.+.|.-+..++. ..... .+.. ......+. .++++..+|....++..++..+|.......
T Consensus 169 ~l~~~~~~~~~s~~------~~~~~-----------~~~~~~~~~~~v~-~~~~~~~lg~~~~~L~~~l~~~~~~~~~~~ 230 (413)
T KOG1267|consen 169 FLKSIPPELLSSVV------ERLLT-----------PVPSFLLNENSVE-RLDIRRELGVKPRLLKSLLESQPRPVLLYL 230 (413)
T ss_pred HhhccchhhhhhHH------HHhcc-----------ccccccccccccc-cchhhHHhCCCHHHHHHHHhcCccceeeeh
Confidence 88876531111000 00000 1111 12233444 789999999999999999999998776542
Q ss_pred CCChHHHHHHHHhCCCCCCCHHHHHhhCCCcccCCcccchHHHHHHHHHhCCChhhHHHHHHhcccccccchhhHHHHHH
Q 012919 185 EGKIKPVVEFLLDLGIPKAQIPTILGKRPQLCGISLSENLIPTMTFLENLGVDKTQWAKVIQRFPAVLTYSRQKVKQTVD 264 (453)
Q Consensus 185 ~~~l~~~v~fL~~lG~~~~~I~~ii~~~P~lL~~s~e~~l~~~l~fL~~lGvs~~~i~~il~~~P~iL~~s~~~l~~~v~ 264 (453)
.+...+.++..+|+.+.. +++.+.|.++.++.++.+++++++|+++|++.+++..++.++|++|+++.+++..+++
T Consensus 231 --~l~~~~~~i~~~g~~p~~--~~~v~~~~~~~~~~~~~i~~kv~~l~~~Gf~~~di~~~~~k~P~~l~~s~~~~~~~~~ 306 (413)
T KOG1267|consen 231 --KLKARLPFLLTLGFDPKT--REFVKAPILLSYSSEKTLEPKVEVLKSLGFSREEIWKMVKKCPQILGYSVKKNLKTTE 306 (413)
T ss_pred --hhhhhhhhHHHhccCCch--hHHHhhhhhhcccccccHHHHHHHHHHcCCCHHHHHHHHHhCchheEeehhhhhHHHH
Confidence 577788999999988766 8889999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHcCCChHHHHHHhhhCCceeEechhhcHHHHHHHHhhcCCChh---HHHhhcccccccccccccchhHHHHH-HhCC
Q 012919 265 FLYEMGLSAESIGKVLTRCPNIISYSIEEKLRPTAEYFRSLGVDVS---VLLQRCPQSLGCSIEANLKPVTEFFL-ERGF 340 (453)
Q Consensus 265 fL~~lG~~~~~i~~il~~~P~iL~~s~e~~l~~~v~~L~~lG~~~~---~ii~~~P~iL~~s~e~~l~~~~~~L~-~~G~ 340 (453)
|+.+. +++ +.++|+++.++ +.++.++++|+..+|++.. .++.++|++++++++..++...+|+. .++.
T Consensus 307 ~~~~~--~~~-----~~k~p~~l~~s-~~~l~~~ie~l~~~g~~~~q~~~~~~~~Pq~l~~s~~~~~~~~~~~~~~~~~~ 378 (413)
T KOG1267|consen 307 YLLKN--PKH-----ILKFPQLLRSS-EDKLKPRIEFLLSLGFSDVQILEMVKRFPQYLSFSLEKILKRKYEYLLKGLLR 378 (413)
T ss_pred HHHhc--chh-----hhhhhhhhhcc-chhhhhhHHHHHHcCCcHHHHHHHHhhccHHhhhhHHhhhhhhHHHHHHHcCc
Confidence 99877 333 78999999777 5799999999999999754 45667999999998767788888887 5788
Q ss_pred ChHHHHHHhhhccccccccchhhHhHHHHHHHHcC
Q 012919 341 TVEEIGTMISRFGALYTFSLTENLIPKWEFFLTMD 375 (453)
Q Consensus 341 s~eev~~mi~~~P~lL~~sl~~~L~~k~~fL~~~g 375 (453)
+.+.+ ..+|..+.|+++.++.|+.......+
T Consensus 379 p~~~~----~~~p~~~~y~le~ri~pr~~~~~~~~ 409 (413)
T KOG1267|consen 379 PLSAL----VSFPAFFGYSLEKRIRPRFNVIKKLG 409 (413)
T ss_pred hHHHH----hccchhhccchhhcchhHHHHHHHHh
Confidence 75554 48999999999999999998877543
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=96.81 E-value=0.001 Score=41.88 Aligned_cols=25 Identities=48% Similarity=0.967 Sum_probs=9.6
Q ss_pred HhcccccccchhhHHHHHHHHHHcC
Q 012919 246 QRFPAVLTYSRQKVKQTVDFLYEMG 270 (453)
Q Consensus 246 ~~~P~iL~~s~~~l~~~v~fL~~lG 270 (453)
.++|++|+++.++++++++||+++|
T Consensus 5 ~~~P~il~~~~~~l~~~~~~l~~~g 29 (31)
T smart00733 5 KKFPQILGYSEKKLKPKVEFLKELG 29 (31)
T ss_pred hhCcCcccccHHHhhHHHHHHHHcC
Confidence 3333333333333333333333333
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=96.78 E-value=0.00094 Score=42.02 Aligned_cols=28 Identities=25% Similarity=0.628 Sum_probs=18.5
Q ss_pred HhhhccccccccchhhHhHHHHHHHHcCC
Q 012919 348 MISRFGALYTFSLTENLIPKWEFFLTMDY 376 (453)
Q Consensus 348 mi~~~P~lL~~sl~~~L~~k~~fL~~~g~ 376 (453)
++.++|.+++++ +++++++++||.++|+
T Consensus 3 ~~~~~P~il~~~-~~~l~~~~~~l~~~g~ 30 (31)
T smart00733 3 ILKKFPQILGYS-EKKLKPKVEFLKELGF 30 (31)
T ss_pred hhhhCcCccccc-HHHhhHHHHHHHHcCC
Confidence 456666666666 5666666666666665
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=90.66 E-value=2.9 Score=42.31 Aligned_cols=40 Identities=18% Similarity=0.281 Sum_probs=18.8
Q ss_pred cccccccccc-chhHHHHH-HhCCChHHHHHHhhhcccccccc
Q 012919 319 SLGCSIEANL-KPVTEFFL-ERGFTVEEIGTMISRFGALYTFS 359 (453)
Q Consensus 319 iL~~s~e~~l-~~~~~~L~-~~G~s~eev~~mi~~~P~lL~~s 359 (453)
+|++.+++++ ...+..|. ++|++ +.+..|+.+||.|+..|
T Consensus 250 lLSLTveKr~~~~~L~~fr~ef~lp-~k~~~~l~rHPgIFYvS 291 (335)
T PF11955_consen 250 LLSLTVEKRTEVDHLTHFRKEFGLP-QKFRRLLLRHPGIFYVS 291 (335)
T ss_pred HHHhhhhhhccHHHHHHHHHHhCCc-HHHHHHHHhCCCeEEEe
Confidence 4444443322 22333443 45554 44555555556555555
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=90.41 E-value=0.84 Score=41.67 Aligned_cols=114 Identities=18% Similarity=0.247 Sum_probs=62.3
Q ss_pred HHHHHHhcCCCHHHHHHHHHhCCC----ccccCcCCChHHHHHHHHhCCCCCCCHHHHHhhCCCcccCCcccchHHHHHH
Q 012919 155 QILYLIELGMDLEKIKLITRRFPA----FSYYSLEGKIKPVVEFLLDLGIPKAQIPTILGKRPQLCGISLSENLIPTMTF 230 (453)
Q Consensus 155 ~l~~L~~lGls~~~i~~iv~~~P~----lL~~~~~~~l~~~v~fL~~lG~~~~~I~~ii~~~P~lL~~s~e~~l~~~l~f 230 (453)
.+..|++.|++.++|..++..... ++.... ..++..++-|.. ....+..++...+.. ...-.-+....++.
T Consensus 50 ~I~~lr~~G~sL~eI~~ll~~~~~~~~~~L~~~~-~~l~~ei~~L~~---~~~~l~~ll~~~~~~-~~~~~V~~~~w~~l 124 (172)
T cd04790 50 QICAYRSAGVSLEDIRSLLQQPGDDATDVLRRRL-AELNREIQRLRQ---QQRAIATLLKQPTLL-KEQRLVTKEKWVAI 124 (172)
T ss_pred HHHHHHHcCCCHHHHHHHHhcCChhHHHHHHHHH-HHHHHHHHHHHH---HHHHHHHHHHHHhhc-cccccCCHHHHHHH
Confidence 456789999999999998865432 111111 112222222221 122344444433332 11111234556666
Q ss_pred HHHhCCChhhHHHHHHhcccccccchhhHHHHHHHHHHcCCChHHHHHH
Q 012919 231 LENLGVDKTQWAKVIQRFPAVLTYSRQKVKQTVDFLYEMGLSAESIGKV 279 (453)
Q Consensus 231 L~~lGvs~~~i~~il~~~P~iL~~s~~~l~~~v~fL~~lG~~~~~i~~i 279 (453)
++..|+++.++.+.=..+ . ...-..-.+||.++|++++++..+
T Consensus 125 ~~~~g~~~~~m~~wh~~f----e--~~~p~~h~~~l~~~g~~~~~~~~i 167 (172)
T cd04790 125 LKAAGMDEADMRRWHIEF----E--KMEPEAHQEFLQSLGIPEDEIERI 167 (172)
T ss_pred HHHcCCChHHHHHHHHHH----H--HhCcHHHHHHHHHcCCCHHHHHHH
Confidence 778898888765432221 1 123455678999999999998654
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=70.53 E-value=38 Score=30.77 Aligned_cols=16 Identities=31% Similarity=0.503 Sum_probs=12.4
Q ss_pred HHHHHHhCCChHHHHH
Q 012919 332 TEFFLERGFTVEEIGT 347 (453)
Q Consensus 332 ~~~L~~~G~s~eev~~ 347 (453)
.+||..+|++.+|+..
T Consensus 151 ~~~l~~~g~~~~~~~~ 166 (172)
T cd04790 151 QEFLQSLGIPEDEIER 166 (172)
T ss_pred HHHHHHcCCCHHHHHH
Confidence 5688888888888753
No 12
>KOG0011 consensus Nucleotide excision repair factor NEF2, RAD23 component [Replication, recombination and repair]
Probab=69.58 E-value=46 Score=33.41 Aligned_cols=119 Identities=20% Similarity=0.300 Sum_probs=67.4
Q ss_pred CCCCCChHHHHHHHHhcCCCHHHHHHHHHhCCCccccCcCCChHHHHHHHHhCCCCCCCHHHHHhhCCCcccC-------
Q 012919 146 LDSSGDLRPQILYLIELGMDLEKIKLITRRFPAFSYYSLEGKIKPVVEFLLDLGIPKAQIPTILGKRPQLCGI------- 218 (453)
Q Consensus 146 ~~~~~~l~~~l~~L~~lGls~~~i~~iv~~~P~lL~~~~~~~l~~~v~fL~~lG~~~~~I~~ii~~~P~lL~~------- 218 (453)
+.........+.-+.+.|..++++...++.. . ++.++-|+||.. |++.+.-.......|.....
T Consensus 129 Lv~G~~~e~~V~~Im~MGy~re~V~~AlRAa-------f-NNPeRAVEYLl~-GIP~~~~~~~~~~~~~~~~~~p~~~~p 199 (340)
T KOG0011|consen 129 LVVGSEYEQTVQQIMEMGYDREEVERALRAA-------F-NNPERAVEYLLN-GIPEDAEVPEPEKSTAAAAELPANAQP 199 (340)
T ss_pred hhccchhHHHHHHHHHhCccHHHHHHHHHHh-------h-CChhhhHHHHhc-CCcccccCCcccCCcccCCCCCCCCCh
Confidence 3456788899999999999999999987653 3 357788999984 77653111111122221111
Q ss_pred -----C--cccchHHHHHHHHHhCCChhhHHHHHHhcccccccchhhHHHHHHHHHHcCCChHHHHHHhhhCC
Q 012919 219 -----S--LSENLIPTMTFLENLGVDKTQWAKVIQRFPAVLTYSRQKVKQTVDFLYEMGLSAESIGKVLTRCP 284 (453)
Q Consensus 219 -----s--~e~~l~~~l~fL~~lGvs~~~i~~il~~~P~iL~~s~~~l~~~v~fL~~lG~~~~~i~~il~~~P 284 (453)
. ++..-...++||++.- .-..+..+|..+|.+|. ..|+++|=..-.+.+.|..|+
T Consensus 200 ~~~~~~~~~~~~~~~~l~fLr~~~-qf~~lR~~iqqNP~ll~----------~~Lqqlg~~nP~L~q~Iq~nq 261 (340)
T KOG0011|consen 200 LDLFPQGAVEASGGDPLEFLRNQP-QFQQLRQMIQQNPELLH----------PLLQQLGKQNPQLLQLIQENQ 261 (340)
T ss_pred hhcCCccchhhhcCCchhhhhccH-HHHHHHHHHhhCHHHHH----------HHHHHHhhhCHHHHHHHHHHH
Confidence 0 1111223466766421 11346677777777654 244455555555555554443
No 13
>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=62.37 E-value=69 Score=33.11 Aligned_cols=45 Identities=27% Similarity=0.468 Sum_probs=36.6
Q ss_pred CCCChHHHHHHHHhcCCCHHHHHHHHHhCCCccccCcCCChHHHHHHHHhCCCC
Q 012919 148 SSGDLRPQILYLIELGMDLEKIKLITRRFPAFSYYSLEGKIKPVVEFLLDLGIP 201 (453)
Q Consensus 148 ~~~~l~~~l~~L~~lGls~~~i~~iv~~~P~lL~~~~~~~l~~~v~fL~~lG~~ 201 (453)
........|+-+.++|++++++...++.. . ++.++-|+||.. |++
T Consensus 152 ~g~~~e~~I~~i~eMGf~R~qV~~ALRAa-------f-NNPdRAVEYL~t-GIP 196 (378)
T TIGR00601 152 VGSERETTIEEIMEMGYEREEVERALRAA-------F-NNPDRAVEYLLT-GIP 196 (378)
T ss_pred cchHHHHHHHHHHHhCCCHHHHHHHHHHH-------h-CCHHHHHHHHHh-CCC
Confidence 34577889999999999999999988663 3 467889999985 676
No 14
>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=62.21 E-value=11 Score=32.99 Aligned_cols=29 Identities=31% Similarity=0.449 Sum_probs=21.6
Q ss_pred cchhHHHHHHhCCChHHHHHHhhhccccc
Q 012919 328 LKPVTEFFLERGFTVEEIGTMISRFGALY 356 (453)
Q Consensus 328 l~~~~~~L~~~G~s~eev~~mi~~~P~lL 356 (453)
+..+++||++.|++.+||...+.+.+.--
T Consensus 23 ~~~k~~FL~sKGLt~~EI~~al~~a~~~~ 51 (136)
T PF04695_consen 23 LEKKIAFLESKGLTEEEIDEALGRAGSPP 51 (136)
T ss_dssp HHHHHHHHHHCT--HHHHHHHHHHHT--S
T ss_pred HHHHHHHHHcCCCCHHHHHHHHHhcCCcc
Confidence 45689999999999999999999877543
No 15
>cd03211 GST_C_Metaxin2 GST_C family, Metaxin subfamily, Metaxin 2; a metaxin 1 binding protein identified through a yeast two-hybrid system using metaxin 1 as the bait. Metaxin 2 shares sequence similarity with metaxin 1 but does not contain a C-terminal mitochondrial outer membrane signal-anchor domain. It associates with mitochondrial membranes through its interaction with metaxin 1, which is a component of the mitochondrial preprotein import complex of the outer membrane. The biological function of metaxin 2 is unknown. It is likely that it also plays a role in protein translocation into the mitochondria. However, this has not been experimentally validated. In a recent proteomics study, it has been shown that metaxin 2 is overexpressed in response to lipopolysaccharide-induced liver injury.
Probab=59.66 E-value=66 Score=27.41 Aligned_cols=90 Identities=16% Similarity=0.146 Sum_probs=57.1
Q ss_pred ccChhhhHHHHHHHHHHHHHHHHHcCC---ChHHHHHHhhcChHHHHHHHhhhHhhhhhhhcccCccchHHHHHhhHHHH
Q 012919 16 VVPSTLLAAEKEEAKAVLTLFLKKQGL---SKGVAARTINKSDLFIDHLVSRLHSVHKSRYLVGRELTTLEIRDALTPYL 92 (453)
Q Consensus 16 ~~~~~~~~~~~~~a~~~~~~~l~~~g~---~~~~a~~i~~~s~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 92 (453)
.+|+-++..-...+|+.+...|+.+|+ +.++...+++++-..++.++.. ..|+.|...|+...- +.+++
T Consensus 24 ~~p~~l~~~~~~~~r~~~~~~l~~~G~gr~~~ee~~~~~~~~l~aLs~~Lg~------~~~l~Gd~pT~~Da~--vf~~l 95 (126)
T cd03211 24 PYPWPLNHILPYQKQREARRKLKAIGWDDKTLDQVIEEVDQCCQALSQRLGT------QPYFFGDQPTELDAL--VFGHL 95 (126)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHHHHCC------CCCCCCCCCcHHHHH--HHHHH
Confidence 689999988889999999999999997 5555555555555555444433 245667777664332 44555
Q ss_pred HHhh-h-hhhhhHHHHHHcCCCC
Q 012919 93 ESLL-E-EYGNVLVDLVENFPNA 113 (453)
Q Consensus 93 Eslg-~-~~~~~l~~~v~~~p~~ 113 (453)
-.+- . .+...+...++.||++
T Consensus 96 a~~~~~~~~~~~l~~~~~~~pnL 118 (126)
T cd03211 96 FTILTTQLPNDELAEKVKKYSNL 118 (126)
T ss_pred HHHHhcCCCChHHHHHHHhCcHH
Confidence 4443 1 1122355567778774
No 16
>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=56.80 E-value=33 Score=22.50 Aligned_cols=35 Identities=23% Similarity=0.491 Sum_probs=25.2
Q ss_pred HHHHHHHHhcCCCHHHHHHHHHhCCCccccCcCCChHHHHHHH
Q 012919 153 RPQILYLIELGMDLEKIKLITRRFPAFSYYSLEGKIKPVVEFL 195 (453)
Q Consensus 153 ~~~l~~L~~lGls~~~i~~iv~~~P~lL~~~~~~~l~~~v~fL 195 (453)
...++.|.+.||+..+....+..+ .++++.-++||
T Consensus 3 ~~~v~~L~~mGf~~~~~~~AL~~~--------~~nve~A~~~L 37 (37)
T PF00627_consen 3 EEKVQQLMEMGFSREQAREALRAC--------NGNVERAVDWL 37 (37)
T ss_dssp HHHHHHHHHHTS-HHHHHHHHHHT--------TTSHHHHHHHH
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHc--------CCCHHHHHHhC
Confidence 356788889999999998888775 23566666665
No 17
>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=55.86 E-value=30 Score=22.69 Aligned_cols=23 Identities=39% Similarity=0.629 Sum_probs=15.1
Q ss_pred HHHHHHHHcCCChHHHHHHhhhC
Q 012919 261 QTVDFLYEMGLSAESIGKVLTRC 283 (453)
Q Consensus 261 ~~v~fL~~lG~~~~~i~~il~~~ 283 (453)
..+.-|.++||+.+...+.+..+
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 45666777788777777777654
No 18
>PRK00117 recX recombination regulator RecX; Reviewed
Probab=51.76 E-value=62 Score=28.63 Aligned_cols=29 Identities=24% Similarity=0.353 Sum_probs=22.4
Q ss_pred HHHHHHHHHHHHHcCCChHHHHHHhhcCh
Q 012919 27 EEAKAVLTLFLKKQGLSKGVAARTINKSD 55 (453)
Q Consensus 27 ~~a~~~~~~~l~~~g~~~~~a~~i~~~s~ 55 (453)
.-..+-|..+|.++|++..+++.+.++..
T Consensus 25 ~~s~~el~~kL~~kg~~~~~i~~vl~~l~ 53 (157)
T PRK00117 25 EHSRAELRRKLAAKGFSEEVIEAVLDRLK 53 (157)
T ss_pred hhHHHHHHHHHHhcCCCHHHHHHHHHHHH
Confidence 34456788899999999999988776543
No 19
>PF11212 DUF2999: Protein of unknown function (DUF2999); InterPro: IPR021376 This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Probab=51.25 E-value=36 Score=26.27 Aligned_cols=48 Identities=21% Similarity=0.324 Sum_probs=29.5
Q ss_pred HHHHHHHHhcCCCHHHHHHHHHhCCCccccCcCCChHHHHHHHHhCCCCCCCHHHH
Q 012919 153 RPQILYLIELGMDLEKIKLITRRFPAFSYYSLEGKIKPVVEFLLDLGIPKAQIPTI 208 (453)
Q Consensus 153 ~~~l~~L~~lGls~~~i~~iv~~~P~lL~~~~~~~l~~~v~fL~~lG~~~~~I~~i 208 (453)
.|.++.|.++.+|+++|..++... + .+.-........+|++.+.+..+
T Consensus 2 NPIia~LKehnvsd~qi~elFq~l----T----~NPl~AMa~i~qLGip~eKLQ~l 49 (82)
T PF11212_consen 2 NPIIAILKEHNVSDEQINELFQAL----T----QNPLAAMATIQQLGIPQEKLQQL 49 (82)
T ss_pred chHHHHHHHcCCCHHHHHHHHHHH----h----hCHHHHHHHHHHcCCCHHHHHHH
Confidence 466777777777777777766543 1 12233445666777777665544
No 20
>PF14490 HHH_4: Helix-hairpin-helix containing domain; PDB: 3GPL_A 3E1S_A 3GP8_A.
Probab=50.09 E-value=54 Score=26.47 Aligned_cols=72 Identities=15% Similarity=0.188 Sum_probs=40.9
Q ss_pred CChHHHHHHHHhcCCCHHHHHHHHHhCCCccccCcCCChHHHHHHHHhCCCCCCCHHHHHhhCCCcccCCcccchHHHHH
Q 012919 150 GDLRPQILYLIELGMDLEKIKLITRRFPAFSYYSLEGKIKPVVEFLLDLGIPKAQIPTILGKRPQLCGISLSENLIPTMT 229 (453)
Q Consensus 150 ~~l~~~l~~L~~lGls~~~i~~iv~~~P~lL~~~~~~~l~~~v~fL~~lG~~~~~I~~ii~~~P~lL~~s~e~~l~~~l~ 229 (453)
..+...+.+|..+|++...+.++...+. ++...+|..+|..|..++..-==.+++
T Consensus 6 ~~~~~~~~~L~~~gl~~~~a~kl~~~yg-------------------------~~ai~~l~~nPY~L~~~i~gi~F~~aD 60 (94)
T PF14490_consen 6 RGLRELMAFLQEYGLSPKLAMKLYKKYG-------------------------DDAIEILKENPYRLIEDIDGIGFKTAD 60 (94)
T ss_dssp ---HHHHHHHHHTT--HHHHHHHHHHH--------------------------TTHHHHHHH-STCCCB-SSSSBHHHHH
T ss_pred HHHHHHHHHHHHcCCCHHHHHHHHHHHh-------------------------HHHHHHHHHChHHHHHHccCCCHHHHH
Confidence 4567788999999999999888877652 123467788888887644222223444
Q ss_pred HH-HHhCCChhhHHHHHH
Q 012919 230 FL-ENLGVDKTQWAKVIQ 246 (453)
Q Consensus 230 fL-~~lGvs~~~i~~il~ 246 (453)
.+ +++|++.++-.++..
T Consensus 61 ~iA~~~g~~~~d~~Ri~A 78 (94)
T PF14490_consen 61 KIALKLGIEPDDPRRIRA 78 (94)
T ss_dssp HHHHTTT--TT-HHHHHH
T ss_pred HHHHHcCCCCCCHHHHHH
Confidence 44 467888777666654
No 21
>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=48.87 E-value=64 Score=32.77 Aligned_cols=148 Identities=16% Similarity=0.254 Sum_probs=73.5
Q ss_pred cccccCCCCCC-hHHHHHHHH-hcCCCHHHHHHHHHhCCCccccCc-C--CChHHHHHHHHhCCCCCCCHHHHH------
Q 012919 141 SRVSELDSSGD-LRPQILYLI-ELGMDLEKIKLITRRFPAFSYYSL-E--GKIKPVVEFLLDLGIPKAQIPTIL------ 209 (453)
Q Consensus 141 ~r~l~~~~~~~-l~~~l~~L~-~lGls~~~i~~iv~~~P~lL~~~~-~--~~l~~~v~fL~~lG~~~~~I~~ii------ 209 (453)
.+++.++.++. .-..++.+. ++|++.+=...++.+||..+...- + ...-..++|=.++.++.-+-....
T Consensus 107 ~KLLMMS~~~rlpL~ki~~l~~dLGLP~Df~~~lv~~yP~~Frvv~~~~~~~~LeLv~Wd~~LAvs~~E~~~~~~~~~~~ 186 (335)
T PF11955_consen 107 RKLLMMSKDRRLPLSKIAHLRRDLGLPDDFRDSLVPKYPDYFRVVDLEDGGRYLELVSWDPELAVSALEKRAEKEYREKR 186 (335)
T ss_pred HHHhccCCCCcccHHHHHHHHHHcCCChhhccchhhhCCCCcEEeecCCCCCEEEEeecCCccCcCccchhhhhcccccc
Confidence 34566655553 345566665 699998888888999998765421 0 001111111112333322221111
Q ss_pred -----------hhCCCcccCCcccchHHHHHHHHHhC-CC------------hhhHHHHHHhcccccccchhh--HHHHH
Q 012919 210 -----------GKRPQLCGISLSENLIPTMTFLENLG-VD------------KTQWAKVIQRFPAVLTYSRQK--VKQTV 263 (453)
Q Consensus 210 -----------~~~P~lL~~s~e~~l~~~l~fL~~lG-vs------------~~~i~~il~~~P~iL~~s~~~--l~~~v 263 (453)
.+.|. ++.+.......++-|+++- +| ++.=-+.+.-...+|++..++ ....+
T Consensus 187 ~~~~~~~~~Fp~~fp~--G~~l~k~~~~~l~~fQ~lPy~SPYed~~~l~~~s~~~EKRaVaVlHElLSLTveKr~~~~~L 264 (335)
T PF11955_consen 187 EDGFDRPLAFPVSFPK--GFRLKKKFREWLEEFQKLPYISPYEDASHLDPGSDEAEKRAVAVLHELLSLTVEKRTEVDHL 264 (335)
T ss_pred ccccCCceeeeecCCC--CccccHHHHHHHHHHhcCCCCCCCCCccCCCCCChHHHhHHHHHHHHHHHhhhhhhccHHHH
Confidence 11221 2233345555666666541 11 111112333334466666653 45555
Q ss_pred HHHH-HcCCChHHHHHHhhhCCceeEech
Q 012919 264 DFLY-EMGLSAESIGKVLTRCPNIISYSI 291 (453)
Q Consensus 264 ~fL~-~lG~~~~~i~~il~~~P~iL~~s~ 291 (453)
..|+ ++|++ ..+.+++.+||.||..|.
T Consensus 265 ~~fr~ef~lp-~k~~~~l~rHPgIFYvS~ 292 (335)
T PF11955_consen 265 THFRKEFGLP-QKFRRLLLRHPGIFYVSL 292 (335)
T ss_pred HHHHHHhCCc-HHHHHHHHhCCCeEEEec
Confidence 5554 56774 456667777777777664
No 22
>COG1513 CynS Cyanate lyase [Inorganic ion transport and metabolism]
Probab=48.44 E-value=88 Score=27.12 Aligned_cols=67 Identities=22% Similarity=0.156 Sum_probs=47.3
Q ss_pred HHHHHHHHHH----HcCCChHHHHHHhhcChHHHHHHHhhhHhhhhhhhcccCccchHHHHHhhHHHHHHhhhhhhhhHH
Q 012919 29 AKAVLTLFLK----KQGLSKGVAARTINKSDLFIDHLVSRLHSVHKSRYLVGRELTTLEIRDALTPYLESLLEEYGNVLV 104 (453)
Q Consensus 29 a~~~~~~~l~----~~g~~~~~a~~i~~~s~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lEslg~~~~~~l~ 104 (453)
+...++++|- ..|||++|-+.-.-++++|+.+++=+-.. ++..+.|+ ..|.||++... +
T Consensus 5 ~i~~l~~~ll~~Kk~kgLsfaDl~~~lG~~ev~vaa~~ygqa~-----------~~~~ear~----v~e~L~L~~~~--v 67 (151)
T COG1513 5 IILDLADALLLAKKKKGLSFADLADGLGLAEVFVAAALYGQAA-----------LPADEARA----VGEALDLDEDA--I 67 (151)
T ss_pred hHHHHHHHHHHHHHhcCCcHHHHHhhcCccHHHHHHHHHhhcc-----------CCHHHHHH----HHHHhCCCHHH--H
Confidence 3456777772 89999999999999999999998865532 44445553 56788887333 4
Q ss_pred HHHHcCCC
Q 012919 105 DLVENFPN 112 (453)
Q Consensus 105 ~~v~~~p~ 112 (453)
..++..|.
T Consensus 68 ~~L~~~p~ 75 (151)
T COG1513 68 LLLQMIPL 75 (151)
T ss_pred HHhhccCc
Confidence 45665554
No 23
>PRK14136 recX recombination regulator RecX; Provisional
Probab=46.95 E-value=87 Score=31.28 Aligned_cols=38 Identities=18% Similarity=0.186 Sum_probs=26.9
Q ss_pred HHHHHHHHHHHHHHcCCChHHHHHHhhcCh--------HHHHHHHh
Q 012919 26 KEEAKAVLTLFLKKQGLSKGVAARTINKSD--------LFIDHLVS 63 (453)
Q Consensus 26 ~~~a~~~~~~~l~~~g~~~~~a~~i~~~s~--------~~~~~l~~ 63 (453)
++-.++=|..+|.++|.+..+.+.+..+.- .|++++|.
T Consensus 175 ReRSe~ELr~KL~kkG~~ee~IE~VIerLke~gYLDDeRFAesyVr 220 (309)
T PRK14136 175 REYSRAELARKLAPYADESDSVEPLLDALEREGWLSDARFAESLVH 220 (309)
T ss_pred ccccHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCcCHHHHHHHHHH
Confidence 344566788899999999888887776653 45566553
No 24
>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=46.23 E-value=19 Score=31.46 Aligned_cols=29 Identities=28% Similarity=0.438 Sum_probs=22.2
Q ss_pred HHHHHHHHHHcCCChHHHHHHhhhCCcee
Q 012919 259 VKQTVDFLYEMGLSAESIGKVLTRCPNII 287 (453)
Q Consensus 259 l~~~v~fL~~lG~~~~~i~~il~~~P~iL 287 (453)
+..+++||++-|++.++|..++.+.+.--
T Consensus 23 ~~~k~~FL~sKGLt~~EI~~al~~a~~~~ 51 (136)
T PF04695_consen 23 LEKKIAFLESKGLTEEEIDEALGRAGSPP 51 (136)
T ss_dssp HHHHHHHHHHCT--HHHHHHHHHHHT--S
T ss_pred HHHHHHHHHcCCCCHHHHHHHHHhcCCcc
Confidence 77899999999999999999998876554
No 25
>smart00165 UBA Ubiquitin associated domain. Present in Rad23, SNF1-like kinases. The newly-found UBA in p62 is known to bind ubiquitin.
Probab=44.56 E-value=73 Score=20.58 Aligned_cols=23 Identities=26% Similarity=0.270 Sum_probs=18.0
Q ss_pred HHHHHHHhcCCCHHHHHHHHHhC
Q 012919 154 PQILYLIELGMDLEKIKLITRRF 176 (453)
Q Consensus 154 ~~l~~L~~lGls~~~i~~iv~~~ 176 (453)
..++-|.+.|++..++...+..+
T Consensus 3 ~~v~~L~~mGf~~~~a~~aL~~~ 25 (37)
T smart00165 3 EKIDQLLEMGFSREEALKALRAA 25 (37)
T ss_pred HHHHHHHHcCCCHHHHHHHHHHh
Confidence 45778888888888888877665
No 26
>PF13744 HTH_37: Helix-turn-helix domain; PDB: 2A6C_B 2O38_A.
Probab=44.12 E-value=63 Score=25.19 Aligned_cols=60 Identities=30% Similarity=0.388 Sum_probs=36.8
Q ss_pred HHHHHHHHHHH----HHHHHcCCChHHHHHHhhcChHHHHHHHh-hhHhhhhhhhcccCccchHHHHHhhHHHHHHhhhh
Q 012919 24 AEKEEAKAVLT----LFLKKQGLSKGVAARTINKSDLFIDHLVS-RLHSVHKSRYLVGRELTTLEIRDALTPYLESLLEE 98 (453)
Q Consensus 24 ~~~~~a~~~~~----~~l~~~g~~~~~a~~i~~~s~~~~~~l~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~lEslg~~ 98 (453)
++..++++.++ +....+|++..+++....-++.-++.+.. +.++ +|- +.++.|++.||.+
T Consensus 10 ~~~~~~k~~l~~~i~~~~~~~~ltQ~e~A~~lgisq~~vS~l~~g~~~~-----------~sl----~~L~~~l~aLG~~ 74 (80)
T PF13744_consen 10 AEELEAKAQLMAAIRELREERGLTQAELAERLGISQPRVSRLENGKIDD-----------FSL----DTLLRYLEALGGR 74 (80)
T ss_dssp HHHHHHHHHHHHHHHHHHHCCT--HHHHHHHHTS-HHHHHHHHTT-GCC-------------H----HHHHHHHHHTTEE
T ss_pred HHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHCCChhHHHHHHcCcccC-----------CCH----HHHHHHHHHcCCe
Confidence 34444555544 45559999999999999999999988886 3322 222 2355678887753
No 27
>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=43.27 E-value=79 Score=20.50 Aligned_cols=36 Identities=25% Similarity=0.429 Sum_probs=25.1
Q ss_pred HHHHHHHHhcCCCHHHHHHHHHhCCCccccCcCCChHHHHHHHH
Q 012919 153 RPQILYLIELGMDLEKIKLITRRFPAFSYYSLEGKIKPVVEFLL 196 (453)
Q Consensus 153 ~~~l~~L~~lGls~~~i~~iv~~~P~lL~~~~~~~l~~~v~fL~ 196 (453)
...++-|.+.|++..++...+..+- .++..-++||.
T Consensus 2 ~~~v~~L~~mGf~~~~~~~AL~~~~--------~d~~~A~~~L~ 37 (38)
T cd00194 2 EEKLEQLLEMGFSREEARKALRATN--------NNVERAVEWLL 37 (38)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHhC--------CCHHHHHHHHh
Confidence 3567788889999888888776652 34555566653
No 28
>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=43.18 E-value=1.4e+02 Score=24.97 Aligned_cols=110 Identities=23% Similarity=0.305 Sum_probs=0.0
Q ss_pred ccchHHHHHHHHHhC-CChhhHHHHHHhcccccccchhhHHHHHHHHHHcCCChHHHHHHhhhCCceeEechhhcHHHHH
Q 012919 221 SENLIPTMTFLENLG-VDKTQWAKVIQRFPAVLTYSRQKVKQTVDFLYEMGLSAESIGKVLTRCPNIISYSIEEKLRPTA 299 (453)
Q Consensus 221 e~~l~~~l~fL~~lG-vs~~~i~~il~~~P~iL~~s~~~l~~~v~fL~~lG~~~~~i~~il~~~P~iL~~s~e~~l~~~v 299 (453)
++.+...++.|.+.| +++...+....+. -+..+...-.....-|+.-|++.+.|...+. ..+..+.....+
T Consensus 8 ~e~I~~vi~~l~~~gyidD~~ya~~~v~~--~~~~~~~G~~~I~~~L~~kGi~~~~i~~~l~------~~~~~e~a~~~~ 79 (121)
T PF02631_consen 8 EEAIEEVIDRLKELGYIDDERYAESYVRS--RLRRKGKGPRRIRQKLKQKGIDREIIEEALE------EYDEEEEALELA 79 (121)
T ss_dssp HHHHHHHHHHHHHTTSS-HHHHHHHHHHH--HHHHTT--HHHHHHHHHHTT--HHHHHHHHT------CS-HHHHHHHHH
T ss_pred HHHHHHHHHHHHHcCCCCHHHHHHHHHHH--hcccccccHHHHHHHHHHHCCChHHHHHHHH------HhhHHHHHHHHH
Q ss_pred HHHhhcCCChhHHHhhcccccccccccccchhHHHHHHhCCChHHHHHHhhh
Q 012919 300 EYFRSLGVDVSVLLQRCPQSLGCSIEANLKPVTEFFLERGFTVEEIGTMISR 351 (453)
Q Consensus 300 ~~L~~lG~~~~~ii~~~P~iL~~s~e~~l~~~~~~L~~~G~s~eev~~mi~~ 351 (453)
-.++...-..+.....+..+.+|...||+.+.+...+..
T Consensus 80 -------------~kk~~~~~~~~~~~~~~K~~~~L~rrGF~~~~i~~vi~~ 118 (121)
T PF02631_consen 80 -------------EKKYRRYRKPSDRKRKQKLIRFLMRRGFSYDVIRRVISE 118 (121)
T ss_dssp -------------HHHHHHTTTS-CHHHHHHHHHHHHHTT--HHHHHHHCHH
T ss_pred -------------HHHHhcccCCCCHHHHHHHHHHHHHCCCCHHHHHHHHhh
No 29
>PRK14135 recX recombination regulator RecX; Provisional
Probab=42.23 E-value=1.7e+02 Score=28.28 Aligned_cols=133 Identities=14% Similarity=0.141 Sum_probs=66.8
Q ss_pred HHHHHHHHHHHcCCChHHHHHHhhcCh--HHHHHHHhhhHhhhhhhhcccCccchHHHHHhhHHHHHHhhhhhhhhHHHH
Q 012919 29 AKAVLTLFLKKQGLSKGVAARTINKSD--LFIDHLVSRLHSVHKSRYLVGRELTTLEIRDALTPYLESLLEEYGNVLVDL 106 (453)
Q Consensus 29 a~~~~~~~l~~~g~~~~~a~~i~~~s~--~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lEslg~~~~~~l~~~ 106 (453)
...-|..-|..+|++.+.++.+-.... .+++....-+...++.+ ...+....++.+..+|-.-|.+... +-..
T Consensus 124 g~~~I~~kL~~kGi~~~~Ie~~l~~l~~~~~~d~a~~~~~k~~~~~----~~~~~~~~k~Ki~~~L~rkGf~~~~-I~~~ 198 (263)
T PRK14135 124 GPRVIKQKLLQKGIEDEIIEEALSEYTEEDQIEVAQKLAEKLLKKY----QKLPFKALKQKIIQSLLTKGFSYEV-IKAA 198 (263)
T ss_pred chHHHHHHHHHcCCCHHHHHHHHHhCChhhHHHHHHHHHHHHHHHh----cCCCHHHHHHHHHHHHHhCCCCHHH-HHHH
Confidence 456788889999999999988877642 23332111111111111 1233334455677788888887433 4555
Q ss_pred HHcCC-CCCCcccccccccCCCCCCCCChHHHhhccccccCCCCCChHHHHHHHHhcCCCHHHHHHHHHhC
Q 012919 107 VENFP-NAPPPAKQKAVAPVSPPVSTLDSKKLKAISRVSELDSSGDLRPQILYLIELGMDLEKIKLITRRF 176 (453)
Q Consensus 107 v~~~p-~~~~~~~~~~~~~~~~~~~~~d~~~~~a~~r~l~~~~~~~l~~~l~~L~~lGls~~~i~~iv~~~ 176 (453)
++.+. .....+-.... .....+...++-..++...-..+..||..-||+.+.|..++...
T Consensus 199 l~~~~~e~d~~~e~e~l----------~~~~~k~~~k~~~~~~~k~k~K~~~~L~rrGF~~~~I~~~l~~~ 259 (263)
T PRK14135 199 LEELDLEQDEEEEQELL----------QKELEKAYRKYSKYDGYELKQKLKQALYRKGFSYDDIDSFLREY 259 (263)
T ss_pred HHHcccCCChHHHHHHH----------HHHHHHHHHHHhcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHh
Confidence 55431 10000000000 00000111112112222234566778889999998888877553
No 30
>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=38.53 E-value=26 Score=23.88 Aligned_cols=23 Identities=26% Similarity=0.323 Sum_probs=18.4
Q ss_pred HHHH-HcCCChHHHHHHhhcChHH
Q 012919 35 LFLK-KQGLSKGVAARTINKSDLF 57 (453)
Q Consensus 35 ~~l~-~~g~~~~~a~~i~~~s~~~ 57 (453)
.+|+ +.|||..+|..|.+.||.-
T Consensus 13 ~~L~~~f~ip~~vAk~IV~~C~~C 36 (40)
T PF02022_consen 13 KALRHKFGIPRLVAKQIVNQCPKC 36 (40)
T ss_dssp HHHHHHHT--HHHHHHHHHHSCCH
T ss_pred HHHHHHHccCHHHHHHHHHHCHHH
Confidence 5787 9999999999999999864
No 31
>PRK00117 recX recombination regulator RecX; Reviewed
Probab=37.59 E-value=2.8e+02 Score=24.31 Aligned_cols=73 Identities=18% Similarity=0.231 Sum_probs=39.6
Q ss_pred HHHHHHHcCCChHHHHHHhhhCCceeEechhhcHHHHHHHHhhcCCChhHHHhhcccccccccccccchhHHHHHHhCCC
Q 012919 262 TVDFLYEMGLSAESIGKVLTRCPNIISYSIEEKLRPTAEYFRSLGVDVSVLLQRCPQSLGCSIEANLKPVTEFFLERGFT 341 (453)
Q Consensus 262 ~v~fL~~lG~~~~~i~~il~~~P~iL~~s~e~~l~~~v~~L~~lG~~~~~ii~~~P~iL~~s~e~~l~~~~~~L~~~G~s 341 (453)
...-|..-|++.+.|..++...+ .. ........+. .++...-..+. ..-...+.+|...||+
T Consensus 81 I~~~L~~kGi~~~~I~~~l~~~~----~d---~~e~a~~~~~----------k~~~~~~~~~~-~~k~Ki~~~L~rkGF~ 142 (157)
T PRK00117 81 IRQELRQKGVDREIIEEALAELD----ID---WEELARELAR----------KKFRRPLPDDA-KEKAKLVRFLARRGFS 142 (157)
T ss_pred HHHHHHHcCCCHHHHHHHHHHcC----cc---HHHHHHHHHH----------HHcCCCCCCCH-HHHHHHHHHHHHCCCC
Confidence 34577788999999988887654 11 1111111111 11111111111 1122346788889999
Q ss_pred hHHHHHHhhhc
Q 012919 342 VEEIGTMISRF 352 (453)
Q Consensus 342 ~eev~~mi~~~ 352 (453)
.+.+...+...
T Consensus 143 ~~~I~~~l~~~ 153 (157)
T PRK00117 143 MDVIQRVLRNA 153 (157)
T ss_pred HHHHHHHHHhh
Confidence 99888777653
No 32
>PF11212 DUF2999: Protein of unknown function (DUF2999); InterPro: IPR021376 This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Probab=37.52 E-value=1.2e+02 Score=23.41 Aligned_cols=49 Identities=20% Similarity=0.384 Sum_probs=28.5
Q ss_pred HHHHHHHHHhCCChhhHHHHHHhcccccccchhhHHHHHHHHHHcCCChHHHHHHh
Q 012919 225 IPTMTFLENLGVDKTQWAKVIQRFPAVLTYSRQKVKQTVDFLYEMGLSAESIGKVL 280 (453)
Q Consensus 225 ~~~l~fL~~lGvs~~~i~~il~~~P~iL~~s~~~l~~~v~fL~~lG~~~~~i~~il 280 (453)
.|.+..|++..+|++++..+... |+ ++-...+..+.++|++++.+..++
T Consensus 2 NPIia~LKehnvsd~qi~elFq~----lT---~NPl~AMa~i~qLGip~eKLQ~lm 50 (82)
T PF11212_consen 2 NPIIAILKEHNVSDEQINELFQA----LT---QNPLAAMATIQQLGIPQEKLQQLM 50 (82)
T ss_pred chHHHHHHHcCCCHHHHHHHHHH----Hh---hCHHHHHHHHHHcCCCHHHHHHHH
Confidence 35666777777777776665433 11 222334556667777777665443
No 33
>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=36.15 E-value=54 Score=22.89 Aligned_cols=25 Identities=20% Similarity=0.292 Sum_probs=19.3
Q ss_pred hHHHHHHHHhcCCCHHHHHHHHHhC
Q 012919 152 LRPQILYLIELGMDLEKIKLITRRF 176 (453)
Q Consensus 152 l~~~l~~L~~lGls~~~i~~iv~~~ 176 (453)
....++-|.++|+++.++.+++..-
T Consensus 3 ~~d~~~AL~~LGy~~~e~~~av~~~ 27 (47)
T PF07499_consen 3 LEDALEALISLGYSKAEAQKAVSKL 27 (47)
T ss_dssp HHHHHHHHHHTTS-HHHHHHHHHHH
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHHh
Confidence 3567788999999999999888765
No 34
>PF14698 ASL_C2: Argininosuccinate lyase C-terminal; PDB: 1XWO_A 2E9F_A 1TJW_C 1TJU_A 1DCN_B 1K7W_B 1HY1_C 1TJV_B 1AUW_A 1U15_B ....
Probab=35.67 E-value=35 Score=26.17 Aligned_cols=24 Identities=17% Similarity=0.268 Sum_probs=19.2
Q ss_pred HHHHHHHHHcCCChHHHHHHhhcC
Q 012919 31 AVLTLFLKKQGLSKGVAARTINKS 54 (453)
Q Consensus 31 ~~~~~~l~~~g~~~~~a~~i~~~s 54 (453)
..++|||-.+|+||-+|-+|..+.
T Consensus 5 TdlAD~LVr~GipFR~AH~iVg~~ 28 (70)
T PF14698_consen 5 TDLADYLVRKGIPFREAHHIVGRL 28 (70)
T ss_dssp HHHHHHHHHTTS-HHHHHHHHHHH
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHH
Confidence 358999997799999999997654
No 35
>PRK14135 recX recombination regulator RecX; Provisional
Probab=33.90 E-value=4.3e+02 Score=25.34 Aligned_cols=24 Identities=25% Similarity=0.317 Sum_probs=19.2
Q ss_pred HHHHHHHHHcCCChHHHHHHhhhC
Q 012919 260 KQTVDFLYEMGLSAESIGKVLTRC 283 (453)
Q Consensus 260 ~~~v~fL~~lG~~~~~i~~il~~~ 283 (453)
.....+|..-|++.+.|..++...
T Consensus 179 ~Ki~~~L~rkGf~~~~I~~~l~~~ 202 (263)
T PRK14135 179 QKIIQSLLTKGFSYEVIKAALEEL 202 (263)
T ss_pred HHHHHHHHhCCCCHHHHHHHHHHc
Confidence 345678889999999999888754
No 36
>COG2137 OraA Uncharacterized protein conserved in bacteria [General function prediction only]
Probab=33.50 E-value=3.8e+02 Score=24.51 Aligned_cols=21 Identities=33% Similarity=0.439 Sum_probs=14.1
Q ss_pred HHHHHHHcCCChHHHHHHhhh
Q 012919 262 TVDFLYEMGLSAESIGKVLTR 282 (453)
Q Consensus 262 ~v~fL~~lG~~~~~i~~il~~ 282 (453)
...+|..-||+.+.|..++..
T Consensus 143 i~r~L~~rGFs~~~i~~~l~~ 163 (174)
T COG2137 143 IQRFLLRRGFSYEVIKEALNE 163 (174)
T ss_pred HHHHHHHcCCCHHHHHHHHHH
Confidence 455666777777777766653
No 37
>PF05902 4_1_CTD: 4.1 protein C-terminal domain (CTD); InterPro: IPR008379 There is a unique sequence domain at the C terminus of all known 4.1 proteins, known as the C-terminal domain (CTD). Mammalian CTDs are associated with a growing number of protein-protein interactions, although such activities have yet to be associated with invertebrate CTDs. Mammalian CTDs are generally defined by sequence alignment as encoded by exons 18-21. Comparison of known vertebrate 4.1 proteins with invertebrate 4.1 proteins indicates that mammalian 4.1 exon 19 represents a vertebrate adaptation that extends the sequence of the CTD with a Ser/Thr-rich sequence. The CTD was first described as a 22/24 kDa domain by chymotryptic digestion of erythrocyte 4.1 (4.1R). CTD is thought to represent an independent folding structure which has gained function since the divergence of vertebrates from invertebrates [].; GO: 0003779 actin binding, 0005198 structural molecule activity, 0005856 cytoskeleton
Probab=31.76 E-value=26 Score=29.64 Aligned_cols=23 Identities=35% Similarity=0.492 Sum_probs=18.5
Q ss_pred CCCCCCCCCCccccccChhhhHHHHHHHHHH
Q 012919 2 MTGDSGVNGSSSLRVVPSTLLAAEKEEAKAV 32 (453)
Q Consensus 2 ~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~ 32 (453)
.|||++||-.. -+|+++.||++.
T Consensus 75 ITGD~DIDhDq--------aLa~aI~eAk~q 97 (114)
T PF05902_consen 75 ITGDADIDHDQ--------ALAQAIKEAKEQ 97 (114)
T ss_pred EecCCCcchHH--------HHHHHHHHHHHh
Confidence 58999998654 478999999874
No 38
>PRK14136 recX recombination regulator RecX; Provisional
Probab=30.96 E-value=5.2e+02 Score=25.95 Aligned_cols=81 Identities=12% Similarity=0.097 Sum_probs=39.8
Q ss_pred HHHHHhcCCCHHHHHHHHHhCCCccccCcCCChHHHHHHHHhCCCCCC-CHHHHHhhCCCcccCCcccchHHHHHHHHHh
Q 012919 156 ILYLIELGMDLEKIKLITRRFPAFSYYSLEGKIKPVVEFLLDLGIPKA-QIPTILGKRPQLCGISLSENLIPTMTFLENL 234 (453)
Q Consensus 156 l~~L~~lGls~~~i~~iv~~~P~lL~~~~~~~l~~~v~fL~~lG~~~~-~I~~ii~~~P~lL~~s~e~~l~~~l~fL~~l 234 (453)
+.||..---+..++.+-+... .++. ..|+.+|+.|++.|+=.+ ..+....+. ..-.... .....-|+.-
T Consensus 169 L~lLSrReRSe~ELr~KL~kk----G~~e-e~IE~VIerLke~gYLDDeRFAesyVr~-R~~kkGp----~rIrqELrQK 238 (309)
T PRK14136 169 LGYLSRREYSRAELARKLAPY----ADES-DSVEPLLDALEREGWLSDARFAESLVHR-RASRVGS----ARIVSELKRH 238 (309)
T ss_pred HHHhhcccccHHHHHHHHHHc----CCCH-HHHHHHHHHHHHcCCcCHHHHHHHHHHH-HhhchhH----HHHHHHHHHc
Confidence 344444555566666555443 1232 356667777777766433 344433322 1100111 1223455666
Q ss_pred CCChhhHHHHHH
Q 012919 235 GVDKTQWAKVIQ 246 (453)
Q Consensus 235 Gvs~~~i~~il~ 246 (453)
||+.+.|...+.
T Consensus 239 GId~eLIEqALe 250 (309)
T PRK14136 239 AVGDALVESVGA 250 (309)
T ss_pred CCCHHHHHHHHH
Confidence 777776666655
No 39
>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=30.74 E-value=1.2e+02 Score=34.26 Aligned_cols=90 Identities=18% Similarity=0.256 Sum_probs=62.6
Q ss_pred CCCChHHHHHHHHh---cCCCHHHHHHHHHhCCCccccCcCCChHHHHHHHHhC-CCCCCCHHHHHhhCCCcccCCcccc
Q 012919 148 SSGDLRPQILYLIE---LGMDLEKIKLITRRFPAFSYYSLEGKIKPVVEFLLDL-GIPKAQIPTILGKRPQLCGISLSEN 223 (453)
Q Consensus 148 ~~~~l~~~l~~L~~---lGls~~~i~~iv~~~P~lL~~~~~~~l~~~v~fL~~l-G~~~~~I~~ii~~~P~lL~~s~e~~ 223 (453)
.+.+....+.||.+ .|+-+....+|+..++.=.. +.++...+-|.++ |+++..+..+...+.. ...
T Consensus 73 ~p~~~~~i~~yL~s~~~~GIG~~~A~~iv~~fg~~~~----~~i~~~~~~L~~v~gi~~~~~~~i~~~~~~------~~~ 142 (720)
T TIGR01448 73 APTSKEGIVAYLSSRSIKGVGKKLAQRIVKTFGEAAF----DVLDDDPEKLLEVPGISKANLEKFVSQWSQ------QGD 142 (720)
T ss_pred CCCCHHHHHHHHhcCCCCCcCHHHHHHHHHHhCHhHH----HHHHhCHHHHhcCCCCCHHHHHHHHHHHHH------hHH
Confidence 45677888999986 58999999999988863211 1233334556665 8888888777776522 134
Q ss_pred hHHHHHHHHHhCCChhhHHHHHHh
Q 012919 224 LIPTMTFLENLGVDKTQWAKVIQR 247 (453)
Q Consensus 224 l~~~l~fL~~lGvs~~~i~~il~~ 247 (453)
....+.||.++|++.....++...
T Consensus 143 ~~~~~~~L~~~gi~~~~a~ki~~~ 166 (720)
T TIGR01448 143 ERRLLAGLQGLGIGIKLAQRIYKF 166 (720)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHH
Confidence 677888999999998766655443
No 40
>PRK00116 ruvA Holliday junction DNA helicase RuvA; Reviewed
Probab=28.55 E-value=1.5e+02 Score=27.32 Aligned_cols=25 Identities=16% Similarity=0.373 Sum_probs=19.2
Q ss_pred HHHHHHHHHHcCCChHHHHHHhhhC
Q 012919 259 VKQTVDFLYEMGLSAESIGKVLTRC 283 (453)
Q Consensus 259 l~~~v~fL~~lG~~~~~i~~il~~~ 283 (453)
+.+.+.+|.++|+++.++.+++...
T Consensus 149 ~~ev~~aL~~LG~~~~~a~~~~~~~ 173 (192)
T PRK00116 149 LEEAVSALVALGYKPKEASKAVAKI 173 (192)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHHH
Confidence 5677788888888888888777765
No 41
>PF07671 DUF1601: Protein of unknown function (DUF1601); InterPro: IPR011632 This repeat is found in a small number of proteins and is apparently limited to Coxiella burnetii.
Probab=26.46 E-value=41 Score=22.55 Aligned_cols=24 Identities=21% Similarity=0.300 Sum_probs=20.5
Q ss_pred HHHHHcCCChHHHHHHhhcChHHH
Q 012919 35 LFLKKQGLSKGVAARTINKSDLFI 58 (453)
Q Consensus 35 ~~l~~~g~~~~~a~~i~~~s~~~~ 58 (453)
.||+.+||+....+.|..+++.|=
T Consensus 6 ~~l~~q~L~~~L~~aV~~~a~~Fn 29 (37)
T PF07671_consen 6 RYLEEQRLSDRLLDAVRRNAEQFN 29 (37)
T ss_pred hhhhhccchHHHHHHHHHHHHHcC
Confidence 488999999999999998887763
No 42
>PF08069 Ribosomal_S13_N: Ribosomal S13/S15 N-terminal domain; InterPro: IPR012606 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This domain is found at the N terminus of ribosomal S13 and S15 proteins. This domain is also identified as NUC021 [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005840 ribosome; PDB: 3U5C_N 3O30_G 3IZB_O 3O2Z_G 3U5G_N 2XZN_O 2XZM_O 3IZ6_O.
Probab=25.70 E-value=49 Score=24.74 Aligned_cols=36 Identities=31% Similarity=0.464 Sum_probs=25.6
Q ss_pred hcccccccchhhHHHHHHHHHHcCCChHHHHHHhhh
Q 012919 247 RFPAVLTYSRQKVKQTVDFLYEMGLSAESIGKVLTR 282 (453)
Q Consensus 247 ~~P~iL~~s~~~l~~~v~fL~~lG~~~~~i~~il~~ 282 (453)
..|..+.++.+.++..+--|..-|+++.+|+-+++.
T Consensus 21 ~~P~W~~~~~~eVe~~I~klakkG~tpSqIG~iLRD 56 (60)
T PF08069_consen 21 SPPSWLKYSPEEVEELIVKLAKKGLTPSQIGVILRD 56 (60)
T ss_dssp S--TT--S-HHHHHHHHHHHCCTTHCHHHHHHHHHH
T ss_pred CCCCCcCCCHHHHHHHHHHHHHcCCCHHHhhhhhhh
Confidence 357788888888888888888889999999877764
No 43
>PHA02119 hypothetical protein
Probab=23.50 E-value=68 Score=24.53 Aligned_cols=15 Identities=33% Similarity=0.454 Sum_probs=11.6
Q ss_pred hHHHHHHHHhcCCCH
Q 012919 152 LRPQILYLIELGMDL 166 (453)
Q Consensus 152 l~~~l~~L~~lGls~ 166 (453)
.+..++||+++|.+.
T Consensus 56 ~~divdylr~lgy~~ 70 (87)
T PHA02119 56 PKDIVDYLRSLGYDA 70 (87)
T ss_pred cHHHHHHHHHccchh
Confidence 466789999999854
No 44
>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=22.95 E-value=1.9e+02 Score=23.80 Aligned_cols=85 Identities=18% Similarity=0.229 Sum_probs=43.3
Q ss_pred hhHHHHHHHHHHcCCChHHHHHHhhhCCceeEechhhcHHHHHHHHhhcCCChhHHHhhcccccccccccccchhHHHHH
Q 012919 257 QKVKQTVDFLYEMGLSAESIGKVLTRCPNIISYSIEEKLRPTAEYFRSLGVDVSVLLQRCPQSLGCSIEANLKPVTEFFL 336 (453)
Q Consensus 257 ~~l~~~v~fL~~lG~~~~~i~~il~~~P~iL~~s~e~~l~~~v~~L~~lG~~~~~ii~~~P~iL~~s~e~~l~~~~~~L~ 336 (453)
.+-+....||++-|+.-+.+. +.+.| .+ -..-.+++..+|.+...++.+.-. .++..- -+.
T Consensus 7 ~t~rka~~~L~~~gi~~~~~d--~~k~p----~s----~~el~~~l~~~~~~~~~lin~~~~--------~~k~l~-~~~ 67 (110)
T PF03960_consen 7 STCRKALKWLEENGIEYEFID--YKKEP----LS----REELRELLSKLGNGPDDLINTRSK--------TYKELG-KLK 67 (110)
T ss_dssp HHHHHHHHHHHHTT--EEEEE--TTTS-----------HHHHHHHHHHHTSSGGGGB-TTSH--------HHHHTT-HHH
T ss_pred HHHHHHHHHHHHcCCCeEeeh--hhhCC----CC----HHHHHHHHHHhcccHHHHhcCccc--------hHhhhh-hhh
Confidence 345667777777777655431 12222 11 122334455666665555443211 111110 112
Q ss_pred HhCCChHHHHHHhhhccccccccc
Q 012919 337 ERGFTVEEIGTMISRFGALYTFSL 360 (453)
Q Consensus 337 ~~G~s~eev~~mi~~~P~lL~~sl 360 (453)
...++.+++..++..+|.++...+
T Consensus 68 ~~~~s~~e~i~~l~~~p~LikRPI 91 (110)
T PF03960_consen 68 KDDLSDEELIELLLENPKLIKRPI 91 (110)
T ss_dssp CTTSBHHHHHHHHHHSGGGB-SSE
T ss_pred hhhhhhHHHHHHHHhChhheeCCE
Confidence 246899999999999999988765
No 45
>smart00354 HTH_LACI helix_turn _helix lactose operon repressor.
Probab=22.89 E-value=1.8e+02 Score=21.92 Aligned_cols=39 Identities=21% Similarity=0.300 Sum_probs=19.3
Q ss_pred hCCChhhHHHHHHhcccccccchhhHHHHHHHHHHcCCChHH
Q 012919 234 LGVDKTQWAKVIQRFPAVLTYSRQKVKQTVDFLYEMGLSAES 275 (453)
Q Consensus 234 lGvs~~~i~~il~~~P~iL~~s~~~l~~~v~fL~~lG~~~~~ 275 (453)
.|++..-+.+++...|.+ +.+.-....+.++++|+.+..
T Consensus 10 ~gvS~~TVSr~ln~~~~v---~~~t~~~i~~~~~~~gy~~~~ 48 (70)
T smart00354 10 AGVSKATVSRVLNGNGRV---SEETREKVLAAMEELGYIPNR 48 (70)
T ss_pred HCCCHHHHHHHHCCCCCC---CHHHHHHHHHHHHHhCCCCCH
Confidence 455555555555444433 334444445555555554443
No 46
>PF02330 MAM33: Mitochondrial glycoprotein; InterPro: IPR003428 This mitochondrial matrix protein family contains members of the MAM33 family which bind to the globular 'heads' of C1Q.; GO: 0005759 mitochondrial matrix; PDB: 3QV0_A 1YQF_F 3JV1_A 1P32_A 3RPX_A.
Probab=22.74 E-value=84 Score=29.23 Aligned_cols=28 Identities=14% Similarity=0.266 Sum_probs=22.4
Q ss_pred HHHHHHHHHHHHcCCChHHHHHHhhcCh
Q 012919 28 EAKAVLTLFLKKQGLSKGVAARTINKSD 55 (453)
Q Consensus 28 ~a~~~~~~~l~~~g~~~~~a~~i~~~s~ 55 (453)
.=|.++..||.+||+...-|+.|..-|-
T Consensus 159 ~Lq~~~~~yLeeRGId~~la~fl~~y~~ 186 (204)
T PF02330_consen 159 NLQDAFMNYLEERGIDEELANFLHDYST 186 (204)
T ss_dssp HHHHHHHHHHHHTT-SHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhCCCHHHHHHHHHHHH
Confidence 4588999999999999999988865443
No 47
>PF14490 HHH_4: Helix-hairpin-helix containing domain; PDB: 3GPL_A 3E1S_A 3GP8_A.
Probab=21.97 E-value=2.1e+02 Score=23.02 Aligned_cols=24 Identities=25% Similarity=0.376 Sum_probs=11.2
Q ss_pred chHHHHHHHHHhCCChhhHHHHHH
Q 012919 223 NLIPTMTFLENLGVDKTQWAKVIQ 246 (453)
Q Consensus 223 ~l~~~l~fL~~lGvs~~~i~~il~ 246 (453)
.+...+.||..+|++.....++..
T Consensus 7 ~~~~~~~~L~~~gl~~~~a~kl~~ 30 (94)
T PF14490_consen 7 GLRELMAFLQEYGLSPKLAMKLYK 30 (94)
T ss_dssp --HHHHHHHHHTT--HHHHHHHHH
T ss_pred HHHHHHHHHHHcCCCHHHHHHHHH
Confidence 344556666666666655544443
No 48
>COG3068 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=21.95 E-value=1.3e+02 Score=26.95 Aligned_cols=51 Identities=22% Similarity=0.233 Sum_probs=39.6
Q ss_pred HHHHHHHHHHH--HcCCChHHHHHHhhcChHHHHHHHhhhHhhhhhhhcccCccchHHHHHh
Q 012919 28 EAKAVLTLFLK--KQGLSKGVAARTINKSDLFIDHLVSRLHSVHKSRYLVGRELTTLEIRDA 87 (453)
Q Consensus 28 ~a~~~~~~~l~--~~g~~~~~a~~i~~~s~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~ 87 (453)
.|=.|+++.|| =.|=+.+.|-.||.-|-.-+.+|.+.-- |+++|....+.|
T Consensus 95 DAC~aLsellH~~l~getlE~ai~iS~~Si~Tva~l~etqa---------g~~~s~~~lKe~ 147 (194)
T COG3068 95 DACVALSELLHSRLSGETLEHAIEVSKTSITTVAMLEETQA---------GREMSDEELKEN 147 (194)
T ss_pred HHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHH---------hHhhhHHHhhhC
Confidence 56789999999 5577888899999999998899988763 346666666553
No 49
>KOG3120 consensus Predicted haloacid dehalogenase-like hydrolase [General function prediction only]
Probab=21.85 E-value=2e+02 Score=27.58 Aligned_cols=44 Identities=20% Similarity=0.268 Sum_probs=30.4
Q ss_pred ChHHHHHHHHhcCCCHHHHHHHHHhCCCccccCcCCChHHHHHHHHhCCC
Q 012919 151 DLRPQILYLIELGMDLEKIKLITRRFPAFSYYSLEGKIKPVVEFLLDLGI 200 (453)
Q Consensus 151 ~l~~~l~~L~~lGls~~~i~~iv~~~P~lL~~~~~~~l~~~v~fL~~lG~ 200 (453)
-|..++.+|.+.|++.++|.+.+++-|.. + .+-+.+.++...|.
T Consensus 58 ~M~rv~k~Lheqgv~~~~ik~~~r~iP~~----P--gmv~lik~~ak~g~ 101 (256)
T KOG3120|consen 58 LMDRVFKELHEQGVRIAEIKQVLRSIPIV----P--GMVRLIKSAAKLGC 101 (256)
T ss_pred HHHHHHHHHHHcCCCHHHHHHHHhcCCCC----c--cHHHHHHHHHhCCC
Confidence 35667778888888888888888777742 2 35566667666663
No 50
>cd08808 CARD_CARD11_CARMA1 Caspase activation and recruitment domain of CARD11-like proteins. Caspase activation and recruitment domain (CARD) similar to that found in CARD11, also known as caspase recruitment domain-containing membrane-associated guanylate kinase protein 1 (CARMA1). CARMA1, together with BCL10 (B-cell lymphoma 10) and Malt1 (mucosa-associated lymphoid tissue-lymphoma-translocation gene 1), form the L-CBM signalosome (CBM complex in lymphoid immune cells) which mediates activation of NF-kB and MAPK by ITAM-coupled receptors expressed on immune cells. CARMA1 associates with BCL10 via a CARD-CARD interaction. In general, CARDs are death domains (DDs) found associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation, and host-defense mechanisms. 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 as
Probab=21.58 E-value=2.6e+02 Score=22.45 Aligned_cols=57 Identities=23% Similarity=0.191 Sum_probs=35.8
Q ss_pred HHHHHHHHHHHHHH-HcCCChHHHHHHhh-----cChHHHHHHHhhhHhhhhhhhcccCccchHHHHHhhHHHHHHhhhh
Q 012919 25 EKEEAKAVLTLFLK-KQGLSKGVAARTIN-----KSDLFIDHLVSRLHSVHKSRYLVGRELTTLEIRDALTPYLESLLEE 98 (453)
Q Consensus 25 ~~~~a~~~~~~~l~-~~g~~~~~a~~i~~-----~s~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lEslg~~ 98 (453)
+..-++ ++.||+ ..=+...|-+.|-+ .+-.=+.||++=++-. + .++...|||||-..
T Consensus 15 ~l~p~~--v~pYLrQ~~Il~~~deEeI~s~~~~~~~~~k~g~LLDIL~tr---------G------~~af~aFLeSLe~~ 77 (86)
T cd08808 15 YINPAK--LTPYLRQCKVIDEQDEDEVLNSPMLPSKINRAGRLLDILHTK---------G------QRGYVVFLESLEFY 77 (86)
T ss_pred HhhHhh--ccHHHHHcCCCChhhHHHHHcCcccchHHHHHHHHHHHHHhc---------C------chHHHHHHHHHHhh
Confidence 334444 999999 77788888888876 3333345566555321 1 23566788888654
No 51
>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=21.57 E-value=2.2e+02 Score=19.55 Aligned_cols=38 Identities=18% Similarity=0.288 Sum_probs=16.1
Q ss_pred hCCChhhHHHHHHhcccccccchhhHHHHHHHHHHcCCChH
Q 012919 234 LGVDKTQWAKVIQRFPAVLTYSRQKVKQTVDFLYEMGLSAE 274 (453)
Q Consensus 234 lGvs~~~i~~il~~~P~iL~~s~~~l~~~v~fL~~lG~~~~ 274 (453)
+|++...+.+++...| ..+.+......+...++|+.++
T Consensus 7 ~gvs~~tvs~~l~g~~---~vs~~~~~~i~~~~~~l~~~~~ 44 (52)
T cd01392 7 AGVSVATVSRVLNGKP---RVSEETRERVLAAAEELGYRPN 44 (52)
T ss_pred HCcCHHHHHHHHcCCC---CCCHHHHHHHHHHHHHhCCCCC
Confidence 4555555555444333 1222333333444444454443
No 52
>KOG2561 consensus Adaptor protein NUB1, contains UBA domain [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=21.38 E-value=5e+02 Score=27.49 Aligned_cols=122 Identities=16% Similarity=0.247 Sum_probs=66.6
Q ss_pred CCcccchHHHHHHHHHh-----CCChhhHHHHHHhcccccccchhhHHHHHHHHHHcCCChHHHHHHhhhCCceeEechh
Q 012919 218 ISLSENLIPTMTFLENL-----GVDKTQWAKVIQRFPAVLTYSRQKVKQTVDFLYEMGLSAESIGKVLTRCPNIISYSIE 292 (453)
Q Consensus 218 ~s~e~~l~~~l~fL~~l-----Gvs~~~i~~il~~~P~iL~~s~~~l~~~v~fL~~lG~~~~~i~~il~~~P~iL~~s~e 292 (453)
.+++..+.-++..|+.+ |-.++..-.+=...-.++.+. -....+..+-++|+-+.+-+..++.|-.-
T Consensus 259 ~spEraL~lRL~LLQGV~~yHqg~~deAye~le~a~~~l~elk--i~d~~lsllv~mGfeesdaRlaLRsc~g~------ 330 (568)
T KOG2561|consen 259 QSPERALILRLELLQGVVAYHQGQRDEAYEALESAHAKLLELK--INDETLSLLVGMGFEESDARLALRSCNGD------ 330 (568)
T ss_pred CChhHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHee--ccchHHHHHHHcCCCchHHHHHHHhcccc------
Confidence 35666677777777753 544444443333333333332 24455677788999999998888888653
Q ss_pred hcHHHHHHHHhhcC--C------C---hhHHHhhcccccccccccc--cchhHHHHHHhCCChHHHHHHhhh
Q 012919 293 EKLRPTAEYFRSLG--V------D---VSVLLQRCPQSLGCSIEAN--LKPVTEFFLERGFTVEEIGTMISR 351 (453)
Q Consensus 293 ~~l~~~v~~L~~lG--~------~---~~~ii~~~P~iL~~s~e~~--l~~~~~~L~~~G~s~eev~~mi~~ 351 (453)
+...++|+.+-- + + ...+..+. .++-+...+ ....+.+|.++|++.+-+...+.+
T Consensus 331 --Vd~AvqfI~erre~laq~R~k~~a~Ere~~~r~--k~~n~~~~~wvn~rs~~rL~~mGyer~la~eaL~r 398 (568)
T KOG2561|consen 331 --VDSAVQFIIERREKLAQKREKDLAREREILERK--KYGNTPMKKWVNPRSLERLVSMGYERELAAEALRR 398 (568)
T ss_pred --HHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHH--HhcCCCcccccCHHHHHHHHhcchHhHHHHHHHHh
Confidence 333444443210 0 0 01111110 111111111 223477888999998888777777
No 53
>PF13413 HTH_25: Helix-turn-helix domain; PDB: 2WUS_R 3FYM_A.
Probab=21.09 E-value=2e+02 Score=21.38 Aligned_cols=53 Identities=15% Similarity=0.080 Sum_probs=34.0
Q ss_pred HcCCChHHHHHHhhcChHHHHHHHhhhHhhhhhhhcccCccchHHHHHhhHH-HHHHhhhhhhh
Q 012919 39 KQGLSKGVAARTINKSDLFIDHLVSRLHSVHKSRYLVGRELTTLEIRDALTP-YLESLLEEYGN 101 (453)
Q Consensus 39 ~~g~~~~~a~~i~~~s~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~lEslg~~~~~ 101 (453)
.+|+|-.+.+..++=++.+++.+=++=- ..+.+.-+-++.+- |-+.||+++.+
T Consensus 8 ~~glsl~~va~~t~I~~~~l~aiE~~~~----------~~lp~~~y~rg~lr~Ya~~Lgld~~~ 61 (62)
T PF13413_consen 8 AKGLSLEDVAEETKISVSYLEAIENGDF----------DSLPSPVYARGYLRKYARFLGLDPDE 61 (62)
T ss_dssp CTT--HHHHHHHCS--HHHHHHHHCT-G----------CCSSSHHHHHHHHHHHHHHTT--HHH
T ss_pred HcCCCHHHHHHHhCCCHHHHHHHHCcCh----------hhCCcHHHHHHHHHHHHHHhCcCccc
Confidence 7899999999999999999987754321 14666666666665 88888887544
No 54
>PRK00116 ruvA Holliday junction DNA helicase RuvA; Reviewed
Probab=20.85 E-value=2.6e+02 Score=25.79 Aligned_cols=25 Identities=20% Similarity=0.303 Sum_probs=14.9
Q ss_pred hHHHHHHHHHhCCChhhHHHHHHhc
Q 012919 224 LIPTMTFLENLGVDKTQWAKVIQRF 248 (453)
Q Consensus 224 l~~~l~fL~~lGvs~~~i~~il~~~ 248 (453)
+...+.+|.++|++..++.+++.++
T Consensus 149 ~~ev~~aL~~LG~~~~~a~~~~~~~ 173 (192)
T PRK00116 149 LEEAVSALVALGYKPKEASKAVAKI 173 (192)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHHH
Confidence 4455566666666666666665554
No 55
>PF00531 Death: Death domain; InterPro: IPR000488 The death domain (DD) is a homotypic protein interaction module composed of a bundle of six alpha-helices. DD is related in sequence and structure to the death effector domain (DED, see IPR001875 from INTERPRO) and the caspase recruitment domain (CARD, see IPR001315 from INTERPRO), which work in similar pathways and show similar interaction properties []. DD bind each other forming oligomers. Mammals have numerous and diverse DD-containing proteins []. Within these proteins, the DD domains can be found in combination with other domains, including: CARDs, DEDs, ankyrin repeats (IPR002110 from INTERPRO), caspase-like folds, kinase domains, leucine zippers (IPR002158 from INTERPRO), leucine-rich repeats (LRR) (IPR001611 from INTERPRO), TIR domains (IPR000157 from INTERPRO), and ZU5 domains (IPR000906 from INTERPRO) []. Some DD-containing proteins are involved in the regulation of apoptosis and inflammation through their activation of caspases and NF-kappaB, which typically involves interactions with TNF (tumour necrosis factor) cytokine receptors [, ]. In humans, eight of the over 30 known TNF receptors contain DD in their cytoplasmic tails; several of these TNF receptors use caspase activation as a signalling mechanism. The DD mediates self-association of these receptors, thus giving the signal to downstream events that lead to apoptosis. Other DD-containing proteins, such as ankyrin, MyD88 and pelle, are probably not directly involved in cell death signalling. DD-containing proteins also have links to innate immunity, communicating with Toll family receptors through bipartite adapter proteins such as MyD88 [].; GO: 0005515 protein binding, 0007165 signal transduction; PDB: 3OQ9_L 3EZQ_F 1E41_A 1E3Y_A 2GF5_A 2OF5_L 3EWV_E 3G5B_A 3MOP_L 2A9I_A ....
Probab=20.48 E-value=2.7e+02 Score=21.12 Aligned_cols=53 Identities=19% Similarity=0.193 Sum_probs=32.6
Q ss_pred HcCCChHHHHHHhhcChHHHHHHHhhhHhhhhhhhcccCccchHHHHHhhHHHHHHhhhh
Q 012919 39 KQGLSKGVAARTINKSDLFIDHLVSRLHSVHKSRYLVGRELTTLEIRDALTPYLESLLEE 98 (453)
Q Consensus 39 ~~g~~~~~a~~i~~~s~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lEslg~~ 98 (453)
.-|++..+-+.|..++|. ...-...+-..|... .|..-|- +.++..|+.+|..
T Consensus 21 ~Lg~~~~~i~~i~~~~~~-~~~~~~~~L~~W~~~--~~~~at~----~~L~~aL~~~~~~ 73 (83)
T PF00531_consen 21 KLGLSESEIENIEEENPD-LREQTYEMLQRWRQR--EGPNATV----DQLIQALRDIGRN 73 (83)
T ss_dssp HTTS-HHHHHHHHHHSTS-HHHHHHHHHHHHHHH--HGSTSSH----HHHHHHHHHTTHH
T ss_pred HhCcCHHHHHHHHHhCCC-hHHHHHHHHHHHHHh--cCCCCcH----HHHHHHHHHCCcH
Confidence 559999999999999987 544444454555554 2232232 2355567777763
No 56
>cd08319 Death_RAIDD Death domain of RIP-associated ICH-1 homologous protein with a death domain. Death domain (DD) of RAIDD (RIP-associated ICH-1 homologous protein with a death domain), also known as CRADD (Caspase and RIP adaptor). RAIDD is an adaptor protein that together with the p53-inducible protein PIDD and caspase-2, forms the PIDDosome complex, which is required for caspase-2 activation and plays a role in mediating stress-induced apoptosis. RAIDD contains an N-terminal Caspase Activation and Recruitment Domain (CARD), which interacts with the caspase-2 CARD, and a C-terminal DD, which interacts with the DD of PIDD. In general, 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, DED (Death Effector Domain), and PYRIN. They serve as adaptors in signaling pathways and can recruit other pr
Probab=20.26 E-value=2.6e+02 Score=22.17 Aligned_cols=66 Identities=18% Similarity=0.271 Sum_probs=0.0
Q ss_pred HHHHhCCCCCCCHHHHHhhCCCcccCCcccchHHHHHHHHHhCCChhhHHHHHHhcccccccchhhHHHHHHHHHHcCCC
Q 012919 193 EFLLDLGIPKAQIPTILGKRPQLCGISLSENLIPTMTFLENLGVDKTQWAKVIQRFPAVLTYSRQKVKQTVDFLYEMGLS 272 (453)
Q Consensus 193 ~fL~~lG~~~~~I~~ii~~~P~lL~~s~e~~l~~~l~fL~~lGvs~~~i~~il~~~P~iL~~s~~~l~~~v~fL~~lG~~ 272 (453)
...+.+|++..+|..+-..||. ++.+.+..++.-|++-.-....+.+++. .|+.+|++
T Consensus 18 ~Lar~Lgls~~~I~~i~~~~p~----~l~eQv~~mL~~W~~r~G~~ATv~~L~~------------------aL~~~~~~ 75 (83)
T cd08319 18 QVLLDLGLSQTDIYRCKENHPH----NVQSQIVEALVKWRQRFGKKATVQSLIQ------------------SLKAVEVD 75 (83)
T ss_pred HHHHHcCCCHHHHHHHHHhCCC----CHHHHHHHHHHHHHHhcCCCCcHHHHHH------------------HHHHcCCC
Q ss_pred hHHHHHHh
Q 012919 273 AESIGKVL 280 (453)
Q Consensus 273 ~~~i~~il 280 (453)
++-...++
T Consensus 76 ~~~~~~~~ 83 (83)
T cd08319 76 PSVLQFLL 83 (83)
T ss_pred HHHHHhhC
No 57
>COG2522 Predicted transcriptional regulator [General function prediction only]
Probab=20.21 E-value=84 Score=26.90 Aligned_cols=13 Identities=31% Similarity=0.687 Sum_probs=7.1
Q ss_pred HHHHHHHHHH-HcC
Q 012919 29 AKAVLTLFLK-KQG 41 (453)
Q Consensus 29 a~~~~~~~l~-~~g 41 (453)
+|+||+.||+ +||
T Consensus 35 tqaAVS~Yls~krg 48 (119)
T COG2522 35 TQAAVSQYLSGKRG 48 (119)
T ss_pred CHHHHHHHHccCCc
Confidence 4555555555 444
No 58
>PF13543 KSR1-SAM: SAM like domain present in kinase suppressor RAS 1
Probab=20.18 E-value=2.1e+02 Score=24.92 Aligned_cols=51 Identities=18% Similarity=0.346 Sum_probs=30.5
Q ss_pred HHHHHHhCCChhhHHHHHHhc---ccccccchhhHHHHHHHHHHcCCChHHHHHHhh
Q 012919 228 MTFLENLGVDKTQWAKVIQRF---PAVLTYSRQKVKQTVDFLYEMGLSAESIGKVLT 281 (453)
Q Consensus 228 l~fL~~lGvs~~~i~~il~~~---P~iL~~s~~~l~~~v~fL~~lG~~~~~i~~il~ 281 (453)
-+||+-+|++++.+..++.+. ..++.++.+.++ +.|.++|.+.++.+++..
T Consensus 70 ~~WL~vVgl~~~~i~~i~~~~~tLe~Llemsd~el~---~~l~~~g~~~EE~rRL~~ 123 (129)
T PF13543_consen 70 RQWLRVVGLRPESIQAILSKVLTLEALLEMSDEELK---EILNRCGAREEECRRLCR 123 (129)
T ss_pred HHHhhhcCCCHHHHHHHHHhhcCHHHHHhCCHHHHH---HHHHHhCCCHHHHHHHHH
Confidence 356777788877776664432 234444444444 345567888888777654
No 59
>COG1125 OpuBA ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]
Probab=20.01 E-value=1.5e+02 Score=29.13 Aligned_cols=65 Identities=22% Similarity=0.409 Sum_probs=41.5
Q ss_pred chHHHHHHH-HHhC-CChhhHHHHHHhcccccccchhhHHHHHHHHH-HcCCChHHHHHHhhhCCceeEec
Q 012919 223 NLIPTMTFL-ENLG-VDKTQWAKVIQRFPAVLTYSRQKVKQTVDFLY-EMGLSAESIGKVLTRCPNIISYS 290 (453)
Q Consensus 223 ~l~~~l~fL-~~lG-vs~~~i~~il~~~P~iL~~s~~~l~~~v~fL~-~lG~~~~~i~~il~~~P~iL~~s 290 (453)
.|+.++-|- +.+| ++.-.+..=|.-.|.++..+.++++.+++-|- -+|+++++. ..++|.=|+-.
T Consensus 72 ~LRr~IGYviQqigLFPh~Tv~eNIa~VP~L~~w~k~~i~~r~~ELl~lvgL~p~~~---~~RyP~eLSGG 139 (309)
T COG1125 72 ELRRKIGYVIQQIGLFPHLTVAENIATVPKLLGWDKERIKKRADELLDLVGLDPSEY---ADRYPHELSGG 139 (309)
T ss_pred HHHHhhhhhhhhcccCCCccHHHHHHhhhhhcCCCHHHHHHHHHHHHHHhCCCHHHH---hhcCchhcCcc
Confidence 456666665 4555 44445566666677777777777776666665 467777665 36777777644
Done!