Query 040691
Match_columns 585
No_of_seqs 302 out of 1220
Neff 7.4
Searched_HMMs 46136
Date Fri Mar 29 10:49:44 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/040691.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/040691hhsearch_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 2.4E-62 5.1E-67 534.0 32.4 372 140-576 66-448 (487)
2 PF02536 mTERF: mTERF; InterP 100.0 5.1E-50 1.1E-54 423.4 10.9 335 176-565 2-345 (345)
3 PLN03196 MOC1-like protein; Pr 100.0 3.8E-44 8.2E-49 391.1 25.6 334 174-568 66-413 (487)
4 PF02536 mTERF: mTERF; InterP 100.0 3.2E-35 7E-40 310.5 11.3 313 141-510 1-325 (345)
5 KOG1267 Mitochondrial transcri 99.9 1.5E-26 3.3E-31 250.0 15.7 326 121-543 76-411 (413)
6 KOG1267 Mitochondrial transcri 99.8 3.4E-20 7.3E-25 200.7 15.4 250 271-545 88-341 (413)
7 smart00733 Mterf Mitochondrial 97.1 0.00052 1.1E-08 45.2 2.8 30 482-512 2-31 (31)
8 smart00733 Mterf Mitochondrial 96.5 0.002 4.4E-08 42.3 2.2 29 293-322 2-30 (31)
9 PF11955 PORR: Plant organelle 93.1 0.36 7.9E-06 50.9 8.5 238 282-545 45-331 (335)
10 cd04790 HTH_Cfa-like_unk Helix 88.5 3.9 8.4E-05 39.0 9.9 144 142-294 19-167 (172)
11 cd04790 HTH_Cfa-like_unk Helix 86.8 7.8 0.00017 37.0 10.9 113 276-399 49-167 (172)
12 PF04695 Pex14_N: Peroxisomal 67.6 9.3 0.0002 35.0 4.8 30 273-302 22-51 (136)
13 PF04695 Pex14_N: Peroxisomal 63.2 13 0.00027 34.1 4.8 31 461-491 21-51 (136)
14 PF14490 HHH_4: Helix-hairpin- 62.1 25 0.00055 29.8 6.2 22 276-297 10-31 (94)
15 PF14490 HHH_4: Helix-hairpin- 54.7 22 0.00047 30.2 4.5 68 241-329 7-75 (94)
16 PRK00117 recX recombination re 53.9 92 0.002 28.8 9.1 23 311-333 130-152 (157)
17 PRK00117 recX recombination re 53.4 1.9E+02 0.004 26.7 11.8 73 277-370 81-153 (157)
18 PRK14135 recX recombination re 52.6 82 0.0018 31.9 9.2 79 277-370 181-259 (263)
19 PF02631 RecX: RecX family; I 49.4 76 0.0016 28.0 7.4 20 277-296 98-117 (121)
20 TIGR01448 recD_rel helicase, p 49.2 50 0.0011 38.8 7.8 89 203-297 74-166 (720)
21 KOG2561 Adaptor protein NUB1, 42.5 1.3E+02 0.0028 33.0 8.7 45 431-480 430-474 (568)
22 PF07499 RuvA_C: RuvA, C-termi 42.1 39 0.00084 24.8 3.6 28 205-232 2-29 (47)
23 PRK14135 recX recombination re 41.7 1.1E+02 0.0023 31.1 8.0 24 243-266 179-202 (263)
24 PF11955 PORR: Plant organelle 37.4 97 0.0021 32.9 7.0 228 290-528 22-293 (335)
25 PRK00116 ruvA Holliday junctio 36.4 1.1E+02 0.0024 29.6 6.8 25 310-334 149-173 (192)
26 PF00627 UBA: UBA/TS-N domain; 35.8 53 0.0011 22.6 3.3 22 466-487 5-26 (37)
27 PRK14136 recX recombination re 34.4 3.1E+02 0.0066 28.8 9.8 116 200-338 190-306 (309)
28 smart00165 UBA Ubiquitin assoc 33.5 67 0.0014 21.8 3.5 22 466-487 4-25 (37)
29 cd00194 UBA Ubiquitin Associat 33.1 67 0.0015 21.9 3.5 23 465-487 3-25 (38)
30 COG1125 OpuBA ABC-type proline 31.0 73 0.0016 32.7 4.5 63 462-524 72-137 (309)
31 PRK00116 ruvA Holliday junctio 30.8 1.4E+02 0.0031 28.8 6.6 25 346-370 149-173 (192)
32 PF02631 RecX: RecX family; I 30.6 1.3E+02 0.0028 26.5 5.8 25 345-369 94-118 (121)
33 COG4303 EutB Ethanolamine ammo 30.0 34 0.00073 35.7 2.0 27 126-152 413-439 (453)
34 TIGR01616 nitro_assoc nitrogen 29.8 57 0.0012 29.4 3.3 102 241-373 13-119 (126)
35 KOG0871 Class 2 transcription 29.7 1.3E+02 0.0028 27.9 5.4 50 432-481 71-120 (156)
36 COG2137 OraA Uncharacterized p 28.5 3.9E+02 0.0084 25.6 8.9 93 200-296 48-162 (174)
37 PF02787 CPSase_L_D3: Carbamoy 27.9 1.1E+02 0.0023 27.5 4.7 70 203-297 10-84 (123)
38 PF07499 RuvA_C: RuvA, C-termi 27.5 1.1E+02 0.0024 22.4 3.9 26 464-489 4-29 (47)
39 TIGR00601 rad23 UV excision re 27.3 2.2E+02 0.0047 30.8 7.7 54 349-411 247-300 (378)
40 TIGR01448 recD_rel helicase, p 26.6 1.1E+03 0.023 27.9 13.9 84 276-369 79-166 (720)
41 PRK14137 recX recombination re 25.8 5.1E+02 0.011 25.2 9.4 109 200-333 68-178 (195)
42 PF09280 XPC-binding: XPC-bind 25.5 1.2E+02 0.0026 23.6 4.0 42 361-410 11-52 (59)
43 PRK11613 folP dihydropteroate 24.6 2.4E+02 0.0051 29.2 7.2 75 497-579 164-238 (282)
44 COG1393 ArsC Arsenate reductas 24.3 98 0.0021 27.5 3.8 41 322-367 75-115 (117)
45 PF03960 ArsC: ArsC family; I 24.0 80 0.0017 27.3 3.2 79 242-342 9-91 (110)
46 cd08805 Death_ank1 Death domai 22.6 4E+02 0.0087 22.2 6.8 24 384-407 20-43 (84)
47 PRK14136 recX recombination re 22.0 9.3E+02 0.02 25.3 12.8 26 462-487 277-302 (309)
48 PHA01351 putative minor struct 21.7 1.3E+03 0.029 27.0 13.8 225 243-503 548-819 (1070)
49 PRK09875 putative hydrolase; P 21.6 5.6E+02 0.012 26.6 9.3 92 208-299 167-287 (292)
50 PF14518 Haem_oxygenas_2: Iron 21.3 74 0.0016 27.1 2.4 17 138-154 20-36 (106)
51 PRK14134 recX recombination re 20.9 5.6E+02 0.012 26.4 9.1 93 200-297 89-205 (283)
No 1
>PLN03196 MOC1-like protein; Provisional
Probab=100.00 E-value=2.4e-62 Score=534.03 Aligned_cols=372 Identities=22% Similarity=0.371 Sum_probs=309.3
Q ss_pred hHHHHHhcCCCCCccccC-CcccccCCCchHHHhhHHHHHHhCCCCcchHhHHHhhcccccccch-hhHHHHHHHHHhCC
Q 040691 140 FEPFFESLGLKPCEYSHL-LPRDLIFLNDDDLLLENYHVLCNYGFARKKIGMIYKEATEVFRYDF-GVLRSKLQAFEKLG 217 (585)
Q Consensus 140 ~~~fleslg~~~~~~~~l-lp~~~~fL~~~~~l~e~~~~L~~~Gi~~~kig~l~~~~~~ll~~~~-~~l~~~l~~L~~lG 217 (585)
...||+|+|++++++..+ +|.++ +.+.+.+.+|.++|++.++|+ ++|.++.++. .++.|+++||+++|
T Consensus 66 ~~~~L~~lgi~~~~l~~~~~p~~~------~~~~~~l~~L~s~G~~~~~i~----~~P~iL~~~v~~~l~Pvl~fL~~lG 135 (487)
T PLN03196 66 VLDFLRGIGIDPDELDGLELPSTV------DVMRERVEFLHKLGLTIEDIN----EYPLVLGCSVKKNMIPVLDYLEKLG 135 (487)
T ss_pred HHHHHHHcCCCchhhhccCCCccH------HHHHHHHHHHHHcCCChHHhc----cCcHHhhcCHhhhhHHHHHHHHHcC
Confidence 347999999999999876 45444 788999999999999999998 5899999986 58999999999999
Q ss_pred CCHHHHHHHHhhCCceeecChhhHHHHHHHHHHhCCCCcchhhhhhhcccc---cchh-hhHHHHHHHHhcCCCHHHHHH
Q 040691 218 LSQSFVRKVIVRNPKFLVGDVNLEFIKVLEILKSMGIEFSWIGEHSTEQST---FNWR-TMFSFLSFCSKIGCSEEQLRI 293 (585)
Q Consensus 218 ls~~~i~~ii~~~P~lL~~~v~~~l~p~v~~L~~lGl~~~~i~~~l~~~p~---~~~~-~l~~~l~fL~~lG~s~~~I~~ 293 (585)
++.++|+++|.++|.+|.+|++.++.|+++||+++|++++++++++...|. ++.. .+.++++||.++|++.++|++
T Consensus 136 ~s~~~i~~lI~~~P~lL~~sve~~L~P~v~fL~~lGvs~~~i~~~l~r~P~LL~~~~e~~l~p~v~fL~~lGvs~~~i~~ 215 (487)
T PLN03196 136 VTRSSLPELLRRYPQVLHASVVVDLAPVVKYLQGLDVKRQDIPRVLERYPELLGFKLEGTMSTSVAYLVSIGVAPRDIGP 215 (487)
T ss_pred CCHHHHHHHHHhCCceecccHHHHHHHHHHHHHHcCCCHHHHHHHHHhCchhhcCCHHHHHHHHHHHHHHcCCCHHHHHH
Confidence 999999999999999999999999999999888888877777777777772 3332 466677777777777777777
Q ss_pred HHHhCCcccccCccccHHHHHHHHHhcCCChhHHHHHHhhCCceeecccccchhHHHHHHHhhhhchHHHHHHHHhCCcc
Q 040691 294 LIRQHPEILFEDSGNMALSLVGFLLKFGTSMNEICLMFQQFPQIKLGEFFTNLRQCVVFLNEIEMEAKEIGNIVRTHPVL 373 (585)
Q Consensus 294 ii~~~P~lL~~~~e~~L~p~v~fL~~lG~~~~~i~~vl~~~P~lL~~s~e~~l~p~v~fL~~lG~~~~~I~~il~~~P~i 373 (585)
++.++|+||++++++++.|+++||.++|++.++|++++.++|++|+++++++++|+++||.++|++++++..++.++|.+
T Consensus 216 il~~~P~iL~~sve~~i~P~v~fL~~lGv~~~~I~~il~~~P~iL~~sle~~lkp~v~~L~elGv~~~~i~~lI~~~P~i 295 (487)
T PLN03196 216 MLTRFPEILGMRVGNNIKPKVDYLESLGLPRLAVARILEKRPYILGFDLEETVKPNVECLLEFGVRKEALPSVIAQYPDI 295 (487)
T ss_pred HHHhCcHHhhcChhhhHHHHHHHHHHcCCCHHHHHHHHHhCCceeEcCHHHhHHHHHHHHHHcCCCHHHHHHHHHhCCce
Confidence 77777777777777777777777777777777777777777777777777677777777777777777777777777777
Q ss_pred cccC---cccchHHHH-HHhCCChhHHHHHHHhCchhhHhhhhccCCCCCCcccccccchhHHHHHHHHHhCCCcchhhH
Q 040691 374 LGTC---ALKKTSSLL-TILKVGRKRLCAIILEDPQEMKKWVMGCRLKPLPRLQLKEEESDTLKAEFLLEVGFEENSKQF 449 (585)
Q Consensus 374 L~~~---~lk~~v~~L-~~lGl~~~~l~~ii~~~P~~L~~~~~g~~~~~~~~~~~~~~~~~~~k~~fL~~lG~~e~~~~~ 449 (585)
++.+ ++++.+++| ..+|++.+++..++.++|+++.
T Consensus 296 L~~s~e~kl~~~~~fL~~~lG~s~e~i~~~v~k~P~il~----------------------------------------- 334 (487)
T PLN03196 296 LGLDLKAKLAEQQYWLTSKLKIDPEDFGRVIEKLPQIVS----------------------------------------- 334 (487)
T ss_pred eEecHHHhhhHHHHHHHHhhCCCHHHHHHHHHhcchhhc-----------------------------------------
Confidence 7652 566666666 3577777777777777777662
Q ss_pred HHHHHHHhhccHHHHHHHHHHHHcCCCHHHHHHHHHhcCcccccCHHHHHHHHHHHHHhcCCCcccccccccccccchh-
Q 040691 450 ETALKDLRTRARDLRERFDLIVEAGLERKDVCDMVRVAPLILKQKKEVLKTKIDYFVNDFGYPISSLKPFPQYLMYNMK- 528 (585)
Q Consensus 450 ~~al~~~~~~~~~l~~rv~fL~~~G~s~~~v~~mI~~~P~iL~~s~e~L~~ki~fL~~~mg~~~~~l~~fP~~L~ysle- 528 (585)
...++++++++||+++||+.+||+.||+++|++|++|.++|++|++||+++||++.++|++||+||+||+|
T Consensus 335 --------lSe~kl~~kvefL~~~Gls~edI~~mv~k~P~lL~~S~~~l~~k~dFlvneMg~~~~~Iv~fP~~LsySLEk 406 (487)
T PLN03196 335 --------LNRNVALKHVEFLRGRGFSAQDVAKMVVRCPQILALNLEIMKPSLEFFKKEMKRPLKELVEFPAYFTYGLES 406 (487)
T ss_pred --------ccHHHHHHHHHHHHHcCCCHHHHHHHHHhCCceeeccHHHHHHHHHHHHHHhCCCHHHHHhChHHhccChhh
Confidence 11147899999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hHHHhHHHHHHHHHcCCCCCCcccccccccChHHHHHHHhhhCCChhH
Q 040691 529 TVKCRLSMYNWLKDRKLVEPTLALSTIITCSDKLFVTRYVNRHPGGHQ 576 (585)
Q Consensus 529 rikpR~~~~~~L~~~g~~~~~~sl~~il~~sd~~F~~~~v~~~p~~~~ 576 (585)
||+|||++ |+++|+ +++|+++|+|||++|+++|+..|.|+.+
T Consensus 407 RI~PR~~~---L~~kGl---~~sL~~~L~~sd~~F~~r~v~~y~e~~~ 448 (487)
T PLN03196 407 RIKPRYER---VAKKGI---KCSLAWFLNCSDDKFEQRMSGDFIEGEE 448 (487)
T ss_pred hhHHHHHH---HHHcCC---CCCHHHHhccCHHHHHHHHhhhcccccc
Confidence 99999975 889999 7899999999999999999999987543
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=5.1e-50 Score=423.37 Aligned_cols=335 Identities=25% Similarity=0.427 Sum_probs=205.5
Q ss_pred HHHHhCCCCcchHhHHHhhcccccccc-hhhHHHHHHHHHhCCCCHHHHHHHHhhCCceeecChhhHHHHHHHHHHhCCC
Q 040691 176 HVLCNYGFARKKIGMIYKEATEVFRYD-FGVLRSKLQAFEKLGLSQSFVRKVIVRNPKFLVGDVNLEFIKVLEILKSMGI 254 (585)
Q Consensus 176 ~~L~~~Gi~~~kig~l~~~~~~ll~~~-~~~l~~~l~~L~~lGls~~~i~~ii~~~P~lL~~~v~~~l~p~v~~L~~lGl 254 (585)
.+|.++|++...|..++++.|.++.++ ...+.++++||.++|++.+++++++.++|.+|..++++++.|++++|+++|+
T Consensus 2 ~~~~~~gf~~~~i~~~i~~~P~~l~~~~~~~l~pk~~fl~s~G~s~~~i~~il~~~P~il~~s~~~~i~p~~~~L~~~~~ 81 (345)
T PF02536_consen 2 DLLKNHGFSDSQISKLIRRYPRLLLCDPEKTLLPKLEFLRSLGFSSSDIAKILSKNPQILSRSLEKNIIPVFDFLKSIGL 81 (345)
T ss_dssp HHHHHHHHHTS-HHHHHH-H-HHHHT-SS-HHHHHHHHHHHTT--HHHHHHHHHH-GGGGGS--HHHHHHHHHHHTTTSS
T ss_pred hHHHHcCCCHHHHHHHHHhCCceEEecCccchhHHHHHHHHCCCCHHHHHHHHHhChHHHhccchhhHHHHHHHHHHHcC
Confidence 356777788888888877777776664 4577888888888888888888888888888888877777777777666666
Q ss_pred Ccchhhhhhhccc----ccchhhhHHHHHHHHhcCCCHHHHHHHHHhCCcccccCccccHHHHHHHHHhcCCChhHHHHH
Q 040691 255 EFSWIGEHSTEQS----TFNWRTMFSFLSFCSKIGCSEEQLRILIRQHPEILFEDSGNMALSLVGFLLKFGTSMNEICLM 330 (585)
Q Consensus 255 ~~~~i~~~l~~~p----~~~~~~l~~~l~fL~~lG~s~~~I~~ii~~~P~lL~~~~e~~L~p~v~fL~~lG~~~~~i~~v 330 (585)
+++++++++...| ......+.+.+.||+++|++.+.+.+++..+|.++... +.+.+.++++.++|+++++++++
T Consensus 82 s~~d~~~~l~r~p~~l~~~~~~~l~~~v~~L~~lGv~~~~~~~~l~~~~~~~~~~--~~~~~~v~~l~~lG~~~~~~~~v 159 (345)
T PF02536_consen 82 SDEDIVKVLKRYPRILSFSVEENLSPNVAFLRSLGVPPSQIISLLISRPPLFLSS--EKIKERVEFLKELGFDPEKIGRV 159 (345)
T ss_dssp -HHHHHHHHHH-SHHHHS---HHHHHHHHHHHHTT--HHHHHHHHHH-CHHHHS---HHHHCHHHHHCCCTSSHHHHCCC
T ss_pred CHHHHHHHHHhcchhhccchHhhhhhhhhHHhhcCCcHHHHHHHHHhcCccccch--hHHHHHHHHHHHhCCCchhhccc
Confidence 6565555555555 11222455555555555555555555555555544333 45555555555555555555555
Q ss_pred HhhCCceeecccccchhHHHHHHHhhhhchHHHHHHHHhCCcccccC---cccchHHHHHHhCCChhHHHHHHHhCchhh
Q 040691 331 FQQFPQIKLGEFFTNLRQCVVFLNEIEMEAKEIGNIVRTHPVLLGTC---ALKKTSSLLTILKVGRKRLCAIILEDPQEM 407 (585)
Q Consensus 331 l~~~P~lL~~s~e~~l~p~v~fL~~lG~~~~~I~~il~~~P~iL~~~---~lk~~v~~L~~lGl~~~~l~~ii~~~P~~L 407 (585)
+.++|.++..+.+++++|+++||+++|++.+++.+++.++|++++.+ .+++...++...|...+ .++.++|+++
T Consensus 160 i~~~P~~l~~~~~~~~~~~v~~L~~~G~~~~~i~~~l~~~P~~l~~s~~~~l~~~~~l~~~~~~~~~---~~i~~~p~il 236 (345)
T PF02536_consen 160 IAKNPRLLLSDSESELKPKVEFLRSLGFSKEDIGKLLRKCPRLLSLSVEKILEPVLYLLSSGGVEEE---RVIKKFPQIL 236 (345)
T ss_dssp HHHHHHHHCGSCCCCCHHHHHHHHHCTT-GHHHHHHHHHTTTGGGCGCHC------------------------------
T ss_pred ccccchhhccccHHHHHHHHHHHHhhcccchhhhHHhhcccceeccccccccccccccccccccccc---cccccccccc
Confidence 55555555555555555555555555555555555555555555542 23333333333333222 4455555544
Q ss_pred HhhhhccCCCCCCcccccccchhHHHHHHHHHhCCCcchhhHHHHHHHHhhccHHHHHHHHHHHHcCCCHHHHHHHHHhc
Q 040691 408 KKWVMGCRLKPLPRLQLKEEESDTLKAEFLLEVGFEENSKQFETALKDLRTRARDLRERFDLIVEAGLERKDVCDMVRVA 487 (585)
Q Consensus 408 ~~~~~g~~~~~~~~~~~~~~~~~~~k~~fL~~lG~~e~~~~~~~al~~~~~~~~~l~~rv~fL~~~G~s~~~v~~mI~~~ 487 (585)
....++++++++||+++||+.+||++|++++
T Consensus 237 -------------------------------------------------~~~~~~l~~~i~~L~~lG~s~~ei~~mv~~~ 267 (345)
T PF02536_consen 237 -------------------------------------------------SLSEEKLKPKIEFLQSLGFSEEEIAKMVRRF 267 (345)
T ss_dssp -------------------------------------------------THHHHHHHHHHHHHHTTT--HHHHHHHHHHS
T ss_pred -------------------------------------------------ccchHhHHHHHHHHHHhcCcHHHHHHHHHhC
Confidence 2222578999999999999999999999999
Q ss_pred CcccccCHHHHHHHHHHHHHhcCCCcccccccccccccchh-hHHHhHHHHHHHHHcCCCCCCcccccccccChHHHHH
Q 040691 488 PLILKQKKEVLKTKIDYFVNDFGYPISSLKPFPQYLMYNMK-TVKCRLSMYNWLKDRKLVEPTLALSTIITCSDKLFVT 565 (585)
Q Consensus 488 P~iL~~s~e~L~~ki~fL~~~mg~~~~~l~~fP~~L~ysle-rikpR~~~~~~L~~~g~~~~~~sl~~il~~sd~~F~~ 565 (585)
|+||++|.|+|++|++||+++||++.++|++||+||+||+| ||+|||+++++|+++|. ..++++++|+++||++|++
T Consensus 268 P~iL~~s~e~l~~k~~fl~~~m~~~~~~i~~~P~~l~~sLe~ri~PR~~~~~~l~~~g~-~~~~sl~~~l~~s~~~F~~ 345 (345)
T PF02536_consen 268 PQILSYSIEKLKPKFEFLVKEMGLPLEEIVEFPQYLSYSLEKRIKPRYEVLKVLKSKGL-IINPSLSSMLSCSDEEFLK 345 (345)
T ss_dssp GGGGGS-HHHHHHHHHHHHHCCT--HHHHHHSCHHHCS-HHHHHHHHHHHHHTT--TTT-GGGGGS-HHHHHHHHHHT-
T ss_pred cchhhcchhhhhHHHHHHHHHhCcCHHHHhhCCceeEechhhhhhhHHHHHHHHHHCcC-CCCCCHHHHhhccHHHhcC
Confidence 99999999999999999999999999999999999999999 99999999999999997 6689999999999999974
No 3
>PLN03196 MOC1-like protein; Provisional
Probab=100.00 E-value=3.8e-44 Score=391.12 Aligned_cols=334 Identities=18% Similarity=0.287 Sum_probs=298.2
Q ss_pred HHHHHHhCCCCcchHhHHHhhcccccccchhhHHHHHHHHHhCCCCHHHHHHHHhhCCceeecChhhHHHHHHHHHHhCC
Q 040691 174 NYHVLCNYGFARKKIGMIYKEATEVFRYDFGVLRSKLQAFEKLGLSQSFVRKVIVRNPKFLVGDVNLEFIKVLEILKSMG 253 (585)
Q Consensus 174 ~~~~L~~~Gi~~~kig~l~~~~~~ll~~~~~~l~~~l~~L~~lGls~~~i~~ii~~~P~lL~~~v~~~l~p~v~~L~~lG 253 (585)
.+++|.+.||+..++..+- +..+.+.++++++||+++|++.++|. ++|.+|.+++++++.|+++||+++|
T Consensus 66 ~~~~L~~lgi~~~~l~~~~------~p~~~~~~~~~l~~L~s~G~~~~~i~----~~P~iL~~~v~~~l~Pvl~fL~~lG 135 (487)
T PLN03196 66 VLDFLRGIGIDPDELDGLE------LPSTVDVMRERVEFLHKLGLTIEDIN----EYPLVLGCSVKKNMIPVLDYLEKLG 135 (487)
T ss_pred HHHHHHHcCCCchhhhccC------CCccHHHHHHHHHHHHHcCCChHHhc----cCcHHhhcCHhhhhHHHHHHHHHcC
Confidence 3688999999999987643 34578899999999999999999996 7999999999999999999999999
Q ss_pred CCcchhhhhhhcccc---cch-hhhHHHHHHHHhcCCCHHHHHHHHHhCCcccccCccccHHHHHHHHHhcCCChhHHHH
Q 040691 254 IEFSWIGEHSTEQST---FNW-RTMFSFLSFCSKIGCSEEQLRILIRQHPEILFEDSGNMALSLVGFLLKFGTSMNEICL 329 (585)
Q Consensus 254 l~~~~i~~~l~~~p~---~~~-~~l~~~l~fL~~lG~s~~~I~~ii~~~P~lL~~~~e~~L~p~v~fL~~lG~~~~~i~~ 329 (585)
++..++++++..+|. .+. .++.++++||+++|++.++|++++.++|++|++++++++.|+++||.++|++.+++++
T Consensus 136 ~s~~~i~~lI~~~P~lL~~sve~~L~P~v~fL~~lGvs~~~i~~~l~r~P~LL~~~~e~~l~p~v~fL~~lGvs~~~i~~ 215 (487)
T PLN03196 136 VTRSSLPELLRRYPQVLHASVVVDLAPVVKYLQGLDVKRQDIPRVLERYPELLGFKLEGTMSTSVAYLVSIGVAPRDIGP 215 (487)
T ss_pred CCHHHHHHHHHhCCceecccHHHHHHHHHHHHHHcCCCHHHHHHHHHhCchhhcCCHHHHHHHHHHHHHHcCCCHHHHHH
Confidence 999999999999993 343 4788999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhCCceeecccccchhHHHHHHHhhhhchHHHHHHHHhCCcccccC---cccchHHHHHHhCCChhHHHHHHHhCchh
Q 040691 330 MFQQFPQIKLGEFFTNLRQCVVFLNEIEMEAKEIGNIVRTHPVLLGTC---ALKKTSSLLTILKVGRKRLCAIILEDPQE 406 (585)
Q Consensus 330 vl~~~P~lL~~s~e~~l~p~v~fL~~lG~~~~~I~~il~~~P~iL~~~---~lk~~v~~L~~lGl~~~~l~~ii~~~P~~ 406 (585)
++.++|++|+++++++++|+++||+++|++.++|++++.++|++|+++ +++|++++|.++|++++.++.+|..+|.+
T Consensus 216 il~~~P~iL~~sve~~i~P~v~fL~~lGv~~~~I~~il~~~P~iL~~sle~~lkp~v~~L~elGv~~~~i~~lI~~~P~i 295 (487)
T PLN03196 216 MLTRFPEILGMRVGNNIKPKVDYLESLGLPRLAVARILEKRPYILGFDLEETVKPNVECLLEFGVRKEALPSVIAQYPDI 295 (487)
T ss_pred HHHhCcHHhhcChhhhHHHHHHHHHHcCCCHHHHHHHHHhCCceeEcCHHHhHHHHHHHHHHcCCCHHHHHHHHHhCCce
Confidence 999999999999999999999999999999999999999999999984 89999999999999999999999999998
Q ss_pred hHhhhhccCCCCCCcccccccchhHHHHHHHHHhCCCcchhhHHHHHHHHhhccHHHHHHHHHHH-HcCCCHHHHHHHHH
Q 040691 407 MKKWVMGCRLKPLPRLQLKEEESDTLKAEFLLEVGFEENSKQFETALKDLRTRARDLRERFDLIV-EAGLERKDVCDMVR 485 (585)
Q Consensus 407 L~~~~~g~~~~~~~~~~~~~~~~~~~k~~fL~~lG~~e~~~~~~~al~~~~~~~~~l~~rv~fL~-~~G~s~~~v~~mI~ 485 (585)
+. .+ + .+++.++++|+. ++|++.+++..+|.
T Consensus 296 L~-----~s--------------~-----------------------------e~kl~~~~~fL~~~lG~s~e~i~~~v~ 327 (487)
T PLN03196 296 LG-----LD--------------L-----------------------------KAKLAEQQYWLTSKLKIDPEDFGRVIE 327 (487)
T ss_pred eE-----ec--------------H-----------------------------HHhhhHHHHHHHHhhCCCHHHHHHHHH
Confidence 83 10 0 135788888997 99999999999999
Q ss_pred hcCcccccCHHHHHHHHHHHHHhcCCCcccc----cccccccccchhhHHHhHHHHHHHHHcCCCCCCc-ccccccccC-
Q 040691 486 VAPLILKQKKEVLKTKIDYFVNDFGYPISSL----KPFPQYLMYNMKTVKCRLSMYNWLKDRKLVEPTL-ALSTIITCS- 559 (585)
Q Consensus 486 ~~P~iL~~s~e~L~~ki~fL~~~mg~~~~~l----~~fP~~L~yslerikpR~~~~~~L~~~g~~~~~~-sl~~il~~s- 559 (585)
++|+++++|.+++++|++||.+ +|++.+++ .++|++|+||.+.|++++.++ ..+.|.-...+ ...+++++|
T Consensus 328 k~P~il~lSe~kl~~kvefL~~-~Gls~edI~~mv~k~P~lL~~S~~~l~~k~dFl--vneMg~~~~~Iv~fP~~LsySL 404 (487)
T PLN03196 328 KLPQIVSLNRNVALKHVEFLRG-RGFSAQDVAKMVVRCPQILALNLEIMKPSLEFF--KKEMKRPLKELVEFPAYFTYGL 404 (487)
T ss_pred hcchhhcccHHHHHHHHHHHHH-cCCCHHHHHHHHHhCCceeeccHHHHHHHHHHH--HHHhCCCHHHHHhChHHhccCh
Confidence 9999999999999999999997 99999987 699999999999999999863 33455522222 466778877
Q ss_pred hHHHHHHHh
Q 040691 560 DKLFVTRYV 568 (585)
Q Consensus 560 d~~F~~~~v 568 (585)
|++-.-||-
T Consensus 405 EkRI~PR~~ 413 (487)
T PLN03196 405 ESRIKPRYE 413 (487)
T ss_pred hhhhHHHHH
Confidence 456666653
No 4
>PF02536 mTERF: mTERF; InterPro: IPR003690 This family currently contains one sequence of known function human mitochondrial transcription termination factor (mTERF), a multizipper protein but binds to DNA as a monomer, with evidence pointing to intramolecular leucine zipper interactions []. The precursors contain a mitochondrial targeting sequence, and the mature mTERF exhibits three leucine zippers, of which one is bipartite, and two widely spaced basic domains. Both basic domains and the three leucine zipper motifs are necessary for DNA binding. The leucine zippers are not implicated in a dimerisation role as in other leucine zippers []. The rest of the family consists of hypothetical proteins none of which have any functional information.; PDB: 3M66_A 3OPG_A 3MVA_O 3MVB_O 3N7Q_A 3N6S_A.
Probab=100.00 E-value=3.2e-35 Score=310.53 Aligned_cols=313 Identities=20% Similarity=0.337 Sum_probs=234.8
Q ss_pred HHHHHhcCCCCCccccCCcc--cccCCCchHHHhhHHHHHHhCCCCcchHhHHHhhcccccccc-hhhHHHHHHHHHhCC
Q 040691 141 EPFFESLGLKPCEYSHLLPR--DLIFLNDDDLLLENYHVLCNYGFARKKIGMIYKEATEVFRYD-FGVLRSKLQAFEKLG 217 (585)
Q Consensus 141 ~~fleslg~~~~~~~~llp~--~~~fL~~~~~l~e~~~~L~~~Gi~~~kig~l~~~~~~ll~~~-~~~l~~~l~~L~~lG 217 (585)
|.+|++.|+...++..+..+ .....+.+..+...+.+|++.|++..++++++..+|+++..+ ...+.+.++||+++|
T Consensus 1 ~~~~~~~gf~~~~i~~~i~~~P~~l~~~~~~~l~pk~~fl~s~G~s~~~i~~il~~~P~il~~s~~~~i~p~~~~L~~~~ 80 (345)
T PF02536_consen 1 EDLLKNHGFSDSQISKLIRRYPRLLLCDPEKTLLPKLEFLRSLGFSSSDIAKILSKNPQILSRSLEKNIIPVFDFLKSIG 80 (345)
T ss_dssp -HHHHHHHHHTS-HHHHHH-H-HHHHT-SS-HHHHHHHHHHHTT--HHHHHHHHHH-GGGGGS--HHHHHHHHHHHTTTS
T ss_pred ChHHHHcCCCHHHHHHHHHhCCceEEecCccchhHHHHHHHHCCCCHHHHHHHHHhChHHHhccchhhHHHHHHHHHHHc
Confidence 46899999999999888543 233445777889999999999999999999999999999999 789999999999999
Q ss_pred CCHHHHHHHHhhCCceeecChhhHHHHHHHHHHhCCCCcchhhhhhhcccc--cchhhhHHHHHHHHhcCCCHHHHHHHH
Q 040691 218 LSQSFVRKVIVRNPKFLVGDVNLEFIKVLEILKSMGIEFSWIGEHSTEQST--FNWRTMFSFLSFCSKIGCSEEQLRILI 295 (585)
Q Consensus 218 ls~~~i~~ii~~~P~lL~~~v~~~l~p~v~~L~~lGl~~~~i~~~l~~~p~--~~~~~l~~~l~fL~~lG~s~~~I~~ii 295 (585)
++++++.+++.++|++|..+.+.++.+.+++|+++|++.+.+.+.+...|. .....+.+.++++.++|++++++.+++
T Consensus 81 ~s~~d~~~~l~r~p~~l~~~~~~~l~~~v~~L~~lGv~~~~~~~~l~~~~~~~~~~~~~~~~v~~l~~lG~~~~~~~~vi 160 (345)
T PF02536_consen 81 LSDEDIVKVLKRYPRILSFSVEENLSPNVAFLRSLGVPPSQIISLLISRPPLFLSSEKIKERVEFLKELGFDPEKIGRVI 160 (345)
T ss_dssp S-HHHHHHHHHH-SHHHHS---HHHHHHHHHHHHTT--HHHHHHHHHH-CHHHHS-HHHHCHHHHHCCCTSSHHHHCCCH
T ss_pred CCHHHHHHHHHhcchhhccchHhhhhhhhhHHhhcCCcHHHHHHHHHhcCccccchhHHHHHHHHHHHhCCCchhhcccc
Confidence 999999999999999999988888999999999999999978777777662 223788899999999999999999999
Q ss_pred HhCCcccccCccccHHHHHHHHHhcCCChhHHHHHHhhCCceeecccccchhHHHHHHHhhhhchHHHHHHHHhCCcccc
Q 040691 296 RQHPEILFEDSGNMALSLVGFLLKFGTSMNEICLMFQQFPQIKLGEFFTNLRQCVVFLNEIEMEAKEIGNIVRTHPVLLG 375 (585)
Q Consensus 296 ~~~P~lL~~~~e~~L~p~v~fL~~lG~~~~~i~~vl~~~P~lL~~s~e~~l~p~v~fL~~lG~~~~~I~~il~~~P~iL~ 375 (585)
.++|+++..+.+++++|+++||+++|++.+++++++.++|.+++.+.++.+.+...++...|...+ .++.++|.+++
T Consensus 161 ~~~P~~l~~~~~~~~~~~v~~L~~~G~~~~~i~~~l~~~P~~l~~s~~~~l~~~~~l~~~~~~~~~---~~i~~~p~il~ 237 (345)
T PF02536_consen 161 AKNPRLLLSDSESELKPKVEFLRSLGFSKEDIGKLLRKCPRLLSLSVEKILEPVLYLLSSGGVEEE---RVIKKFPQILS 237 (345)
T ss_dssp HHHHHHHCGSCCCCCHHHHHHHHHCTT-GHHHHHHHHHTTTGGGCGCHC------------------------------T
T ss_pred cccchhhccccHHHHHHHHHHHHhhcccchhhhHHhhcccceeccccccccccccccccccccccc---ccccccccccc
Confidence 999999999999999999999999999999999999999999999999777766666666555555 88999999998
Q ss_pred c--CcccchHHHHHHhCCChhHHHHHHHhCchhhHhhhhccCCCCCCcccccccchhHHHHHHHHHhCCCcchhhHHHHH
Q 040691 376 T--CALKKTSSLLTILKVGRKRLCAIILEDPQEMKKWVMGCRLKPLPRLQLKEEESDTLKAEFLLEVGFEENSKQFETAL 453 (585)
Q Consensus 376 ~--~~lk~~v~~L~~lGl~~~~l~~ii~~~P~~L~~~~~g~~~~~~~~~~~~~~~~~~~k~~fL~~lG~~e~~~~~~~al 453 (585)
+ +++++++++|.++|++.+++++|+.++|++|.. +
T Consensus 238 ~~~~~l~~~i~~L~~lG~s~~ei~~mv~~~P~iL~~----------------s--------------------------- 274 (345)
T PF02536_consen 238 LSEEKLKPKIEFLQSLGFSEEEIAKMVRRFPQILSY----------------S--------------------------- 274 (345)
T ss_dssp HHHHHHHHHHHHHHTTT--HHHHHHHHHHSGGGGGS--------------------------------------------
T ss_pred cchHhHHHHHHHHHHhcCcHHHHHHHHHhCcchhhc----------------c---------------------------
Confidence 7 479999999999999999999999999999931 1
Q ss_pred HHHhhccHHHHHHHHHHH-HcCCCHHHHHHHHHhcCcccccCHH-HHHHH---HHHHHHhcC
Q 040691 454 KDLRTRARDLRERFDLIV-EAGLERKDVCDMVRVAPLILKQKKE-VLKTK---IDYFVNDFG 510 (585)
Q Consensus 454 ~~~~~~~~~l~~rv~fL~-~~G~s~~~v~~mI~~~P~iL~~s~e-~L~~k---i~fL~~~mg 510 (585)
.+.++++++||. ++|++.++|. ++|++|+||.| +|+|+ +++|.+ .|
T Consensus 275 ------~e~l~~k~~fl~~~m~~~~~~i~----~~P~~l~~sLe~ri~PR~~~~~~l~~-~g 325 (345)
T PF02536_consen 275 ------IEKLKPKFEFLVKEMGLPLEEIV----EFPQYLSYSLEKRIKPRYEVLKVLKS-KG 325 (345)
T ss_dssp ------HHHHHHHHHHHHHCCT--HHHHH----HSCHHHCS-HHHHHHHHHHHHHTT---TT
T ss_pred ------hhhhhHHHHHHHHHhCcCHHHHh----hCCceeEechhhhhhhHHHHHHHHHH-Cc
Confidence 146899999999 8999998874 89999999999 79999 666555 35
No 5
>KOG1267 consensus Mitochondrial transcription termination factor, mTERF [Transcription; General function prediction only]
Probab=99.94 E-value=1.5e-26 Score=250.03 Aligned_cols=326 Identities=22% Similarity=0.355 Sum_probs=236.4
Q ss_pred chhHHHHHHHHhhhCCCcchHHHHHhcCCCCCccccCCcc--cccCCCchHHHhhHHHHHHhCCCCcchHhHHHhhcccc
Q 040691 121 EENIGRAITRFFRYHPVNEFEPFFESLGLKPCEYSHLLPR--DLIFLNDDDLLLENYHVLCNYGFARKKIGMIYKEATEV 198 (585)
Q Consensus 121 ~~~~~~~~~r~l~~~~i~e~~~fleslg~~~~~~~~llp~--~~~fL~~~~~l~e~~~~L~~~Gi~~~kig~l~~~~~~l 198 (585)
....++.+.-...++|...+. +|+|+|++..+++.+.+. ...++++..
T Consensus 76 ~~~~~~~~~~~~~~~p~s~~~-~l~s~g~~~~~i~s~i~~~p~ll~~~~~~----------------------------- 125 (413)
T KOG1267|consen 76 ARKLSREVSSEDSVNPSSVLS-SLRSLGFTDSQISSIILSSPKLLYLSSEN----------------------------- 125 (413)
T ss_pred HHHHHHHHHhhhccCcHHHHH-HHHhcCCchhhcccccccCchhhhccchh-----------------------------
Confidence 334456667777778888877 999999999999887543 222333333
Q ss_pred cccchhhHHHHHHHHHhCCCCHHHHHHHHhhCCceeecChhhHHHHHHHHHHhCC--CCcchhhhhhhccc--ccchhhh
Q 040691 199 FRYDFGVLRSKLQAFEKLGLSQSFVRKVIVRNPKFLVGDVNLEFIKVLEILKSMG--IEFSWIGEHSTEQS--TFNWRTM 274 (585)
Q Consensus 199 l~~~~~~l~~~l~~L~~lGls~~~i~~ii~~~P~lL~~~v~~~l~p~v~~L~~lG--l~~~~i~~~l~~~p--~~~~~~l 274 (585)
.+.+++.++...|++...+.+++...|.+|...-+..+.+.+++|++++ .....+.+++...| ...|..+
T Consensus 126 ------~l~~~~~~l~~~g~~~s~l~~i~s~~~~il~~~~~~~~~~~~~~l~~~~~~~~~s~~~~~~~~~~~~~~~~~~v 199 (413)
T KOG1267|consen 126 ------ILKPKLRLLDSLGLPSSELSSIVSVVPKILLKSKGESLSTFIEFLKSIPPELLSSVVERLLTPVPSFLLNENSV 199 (413)
T ss_pred ------hhhhhhhhhhccCccccccchhhhccHHHHHhhcCCchhhHHHHhhccchhhhhhHHHHhcccccccccccccc
Confidence 3344444445555555555555555555555444444555555555542 44444555555545 3444455
Q ss_pred HHHHHHHHhcCCCHHHHHHHHHhCCcccccCccccHHHHHHHHHhcCCChhHHHHHHhhCCceeecccccchhHHHHHHH
Q 040691 275 FSFLSFCSKIGCSEEQLRILIRQHPEILFEDSGNMALSLVGFLLKFGTSMNEICLMFQQFPQIKLGEFFTNLRQCVVFLN 354 (585)
Q Consensus 275 ~~~l~fL~~lG~s~~~I~~ii~~~P~lL~~~~e~~L~p~v~fL~~lG~~~~~i~~vl~~~P~lL~~s~e~~l~p~v~fL~ 354 (585)
. .+++++++|....++...+..+|.++.... .+...+.++..+|+.+.. +++.++|.++.++.++.++|++++|+
T Consensus 200 ~-~~~~~~~lg~~~~~L~~~l~~~~~~~~~~~--~l~~~~~~i~~~g~~p~~--~~~v~~~~~~~~~~~~~i~~kv~~l~ 274 (413)
T KOG1267|consen 200 E-RLDIRRELGVKPRLLKSLLESQPRPVLLYL--KLKARLPFLLTLGFDPKT--REFVKAPILLSYSSEKTLEPKVEVLK 274 (413)
T ss_pred c-cchhhHHhCCCHHHHHHHHhcCccceeeeh--hhhhhhhhHHHhccCCch--hHHHhhhhhhcccccccHHHHHHHHH
Confidence 4 677788888888888888888888776543 677777788888876665 77888888888888888888888888
Q ss_pred hhhhchHHHHHHHHhCCcccccC--cccchHHHHHHhCCChhHHHHHHHhCchhhHhhhhccCCCCCCcccccccchhHH
Q 040691 355 EIEMEAKEIGNIVRTHPVLLGTC--ALKKTSSLLTILKVGRKRLCAIILEDPQEMKKWVMGCRLKPLPRLQLKEEESDTL 432 (585)
Q Consensus 355 ~lG~~~~~I~~il~~~P~iL~~~--~lk~~v~~L~~lGl~~~~l~~ii~~~P~~L~~~~~g~~~~~~~~~~~~~~~~~~~ 432 (585)
++|++.+||.+++.++|++++++ ....+.+++.+. .++ +.++|+++.
T Consensus 275 ~~Gf~~~di~~~~~k~P~~l~~s~~~~~~~~~~~~~~--~~~-----~~k~p~~l~------------------------ 323 (413)
T KOG1267|consen 275 SLGFSREEIWKMVKKCPQILGYSVKKNLKTTEYLLKN--PKH-----ILKFPQLLR------------------------ 323 (413)
T ss_pred HcCCCHHHHHHHHHhCchheEeehhhhhHHHHHHHhc--chh-----hhhhhhhhh------------------------
Confidence 88888888888888888888774 334445555444 222 667777762
Q ss_pred HHHHHHHhCCCcchhhHHHHHHHHhhccHHHHHHHHHHHHcCCCHHHHHHHHHhcCcccccCHH-HHHHHHHHHHHhcCC
Q 040691 433 KAEFLLEVGFEENSKQFETALKDLRTRARDLRERFDLIVEAGLERKDVCDMVRVAPLILKQKKE-VLKTKIDYFVNDFGY 511 (585)
Q Consensus 433 k~~fL~~lG~~e~~~~~~~al~~~~~~~~~l~~rv~fL~~~G~s~~~v~~mI~~~P~iL~~s~e-~L~~ki~fL~~~mg~ 511 (585)
.....++++++|+...|++..++..|++++|+++++|.+ .++.+.+|+.+.|++
T Consensus 324 -------------------------~s~~~l~~~ie~l~~~g~~~~q~~~~~~~~Pq~l~~s~~~~~~~~~~~~~~~~~~ 378 (413)
T KOG1267|consen 324 -------------------------SSEDKLKPRIEFLLSLGFSDVQILEMVKRFPQYLSFSLEKILKRKYEYLLKGLLR 378 (413)
T ss_pred -------------------------ccchhhhhhHHHHHHcCCcHHHHHHHHhhccHHhhhhHHhhhhhhHHHHHHHcCc
Confidence 112478999999999999999999999999999999999 999999999999999
Q ss_pred Ccccccccccccccchh-hHHHhHHHHHHHHHc
Q 040691 512 PISSLKPFPQYLMYNMK-TVKCRLSMYNWLKDR 543 (585)
Q Consensus 512 ~~~~l~~fP~~L~ysle-rikpR~~~~~~L~~~ 543 (585)
+.+.++.+|++++|++| |++||+.++.++..+
T Consensus 379 p~~~~~~~p~~~~y~le~ri~pr~~~~~~~~~~ 411 (413)
T KOG1267|consen 379 PLSALVSFPAFFGYSLEKRIRPRFNVIKKLGVK 411 (413)
T ss_pred hHHHHhccchhhccchhhcchhHHHHHHHHhcc
Confidence 99999999999999999 999999988777654
No 6
>KOG1267 consensus Mitochondrial transcription termination factor, mTERF [Transcription; General function prediction only]
Probab=99.83 E-value=3.4e-20 Score=200.67 Aligned_cols=250 Identities=20% Similarity=0.303 Sum_probs=219.2
Q ss_pred hhhhHHHHHHHHhcCCCHHHHHHHHHhCCcccccCccccHHHHHHHHHhcCCChhHHHHHHhhCCceeecccccchhHHH
Q 040691 271 WRTMFSFLSFCSKIGCSEEQLRILIRQHPEILFEDSGNMALSLVGFLLKFGTSMNEICLMFQQFPQIKLGEFFTNLRQCV 350 (585)
Q Consensus 271 ~~~l~~~l~fL~~lG~s~~~I~~ii~~~P~lL~~~~e~~L~p~v~fL~~lG~~~~~i~~vl~~~P~lL~~s~e~~l~p~v 350 (585)
..+...++++|++.|+++.+|.+++..+|.++..+.++.+.|+..+|...|.+...+++++...|.+|+.+.+.++.+.+
T Consensus 88 ~~~p~s~~~~l~s~g~~~~~i~s~i~~~p~ll~~~~~~~l~~~~~~l~~~g~~~s~l~~i~s~~~~il~~~~~~~~~~~~ 167 (413)
T KOG1267|consen 88 SVNPSSVLSSLRSLGFTDSQISSIILSSPKLLYLSSENILKPKLRLLDSLGLPSSELSSIVSVVPKILLKSKGESLSTFI 167 (413)
T ss_pred ccCcHHHHHHHHhcCCchhhcccccccCchhhhccchhhhhhhhhhhhccCccccccchhhhccHHHHHhhcCCchhhHH
Confidence 34456778999999999999999999999999999999999999999999999999999999999999988888999999
Q ss_pred HHHHhhh--hchHHHHHHHHhCCccccc-CcccchHHHHHHhCCChhHHHHHHHhCchhhHhhhhccCCCCCCccccccc
Q 040691 351 VFLNEIE--MEAKEIGNIVRTHPVLLGT-CALKKTSSLLTILKVGRKRLCAIILEDPQEMKKWVMGCRLKPLPRLQLKEE 427 (585)
Q Consensus 351 ~fL~~lG--~~~~~I~~il~~~P~iL~~-~~lk~~v~~L~~lGl~~~~l~~ii~~~P~~L~~~~~g~~~~~~~~~~~~~~ 427 (585)
+||++++ .....+.+++...|..... ..++ ++++++.+|..+..+..++..+|+... ..
T Consensus 168 ~~l~~~~~~~~~s~~~~~~~~~~~~~~~~~~v~-~~~~~~~lg~~~~~L~~~l~~~~~~~~-----------------~~ 229 (413)
T KOG1267|consen 168 EFLKSIPPELLSSVVERLLTPVPSFLLNENSVE-RLDIRRELGVKPRLLKSLLESQPRPVL-----------------LY 229 (413)
T ss_pred HHhhccchhhhhhHHHHhccccccccccccccc-cchhhHHhCCCHHHHHHHHhcCcccee-----------------ee
Confidence 9999985 6677777777666644433 4566 899999999999999999999999873 12
Q ss_pred chhHHHHHHHHHhCCCcchhhHHHHHHHHhhccH-HHHHHHHHHHHcCCCHHHHHHHHHhcCcccccCHHHHHHHHHHHH
Q 040691 428 ESDTLKAEFLLEVGFEENSKQFETALKDLRTRAR-DLRERFDLIVEAGLERKDVCDMVRVAPLILKQKKEVLKTKIDYFV 506 (585)
Q Consensus 428 ~~~~~k~~fL~~lG~~e~~~~~~~al~~~~~~~~-~l~~rv~fL~~~G~s~~~v~~mI~~~P~iL~~s~e~L~~ki~fL~ 506 (585)
..+..++.++..+||++.+.++++|+..+.+.++ ++++++++|.+.||+.+||+.|++++|++|++|.+.+..+++|+.
T Consensus 230 ~~l~~~~~~i~~~g~~p~~~~~v~~~~~~~~~~~~~i~~kv~~l~~~Gf~~~di~~~~~k~P~~l~~s~~~~~~~~~~~~ 309 (413)
T KOG1267|consen 230 LKLKARLPFLLTLGFDPKTREFVKAPILLSYSSEKTLEPKVEVLKSLGFSREEIWKMVKKCPQILGYSVKKNLKTTEYLL 309 (413)
T ss_pred hhhhhhhhhHHHhccCCchhHHHhhhhhhcccccccHHHHHHHHHHcCCCHHHHHHHHHhCchheEeehhhhhHHHHHHH
Confidence 2677888999999999999999999999988775 999999999999999999999999999999999999999999999
Q ss_pred HhcCCCcccccccccccccchhhHHHhHHHHHHHHHcCC
Q 040691 507 NDFGYPISSLKPFPQYLMYNMKTVKCRLSMYNWLKDRKL 545 (585)
Q Consensus 507 ~~mg~~~~~l~~fP~~L~yslerikpR~~~~~~L~~~g~ 545 (585)
+. .+++.++|++++++...+.+|+.+ +...|.
T Consensus 310 ~~----~~~~~k~p~~l~~s~~~l~~~ie~---l~~~g~ 341 (413)
T KOG1267|consen 310 KN----PKHILKFPQLLRSSEDKLKPRIEF---LLSLGF 341 (413)
T ss_pred hc----chhhhhhhhhhhccchhhhhhHHH---HHHcCC
Confidence 86 333899999998888899999864 666665
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=97.06 E-value=0.00052 Score=45.22 Aligned_cols=30 Identities=23% Similarity=0.600 Sum_probs=27.0
Q ss_pred HHHHhcCcccccCHHHHHHHHHHHHHhcCCC
Q 040691 482 DMVRVAPLILKQKKEVLKTKIDYFVNDFGYP 512 (585)
Q Consensus 482 ~mI~~~P~iL~~s~e~L~~ki~fL~~~mg~~ 512 (585)
.+|.++|.+|+++.+.++++++||. ++|++
T Consensus 2 ~~~~~~P~il~~~~~~l~~~~~~l~-~~g~~ 31 (31)
T smart00733 2 KILKKFPQILGYSEKKLKPKVEFLK-ELGFS 31 (31)
T ss_pred chhhhCcCcccccHHHhhHHHHHHH-HcCCC
Confidence 5789999999999779999999999 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=96.45 E-value=0.002 Score=42.26 Aligned_cols=29 Identities=24% Similarity=0.348 Sum_probs=17.6
Q ss_pred HHHHhCCcccccCccccHHHHHHHHHhcCC
Q 040691 293 ILIRQHPEILFEDSGNMALSLVGFLLKFGT 322 (585)
Q Consensus 293 ~ii~~~P~lL~~~~e~~L~p~v~fL~~lG~ 322 (585)
+++.++|.+|+.+ ++++.|+++||+++|+
T Consensus 2 ~~~~~~P~il~~~-~~~l~~~~~~l~~~g~ 30 (31)
T smart00733 2 KILKKFPQILGYS-EKKLKPKVEFLKELGF 30 (31)
T ss_pred chhhhCcCccccc-HHHhhHHHHHHHHcCC
Confidence 3456666666655 5566666666666654
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=93.14 E-value=0.36 Score=50.93 Aligned_cols=238 Identities=14% Similarity=0.092 Sum_probs=135.4
Q ss_pred HhcCCCHHHHHHHHHhCCcccccCcc-c------cHHHHHHHHHh--cCCChhHHHHHHhhCCceeecccccchh-HHHH
Q 040691 282 SKIGCSEEQLRILIRQHPEILFEDSG-N------MALSLVGFLLK--FGTSMNEICLMFQQFPQIKLGEFFTNLR-QCVV 351 (585)
Q Consensus 282 ~~lG~s~~~I~~ii~~~P~lL~~~~e-~------~L~p~v~fL~~--lG~~~~~i~~vl~~~P~lL~~s~e~~l~-p~v~ 351 (585)
..+|+..-.+...+.++|.|+..... . .+.|...-|.+ ..+-.+.-..++.+--.+|.++.++.|. .++.
T Consensus 45 ~~L~l~~~~~~~flrkyP~iF~~~~~~~~~~~~~~LT~~a~~L~~eE~~~~~~~e~~~v~rL~KLLMMS~~~rlpL~ki~ 124 (335)
T PF11955_consen 45 RQLGLKPRKVSRFLRKYPSIFEVFQHPSRSVPWFRLTPEAEDLLREERRVREEMEPDLVERLRKLLMMSKDRRLPLSKIA 124 (335)
T ss_pred HhcCCCcccHHHHHHhCCceEEEeccCCCCCceEEeCHHHHHHHHHHHHHHHhChHHHHHHHHHHhccCCCCcccHHHHH
Confidence 34688768889999999999875431 1 13333333321 1111111133344444577777776543 4566
Q ss_pred HH-HhhhhchHHHHHHHHhCCcccccCcccc------hHHHHHHhCCChhHHHHHH-------------HhCchhhHhhh
Q 040691 352 FL-NEIEMEAKEIGNIVRTHPVLLGTCALKK------TSSLLTILKVGRKRLCAII-------------LEDPQEMKKWV 411 (585)
Q Consensus 352 fL-~~lG~~~~~I~~il~~~P~iL~~~~lk~------~v~~L~~lGl~~~~l~~ii-------------~~~P~~L~~~~ 411 (585)
.+ .++|++.+-...++.+||..|.-..... .+.+=.++.++.-+..... -.+|--+ -
T Consensus 125 ~l~~dLGLP~Df~~~lv~~yP~~Frvv~~~~~~~~LeLv~Wd~~LAvs~~E~~~~~~~~~~~~~~~~~~~~Fp~~f---p 201 (335)
T PF11955_consen 125 HLRRDLGLPDDFRDSLVPKYPDYFRVVDLEDGGRYLELVSWDPELAVSALEKRAEKEYREKREDGFDRPLAFPVSF---P 201 (335)
T ss_pred HHHHHcCCChhhccchhhhCCCCcEEeecCCCCCEEEEeecCCccCcCccchhhhhccccccccccCCceeeeecC---C
Confidence 66 5899999999999999999986411011 1111112333222221111 0112111 1
Q ss_pred hccCCCCCCcccccccchhHHHHHHHHHhCCC----------cchhhHH-HHHHHHhh---cc-H--HHHHHHHHHH-Hc
Q 040691 412 MGCRLKPLPRLQLKEEESDTLKAEFLLEVGFE----------ENSKQFE-TALKDLRT---RA-R--DLRERFDLIV-EA 473 (585)
Q Consensus 412 ~g~~~~~~~~~~~~~~~~~~~k~~fL~~lG~~----------e~~~~~~-~al~~~~~---~~-~--~l~~rv~fL~-~~ 473 (585)
-|. .-.....++++-.+++-|. +++.++. +|+.+++- +. + ...+++..|+ ++
T Consensus 202 ~G~----------~l~k~~~~~l~~fQ~lPy~SPYed~~~l~~~s~~~EKRaVaVlHElLSLTveKr~~~~~L~~fr~ef 271 (335)
T PF11955_consen 202 KGF----------RLKKKFREWLEEFQKLPYISPYEDASHLDPGSDEAEKRAVAVLHELLSLTVEKRTEVDHLTHFRKEF 271 (335)
T ss_pred CCc----------cccHHHHHHHHHHhcCCCCCCCCCccCCCCCChHHHhHHHHHHHHHHHhhhhhhccHHHHHHHHHHh
Confidence 122 1234556677777766554 3455553 77776653 11 2 5677888899 99
Q ss_pred CCCHHHHHHHHHhcCcccccCHHHHHHHHHHHHHhcCCCcccc-cccccccccchhhHHHhHHHHHHHHHcCC
Q 040691 474 GLERKDVCDMVRVAPLILKQKKEVLKTKIDYFVNDFGYPISSL-KPFPQYLMYNMKTVKCRLSMYNWLKDRKL 545 (585)
Q Consensus 474 G~s~~~v~~mI~~~P~iL~~s~e~L~~ki~fL~~~mg~~~~~l-~~fP~~L~yslerikpR~~~~~~L~~~g~ 545 (585)
|++. .+..|+.++|.|+..|... ..-.-||.+ +|...++ .++|.+ .++-||. -|+..|.
T Consensus 272 ~lp~-k~~~~l~rHPgIFYvS~kg-~~~TVfLrE--AY~~~~Liek~Pl~------~~r~k~~---~Lm~~~~ 331 (335)
T PF11955_consen 272 GLPQ-KFRRLLLRHPGIFYVSLKG-KRHTVFLRE--AYDGGELIEKHPLV------VIREKFL---ELMQEGR 331 (335)
T ss_pred CCcH-HHHHHHHhCCCeEEEeccC-CceEEEEee--ccCCCCCCCCCchH------HHHHHHH---HHHhhcc
Confidence 9995 6899999999999998762 112234555 5555554 467754 6776664 3666554
No 10
>cd04790 HTH_Cfa-like_unk Helix-Turn-Helix DNA binding domain of putative Cfa-like transcription regulators. Putative helix-turn-helix (HTH) MerR-like transcription regulator; conserved, Cfa-like, unknown proteins (~172 a.a.). The N-terminal domain of these proteins appears to be related to the HTH domain of Cfa, a cyclopropane fatty acid synthase. These Cfa-like proteins have a unique C-terminal domain with conserved histidines (motif HXXFX7HXXF). Based on sequence similarity of the N-terminal domains, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domain
Probab=88.47 E-value=3.9 Score=39.03 Aligned_cols=144 Identities=16% Similarity=0.207 Sum_probs=66.4
Q ss_pred HHHHhcCCCCCccccCCcccccCCCchH-HHhhHHHHHHhCCCCcchHhHHHhhcccccccchhhHHHHHHHHH----hC
Q 040691 142 PFFESLGLKPCEYSHLLPRDLIFLNDDD-LLLENYHVLCNYGFARKKIGMIYKEATEVFRYDFGVLRSKLQAFE----KL 216 (585)
Q Consensus 142 ~fleslg~~~~~~~~llp~~~~fL~~~~-~l~e~~~~L~~~Gi~~~kig~l~~~~~~ll~~~~~~l~~~l~~L~----~l 216 (585)
.|.+..|+-+.... -+.+-.+.++++ .-+.....|.+.|++-+.|..++..... .-...+..+++.+. .+
T Consensus 19 RyYe~~GLl~p~~r--~~~gyR~Y~~~dl~rL~~I~~lr~~G~sL~eI~~ll~~~~~---~~~~~L~~~~~~l~~ei~~L 93 (172)
T cd04790 19 LYYERIGLLSPSAR--SESNYRLYGERDLERLEQICAYRSAGVSLEDIRSLLQQPGD---DATDVLRRRLAELNREIQRL 93 (172)
T ss_pred HHHHHCCCCCCCcc--CCCCCccCCHHHHHHHHHHHHHHHcCCCHHHHHHHHhcCCh---hHHHHHHHHHHHHHHHHHHH
Confidence 46777777643211 122333334332 2356667788888888888887643221 00112333333222 12
Q ss_pred CCCHHHHHHHHhhCCceeecChhhHHHHHHHHHHhCCCCcchhhhhhhcccccchhhhHHHHHHHHhcCCCHHHHHHH
Q 040691 217 GLSQSFVRKVIVRNPKFLVGDVNLEFIKVLEILKSMGIEFSWIGEHSTEQSTFNWRTMFSFLSFCSKIGCSEEQLRIL 294 (585)
Q Consensus 217 Gls~~~i~~ii~~~P~lL~~~v~~~l~p~v~~L~~lGl~~~~i~~~l~~~p~~~~~~l~~~l~fL~~lG~s~~~I~~i 294 (585)
--....+..++...+.. ...-..+....++-++..|++++++.+.=..+ .-..+....+||.++|++.+++..|
T Consensus 94 ~~~~~~l~~ll~~~~~~-~~~~~V~~~~w~~l~~~~g~~~~~m~~wh~~f---e~~~p~~h~~~l~~~g~~~~~~~~i 167 (172)
T cd04790 94 RQQQRAIATLLKQPTLL-KEQRLVTKEKWVAILKAAGMDEADMRRWHIEF---EKMEPEAHQEFLQSLGIPEDEIERI 167 (172)
T ss_pred HHHHHHHHHHHHHHhhc-cccccCCHHHHHHHHHHcCCChHHHHHHHHHH---HHhCcHHHHHHHHHcCCCHHHHHHH
Confidence 22223344444333332 11111123344555566676666543221111 1112344567777777777766554
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=86.78 E-value=7.8 Score=36.95 Aligned_cols=113 Identities=14% Similarity=0.165 Sum_probs=63.1
Q ss_pred HHHHHHHhcCCCHHHHHHHHHhCCcccccCccccHHHHHHHHHh----cCCChhHHHHHHhhCCceeecccccchhHHHH
Q 040691 276 SFLSFCSKIGCSEEQLRILIRQHPEILFEDSGNMALSLVGFLLK----FGTSMNEICLMFQQFPQIKLGEFFTNLRQCVV 351 (585)
Q Consensus 276 ~~l~fL~~lG~s~~~I~~ii~~~P~lL~~~~e~~L~p~v~fL~~----lG~~~~~i~~vl~~~P~lL~~s~e~~l~p~v~ 351 (585)
..+..|+++|++-++|..++.....- ....+..+++.+.. +--....+..++...+..-.-... +....++
T Consensus 49 ~~I~~lr~~G~sL~eI~~ll~~~~~~----~~~~L~~~~~~l~~ei~~L~~~~~~l~~ll~~~~~~~~~~~V-~~~~w~~ 123 (172)
T cd04790 49 EQICAYRSAGVSLEDIRSLLQQPGDD----ATDVLRRRLAELNREIQRLRQQQRAIATLLKQPTLLKEQRLV-TKEKWVA 123 (172)
T ss_pred HHHHHHHHcCCCHHHHHHHHhcCChh----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccC-CHHHHHH
Confidence 45777888999999999988765431 11123333333221 111233444444433333111111 2344566
Q ss_pred HHHhhhhchHHHHHHHHhCCcccccCcccch--HHHHHHhCCChhHHHHH
Q 040691 352 FLNEIEMEAKEIGNIVRTHPVLLGTCALKKT--SSLLTILKVGRKRLCAI 399 (585)
Q Consensus 352 fL~~lG~~~~~I~~il~~~P~iL~~~~lk~~--v~~L~~lGl~~~~l~~i 399 (585)
.++.+|+++++..+.=.. +.+..|- .+||..+|++.+++..+
T Consensus 124 l~~~~g~~~~~m~~wh~~------fe~~~p~~h~~~l~~~g~~~~~~~~i 167 (172)
T cd04790 124 ILKAAGMDEADMRRWHIE------FEKMEPEAHQEFLQSLGIPEDEIERI 167 (172)
T ss_pred HHHHcCCChHHHHHHHHH------HHHhCcHHHHHHHHHcCCCHHHHHHH
Confidence 678899998886544221 1344553 48999999998887654
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=67.62 E-value=9.3 Score=34.97 Aligned_cols=30 Identities=13% Similarity=0.154 Sum_probs=21.7
Q ss_pred hhHHHHHHHHhcCCCHHHHHHHHHhCCccc
Q 040691 273 TMFSFLSFCSKIGCSEEQLRILIRQHPEIL 302 (585)
Q Consensus 273 ~l~~~l~fL~~lG~s~~~I~~ii~~~P~lL 302 (585)
....+++||++.|+++++|..++.+.+.--
T Consensus 22 p~~~k~~FL~sKGLt~~EI~~al~~a~~~~ 51 (136)
T PF04695_consen 22 PLEKKIAFLESKGLTEEEIDEALGRAGSPP 51 (136)
T ss_dssp -HHHHHHHHHHCT--HHHHHHHHHHHT--S
T ss_pred CHHHHHHHHHcCCCCHHHHHHHHHhcCCcc
Confidence 456789999999999999999999876543
No 13
>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=63.20 E-value=13 Score=34.10 Aligned_cols=31 Identities=13% Similarity=0.218 Sum_probs=24.1
Q ss_pred HHHHHHHHHHHHcCCCHHHHHHHHHhcCccc
Q 040691 461 RDLRERFDLIVEAGLERKDVCDMVRVAPLIL 491 (585)
Q Consensus 461 ~~l~~rv~fL~~~G~s~~~v~~mI~~~P~iL 491 (585)
..+.+|++||++-|++.+||.+++.+.+.-=
T Consensus 21 sp~~~k~~FL~sKGLt~~EI~~al~~a~~~~ 51 (136)
T PF04695_consen 21 SPLEKKIAFLESKGLTEEEIDEALGRAGSPP 51 (136)
T ss_dssp S-HHHHHHHHHHCT--HHHHHHHHHHHT--S
T ss_pred CCHHHHHHHHHcCCCCHHHHHHHHHhcCCcc
Confidence 4789999999999999999999999988755
No 14
>PF14490 HHH_4: Helix-hairpin-helix containing domain; PDB: 3GPL_A 3E1S_A 3GP8_A.
Probab=62.06 E-value=25 Score=29.78 Aligned_cols=22 Identities=18% Similarity=0.322 Sum_probs=9.4
Q ss_pred HHHHHHHhcCCCHHHHHHHHHh
Q 040691 276 SFLSFCSKIGCSEEQLRILIRQ 297 (585)
Q Consensus 276 ~~l~fL~~lG~s~~~I~~ii~~ 297 (585)
..+.||..+|++.....++...
T Consensus 10 ~~~~~L~~~gl~~~~a~kl~~~ 31 (94)
T PF14490_consen 10 ELMAFLQEYGLSPKLAMKLYKK 31 (94)
T ss_dssp HHHHHHHHTT--HHHHHHHHHH
T ss_pred HHHHHHHHcCCCHHHHHHHHHH
Confidence 3445555555555444444443
No 15
>PF14490 HHH_4: Helix-hairpin-helix containing domain; PDB: 3GPL_A 3E1S_A 3GP8_A.
Probab=54.69 E-value=22 Score=30.24 Aligned_cols=68 Identities=15% Similarity=0.237 Sum_probs=35.4
Q ss_pred HHHHHHHHHHhCCCCcchhhhhhhcccccchhhhHHHHHHHHhcCCCHHHHHHHHHhCCcccccCccccHHHHHHHH-Hh
Q 040691 241 EFIKVLEILKSMGIEFSWIGEHSTEQSTFNWRTMFSFLSFCSKIGCSEEQLRILIRQHPEILFEDSGNMALSLVGFL-LK 319 (585)
Q Consensus 241 ~l~p~v~~L~~lGl~~~~i~~~l~~~p~~~~~~l~~~l~fL~~lG~s~~~I~~ii~~~P~lL~~~~e~~L~p~v~fL-~~ 319 (585)
.+..++.+|.+.|++.....++... .|- +...+|..+|..|..++..-=-.+++.+ .+
T Consensus 7 ~~~~~~~~L~~~gl~~~~a~kl~~~------------------yg~---~ai~~l~~nPY~L~~~i~gi~F~~aD~iA~~ 65 (94)
T PF14490_consen 7 GLRELMAFLQEYGLSPKLAMKLYKK------------------YGD---DAIEILKENPYRLIEDIDGIGFKTADKIALK 65 (94)
T ss_dssp --HHHHHHHHHTT--HHHHHHHHHH------------------H-T---THHHHHHH-STCCCB-SSSSBHHHHHHHHHT
T ss_pred HHHHHHHHHHHcCCCHHHHHHHHHH------------------HhH---HHHHHHHHChHHHHHHccCCCHHHHHHHHHH
Confidence 4566778888888887766554433 231 3447889999999875543334444444 35
Q ss_pred cCCChhHHHH
Q 040691 320 FGTSMNEICL 329 (585)
Q Consensus 320 lG~~~~~i~~ 329 (585)
+|++.++-.+
T Consensus 66 ~g~~~~d~~R 75 (94)
T PF14490_consen 66 LGIEPDDPRR 75 (94)
T ss_dssp TT--TT-HHH
T ss_pred cCCCCCCHHH
Confidence 6666555433
No 16
>PRK00117 recX recombination regulator RecX; Reviewed
Probab=53.90 E-value=92 Score=28.82 Aligned_cols=23 Identities=35% Similarity=0.450 Sum_probs=15.4
Q ss_pred HHHHHHHHhcCCChhHHHHHHhh
Q 040691 311 LSLVGFLLKFGTSMNEICLMFQQ 333 (585)
Q Consensus 311 ~p~v~fL~~lG~~~~~i~~vl~~ 333 (585)
...+.+|..-|++.+.|..++..
T Consensus 130 ~Ki~~~L~rkGF~~~~I~~~l~~ 152 (157)
T PRK00117 130 AKLVRFLARRGFSMDVIQRVLRN 152 (157)
T ss_pred HHHHHHHHHCCCCHHHHHHHHHh
Confidence 34456777777777777776654
No 17
>PRK00117 recX recombination regulator RecX; Reviewed
Probab=53.44 E-value=1.9e+02 Score=26.74 Aligned_cols=73 Identities=12% Similarity=0.081 Sum_probs=44.3
Q ss_pred HHHHHHhcCCCHHHHHHHHHhCCcccccCccccHHHHHHHHHhcCCChhHHHHHHhhCCceeecccccchhHHHHHHHhh
Q 040691 277 FLSFCSKIGCSEEQLRILIRQHPEILFEDSGNMALSLVGFLLKFGTSMNEICLMFQQFPQIKLGEFFTNLRQCVVFLNEI 356 (585)
Q Consensus 277 ~l~fL~~lG~s~~~I~~ii~~~P~lL~~~~e~~L~p~v~fL~~lG~~~~~i~~vl~~~P~lL~~s~e~~l~p~v~fL~~l 356 (585)
.-.-|...|++.+.|..++...+ .+ ...-....+. .++...-..+. ..-...+.+|..-
T Consensus 81 I~~~L~~kGi~~~~I~~~l~~~~----~d---~~e~a~~~~~-------------k~~~~~~~~~~-~~k~Ki~~~L~rk 139 (157)
T PRK00117 81 IRQELRQKGVDREIIEEALAELD----ID---WEELARELAR-------------KKFRRPLPDDA-KEKAKLVRFLARR 139 (157)
T ss_pred HHHHHHHcCCCHHHHHHHHHHcC----cc---HHHHHHHHHH-------------HHcCCCCCCCH-HHHHHHHHHHHHC
Confidence 45678888999999999988764 11 1111111111 11222222222 2345567899999
Q ss_pred hhchHHHHHHHHhC
Q 040691 357 EMEAKEIGNIVRTH 370 (585)
Q Consensus 357 G~~~~~I~~il~~~ 370 (585)
|++.+.|..++...
T Consensus 140 GF~~~~I~~~l~~~ 153 (157)
T PRK00117 140 GFSMDVIQRVLRNA 153 (157)
T ss_pred CCCHHHHHHHHHhh
Confidence 99999999888754
No 18
>PRK14135 recX recombination regulator RecX; Provisional
Probab=52.57 E-value=82 Score=31.90 Aligned_cols=79 Identities=13% Similarity=0.125 Sum_probs=42.2
Q ss_pred HHHHHHhcCCCHHHHHHHHHhCCcccccCccccHHHHHHHHHhcCCChhHHHHHHhhCCceeecccccchhHHHHHHHhh
Q 040691 277 FLSFCSKIGCSEEQLRILIRQHPEILFEDSGNMALSLVGFLLKFGTSMNEICLMFQQFPQIKLGEFFTNLRQCVVFLNEI 356 (585)
Q Consensus 277 ~l~fL~~lG~s~~~I~~ii~~~P~lL~~~~e~~L~p~v~fL~~lG~~~~~i~~vl~~~P~lL~~s~e~~l~p~v~fL~~l 356 (585)
...+|..-||+.+.|..++.....= .+.+... +-+.. .+.+...++. ..+..+.-.....||..-
T Consensus 181 i~~~L~rkGf~~~~I~~~l~~~~~e--~d~~~e~----e~l~~------~~~k~~~k~~---~~~~~k~k~K~~~~L~rr 245 (263)
T PRK14135 181 IIQSLLTKGFSYEVIKAALEELDLE--QDEEEEQ----ELLQK------ELEKAYRKYS---KYDGYELKQKLKQALYRK 245 (263)
T ss_pred HHHHHHhCCCCHHHHHHHHHHcccC--CChHHHH----HHHHH------HHHHHHHHHh---cCCHHHHHHHHHHHHHHC
Confidence 4678888999999999988875200 0000000 00000 0011111111 111112234566799999
Q ss_pred hhchHHHHHHHHhC
Q 040691 357 EMEAKEIGNIVRTH 370 (585)
Q Consensus 357 G~~~~~I~~il~~~ 370 (585)
|++.+.|..++...
T Consensus 246 GF~~~~I~~~l~~~ 259 (263)
T PRK14135 246 GFSYDDIDSFLREY 259 (263)
T ss_pred CCCHHHHHHHHHHh
Confidence 99999999888653
No 19
>PF02631 RecX: RecX family; InterPro: IPR003783 RecX is a putative bacterial regulatory protein []. The gene encoding RecX is found downstream of recA, and it is suggested that the RecX protein might be regulator of RecA activity by interaction with the RecA protein or filament [].; GO: 0006282 regulation of DNA repair; PDB: 3DFG_A 3D5L_B 3C1D_B 3E3V_A.
Probab=49.37 E-value=76 Score=27.99 Aligned_cols=20 Identities=25% Similarity=0.438 Sum_probs=9.4
Q ss_pred HHHHHHhcCCCHHHHHHHHH
Q 040691 277 FLSFCSKIGCSEEQLRILIR 296 (585)
Q Consensus 277 ~l~fL~~lG~s~~~I~~ii~ 296 (585)
.+++|..-||+.+.|.+++.
T Consensus 98 ~~~~L~rrGF~~~~i~~vi~ 117 (121)
T PF02631_consen 98 LIRFLMRRGFSYDVIRRVIS 117 (121)
T ss_dssp HHHHHHHTT--HHHHHHHCH
T ss_pred HHHHHHHCCCCHHHHHHHHh
Confidence 44555555555555555544
No 20
>TIGR01448 recD_rel helicase, putative, RecD/TraA family. This model describes a family similar to RecD, the exodeoxyribonuclease V alpha chain of TIGR01447. Members of this family, however, are not found in a context of RecB and RecC and are longer by about 200 amino acids at the amino end. Chlamydia muridarum has both a member of this family and a RecD.
Probab=49.22 E-value=50 Score=38.84 Aligned_cols=89 Identities=9% Similarity=0.017 Sum_probs=55.2
Q ss_pred hhhHHHHHHHHHh---CCCCHHHHHHHHhhCCceeecChhhHHHHHHHHHHhC-CCCcchhhhhhhcccccchhhhHHHH
Q 040691 203 FGVLRSKLQAFEK---LGLSQSFVRKVIVRNPKFLVGDVNLEFIKVLEILKSM-GIEFSWIGEHSTEQSTFNWRTMFSFL 278 (585)
Q Consensus 203 ~~~l~~~l~~L~~---lGls~~~i~~ii~~~P~lL~~~v~~~l~p~v~~L~~l-Gl~~~~i~~~l~~~p~~~~~~l~~~l 278 (585)
+...+..+.||.+ -|+.+..-.+++.++..=.. ..+..-.+.|.++ |++.+....+...-. ......+.+
T Consensus 74 p~~~~~i~~yL~s~~~~GIG~~~A~~iv~~fg~~~~----~~i~~~~~~L~~v~gi~~~~~~~i~~~~~--~~~~~~~~~ 147 (720)
T TIGR01448 74 PTSKEGIVAYLSSRSIKGVGKKLAQRIVKTFGEAAF----DVLDDDPEKLLEVPGISKANLEKFVSQWS--QQGDERRLL 147 (720)
T ss_pred CCCHHHHHHHHhcCCCCCcCHHHHHHHHHHhCHhHH----HHHHhCHHHHhcCCCCCHHHHHHHHHHHH--HhHHHHHHH
Confidence 3455566788885 38888888899988864222 1222223456565 777777666554322 112245678
Q ss_pred HHHHhcCCCHHHHHHHHHh
Q 040691 279 SFCSKIGCSEEQLRILIRQ 297 (585)
Q Consensus 279 ~fL~~lG~s~~~I~~ii~~ 297 (585)
.||.++|++.....++...
T Consensus 148 ~~L~~~gi~~~~a~ki~~~ 166 (720)
T TIGR01448 148 AGLQGLGIGIKLAQRIYKF 166 (720)
T ss_pred HHHHHcCCCHHHHHHHHHH
Confidence 8899999988666655443
No 21
>KOG2561 consensus Adaptor protein NUB1, contains UBA domain [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=42.53 E-value=1.3e+02 Score=32.99 Aligned_cols=45 Identities=18% Similarity=0.246 Sum_probs=26.6
Q ss_pred HHHHHHHHHhCCCcchhhHHHHHHHHhhccHHHHHHHHHHHHcCCCHHHH
Q 040691 431 TLKAEFLLEVGFEENSKQFETALKDLRTRARDLRERFDLIVEAGLERKDV 480 (585)
Q Consensus 431 ~~k~~fL~~lG~~e~~~~~~~al~~~~~~~~~l~~rv~fL~~~G~s~~~v 480 (585)
..++.-|..|||++++.. .|+.... .+.+.-..+|...+=+..+.
T Consensus 430 ~~~la~Lv~mGF~e~~A~--~ALe~~g---nn~~~a~~~L~~s~~n~~~~ 474 (568)
T KOG2561|consen 430 GISLAELVSMGFEEGKAR--SALEAGG---NNEDTAQRLLSASVANEGEL 474 (568)
T ss_pred hhhHHHHHHhccccchHH--HHHHhcC---CcHHHHHHHHHHhCCCCccc
Confidence 457788899999987533 3443332 34555566666444444433
No 22
>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=42.05 E-value=39 Score=24.78 Aligned_cols=28 Identities=25% Similarity=0.349 Sum_probs=20.8
Q ss_pred hHHHHHHHHHhCCCCHHHHHHHHhhCCc
Q 040691 205 VLRSKLQAFEKLGLSQSFVRKVIVRNPK 232 (585)
Q Consensus 205 ~l~~~l~~L~~lGls~~~i~~ii~~~P~ 232 (585)
.+...+..|..+|+++.++.+++..-..
T Consensus 2 ~~~d~~~AL~~LGy~~~e~~~av~~~~~ 29 (47)
T PF07499_consen 2 ALEDALEALISLGYSKAEAQKAVSKLLE 29 (47)
T ss_dssp HHHHHHHHHHHTTS-HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHcCCCHHHHHHHHHHhhc
Confidence 3556788889999999988888877644
No 23
>PRK14135 recX recombination regulator RecX; Provisional
Probab=41.69 E-value=1.1e+02 Score=31.08 Aligned_cols=24 Identities=21% Similarity=0.300 Sum_probs=16.8
Q ss_pred HHHHHHHHhCCCCcchhhhhhhcc
Q 040691 243 IKVLEILKSMGIEFSWIGEHSTEQ 266 (585)
Q Consensus 243 ~p~v~~L~~lGl~~~~i~~~l~~~ 266 (585)
..+..+|..-|++.+.|.+++...
T Consensus 179 ~Ki~~~L~rkGf~~~~I~~~l~~~ 202 (263)
T PRK14135 179 QKIIQSLLTKGFSYEVIKAALEEL 202 (263)
T ss_pred HHHHHHHHhCCCCHHHHHHHHHHc
Confidence 345567777788888777776653
No 24
>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=37.36 E-value=97 Score=32.88 Aligned_cols=228 Identities=16% Similarity=0.105 Sum_probs=113.8
Q ss_pred HHHHHHHhCCcccccCccccHHHHHHHHHhcCCChhHHHHHHhhCCceeeccc-cc------chhHHHHHH--Hhhhhch
Q 040691 290 QLRILIRQHPEILFEDSGNMALSLVGFLLKFGTSMNEICLMFQQFPQIKLGEF-FT------NLRQCVVFL--NEIEMEA 360 (585)
Q Consensus 290 ~I~~ii~~~P~lL~~~~e~~L~p~v~fL~~lG~~~~~i~~vl~~~P~lL~~s~-e~------~l~p~v~fL--~~lG~~~ 360 (585)
.+..+|.+.|.=.. .+.-.-..-..+|+....+...+.++|.+|.... .. .+.+...-| ++..+-.
T Consensus 22 ~l~~~i~~~p~~~~-----pl~~l~k~~~~L~l~~~~~~~flrkyP~iF~~~~~~~~~~~~~~LT~~a~~L~~eE~~~~~ 96 (335)
T PF11955_consen 22 RLKDLILSQPSHSL-----PLRDLSKLRRQLGLKPRKVSRFLRKYPSIFEVFQHPSRSVPWFRLTPEAEDLLREERRVRE 96 (335)
T ss_pred HHHHHHHcCCCCcc-----cHHHHHHHHHhcCCCcccHHHHHHhCCceEEEeccCCCCCceEEeCHHHHHHHHHHHHHHH
Confidence 45678888885111 1222223344689977999999999999996532 11 233444444 2333211
Q ss_pred HHHHHHHHhCCcccccC--c-cc-chHHHHH-HhCCChhHHHHHHHhCchhhHhhhh-ccCCC---------CCCccccc
Q 040691 361 KEIGNIVRTHPVLLGTC--A-LK-KTSSLLT-ILKVGRKRLCAIILEDPQEMKKWVM-GCRLK---------PLPRLQLK 425 (585)
Q Consensus 361 ~~I~~il~~~P~iL~~~--~-lk-~~v~~L~-~lGl~~~~l~~ii~~~P~~L~~~~~-g~~~~---------~~~~~~~~ 425 (585)
+.-..++.+--.+|.++ . +- .++..++ .+|++.+=...++.+||+.+. .+- +.... .+..+.
T Consensus 97 ~~e~~~v~rL~KLLMMS~~~rlpL~ki~~l~~dLGLP~Df~~~lv~~yP~~Fr-vv~~~~~~~~LeLv~Wd~~LAvs~-- 173 (335)
T PF11955_consen 97 EMEPDLVERLRKLLMMSKDRRLPLSKIAHLRRDLGLPDDFRDSLVPKYPDYFR-VVDLEDGGRYLELVSWDPELAVSA-- 173 (335)
T ss_pred hChHHHHHHHHHHhccCCCCcccHHHHHHHHHHcCCChhhccchhhhCCCCcE-EeecCCCCCEEEEeecCCccCcCc--
Confidence 11122222222344443 1 11 2445554 799999889999999999974 221 00000 011110
Q ss_pred ccchhHHHHHHHHHhCCCcchhhHHHHHHHHhhc--cHHHHHHHHHHHHcC----------CC---HHHHHHHHHhcCcc
Q 040691 426 EEESDTLKAEFLLEVGFEENSKQFETALKDLRTR--ARDLRERFDLIVEAG----------LE---RKDVCDMVRVAPLI 490 (585)
Q Consensus 426 ~~~~~~~k~~fL~~lG~~e~~~~~~~al~~~~~~--~~~l~~rv~fL~~~G----------~s---~~~v~~mI~~~P~i 490 (585)
.+.....-.--...+-....-.|+ +..-.|. ..+.+++++-++++- ++ .+-=...|.-.=-+
T Consensus 174 -~E~~~~~~~~~~~~~~~~~~~~Fp--~~fp~G~~l~k~~~~~l~~fQ~lPy~SPYed~~~l~~~s~~~EKRaVaVlHEl 250 (335)
T PF11955_consen 174 -LEKRAEKEYREKREDGFDRPLAFP--VSFPKGFRLKKKFREWLEEFQKLPYISPYEDASHLDPGSDEAEKRAVAVLHEL 250 (335)
T ss_pred -cchhhhhccccccccccCCceeee--ecCCCCccccHHHHHHHHHHhcCCCCCCCCCccCCCCCChHHHhHHHHHHHHH
Confidence 010000000000000000001111 0000121 124555555555332 21 11112333334457
Q ss_pred cccCHH--HHHHHHHHHHHhcCCCcc---cccccccccccchh
Q 040691 491 LKQKKE--VLKTKIDYFVNDFGYPIS---SLKPFPQYLMYNMK 528 (585)
Q Consensus 491 L~~s~e--~L~~ki~fL~~~mg~~~~---~l~~fP~~L~ysle 528 (585)
|++.+| ....++.-|.+++|+|.. .+.++|.+|..|.-
T Consensus 251 LSLTveKr~~~~~L~~fr~ef~lp~k~~~~l~rHPgIFYvS~k 293 (335)
T PF11955_consen 251 LSLTVEKRTEVDHLTHFRKEFGLPQKFRRLLLRHPGIFYVSLK 293 (335)
T ss_pred HHhhhhhhccHHHHHHHHHHhCCcHHHHHHHHhCCCeEEEecc
Confidence 888888 466899999999999974 57899999988875
No 25
>PRK00116 ruvA Holliday junction DNA helicase RuvA; Reviewed
Probab=36.41 E-value=1.1e+02 Score=29.64 Aligned_cols=25 Identities=16% Similarity=0.130 Sum_probs=15.5
Q ss_pred HHHHHHHHHhcCCChhHHHHHHhhC
Q 040691 310 ALSLVGFLLKFGTSMNEICLMFQQF 334 (585)
Q Consensus 310 L~p~v~fL~~lG~~~~~i~~vl~~~ 334 (585)
+...+.+|.++|++..++.+++.++
T Consensus 149 ~~ev~~aL~~LG~~~~~a~~~~~~~ 173 (192)
T PRK00116 149 LEEAVSALVALGYKPKEASKAVAKI 173 (192)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHHH
Confidence 4555666666666666666666555
No 26
>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=35.82 E-value=53 Score=22.58 Aligned_cols=22 Identities=18% Similarity=0.486 Sum_probs=11.6
Q ss_pred HHHHHHHcCCCHHHHHHHHHhc
Q 040691 466 RFDLIVEAGLERKDVCDMVRVA 487 (585)
Q Consensus 466 rv~fL~~~G~s~~~v~~mI~~~ 487 (585)
.++-|+++||+.+++.+.+..+
T Consensus 5 ~v~~L~~mGf~~~~~~~AL~~~ 26 (37)
T PF00627_consen 5 KVQQLMEMGFSREQAREALRAC 26 (37)
T ss_dssp HHHHHHHHTS-HHHHHHHHHHT
T ss_pred HHHHHHHcCCCHHHHHHHHHHc
Confidence 3445555666666665555543
No 27
>PRK14136 recX recombination regulator RecX; Provisional
Probab=34.40 E-value=3.1e+02 Score=28.77 Aligned_cols=116 Identities=12% Similarity=0.031 Sum_probs=63.6
Q ss_pred ccchhhHHHHHHHHHhCCC-CHHHHHHHHhhCCceeecChhhHHHHHHHHHHhCCCCcchhhhhhhcccccchhhhHHHH
Q 040691 200 RYDFGVLRSKLQAFEKLGL-SQSFVRKVIVRNPKFLVGDVNLEFIKVLEILKSMGIEFSWIGEHSTEQSTFNWRTMFSFL 278 (585)
Q Consensus 200 ~~~~~~l~~~l~~L~~lGl-s~~~i~~ii~~~P~lL~~~v~~~l~p~v~~L~~lGl~~~~i~~~l~~~p~~~~~~l~~~l 278 (585)
+++.+.++..|+.|++.|+ ++...+....+. ..=... -..+...|+.-||+.+.|...+.... .+|... ..
T Consensus 190 G~~ee~IE~VIerLke~gYLDDeRFAesyVr~-R~~kkG----p~rIrqELrQKGId~eLIEqALeeie-EDE~E~--A~ 261 (309)
T PRK14136 190 ADESDSVEPLLDALEREGWLSDARFAESLVHR-RASRVG----SARIVSELKRHAVGDALVESVGAQLR-ETEFER--AQ 261 (309)
T ss_pred CCCHHHHHHHHHHHHHcCCcCHHHHHHHHHHH-Hhhchh----HHHHHHHHHHcCCCHHHHHHHHHhcc-HhHHHH--HH
Confidence 3467788888888888775 455555544432 111111 12344677788888888887776442 233211 11
Q ss_pred HHHHhcCCCHHHHHHHHHhCCcccccCccccHHHHHHHHHhcCCChhHHHHHHhhCCcee
Q 040691 279 SFCSKIGCSEEQLRILIRQHPEILFEDSGNMALSLVGFLLKFGTSMNEICLMFQQFPQIK 338 (585)
Q Consensus 279 ~fL~~lG~s~~~I~~ii~~~P~lL~~~~e~~L~p~v~fL~~lG~~~~~i~~vl~~~P~lL 338 (585)
..+. +-+...|. .. +.....+.||..-|++.+.|..+|..+-..+
T Consensus 262 ~L~e----------KK~~~~~~----d~-kek~K~iRfL~rRGFS~D~I~~vLk~~~de~ 306 (309)
T PRK14136 262 AVWR----------KKFGALPQ----TP-AERAKQARFLAARGFSSATIVKLLKVGDDEF 306 (309)
T ss_pred HHHH----------HHhcccCc----CH-HHHHHHHHHHHHCCCCHHHHHHHHHhchhcc
Confidence 1111 11111111 11 2234457888889999988888887654443
No 28
>smart00165 UBA Ubiquitin associated domain. Present in Rad23, SNF1-like kinases. The newly-found UBA in p62 is known to bind ubiquitin.
Probab=33.49 E-value=67 Score=21.81 Aligned_cols=22 Identities=27% Similarity=0.593 Sum_probs=11.9
Q ss_pred HHHHHHHcCCCHHHHHHHHHhc
Q 040691 466 RFDLIVEAGLERKDVCDMVRVA 487 (585)
Q Consensus 466 rv~fL~~~G~s~~~v~~mI~~~ 487 (585)
+++-|.++||+.+++...+.++
T Consensus 4 ~v~~L~~mGf~~~~a~~aL~~~ 25 (37)
T smart00165 4 KIDQLLEMGFSREEALKALRAA 25 (37)
T ss_pred HHHHHHHcCCCHHHHHHHHHHh
Confidence 3444555566666555555543
No 29
>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=33.09 E-value=67 Score=21.90 Aligned_cols=23 Identities=22% Similarity=0.569 Sum_probs=12.9
Q ss_pred HHHHHHHHcCCCHHHHHHHHHhc
Q 040691 465 ERFDLIVEAGLERKDVCDMVRVA 487 (585)
Q Consensus 465 ~rv~fL~~~G~s~~~v~~mI~~~ 487 (585)
+.++-|+++||+.+++...+..+
T Consensus 3 ~~v~~L~~mGf~~~~~~~AL~~~ 25 (38)
T cd00194 3 EKLEQLLEMGFSREEARKALRAT 25 (38)
T ss_pred HHHHHHHHcCCCHHHHHHHHHHh
Confidence 34455556666666665555543
No 30
>COG1125 OpuBA ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]
Probab=31.02 E-value=73 Score=32.67 Aligned_cols=63 Identities=24% Similarity=0.424 Sum_probs=47.6
Q ss_pred HHHHHHHHHH-HcCC-CHHHHHHHHHhcCcccccCHHHHHHHHHHHHHhcCCCcc-cccccccccc
Q 040691 462 DLRERFDLIV-EAGL-ERKDVCDMVRVAPLILKQKKEVLKTKIDYFVNDFGYPIS-SLKPFPQYLM 524 (585)
Q Consensus 462 ~l~~rv~fL~-~~G~-s~~~v~~mI~~~P~iL~~s~e~L~~ki~fL~~~mg~~~~-~l~~fP~~L~ 524 (585)
+|+.++-|-. ..|+ ..-.|.+=|...|++++++.+.++.|++=|.+-+|++.+ ..-++|.=|+
T Consensus 72 ~LRr~IGYviQqigLFPh~Tv~eNIa~VP~L~~w~k~~i~~r~~ELl~lvgL~p~~~~~RyP~eLS 137 (309)
T COG1125 72 ELRRKIGYVIQQIGLFPHLTVAENIATVPKLLGWDKERIKKRADELLDLVGLDPSEYADRYPHELS 137 (309)
T ss_pred HHHHhhhhhhhhcccCCCccHHHHHHhhhhhcCCCHHHHHHHHHHHHHHhCCCHHHHhhcCchhcC
Confidence 5666666655 5554 445677778899999999999999999999999999874 4556665444
No 31
>PRK00116 ruvA Holliday junction DNA helicase RuvA; Reviewed
Probab=30.83 E-value=1.4e+02 Score=28.83 Aligned_cols=25 Identities=24% Similarity=0.254 Sum_probs=14.5
Q ss_pred hhHHHHHHHhhhhchHHHHHHHHhC
Q 040691 346 LRQCVVFLNEIEMEAKEIGNIVRTH 370 (585)
Q Consensus 346 l~p~v~fL~~lG~~~~~I~~il~~~ 370 (585)
+...+.+|..+|+++.++.+++..+
T Consensus 149 ~~ev~~aL~~LG~~~~~a~~~~~~~ 173 (192)
T PRK00116 149 LEEAVSALVALGYKPKEASKAVAKI 173 (192)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHHH
Confidence 3455566666666666666665544
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=30.59 E-value=1.3e+02 Score=26.51 Aligned_cols=25 Identities=12% Similarity=0.191 Sum_probs=15.4
Q ss_pred chhHHHHHHHhhhhchHHHHHHHHh
Q 040691 345 NLRQCVVFLNEIEMEAKEIGNIVRT 369 (585)
Q Consensus 345 ~l~p~v~fL~~lG~~~~~I~~il~~ 369 (585)
.....+.+|..-|++.+.|..++..
T Consensus 94 ~~~K~~~~L~rrGF~~~~i~~vi~~ 118 (121)
T PF02631_consen 94 RKQKLIRFLMRRGFSYDVIRRVISE 118 (121)
T ss_dssp HHHHHHHHHHHTT--HHHHHHHCHH
T ss_pred HHHHHHHHHHHCCCCHHHHHHHHhh
Confidence 3455567777778887777776653
No 33
>COG4303 EutB Ethanolamine ammonia-lyase, large subunit [Amino acid transport and metabolism]
Probab=29.96 E-value=34 Score=35.68 Aligned_cols=27 Identities=22% Similarity=0.610 Sum_probs=23.5
Q ss_pred HHHHHHhhhCCCcchHHHHHhcCCCCC
Q 040691 126 RAITRFFRYHPVNEFEPFFESLGLKPC 152 (585)
Q Consensus 126 ~~~~r~l~~~~i~e~~~fleslg~~~~ 152 (585)
..+++.+--.||+|||.|+|++|+-..
T Consensus 413 ~~~R~~~glrP~~EFe~wl~~mGi~~~ 439 (453)
T COG4303 413 ATVRQLLGLRPIPEFERWLERMGIMAN 439 (453)
T ss_pred HHHHHHhCCCCchHHHHHHHHhCcccC
Confidence 567888888999999999999999743
No 34
>TIGR01616 nitro_assoc nitrogenase-associated protein. This model describes a small family of uncharacterized proteins found so far in alpha and gamma proteobacteria and in Nostoc sp. PCC 7120, a cyanobacterium. The gene for this protein is associated with nitrogenase genes. This family shows sequence similarity to TIGR00014, a glutaredoxin-dependent arsenate reductase that converts arsentate to arsenite for disposal. This family is one of several included in Pfam model pfam03960.
Probab=29.77 E-value=57 Score=29.42 Aligned_cols=102 Identities=9% Similarity=-0.009 Sum_probs=60.8
Q ss_pred HHHHHHHHHHhCCCCcchhhhhhhcccccchhhhHHHHHHHHhcCCCHHHHHHHHHhCCcccccCccccHHHHHHHHHh-
Q 040691 241 EFIKVLEILKSMGIEFSWIGEHSTEQSTFNWRTMFSFLSFCSKIGCSEEQLRILIRQHPEILFEDSGNMALSLVGFLLK- 319 (585)
Q Consensus 241 ~l~p~v~~L~~lGl~~~~i~~~l~~~p~~~~~~l~~~l~fL~~lG~s~~~I~~ii~~~P~lL~~~~e~~L~p~v~fL~~- 319 (585)
..+...+||.+-|++...+- +.+-+.+.+++..++.+.+ .+.-+..+-..+++
T Consensus 13 t~RKA~~~L~~~gi~~~~~d--------------------~~~~p~t~~eL~~~l~~~g------~~~lin~~~~~~r~l 66 (126)
T TIGR01616 13 NNARQKAALKASGHDVEVQD--------------------ILKEPWHADTLRPYFGNKP------VGSWFNRAAPRVKSG 66 (126)
T ss_pred HHHHHHHHHHHCCCCcEEEe--------------------ccCCCcCHHHHHHHHHHcC------HHHHHhccchHhhhC
Confidence 45677889988888765421 1234667777777777653 11111111112222
Q ss_pred ----cCCChhHHHHHHhhCCceeecccccchhHHHHHHHhhhhchHHHHHHHHhCCcc
Q 040691 320 ----FGTSMNEICLMFQQFPQIKLGEFFTNLRQCVVFLNEIEMEAKEIGNIVRTHPVL 373 (585)
Q Consensus 320 ----lG~~~~~i~~vl~~~P~lL~~s~e~~l~p~v~fL~~lG~~~~~I~~il~~~P~i 373 (585)
-.++.+++..++..+|.++-+.+--. ... .-+|++++++..++...|..
T Consensus 67 ~~~~~~ls~~e~i~lm~~~P~LIKRPIi~~-~~~----~~iGf~~e~~~~~l~~~~~~ 119 (126)
T TIGR01616 67 EVNPDSIDEASALALMVSDPLLIRRPLMDL-GGI----RCAGFDREPVLSWIGLQTQE 119 (126)
T ss_pred CCCcccCCHHHHHHHHHhCcCeEeCCEEEE-CCE----EEEcCCHHHHHHHhCCCCCC
Confidence 23566888899999999987765321 111 23688888888877665543
No 35
>KOG0871 consensus Class 2 transcription repressor NC2, beta subunit (Dr1) [Transcription]
Probab=29.65 E-value=1.3e+02 Score=27.92 Aligned_cols=50 Identities=18% Similarity=0.311 Sum_probs=33.1
Q ss_pred HHHHHHHHhCCCcchhhHHHHHHHHhhccHHHHHHHHHHHHcCCCHHHHH
Q 040691 432 LKAEFLLEVGFEENSKQFETALKDLRTRARDLRERFDLIVEAGLERKDVC 481 (585)
Q Consensus 432 ~k~~fL~~lG~~e~~~~~~~al~~~~~~~~~l~~rv~fL~~~G~s~~~v~ 481 (585)
.-++.|+.+||.+-.+....++...-+...+.+.+-.-|...|++.+++.
T Consensus 71 HV~KALe~LgF~eYiee~~~vl~~~K~~~~~~~~kssk~e~~Gi~eEEL~ 120 (156)
T KOG0871|consen 71 HVIKALENLGFGEYIEEAEEVLENCKEEAKKRRRKSSKFEKSGIPEEELL 120 (156)
T ss_pred HHHHHHHHcchHHHHHHHHHHHHHHHHHHHHhhhhhhhHHhcCCCHHHHH
Confidence 34577899999965444444444333333356677777889999998865
No 36
>COG2137 OraA Uncharacterized protein conserved in bacteria [General function prediction only]
Probab=28.50 E-value=3.9e+02 Score=25.59 Aligned_cols=93 Identities=14% Similarity=0.153 Sum_probs=0.0
Q ss_pred ccchhhHHHHHHHHHhCC-CCHHHHHHHHhhCCceeecChhhHHHHHHHHHHhCCCCcchhhhhhh--------------
Q 040691 200 RYDFGVLRSKLQAFEKLG-LSQSFVRKVIVRNPKFLVGDVNLEFIKVLEILKSMGIEFSWIGEHST-------------- 264 (585)
Q Consensus 200 ~~~~~~l~~~l~~L~~lG-ls~~~i~~ii~~~P~lL~~~v~~~l~p~v~~L~~lGl~~~~i~~~l~-------------- 264 (585)
..+...++.+|.+|...| +++...+....+.-.--+.++.. +-.-|...||+++.|..++.
T Consensus 48 ~~~~~~Ie~Vi~~l~~~~~ldD~~fAe~~i~~r~~~g~G~~r----l~qeL~qkGi~~~~Ie~aL~~~~~~~~~~~a~~~ 123 (174)
T COG2137 48 EFSEEIIEEVIDRLAEEGYLDDTRFAEAYIRSRSRKGKGPAR----LKQELKQKGIDDEIIEEALELIDEEDEQERARKV 123 (174)
T ss_pred cCCHHHHHHHHHHHHHcCcccHHHHHHHHHHHHHhcccChHH----HHHHHHHcCCCHHHHHHHHhccchHHHHHHHHHH
Q ss_pred -----cccc--cchhhhHHHHHHHHhcCCCHHHHHHHHH
Q 040691 265 -----EQST--FNWRTMFSFLSFCSKIGCSEEQLRILIR 296 (585)
Q Consensus 265 -----~~p~--~~~~~l~~~l~fL~~lG~s~~~I~~ii~ 296 (585)
..+. .+...=.-..++|..-||+.+.|..++.
T Consensus 124 ~~kk~~~~~~~~~~~~k~Ki~r~L~~rGFs~~~i~~~l~ 162 (174)
T COG2137 124 LRKKFKRENKPPDKKEKAKIQRFLLRRGFSYEVIKEALN 162 (174)
T ss_pred HHHHhCccccCcchhHHHHHHHHHHHcCCCHHHHHHHHH
No 37
>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=27.89 E-value=1.1e+02 Score=27.52 Aligned_cols=70 Identities=20% Similarity=0.255 Sum_probs=39.4
Q ss_pred hhhHHHHHHHHHhCCCCHHHHHHHHhhCCceeecChhhHHHHHHH---HHHhC--CCCcchhhhhhhcccccchhhhHHH
Q 040691 203 FGVLRSKLQAFEKLGLSQSFVRKVIVRNPKFLVGDVNLEFIKVLE---ILKSM--GIEFSWIGEHSTEQSTFNWRTMFSF 277 (585)
Q Consensus 203 ~~~l~~~l~~L~~lGls~~~i~~ii~~~P~lL~~~v~~~l~p~v~---~L~~l--Gl~~~~i~~~l~~~p~~~~~~l~~~ 277 (585)
+..+-...++|+ -|++.++|..+-.-.|++|. +++..++ .|++. +++ .+.
T Consensus 10 d~Rlf~i~eAlr-rG~sveeI~e~T~ID~wFL~-----~i~~Iv~~e~~L~~~~~~~~-------------------~~~ 64 (123)
T PF02787_consen 10 DERLFAIAEALR-RGYSVEEIHELTKIDPWFLE-----QIKNIVDMEKELKEYLNELD-------------------PEL 64 (123)
T ss_dssp TTHHHHHHHHHH-TTB-HHHHHHHH---HHHHH-----HHHHHHHHHHHHHHHGGG---------------------HHH
T ss_pred CcHHHHHHHHHH-cCCCHHHHHHHHCccHHHHH-----HHHHHHHHHHHHHHhhccch-------------------HHH
Confidence 445555555664 49999999999999999984 2444433 33331 111 124
Q ss_pred HHHHHhcCCCHHHHHHHHHh
Q 040691 278 LSFCSKIGCSEEQLRILIRQ 297 (585)
Q Consensus 278 l~fL~~lG~s~~~I~~ii~~ 297 (585)
+.-.+..|||+.+|+++...
T Consensus 65 L~~aK~~GFsD~~IA~l~~~ 84 (123)
T PF02787_consen 65 LRKAKRLGFSDRQIARLWGV 84 (123)
T ss_dssp HHHHHHTT--HHHHHHHHTS
T ss_pred HHHHHHcCCCHHHHHhccCC
Confidence 55567789999999998543
No 38
>PF07499 RuvA_C: RuvA, C-terminal domain; InterPro: IPR011114 In prokaryotes, RuvA, RuvB, and RuvC process the universal DNA intermediate of homologous recombination, termed Holliday junction. The tetrameric DNA helicase RuvA specifically binds to the Holliday junction and facilitates the isomerization of the junction from the stacked folded configuration to the square-planar structure []. In the RuvA tetramer, each subunit consists of three domains, I, II and III, where I and II form the major core that is responsible for Holliday junction binding and base pair rearrangements of Holliday junction executed at the crossover point, whereas domain III regulates branch migration through direct contact with RuvB. The domain represents the C-terminal domain III of RuvA. This domain plays a significant role in the ATP-dependent branch migration of the hetero-duplex through direct contact with RuvB []. Within the Holliday junction, this domain makes no interaction with the DNA.; GO: 0005524 ATP binding, 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination, 0009379 Holliday junction helicase complex; PDB: 1HJP_A 1CUK_A 1C7Y_A 1IXS_A 1IXR_B 1BVS_E 2ZTC_A 2ZTD_B 2H5X_A.
Probab=27.47 E-value=1.1e+02 Score=22.36 Aligned_cols=26 Identities=8% Similarity=0.199 Sum_probs=16.5
Q ss_pred HHHHHHHHHcCCCHHHHHHHHHhcCc
Q 040691 464 RERFDLIVEAGLERKDVCDMVRVAPL 489 (585)
Q Consensus 464 ~~rv~fL~~~G~s~~~v~~mI~~~P~ 489 (585)
.+-++-|..+||+..++.+++.+...
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 44556666777777777777776543
No 39
>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=27.28 E-value=2.2e+02 Score=30.82 Aligned_cols=54 Identities=20% Similarity=0.346 Sum_probs=39.9
Q ss_pred HHHHHHhhhhchHHHHHHHHhCCcccccCcccchHHHHHHhCCChhHHHHHHHhCchhhHhhh
Q 040691 349 CVVFLNEIEMEAKEIGNIVRTHPVLLGTCALKKTSSLLTILKVGRKRLCAIILEDPQEMKKWV 411 (585)
Q Consensus 349 ~v~fL~~lG~~~~~I~~il~~~P~iL~~~~lk~~v~~L~~lGl~~~~l~~ii~~~P~~L~~~~ 411 (585)
.++||+.. =.-.+++.+|+.+|++|- .+|..+|-+.-++..+|..+|+.|....
T Consensus 247 ~l~~Lr~~-pqf~~lR~~vq~NP~~L~--------~lLqql~~~nP~l~q~I~~n~e~Fl~ll 300 (378)
T TIGR00601 247 PLEFLRNQ-PQFQQLRQVVQQNPQLLP--------PLLQQIGQENPQLLQQISQHPEQFLQML 300 (378)
T ss_pred hHHHhhcC-HHHHHHHHHHHHCHHHHH--------HHHHHHHhhCHHHHHHHHHCHHHHHHHh
Confidence 35666531 112567788899999883 5788899999999999999999887543
No 40
>TIGR01448 recD_rel helicase, putative, RecD/TraA family. This model describes a family similar to RecD, the exodeoxyribonuclease V alpha chain of TIGR01447. Members of this family, however, are not found in a context of RecB and RecC and are longer by about 200 amino acids at the amino end. Chlamydia muridarum has both a member of this family and a RecD.
Probab=26.56 E-value=1.1e+03 Score=27.88 Aligned_cols=84 Identities=18% Similarity=0.226 Sum_probs=41.3
Q ss_pred HHHHHHHh--c-CCCHHHHHHHHHhCCcccccCccccHHHHHHHHHhc-CCChhHHHHHHhhCCceeecccccchhHHHH
Q 040691 276 SFLSFCSK--I-GCSEEQLRILIRQHPEILFEDSGNMALSLVGFLLKF-GTSMNEICLMFQQFPQIKLGEFFTNLRQCVV 351 (585)
Q Consensus 276 ~~l~fL~~--l-G~s~~~I~~ii~~~P~lL~~~~e~~L~p~v~fL~~l-G~~~~~i~~vl~~~P~lL~~s~e~~l~p~v~ 351 (585)
..+.||.+ + |+.+..-.+|+..++.=.. +.+....+-|.++ |++.+.+..+...... .......+.
T Consensus 79 ~i~~yL~s~~~~GIG~~~A~~iv~~fg~~~~----~~i~~~~~~L~~v~gi~~~~~~~i~~~~~~------~~~~~~~~~ 148 (720)
T TIGR01448 79 GIVAYLSSRSIKGVGKKLAQRIVKTFGEAAF----DVLDDDPEKLLEVPGISKANLEKFVSQWSQ------QGDERRLLA 148 (720)
T ss_pred HHHHHHhcCCCCCcCHHHHHHHHHHhCHhHH----HHHHhCHHHHhcCCCCCHHHHHHHHHHHHH------hHHHHHHHH
Confidence 34555554 2 5555555555555442111 1222223344444 6666655555554311 122455666
Q ss_pred HHHhhhhchHHHHHHHHh
Q 040691 352 FLNEIEMEAKEIGNIVRT 369 (585)
Q Consensus 352 fL~~lG~~~~~I~~il~~ 369 (585)
||.+.|++.....++...
T Consensus 149 ~L~~~gi~~~~a~ki~~~ 166 (720)
T TIGR01448 149 GLQGLGIGIKLAQRIYKF 166 (720)
T ss_pred HHHHcCCCHHHHHHHHHH
Confidence 677777766666665543
No 41
>PRK14137 recX recombination regulator RecX; Provisional
Probab=25.82 E-value=5.1e+02 Score=25.19 Aligned_cols=109 Identities=17% Similarity=0.175 Sum_probs=57.5
Q ss_pred ccchhhHHHHHHHHHhCCC-CHHHHHHHHhhCCceeecChhhHHHHHHHHHHhCCCCcchhhhhhhcccccchhhhHHHH
Q 040691 200 RYDFGVLRSKLQAFEKLGL-SQSFVRKVIVRNPKFLVGDVNLEFIKVLEILKSMGIEFSWIGEHSTEQSTFNWRTMFSFL 278 (585)
Q Consensus 200 ~~~~~~l~~~l~~L~~lGl-s~~~i~~ii~~~P~lL~~~v~~~l~p~v~~L~~lGl~~~~i~~~l~~~p~~~~~~l~~~l 278 (585)
+++.+.++.+|+.|.+.|+ ++...+..... ... .--..+-..|+.-||+.+.|...+......+|...
T Consensus 68 g~~~e~Ie~vI~rL~e~gyLDD~rfAe~~~~-----~k~--~Gp~rI~~eL~qKGI~~~lI~~al~~~d~ede~e~---- 136 (195)
T PRK14137 68 SEDEALVTEVLERVQELGYQDDAQVARAENS-----RRG--VGALRVRQTLRRRGVEETLIEETLAARDPQEEQQE---- 136 (195)
T ss_pred CCCHHHHHHHHHHHHHcCCCCHHHHHHHHHH-----hcC--chHHHHHHHHHHcCCCHHHHHHHHHhcCchhHHHH----
Confidence 3567788888888888775 44555543211 000 01112445777888888888777654322222211
Q ss_pred HHHHhcCCCHHHHHHHHH-hCCcccccCccccHHHHHHHHHhcCCChhHHHHHHhh
Q 040691 279 SFCSKIGCSEEQLRILIR-QHPEILFEDSGNMALSLVGFLLKFGTSMNEICLMFQQ 333 (585)
Q Consensus 279 ~fL~~lG~s~~~I~~ii~-~~P~lL~~~~e~~L~p~v~fL~~lG~~~~~i~~vl~~ 333 (585)
+.+++. +++.+-. . ...-...+.||..-|++.+.|..++..
T Consensus 137 ------------a~~l~~KK~~~~~~-~-~~~k~K~~~~L~rRGFs~~~I~~al~~ 178 (195)
T PRK14137 137 ------------ARNLLERRWSSFAR-K-RDPRASAYAFLARRGFSGAVIWPAIRE 178 (195)
T ss_pred ------------HHHHHHHhccccCc-c-hhHHHHHHHHHHHCCCCHHHHHHHHHH
Confidence 111221 1221110 0 111234567888888888887777755
No 42
>PF09280 XPC-binding: XPC-binding domain; InterPro: IPR015360 Members of this entry adopt a structure consisting of four alpha helices, arranged in an array. They bind specifically and directly to the xeroderma pigmentosum group C protein (XPC) to initiate nucleotide excision repair []. ; GO: 0003684 damaged DNA binding, 0006289 nucleotide-excision repair, 0043161 proteasomal ubiquitin-dependent protein catabolic process; PDB: 1PVE_A 1QZE_A 1OQY_A 1TP4_A 1X3W_B 3ESW_B 2QSG_X 2QSF_X 1X3Z_B 2QSH_X ....
Probab=25.50 E-value=1.2e+02 Score=23.57 Aligned_cols=42 Identities=26% Similarity=0.496 Sum_probs=33.0
Q ss_pred HHHHHHHHhCCcccccCcccchHHHHHHhCCChhHHHHHHHhCchhhHhh
Q 040691 361 KEIGNIVRTHPVLLGTCALKKTSSLLTILKVGRKRLCAIILEDPQEMKKW 410 (585)
Q Consensus 361 ~~I~~il~~~P~iL~~~~lk~~v~~L~~lGl~~~~l~~ii~~~P~~L~~~ 410 (585)
..+..+|..+|.++- .+|..+|-+.-++..+|..+|+.+.+.
T Consensus 11 ~~lR~~vq~NP~lL~--------~lLqql~~~nP~l~q~I~~n~e~Fl~l 52 (59)
T PF09280_consen 11 QQLRQLVQQNPQLLP--------PLLQQLGQSNPQLLQLIQQNPEEFLRL 52 (59)
T ss_dssp HHHHHHHHC-GGGHH--------HHHHHHHCCSHHHHHHHHHTHHHHHHH
T ss_pred HHHHHHHHHCHHHHH--------HHHHHHhccCHHHHHHHHHCHHHHHHH
Confidence 456777888888873 578888888899999999999988643
No 43
>PRK11613 folP dihydropteroate synthase; Provisional
Probab=24.64 E-value=2.4e+02 Score=29.23 Aligned_cols=75 Identities=13% Similarity=0.170 Sum_probs=46.4
Q ss_pred HHHHHHHHHHHhcCCCcccccccccccccchhhHHHhHHHHHHHHHcCCCCCCcccccccccChHHHHHHHhhhCCChhH
Q 040691 497 VLKTKIDYFVNDFGYPISSLKPFPQYLMYNMKTVKCRLSMYNWLKDRKLVEPTLALSTIITCSDKLFVTRYVNRHPGGHQ 576 (585)
Q Consensus 497 ~L~~ki~fL~~~mg~~~~~l~~fP~~L~yslerikpR~~~~~~L~~~g~~~~~~sl~~il~~sd~~F~~~~v~~~p~~~~ 576 (585)
.++.+++.+.+ .|++.+.|+--|- ++|.- ....-+.+++.+..-. .+.+..++..|.|.|...+.+.-| ...
T Consensus 164 ~l~~~i~~a~~-~GI~~~~IilDPG-iGF~k-~~~~n~~ll~~l~~l~----~lg~Pilvg~SRKsfig~~~~~~~-~~r 235 (282)
T PRK11613 164 YFIEQIARCEA-AGIAKEKLLLDPG-FGFGK-NLSHNYQLLARLAEFH----HFNLPLLVGMSRKSMIGQLLNVGP-SER 235 (282)
T ss_pred HHHHHHHHHHH-cCCChhhEEEeCC-CCcCC-CHHHHHHHHHHHHHHH----hCCCCEEEEecccHHHHhhcCCCh-hhh
Confidence 46678887777 6999999988886 45532 2233343333332211 234557889999999998887533 334
Q ss_pred HHH
Q 040691 577 VWQ 579 (585)
Q Consensus 577 ~we 579 (585)
+|.
T Consensus 236 ~~~ 238 (282)
T PRK11613 236 LSG 238 (282)
T ss_pred hHH
Confidence 443
No 44
>COG1393 ArsC Arsenate reductase and related proteins, glutaredoxin family [Inorganic ion transport and metabolism]
Probab=24.32 E-value=98 Score=27.55 Aligned_cols=41 Identities=12% Similarity=0.131 Sum_probs=23.4
Q ss_pred CChhHHHHHHhhCCceeecccccchhHHHHHHHhhhhchHHHHHHH
Q 040691 322 TSMNEICLMFQQFPQIKLGEFFTNLRQCVVFLNEIEMEAKEIGNIV 367 (585)
Q Consensus 322 ~~~~~i~~vl~~~P~lL~~s~e~~l~p~v~fL~~lG~~~~~I~~il 367 (585)
++.+++...+..+|.++-..+- +.+.- ..+|++++++..++
T Consensus 75 ~~~~~~~~~i~~~~~LikRPiv--v~~~~---~~iG~~~e~~~~~l 115 (117)
T COG1393 75 LSDEELIEALLENPSLIKRPIV--VDNKK---LRVGFNEEEIRAFL 115 (117)
T ss_pred cChHHHHHHHHhChhhccCCeE--EeCCc---eEecCCHHHHHHHh
Confidence 4456667777777755554432 11111 44677777776654
No 45
>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=23.99 E-value=80 Score=27.34 Aligned_cols=79 Identities=24% Similarity=0.291 Sum_probs=39.4
Q ss_pred HHHHHHHHHhCCCCcchhhhhhhcccccchhhhHHHHHHHHhcCCCHHHHHHHHHhCC----cccccCccccHHHHHHHH
Q 040691 242 FIKVLEILKSMGIEFSWIGEHSTEQSTFNWRTMFSFLSFCSKIGCSEEQLRILIRQHP----EILFEDSGNMALSLVGFL 317 (585)
Q Consensus 242 l~p~v~~L~~lGl~~~~i~~~l~~~p~~~~~~l~~~l~fL~~lG~s~~~I~~ii~~~P----~lL~~~~e~~L~p~v~fL 317 (585)
-+...+||++-|+....+- +.+-+++.+++..++.... .++. ........+.-+
T Consensus 9 ~rka~~~L~~~gi~~~~~d--------------------~~k~p~s~~el~~~l~~~~~~~~~lin--~~~~~~k~l~~~ 66 (110)
T PF03960_consen 9 CRKALKWLEENGIEYEFID--------------------YKKEPLSREELRELLSKLGNGPDDLIN--TRSKTYKELGKL 66 (110)
T ss_dssp HHHHHHHHHHTT--EEEEE--------------------TTTS---HHHHHHHHHHHTSSGGGGB---TTSHHHHHTTHH
T ss_pred HHHHHHHHHHcCCCeEeeh--------------------hhhCCCCHHHHHHHHHHhcccHHHHhc--CccchHhhhhhh
Confidence 4567788888777655321 1123456666666666654 1221 111112222212
Q ss_pred HhcCCChhHHHHHHhhCCceeeccc
Q 040691 318 LKFGTSMNEICLMFQQFPQIKLGEF 342 (585)
Q Consensus 318 ~~lG~~~~~i~~vl~~~P~lL~~s~ 342 (585)
..-.++.+++..++..+|.++...+
T Consensus 67 ~~~~~s~~e~i~~l~~~p~LikRPI 91 (110)
T PF03960_consen 67 KKDDLSDEELIELLLENPKLIKRPI 91 (110)
T ss_dssp HCTTSBHHHHHHHHHHSGGGB-SSE
T ss_pred hhhhhhhHHHHHHHHhChhheeCCE
Confidence 2234778888888888888876654
No 46
>cd08805 Death_ank1 Death domain of Ankyrin-1. Death Domain (DD) of the human protein ankyrin-1 (ANK-1) and related proteins. Ankyrins are modular proteins comprising three conserved domains, an N-terminal membrane-binding domain containing ANK repeats, a spectrin-binding domain and a C-terminal DD. ANK-1, also called ankyrin-R (for restricted), is found in brain, muscle, and erythrocytes and is thought to function in linking integral membrane proteins to the underlying cytoskeleton. It plays a critical nonredundant role in erythroid development and is associated with hereditary spherocytosis (HS), a common disorder of the red cell membrane. The small alternatively-spliced variant, sANK-1, found in striated muscle and concentrated in the sarcoplasmic reticulum (SR) binds obscurin and titin, which facilitates the anchoring of the network SR to the contractile apparatus. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common featur
Probab=22.55 E-value=4e+02 Score=22.23 Aligned_cols=24 Identities=21% Similarity=0.361 Sum_probs=19.2
Q ss_pred HHHHHhCCChhHHHHHHHhCchhh
Q 040691 384 SLLTILKVGRKRLCAIILEDPQEM 407 (585)
Q Consensus 384 ~~L~~lGl~~~~l~~ii~~~P~~L 407 (585)
...++||++..++-.+-.+||.-+
T Consensus 20 ~Lar~L~vs~~dI~~I~~e~p~~l 43 (84)
T cd08805 20 ELARELQFSVEDINRIRVENPNSL 43 (84)
T ss_pred HHHHHcCCCHHHHHHHHHhCCCCH
Confidence 455678999999999999988754
No 47
>PRK14136 recX recombination regulator RecX; Provisional
Probab=22.03 E-value=9.3e+02 Score=25.27 Aligned_cols=26 Identities=8% Similarity=0.351 Sum_probs=21.2
Q ss_pred HHHHHHHHHHHcCCCHHHHHHHHHhc
Q 040691 462 DLRERFDLIVEAGLERKDVCDMVRVA 487 (585)
Q Consensus 462 ~l~~rv~fL~~~G~s~~~v~~mI~~~ 487 (585)
..++.+.||...||+.+.|..+|+.+
T Consensus 277 ek~K~iRfL~rRGFS~D~I~~vLk~~ 302 (309)
T PRK14136 277 ERAKQARFLAARGFSSATIVKLLKVG 302 (309)
T ss_pred HHHHHHHHHHHCCCCHHHHHHHHHhc
Confidence 34566889999999999999888754
No 48
>PHA01351 putative minor structural protein
Probab=21.68 E-value=1.3e+03 Score=26.99 Aligned_cols=225 Identities=10% Similarity=-0.005 Sum_probs=0.0
Q ss_pred HHHHHHHHhCCCCcchhhhhhhccc----------------ccchhhhHHHHHHHHhcCCCHHHHHHHHHhCCcccccCc
Q 040691 243 IKVLEILKSMGIEFSWIGEHSTEQS----------------TFNWRTMFSFLSFCSKIGCSEEQLRILIRQHPEILFEDS 306 (585)
Q Consensus 243 ~p~v~~L~~lGl~~~~i~~~l~~~p----------------~~~~~~l~~~l~fL~~lG~s~~~I~~ii~~~P~lL~~~~ 306 (585)
+..-.-|+.+|+++.-+..++.++- .....+.++.=.-|..+|+.++-+.+++.-+-+++.-.+
T Consensus 548 QD~EkELKkLg~s~alIqaiI~EyftepL~KlQLnvyEsLakKGY~d~qq~ksElk~LGidKe~i~klin~Y~ql~qt~~ 627 (1070)
T PHA01351 548 QDLEKDLKHLGFDSAIISALIYENQVEQLIKFQLNNIESLAKKGYLSLDEIKKQFKAIGIIKEYEDAFINFYNQELQISA 627 (1070)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHhhccchhHHHHHHHHHHHHHHHHH
Q ss_pred c------------ccHHHHHHHHHhcCCChhHHHHHHhhC---Cce---------eecccccchhHHHHHHHhhhhchHH
Q 040691 307 G------------NMALSLVGFLLKFGTSMNEICLMFQQF---PQI---------KLGEFFTNLRQCVVFLNEIEMEAKE 362 (585)
Q Consensus 307 e------------~~L~p~v~fL~~lG~~~~~i~~vl~~~---P~l---------L~~s~e~~l~p~v~fL~~lG~~~~~ 362 (585)
+ =.=+..+.-|+++|++++-+-.++..+ |-+ +.-.+.=+....-.-|+.+|++...
T Consensus 628 eIkYIqe~LK~f~IspkeAitELKKL~ISdaLAn~IV~eYf~iP~l~~q~TViEnIikgvpint~~~~~ELKKL~IpdSq 707 (1070)
T PHA01351 628 FLTILKSQLRQFQIDPKEAETELKKLNINEYLANQIIQEEYNINIAKLQLSVLETIAKTLYYDQQQLSGELKKIHKDKTA 707 (1070)
T ss_pred HHHHHHHHHHHcccCHHHHHHHHHHcCchHHHHHHHHHHHhcchHHHHHHHHHHHHHhcCCcchHHHHHHHHHcCCCHHH
Q ss_pred HHHHHHhCCcccccCcccchHHHHHHhCC--ChhHHHHHHHhCchhhHhhhhccCCCCCCcccccccc-----hhHHHHH
Q 040691 363 IGNIVRTHPVLLGTCALKKTSSLLTILKV--GRKRLCAIILEDPQEMKKWVMGCRLKPLPRLQLKEEE-----SDTLKAE 435 (585)
Q Consensus 363 I~~il~~~P~iL~~~~lk~~v~~L~~lGl--~~~~l~~ii~~~P~~L~~~~~g~~~~~~~~~~~~~~~-----~~~~k~~ 435 (585)
|..++..+-+.--..++..-..-|.+.|+ +-+.+.+.+.++-..+ --.+ .++---+
T Consensus 708 Inil~t~yy~~~~~~kls~~~~sl~~~g~l~~~s~i~e~~~~y~~~~-----------------a~~~y~~~~ei~yi~~ 770 (1070)
T PHA01351 708 LELYITKFYYEYIYPKISNYHLQLARHGILSDISKLPKEVNDYEYKP-----------------AVLTYQTTLEIEYIKE 770 (1070)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcCchhhHHHhhHHHHhccchh-----------------HHHhhhHHHHHHHHHH
Q ss_pred HHHHhCCCcchhhHHHHHHHHhhccHHHHHHHHHHHHcCCCHHHHHHHHHhcCcccccCHHHHHHHHH
Q 040691 436 FLLEVGFEENSKQFETALKDLRTRARDLRERFDLIVEAGLERKDVCDMVRVAPLILKQKKEVLKTKID 503 (585)
Q Consensus 436 fL~~lG~~e~~~~~~~al~~~~~~~~~l~~rv~fL~~~G~s~~~v~~mI~~~P~iL~~s~e~L~~ki~ 503 (585)
-|+++-.++ +....-|.++|++.+-+.-+|..+-..+.--...++.-++
T Consensus 771 ~lkdl~i~~-------------------k~a~~el~kl~~s~~i~~~iv~~~~p~~~s~~t~~q~iie 819 (1070)
T PHA01351 771 SLKDLEIKP-------------------KTAINELEKLGMQKDIAQLIVNTYIPTFYSPHTIIQNIIE 819 (1070)
T ss_pred HHhhcccCc-------------------hhHHHHHHHcCchHHHHHHHHhhcCCccccHHHHHHHHhh
No 49
>PRK09875 putative hydrolase; Provisional
Probab=21.63 E-value=5.6e+02 Score=26.58 Aligned_cols=92 Identities=16% Similarity=0.243 Sum_probs=0.0
Q ss_pred HHHHHHHhCCC--------------CHHHHHHHHhhCCceee-------cChhhHHHHHHHHHHhCC-CCcchhhhhhhc
Q 040691 208 SKLQAFEKLGL--------------SQSFVRKVIVRNPKFLV-------GDVNLEFIKVLEILKSMG-IEFSWIGEHSTE 265 (585)
Q Consensus 208 ~~l~~L~~lGl--------------s~~~i~~ii~~~P~lL~-------~~v~~~l~p~v~~L~~lG-l~~~~i~~~l~~ 265 (585)
+.++.|++.|+ +...+.+++.+==++=. ..++.+....+..|.+-| .+.=-+..=+..
T Consensus 167 e~l~il~e~Gvd~~rvvi~H~d~~~d~~~~~~l~~~G~~l~fD~~g~~~~~pd~~r~~~i~~L~~~Gy~drilLS~D~~~ 246 (292)
T PRK09875 167 EQLALLQAHGVDLSRVTVGHCDLKDNLDNILKMIDLGAYVQFDTIGKNSYYPDEKRIAMLHALRDRGLLNRVMLSMDITR 246 (292)
T ss_pred HHHHHHHHcCcCcceEEEeCCCCCCCHHHHHHHHHcCCEEEeccCCCcccCCHHHHHHHHHHHHhcCCCCeEEEeCCCCC
Q ss_pred ccccch-------hhhHHHHHHHHhcCCCHHHHHHHHHhCC
Q 040691 266 QSTFNW-------RTMFSFLSFCSKIGCSEEQLRILIRQHP 299 (585)
Q Consensus 266 ~p~~~~-------~~l~~~l~fL~~lG~s~~~I~~ii~~~P 299 (585)
...... .-+...+..|++.|+++++|.+++..||
T Consensus 247 ~~~~~~~gg~G~~~i~~~~ip~L~~~Gvse~~I~~m~~~NP 287 (292)
T PRK09875 247 RSHLKANGGYGYDYLLTTFIPQLRQSGFSQADVDVMLRENP 287 (292)
T ss_pred cccccccCCCChhHHHHHHHHHHHHcCCCHHHHHHHHHHCH
No 50
>PF14518 Haem_oxygenas_2: Iron-containing redox enzyme; PDB: 3BJD_B.
Probab=21.26 E-value=74 Score=27.14 Aligned_cols=17 Identities=24% Similarity=0.409 Sum_probs=9.2
Q ss_pred cchHHHHHhcCCCCCcc
Q 040691 138 NEFEPFFESLGLKPCEY 154 (585)
Q Consensus 138 ~e~~~fleslg~~~~~~ 154 (585)
+-|..|++++|+++...
T Consensus 20 ~Lf~~~L~~~Gi~~~~~ 36 (106)
T PF14518_consen 20 ELFRRFLRALGIDDEPG 36 (106)
T ss_dssp HHHHHHHHHTT-----T
T ss_pred HHHHHHHHHcCCCCccc
Confidence 34678999999997744
No 51
>PRK14134 recX recombination regulator RecX; Provisional
Probab=20.89 E-value=5.6e+02 Score=26.38 Aligned_cols=93 Identities=12% Similarity=0.101 Sum_probs=0.0
Q ss_pred ccchhhHHHHHHHHHhCC-CCHHHHHHHHhhCCceeecChhhHHHHHHHHHHhCCCCcchhhhhhhcccccchhhh----
Q 040691 200 RYDFGVLRSKLQAFEKLG-LSQSFVRKVIVRNPKFLVGDVNLEFIKVLEILKSMGIEFSWIGEHSTEQSTFNWRTM---- 274 (585)
Q Consensus 200 ~~~~~~l~~~l~~L~~lG-ls~~~i~~ii~~~P~lL~~~v~~~l~p~v~~L~~lGl~~~~i~~~l~~~p~~~~~~l---- 274 (585)
+++++.++..|+.|.+.| +++...+....+.-.= ..--..+-..|+.-||+.+.|...+...+...+...
T Consensus 89 ~~~~~~Ie~vI~~L~e~~yldD~ryA~~yv~~~~~-----~~G~~~I~~eL~qKGI~~~iIe~al~~~~~e~e~e~a~~l 163 (283)
T PRK14134 89 EYDEDAVNRVIRFLKEYNFIDDDKYCDMYIREKIN-----SYGRNKIKYTLLNKGIKENIIIEKINNIDEEKEKKVAYKL 163 (283)
T ss_pred CCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHH-----hhhHHHHHHHHHHCCCCHHHHHHHHHhCChhhHHHHHHHH
Q ss_pred -------------------HHHHHHHHhcCCCHHHHHHHHHh
Q 040691 275 -------------------FSFLSFCSKIGCSEEQLRILIRQ 297 (585)
Q Consensus 275 -------------------~~~l~fL~~lG~s~~~I~~ii~~ 297 (585)
.-..+||..-||+.+.|..++..
T Consensus 164 ~~Kk~~~~~~~~~~~~k~k~Kl~~~L~rrGFs~~~I~~vl~~ 205 (283)
T PRK14134 164 AEKKYKILILSEKNKFKIYKKLGPYLISRGYSSNIAEWILNE 205 (283)
T ss_pred HHHhhcccccccccHHHHHHHHHHHHHHCCCCHHHHHHHHHH
Done!