Query 012091
Match_columns 471
No_of_seqs 276 out of 1298
Neff 8.0
Searched_HMMs 46136
Date Fri Mar 29 08:32:08 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/012091.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/012091hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03196 MOC1-like protein; Pr 100.0 1.9E-58 4.1E-63 482.0 32.1 379 44-470 57-445 (487)
2 PF02536 mTERF: mTERF; InterP 100.0 7.2E-51 1.6E-55 412.7 10.3 330 55-462 2-345 (345)
3 PLN03196 MOC1-like protein; Pr 100.0 2.1E-41 4.6E-46 353.8 26.8 332 52-437 94-440 (487)
4 PF02536 mTERF: mTERF; InterP 100.0 5.6E-35 1.2E-39 296.3 14.1 285 48-411 31-325 (345)
5 KOG1267 Mitochondrial transcri 100.0 5.1E-28 1.1E-32 250.6 17.8 315 45-444 86-410 (413)
6 KOG1267 Mitochondrial transcri 99.8 4.9E-19 1.1E-23 183.6 14.7 236 162-408 68-310 (413)
7 smart00733 Mterf Mitochondrial 97.1 0.00035 7.6E-09 43.8 2.5 30 383-413 2-31 (31)
8 smart00733 Mterf Mitochondrial 96.7 0.0014 3.1E-08 40.9 2.4 27 280-307 4-30 (31)
9 PF11955 PORR: Plant organelle 94.5 0.16 3.4E-06 51.2 8.5 186 241-439 100-326 (335)
10 PF04695 Pex14_N: Peroxisomal 85.1 1.4 2.9E-05 38.6 4.4 48 328-392 4-51 (136)
11 cd04790 HTH_Cfa-like_unk Helix 84.7 6.6 0.00014 35.7 8.9 17 368-384 151-167 (172)
12 PF04695 Pex14_N: Peroxisomal 75.5 3.3 7.2E-05 36.1 3.6 41 68-111 9-49 (136)
13 COG1125 OpuBA ABC-type proline 70.8 21 0.00046 34.7 7.9 89 221-327 72-161 (309)
14 PF11955 PORR: Plant organelle 69.4 7.3 0.00016 39.4 4.9 31 366-396 121-152 (335)
15 cd04790 HTH_Cfa-like_unk Helix 69.3 63 0.0014 29.3 10.6 22 155-176 49-70 (172)
16 PF00627 UBA: UBA/TS-N domain; 63.1 22 0.00047 23.2 4.7 24 366-389 4-27 (37)
17 smart00165 UBA Ubiquitin assoc 58.3 17 0.00036 23.6 3.4 24 366-389 3-26 (37)
18 TIGR00601 rad23 UV excision re 55.4 63 0.0014 33.3 8.7 124 221-388 155-361 (378)
19 PF11181 YflT: Heat induced st 55.0 35 0.00076 28.0 5.7 77 293-384 10-90 (103)
20 cd00194 UBA Ubiquitin Associat 54.5 20 0.00044 23.3 3.4 24 366-389 3-26 (38)
21 PRK11613 folP dihydropteroate 49.3 31 0.00067 34.0 5.2 63 398-466 164-229 (282)
22 cd07922 CarBa CarBa is the A s 43.9 22 0.00047 28.1 2.6 19 55-73 29-47 (81)
23 PF14490 HHH_4: Helix-hairpin- 43.2 62 0.0013 26.0 5.3 54 53-106 11-77 (94)
24 PF07499 RuvA_C: RuvA, C-termi 43.1 43 0.00092 23.2 3.7 26 365-390 4-29 (47)
25 PF07499 RuvA_C: RuvA, C-termi 42.0 46 0.00099 23.1 3.7 19 55-73 8-26 (47)
26 KOG2629 Peroxisomal membrane a 41.1 47 0.001 32.5 4.8 42 329-387 4-45 (300)
27 COG3620 Predicted transcriptio 40.5 26 0.00056 31.4 2.7 44 158-205 55-98 (187)
28 PRK14136 recX recombination re 40.1 3.9E+02 0.0085 26.7 14.8 133 226-390 169-304 (309)
29 PRK00117 recX recombination re 39.4 2.6E+02 0.0057 24.5 11.1 135 225-388 17-153 (157)
30 PRK00117 recX recombination re 36.8 2.9E+02 0.0063 24.2 12.0 64 324-389 39-103 (157)
31 PF02022 Integrase_Zn: Integra 36.0 62 0.0013 21.8 3.4 25 367-391 11-36 (40)
32 PF02631 RecX: RecX family; I 35.8 2.6E+02 0.0056 23.3 9.2 24 364-387 95-118 (121)
33 PF13348 Y_phosphatase3C: Tyro 35.8 32 0.00069 25.7 2.3 42 28-72 23-65 (68)
34 COG2137 OraA Uncharacterized p 35.5 3.1E+02 0.0066 25.0 9.0 40 157-203 27-66 (174)
35 cd07321 Extradiol_Dioxygenase_ 32.6 85 0.0018 24.4 4.3 38 55-106 28-65 (77)
36 PF11212 DUF2999: Protein of u 31.6 1E+02 0.0022 23.6 4.3 41 154-204 2-42 (82)
37 PF07647 SAM_2: SAM domain (St 31.6 58 0.0013 23.9 3.2 49 48-102 4-54 (66)
38 PF13331 DUF4093: Domain of un 30.7 2E+02 0.0043 23.0 6.2 21 365-385 66-86 (87)
39 cd00166 SAM Sterile alpha moti 30.0 1.3E+02 0.0028 21.3 4.8 46 48-99 2-48 (63)
40 COG1125 OpuBA ABC-type proline 29.3 55 0.0012 31.9 3.2 47 376-422 87-134 (309)
41 cd00739 DHPS DHPS subgroup of 28.6 1E+02 0.0022 29.9 5.1 62 398-466 151-216 (257)
42 KOG0400 40S ribosomal protein 28.0 58 0.0013 28.0 2.8 64 244-309 19-82 (151)
43 PF00356 LacI: Bacterial regul 26.6 1.7E+02 0.0036 20.3 4.5 39 303-344 7-45 (46)
44 smart00354 HTH_LACI helix_turn 25.0 1.4E+02 0.003 22.4 4.2 39 304-345 9-47 (70)
45 smart00657 RPOL4c DNA-directed 24.8 1E+02 0.0022 26.1 3.8 58 80-144 52-110 (118)
46 PRK14134 recX recombination re 24.4 6.8E+02 0.015 24.6 14.2 24 364-387 254-278 (283)
47 PF00536 SAM_1: SAM domain (St 23.3 1.2E+02 0.0025 22.0 3.5 47 47-99 2-49 (64)
48 PF06568 DUF1127: Domain of un 22.8 45 0.00097 22.3 1.0 11 92-102 28-38 (40)
49 PHA02591 hypothetical protein; 22.7 74 0.0016 24.8 2.2 48 60-107 22-70 (83)
50 PF13720 Acetyltransf_11: Udp 22.4 64 0.0014 25.4 2.0 37 57-94 23-59 (83)
51 PF11626 Rap1_C: TRF2-interact 22.4 3.6E+02 0.0078 21.2 6.4 25 377-407 62-86 (87)
52 PF02787 CPSase_L_D3: Carbamoy 22.2 2.1E+02 0.0046 24.4 5.3 71 84-175 12-83 (123)
53 PF03960 ArsC: ArsC family; I 21.6 1.4E+02 0.003 24.5 4.0 23 305-327 69-91 (110)
54 PF10440 WIYLD: Ubiquitin-bind 21.2 1.2E+02 0.0027 22.8 3.1 18 54-71 15-32 (65)
55 cd08319 Death_RAIDD Death doma 20.4 4.3E+02 0.0092 20.8 6.3 61 92-171 20-80 (83)
56 PF10440 WIYLD: Ubiquitin-bind 20.2 1.4E+02 0.003 22.5 3.2 36 362-397 9-44 (65)
57 COG3620 Predicted transcriptio 20.0 1.5E+02 0.0032 26.7 3.9 69 269-344 28-98 (187)
58 PRK14487 cbb3-type cytochrome 20.0 2.5E+02 0.0054 26.5 5.6 49 329-377 150-209 (217)
No 1
>PLN03196 MOC1-like protein; Provisional
Probab=100.00 E-value=1.9e-58 Score=481.97 Aligned_cols=379 Identities=23% Similarity=0.368 Sum_probs=339.5
Q ss_pred HhccchhHHHHHHHHHcCCChHHHHHHHHhCCCCCCCCchhhHHHHHHHHhcCCCchhhhhhhhccccccchhhHHHHHH
Q 012091 44 QRMNWFAFVSVTLFQEIGLNEKEVDSLLEKNPTLRVTPLDKMRSRILSLQSVGIKGMAFCRLISKDSNVLLAEEIDRLIC 123 (471)
Q Consensus 44 ~~~~~~~~~~~~fL~~lGls~~~i~~~v~~~P~ll~~~~~~l~~~v~~L~~lGls~~~i~~ll~~~P~iL~~~~l~~~l~ 123 (471)
+........+++||+++|++..++.++. +.++++.+++++++|+++|++.+||+ ++|.+|+++
T Consensus 57 ~~~~~~~~~~~~~L~~lgi~~~~l~~~~------~p~~~~~~~~~l~~L~s~G~~~~~i~----~~P~iL~~~------- 119 (487)
T PLN03196 57 KEKLVNREKVLDFLRGIGIDPDELDGLE------LPSTVDVMRERVEFLHKLGLTIEDIN----EYPLVLGCS------- 119 (487)
T ss_pred hhhhhhHHHHHHHHHHcCCCchhhhccC------CCccHHHHHHHHHHHHHcCCChHHhc----cCcHHhhcC-------
Confidence 3355667788999999999999887632 45788999999999999999999998 789999764
Q ss_pred HHHhhccCCCChhhHHHHhhhccccccccchhHHHHHHhcCCCHHHHHHHHhhcccccccccCCcc-cHHHHHHHHhhcC
Q 012091 124 FVRDDLDGNIEPMKLERLLTSTETKFLVGFDQKVRLLLQLGVPQETILHVLNNINLSKAVCLKSVE-DIERTFAYLNPFG 202 (471)
Q Consensus 124 ~l~~~l~gs~~~~~l~~~l~~~~~~~~l~~~~~v~~L~~lGl~~~~i~~l~~~~~~p~~l~~~s~~-~~~~~v~~L~~lG 202 (471)
+ + -+..|.++||+++|++..+|++++.+ +|++|. .+.+ ++.++++||+++|
T Consensus 120 ---------v--~--------------~~l~Pvl~fL~~lG~s~~~i~~lI~~--~P~lL~-~sve~~L~P~v~fL~~lG 171 (487)
T PLN03196 120 ---------V--K--------------KNMIPVLDYLEKLGVTRSSLPELLRR--YPQVLH-ASVVVDLAPVVKYLQGLD 171 (487)
T ss_pred ---------H--h--------------hhhHHHHHHHHHcCCCHHHHHHHHHh--CCceec-ccHHHHHHHHHHHHHHcC
Confidence 0 0 01125677888899999999999998 699997 6664 8999999999999
Q ss_pred Cc-----hhhhhcccccccCccccHHHHHHHHHhCCCCChHHHHHHHHhcCcccccchh-cHHHHHHHhHHhhCCCHHHH
Q 012091 203 GA-----DLIVRCPKILNYDLDTQLIPKVRVLSELGGDDVDSTAAIVWKFPAILSYSLE-HIGKHVEFLRSFAGLSDQEI 276 (471)
Q Consensus 203 ~~-----~~i~~~p~ll~~~~e~~l~~kv~~L~~~g~~~~~~l~~~v~k~P~iL~~s~e-~l~~~~~fL~~~lGl~~~~i 276 (471)
+. +++.++|.++++++++++.++++||.++|+ +++++++++.++|.+|+++.+ +++++++||++ +|++.++|
T Consensus 172 vs~~~i~~~l~r~P~LL~~~~e~~l~p~v~fL~~lGv-s~~~i~~il~~~P~iL~~sve~~i~P~v~fL~~-lGv~~~~I 249 (487)
T PLN03196 172 VKRQDIPRVLERYPELLGFKLEGTMSTSVAYLVSIGV-APRDIGPMLTRFPEILGMRVGNNIKPKVDYLES-LGLPRLAV 249 (487)
T ss_pred CCHHHHHHHHHhCchhhcCCHHHHHHHHHHHHHHcCC-CHHHHHHHHHhCcHHhhcChhhhHHHHHHHHHH-cCCCHHHH
Confidence 95 378999999999999999999999999985 789999999999999999998 79999999987 59999999
Q ss_pred HHHHHhCCcccccCcccchhhhHHHHHhcCCChHhHHhHhhcCccccccChh-hHHHHHHHHH-HcCCCccch-hHHHHH
Q 012091 277 FRIFLVFPAVISASRERKLRPRIDFLKQCGLGSEDIFKFLTKAPLFLALSFD-NIAIKLGFLV-KIGYECRTR-ELAAAM 353 (471)
Q Consensus 277 ~~ii~~~P~lL~~sle~~l~pr~~~L~~~Gl~~~~i~~ll~~~P~iL~~s~~-~l~~~l~~L~-~~G~~~~~~-~~~~~~ 353 (471)
++++.++|++|++|+|++++|++++|+++|++.+++..++.++|.+++++.+ +++++++|+. ++|++++.- .+.+..
T Consensus 250 ~~il~~~P~iL~~sle~~lkp~v~~L~elGv~~~~i~~lI~~~P~iL~~s~e~kl~~~~~fL~~~lG~s~e~i~~~v~k~ 329 (487)
T PLN03196 250 ARILEKRPYILGFDLEETVKPNVECLLEFGVRKEALPSVIAQYPDILGLDLKAKLAEQQYWLTSKLKIDPEDFGRVIEKL 329 (487)
T ss_pred HHHHHhCCceeEcCHHHhHHHHHHHHHHcCCCHHHHHHHHHhCCceeEecHHHhhhHHHHHHHHhhCCCHHHHHHHHHhc
Confidence 9999999999999999999999999999999999999999999999999987 7999999995 599998763 345556
Q ss_pred HHHhhcChhhHHHHHHHHHHcCCCHHHHHHHHHhCCcccccChhhHHHHHHHHHhhcCCChHHHhhcCceeecccccchh
Q 012091 354 GSVTRTSCENLQKVIGLFLSYGLSFADIYIMSKKHPQILQYNHKSLEEKMEYLIVGMGREVGELLAFPAFLGYKLDDRIK 433 (471)
Q Consensus 354 ~~~~~~~~~~l~~ki~~L~~lG~s~~ev~~~v~~~P~iL~~s~~~l~~k~~fL~~~mg~~~~~i~~~P~~L~~Sle~rI~ 433 (471)
+.++..+.++|+++++||.++|++.++|..|+.++|++|++|.++|++|++||+++||++.++|+++|.+|+||+|+||+
T Consensus 330 P~il~lSe~kl~~kvefL~~~Gls~edI~~mv~k~P~lL~~S~~~l~~k~dFlvneMg~~~~~Iv~fP~~LsySLEkRI~ 409 (487)
T PLN03196 330 PQIVSLNRNVALKHVEFLRGRGFSAQDVAKMVVRCPQILALNLEIMKPSLEFFKKEMKRPLKELVEFPAYFTYGLESRIK 409 (487)
T ss_pred chhhcccHHHHHHHHHHHHHcCCCHHHHHHHHHhCCceeeccHHHHHHHHHHHHHHhCCCHHHHHhChHHhccChhhhhH
Confidence 67788899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hHHHHHHHHhcCCCCchhhhcccHHHHHHHHhhCCCC
Q 012091 434 HRYEAKRKTLGDGLSINKLLSVSVERFSTKIKKNPIH 470 (471)
Q Consensus 434 pR~~~L~~L~~~g~~l~~~l~~sd~~F~~~~~k~~~~ 470 (471)
|||++|+. ++..+++.++|.+||++|+++|+..+++
T Consensus 410 PR~~~L~~-kGl~~sL~~~L~~sd~~F~~r~v~~y~e 445 (487)
T PLN03196 410 PRYERVAK-KGIKCSLAWFLNCSDDKFEQRMSGDFIE 445 (487)
T ss_pred HHHHHHHH-cCCCCCHHHHhccCHHHHHHHHhhhccc
Confidence 99998653 3444789999999999999999987754
No 2
>PF02536 mTERF: mTERF; InterPro: IPR003690 This family currently contains one sequence of known function human mitochondrial transcription termination factor (mTERF), a multizipper protein but binds to DNA as a monomer, with evidence pointing to intramolecular leucine zipper interactions []. The precursors contain a mitochondrial targeting sequence, and the mature mTERF exhibits three leucine zippers, of which one is bipartite, and two widely spaced basic domains. Both basic domains and the three leucine zipper motifs are necessary for DNA binding. The leucine zippers are not implicated in a dimerisation role as in other leucine zippers []. The rest of the family consists of hypothetical proteins none of which have any functional information.; PDB: 3M66_A 3OPG_A 3MVA_O 3MVB_O 3N7Q_A 3N6S_A.
Probab=100.00 E-value=7.2e-51 Score=412.72 Aligned_cols=330 Identities=29% Similarity=0.516 Sum_probs=208.4
Q ss_pred HHHHHcCCChHHHHHHHHhCCCCCCCCchh-hHHHHHHHHhcCCCchhhhhhhhccccccchh---hHHHHHHHHHhhcc
Q 012091 55 TLFQEIGLNEKEVDSLLEKNPTLRVTPLDK-MRSRILSLQSVGIKGMAFCRLISKDSNVLLAE---EIDRLICFVRDDLD 130 (471)
Q Consensus 55 ~fL~~lGls~~~i~~~v~~~P~ll~~~~~~-l~~~v~~L~~lGls~~~i~~ll~~~P~iL~~~---~l~~~l~~l~~~l~ 130 (471)
++|+++|+++++|.++++++|.++.+++++ +.|+++||+++|+|++||++++..+|.+|.++ ++.|.++||+
T Consensus 2 ~~~~~~gf~~~~i~~~i~~~P~~l~~~~~~~l~pk~~fl~s~G~s~~~i~~il~~~P~il~~s~~~~i~p~~~~L~---- 77 (345)
T PF02536_consen 2 DLLKNHGFSDSQISKLIRRYPRLLLCDPEKTLLPKLEFLRSLGFSSSDIAKILSKNPQILSRSLEKNIIPVFDFLK---- 77 (345)
T ss_dssp HHHHHHHHHTS-HHHHHH-H-HHHHT-SS-HHHHHHHHHHHTT--HHHHHHHHHH-GGGGGS--HHHHHHHHHHHT----
T ss_pred hHHHHcCCCHHHHHHHHHhCCceEEecCccchhHHHHHHHHCCCCHHHHHHHHHhChHHHhccchhhHHHHHHHHH----
Confidence 789999999999999999999999999987 99999999999999999999999999999875 5666665554
Q ss_pred CCCChhhHHHHhhhccccccccchhHHHHHHhcCCCHHHHHHHHhhcccccccccCCcccHHHHHHHHhhcCCch-----
Q 012091 131 GNIEPMKLERLLTSTETKFLVGFDQKVRLLLQLGVPQETILHVLNNINLSKAVCLKSVEDIERTFAYLNPFGGAD----- 205 (471)
Q Consensus 131 gs~~~~~l~~~l~~~~~~~~l~~~~~v~~L~~lGl~~~~i~~l~~~~~~p~~l~~~s~~~~~~~v~~L~~lG~~~----- 205 (471)
+.|++++++.+++.+ +|+.+.....+++.+.+++|+++|+++
T Consensus 78 -------------------------------~~~~s~~d~~~~l~r--~p~~l~~~~~~~l~~~v~~L~~lGv~~~~~~~ 124 (345)
T PF02536_consen 78 -------------------------------SIGLSDEDIVKVLKR--YPRILSFSVEENLSPNVAFLRSLGVPPSQIIS 124 (345)
T ss_dssp -------------------------------TTSS-HHHHHHHHHH---SHHHHS---HHHHHHHHHHHHTT--HHHHHH
T ss_pred -------------------------------HHcCCHHHHHHHHHh--cchhhccchHhhhhhhhhHHhhcCCcHHHHHH
Confidence 456666777776666 466554222223444444444444421
Q ss_pred hhhhcccccccCccccHHHHHHHHHhCCCCChHHHHHHHHhcCccccc-chhcHHHHHHHhHHhhCCCHHHHHHHHHhCC
Q 012091 206 LIVRCPKILNYDLDTQLIPKVRVLSELGGDDVDSTAAIVWKFPAILSY-SLEHIGKHVEFLRSFAGLSDQEIFRIFLVFP 284 (471)
Q Consensus 206 ~i~~~p~ll~~~~e~~l~~kv~~L~~~g~~~~~~l~~~v~k~P~iL~~-s~e~l~~~~~fL~~~lGl~~~~i~~ii~~~P 284 (471)
.+..+|..+... +++.+.++++.++|+ ++++++.++.++|.++.. +.++++++++||++ +|++.+++.+++.++|
T Consensus 125 ~l~~~~~~~~~~--~~~~~~v~~l~~lG~-~~~~~~~vi~~~P~~l~~~~~~~~~~~v~~L~~-~G~~~~~i~~~l~~~P 200 (345)
T PF02536_consen 125 LLISRPPLFLSS--EKIKERVEFLKELGF-DPEKIGRVIAKNPRLLLSDSESELKPKVEFLRS-LGFSKEDIGKLLRKCP 200 (345)
T ss_dssp HHHH-CHHHHS---HHHHCHHHHHCCCTS-SHHHHCCCHHHHHHHHCGSCCCCCHHHHHHHHH-CTT-GHHHHHHHHHTT
T ss_pred HHHhcCccccch--hHHHHHHHHHHHhCC-CchhhcccccccchhhccccHHHHHHHHHHHHh-hcccchhhhHHhhccc
Confidence 222223222222 356666666666654 455666666666644443 33356666666655 3666666666666666
Q ss_pred cccccCcccchhhhHHHHHhcCCChHhHHhHhhcCccccccChhhHHHHHHHHHHcCCCccchhHHHHHHHHhhcChhhH
Q 012091 285 AVISASRERKLRPRIDFLKQCGLGSEDIFKFLTKAPLFLALSFDNIAIKLGFLVKIGYECRTRELAAAMGSVTRTSCENL 364 (471)
Q Consensus 285 ~lL~~sle~~l~pr~~~L~~~Gl~~~~i~~ll~~~P~iL~~s~~~l~~~l~~L~~~G~~~~~~~~~~~~~~~~~~~~~~l 364 (471)
.++.+|.++.+.+...++...|.. ++ .++.++|.+++++ .+++
T Consensus 201 ~~l~~s~~~~l~~~~~l~~~~~~~-~~--~~i~~~p~il~~~----------------------------------~~~l 243 (345)
T PF02536_consen 201 RLLSLSVEKILEPVLYLLSSGGVE-EE--RVIKKFPQILSLS----------------------------------EEKL 243 (345)
T ss_dssp TGGGCGCHC------------------------------THH----------------------------------HHHH
T ss_pred ceeccccccccccccccccccccc-cc--ccccccccccccc----------------------------------hHhH
Confidence 666666655444433333333222 22 5555666666555 4556
Q ss_pred HHHHHHHHHcCCCHHHHHHHHHhCCcccccChhhHHHHHHHHHhhcCCChHHHhhcCceeecccccchhhHHHHHHHHhc
Q 012091 365 QKVIGLFLSYGLSFADIYIMSKKHPQILQYNHKSLEEKMEYLIVGMGREVGELLAFPAFLGYKLDDRIKHRYEAKRKTLG 444 (471)
Q Consensus 365 ~~ki~~L~~lG~s~~ev~~~v~~~P~iL~~s~~~l~~k~~fL~~~mg~~~~~i~~~P~~L~~Sle~rI~pR~~~L~~L~~ 444 (471)
++++++|.++|||++||++|+.++|+||++|.+++++|++||.++||++.++|+++|.+|+||+|+||+|||+++++|++
T Consensus 244 ~~~i~~L~~lG~s~~ei~~mv~~~P~iL~~s~e~l~~k~~fl~~~m~~~~~~i~~~P~~l~~sLe~ri~PR~~~~~~l~~ 323 (345)
T PF02536_consen 244 KPKIEFLQSLGFSEEEIAKMVRRFPQILSYSIEKLKPKFEFLVKEMGLPLEEIVEFPQYLSYSLEKRIKPRYEVLKVLKS 323 (345)
T ss_dssp HHHHHHHHTTT--HHHHHHHHHHSGGGGGS-HHHHHHHHHHHHHCCT--HHHHHHSCHHHCS-HHHHHHHHHHHHHTT--
T ss_pred HHHHHHHHHhcCcHHHHHHHHHhCcchhhcchhhhhHHHHHHHHHhCcCHHHHhhCCceeEechhhhhhhHHHHHHHHHH
Confidence 77888888899999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CC----CCchhhhcccHHHHHH
Q 012091 445 DG----LSINKLLSVSVERFST 462 (471)
Q Consensus 445 ~g----~~l~~~l~~sd~~F~~ 462 (471)
+| +++.+++.+||++|++
T Consensus 324 ~g~~~~~sl~~~l~~s~~~F~~ 345 (345)
T PF02536_consen 324 KGLIINPSLSSMLSCSDEEFLK 345 (345)
T ss_dssp TTTGGGGGS-HHHHHHHHHHT-
T ss_pred CcCCCCCCHHHHhhccHHHhcC
Confidence 88 7899999999999974
No 3
>PLN03196 MOC1-like protein; Provisional
Probab=100.00 E-value=2.1e-41 Score=353.82 Aligned_cols=332 Identities=20% Similarity=0.347 Sum_probs=222.0
Q ss_pred HHHHHHHHcCCChHHHHHHHHhCCCCCCCCchh-hHHHHHHHHhcCCCchhhhhhhhccccccchh---hHHHHHHHHHh
Q 012091 52 VSVTLFQEIGLNEKEVDSLLEKNPTLRVTPLDK-MRSRILSLQSVGIKGMAFCRLISKDSNVLLAE---EIDRLICFVRD 127 (471)
Q Consensus 52 ~~~~fL~~lGls~~~i~~~v~~~P~ll~~~~~~-l~~~v~~L~~lGls~~~i~~ll~~~P~iL~~~---~l~~~l~~l~~ 127 (471)
+.++||+++|++.+||+ ++|.+|.+++++ +.|+++||+++|++.++|++++.++|.+|.++ ++.|+++
T Consensus 94 ~~l~~L~s~G~~~~~i~----~~P~iL~~~v~~~l~Pvl~fL~~lG~s~~~i~~lI~~~P~lL~~sve~~L~P~v~---- 165 (487)
T PLN03196 94 ERVEFLHKLGLTIEDIN----EYPLVLGCSVKKNMIPVLDYLEKLGVTRSSLPELLRRYPQVLHASVVVDLAPVVK---- 165 (487)
T ss_pred HHHHHHHHcCCChHHhc----cCcHHhhcCHhhhhHHHHHHHHHcCCCHHHHHHHHHhCCceecccHHHHHHHHHH----
Confidence 46699999999999997 699999999976 99999999999999999999999999999874 4555554
Q ss_pred hccCCCChhhHHHHhhhccccccccchhHHHHHHhcCCCHHHHHHHHhhcccccccccCCcc-cHHHHHHHHhhcCCc--
Q 012091 128 DLDGNIEPMKLERLLTSTETKFLVGFDQKVRLLLQLGVPQETILHVLNNINLSKAVCLKSVE-DIERTFAYLNPFGGA-- 204 (471)
Q Consensus 128 ~l~gs~~~~~l~~~l~~~~~~~~l~~~~~v~~L~~lGl~~~~i~~l~~~~~~p~~l~~~s~~-~~~~~v~~L~~lG~~-- 204 (471)
||+++|++.++|.+++.+ +|++++ .+.+ .+.++++||+++|+.
T Consensus 166 -------------------------------fL~~lGvs~~~i~~~l~r--~P~LL~-~~~e~~l~p~v~fL~~lGvs~~ 211 (487)
T PLN03196 166 -------------------------------YLQGLDVKRQDIPRVLER--YPELLG-FKLEGTMSTSVAYLVSIGVAPR 211 (487)
T ss_pred -------------------------------HHHHcCCCHHHHHHHHHh--Cchhhc-CCHHHHHHHHHHHHHHcCCCHH
Confidence 455555566666666555 455554 3333 455666666666653
Q ss_pred ---hhhhhcccccccCccccHHHHHHHHHhCCCCChHHHHHHHHhcCcccccchh-cHHHHHHHhHHhhCCCHHHHHHHH
Q 012091 205 ---DLIVRCPKILNYDLDTQLIPKVRVLSELGGDDVDSTAAIVWKFPAILSYSLE-HIGKHVEFLRSFAGLSDQEIFRIF 280 (471)
Q Consensus 205 ---~~i~~~p~ll~~~~e~~l~~kv~~L~~~g~~~~~~l~~~v~k~P~iL~~s~e-~l~~~~~fL~~~lGl~~~~i~~ii 280 (471)
+++.++|.++.+++++++.|+++||+++|+ +.+++++++.++|.+|++|++ +++++++||.+ +|++++.++.++
T Consensus 212 ~i~~il~~~P~iL~~sve~~i~P~v~fL~~lGv-~~~~I~~il~~~P~iL~~sle~~lkp~v~~L~e-lGv~~~~i~~lI 289 (487)
T PLN03196 212 DIGPMLTRFPEILGMRVGNNIKPKVDYLESLGL-PRLAVARILEKRPYILGFDLEETVKPNVECLLE-FGVRKEALPSVI 289 (487)
T ss_pred HHHHHHHhCcHHhhcChhhhHHHHHHHHHHcCC-CHHHHHHHHHhCCceeEcCHHHhHHHHHHHHHH-cCCCHHHHHHHH
Confidence 255566666666665566666666666653 455566666666666666655 56666666654 366666666666
Q ss_pred HhCCcccccCcccchhhhHHHHH-hcCCChHhHHhHhhcCccccccChhhHHHHHHHHHHcCCCccc-hhHHHHHHHHhh
Q 012091 281 LVFPAVISASRERKLRPRIDFLK-QCGLGSEDIFKFLTKAPLFLALSFDNIAIKLGFLVKIGYECRT-RELAAAMGSVTR 358 (471)
Q Consensus 281 ~~~P~lL~~sle~~l~pr~~~L~-~~Gl~~~~i~~ll~~~P~iL~~s~~~l~~~l~~L~~~G~~~~~-~~~~~~~~~~~~ 358 (471)
.++|.++++++++++.++++||+ +.|++.+++.+++.++|.+++++.++++++++|++++|++.+. ..+....+.++.
T Consensus 290 ~~~P~iL~~s~e~kl~~~~~fL~~~lG~s~e~i~~~v~k~P~il~lSe~kl~~kvefL~~~Gls~edI~~mv~k~P~lL~ 369 (487)
T PLN03196 290 AQYPDILGLDLKAKLAEQQYWLTSKLKIDPEDFGRVIEKLPQIVSLNRNVALKHVEFLRGRGFSAQDVAKMVVRCPQILA 369 (487)
T ss_pred HhCCceeEecHHHhhhHHHHHHHHhhCCCHHHHHHHHHhcchhhcccHHHHHHHHHHHHHcCCCHHHHHHHHHhCCceee
Confidence 66666666666555666666653 4666666666666666666666665666666666666665543 112222333444
Q ss_pred cChhhHHHHHHHHH-HcCCCHHHHHHHHHhCCcccccChh-hHHHHHHHHHhhcCCChHHHhhcCceeecccccchhhHH
Q 012091 359 TSCENLQKVIGLFL-SYGLSFADIYIMSKKHPQILQYNHK-SLEEKMEYLIVGMGREVGELLAFPAFLGYKLDDRIKHRY 436 (471)
Q Consensus 359 ~~~~~l~~ki~~L~-~lG~s~~ev~~~v~~~P~iL~~s~~-~l~~k~~fL~~~mg~~~~~i~~~P~~L~~Sle~rI~pR~ 436 (471)
.+.+++++|++||. ++|++.++ +.++|++|+||.+ +|++++.+|.+ -|+.. .-..+|.+|= ++-..|+
T Consensus 370 ~S~~~l~~k~dFlvneMg~~~~~----Iv~fP~~LsySLEkRI~PR~~~L~~-kGl~~----sL~~~L~~sd-~~F~~r~ 439 (487)
T PLN03196 370 LNLEIMKPSLEFFKKEMKRPLKE----LVEFPAYFTYGLESRIKPRYERVAK-KGIKC----SLAWFLNCSD-DKFEQRM 439 (487)
T ss_pred ccHHHHHHHHHHHHHHhCCCHHH----HHhChHHhccChhhhhHHHHHHHHH-cCCCC----CHHHHhccCH-HHHHHHH
Confidence 45566677777776 68999887 8999999999986 99999999986 68742 1224566664 5666665
Q ss_pred H
Q 012091 437 E 437 (471)
Q Consensus 437 ~ 437 (471)
.
T Consensus 440 v 440 (487)
T PLN03196 440 S 440 (487)
T ss_pred h
Confidence 5
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=5.6e-35 Score=296.33 Aligned_cols=285 Identities=27% Similarity=0.493 Sum_probs=204.6
Q ss_pred chhHHHHHHHHHcCCChHHHHHHHHhCCCCCCCCchh-hHHHHHHHHhcCCCchhhhhhhhccccccchhhHHHHHHHHH
Q 012091 48 WFAFVSVTLFQEIGLNEKEVDSLLEKNPTLRVTPLDK-MRSRILSLQSVGIKGMAFCRLISKDSNVLLAEEIDRLICFVR 126 (471)
Q Consensus 48 ~~~~~~~~fL~~lGls~~~i~~~v~~~P~ll~~~~~~-l~~~v~~L~~lGls~~~i~~ll~~~P~iL~~~~l~~~l~~l~ 126 (471)
..-...++||.+.|++.+||++++.++|.+++.+.++ +.|.+++|+++|.+.+|+++++.++|.+|..+.
T Consensus 31 ~~l~pk~~fl~s~G~s~~~i~~il~~~P~il~~s~~~~i~p~~~~L~~~~~s~~d~~~~l~r~p~~l~~~~--------- 101 (345)
T PF02536_consen 31 KTLLPKLEFLRSLGFSSSDIAKILSKNPQILSRSLEKNIIPVFDFLKSIGLSDEDIVKVLKRYPRILSFSV--------- 101 (345)
T ss_dssp -HHHHHHHHHHHTT--HHHHHHHHHH-GGGGGS--HHHHHHHHHHHTTTSS-HHHHHHHHHH-SHHHHS-----------
T ss_pred cchhHHHHHHHHCCCCHHHHHHHHHhChHHHhccchhhHHHHHHHHHHHcCCHHHHHHHHHhcchhhccch---------
Confidence 3445678999999999999999999999999999765 999999999999999999999999999886531
Q ss_pred hhccCCCChhhHHHHhhhccccccccchhHHHHHHhcCCCHHHHHHHHhhcccccccccCCcccHHHHHHHHhhcCCc--
Q 012091 127 DDLDGNIEPMKLERLLTSTETKFLVGFDQKVRLLLQLGVPQETILHVLNNINLSKAVCLKSVEDIERTFAYLNPFGGA-- 204 (471)
Q Consensus 127 ~~l~gs~~~~~l~~~l~~~~~~~~l~~~~~v~~L~~lGl~~~~i~~l~~~~~~p~~l~~~s~~~~~~~v~~L~~lG~~-- 204 (471)
+ . ...+|+++|+++|++.+.+.+++.. .|..+. .. +++.+.++++.++|++
T Consensus 102 ---------~---~-----------~l~~~v~~L~~lGv~~~~~~~~l~~--~~~~~~-~~-~~~~~~v~~l~~lG~~~~ 154 (345)
T PF02536_consen 102 ---------E---E-----------NLSPNVAFLRSLGVPPSQIISLLIS--RPPLFL-SS-EKIKERVEFLKELGFDPE 154 (345)
T ss_dssp -------------H-----------HHHHHHHHHHHTT--HHHHHHHHHH---CHHHH-S--HHHHCHHHHHCCCTSSHH
T ss_pred ---------H---h-----------hhhhhhhHHhhcCCcHHHHHHHHHh--cCcccc-ch-hHHHHHHHHHHHhCCCch
Confidence 0 0 1126899999999999978777776 466554 33 8999999999999996
Q ss_pred ---hhhhhcccccccCccccHHHHHHHHHhCCCCChHHHHHHHHhcCcccccchhcHHHHHHHhHHhhCCCHHHHHHHHH
Q 012091 205 ---DLIVRCPKILNYDLDTQLIPKVRVLSELGGDDVDSTAAIVWKFPAILSYSLEHIGKHVEFLRSFAGLSDQEIFRIFL 281 (471)
Q Consensus 205 ---~~i~~~p~ll~~~~e~~l~~kv~~L~~~g~~~~~~l~~~v~k~P~iL~~s~e~l~~~~~fL~~~lGl~~~~i~~ii~ 281 (471)
.++.++|.++..+.+++++++++||+++|+ +++++.+++.++|.+++.|.+++.....++.+..|...+ .++.
T Consensus 155 ~~~~vi~~~P~~l~~~~~~~~~~~v~~L~~~G~-~~~~i~~~l~~~P~~l~~s~~~~l~~~~~l~~~~~~~~~---~~i~ 230 (345)
T PF02536_consen 155 KIGRVIAKNPRLLLSDSESELKPKVEFLRSLGF-SKEDIGKLLRKCPRLLSLSVEKILEPVLYLLSSGGVEEE---RVIK 230 (345)
T ss_dssp HHCCCHHHHHHHHCGSCCCCCHHHHHHHHHCTT--GHHHHHHHHHTTTGGGCGCHC------------------------
T ss_pred hhcccccccchhhccccHHHHHHHHHHHHhhcc-cchhhhHHhhcccceeccccccccccccccccccccccc---cccc
Confidence 379999988888888899999999999985 789999999999999999999755555555555455555 8889
Q ss_pred hCCcccccCcccchhhhHHHHHhcCCChHhHHhHhhcCccccccChhhHHHHHHHHHHcCCCccchhHHHHHHHHhhcCh
Q 012091 282 VFPAVISASRERKLRPRIDFLKQCGLGSEDIFKFLTKAPLFLALSFDNIAIKLGFLVKIGYECRTRELAAAMGSVTRTSC 361 (471)
Q Consensus 282 ~~P~lL~~sle~~l~pr~~~L~~~Gl~~~~i~~ll~~~P~iL~~s~~~l~~~l~~L~~~G~~~~~~~~~~~~~~~~~~~~ 361 (471)
++|.+++++.+ ++.+++++|+++|++++++.+|+.++|++|.++.++++++++|+.+
T Consensus 231 ~~p~il~~~~~-~l~~~i~~L~~lG~s~~ei~~mv~~~P~iL~~s~e~l~~k~~fl~~---------------------- 287 (345)
T PF02536_consen 231 KFPQILSLSEE-KLKPKIEFLQSLGFSEEEIAKMVRRFPQILSYSIEKLKPKFEFLVK---------------------- 287 (345)
T ss_dssp ------THHHH-HHHHHHHHHHTTT--HHHHHHHHHHSGGGGGS-HHHHHHHHHHHHH----------------------
T ss_pred ccccccccchH-hHHHHHHHHHHhcCcHHHHHHHHHhCcchhhcchhhhhHHHHHHHH----------------------
Confidence 99999999965 6999999999999999999999999999999998877766666653
Q ss_pred hhHHHHHHHHHHcCCCHHHHHHHHHhCCcccccChh-hHHHH---HHHHHhhcC
Q 012091 362 ENLQKVIGLFLSYGLSFADIYIMSKKHPQILQYNHK-SLEEK---MEYLIVGMG 411 (471)
Q Consensus 362 ~~l~~ki~~L~~lG~s~~ev~~~v~~~P~iL~~s~~-~l~~k---~~fL~~~mg 411 (471)
++|++.++ +.++|++|++|.+ .|+++ ++++.+ .|
T Consensus 288 -----------~m~~~~~~----i~~~P~~l~~sLe~ri~PR~~~~~~l~~-~g 325 (345)
T PF02536_consen 288 -----------EMGLPLEE----IVEFPQYLSYSLEKRIKPRYEVLKVLKS-KG 325 (345)
T ss_dssp -----------CCT--HHH----HHHSCHHHCS-HHHHHHHHHHHHHTT---TT
T ss_pred -----------HhCcCHHH----HhhCCceeEechhhhhhhHHHHHHHHHH-Cc
Confidence 57778777 6799999999986 79999 666655 45
No 5
>KOG1267 consensus Mitochondrial transcription termination factor, mTERF [Transcription; General function prediction only]
Probab=99.96 E-value=5.1e-28 Score=250.60 Aligned_cols=315 Identities=26% Similarity=0.435 Sum_probs=241.2
Q ss_pred hccchhHHHHHHHHHcCCChHHHHHHHHhCCCCCCCCchh-hHHHHHHHHhcCCCchhhhhhhhccccccchh---hHHH
Q 012091 45 RMNWFAFVSVTLFQEIGLNEKEVDSLLEKNPTLRVTPLDK-MRSRILSLQSVGIKGMAFCRLISKDSNVLLAE---EIDR 120 (471)
Q Consensus 45 ~~~~~~~~~~~fL~~lGls~~~i~~~v~~~P~ll~~~~~~-l~~~v~~L~~lGls~~~i~~ll~~~P~iL~~~---~l~~ 120 (471)
.....|.+++.+|+++|+++++|..++..+|.++.++.++ +.++..+|++.|++.+++.+++...|.+|..+ ++.+
T Consensus 86 ~~~~~p~s~~~~l~s~g~~~~~i~s~i~~~p~ll~~~~~~~l~~~~~~l~~~g~~~s~l~~i~s~~~~il~~~~~~~~~~ 165 (413)
T KOG1267|consen 86 EDSVNPSSVLSSLRSLGFTDSQISSIILSSPKLLYLSSENILKPKLRLLDSLGLPSSELSSIVSVVPKILLKSKGESLST 165 (413)
T ss_pred hhccCcHHHHHHHHhcCCchhhcccccccCchhhhccchhhhhhhhhhhhccCccccccchhhhccHHHHHhhcCCchhh
Confidence 3567799999999999999999999999999999999988 99999999999999999999999888888863 7888
Q ss_pred HHHHHHhhccCCCChhhHHHHhhhcccccc--ccchhHHHHHHhcCCCHHHHHHHHhhcccccccccCCcccHHHHHHHH
Q 012091 121 LICFVRDDLDGNIEPMKLERLLTSTETKFL--VGFDQKVRLLLQLGVPQETILHVLNNINLSKAVCLKSVEDIERTFAYL 198 (471)
Q Consensus 121 ~l~~l~~~l~gs~~~~~l~~~l~~~~~~~~--l~~~~~v~~L~~lGl~~~~i~~l~~~~~~p~~l~~~s~~~~~~~v~~L 198 (471)
.++|+.+... ......+.+.+...+..++ ... +++++++++|...+++..++.. +|+.+.... .+...+.++
T Consensus 166 ~~~~l~~~~~-~~~~s~~~~~~~~~~~~~~~~~~v-~~~~~~~~lg~~~~~L~~~l~~--~~~~~~~~~--~l~~~~~~i 239 (413)
T KOG1267|consen 166 FIEFLKSIPP-ELLSSVVERLLTPVPSFLLNENSV-ERLDIRRELGVKPRLLKSLLES--QPRPVLLYL--KLKARLPFL 239 (413)
T ss_pred HHHHhhccch-hhhhhHHHHhcccccccccccccc-ccchhhHHhCCCHHHHHHHHhc--Cccceeeeh--hhhhhhhhH
Confidence 9999987520 1222334444444332111 233 5999999999999999999987 576665333 677777777
Q ss_pred hhcCCc---hhhhhcccccccCccccHHHHHHHHHhCCCCChHHHHHHHHhcCcccccchhcHHHHHHHhHHhhCCCHHH
Q 012091 199 NPFGGA---DLIVRCPKILNYDLDTQLIPKVRVLSELGGDDVDSTAAIVWKFPAILSYSLEHIGKHVEFLRSFAGLSDQE 275 (471)
Q Consensus 199 ~~lG~~---~~i~~~p~ll~~~~e~~l~~kv~~L~~~g~~~~~~l~~~v~k~P~iL~~s~e~l~~~~~fL~~~lGl~~~~ 275 (471)
.++|++ +.+.+.|.++.++.++++++++++|++.|+ +.+|+..|+.|+|.++++|.+++..+.+|+.+. .++
T Consensus 240 ~~~g~~p~~~~~v~~~~~~~~~~~~~i~~kv~~l~~~Gf-~~~di~~~~~k~P~~l~~s~~~~~~~~~~~~~~----~~~ 314 (413)
T KOG1267|consen 240 LTLGFDPKTREFVKAPILLSYSSEKTLEPKVEVLKSLGF-SREEIWKMVKKCPQILGYSVKKNLKTTEYLLKN----PKH 314 (413)
T ss_pred HHhccCCchhHHHhhhhhhcccccccHHHHHHHHHHcCC-CHHHHHHHHHhCchheEeehhhhhHHHHHHHhc----chh
Confidence 777753 356666667777777777777777777764 567777777777777777777666666666554 111
Q ss_pred HHHHHHhCCcccccCcccchhhhHHHHHhcCCChHhHHhHhhcCccccccChhhHHHHHHHHHHcCCCccchhHHHHHHH
Q 012091 276 IFRIFLVFPAVISASRERKLRPRIDFLKQCGLGSEDIFKFLTKAPLFLALSFDNIAIKLGFLVKIGYECRTRELAAAMGS 355 (471)
Q Consensus 276 i~~ii~~~P~lL~~sle~~l~pr~~~L~~~Gl~~~~i~~ll~~~P~iL~~s~~~l~~~l~~L~~~G~~~~~~~~~~~~~~ 355 (471)
+.++|.++.++.
T Consensus 315 ----------------------------------------~~k~p~~l~~s~---------------------------- 326 (413)
T KOG1267|consen 315 ----------------------------------------ILKFPQLLRSSE---------------------------- 326 (413)
T ss_pred ----------------------------------------hhhhhhhhhccc----------------------------
Confidence 334455544432
Q ss_pred HhhcChhhHHHHHHHHHHcCCCHHHHHHHHHhCCcccccChh-hHHHHHHHHHhhcCCChHHHhhcCceeecccccchhh
Q 012091 356 VTRTSCENLQKVIGLFLSYGLSFADIYIMSKKHPQILQYNHK-SLEEKMEYLIVGMGREVGELLAFPAFLGYKLDDRIKH 434 (471)
Q Consensus 356 ~~~~~~~~l~~ki~~L~~lG~s~~ev~~~v~~~P~iL~~s~~-~l~~k~~fL~~~mg~~~~~i~~~P~~L~~Sle~rI~p 434 (471)
..+.++++++..+|++.+|+..|++++|+++.+|.+ .++.+.+|+.+.|+++.+.++.+|.+++|++|+|++|
T Consensus 327 ------~~l~~~ie~l~~~g~~~~q~~~~~~~~Pq~l~~s~~~~~~~~~~~~~~~~~~p~~~~~~~p~~~~y~le~ri~p 400 (413)
T KOG1267|consen 327 ------DKLKPRIEFLLSLGFSDVQILEMVKRFPQYLSFSLEKILKRKYEYLLKGLLRPLSALVSFPAFFGYSLEKRIRP 400 (413)
T ss_pred ------hhhhhhHHHHHHcCCcHHHHHHHHhhccHHhhhhHHhhhhhhHHHHHHHcCchHHHHhccchhhccchhhcchh
Confidence 234455666667788888888999999999999988 9999999999999999999999999999999999999
Q ss_pred HHHHHHHHhc
Q 012091 435 RYEAKRKTLG 444 (471)
Q Consensus 435 R~~~L~~L~~ 444 (471)
|+.+..++..
T Consensus 401 r~~~~~~~~~ 410 (413)
T KOG1267|consen 401 RFNVIKKLGV 410 (413)
T ss_pred HHHHHHHHhc
Confidence 9999877643
No 6
>KOG1267 consensus Mitochondrial transcription termination factor, mTERF [Transcription; General function prediction only]
Probab=99.80 E-value=4.9e-19 Score=183.61 Aligned_cols=236 Identities=26% Similarity=0.406 Sum_probs=196.2
Q ss_pred hcCCCHHHHHHHHhhcccccccccCCcccHHHHHHHHhhcCCc-----hhhhhcccccccCccccHHHHHHHHHhCCCCC
Q 012091 162 QLGVPQETILHVLNNINLSKAVCLKSVEDIERTFAYLNPFGGA-----DLIVRCPKILNYDLDTQLIPKVRVLSELGGDD 236 (471)
Q Consensus 162 ~lGl~~~~i~~l~~~~~~p~~l~~~s~~~~~~~v~~L~~lG~~-----~~i~~~p~ll~~~~e~~l~~kv~~L~~~g~~~ 236 (471)
.+|++...+...... +......+...+..+|+++|++ .++..+|.++.++.++.+.++..+|...|. +
T Consensus 68 s~~~~~~~~~~~~~~------~~~~~~~~p~s~~~~l~s~g~~~~~i~s~i~~~p~ll~~~~~~~l~~~~~~l~~~g~-~ 140 (413)
T KOG1267|consen 68 SLGLSIKLARKLSRE------VSSEDSVNPSSVLSSLRSLGFTDSQISSIILSSPKLLYLSSENILKPKLRLLDSLGL-P 140 (413)
T ss_pred ccccchhhHHHHHHH------HHhhhccCcHHHHHHHHhcCCchhhcccccccCchhhhccchhhhhhhhhhhhccCc-c
Confidence 567666666665432 3346667888999999999995 378888999999999999999999999996 5
Q ss_pred hHHHHHHHHhcCcccccchh-cHHHHHHHhHHhh-CCCHHHHHHHHHhCCcccccCcccchhhhHHHHHhcCCChHhHHh
Q 012091 237 VDSTAAIVWKFPAILSYSLE-HIGKHVEFLRSFA-GLSDQEIFRIFLVFPAVISASRERKLRPRIDFLKQCGLGSEDIFK 314 (471)
Q Consensus 237 ~~~l~~~v~k~P~iL~~s~e-~l~~~~~fL~~~l-Gl~~~~i~~ii~~~P~lL~~sle~~l~pr~~~L~~~Gl~~~~i~~ 314 (471)
..++..+++..|.+|+.+.. ++.+.++|+.+.. +.....+.++....|... ..+..+. ++++++++|....++..
T Consensus 141 ~s~l~~i~s~~~~il~~~~~~~~~~~~~~l~~~~~~~~~s~~~~~~~~~~~~~--~~~~~v~-~~~~~~~lg~~~~~L~~ 217 (413)
T KOG1267|consen 141 SSELSSIVSVVPKILLKSKGESLSTFIEFLKSIPPELLSSVVERLLTPVPSFL--LNENSVE-RLDIRRELGVKPRLLKS 217 (413)
T ss_pred ccccchhhhccHHHHHhhcCCchhhHHHHhhccchhhhhhHHHHhcccccccc--ccccccc-cchhhHHhCCCHHHHHH
Confidence 67899999999999987765 8999999999964 466666766665555322 2233455 89999999999999999
Q ss_pred HhhcCccccccChhhHHHHHHHHHHcCCCccchhHHHHHHHHhhcChhhHHHHHHHHHHcCCCHHHHHHHHHhCCccccc
Q 012091 315 FLTKAPLFLALSFDNIAIKLGFLVKIGYECRTRELAAAMGSVTRTSCENLQKVIGLFLSYGLSFADIYIMSKKHPQILQY 394 (471)
Q Consensus 315 ll~~~P~iL~~s~~~l~~~l~~L~~~G~~~~~~~~~~~~~~~~~~~~~~l~~ki~~L~~lG~s~~ev~~~v~~~P~iL~~ 394 (471)
++..+|+.+.... .+...+.++.++|+++.+.++++++..+...+++++++++++|.++||+++||.+|+.++|++|++
T Consensus 218 ~l~~~~~~~~~~~-~l~~~~~~i~~~g~~p~~~~~v~~~~~~~~~~~~~i~~kv~~l~~~Gf~~~di~~~~~k~P~~l~~ 296 (413)
T KOG1267|consen 218 LLESQPRPVLLYL-KLKARLPFLLTLGFDPKTREFVKAPILLSYSSEKTLEPKVEVLKSLGFSREEIWKMVKKCPQILGY 296 (413)
T ss_pred HHhcCccceeeeh-hhhhhhhhHHHhccCCchhHHHhhhhhhcccccccHHHHHHHHHHcCCCHHHHHHHHHhCchheEe
Confidence 9999999998775 788899999999999999999999999999999999999999999999999999999999999999
Q ss_pred ChhhHHHHHHHHHh
Q 012091 395 NHKSLEEKMEYLIV 408 (471)
Q Consensus 395 s~~~l~~k~~fL~~ 408 (471)
|.+++..+++|+.+
T Consensus 297 s~~~~~~~~~~~~~ 310 (413)
T KOG1267|consen 297 SVKKNLKTTEYLLK 310 (413)
T ss_pred ehhhhhHHHHHHHh
Confidence 99864444444444
No 7
>smart00733 Mterf Mitochondrial termination factor repeats. Human mitochondrial termination factor is a DNA-binding protein that acts as a transcription termination factor. Six repeats occur in human mTERF, that also are present in numerous plant proteins.
Probab=97.13 E-value=0.00035 Score=43.84 Aligned_cols=30 Identities=43% Similarity=0.667 Sum_probs=27.0
Q ss_pred HHHHhCCcccccChhhHHHHHHHHHhhcCCC
Q 012091 383 IMSKKHPQILQYNHKSLEEKMEYLIVGMGRE 413 (471)
Q Consensus 383 ~~v~~~P~iL~~s~~~l~~k~~fL~~~mg~~ 413 (471)
+++.++|.+++++.++++++++||. ++|++
T Consensus 2 ~~~~~~P~il~~~~~~l~~~~~~l~-~~g~~ 31 (31)
T smart00733 2 KILKKFPQILGYSEKKLKPKVEFLK-ELGFS 31 (31)
T ss_pred chhhhCcCcccccHHHhhHHHHHHH-HcCCC
Confidence 4789999999999999999999999 68874
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=96.66 E-value=0.0014 Score=40.93 Aligned_cols=27 Identities=41% Similarity=0.915 Sum_probs=13.7
Q ss_pred HHhCCcccccCcccchhhhHHHHHhcCC
Q 012091 280 FLVFPAVISASRERKLRPRIDFLKQCGL 307 (471)
Q Consensus 280 i~~~P~lL~~sle~~l~pr~~~L~~~Gl 307 (471)
+.++|.+++++ +++++++++||+++|+
T Consensus 4 ~~~~P~il~~~-~~~l~~~~~~l~~~g~ 30 (31)
T smart00733 4 LKKFPQILGYS-EKKLKPKVEFLKELGF 30 (31)
T ss_pred hhhCcCccccc-HHHhhHHHHHHHHcCC
Confidence 44455555555 3445555555555544
No 9
>PF11955 PORR: Plant organelle RNA recognition domain; InterPro: IPR021099 The plant organelle RNA recognition (PORR) domain, previously known as DUF860, is a component of group II intron ribonucleoprotein particles in maize chloroplasts. It is required for the splicing of the introns with which it associates, and promotes splicing in the context of a heterodimer with the RNase III-domain protein RNC1. Proteins containing this domain are predicted to localise to mitochondria or chloroplasts []. It seems likely that most PORR proteins function in organellar RNA metabolism [].
Probab=94.53 E-value=0.16 Score=51.24 Aligned_cols=186 Identities=15% Similarity=0.176 Sum_probs=107.6
Q ss_pred HHHHHhcCcccccchhc-H-HHHHHHhHHhhCCCHHHHHHHHHhCCcccccCc-ccc--hhhhHHHHHhcCCChHhHHhH
Q 012091 241 AAIVWKFPAILSYSLEH-I-GKHVEFLRSFAGLSDQEIFRIFLVFPAVISASR-ERK--LRPRIDFLKQCGLGSEDIFKF 315 (471)
Q Consensus 241 ~~~v~k~P~iL~~s~e~-l-~~~~~fL~~~lGl~~~~i~~ii~~~P~lL~~sl-e~~--l~pr~~~L~~~Gl~~~~i~~l 315 (471)
..++.+--.+|.+|.++ | -.++..++..+|++.+....++.++|..|...- ++. .-.-+.|=.++.++.-+-...
T Consensus 100 ~~~v~rL~KLLMMS~~~rlpL~ki~~l~~dLGLP~Df~~~lv~~yP~~Frvv~~~~~~~~LeLv~Wd~~LAvs~~E~~~~ 179 (335)
T PF11955_consen 100 PDLVERLRKLLMMSKDRRLPLSKIAHLRRDLGLPDDFRDSLVPKYPDYFRVVDLEDGGRYLELVSWDPELAVSALEKRAE 179 (335)
T ss_pred HHHHHHHHHHhccCCCCcccHHHHHHHHHHcCCChhhccchhhhCCCCcEEeecCCCCCEEEEeecCCccCcCccchhhh
Confidence 45566666788888873 3 677899999999999999999999999987532 111 000011111222322221111
Q ss_pred -------------hhcCccccccCh-----hhHHHHHHHHHHcC----------CCccchhHH-HHHHH---HhhcChhh
Q 012091 316 -------------LTKAPLFLALSF-----DNIAIKLGFLVKIG----------YECRTRELA-AAMGS---VTRTSCEN 363 (471)
Q Consensus 316 -------------l~~~P~iL~~s~-----~~l~~~l~~L~~~G----------~~~~~~~~~-~~~~~---~~~~~~~~ 363 (471)
--.+| +.++. .+....++-++++- +++++.... ++.+. ++.++.++
T Consensus 180 ~~~~~~~~~~~~~~~~Fp--~~fp~G~~l~k~~~~~l~~fQ~lPy~SPYed~~~l~~~s~~~EKRaVaVlHElLSLTveK 257 (335)
T PF11955_consen 180 KEYREKREDGFDRPLAFP--VSFPKGFRLKKKFREWLEEFQKLPYISPYEDASHLDPGSDEAEKRAVAVLHELLSLTVEK 257 (335)
T ss_pred hccccccccccCCceeee--ecCCCCccccHHHHHHHHHHhcCCCCCCCCCccCCCCCChHHHhHHHHHHHHHHHhhhhh
Confidence 11222 22222 24566666666653 333443332 23332 34454433
Q ss_pred --HHHHHHHHH-HcCCCHHHHHHHHHhCCcccccChhhHHHHHHHHHhhcCCChHH-HhhcCceeecccccchhhHHHHH
Q 012091 364 --LQKVIGLFL-SYGLSFADIYIMSKKHPQILQYNHKSLEEKMEYLIVGMGREVGE-LLAFPAFLGYKLDDRIKHRYEAK 439 (471)
Q Consensus 364 --l~~ki~~L~-~lG~s~~ev~~~v~~~P~iL~~s~~~l~~k~~fL~~~mg~~~~~-i~~~P~~L~~Sle~rI~pR~~~L 439 (471)
..+++..|+ ++|++ +.+..++.+||.|+.+|... +.-.-||.+ ++..++ |-++|. -.++.|+.-|
T Consensus 258 r~~~~~L~~fr~ef~lp-~k~~~~l~rHPgIFYvS~kg-~~~TVfLrE--AY~~~~Liek~Pl-------~~~r~k~~~L 326 (335)
T PF11955_consen 258 RTEVDHLTHFRKEFGLP-QKFRRLLLRHPGIFYVSLKG-KRHTVFLRE--AYDGGELIEKHPL-------VVIREKFLEL 326 (335)
T ss_pred hccHHHHHHHHHHhCCc-HHHHHHHHhCCCeEEEeccC-CceEEEEee--ccCCCCCCCCCch-------HHHHHHHHHH
Confidence 445677776 79999 56799999999999999752 223336766 555555 456664 3566665543
No 10
>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=85.12 E-value=1.4 Score=38.55 Aligned_cols=48 Identities=23% Similarity=0.146 Sum_probs=33.0
Q ss_pred hhHHHHHHHHHHcCCCccchhHHHHHHHHhhcChhhHHHHHHHHHHcCCCHHHHHHHHHhCCccc
Q 012091 328 DNIAIKLGFLVKIGYECRTRELAAAMGSVTRTSCENLQKVIGLFLSYGLSFADIYIMSKKHPQIL 392 (471)
Q Consensus 328 ~~l~~~l~~L~~~G~~~~~~~~~~~~~~~~~~~~~~l~~ki~~L~~lG~s~~ev~~~v~~~P~iL 392 (471)
+.++..+.||++-.+ ....+.+|++||++=|++++||.+.+.+.+.-=
T Consensus 4 ~li~~A~~FL~~p~V-----------------~~sp~~~k~~FL~sKGLt~~EI~~al~~a~~~~ 51 (136)
T PF04695_consen 4 DLIEQAVKFLQDPKV-----------------RNSPLEKKIAFLESKGLTEEEIDEALGRAGSPP 51 (136)
T ss_dssp HHHHHHHHHHCTTTC-----------------CCS-HHHHHHHHHHCT--HHHHHHHHHHHT--S
T ss_pred HHHHHHHHHhCCccc-----------------ccCCHHHHHHHHHcCCCCHHHHHHHHHhcCCcc
Confidence 346666777765322 234588999999999999999999999988755
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=84.66 E-value=6.6 Score=35.68 Aligned_cols=17 Identities=18% Similarity=0.229 Sum_probs=13.9
Q ss_pred HHHHHHcCCCHHHHHHH
Q 012091 368 IGLFLSYGLSFADIYIM 384 (471)
Q Consensus 368 i~~L~~lG~s~~ev~~~ 384 (471)
.+||.++|++++|+..+
T Consensus 151 ~~~l~~~g~~~~~~~~i 167 (172)
T cd04790 151 QEFLQSLGIPEDEIERI 167 (172)
T ss_pred HHHHHHcCCCHHHHHHH
Confidence 47888999999997665
No 12
>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=75.54 E-value=3.3 Score=36.10 Aligned_cols=41 Identities=17% Similarity=0.354 Sum_probs=30.0
Q ss_pred HHHHHhCCCCCCCCchhhHHHHHHHHhcCCCchhhhhhhhcccc
Q 012091 68 DSLLEKNPTLRVTPLDKMRSRILSLQSVGIKGMAFCRLISKDSN 111 (471)
Q Consensus 68 ~~~v~~~P~ll~~~~~~l~~~v~~L~~lGls~~~i~~ll~~~P~ 111 (471)
|.-+..||.+-.++ +..|++||++-|++..||..++...+.
T Consensus 9 A~~FL~~p~V~~sp---~~~k~~FL~sKGLt~~EI~~al~~a~~ 49 (136)
T PF04695_consen 9 AVKFLQDPKVRNSP---LEKKIAFLESKGLTEEEIDEALGRAGS 49 (136)
T ss_dssp HHHHHCTTTCCCS----HHHHHHHHHHCT--HHHHHHHHHHHT-
T ss_pred HHHHhCCcccccCC---HHHHHHHHHcCCCCHHHHHHHHHhcCC
Confidence 33456689988777 567999999999999999999987654
No 13
>COG1125 OpuBA ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]
Probab=70.82 E-value=21 Score=34.72 Aligned_cols=89 Identities=21% Similarity=0.313 Sum_probs=64.9
Q ss_pred cHHHHHHHHH-hCCCCChHHHHHHHHhcCcccccchhcHHHHHHHhHHhhCCCHHHHHHHHHhCCcccccCcccchhhhH
Q 012091 221 QLIPKVRVLS-ELGGDDVDSTAAIVWKFPAILSYSLEHIGKHVEFLRSFAGLSDQEIFRIFLVFPAVISASRERKLRPRI 299 (471)
Q Consensus 221 ~l~~kv~~L~-~~g~~~~~~l~~~v~k~P~iL~~s~e~l~~~~~fL~~~lGl~~~~i~~ii~~~P~lL~~sle~~l~pr~ 299 (471)
.++.++.|-- ..|+++.-.+..=+.-.|.+++++.++++.+++=|.+.+|+++++.+. ++|.=|+-.-. .|+
T Consensus 72 ~LRr~IGYviQqigLFPh~Tv~eNIa~VP~L~~w~k~~i~~r~~ELl~lvgL~p~~~~~---RyP~eLSGGQQ----QRV 144 (309)
T COG1125 72 ELRRKIGYVIQQIGLFPHLTVAENIATVPKLLGWDKERIKKRADELLDLVGLDPSEYAD---RYPHELSGGQQ----QRV 144 (309)
T ss_pred HHHHhhhhhhhhcccCCCccHHHHHHhhhhhcCCCHHHHHHHHHHHHHHhCCCHHHHhh---cCchhcCcchh----hHH
Confidence 4666666543 577776666777788889999999999999999999999999875443 58987764432 233
Q ss_pred HHHHhcCCChHhHHhHhhcCccccccCh
Q 012091 300 DFLKQCGLGSEDIFKFLTKAPLFLALSF 327 (471)
Q Consensus 300 ~~L~~~Gl~~~~i~~ll~~~P~iL~~s~ 327 (471)
. +.+.+...|.++-++.
T Consensus 145 G-----------v~RALAadP~ilLMDE 161 (309)
T COG1125 145 G-----------VARALAADPPILLMDE 161 (309)
T ss_pred H-----------HHHHHhcCCCeEeecC
Confidence 2 3456677899998875
No 14
>PF11955 PORR: Plant organelle RNA recognition domain; InterPro: IPR021099 The plant organelle RNA recognition (PORR) domain, previously known as DUF860, is a component of group II intron ribonucleoprotein particles in maize chloroplasts. It is required for the splicing of the introns with which it associates, and promotes splicing in the context of a heterodimer with the RNase III-domain protein RNC1. Proteins containing this domain are predicted to localise to mitochondria or chloroplasts []. It seems likely that most PORR proteins function in organellar RNA metabolism [].
Probab=69.45 E-value=7.3 Score=39.38 Aligned_cols=31 Identities=16% Similarity=0.073 Sum_probs=25.6
Q ss_pred HHHHHHH-HcCCCHHHHHHHHHhCCcccccCh
Q 012091 366 KVIGLFL-SYGLSFADIYIMSKKHPQILQYNH 396 (471)
Q Consensus 366 ~ki~~L~-~lG~s~~ev~~~v~~~P~iL~~s~ 396 (471)
.++..++ .+|++.+-...++.+||+.+.+..
T Consensus 121 ~ki~~l~~dLGLP~Df~~~lv~~yP~~Frvv~ 152 (335)
T PF11955_consen 121 SKIAHLRRDLGLPDDFRDSLVPKYPDYFRVVD 152 (335)
T ss_pred HHHHHHHHHcCCChhhccchhhhCCCCcEEee
Confidence 5667776 899999999999999999888744
No 15
>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=69.26 E-value=63 Score=29.28 Aligned_cols=22 Identities=23% Similarity=0.318 Sum_probs=18.2
Q ss_pred hHHHHHHhcCCCHHHHHHHHhh
Q 012091 155 QKVRLLLQLGVPQETILHVLNN 176 (471)
Q Consensus 155 ~~v~~L~~lGl~~~~i~~l~~~ 176 (471)
..|..|++.|++.++|..++..
T Consensus 49 ~~I~~lr~~G~sL~eI~~ll~~ 70 (172)
T cd04790 49 EQICAYRSAGVSLEDIRSLLQQ 70 (172)
T ss_pred HHHHHHHHcCCCHHHHHHHHhc
Confidence 3667889999999999998753
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=63.13 E-value=22 Score=23.22 Aligned_cols=24 Identities=8% Similarity=0.076 Sum_probs=16.9
Q ss_pred HHHHHHHHcCCCHHHHHHHHHhCC
Q 012091 366 KVIGLFLSYGLSFADIYIMSKKHP 389 (471)
Q Consensus 366 ~ki~~L~~lG~s~~ev~~~v~~~P 389 (471)
++++-|.++||+++++.+.+..+=
T Consensus 4 ~~v~~L~~mGf~~~~~~~AL~~~~ 27 (37)
T PF00627_consen 4 EKVQQLMEMGFSREQAREALRACN 27 (37)
T ss_dssp HHHHHHHHHTS-HHHHHHHHHHTT
T ss_pred HHHHHHHHcCCCHHHHHHHHHHcC
Confidence 456667778888888888877654
No 17
>smart00165 UBA Ubiquitin associated domain. Present in Rad23, SNF1-like kinases. The newly-found UBA in p62 is known to bind ubiquitin.
Probab=58.27 E-value=17 Score=23.58 Aligned_cols=24 Identities=17% Similarity=0.185 Sum_probs=18.7
Q ss_pred HHHHHHHHcCCCHHHHHHHHHhCC
Q 012091 366 KVIGLFLSYGLSFADIYIMSKKHP 389 (471)
Q Consensus 366 ~ki~~L~~lG~s~~ev~~~v~~~P 389 (471)
++++-|.++||+++++...+.++=
T Consensus 3 ~~v~~L~~mGf~~~~a~~aL~~~~ 26 (37)
T smart00165 3 EKIDQLLEMGFSREEALKALRAAN 26 (37)
T ss_pred HHHHHHHHcCCCHHHHHHHHHHhC
Confidence 456677888999999888887763
No 18
>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=55.38 E-value=63 Score=33.32 Aligned_cols=124 Identities=15% Similarity=0.256 Sum_probs=0.0
Q ss_pred cHHHHHHHHHhCCCCChHHHHHHHHhcCcccccchhcHHHHHHHhHHhhCCC----------------------------
Q 012091 221 QLIPKVRVLSELGGDDVDSTAAIVWKFPAILSYSLEHIGKHVEFLRSFAGLS---------------------------- 272 (471)
Q Consensus 221 ~l~~kv~~L~~~g~~~~~~l~~~v~k~P~iL~~s~e~l~~~~~fL~~~lGl~---------------------------- 272 (471)
.....|+-+.+.| |.++++..+ |.-+-.+-.+.++||.+ |++
T Consensus 155 ~~e~~I~~i~eMG-f~R~qV~~A-------LRAafNNPdRAVEYL~t--GIP~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 224 (378)
T TIGR00601 155 ERETTIEEIMEMG-YEREEVERA-------LRAAFNNPDRAVEYLLT--GIPEDPEQPEPVQQTAASTAAATTETPQHGS 224 (378)
T ss_pred HHHHHHHHHHHhC-CCHHHHHHH-------HHHHhCCHHHHHHHHHh--CCCccccccccCCCcccccccccCCCCCCcc
Q ss_pred --------------------------------HHHHHHHHHhCCcccccCcccchhhhHHHHHhcCCChHhHHhHhhcCc
Q 012091 273 --------------------------------DQEIFRIFLVFPAVISASRERKLRPRIDFLKQCGLGSEDIFKFLTKAP 320 (471)
Q Consensus 273 --------------------------------~~~i~~ii~~~P~lL~~sle~~l~pr~~~L~~~Gl~~~~i~~ll~~~P 320 (471)
-.+++.+|..+|.+|. .+|+.+|-..-++.++|..+|
T Consensus 225 lf~~a~~~~~~~~~~~~~~g~~~l~~Lr~~pqf~~lR~~vq~NP~~L~-----------~lLqql~~~nP~l~q~I~~n~ 293 (378)
T TIGR00601 225 VFEQAAQGGTEQPATEAAQGGNPLEFLRNQPQFQQLRQVVQQNPQLLP-----------PLLQQIGQENPQLLQQISQHP 293 (378)
T ss_pred hhhhhhcccccccccccccCCchHHHhhcCHHHHHHHHHHHHCHHHHH-----------HHHHHHHhhCHHHHHHHHHCH
Q ss_pred cccccChhhHHHHHHHHHHcCCCccchhHHHHHHH-----------------------HhhcChhhHHHHHHHHHHcCCC
Q 012091 321 LFLALSFDNIAIKLGFLVKIGYECRTRELAAAMGS-----------------------VTRTSCENLQKVIGLFLSYGLS 377 (471)
Q Consensus 321 ~iL~~s~~~l~~~l~~L~~~G~~~~~~~~~~~~~~-----------------------~~~~~~~~l~~ki~~L~~lG~s 377 (471)
.-|- .++...... ...++++. ++-|+-|+++||+
T Consensus 294 e~Fl----------------------~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~lT~eE-~~AIeRL~~LGF~ 350 (378)
T TIGR00601 294 EQFL----------------------QMLNEPVGELAGESDMEGGVGAIAEAGLPQMNQIQVTPEE-KEAIERLCALGFD 350 (378)
T ss_pred HHHH----------------------HHhcCcccccccccccccccccccccCcccccccccCHHH-HHHHHHHHHcCCC
Q ss_pred HHHHHHHHHhC
Q 012091 378 FADIYIMSKKH 388 (471)
Q Consensus 378 ~~ev~~~v~~~ 388 (471)
++.+.+...-|
T Consensus 351 r~~viqaY~AC 361 (378)
T TIGR00601 351 RGLVIQAYFAC 361 (378)
T ss_pred HHHHHHHHHhc
No 19
>PF11181 YflT: Heat induced stress protein YflT
Probab=55.02 E-value=35 Score=27.99 Aligned_cols=77 Identities=17% Similarity=0.156 Sum_probs=42.0
Q ss_pred cchhhhHHHHHhcCCChHhHHhHhhcCccccccChhhHHHHHHHHHH-cCCC---ccchhHHHHHHHHhhcChhhHHHHH
Q 012091 293 RKLRPRIDFLKQCGLGSEDIFKFLTKAPLFLALSFDNIAIKLGFLVK-IGYE---CRTRELAAAMGSVTRTSCENLQKVI 368 (471)
Q Consensus 293 ~~l~pr~~~L~~~Gl~~~~i~~ll~~~P~iL~~s~~~l~~~l~~L~~-~G~~---~~~~~~~~~~~~~~~~~~~~l~~ki 368 (471)
..+...++-|+..|+..++| .+++ .+.+.+ +.+.+ .+.. .....|...+..+.....+.++.+
T Consensus 10 ~E~~~~I~~L~~~Gy~~ddI-~Vva-------~d~~~~----~~l~~~t~~~~~~~~~~~~~d~~~~~f~~~~d~~~~~- 76 (103)
T PF11181_consen 10 EEALSAIEELKAQGYSEDDI-YVVA-------KDKDRT----ERLADQTDTNTVGASEESFWDKIKNFFTSGGDELRSK- 76 (103)
T ss_pred HHHHHHHHHHHHcCCCcccE-EEEE-------cCchHH----HHHHHhcCCceeccccccHHHHHHHhccCCcHHHHHH-
Confidence 34666788888889888877 3333 332222 12221 1111 112345555555555455556655
Q ss_pred HHHHHcCCCHHHHHHH
Q 012091 369 GLFLSYGLSFADIYIM 384 (471)
Q Consensus 369 ~~L~~lG~s~~ev~~~ 384 (471)
|.++|++++++..-
T Consensus 77 --l~~lGl~~~ea~~y 90 (103)
T PF11181_consen 77 --LESLGLSEDEAERY 90 (103)
T ss_pred --HHHcCCCHHHHHHH
Confidence 46889998886543
No 20
>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=54.54 E-value=20 Score=23.26 Aligned_cols=24 Identities=13% Similarity=0.138 Sum_probs=18.3
Q ss_pred HHHHHHHHcCCCHHHHHHHHHhCC
Q 012091 366 KVIGLFLSYGLSFADIYIMSKKHP 389 (471)
Q Consensus 366 ~ki~~L~~lG~s~~ev~~~v~~~P 389 (471)
++++-|.++||+++++...+..+=
T Consensus 3 ~~v~~L~~mGf~~~~~~~AL~~~~ 26 (38)
T cd00194 3 EKLEQLLEMGFSREEARKALRATN 26 (38)
T ss_pred HHHHHHHHcCCCHHHHHHHHHHhC
Confidence 456677788999888888877654
No 21
>PRK11613 folP dihydropteroate synthase; Provisional
Probab=49.34 E-value=31 Score=34.01 Aligned_cols=63 Identities=17% Similarity=0.276 Sum_probs=41.2
Q ss_pred hHHHHHHHHHhhcCCChHHHhhcCceeecccccchhhHHHHHHHH---hcCCCCchhhhcccHHHHHHHHhh
Q 012091 398 SLEEKMEYLIVGMGREVGELLAFPAFLGYKLDDRIKHRYEAKRKT---LGDGLSINKLLSVSVERFSTKIKK 466 (471)
Q Consensus 398 ~l~~k~~fL~~~mg~~~~~i~~~P~~L~~Sle~rI~pR~~~L~~L---~~~g~~l~~~l~~sd~~F~~~~~k 466 (471)
-++.+++.+.+ .|++.+.|+--|- +++. +....-++.++.+ +.-|+++ ++..|.|.|...+.+
T Consensus 164 ~l~~~i~~a~~-~GI~~~~IilDPG-iGF~--k~~~~n~~ll~~l~~l~~lg~Pi--lvg~SRKsfig~~~~ 229 (282)
T PRK11613 164 YFIEQIARCEA-AGIAKEKLLLDPG-FGFG--KNLSHNYQLLARLAEFHHFNLPL--LVGMSRKSMIGQLLN 229 (282)
T ss_pred HHHHHHHHHHH-cCCChhhEEEeCC-CCcC--CCHHHHHHHHHHHHHHHhCCCCE--EEEecccHHHHhhcC
Confidence 45677777776 8999999887785 4553 3344444454443 3345544 788899998876644
No 22
>cd07922 CarBa CarBa is the A subunit of 2-aminophenol 1,6-dioxygenase, which catalyzes the oxidization and subsequent ring-opening of 2-aminophenyl-2,3-diol. CarBa is the A subunit of 2-aminophenol 1,6-dioxygenase, which catalyzes the oxidization and subsequent ring-opening of 2-aminophenyl-2,3-diol. 2-aminophenol 1,6-dioxygenase is a key enzyme in the carbazole degradation pathway isolated from bacterial strains with carbazole degradation ability. The enzyme is a heterotetramer composed of two A and two B subunits. CarB belongs to the class III extradiol dioxygenase family, composed of enzymes which use a non-heme Fe(II) to cleave aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated carbon. Although the enzyme was originally isolated as a meta-cleavage enzyme for 2'-aminobiphenyl-2,3-diol involved in carbazole degradation, the enzyme has also shown high specificity for 2,3-dihydroxybiphenyl.
Probab=43.92 E-value=22 Score=28.07 Aligned_cols=19 Identities=37% Similarity=0.543 Sum_probs=13.6
Q ss_pred HHHHHcCCChHHHHHHHHh
Q 012091 55 TLFQEIGLNEKEVDSLLEK 73 (471)
Q Consensus 55 ~fL~~lGls~~~i~~~v~~ 73 (471)
++++.+|+|+++.+++...
T Consensus 29 a~~~~~gLt~eE~~aL~~~ 47 (81)
T cd07922 29 AVFEEYGLTPAERAALREG 47 (81)
T ss_pred HHHHHcCCCHHHHHHHHcc
Confidence 3378888888888776543
No 23
>PF14490 HHH_4: Helix-hairpin-helix containing domain; PDB: 3GPL_A 3E1S_A 3GP8_A.
Probab=43.15 E-value=62 Score=26.01 Aligned_cols=54 Identities=22% Similarity=0.225 Sum_probs=27.5
Q ss_pred HHHHHHHcCCChHHHHHHH-----------HhCCCCCCCCchh-hHHHHHHH-HhcCCCchhhhhhh
Q 012091 53 SVTLFQEIGLNEKEVDSLL-----------EKNPTLRVTPLDK-MRSRILSL-QSVGIKGMAFCRLI 106 (471)
Q Consensus 53 ~~~fL~~lGls~~~i~~~v-----------~~~P~ll~~~~~~-l~~~v~~L-~~lGls~~~i~~ll 106 (471)
++.||..+|++.....+++ +.||-.|+.++.. =-.+++.+ +.+|+...+-.|+.
T Consensus 11 ~~~~L~~~gl~~~~a~kl~~~yg~~ai~~l~~nPY~L~~~i~gi~F~~aD~iA~~~g~~~~d~~Ri~ 77 (94)
T PF14490_consen 11 LMAFLQEYGLSPKLAMKLYKKYGDDAIEILKENPYRLIEDIDGIGFKTADKIALKLGIEPDDPRRIR 77 (94)
T ss_dssp HHHHHHHTT--HHHHHHHHHHH-TTHHHHHHH-STCCCB-SSSSBHHHHHHHHHTTT--TT-HHHHH
T ss_pred HHHHHHHcCCCHHHHHHHHHHHhHHHHHHHHHChHHHHHHccCCCHHHHHHHHHHcCCCCCCHHHHH
Confidence 3488999999987766665 4568777775533 22333333 23666665555443
No 24
>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=43.09 E-value=43 Score=23.24 Aligned_cols=26 Identities=19% Similarity=0.197 Sum_probs=18.9
Q ss_pred HHHHHHHHHcCCCHHHHHHHHHhCCc
Q 012091 365 QKVIGLFLSYGLSFADIYIMSKKHPQ 390 (471)
Q Consensus 365 ~~ki~~L~~lG~s~~ev~~~v~~~P~ 390 (471)
++-++-|.++||++.++.+++.+-..
T Consensus 4 ~d~~~AL~~LGy~~~e~~~av~~~~~ 29 (47)
T PF07499_consen 4 EDALEALISLGYSKAEAQKAVSKLLE 29 (47)
T ss_dssp HHHHHHHHHTTS-HHHHHHHHHHHHH
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHhhc
Confidence 44556677899999999988887643
No 25
>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=41.97 E-value=46 Score=23.07 Aligned_cols=19 Identities=16% Similarity=0.331 Sum_probs=15.5
Q ss_pred HHHHHcCCChHHHHHHHHh
Q 012091 55 TLFQEIGLNEKEVDSLLEK 73 (471)
Q Consensus 55 ~fL~~lGls~~~i~~~v~~ 73 (471)
.-|.++|+++.++.+++.+
T Consensus 8 ~AL~~LGy~~~e~~~av~~ 26 (47)
T PF07499_consen 8 EALISLGYSKAEAQKAVSK 26 (47)
T ss_dssp HHHHHTTS-HHHHHHHHHH
T ss_pred HHHHHcCCCHHHHHHHHHH
Confidence 7889999999999988754
No 26
>KOG2629 consensus Peroxisomal membrane anchor protein (peroxin) [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Intracellular trafficking, secretion, and vesicular transport]
Probab=41.15 E-value=47 Score=32.55 Aligned_cols=42 Identities=24% Similarity=0.121 Sum_probs=32.3
Q ss_pred hHHHHHHHHHHcCCCccchhHHHHHHHHhhcChhhHHHHHHHHHHcCCCHHHHHHHHHh
Q 012091 329 NIAIKLGFLVKIGYECRTRELAAAMGSVTRTSCENLQKVIGLFLSYGLSFADIYIMSKK 387 (471)
Q Consensus 329 ~l~~~l~~L~~~G~~~~~~~~~~~~~~~~~~~~~~l~~ki~~L~~lG~s~~ev~~~v~~ 387 (471)
-++..+.||++-.+ ....+..|.+||++-|++++||...+++
T Consensus 4 li~~AVkFL~~~kV-----------------r~aPli~kr~FLksKGLT~eEI~eAfk~ 45 (300)
T KOG2629|consen 4 LIENAVKFLQNPKV-----------------RDAPLIKKREFLKSKGLTEEEIQEAFKR 45 (300)
T ss_pred HHHHHHHHhcCccc-----------------ccchHHHHHHHHHhcCCCHHHHHHHHHh
Confidence 45667777775222 2346788999999999999999999887
No 27
>COG3620 Predicted transcriptional regulator with C-terminal CBS domains [Transcription]
Probab=40.52 E-value=26 Score=31.43 Aligned_cols=44 Identities=11% Similarity=0.139 Sum_probs=27.9
Q ss_pred HHHHhcCCCHHHHHHHHhhcccccccccCCcccHHHHHHHHhhcCCch
Q 012091 158 RLLLQLGVPQETILHVLNNINLSKAVCLKSVEDIERTFAYLNPFGGAD 205 (471)
Q Consensus 158 ~~L~~lGl~~~~i~~l~~~~~~p~~l~~~s~~~~~~~v~~L~~lG~~~ 205 (471)
++|.+|.=..-....++.+ | ++...+.+.+..+++.+++.|+.+
T Consensus 55 ~aL~e~e~~~ita~~iM~s---p-vv~v~pdDsi~~vv~lM~~~g~SQ 98 (187)
T COG3620 55 EALEEAEKTRITAKTIMHS---P-VVSVSPDDSISDVVNLMRDKGISQ 98 (187)
T ss_pred HHHHHhhcceEeHhhhccC---C-eeEECchhhHHHHHHHHHHcCCcc
Confidence 4455444344444555542 4 444466678999999999999865
No 28
>PRK14136 recX recombination regulator RecX; Provisional
Probab=40.11 E-value=3.9e+02 Score=26.66 Aligned_cols=133 Identities=14% Similarity=0.065 Sum_probs=73.3
Q ss_pred HHHHHhCCCCChHHHHHHHHhcCcccccchhcHHHHHHHhHHhhCCCHHHHHHHHHhCCcccccCcccchhh-h-HHHHH
Q 012091 226 VRVLSELGGDDVDSTAAIVWKFPAILSYSLEHIGKHVEFLRSFAGLSDQEIFRIFLVFPAVISASRERKLRP-R-IDFLK 303 (471)
Q Consensus 226 v~~L~~~g~~~~~~l~~~v~k~P~iL~~s~e~l~~~~~fL~~~lGl~~~~i~~ii~~~P~lL~~sle~~l~p-r-~~~L~ 303 (471)
+.+|..--- ++.||..=+.+. +++.+.+...+++|++.==++....+....+. ... ..-| + ..-|+
T Consensus 169 L~lLSrReR-Se~ELr~KL~kk----G~~ee~IE~VIerLke~gYLDDeRFAesyVr~------R~~-kkGp~rIrqELr 236 (309)
T PRK14136 169 LGYLSRREY-SRAELARKLAPY----ADESDSVEPLLDALEREGWLSDARFAESLVHR------RAS-RVGSARIVSELK 236 (309)
T ss_pred HHHhhcccc-cHHHHHHHHHHc----CCCHHHHHHHHHHHHHcCCcCHHHHHHHHHHH------Hhh-chhHHHHHHHHH
Confidence 344444332 455666555543 45566777888888876335555566544432 111 1122 2 23478
Q ss_pred hcCCChHhHHhHhhcCccccccChhhHHHHHHHHHH-cCCCccchhHHHHHHHHhhcChhhHHHHHHHHHHcCCCHHHHH
Q 012091 304 QCGLGSEDIFKFLTKAPLFLALSFDNIAIKLGFLVK-IGYECRTRELAAAMGSVTRTSCENLQKVIGLFLSYGLSFADIY 382 (471)
Q Consensus 304 ~~Gl~~~~i~~ll~~~P~iL~~s~~~l~~~l~~L~~-~G~~~~~~~~~~~~~~~~~~~~~~l~~ki~~L~~lG~s~~ev~ 382 (471)
..|++.+.|...+... ..+.++...+.+.+ ++-.. .......+.+.||..-||+.+.|.
T Consensus 237 QKGId~eLIEqALeei------eEDE~E~A~~L~eKK~~~~~--------------~d~kek~K~iRfL~rRGFS~D~I~ 296 (309)
T PRK14136 237 RHAVGDALVESVGAQL------RETEFERAQAVWRKKFGALP--------------QTPAERAKQARFLAARGFSSATIV 296 (309)
T ss_pred HcCCCHHHHHHHHHhc------cHhHHHHHHHHHHHHhcccC--------------cCHHHHHHHHHHHHHCCCCHHHHH
Confidence 8999988888777632 12222222222221 11100 011224455788999999999999
Q ss_pred HHHHhCCc
Q 012091 383 IMSKKHPQ 390 (471)
Q Consensus 383 ~~v~~~P~ 390 (471)
.++..+=.
T Consensus 297 ~vLk~~~d 304 (309)
T PRK14136 297 KLLKVGDD 304 (309)
T ss_pred HHHHhchh
Confidence 98876543
No 29
>PRK00117 recX recombination regulator RecX; Reviewed
Probab=39.45 E-value=2.6e+02 Score=24.47 Aligned_cols=135 Identities=18% Similarity=0.153 Sum_probs=70.4
Q ss_pred HHHHHHhCCCCChHHHHHHHHhcCcccccchhcHHHHHHHhHHhhCCCHHHHHHHHHhCCcccccCcccchhh-h-HHHH
Q 012091 225 KVRVLSELGGDDVDSTAAIVWKFPAILSYSLEHIGKHVEFLRSFAGLSDQEIFRIFLVFPAVISASRERKLRP-R-IDFL 302 (471)
Q Consensus 225 kv~~L~~~g~~~~~~l~~~v~k~P~iL~~s~e~l~~~~~fL~~~lGl~~~~i~~ii~~~P~lL~~sle~~l~p-r-~~~L 302 (471)
-+.+|..-.- +..++..-+.+. +++.+.+...++.|...-=++....+....+.-.- +...+ + ..-|
T Consensus 17 al~~L~~r~~-s~~el~~kL~~k----g~~~~~i~~vl~~l~~~~~ldD~~~a~~~~~~~~~------~~~g~~~I~~~L 85 (157)
T PRK00117 17 ALRLLARREH-SRAELRRKLAAK----GFSEEVIEAVLDRLKEEGLLDDERFAESFVRSRAR------KGYGPRRIRQEL 85 (157)
T ss_pred HHHHHccchh-HHHHHHHHHHhc----CCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHh------CCchHHHHHHHH
Confidence 3444544443 455565555544 55666777777777765224554554433322111 11122 2 4557
Q ss_pred HhcCCChHhHHhHhhcCccccccChhhHHHHHHHHHHcCCCccchhHHHHHHHHhhcChhhHHHHHHHHHHcCCCHHHHH
Q 012091 303 KQCGLGSEDIFKFLTKAPLFLALSFDNIAIKLGFLVKIGYECRTRELAAAMGSVTRTSCENLQKVIGLFLSYGLSFADIY 382 (471)
Q Consensus 303 ~~~Gl~~~~i~~ll~~~P~iL~~s~~~l~~~l~~L~~~G~~~~~~~~~~~~~~~~~~~~~~l~~ki~~L~~lG~s~~ev~ 382 (471)
+..|++.+.|..++...+ .+..+.....+... +... .......-++.+.+|.+-||+.+.|.
T Consensus 86 ~~kGi~~~~I~~~l~~~~------~d~~e~a~~~~~k~-~~~~-----------~~~~~~~k~Ki~~~L~rkGF~~~~I~ 147 (157)
T PRK00117 86 RQKGVDREIIEEALAELD------IDWEELARELARKK-FRRP-----------LPDDAKEKAKLVRFLARRGFSMDVIQ 147 (157)
T ss_pred HHcCCCHHHHHHHHHHcC------ccHHHHHHHHHHHH-cCCC-----------CCCCHHHHHHHHHHHHHCCCCHHHHH
Confidence 899999999988887654 12222222222210 0000 00011122345577889999999998
Q ss_pred HHHHhC
Q 012091 383 IMSKKH 388 (471)
Q Consensus 383 ~~v~~~ 388 (471)
..+...
T Consensus 148 ~~l~~~ 153 (157)
T PRK00117 148 RVLRNA 153 (157)
T ss_pred HHHHhh
Confidence 887654
No 30
>PRK00117 recX recombination regulator RecX; Reviewed
Probab=36.75 E-value=2.9e+02 Score=24.19 Aligned_cols=64 Identities=14% Similarity=-0.038 Sum_probs=34.4
Q ss_pred ccChhhHHHHHHHHHHcCCCccchhHHHHHHHHhhcChhhHHHHH-HHHHHcCCCHHHHHHHHHhCC
Q 012091 324 ALSFDNIAIKLGFLVKIGYECRTRELAAAMGSVTRTSCENLQKVI-GLFLSYGLSFADIYIMSKKHP 389 (471)
Q Consensus 324 ~~s~~~l~~~l~~L~~~G~~~~~~~~~~~~~~~~~~~~~~l~~ki-~~L~~lG~s~~ev~~~v~~~P 389 (471)
+++.+.+...++.+.+.|+-... .|......-...... -..++ .-|..-|++.+.|...+...+
T Consensus 39 g~~~~~i~~vl~~l~~~~~ldD~-~~a~~~~~~~~~~~~-g~~~I~~~L~~kGi~~~~I~~~l~~~~ 103 (157)
T PRK00117 39 GFSEEVIEAVLDRLKEEGLLDDE-RFAESFVRSRARKGY-GPRRIRQELRQKGVDREIIEEALAELD 103 (157)
T ss_pred CCCHHHHHHHHHHHHHcCCCCHH-HHHHHHHHHHHhCCc-hHHHHHHHHHHcCCCHHHHHHHHHHcC
Confidence 44445555666666666665432 333322211111111 12222 346789999999999988765
No 31
>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=35.97 E-value=62 Score=21.83 Aligned_cols=25 Identities=8% Similarity=0.107 Sum_probs=18.3
Q ss_pred HHHHHH-HcCCCHHHHHHHHHhCCcc
Q 012091 367 VIGLFL-SYGLSFADIYIMSKKHPQI 391 (471)
Q Consensus 367 ki~~L~-~lG~s~~ev~~~v~~~P~i 391 (471)
....|. ++|++..++++||..||..
T Consensus 11 n~~~L~~~f~ip~~vAk~IV~~C~~C 36 (40)
T PF02022_consen 11 NAKALRHKFGIPRLVAKQIVNQCPKC 36 (40)
T ss_dssp -HHHHHHHHT--HHHHHHHHHHSCCH
T ss_pred CHHHHHHHHccCHHHHHHHHHHCHHH
Confidence 344565 7999999999999999975
No 32
>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=35.83 E-value=2.6e+02 Score=23.31 Aligned_cols=24 Identities=25% Similarity=0.376 Sum_probs=17.1
Q ss_pred HHHHHHHHHHcCCCHHHHHHHHHh
Q 012091 364 LQKVIGLFLSYGLSFADIYIMSKK 387 (471)
Q Consensus 364 l~~ki~~L~~lG~s~~ev~~~v~~ 387 (471)
.++.+.+|.+-||+.+.|..++..
T Consensus 95 ~~K~~~~L~rrGF~~~~i~~vi~~ 118 (121)
T PF02631_consen 95 KQKLIRFLMRRGFSYDVIRRVISE 118 (121)
T ss_dssp HHHHHHHHHHTT--HHHHHHHCHH
T ss_pred HHHHHHHHHHCCCCHHHHHHHHhh
Confidence 445567888999999999888764
No 33
>PF13348 Y_phosphatase3C: Tyrosine phosphatase family C-terminal region; PDB: 1YWF_A 2OZ5_B.
Probab=35.80 E-value=32 Score=25.70 Aligned_cols=42 Identities=21% Similarity=0.332 Sum_probs=23.9
Q ss_pred ccccchHHHHHHHHHHHhccchhHHHHHHHH-HcCCChHHHHHHHH
Q 012091 28 VFSTNADALDLLLIFLQRMNWFAFVSVTLFQ-EIGLNEKEVDSLLE 72 (471)
Q Consensus 28 ~~~~~~d~v~~~l~~~~~~~~~~~~~~~fL~-~lGls~~~i~~~v~ 72 (471)
+....|+..+..+ .-..+..+++-+||. .+|++++++..+-.
T Consensus 23 ~~~~~~e~l~~~l---~~i~~~yGs~e~Yl~~~lgl~~~~i~~Lr~ 65 (68)
T PF13348_consen 23 LMSVRPEYLEAAL---DAIDERYGSVENYLREELGLSEEDIERLRE 65 (68)
T ss_dssp HHS--HHHHHHHH---HHHHHHHSSHHHHHHHT-T--HHHHHHHHH
T ss_pred hcCccHHHHHHHH---HHHHHHcCCHHHHHHHcCCCCHHHHHHHHH
Confidence 3446677664444 344455567778995 57999999988643
No 34
>COG2137 OraA Uncharacterized protein conserved in bacteria [General function prediction only]
Probab=35.50 E-value=3.1e+02 Score=25.00 Aligned_cols=40 Identities=25% Similarity=0.150 Sum_probs=24.8
Q ss_pred HHHHHhcCCCHHHHHHHHhhcccccccccCCcccHHHHHHHHhhcCC
Q 012091 157 VRLLLQLGVPQETILHVLNNINLSKAVCLKSVEDIERTFAYLNPFGG 203 (471)
Q Consensus 157 v~~L~~lGl~~~~i~~l~~~~~~p~~l~~~s~~~~~~~v~~L~~lG~ 203 (471)
+.+|..---|..++..-+.+. ..+++-+++++.+|.+.|.
T Consensus 27 l~~Ls~R~rse~ELr~kL~k~-------~~~~~~Ie~Vi~~l~~~~~ 66 (174)
T COG2137 27 LRLLSRRDRSEKELRRKLAKK-------EFSEEIIEEVIDRLAEEGY 66 (174)
T ss_pred HHHHHHHHHHHHHHHHHHHhc-------cCCHHHHHHHHHHHHHcCc
Confidence 344444444566666655531 1456668888888888886
No 35
>cd07321 Extradiol_Dioxygenase_3A_like Subunit A of Class III extradiol dioxygenases. Extradiol dioxygenases catalyze the incorporation of both atoms of molecular oxygen into substrates using a variety of reaction mechanisms, resulting in the cleavage of aromatic rings. There are two major groups of dioxygenases according to the cleavage site of the aromatic ring. Intradiol enzymes cleave the aromatic ring between two hydroxyl groups, whereas extradiol enzymes cleave the aromatic ring between a hydroxylated carbon and an adjacent non-hydroxylated carbon. Extradiol dioxygenases can be divided into three classes. Class I and II enzymes are evolutionary related and show sequence similarity, with the two domain class II enzymes evolving from the class I enzyme through gene duplication. Class III enzymes are different in sequence and structure and usually have two subunits, designated A and B, which form a tetramer composed of two copies of each subunit. This model represents subunit A of c
Probab=32.59 E-value=85 Score=24.40 Aligned_cols=38 Identities=24% Similarity=0.460 Sum_probs=25.4
Q ss_pred HHHHHcCCChHHHHHHHHhCCCCCCCCchhhHHHHHHHHhcCCCchhhhhhh
Q 012091 55 TLFQEIGLNEKEVDSLLEKNPTLRVTPLDKMRSRILSLQSVGIKGMAFCRLI 106 (471)
Q Consensus 55 ~fL~~lGls~~~i~~~v~~~P~ll~~~~~~l~~~v~~L~~lGls~~~i~~ll 106 (471)
++++.+|+++++..++..++ +..|..+|.+.--+.++.
T Consensus 28 a~~~~~~Lt~eE~~al~~rD--------------~~~L~~lG~~~~~l~k~~ 65 (77)
T cd07321 28 AVLAEYGLTPEEKAALLARD--------------VGALYVLGVNPMLLMHFA 65 (77)
T ss_pred HHHHHcCCCHHHHHHHHcCC--------------HHHHHHcCCCHHHHHHHH
Confidence 56889999999998887655 444555666554444443
No 36
>PF11212 DUF2999: Protein of unknown function (DUF2999); InterPro: IPR021376 This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Probab=31.64 E-value=1e+02 Score=23.60 Aligned_cols=41 Identities=15% Similarity=0.252 Sum_probs=26.5
Q ss_pred hhHHHHHHhcCCCHHHHHHHHhhcccccccccCCcccHHHHHHHHhhcCCc
Q 012091 154 DQKVRLLLQLGVPQETILHVLNNINLSKAVCLKSVEDIERTFAYLNPFGGA 204 (471)
Q Consensus 154 ~~~v~~L~~lGl~~~~i~~l~~~~~~p~~l~~~s~~~~~~~v~~L~~lG~~ 204 (471)
+|-++.|.+..++++.|..++.. ++ ++.-...+....+|++
T Consensus 2 NPIia~LKehnvsd~qi~elFq~------lT----~NPl~AMa~i~qLGip 42 (82)
T PF11212_consen 2 NPIIAILKEHNVSDEQINELFQA------LT----QNPLAAMATIQQLGIP 42 (82)
T ss_pred chHHHHHHHcCCCHHHHHHHHHH------Hh----hCHHHHHHHHHHcCCC
Confidence 46778888888888888887653 32 2333444555666664
No 37
>PF07647 SAM_2: SAM domain (Sterile alpha motif); InterPro: IPR011510 The sterile alpha motif (SAM) domain is a putative protein interaction module present in a wide variety of proteins [] involved in many biological processes. The SAM domain that spreads over around 70 residues is found in diverse eukaryotic organisms []. SAM domains have been shown to homo- and hetero-oligomerise, forming multiple self-association architectures and also binding to various non-SAM domain-containing proteins [], nevertheless with a low affinity constant []. SAM domains also appear to possess the ability to bind RNA []. Smaug, a protein that helps to establish a morphogen gradient in Drosophila embryos by repressing the translation of nanos (nos) mRNA, binds to the 3' untranslated region (UTR) of nos mRNA via two similar hairpin structures. The 3D crystal structure of the Smaug RNA-binding region shows a cluster of positively charged residues on the Smaug-SAM domain, which could be the RNA-binding surface. This electropositive potential is unique among all previously determined SAM-domain structures and is conserved among Smaug-SAM homologs. These results suggest that the SAM domain might have a primary role in RNA binding. Structural analyses show that the SAM domain is arranged in a small five-helix bundle with two large interfaces []. In the case of the SAM domain of EphB2, each of these interfaces is able to form dimers. The presence of these two distinct intermonomers binding surface suggest that SAM could form extended polymeric structures []. This entry represents a second domain related to the SAM domain. ; GO: 0005515 protein binding; PDB: 1B0X_A 1X9X_B 1OW5_A 1V38_A 3BS7_A 3BS5_A 3TAD_A 3TAC_B 2K60_A 2DL0_A ....
Probab=31.62 E-value=58 Score=23.87 Aligned_cols=49 Identities=14% Similarity=0.272 Sum_probs=27.6
Q ss_pred chhHHHHHHHHHcCCChHHHHHHHHhCCCCCCCCc-hh-hHHHHHHHHhcCCCchhh
Q 012091 48 WFAFVSVTLFQEIGLNEKEVDSLLEKNPTLRVTPL-DK-MRSRILSLQSVGIKGMAF 102 (471)
Q Consensus 48 ~~~~~~~~fL~~lGls~~~i~~~v~~~P~ll~~~~-~~-l~~~v~~L~~lGls~~~i 102 (471)
|.+..+..||.++|+ .+.+..+..+ ..+- +. +.-.-+.|+++|++...-
T Consensus 4 w~~~~v~~WL~~~gl--~~y~~~f~~~----~i~g~~~L~~l~~~~L~~lGI~~~~~ 54 (66)
T PF07647_consen 4 WSPEDVAEWLKSLGL--EQYADNFREN----GIDGLEDLLQLTEEDLKELGITNLGH 54 (66)
T ss_dssp HCHHHHHHHHHHTTC--GGGHHHHHHT----TCSHHHHHTTSCHHHHHHTTTTHHHH
T ss_pred CCHHHHHHHHHHCCc--HHHHHHHHHc----CCcHHHHHhhCCHHHHHHcCCCCHHH
Confidence 445556699999999 5566666544 1121 11 111245567788866543
No 38
>PF13331 DUF4093: Domain of unknown function (DUF4093)
Probab=30.74 E-value=2e+02 Score=22.99 Aligned_cols=21 Identities=5% Similarity=0.164 Sum_probs=14.8
Q ss_pred HHHHHHHHHcCCCHHHHHHHH
Q 012091 365 QKVIGLFLSYGLSFADIYIMS 385 (471)
Q Consensus 365 ~~ki~~L~~lG~s~~ev~~~v 385 (471)
+.-++.|..+|+|.+|+.+++
T Consensus 66 KqllkrLN~f~it~~e~~~al 86 (87)
T PF13331_consen 66 KQLLKRLNMFGITREEFEEAL 86 (87)
T ss_pred HHHHHHHHHcCCCHHHHHHHh
Confidence 333444667899999988775
No 39
>cd00166 SAM Sterile alpha motif.; Widespread domain in signalling and nuclear proteins. In EPH-related tyrosine kinases, appears to mediate cell-cell initiated signal transduction via the binding of SH2-containing proteins to a conserved tyrosine that is phosphorylated. In many cases mediates homodimerization.
Probab=29.99 E-value=1.3e+02 Score=21.31 Aligned_cols=46 Identities=17% Similarity=0.198 Sum_probs=26.4
Q ss_pred chhHHHHHHHHHcCCChHHHHHHHHhCCCCCCCCchh-hHHHHHHHHhcCCCc
Q 012091 48 WFAFVSVTLFQEIGLNEKEVDSLLEKNPTLRVTPLDK-MRSRILSLQSVGIKG 99 (471)
Q Consensus 48 ~~~~~~~~fL~~lGls~~~i~~~v~~~P~ll~~~~~~-l~~~v~~L~~lGls~ 99 (471)
|.+.++.+||.++|+ ++.+..+.++- .+.+. +.-.-+-|.++|+..
T Consensus 2 w~~~~V~~wL~~~~~--~~y~~~f~~~~----i~g~~L~~l~~~dL~~lgi~~ 48 (63)
T cd00166 2 WSPEDVAEWLESLGL--GQYADNFRENG----IDGDLLLLLTEEDLKELGITL 48 (63)
T ss_pred CCHHHHHHHHHHcCh--HHHHHHHHHcC----CCHHHHhHCCHHHHHHcCCCC
Confidence 345566699999998 56666665541 12222 111224456788876
No 40
>COG1125 OpuBA ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]
Probab=29.27 E-value=55 Score=31.94 Aligned_cols=47 Identities=11% Similarity=0.237 Sum_probs=36.5
Q ss_pred CCHHHHHHHHHhCCcccccChhhHHHHHHHHHhhcCCChH-HHhhcCc
Q 012091 376 LSFADIYIMSKKHPQILQYNHKSLEEKMEYLIVGMGREVG-ELLAFPA 422 (471)
Q Consensus 376 ~s~~ev~~~v~~~P~iL~~s~~~l~~k~~fL~~~mg~~~~-~i~~~P~ 422 (471)
|+.--|.+-+.-.|.+++++.+.++.+.+-|.+-+|+++. ..-++|.
T Consensus 87 FPh~Tv~eNIa~VP~L~~w~k~~i~~r~~ELl~lvgL~p~~~~~RyP~ 134 (309)
T COG1125 87 FPHLTVAENIATVPKLLGWDKERIKKRADELLDLVGLDPSEYADRYPH 134 (309)
T ss_pred CCCccHHHHHHhhhhhcCCCHHHHHHHHHHHHHHhCCCHHHHhhcCch
Confidence 4455566668889999999999999999999999999874 4445554
No 41
>cd00739 DHPS DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and protein biosynthesis. Prokaryotes (and some lower eukaryotes) must synthesize folate de novo, while higher eukaryotes are able to utilize dietary folate and therefore lack DHPS. Sulfonamide drugs, which are substrate analogs of pABA, target DHPS.
Probab=28.57 E-value=1e+02 Score=29.91 Aligned_cols=62 Identities=21% Similarity=0.260 Sum_probs=38.5
Q ss_pred hHHHHHHHHHhhcCCChHHHhhcCce-eecccccchhhHHHHH---HHHhcCCCCchhhhcccHHHHHHHHhh
Q 012091 398 SLEEKMEYLIVGMGREVGELLAFPAF-LGYKLDDRIKHRYEAK---RKTLGDGLSINKLLSVSVERFSTKIKK 466 (471)
Q Consensus 398 ~l~~k~~fL~~~mg~~~~~i~~~P~~-L~~Sle~rI~pR~~~L---~~L~~~g~~l~~~l~~sd~~F~~~~~k 466 (471)
.++.+++.+.+ .|++.++|.--|.+ +..+. ..-++.+ +.++..|+++ ++..|.+.|..++..
T Consensus 151 ~~~~~i~~~~~-~Gi~~~~Ii~DPg~gf~ks~----~~~~~~l~~i~~l~~~~~pi--l~G~SrkSfig~~~~ 216 (257)
T cd00739 151 FLEARLEAAES-AGVARNRIILDPGIGFGKTP----EHNLELLRRLDELKQLGLPV--LVGASRKSFIGALLG 216 (257)
T ss_pred HHHHHHHHHHH-cCCCHHHEEEecCCCcccCH----HHHHHHHHHHHHHHhCCCcE--EEEecccHHHHHhcC
Confidence 46677777765 89999999888865 33331 1112222 2233345544 788899999877653
No 42
>KOG0400 consensus 40S ribosomal protein S13 [Translation, ribosomal structure and biogenesis]
Probab=28.00 E-value=58 Score=27.96 Aligned_cols=64 Identities=17% Similarity=0.141 Sum_probs=40.5
Q ss_pred HHhcCcccccchhcHHHHHHHhHHhhCCCHHHHHHHHHhCCcccccCcccchhhhHHHHHhcCCCh
Q 012091 244 VWKFPAILSYSLEHIGKHVEFLRSFAGLSDQEIFRIFLVFPAVISASRERKLRPRIDFLKQCGLGS 309 (471)
Q Consensus 244 v~k~P~iL~~s~e~l~~~~~fL~~~lGl~~~~i~~ii~~~P~lL~~sle~~l~pr~~~L~~~Gl~~ 309 (471)
-+..|.-+..+.|.++.-+-=+.+. |+++.+|.-++...-.+=.++.-. =..-+.+|++.|+..
T Consensus 19 ~r~~PtWlK~~~ddvkeqI~K~akK-GltpsqIGviLRDshGi~q~r~v~-G~kI~Rilk~~Gl~P 82 (151)
T KOG0400|consen 19 RRSVPTWLKLTADDVKEQIYKLAKK-GLTPSQIGVILRDSHGIGQVRFVT-GNKILRILKSNGLAP 82 (151)
T ss_pred ccCCcHHHhcCHHHHHHHHHHHHHc-CCChhHceeeeecccCcchhheec-hhHHHHHHHHcCCCC
Confidence 3567888888888877766666666 999999987655443333332210 012367788888753
No 43
>PF00356 LacI: Bacterial regulatory proteins, lacI family; InterPro: IPR000843 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. These proteins are very diverse, but for convenience may be grouped into subfamilies on the basis of sequence similarity. One such family groups together a range of proteins, including ascG, ccpA, cytR, ebgR, fruR, galR, galS, lacI, malI, opnR, purF, rafR, rbtR and scrR [, ]. Within this family, the HTH motif is situated towards the N terminus.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 3KJX_C 1ZAY_A 1VPW_A 2PUA_A 1QQA_A 1PNR_A 1JFT_A 1QP4_A 2PUD_A 1JH9_A ....
Probab=26.59 E-value=1.7e+02 Score=20.29 Aligned_cols=39 Identities=18% Similarity=0.324 Sum_probs=19.8
Q ss_pred HhcCCChHhHHhHhhcCccccccChhhHHHHHHHHHHcCCCc
Q 012091 303 KQCGLGSEDIFKFLTKAPLFLALSFDNIAIKLGFLVKIGYEC 344 (471)
Q Consensus 303 ~~~Gl~~~~i~~ll~~~P~iL~~s~~~l~~~l~~L~~~G~~~ 344 (471)
+..|++..-+.++|...| ..+.+.-+.-.+..+++||.+
T Consensus 7 ~~agvS~~TVSr~ln~~~---~vs~~tr~rI~~~a~~lgY~p 45 (46)
T PF00356_consen 7 REAGVSKSTVSRVLNGPP---RVSEETRERILEAAEELGYRP 45 (46)
T ss_dssp HHHTSSHHHHHHHHTTCS---SSTHHHHHHHHHHHHHHTB-S
T ss_pred HHHCcCHHHHHHHHhCCC---CCCHHHHHHHHHHHHHHCCCC
Confidence 345666666666655543 234444444445555566544
No 44
>smart00354 HTH_LACI helix_turn _helix lactose operon repressor.
Probab=25.01 E-value=1.4e+02 Score=22.43 Aligned_cols=39 Identities=15% Similarity=0.186 Sum_probs=22.7
Q ss_pred hcCCChHhHHhHhhcCccccccChhhHHHHHHHHHHcCCCcc
Q 012091 304 QCGLGSEDIFKFLTKAPLFLALSFDNIAIKLGFLVKIGYECR 345 (471)
Q Consensus 304 ~~Gl~~~~i~~ll~~~P~iL~~s~~~l~~~l~~L~~~G~~~~ 345 (471)
.+|++..-+.+++...|.+ +++..+...+.++++||.++
T Consensus 9 ~~gvS~~TVSr~ln~~~~v---~~~t~~~i~~~~~~~gy~~~ 47 (70)
T smart00354 9 LAGVSKATVSRVLNGNGRV---SEETREKVLAAMEELGYIPN 47 (70)
T ss_pred HHCCCHHHHHHHHCCCCCC---CHHHHHHHHHHHHHhCCCCC
Confidence 3566666666666555544 44555555566666666554
No 45
>smart00657 RPOL4c DNA-directed RNA-polymerase II subunit.
Probab=24.80 E-value=1e+02 Score=26.06 Aligned_cols=58 Identities=17% Similarity=0.153 Sum_probs=35.1
Q ss_pred CCchhhHHHHHHHHhcCCCchhhhhhhhccccccc-hhhHHHHHHHHHhhccCCCChhhHHHHhhh
Q 012091 80 TPLDKMRSRILSLQSVGIKGMAFCRLISKDSNVLL-AEEIDRLICFVRDDLDGNIEPMKLERLLTS 144 (471)
Q Consensus 80 ~~~~~l~~~v~~L~~lGls~~~i~~ll~~~P~iL~-~~~l~~~l~~l~~~l~gs~~~~~l~~~l~~ 144 (471)
.+.+.+....+.|...|+...+++.++..+|.-.. ...+.|-+ . ..++.+.+..++..
T Consensus 52 ~~~e~i~~~~~~L~~~~L~k~E~~~i~Nl~P~s~~E~~~lI~sl---~----~r~~ee~l~~iL~~ 110 (118)
T smart00657 52 KNREIVRAVRTLLKSKKLHKFEIAQLGNLRPETAEEAQLLIPSL---E----ERIDEEELEELLDD 110 (118)
T ss_pred CCHHHHHHHHHHHHhcCCCHHHHHHHhCCCCCCHHHHHHHhhhh---h----ccCCHHHHHHHHHH
Confidence 34455677777778888888888888888886432 12233322 1 22444666666653
No 46
>PRK14134 recX recombination regulator RecX; Provisional
Probab=24.39 E-value=6.8e+02 Score=24.56 Aligned_cols=24 Identities=13% Similarity=0.289 Sum_probs=18.5
Q ss_pred HHH-HHHHHHHcCCCHHHHHHHHHh
Q 012091 364 LQK-VIGLFLSYGLSFADIYIMSKK 387 (471)
Q Consensus 364 l~~-ki~~L~~lG~s~~ev~~~v~~ 387 (471)
+.+ ...||.+-||+.+.|..++..
T Consensus 254 ~~~Kl~~~L~rkGf~~e~I~~vl~~ 278 (283)
T PRK14134 254 IYRRLSNYLLRRGYSWEEVKKSLNE 278 (283)
T ss_pred HHHHHHHHHHhCCCCHHHHHHHHHH
Confidence 344 457888999999999888754
No 47
>PF00536 SAM_1: SAM domain (Sterile alpha motif); InterPro: IPR021129 The sterile alpha motif (SAM) domain is a putative protein interaction module present in a wide variety of proteins [] involved in many biological processes. The SAM domain that spreads over around 70 residues is found in diverse eukaryotic organisms []. SAM domains have been shown to homo- and hetero-oligomerise, forming multiple self-association architectures and also binding to various non-SAM domain-containing proteins [], nevertheless with a low affinity constant []. SAM domains also appear to possess the ability to bind RNA []. Smaug, a protein that helps to establish a morphogen gradient in Drosophila embryos by repressing the translation of nanos (nos) mRNA, binds to the 3' untranslated region (UTR) of nos mRNA via two similar hairpin structures. The 3D crystal structure of the Smaug RNA-binding region shows a cluster of positively charged residues on the Smaug-SAM domain, which could be the RNA-binding surface. This electropositive potential is unique among all previously determined SAM-domain structures and is conserved among Smaug-SAM homologs. These results suggest that the SAM domain might have a primary role in RNA binding. Structural analyses show that the SAM domain is arranged in a small five-helix bundle with two large interfaces []. In the case of the SAM domain of EphB2, each of these interfaces is able to form dimers. The presence of these two distinct intermonomers binding surface suggest that SAM could form extended polymeric structures []. This entry represents type 1 SAM domains. ; PDB: 2KIV_A 3HIL_B 3KKA_A 3K1R_B 3SEN_B 3SEI_B 1V85_A 2KE7_A 2EAM_A 1WWV_A ....
Probab=23.33 E-value=1.2e+02 Score=22.04 Aligned_cols=47 Identities=19% Similarity=0.287 Sum_probs=24.5
Q ss_pred cchhHHHHHHHHHcCCChHHHHHHHHhCCCCCCCCchh-hHHHHHHHHhcCCCc
Q 012091 47 NWFAFVSVTLFQEIGLNEKEVDSLLEKNPTLRVTPLDK-MRSRILSLQSVGIKG 99 (471)
Q Consensus 47 ~~~~~~~~~fL~~lGls~~~i~~~v~~~P~ll~~~~~~-l~~~v~~L~~lGls~ 99 (471)
.|.+.+|.+||.++|+ ++.+..+.++ ..+.+. +.=.-+-|.++|+..
T Consensus 2 ~W~~~~V~~WL~~~~l--~~y~~~F~~~----~i~g~~L~~lt~~dL~~lgi~~ 49 (64)
T PF00536_consen 2 EWSVEDVSEWLKSLGL--EQYAENFEKN----YIDGEDLLSLTEEDLEELGITK 49 (64)
T ss_dssp GTSHHHHHHHHHHTTG--GGGHHHHHHT----TSSHHHHTTSCHHHHHHTT-SS
T ss_pred CCCHHHHHHHHHHCCC--HHHHHHHHcC----CchHHHHHhcCHHHHHHcCCCC
Confidence 3556677799999998 4445555443 112111 111123366677776
No 48
>PF06568 DUF1127: Domain of unknown function (DUF1127); InterPro: IPR009506 This family is found in several hypothetical bacterial proteins. In some cases it represents it represents the C-terminal region whereas in others it represents the whole sequence.
Probab=22.77 E-value=45 Score=22.32 Aligned_cols=11 Identities=18% Similarity=0.462 Sum_probs=5.2
Q ss_pred HHhcCCCchhh
Q 012091 92 LQSVGIKGMAF 102 (471)
Q Consensus 92 L~~lGls~~~i 102 (471)
|.++|++++||
T Consensus 28 L~DIGl~R~di 38 (40)
T PF06568_consen 28 LADIGLTRSDI 38 (40)
T ss_pred HHHcCCCHHHh
Confidence 34455554444
No 49
>PHA02591 hypothetical protein; Provisional
Probab=22.71 E-value=74 Score=24.83 Aligned_cols=48 Identities=17% Similarity=0.186 Sum_probs=32.8
Q ss_pred cCCChHHHHHHHHh-CCCCCCCCchhhHHHHHHHHhcCCCchhhhhhhh
Q 012091 60 IGLNEKEVDSLLEK-NPTLRVTPLDKMRSRILSLQSVGIKGMAFCRLIS 107 (471)
Q Consensus 60 lGls~~~i~~~v~~-~P~ll~~~~~~l~~~v~~L~~lGls~~~i~~ll~ 107 (471)
.-++...+.+++.- .-+.+--+.|.+.+....|.+.|+|..+|++.+-
T Consensus 22 ~~~~~~~m~k~vqv~~~ryfi~~~dd~~~vA~eL~eqGlSqeqIA~~LG 70 (83)
T PHA02591 22 CYIGEKKMQKVVQVGQTRYFVESEDDLISVTHELARKGFTVEKIASLLG 70 (83)
T ss_pred EEhhhHhHHHhheeCCEEEEEeccchHHHHHHHHHHcCCCHHHHHHHhC
Confidence 44556566666521 2223334556688999999999999999998774
No 50
>PF13720 Acetyltransf_11: Udp N-acetylglucosamine O-acyltransferase; Domain 2; PDB: 3I3A_A 3I3X_A 3HSQ_B 2JF2_A 1LXA_A 2AQ9_A 2QIV_X 2QIA_A 2JF3_A 4EQY_F ....
Probab=22.44 E-value=64 Score=25.45 Aligned_cols=37 Identities=14% Similarity=0.221 Sum_probs=20.8
Q ss_pred HHHcCCChHHHHHHHHhCCCCCCCCchhhHHHHHHHHh
Q 012091 57 FQEIGLNEKEVDSLLEKNPTLRVTPLDKMRSRILSLQS 94 (471)
Q Consensus 57 L~~lGls~~~i~~~v~~~P~ll~~~~~~l~~~v~~L~~ 94 (471)
|+..|+++++|..+=..+-.+...+ ..+...++.+++
T Consensus 23 LrR~Gfs~~~i~~l~~ayr~l~~~~-~~~~~a~~~l~~ 59 (83)
T PF13720_consen 23 LRRRGFSKEEISALRRAYRILFRSG-LTLEEALEELEE 59 (83)
T ss_dssp HHHTTS-HHHHHHHHHHHHHHHTSS-S-HHHHHHHHHH
T ss_pred HHHcCCCHHHHHHHHHHHHHHHhCC-CCHHHHHHHHHH
Confidence 6788888888887655544444333 334455555544
No 51
>PF11626 Rap1_C: TRF2-interacting telomeric protein/Rap1 - C terminal domain; InterPro: IPR021661 This family of proteins represents the C-terminal domain of the protein Rap-1, which plays a distinct role in silencing at the silent mating-type loci and telomeres []. The Rap-1 C terminus adopts an all-helical fold. Rap1 carries out its function by recruiting the Sir3 and Sir4 proteins to chromatin via its C-terminal domain []. ; PDB: 3K6G_C 3CZ6_A 3OWT_A.
Probab=22.38 E-value=3.6e+02 Score=21.22 Aligned_cols=25 Identities=32% Similarity=0.452 Sum_probs=15.5
Q ss_pred CHHHHHHHHHhCCcccccChhhHHHHHHHHH
Q 012091 377 SFADIYIMSKKHPQILQYNHKSLEEKMEYLI 407 (471)
Q Consensus 377 s~~ev~~~v~~~P~iL~~s~~~l~~k~~fL~ 407 (471)
+.+++.+++.+| +.+.+..+.+||.
T Consensus 62 ~~~~~~~L~~kh------G~~~i~~R~~FL~ 86 (87)
T PF11626_consen 62 DKDDIERLIKKH------GEERIERRKEFLE 86 (87)
T ss_dssp -HHHHHHHHHHH-------HHHHHHHHHHHT
T ss_pred CHHHHHHHHHHh------CHHHHHHHHHHHh
Confidence 556666666665 5667777777764
No 52
>PF02787 CPSase_L_D3: Carbamoyl-phosphate synthetase large chain, oligomerisation domain; InterPro: IPR005480 Carbamoyl phosphate synthase (CPSase) is a heterodimeric enzyme composed of a small and a large subunit (with the exception of CPSase III, see below). CPSase catalyses the synthesis of carbamoyl phosphate from biocarbonate, ATP and glutamine (6.3.5.5 from EC) or ammonia (6.3.4.16 from EC), and represents the first committed step in pyrimidine and arginine biosynthesis in prokaryotes and eukaryotes, and in the urea cycle in most terrestrial vertebrates [, ]. CPSase has three active sites, one in the small subunit and two in the large subunit. The small subunit contains the glutamine binding site and catalyses the hydrolysis of glutamine to glutamate and ammonia. The large subunit has two homologous carboxy phosphate domains, both of which have ATP-binding sites; however, the N-terminal carboxy phosphate domain catalyses the phosphorylation of biocarbonate, while the C-terminal domain catalyses the phosphorylation of the carbamate intermediate []. The carboxy phosphate domain found duplicated in the large subunit of CPSase is also present as a single copy in the biotin-dependent enzymes acetyl-CoA carboxylase (6.4.1.2 from EC) (ACC), propionyl-CoA carboxylase (6.4.1.3 from EC) (PCCase), pyruvate carboxylase (6.4.1.1 from EC) (PC) and urea carboxylase (6.3.4.6 from EC). Most prokaryotes carry one form of CPSase that participates in both arginine and pyrimidine biosynthesis, however certain bacteria can have separate forms. The large subunit in bacterial CPSase has four structural domains: the carboxy phosphate domain 1, the oligomerisation domain, the carbamoyl phosphate domain 2 and the allosteric domain []. CPSase heterodimers from Escherichia coli contain two molecular tunnels: an ammonia tunnel and a carbamate tunnel. These inter-domain tunnels connect the three distinct active sites, and function as conduits for the transport of unstable reaction intermediates (ammonia and carbamate) between successive active sites []. The catalytic mechanism of CPSase involves the diffusion of carbamate through the interior of the enzyme from the site of synthesis within the N-terminal domain of the large subunit to the site of phosphorylation within the C-terminal domain. Eukaryotes have two distinct forms of CPSase: a mitochondrial enzyme (CPSase I) that participates in both arginine biosynthesis and the urea cycle; and a cytosolic enzyme (CPSase II) involved in pyrimidine biosynthesis. CPSase II occurs as part of a multi-enzyme complex along with aspartate transcarbamoylase and dihydroorotase; this complex is referred to as the CAD protein []. The hepatic expression of CPSase is transcriptionally regulated by glucocorticoids and/or cAMP []. There is a third form of the enzyme, CPSase III, found in fish, which uses glutamine as a nitrogen source instead of ammonia []. CPSase III is closely related to CPSase I, and is composed of a single polypeptide that may have arisen from gene fusion of the glutaminase and synthetase domains []. This entry represents the oligomerisation domain found in the large subunit of carbamoyl phosphate synthases as well as in certain other carboxy phsophate domain-containing enzymes.; GO: 0006807 nitrogen compound metabolic process; PDB: 1M6V_C 1CS0_C 1C30_E 1C3O_G 1BXR_A 1T36_E 1A9X_A 1KEE_G 1CE8_A 1JDB_H ....
Probab=22.17 E-value=2.1e+02 Score=24.35 Aligned_cols=71 Identities=17% Similarity=0.206 Sum_probs=37.7
Q ss_pred hhHHHHHHHHhcCCCchhhhhhhhccccccch-hhHHHHHHHHHhhccCCCChhhHHHHhhhccccccccchhHHHHHHh
Q 012091 84 KMRSRILSLQSVGIKGMAFCRLISKDSNVLLA-EEIDRLICFVRDDLDGNIEPMKLERLLTSTETKFLVGFDQKVRLLLQ 162 (471)
Q Consensus 84 ~l~~~v~~L~~lGls~~~i~~ll~~~P~iL~~-~~l~~~l~~l~~~l~gs~~~~~l~~~l~~~~~~~~l~~~~~v~~L~~ 162 (471)
.+-...+.|+. |+|..+|..+=.-.|+.|.. .+|+..=.-+.... +..+++ .+.-...
T Consensus 12 Rlf~i~eAlrr-G~sveeI~e~T~ID~wFL~~i~~Iv~~e~~L~~~~-~~~~~~-------------------~L~~aK~ 70 (123)
T PF02787_consen 12 RLFAIAEALRR-GYSVEEIHELTKIDPWFLEQIKNIVDMEKELKEYL-NELDPE-------------------LLRKAKR 70 (123)
T ss_dssp HHHHHHHHHHT-TB-HHHHHHHH---HHHHHHHHHHHHHHHHHHHHG-GG--HH-------------------HHHHHHH
T ss_pred HHHHHHHHHHc-CCCHHHHHHHHCccHHHHHHHHHHHHHHHHHHHhh-ccchHH-------------------HHHHHHH
Confidence 35555666655 99999999888778887764 34443333322210 112111 3334458
Q ss_pred cCCCHHHHHHHHh
Q 012091 163 LGVPQETILHVLN 175 (471)
Q Consensus 163 lGl~~~~i~~l~~ 175 (471)
.|+++..|+.+..
T Consensus 71 ~GFsD~~IA~l~~ 83 (123)
T PF02787_consen 71 LGFSDRQIARLWG 83 (123)
T ss_dssp TT--HHHHHHHHT
T ss_pred cCCCHHHHHhccC
Confidence 9999999999854
No 53
>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=21.57 E-value=1.4e+02 Score=24.55 Aligned_cols=23 Identities=17% Similarity=0.404 Sum_probs=17.4
Q ss_pred cCCChHhHHhHhhcCccccccCh
Q 012091 305 CGLGSEDIFKFLTKAPLFLALSF 327 (471)
Q Consensus 305 ~Gl~~~~i~~ll~~~P~iL~~s~ 327 (471)
..++.+++..++..+|.++..++
T Consensus 69 ~~~s~~e~i~~l~~~p~LikRPI 91 (110)
T PF03960_consen 69 DDLSDEELIELLLENPKLIKRPI 91 (110)
T ss_dssp TTSBHHHHHHHHHHSGGGB-SSE
T ss_pred hhhhhHHHHHHHHhChhheeCCE
Confidence 34777888888889998888774
No 54
>PF10440 WIYLD: Ubiquitin-binding WIYLD domain; InterPro: IPR018848 This entry represents a presumed domain which has been predicted to contain three alpha helices. It was named the WIYLD domain based on the pattern of the ost conserved residues []. This domain appears to be specific to plant SET-domain proteins. ; GO: 0018024 histone-lysine N-methyltransferase activity
Probab=21.21 E-value=1.2e+02 Score=22.78 Aligned_cols=18 Identities=22% Similarity=0.613 Sum_probs=9.9
Q ss_pred HHHHHHcCCChHHHHHHH
Q 012091 54 VTLFQEIGLNEKEVDSLL 71 (471)
Q Consensus 54 ~~fL~~lGls~~~i~~~v 71 (471)
++..+.+|++..+|..++
T Consensus 15 ~dam~~lG~~~~~v~~vl 32 (65)
T PF10440_consen 15 LDAMRQLGFSKKQVRPVL 32 (65)
T ss_pred HHHHHHcCCCHHHHHHHH
Confidence 355555666665555544
No 55
>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=20.43 E-value=4.3e+02 Score=20.83 Aligned_cols=61 Identities=13% Similarity=0.170 Sum_probs=38.1
Q ss_pred HHhcCCCchhhhhhhhccccccchhhHHHHHHHHHhhccCCCChhhHHHHhhhccccccccchhHHHHHHhcCCCHHHHH
Q 012091 92 LQSVGIKGMAFCRLISKDSNVLLAEEIDRLICFVRDDLDGNIEPMKLERLLTSTETKFLVGFDQKVRLLLQLGVPQETIL 171 (471)
Q Consensus 92 L~~lGls~~~i~~ll~~~P~iL~~~~l~~~l~~l~~~l~gs~~~~~l~~~l~~~~~~~~l~~~~~v~~L~~lGl~~~~i~ 171 (471)
.+.+|+|.++|.++=..+|.-+ ...+...+.-|+.- .|.- .-+ ..-+..|+.||++.+-..
T Consensus 20 ar~Lgls~~~I~~i~~~~p~~l-~eQv~~mL~~W~~r-~G~~--ATv---------------~~L~~aL~~~~~~~~~~~ 80 (83)
T cd08319 20 LLDLGLSQTDIYRCKENHPHNV-QSQIVEALVKWRQR-FGKK--ATV---------------QSLIQSLKAVEVDPSVLQ 80 (83)
T ss_pred HHHcCCCHHHHHHHHHhCCCCH-HHHHHHHHHHHHHh-cCCC--CcH---------------HHHHHHHHHcCCCHHHHH
Confidence 3679999999999998888654 23455566666654 2421 111 123456778888776544
No 56
>PF10440 WIYLD: Ubiquitin-binding WIYLD domain; InterPro: IPR018848 This entry represents a presumed domain which has been predicted to contain three alpha helices. It was named the WIYLD domain based on the pattern of the ost conserved residues []. This domain appears to be specific to plant SET-domain proteins. ; GO: 0018024 histone-lysine N-methyltransferase activity
Probab=20.17 E-value=1.4e+02 Score=22.52 Aligned_cols=36 Identities=14% Similarity=0.187 Sum_probs=25.2
Q ss_pred hhHHHHHHHHHHcCCCHHHHHHHHHhCCcccccChh
Q 012091 362 ENLQKVIGLFLSYGLSFADIYIMSKKHPQILQYNHK 397 (471)
Q Consensus 362 ~~l~~ki~~L~~lG~s~~ev~~~v~~~P~iL~~s~~ 397 (471)
+.++.-++.++.+||++++|...+.+-=.+.+-+.+
T Consensus 9 ~R~daA~dam~~lG~~~~~v~~vl~~LL~lY~~nW~ 44 (65)
T PF10440_consen 9 ERIDAALDAMRQLGFSKKQVRPVLKNLLKLYDGNWE 44 (65)
T ss_pred HHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHcCCch
Confidence 456666777788999998888877776555554433
No 57
>COG3620 Predicted transcriptional regulator with C-terminal CBS domains [Transcription]
Probab=20.04 E-value=1.5e+02 Score=26.73 Aligned_cols=69 Identities=17% Similarity=0.176 Sum_probs=43.0
Q ss_pred hCCCHHHHHHHHHh--CCcccccCcccchhhhHHHHHhcCCChHhHHhHhhcCccccccChhhHHHHHHHHHHcCCCc
Q 012091 269 AGLSDQEIFRIFLV--FPAVISASRERKLRPRIDFLKQCGLGSEDIFKFLTKAPLFLALSFDNIAIKLGFLVKIGYEC 344 (471)
Q Consensus 269 lGl~~~~i~~ii~~--~P~lL~~sle~~l~pr~~~L~~~Gl~~~~i~~ll~~~P~iL~~s~~~l~~~l~~L~~~G~~~ 344 (471)
.|++..+|+++=.. .|.+ ++++.-+++|.++.-. .-..+-+...|-+...+.|.+...++.+++.|++.
T Consensus 28 aGVSQ~~IArlE~G~vdPrl------St~k~Il~aL~e~e~~-~ita~~iM~spvv~v~pdDsi~~vv~lM~~~g~SQ 98 (187)
T COG3620 28 AGVSQPYIARLEAGKVDPRL------STVKRILEALEEAEKT-RITAKTIMHSPVVSVSPDDSISDVVNLMRDKGISQ 98 (187)
T ss_pred cCccHHHHHHHhcCCCCccH------HHHHHHHHHHHHhhcc-eEeHhhhccCCeeEECchhhHHHHHHHHHHcCCcc
Confidence 47777777773321 2331 1244446677654221 11234455668887777789999999999999865
No 58
>PRK14487 cbb3-type cytochrome c oxidase subunit II; Provisional
Probab=20.03 E-value=2.5e+02 Score=26.50 Aligned_cols=49 Identities=20% Similarity=0.293 Sum_probs=27.3
Q ss_pred hHHHHHHHHHHcCCCccchhHHHHHHHHhh-----------cChhhHHHHHHHHHHcCCC
Q 012091 329 NIAIKLGFLVKIGYECRTRELAAAMGSVTR-----------TSCENLQKVIGLFLSYGLS 377 (471)
Q Consensus 329 ~l~~~l~~L~~~G~~~~~~~~~~~~~~~~~-----------~~~~~l~~ki~~L~~lG~s 377 (471)
.+...+.-|+.+|++....++..+...+.. .....++.-+.||.++|-.
T Consensus 150 ~~~~~l~~l~~~gvPYt~~~i~~a~~~~~~~a~~~~~~~~~~~~te~~AliAYLq~LG~~ 209 (217)
T PRK14487 150 DTAEKMTALRVVGVPYTDEDIAGAKAAVKGKADPIADDGDPGEITEMDALIAYLQSLGTA 209 (217)
T ss_pred HHHHHHHHhhhcCCCCCHHHHHHHHHHHHHhhccccccccCCCccHHHHHHHHHHHhccc
Confidence 456666667777777766555444332211 1123466667777777654
Done!