Query psy14229
Match_columns 119
No_of_seqs 127 out of 1235
Neff 7.4
Searched_HMMs 46136
Date Fri Aug 16 22:42:18 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy14229.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/14229hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0924|consensus 99.9 1.2E-26 2.7E-31 191.8 9.0 100 6-119 746-845 (1042)
2 PF04408 HA2: Helicase associa 99.9 3E-25 6.6E-30 146.7 9.2 100 7-111 1-102 (102)
3 KOG0925|consensus 99.9 6.4E-25 1.4E-29 176.7 8.8 102 5-119 435-536 (699)
4 smart00847 HA2 Helicase associ 99.9 1.2E-23 2.6E-28 135.8 8.8 90 7-111 1-92 (92)
5 KOG0923|consensus 99.9 1.2E-23 2.6E-28 173.6 8.3 102 5-119 654-755 (902)
6 PRK11131 ATP-dependent RNA hel 99.9 3.4E-22 7.4E-27 175.4 10.9 100 5-118 458-562 (1294)
7 KOG0922|consensus 99.9 1.4E-22 3.1E-27 166.9 6.7 102 5-119 437-539 (674)
8 TIGR01967 DEAH_box_HrpA ATP-de 99.8 5.1E-21 1.1E-25 168.3 11.1 100 5-118 451-553 (1283)
9 KOG0920|consensus 99.8 4.7E-20 1E-24 157.6 7.3 102 5-119 594-695 (924)
10 COG1643 HrpA HrpA-like helicas 99.7 4.3E-17 9.4E-22 139.2 10.5 105 4-118 434-544 (845)
11 KOG0926|consensus 99.6 1.2E-14 2.6E-19 122.8 8.5 112 5-118 752-883 (1172)
12 TIGR01970 DEAH_box_HrpB ATP-de 99.5 9.3E-14 2E-18 119.2 7.4 65 5-70 383-447 (819)
13 PRK11664 ATP-dependent RNA hel 99.2 1.6E-11 3.4E-16 105.5 6.6 62 4-65 385-448 (812)
14 KOG0921|consensus 98.5 2E-08 4.3E-13 86.5 0.2 104 7-118 825-928 (1282)
15 PRK01172 ski2-like helicase; P 95.7 0.017 3.6E-07 49.1 4.5 46 5-50 446-493 (674)
16 PHA02653 RNA helicase NPH-II; 90.1 0.17 3.7E-06 43.5 1.7 39 5-49 555-595 (675)
17 PRK02362 ski2-like helicase; P 89.9 0.47 1E-05 40.9 4.2 47 4-50 466-515 (737)
18 PF08148 DSHCT: DSHCT (NUC185) 76.9 3.3 7.1E-05 29.7 3.2 47 18-64 1-50 (180)
19 PF12246 MKT1_C: Temperature d 62.0 2.9 6.2E-05 31.5 0.2 27 10-36 1-27 (243)
20 TIGR02647 DNA conserved hypoth 61.4 14 0.0003 23.2 3.2 30 3-32 34-65 (77)
21 PRK00254 ski2-like helicase; P 57.7 21 0.00046 30.8 4.8 57 5-61 457-521 (720)
22 KOG0921|consensus 56.6 2.6 5.6E-05 38.0 -0.9 26 92-117 897-922 (1282)
23 PTZ00095 40S ribosomal protein 54.2 11 0.00025 27.1 2.2 29 4-32 121-154 (169)
24 PF14338 Mrr_N: Mrr N-terminal 51.2 15 0.00032 23.2 2.2 26 7-32 59-88 (92)
25 PF01090 Ribosomal_S19e: Ribos 49.5 10 0.00022 26.5 1.3 28 4-31 96-127 (139)
26 PRK09333 30S ribosomal protein 42.0 28 0.00061 24.6 2.6 29 4-32 97-128 (150)
27 COG1202 Superfamily II helicas 41.7 33 0.00072 29.9 3.4 58 5-64 619-679 (830)
28 PF09821 AAA_assoc_C: C-termin 39.1 18 0.00038 24.4 1.2 55 8-64 17-74 (120)
29 KOG0947|consensus 33.4 2.1E+02 0.0045 26.7 7.1 58 6-64 1057-1119(1248)
30 PF14947 HTH_45: Winged helix- 32.2 28 0.00062 21.2 1.3 28 5-32 36-66 (77)
31 KOG3411|consensus 31.5 34 0.00073 23.8 1.6 27 5-31 100-130 (143)
32 PF14502 HTH_41: Helix-turn-he 31.4 39 0.00086 19.3 1.6 16 4-19 22-37 (48)
33 PF13182 DUF4007: Protein of u 24.6 61 0.0013 25.0 2.1 30 12-42 52-85 (286)
34 PF03368 Dicer_dimer: Dicer di 24.4 51 0.0011 20.8 1.5 19 7-27 66-84 (90)
35 COG2238 RPS19A Ribosomal prote 23.8 62 0.0013 22.7 1.9 29 4-32 97-128 (147)
36 PRK14845 translation initiatio 23.1 61 0.0013 29.8 2.1 27 6-33 390-416 (1049)
37 PF11865 DUF3385: Domain of un 21.3 63 0.0014 22.6 1.5 15 6-20 29-43 (160)
38 PF13463 HTH_27: Winged helix 21.1 81 0.0018 17.9 1.8 25 4-28 34-68 (68)
39 PF04458 DUF505: Protein of un 20.3 89 0.0019 26.9 2.4 23 10-32 244-266 (591)
No 1
>KOG0924|consensus
Probab=99.94 E-value=1.2e-26 Score=191.82 Aligned_cols=100 Identities=28% Similarity=0.479 Sum_probs=92.7
Q ss_pred HHHHHHhhhcCccCCCCCCCHHHHHhhcCCCchhhHHHHHHhhhhchHHHHHHHHHHhcCCCCccccchhhhhhhhchhh
Q psy14229 6 ANDELTPLEMKCLDANDELTPLGKILARLPLEPRLGKMLLLGSIFNCGDALNIVAASASGSNEIFVTERRLSYAQRSNEI 85 (119)
Q Consensus 6 ~~A~~~L~~lgald~~~~lT~~G~~~~~lP~~p~lak~Ll~~~~~~c~~~~~~i~a~ls~~~~~F~~~~~~~~~~~~~~~ 85 (119)
..|+..|+.|||||..|.||++|++|++||+||.++|||+.++.+||.+|+++|++|||+ +.+|..|++
T Consensus 746 ~~sly~Lw~LGAl~~~g~LT~lG~~MvefpLDP~lsKmll~a~~~Gc~dEilsIvSmLSv-p~VF~rpke---------- 814 (1042)
T KOG0924|consen 746 LNSLYQLWTLGALDNTGQLTPLGRKMVEFPLDPPLSKMLLMAARMGCSDEILSIVSMLSV-PAVFYRPKE---------- 814 (1042)
T ss_pred HHHHHHHHHhhccccCCccchhhHHhhhCCCCchHHHHHHHHhccCcHHHHHHHHHHhcc-cceeecccc----------
Confidence 478899999999999999999999999999999999999999999999999999999998 899999973
Q ss_pred hHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhhC
Q psy14229 86 FVTERRLSYAQRAFAGSRYSDFVAVINAFNMFIV 119 (119)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~sDhl~~l~if~~~~~ 119 (119)
..+.++.+|.+|+. ++|||+|+||||++|..
T Consensus 815 --r~eead~ar~Kf~~-~~sDhLTlLNVf~qw~~ 845 (1042)
T KOG0924|consen 815 --REEEADAAREKFQV-PESDHLTLLNVFNQWRK 845 (1042)
T ss_pred --chhhhhhHHhhhcC-CCCchhhHHHHHHHHHh
Confidence 24567789999997 89999999999999973
No 2
>PF04408 HA2: Helicase associated domain (HA2); InterPro: IPR007502 This presumed domain is about 90 amino acid residues in length. It is found as a diverse set of RNA helicases. Its function is unknown, however it seems likely to be involved in nucleic acid binding.; GO: 0004386 helicase activity; PDB: 3I4U_A 2XAU_B 3KX2_B.
Probab=99.92 E-value=3e-25 Score=146.74 Aligned_cols=100 Identities=32% Similarity=0.479 Sum_probs=64.7
Q ss_pred HHHHHhhhcCccCCCCCCCHHHHHhhcCCCchhhHHHHHHhhhhchHHHHHHHHHHhcCCCCccccchhhhhhhhchhhh
Q psy14229 7 NDELTPLEMKCLDANDELTPLGKILARLPLEPRLGKMLLLGSIFNCGDALNIVAASASGSNEIFVTERRLSYAQRSNEIF 86 (119)
Q Consensus 7 ~A~~~L~~lgald~~~~lT~~G~~~~~lP~~p~lak~Ll~~~~~~c~~~~~~i~a~ls~~~~~F~~~~~~~~~~~~~~~~ 86 (119)
+|++.|+.+||||++|+||++|+.|+.||++|++||||+.+..++|..++++|+|++|+ +++|..+.+.... ++..
T Consensus 1 ~A~~~L~~Lgald~~~~lT~lG~~~~~lPl~p~~a~~Ll~~~~~~~~~~~~~iaa~ls~-~~~f~~~~~~~~~---~~~~ 76 (102)
T PF04408_consen 1 KALELLKSLGALDENGNLTPLGRKMSQLPLDPRLAKMLLYGIQFGCLDEALIIAAILSV-RSPFINPDDKEEN---AEQD 76 (102)
T ss_dssp -HHHHHHHTTSB-TTS-B-HHHHHHTTSSS-HHHHHHHHHHHHCT-HHHHHHHHHHHTS-S--B---CCGHHH---HHH-
T ss_pred CHHHHHHHCCCCCCCCCcCHHHHHHHHCCCchHhHhHhhhccccccHHHHHHHHHHHcC-CCcccCccHHHHH---HHHH
Confidence 58999999999999999999999999999999999999999999999999999999998 9999997531100 0000
Q ss_pred HHHHH--HHHHHHhhCCCCCCHHHHHH
Q psy14229 87 VTERR--LSYAQRAFAGSRYSDFVAVI 111 (119)
Q Consensus 87 ~~~~~--~~~~~~~~~~~~~sDhl~~l 111 (119)
..+++ ....+..+. +..|||+|++
T Consensus 77 ~~~~~~~~~~~~~~~~-~~~sDhltlL 102 (102)
T PF04408_consen 77 NAKKKFRIKQARKKFS-DDESDHLTLL 102 (102)
T ss_dssp -HHHTT-----------BTTBHHHHHH
T ss_pred HHHHHhhhhhcccccC-CCCCCHHhcC
Confidence 00111 122344445 4799999986
No 3
>KOG0925|consensus
Probab=99.92 E-value=6.4e-25 Score=176.68 Aligned_cols=102 Identities=26% Similarity=0.409 Sum_probs=95.1
Q ss_pred HHHHHHHhhhcCccCCCCCCCHHHHHhhcCCCchhhHHHHHHhhhhchHHHHHHHHHHhcCCCCccccchhhhhhhhchh
Q psy14229 5 DANDELTPLEMKCLDANDELTPLGKILARLPLEPRLGKMLLLGSIFNCGDALNIVAASASGSNEIFVTERRLSYAQRSNE 84 (119)
Q Consensus 5 ~~~A~~~L~~lgald~~~~lT~~G~~~~~lP~~p~lak~Ll~~~~~~c~~~~~~i~a~ls~~~~~F~~~~~~~~~~~~~~ 84 (119)
.-+|++.|..|+|||++|+||++|..|++||+||.++|||+.+++|+|..++++|+||||+ ++.|+.|..+
T Consensus 435 LMrALE~LnYLaaLdDdGnLT~lG~imSEFPLdPqLAkmLi~S~efnCsnEiLsisAMLsv-PncFvRp~~~-------- 505 (699)
T KOG0925|consen 435 LMRALEVLNYLAALDDDGNLTSLGEIMSEFPLDPQLAKMLIGSCEFNCSNEILSISAMLSV-PNCFVRPTSS-------- 505 (699)
T ss_pred HHHHHHHhhhhhhhCCCcccchhhhhhhcCCCChHHHHHHhhcCCCCchHHHHHHHhcccC-CccccCCChh--------
Confidence 3489999999999999999999999999999999999999999999999999999999998 8999999731
Q ss_pred hhHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhhC
Q psy14229 85 IFVTERRLSYAQRAFAGSRYSDFVAVINAFNMFIV 119 (119)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~sDhl~~l~if~~~~~ 119 (119)
.++.++.+++.|.| ..|||+|++|+|.+|+|
T Consensus 506 ---a~kaAdeak~~faH-~dGDHlTLlnVYhAfkq 536 (699)
T KOG0925|consen 506 ---ASKAADEAKETFAH-IDGDHLTLLNVYHAFKQ 536 (699)
T ss_pred ---HHHHHHHHHHHhcc-CCcchHHHHHHHHHHHh
Confidence 36778899999997 89999999999999986
No 4
>smart00847 HA2 Helicase associated domain (HA2) Add an annotation. This presumed domain is about 90 amino acid residues in length. It is found is a diverse set of RNA helicases. Its function is unknown, however it seems likely to be involved in nucleic acid binding.
Probab=99.90 E-value=1.2e-23 Score=135.77 Aligned_cols=90 Identities=34% Similarity=0.499 Sum_probs=78.4
Q ss_pred HHHHHhhhcCccCCCCCCCHHHHHhhcCCCchhhHHHHHHhhhh-chHHHHHHHHHHhcCCCCccccchhhhhhhhchhh
Q psy14229 7 NDELTPLEMKCLDANDELTPLGKILARLPLEPRLGKMLLLGSIF-NCGDALNIVAASASGSNEIFVTERRLSYAQRSNEI 85 (119)
Q Consensus 7 ~A~~~L~~lgald~~~~lT~~G~~~~~lP~~p~lak~Ll~~~~~-~c~~~~~~i~a~ls~~~~~F~~~~~~~~~~~~~~~ 85 (119)
+|++.|+.+||||++|+||++|+.|+.||++|++||||+.+..+ +|.+++++|+|++++ .++|..+.
T Consensus 1 ~A~~~L~~LgAld~~~~lT~lG~~m~~lPl~Prla~~Ll~a~~~~~c~~~~~~i~a~ls~-~~~~~~~~----------- 68 (92)
T smart00847 1 AALELLYELGALDDDGRLTPLGRKMAELPLDPRLAKMLLAAAELFGCLDEILTIAAMLSV-GDPFPRPE----------- 68 (92)
T ss_pred CHHHHHHHCCCcCCCCCcCHHHHHHHHCCCChHHHHHHHHHHhhcCcHHHHHHHHHHhcC-CCCcCCch-----------
Confidence 48899999999999999999999999999999999999999999 899999999999997 67776552
Q ss_pred hHHHHHHHHHHHhhCCCC-CCHHHHHH
Q psy14229 86 FVTERRLSYAQRAFAGSR-YSDFVAVI 111 (119)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~-~sDhl~~l 111 (119)
.+.++...+..|.+ . .|||++++
T Consensus 69 --~~~~~~~~~~~~~~-~~~~D~~~~l 92 (92)
T smart00847 69 --KRAEADAARRRFAS-GRESDHLTLL 92 (92)
T ss_pred --HHHHHHHHHHHccC-CCCCChhhhC
Confidence 24455667888885 5 89999874
No 5
>KOG0923|consensus
Probab=99.89 E-value=1.2e-23 Score=173.63 Aligned_cols=102 Identities=22% Similarity=0.393 Sum_probs=93.2
Q ss_pred HHHHHHHhhhcCccCCCCCCCHHHHHhhcCCCchhhHHHHHHhhhhchHHHHHHHHHHhcCCCCccccchhhhhhhhchh
Q psy14229 5 DANDELTPLEMKCLDANDELTPLGKILARLPLEPRLGKMLLLGSIFNCGDALNIVAASASGSNEIFVTERRLSYAQRSNE 84 (119)
Q Consensus 5 ~~~A~~~L~~lgald~~~~lT~~G~~~~~lP~~p~lak~Ll~~~~~~c~~~~~~i~a~ls~~~~~F~~~~~~~~~~~~~~ 84 (119)
+..|++.|+.|||||..|.||.+||+|++||+||+++|||+.+..++|.+++++|+||||+..++|..|++
T Consensus 654 L~~aLE~LyaLGALn~~GeLTk~GrrMaEfP~dPmlsKmi~as~ky~cs~EiitiaamlS~~~svfyrpk~--------- 724 (902)
T KOG0923|consen 654 LLKALEQLYALGALNHLGELTKLGRRMAEFPVDPMLSKMIVASEKYKCSEEIITIAAMLSVGASVFYRPKD--------- 724 (902)
T ss_pred HHHHHHHHHHhhccccccchhhhhhhhhhcCCCHHHHhHHhhhccccchHHHHHHHHHHhcCchheecchh---------
Confidence 34789999999999999999999999999999999999999999999999999999999998999999973
Q ss_pred hhHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhhC
Q psy14229 85 IFVTERRLSYAQRAFAGSRYSDFVAVINAFNMFIV 119 (119)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~sDhl~~l~if~~~~~ 119 (119)
.+..++++++.|.+ +.|||++++++|++|.+
T Consensus 725 ---~~v~ad~a~~~f~~-~~gDhi~~L~vyn~w~e 755 (902)
T KOG0923|consen 725 ---KQVHADNARKNFEE-PVGDHIVLLNVYNQWKE 755 (902)
T ss_pred ---hhhhhhhhhhccCC-CCcchhhhhHHHHHHhh
Confidence 24456788899986 79999999999999974
No 6
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=99.87 E-value=3.4e-22 Score=175.41 Aligned_cols=100 Identities=27% Similarity=0.413 Sum_probs=90.8
Q ss_pred HHHHHHHhhhcCccCCC-----CCCCHHHHHhhcCCCchhhHHHHHHhhhhchHHHHHHHHHHhcCCCCccccchhhhhh
Q psy14229 5 DANDELTPLEMKCLDAN-----DELTPLGKILARLPLEPRLGKMLLLGSIFNCGDALNIVAASASGSNEIFVTERRLSYA 79 (119)
Q Consensus 5 ~~~A~~~L~~lgald~~-----~~lT~~G~~~~~lP~~p~lak~Ll~~~~~~c~~~~~~i~a~ls~~~~~F~~~~~~~~~ 79 (119)
++.|++.|+.+||||.+ ++||++|+.|+.||+||++||||+.|..++|.+++++|+|+||+ ++||..|.+
T Consensus 458 i~~al~~L~~LgAld~~~~~~~~~LT~lG~~la~LPldPrlakmLl~a~~~~c~~evl~IaA~Lsv-~dpf~~p~~---- 532 (1294)
T PRK11131 458 IQDGVRLLEELGAITTDEQASAYKLTPLGRQLAQLPVDPRLARMVLEAQKHGCVREVMIITSALSI-QDPRERPMD---- 532 (1294)
T ss_pred HHHHHHHHHHCCCCCccccCCCccCcHHHHHHHhCCCChHHHHHHHHhhhcCCHHHHHHHHHHHcC-CCcccCCch----
Confidence 57899999999999864 57999999999999999999999999999999999999999997 899998863
Q ss_pred hhchhhhHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhh
Q psy14229 80 QRSNEIFVTERRLSYAQRAFAGSRYSDFVAVINAFNMFI 118 (119)
Q Consensus 80 ~~~~~~~~~~~~~~~~~~~~~~~~~sDhl~~l~if~~~~ 118 (119)
.+++++++|++|.+ +.|||++++|+|+.|.
T Consensus 533 --------~~~~a~~~~~~f~~-~~sD~lt~ln~~~~~~ 562 (1294)
T PRK11131 533 --------KQQASDEKHRRFAD-KESDFLAFVNLWNYLQ 562 (1294)
T ss_pred --------hHHHHHHHHHhhCC-CCCCHHHHHHHHHHHH
Confidence 35567788999985 8999999999999985
No 7
>KOG0922|consensus
Probab=99.87 E-value=1.4e-22 Score=166.92 Aligned_cols=102 Identities=26% Similarity=0.407 Sum_probs=92.7
Q ss_pred HHHHHHHhhhcCccCCCCCCCH-HHHHhhcCCCchhhHHHHHHhhhhchHHHHHHHHHHhcCCCCccccchhhhhhhhch
Q psy14229 5 DANDELTPLEMKCLDANDELTP-LGKILARLPLEPRLGKMLLLGSIFNCGDALNIVAASASGSNEIFVTERRLSYAQRSN 83 (119)
Q Consensus 5 ~~~A~~~L~~lgald~~~~lT~-~G~~~~~lP~~p~lak~Ll~~~~~~c~~~~~~i~a~ls~~~~~F~~~~~~~~~~~~~ 83 (119)
+..|++.|+.+||||++|.||. +|+.|+.||++|.++|+|+.+..+||..++++|+|+||+ +++|..|.+.
T Consensus 437 l~~AL~~L~~lgald~~g~lt~p~G~~ma~~Pl~p~lsk~ll~s~~~gc~~e~l~i~a~Lsv-~~~f~~p~~~------- 508 (674)
T KOG0922|consen 437 LEEALEELYSLGALDDRGKLTSPLGRQMAELPLEPHLSKMLLKSSELGCSEEILTIAAMLSV-QSVFSRPKDK------- 508 (674)
T ss_pred HHHHHHHHHhcCcccCcCCcCchHHhhhhhcCCCcchhhhhhhccccCCcchhhhheeeeec-cceecCccch-------
Confidence 4689999999999999999997 999999999999999999999999999999999999998 8999999741
Q ss_pred hhhHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhhC
Q psy14229 84 EIFVTERRLSYAQRAFAGSRYSDFVAVINAFNMFIV 119 (119)
Q Consensus 84 ~~~~~~~~~~~~~~~~~~~~~sDhl~~l~if~~~~~ 119 (119)
..++++..|.+|.. ++|||+|++++|+.|.+
T Consensus 509 ----~~~~a~~~~~kf~~-~eGDh~tlL~vy~~~~~ 539 (674)
T KOG0922|consen 509 ----KAEDADRKRAKFAN-PEGDHLTLLNVYESWKE 539 (674)
T ss_pred ----hhhhhhHHHHhhcC-cccCHHHHHHHHHHHHh
Confidence 12247788999995 89999999999999974
No 8
>TIGR01967 DEAH_box_HrpA ATP-dependent helicase HrpA. This model represents HrpA, one of two related but uncharacterized DEAH-box ATP-dependent helicases in many Proteobacteria and a few high-GC Gram-positive bacteria. HrpA is about 1300 amino acids long, while its paralog HrpB, also uncharacterized, is about 800 amino acids long. Related characterized eukarotic proteins are RNA helicases associated with pre-mRNA processing.
Probab=99.85 E-value=5.1e-21 Score=168.26 Aligned_cols=100 Identities=27% Similarity=0.403 Sum_probs=91.3
Q ss_pred HHHHHHHhhhcCccCCCC---CCCHHHHHhhcCCCchhhHHHHHHhhhhchHHHHHHHHHHhcCCCCccccchhhhhhhh
Q psy14229 5 DANDELTPLEMKCLDAND---ELTPLGKILARLPLEPRLGKMLLLGSIFNCGDALNIVAASASGSNEIFVTERRLSYAQR 81 (119)
Q Consensus 5 ~~~A~~~L~~lgald~~~---~lT~~G~~~~~lP~~p~lak~Ll~~~~~~c~~~~~~i~a~ls~~~~~F~~~~~~~~~~~ 81 (119)
+++|++.|+.+||||.+| +||++|+.|+.||++|++||||+.|..++|..++++|+|+||+ ++||..|.+
T Consensus 451 i~~A~~~L~~LGAld~~~~~~~LT~lGr~ma~LPldPrlarmLl~a~~~gcl~e~l~IaA~Ls~-~dp~~~p~~------ 523 (1283)
T TIGR01967 451 IRDGFRLLEELGALDDDEAEPQLTPIGRQLAQLPVDPRLARMLLEAHRLGCLQEVLIIASALSI-QDPRERPME------ 523 (1283)
T ss_pred HHHHHHHHHHCCCCCCCCCCccccHHHHHHhhcCCChHHHHHHHHhhhcCCHHHHHHHHHHHcC-CCcCCCcch------
Confidence 568999999999999988 7999999999999999999999999999999999999999997 899988763
Q ss_pred chhhhHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhh
Q psy14229 82 SNEIFVTERRLSYAQRAFAGSRYSDFVAVINAFNMFI 118 (119)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~sDhl~~l~if~~~~ 118 (119)
.+.+++++|++|.+ +.|||++++|+|+.|.
T Consensus 524 ------~~~~a~~~~~~f~~-~~sD~l~~L~~~~~~~ 553 (1283)
T TIGR01967 524 ------KQQAADQAHARFKD-PRSDFLSRVNLWRHIE 553 (1283)
T ss_pred ------hHHHHHHHHHHhcC-CCCCHHHHHHHHHHHH
Confidence 35567788999985 7999999999999885
No 9
>KOG0920|consensus
Probab=99.81 E-value=4.7e-20 Score=157.57 Aligned_cols=102 Identities=33% Similarity=0.445 Sum_probs=92.6
Q ss_pred HHHHHHHhhhcCccCCCCCCCHHHHHhhcCCCchhhHHHHHHhhhhchHHHHHHHHHHhcCCCCccccchhhhhhhhchh
Q psy14229 5 DANDELTPLEMKCLDANDELTPLGKILARLPLEPRLGKMLLLGSIFNCGDALNIVAASASGSNEIFVTERRLSYAQRSNE 84 (119)
Q Consensus 5 ~~~A~~~L~~lgald~~~~lT~~G~~~~~lP~~p~lak~Ll~~~~~~c~~~~~~i~a~ls~~~~~F~~~~~~~~~~~~~~ 84 (119)
+..|+..|..+|||+++.+||++|+.++.+|+||++|||++.|..|+|++++++|||+|+. ++||+.|.+
T Consensus 594 v~~a~~~L~~igaL~~~e~LT~LG~~la~lPvd~~igK~ll~g~if~cLdp~l~iaa~Ls~-k~PF~~~~~--------- 663 (924)
T KOG0920|consen 594 VDLAIERLKQIGALDESEELTPLGLHLASLPVDVRIGKLLLFGAIFGCLDPALTIAAALSF-KSPFVSPLG--------- 663 (924)
T ss_pred HHHHHHHHHHhccccCcccchHHHHHHHhCCCccccchhheehhhccccchhhhHHHHhcc-CCCcccCCC---------
Confidence 3589999999999999999999999999999999999999999999999999999999995 999999974
Q ss_pred hhHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhhC
Q psy14229 85 IFVTERRLSYAQRAFAGSRYSDFVAVINAFNMFIV 119 (119)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~sDhl~~l~if~~~~~ 119 (119)
.++.++++++.|..+..|||++++++|+.|.+
T Consensus 664 ---~~~~~~~~~~~~~~~~~SD~la~~~ay~~w~~ 695 (924)
T KOG0920|consen 664 ---KREEADKAKKLLALDSISDHLAVVRAYAGWRE 695 (924)
T ss_pred ---chhHHHHHHHHhccCCcchHHHHHHHHHHHHH
Confidence 35567778888886557999999999999963
No 10
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=99.71 E-value=4.3e-17 Score=139.20 Aligned_cols=105 Identities=26% Similarity=0.320 Sum_probs=83.0
Q ss_pred hHHHHHHHhhhcCccCCCCCCCHHHHHhhcCCCchhhHHHHHHhhhhchHHHHHHHHHHhcCCCC---ccccchhhhhhh
Q psy14229 4 LDANDELTPLEMKCLDANDELTPLGKILARLPLEPRLGKMLLLGSIFNCGDALNIVAASASGSNE---IFVTERRLSYAQ 80 (119)
Q Consensus 4 ~~~~A~~~L~~lgald~~~~lT~~G~~~~~lP~~p~lak~Ll~~~~~~c~~~~~~i~a~ls~~~~---~F~~~~~~~~~~ 80 (119)
.+..|++.|+.+||||.+|.||++|+.|+.||++|++|+||+.+..++|..++++|+|+||+ ++ .|..+.+.+.
T Consensus 434 ~i~~A~~~L~~LGAld~~g~LT~lG~~ms~lpldprLA~mLl~a~~~g~~~e~~~Ias~Ls~-~~~~s~~~~~~~~~~-- 510 (845)
T COG1643 434 AIQAALTLLQELGALDDSGKLTPLGKQMSLLPLDPRLARMLLTAPEGGCLGEAATIASMLSE-QDRESDFSRDVKLRK-- 510 (845)
T ss_pred HHHHHHHHHHHcCCcCCCCCCCHHHHHHHhCCCChHHHHHHHhccccCcHHHHHHHHHhhcc-CCCcchhccccchhh--
Confidence 45689999999999999999999999999999999999999999999999999999999997 55 4666553100
Q ss_pred hchhhhHHHHHHHHHH-HhhC--CCCCCHHHHHHHHHHHhh
Q psy14229 81 RSNEIFVTERRLSYAQ-RAFA--GSRYSDFVAVINAFNMFI 118 (119)
Q Consensus 81 ~~~~~~~~~~~~~~~~-~~~~--~~~~sDhl~~l~if~~~~ 118 (119)
.+.+...++ .++. .++.+||++++++|..|.
T Consensus 511 -------~~~~~~~~~~l~~~~~~~~~~d~~~ll~~~~~~i 544 (845)
T COG1643 511 -------QRTAQDLLKRLKRRNAADPRGDHLLLLEAFPDRI 544 (845)
T ss_pred -------HHHHHHHHHHHHhccCCCcchHHHHHHHHHHHHH
Confidence 001122222 2232 136899999999999986
No 11
>KOG0926|consensus
Probab=99.56 E-value=1.2e-14 Score=122.76 Aligned_cols=112 Identities=23% Similarity=0.275 Sum_probs=86.8
Q ss_pred HHHHHHHhhhcCccCCCCCCCHHHHHhhcCCCchhhHHHHHHhhhhchHHHHHHHHHHhcCCCCccccchhh--------
Q psy14229 5 DANDELTPLEMKCLDANDELTPLGKILARLPLEPRLGKMLLLGSIFNCGDALNIVAASASGSNEIFVTERRL-------- 76 (119)
Q Consensus 5 ~~~A~~~L~~lgald~~~~lT~~G~~~~~lP~~p~lak~Ll~~~~~~c~~~~~~i~a~ls~~~~~F~~~~~~-------- 76 (119)
++.|++.|..|||||.+|.||++|+.|+.||+.||+||||+.+-.++|....+.++++||+ ..+|+.....
T Consensus 752 L~~Aer~L~~LgALd~~g~lT~lGk~mS~FPlsPrfsKmL~~~~Q~~~lpy~i~lvsaLsv-~e~~i~~~~ll~n~~~r~ 830 (1172)
T KOG0926|consen 752 LEKAERRLKALGALDSNGGLTKLGKAMSLFPLSPRFSKMLATSDQHNLLPYNIALVSALSV-YEVLIVAASLLPNPLIRE 830 (1172)
T ss_pred HHHHHHHHHHhccccccCCcccccchhcccccChhHHHHHHHHHhhcchhHHHHHHHHHhc-cchhhhhhhccccccccc
Confidence 4689999999999999999999999999999999999999999999999999999999998 7888754321
Q ss_pred -hhhhh----chhhh---HHHH----HHHHHHHhhCCCCCCHHHHHHHHHHHhh
Q psy14229 77 -SYAQR----SNEIF---VTER----RLSYAQRAFAGSRYSDFVAVINAFNMFI 118 (119)
Q Consensus 77 -~~~~~----~~~~~---~~~~----~~~~~~~~~~~~~~sDhl~~l~if~~~~ 118 (119)
.++++ ++++. +.++ ....++.+|.. ..||.++++++..++.
T Consensus 831 ~~~eE~d~~~~de~~~d~~~K~~rr~~~~aa~~rf~~-l~sd~l~Ll~Av~a~e 883 (1172)
T KOG0926|consen 831 FEPEEKDLIKDDETVEDKELKKRRREKSKAARSRFSN-LDSDALVLLSAVSAAE 883 (1172)
T ss_pred CCcchhhccccccccccHHHHHHHHHHHHHHHhhhcc-CCccHHHHHHHHHHHH
Confidence 01111 11111 1111 12347778874 6799999999887654
No 12
>TIGR01970 DEAH_box_HrpB ATP-dependent helicase HrpB. This model represents HrpB, one of two related but uncharacterized DEAH-box ATP-dependent helicases in many Proteobacteria, but also in a few species of other lineages. The member from Rhizobium meliloti has been designated HelO. HrpB is typically about 800 residues in length, while its paralog HrpA (TIGR01967), also uncharacterized, is about 1300 amino acids long. Related characterized eukarotic proteins are RNA helicases associated with pre-mRNA processing.
Probab=99.47 E-value=9.3e-14 Score=119.15 Aligned_cols=65 Identities=28% Similarity=0.214 Sum_probs=61.7
Q ss_pred HHHHHHHhhhcCccCCCCCCCHHHHHhhcCCCchhhHHHHHHhhhhchHHHHHHHHHHhcCCCCcc
Q psy14229 5 DANDELTPLEMKCLDANDELTPLGKILARLPLEPRLGKMLLLGSIFNCGDALNIVAASASGSNEIF 70 (119)
Q Consensus 5 ~~~A~~~L~~lgald~~~~lT~~G~~~~~lP~~p~lak~Ll~~~~~~c~~~~~~i~a~ls~~~~~F 70 (119)
+++|++.|+.+||||++|+||++|+.|+.||++|++||||+.|..++|..++++|+|+||. ++++
T Consensus 383 i~~a~~~L~~lgald~~~~lT~~G~~~~~lp~~p~l~~~ll~~~~~~~~~~~~~iaa~ls~-~~~~ 447 (819)
T TIGR01970 383 LAAARQLLQRLGALDAQGRLTAHGKAMAALGCHPRLAAMLLSAHSTGLAALACDLAALLEE-RGLP 447 (819)
T ss_pred HHHHHHHHHHCCCCCCCCCcCHHHHHHHhcCCCHHHHHHHHHhhhcCCHHHHHHHHHHHcC-CCCC
Confidence 5789999999999999999999999999999999999999999999999999999999996 7664
No 13
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=99.23 E-value=1.6e-11 Score=105.51 Aligned_cols=62 Identities=24% Similarity=0.224 Sum_probs=56.2
Q ss_pred hHHHHHHHhhhcCccCCCCCCCHHHHHhhcCCCchhhHHHHHHhhhhchHH--HHHHHHHHhcC
Q psy14229 4 LDANDELTPLEMKCLDANDELTPLGKILARLPLEPRLGKMLLLGSIFNCGD--ALNIVAASASG 65 (119)
Q Consensus 4 ~~~~A~~~L~~lgald~~~~lT~~G~~~~~lP~~p~lak~Ll~~~~~~c~~--~~~~i~a~ls~ 65 (119)
.+++|++.|+.+||||++|+||++|+.|+.||++|++||||+.|..++|.. .++.++|+|+.
T Consensus 385 ~~~~A~~~L~~lgald~~g~lT~~G~~m~~lp~~Prla~~ll~a~~~~~~~l~~a~~laall~e 448 (812)
T PRK11664 385 ALAAAKRLLQQLGALDGQGRLTARGRKMAALGNDPRLAAMLVAAKEDDEAALATAAKLAAILEE 448 (812)
T ss_pred HHHHHHHHHHHCCCCCCCCCcCHHHHHHHhcCCchHHHHHHHHHHhcCchhhHHHHHHHHhhcc
Confidence 357899999999999999999999999999999999999999999998654 68888888873
No 14
>KOG0921|consensus
Probab=98.51 E-value=2e-08 Score=86.55 Aligned_cols=104 Identities=35% Similarity=0.464 Sum_probs=76.3
Q ss_pred HHHHHhhhcCccCCCCCCCHHHHHhhcCCCchhhHHHHHHhhhhchHHHHHHHHHHhcCCCCccccchhhhhhhhchhhh
Q psy14229 7 NDELTPLEMKCLDANDELTPLGKILARLPLEPRLGKMLLLGSIFNCGDALNIVAASASGSNEIFVTERRLSYAQRSNEIF 86 (119)
Q Consensus 7 ~A~~~L~~lgald~~~~lT~~G~~~~~lP~~p~lak~Ll~~~~~~c~~~~~~i~a~ls~~~~~F~~~~~~~~~~~~~~~~ 86 (119)
.+...|..++++|.+..+|++|+.++++|++|++++|++.+..++|...|+.+|+..|+ ..+|+.-..+ +. ..
T Consensus 825 e~e~~l~~m~~ld~n~elt~lg~~la~l~iep~~~k~~~lg~~~g~~~~m~~~as~~s~-~~~~~~~~~~-~~--rl--- 897 (1282)
T KOG0921|consen 825 EAEAVLREMGALDANDELTPLGRMLARLPIEPRIGKMMILGTALGAGSVMCDVASAMSF-PTPFVPREKH-HS--RL--- 897 (1282)
T ss_pred CchHHHHHhhhhhccCcccchhhhhhhccCcccccceeeechhhccchhhhhhhccccc-cccccccccc-cc--cc---
Confidence 46678899999999999999999999999999999999999999999999999998886 6666643210 00 00
Q ss_pred HHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhh
Q psy14229 87 VTERRLSYAQRAFAGSRYSDFVAVINAFNMFI 118 (119)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~sDhl~~l~if~~~~ 118 (119)
.-++...++++|+++..+||...+..|..|.
T Consensus 898 -~g~q~~~~g~kfsdhva~~~v~q~~r~~~q~ 928 (1282)
T KOG0921|consen 898 -SGTQRKFAGNKFSDHVAIVSVIQGYREAVQM 928 (1282)
T ss_pred -ccchhhccccccccchhhhhhhhhhHHHhhh
Confidence 1122233455555555566666666666663
No 15
>PRK01172 ski2-like helicase; Provisional
Probab=95.65 E-value=0.017 Score=49.12 Aligned_cols=46 Identities=17% Similarity=0.092 Sum_probs=40.5
Q ss_pred HHHHHHHhhhcCccCCCC--CCCHHHHHhhcCCCchhhHHHHHHhhhh
Q psy14229 5 DANDELTPLEMKCLDAND--ELTPLGKILARLPLEPRLGKMLLLGSIF 50 (119)
Q Consensus 5 ~~~A~~~L~~lgald~~~--~lT~~G~~~~~lP~~p~lak~Ll~~~~~ 50 (119)
++.|++.|...|+|+.++ ..|++|+.++.+|++|.-++.+..+...
T Consensus 446 v~~~l~~L~~~~~i~~~~~~~~t~lG~~~s~~~l~~~t~~~~~~~l~~ 493 (674)
T PRK01172 446 IESSLKFLKENGFIKGDVTLRATRLGKLTSDLYIDPESALILKSAFDH 493 (674)
T ss_pred HHHHHHHHHHCCCcccCCcEeECHHHHHHHHhCCCHHHHHHHHHHhhc
Confidence 578999999999998654 6799999999999999999999887654
No 16
>PHA02653 RNA helicase NPH-II; Provisional
Probab=90.08 E-value=0.17 Score=43.51 Aligned_cols=39 Identities=13% Similarity=0.034 Sum_probs=34.4
Q ss_pred HHHHHHHhhhcCccCCCCCCCHH--HHHhhcCCCchhhHHHHHHhhh
Q psy14229 5 DANDELTPLEMKCLDANDELTPL--GKILARLPLEPRLGKMLLLGSI 49 (119)
Q Consensus 5 ~~~A~~~L~~lgald~~~~lT~~--G~~~~~lP~~p~lak~Ll~~~~ 49 (119)
+++|++.|..+||+|+ ++|.+ |+.++-+ ++||+++.|..
T Consensus 555 l~~A~~~L~~lga~~~--~l~~l~~~~~~~~~----~~~k~~~~g~~ 595 (675)
T PHA02653 555 LRKTEEYIDSFNISIE--KWYEILSNYYVNML----EYAKIYVKGGI 595 (675)
T ss_pred HHHHHHHHHHcCCCch--hhhhhhccccHHHH----HHhHHHhcccH
Confidence 5789999999998875 79999 9999988 99999988744
No 17
>PRK02362 ski2-like helicase; Provisional
Probab=89.88 E-value=0.47 Score=40.90 Aligned_cols=47 Identities=17% Similarity=0.163 Sum_probs=40.5
Q ss_pred hHHHHHHHhhhcCccCCCC---CCCHHHHHhhcCCCchhhHHHHHHhhhh
Q psy14229 4 LDANDELTPLEMKCLDAND---ELTPLGKILARLPLEPRLGKMLLLGSIF 50 (119)
Q Consensus 4 ~~~~A~~~L~~lgald~~~---~lT~~G~~~~~lP~~p~lak~Ll~~~~~ 50 (119)
.++.+++.|...|+|+.++ ..|++|+.++.++++|.-++.+..+...
T Consensus 466 ~v~~~l~~L~~~~~i~~~~~~~~~t~lG~~~s~~~l~~~t~~~~~~~l~~ 515 (737)
T PRK02362 466 VVDDVLDFLERNGMIEEDGETLEATELGHLVSRLYIDPLSAAEIIDGLEA 515 (737)
T ss_pred HHHHHHHHHHHCCCeeecCCeEeEChHHHHHHHhcCCHHHHHHHHHHhhh
Confidence 3578999999999998765 4899999999999999999988877543
No 18
>PF08148 DSHCT: DSHCT (NUC185) domain; InterPro: IPR012961 This C-terminal domain is found in DOB1/SK12/helY-like DEAD box helicases [].; GO: 0005524 ATP binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides; PDB: 4A4Z_A 2XGJ_B 3L9O_A.
Probab=76.89 E-value=3.3 Score=29.66 Aligned_cols=47 Identities=17% Similarity=0.239 Sum_probs=26.7
Q ss_pred cCCCCCCCHHHHHhhcCCC--chhhHHHHHHhhhhchH-HHHHHHHHHhc
Q psy14229 18 LDANDELTPLGKILARLPL--EPRLGKMLLLGSIFNCG-DALNIVAASAS 64 (119)
Q Consensus 18 ld~~~~lT~~G~~~~~lP~--~p~lak~Ll~~~~~~c~-~~~~~i~a~ls 64 (119)
||+++.+|+.||..+.+-. +.-++-+|..+.-.+-. .+++.++|++-
T Consensus 1 id~~~~vt~kGr~a~~I~~~~eLl~te~l~~g~f~~L~p~elAa~lS~~v 50 (180)
T PF08148_consen 1 IDEDNVVTLKGRVACEIYSEDELLLTELLFSGVFDDLDPAELAALLSCFV 50 (180)
T ss_dssp B-TTS-BSHHHHHHCC--SSTHHHHHHHHHCTCCCCS-HHHHHHHHHHHC
T ss_pred CCCCCccCHHHHHHHHHcCcccHHHHHHHHcCCCCCCCHHHHHHHHHHhh
Confidence 6899999999999999966 34455555555333322 34555555443
No 19
>PF12246 MKT1_C: Temperature dependent protein affecting M2 dsRNA replication; InterPro: IPR022039 This domain family is found in eukaryotes, and is typically between 231 and 255 amino acids in length. There is a single completely conserved residue P that may be functionally important. MKT1 is required for maintenance of K2 toxin above 30 degrees C in strains with the L-A-HN variant of the L-A double-stranded RNA virus of Saccharomyces cerevisiae. MKT1 is a 93 kDa protein with serine-rich regions and the retroviral protease signature, DTG. This family is the C-terminal region of MKT1.
Probab=61.97 E-value=2.9 Score=31.48 Aligned_cols=27 Identities=33% Similarity=0.277 Sum_probs=23.4
Q ss_pred HHhhhcCccCCCCCCCHHHHHhhcCCC
Q psy14229 10 LTPLEMKCLDANDELTPLGKILARLPL 36 (119)
Q Consensus 10 ~~L~~lgald~~~~lT~~G~~~~~lP~ 36 (119)
+.|..+|.+|+++++|+-|+.+..+.-
T Consensus 1 R~L~l~Gyi~~~~~lT~wGk~L~~~~~ 27 (243)
T PF12246_consen 1 RFLELRGYIDKSHELTPWGKALAKALK 27 (243)
T ss_pred CchhHHhHhcCCCCcCHHHHHHHHHHh
Confidence 358889999999999999999997753
No 20
>TIGR02647 DNA conserved hypothetical protein TIGR02647. Members of this family are found, so far, only in the Gammaproteobacteria. The function is unknown. The location on the chromosome usually is not far from housekeeping genes rather than in what is clearly, say, a prophage region. Some members have been annotated in public databases as DNA-binding protein inhibitor Id-2-related protein, putative transcriptional regulator, or hypothetical DNA binding protein.
Probab=61.40 E-value=14 Score=23.23 Aligned_cols=30 Identities=20% Similarity=-0.007 Sum_probs=24.4
Q ss_pred hhHHHHHHHhhhcCccCC--CCCCCHHHHHhh
Q psy14229 3 CLDANDELTPLEMKCLDA--NDELTPLGKILA 32 (119)
Q Consensus 3 ~~~~~A~~~L~~lgald~--~~~lT~~G~~~~ 32 (119)
+-...|.+.|+.-|.|++ .|.||+.|...+
T Consensus 34 p~~i~a~~RLheKGLI~~pdGgyLT~~G~~~a 65 (77)
T TIGR02647 34 PAAVAAAARLHEKGLTTQPDGGYLTSLGLEAA 65 (77)
T ss_pred HHHHHHHHHHHHcCCccCCCCCEecHHHHHHH
Confidence 345689999999999964 358999999887
No 21
>PRK00254 ski2-like helicase; Provisional
Probab=57.74 E-value=21 Score=30.81 Aligned_cols=57 Identities=19% Similarity=0.072 Sum_probs=41.2
Q ss_pred HHHHHHHhhhcCccCCC--C--CCCHHHHHhhcCCCchhhHHHHHHhhhh----chHHHHHHHHH
Q psy14229 5 DANDELTPLEMKCLDAN--D--ELTPLGKILARLPLEPRLGKMLLLGSIF----NCGDALNIVAA 61 (119)
Q Consensus 5 ~~~A~~~L~~lgald~~--~--~lT~~G~~~~~lP~~p~lak~Ll~~~~~----~c~~~~~~i~a 61 (119)
++.++..|...|.|+.+ + ..|++|+.++.++++|.-++.+..+..- .....++.+++
T Consensus 457 v~~~l~~L~~~~~i~~~~~~~~~~t~lG~~~s~~~i~~~t~~~~~~~l~~~~~~~~~~~~l~~~~ 521 (720)
T PRK00254 457 AKEIVYFLLENEFIDIDLEDRFIPLPLGIRTSQLYIDPLTAKKFKDAFPKIEKNPNPLGIFQLIA 521 (720)
T ss_pred HHHHHHHHHHCCCeEEcCCCCEeeChHHHHHHHHhCCHHHHHHHHHHHHhhccCCCHHHHHHHhh
Confidence 45677788888888543 3 4699999999999999999988766532 23344555554
No 22
>KOG0921|consensus
Probab=56.60 E-value=2.6 Score=37.99 Aligned_cols=26 Identities=42% Similarity=0.738 Sum_probs=13.9
Q ss_pred HHHHHHhhCCCCCCHHHHHHHHHHHh
Q psy14229 92 LSYAQRAFAGSRYSDFVAVINAFNMF 117 (119)
Q Consensus 92 ~~~~~~~~~~~~~sDhl~~l~if~~~ 117 (119)
....+++|++...|||....++-+.|
T Consensus 897 l~g~q~~~~g~kfsdhva~~~v~q~~ 922 (1282)
T KOG0921|consen 897 LSGTQRKFAGNKFSDHVAIVSVIQGY 922 (1282)
T ss_pred cccchhhccccccccchhhhhhhhhh
Confidence 33445555555555665555555554
No 23
>PTZ00095 40S ribosomal protein S19; Provisional
Probab=54.15 E-value=11 Score=27.07 Aligned_cols=29 Identities=14% Similarity=-0.036 Sum_probs=23.1
Q ss_pred hHHHHHHHhhhcCccCCC----C-CCCHHHHHhh
Q psy14229 4 LDANDELTPLEMKCLDAN----D-ELTPLGKILA 32 (119)
Q Consensus 4 ~~~~A~~~L~~lgald~~----~-~lT~~G~~~~ 32 (119)
++..++++|..+|.+..+ | .||+.|+..-
T Consensus 121 iiR~~LQqLE~~glVek~~~~~GR~lT~~Gr~~L 154 (169)
T PTZ00095 121 ILRWICQQLEKLGLVEQGPKKKGRRLTRKGCNFA 154 (169)
T ss_pred HHHHHHHHHHHCCCEEecCCCCCCEECHhHHHHH
Confidence 467899999999999733 3 7999998754
No 24
>PF14338 Mrr_N: Mrr N-terminal domain
Probab=51.16 E-value=15 Score=23.18 Aligned_cols=26 Identities=8% Similarity=-0.008 Sum_probs=21.1
Q ss_pred HHHHHhhhcCccCC--CC--CCCHHHHHhh
Q psy14229 7 NDELTPLEMKCLDA--ND--ELTPLGKILA 32 (119)
Q Consensus 7 ~A~~~L~~lgald~--~~--~lT~~G~~~~ 32 (119)
=|...|..-|+|+. +| +||+.|+...
T Consensus 59 Wa~~~L~~aGli~~~~rG~~~iT~~G~~~l 88 (92)
T PF14338_consen 59 WARSYLKKAGLIERPKRGIWRITEKGRKAL 88 (92)
T ss_pred HHHHHHHHCCCccCCCCCceEECHhHHHHH
Confidence 47788999999976 45 8999999764
No 25
>PF01090 Ribosomal_S19e: Ribosomal protein S19e; InterPro: IPR001266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This family includes a number of eukaryotic and archaebacterial ribosomal proteins; mammalian S19, Drosophila S19, Ascaris lumbricoides S19g (ALEP-1) and S19s, yeast YS16 (RP55A and RP55B), Aspergillus S16 and Haloarcula marismortui HS12.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3IZ6_S 3U5G_T 3U5C_T 3O30_M 3O2Z_M 3IZB_S 2XZN_T 2XZM_T 2V7F_A.
Probab=49.49 E-value=10 Score=26.47 Aligned_cols=28 Identities=14% Similarity=0.054 Sum_probs=22.1
Q ss_pred hHHHHHHHhhhcCccCCC---C-CCCHHHHHh
Q psy14229 4 LDANDELTPLEMKCLDAN---D-ELTPLGKIL 31 (119)
Q Consensus 4 ~~~~A~~~L~~lgald~~---~-~lT~~G~~~ 31 (119)
++..+++.|..+|.++.+ | .||+.|+..
T Consensus 96 iiR~~LqqLE~~glv~k~~~~GR~lT~~G~~~ 127 (139)
T PF01090_consen 96 IIRKILQQLEKAGLVEKDPKGGRRLTPKGQRD 127 (139)
T ss_dssp HHHHHHHHHHHTTSEEEETTTEEEE-HHHHHH
T ss_pred HHHHHHHHHHHCCCEEecCCCCCEECHHHHHH
Confidence 467899999999999754 3 699999975
No 26
>PRK09333 30S ribosomal protein S19e; Provisional
Probab=41.95 E-value=28 Score=24.57 Aligned_cols=29 Identities=14% Similarity=0.091 Sum_probs=22.6
Q ss_pred hHHHHHHHhhhcCccCCC--C-CCCHHHHHhh
Q psy14229 4 LDANDELTPLEMKCLDAN--D-ELTPLGKILA 32 (119)
Q Consensus 4 ~~~~A~~~L~~lgald~~--~-~lT~~G~~~~ 32 (119)
++..+++.|..+|.+..+ | .||+.|+..-
T Consensus 97 iiR~~LqqLE~~glVek~~~GR~lT~~G~~~L 128 (150)
T PRK09333 97 IIRKILQQLEKAGLVEKTKKGRVITPKGRSLL 128 (150)
T ss_pred HHHHHHHHHHHCCCeeeCCCCCEeCHHHHHHH
Confidence 467899999999999743 4 6888887653
No 27
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]
Probab=41.74 E-value=33 Score=29.88 Aligned_cols=58 Identities=19% Similarity=0.160 Sum_probs=43.4
Q ss_pred HHHHHHHhhhcCccCCCC---CCCHHHHHhhcCCCchhhHHHHHHhhhhchHHHHHHHHHHhc
Q psy14229 5 DANDELTPLEMKCLDAND---ELTPLGKILARLPLEPRLGKMLLLGSIFNCGDALNIVAASAS 64 (119)
Q Consensus 5 ~~~A~~~L~~lgald~~~---~lT~~G~~~~~lP~~p~lak~Ll~~~~~~c~~~~~~i~a~ls 64 (119)
+..++..|..+|.|+.+| ++|+.|+.++.-=+.|+-+..+-.+. ..-.++ +.|++.|.
T Consensus 619 ~~k~l~~Lee~g~i~~~G~~v~~T~yGrava~~Fl~p~~a~~Ir~~v-~~~~~p-l~i~~~l~ 679 (830)
T COG1202 619 PKKALSKLEEYGMIKKKGNIVRPTPYGRAVAMSFLGPSEAEFIREGV-LASMDP-LRIAAELE 679 (830)
T ss_pred HHHHHHHHHhcCCeeccCCEeeeccccceeEEeecCchHHHHHHHhh-hccCCh-HhHhhccc
Confidence 468899999999999887 68999999998888999998877664 221122 45555443
No 28
>PF09821 AAA_assoc_C: C-terminal AAA-associated domain; InterPro: IPR018632 Members of this family are found in various prokaryotic ABC transporters, predominantly involved in nitrate, sulphonate and bicarbonate translocation.
Probab=39.05 E-value=18 Score=24.45 Aligned_cols=55 Identities=15% Similarity=0.159 Sum_probs=31.9
Q ss_pred HHHHhhhcCccCC-CC--CCCHHHHHhhcCCCchhhHHHHHHhhhhchHHHHHHHHHHhc
Q psy14229 8 DELTPLEMKCLDA-ND--ELTPLGKILARLPLEPRLGKMLLLGSIFNCGDALNIVAASAS 64 (119)
Q Consensus 8 A~~~L~~lgald~-~~--~lT~~G~~~~~lP~~p~lak~Ll~~~~~~c~~~~~~i~a~ls 64 (119)
.++.+..||.+.. +| .||+.|+..+.-++.-+ |-++......-..-+..|..+|.
T Consensus 17 ~~eAaelLgf~~~~~Gdi~LT~~G~~f~~a~~~~r--K~if~~~l~~~~Pl~~~I~~~L~ 74 (120)
T PF09821_consen 17 IVEAAELLGFAEVEEGDIRLTPLGRRFAEADIDER--KEIFREQLLRHVPLAAHIRRVLR 74 (120)
T ss_pred HHHHHHHcCCeeecCCcEEeccchHHHHHCChHHH--HHHHHHHHHhcCCHHHHHHHHHH
Confidence 3445566777753 23 78999999999887444 33444333332333444554554
No 29
>KOG0947|consensus
Probab=33.40 E-value=2.1e+02 Score=26.66 Aligned_cols=58 Identities=9% Similarity=0.119 Sum_probs=38.0
Q ss_pred HHHHHHhhhcCccCCCCCCCHHHHHhhcCCC--chhhHHHHHHhhhh---chHHHHHHHHHHhc
Q psy14229 6 ANDELTPLEMKCLDANDELTPLGKILARLPL--EPRLGKMLLLGSIF---NCGDALNIVAASAS 64 (119)
Q Consensus 6 ~~A~~~L~~lgald~~~~lT~~G~~~~~lP~--~p~lak~Ll~~~~~---~c~~~~~~i~a~ls 64 (119)
.+=++.|..+|.+|+++.++..||..+.+-- +.-+.-+ +....+ .+-..+..+.++.+
T Consensus 1057 ~~RlevLk~~g~vD~~~~V~lkGRvAceI~s~~ELlltel-i~dn~l~~l~peeiaallSslV~ 1119 (1248)
T KOG0947|consen 1057 HNRLEVLKPLGFVDEMRTVLLKGRVACEINSGNELLLTEL-IFDNALVDLSPEEIAALLSSLVC 1119 (1248)
T ss_pred HHHHHHHhhcCcccccceeeecceeeeeecCCcchhHHHH-HHhhhhhhcCHHHHHHHHHHHHh
Confidence 3567889999999999999999999998854 3344433 333333 34444444444444
No 30
>PF14947 HTH_45: Winged helix-turn-helix; PDB: 1XSX_B 1R7J_A.
Probab=32.20 E-value=28 Score=21.20 Aligned_cols=28 Identities=21% Similarity=0.046 Sum_probs=20.7
Q ss_pred HHHHHHHhhhcCccCCCC---CCCHHHHHhh
Q psy14229 5 DANDELTPLEMKCLDAND---ELTPLGKILA 32 (119)
Q Consensus 5 ~~~A~~~L~~lgald~~~---~lT~~G~~~~ 32 (119)
....+..|..-|.|..++ .||+.|+.+.
T Consensus 36 ~~~yL~~L~~~gLI~~~~~~Y~lTekG~~~l 66 (77)
T PF14947_consen 36 LKKYLKELEEKGLIKKKDGKYRLTEKGKEFL 66 (77)
T ss_dssp HHHHHHHHHHTTSEEEETTEEEE-HHHHHHH
T ss_pred HHHHHHHHHHCcCeeCCCCEEEECccHHHHH
Confidence 346788899999996533 7999999765
No 31
>KOG3411|consensus
Probab=31.52 E-value=34 Score=23.81 Aligned_cols=27 Identities=15% Similarity=0.038 Sum_probs=21.6
Q ss_pred HHHHHHHhhhcCccCC--CC--CCCHHHHHh
Q psy14229 5 DANDELTPLEMKCLDA--ND--ELTPLGKIL 31 (119)
Q Consensus 5 ~~~A~~~L~~lgald~--~~--~lT~~G~~~ 31 (119)
.+.+++.|..+|.++. +| .||+.|+.-
T Consensus 100 ~rkvlQ~Le~~~~ve~hp~gGR~lt~~Gqrd 130 (143)
T KOG3411|consen 100 ARKVLQALEKMGIVEKHPKGGRRLTEQGQRD 130 (143)
T ss_pred HHHHHHHHHhCCceeeCCCCcceeCcccchh
Confidence 4578999999999964 45 899998864
No 32
>PF14502 HTH_41: Helix-turn-helix domain
Probab=31.43 E-value=39 Score=19.26 Aligned_cols=16 Identities=13% Similarity=-0.203 Sum_probs=14.2
Q ss_pred hHHHHHHHhhhcCccC
Q psy14229 4 LDANDELTPLEMKCLD 19 (119)
Q Consensus 4 ~~~~A~~~L~~lgald 19 (119)
+++.|+..|...||+.
T Consensus 22 tiQ~Alk~Le~~gaI~ 37 (48)
T PF14502_consen 22 TIQNALKFLEENGAIK 37 (48)
T ss_pred HHHHHHHHHHHCCcEE
Confidence 5789999999999984
No 33
>PF13182 DUF4007: Protein of unknown function (DUF4007)
Probab=24.62 E-value=61 Score=24.98 Aligned_cols=30 Identities=23% Similarity=0.469 Sum_probs=23.1
Q ss_pred hhhcCccCCCC----CCCHHHHHhhcCCCchhhHH
Q psy14229 12 PLEMKCLDAND----ELTPLGKILARLPLEPRLGK 42 (119)
Q Consensus 12 L~~lgald~~~----~lT~~G~~~~~lP~~p~lak 42 (119)
|...|.+++++ ++|++|+.+-. ..||-+-.
T Consensus 52 l~a~gli~~~~~~~~~~T~lG~~i~~-g~DpylE~ 85 (286)
T PF13182_consen 52 LRAFGLIEEDNKGKRKLTPLGELIFD-GNDPYLED 85 (286)
T ss_pred HHHcCCcccCCCCCcccCHHHHHHHh-cCCCcccC
Confidence 56778887764 99999999986 66776643
No 34
>PF03368 Dicer_dimer: Dicer dimerisation domain; InterPro: IPR005034 This domain is found in members of the Dicer protein family of dsRNA nucleases. This entry represents a dsRNA-binding domain. RNA interference (RNAi) is an ancient gene-silencing process that plays a fundamental role in diverse eukaryotic functions including viral defence, chromatin remodelling, genome rearrangement, developmental timing, brain morphogenesis, and stem cell maintenance. All RNAi pathways require the multidomain ribonuclease Dicer, which initiates RNAi by cleaving double-stranded RNA (dsRNA) substrates into small fragments ~25 nuleotides in length. A typical eukaryotic Dicer consists of a helicase domain (PDOC51192 from PROSITEDOC), a domain of unknown function, and a PAZ domain (PDOC50821 from PROSITEDOC) at the amino (N)-terminus as well as two ribonuclease III domains (PDOC00448 from PROSITEDOC) and a dsRNA-binding domain (dsRBD) (PDOC50137 from PROSITEDOC) at the carboxy (C)-terminus. The domain of unknown function of ~100 amino acids is predicted to adopt the canonical alpha-beta-beta-beta-alpha-fold found in all dsRBDs [, , , ].; GO: 0016891 endoribonuclease activity, producing 5'-phosphomonoesters; PDB: 2KOU_A.
Probab=24.38 E-value=51 Score=20.76 Aligned_cols=19 Identities=26% Similarity=0.214 Sum_probs=12.0
Q ss_pred HHHHHhhhcCccCCCCCCCHH
Q psy14229 7 NDELTPLEMKCLDANDELTPL 27 (119)
Q Consensus 7 ~A~~~L~~lgald~~~~lT~~ 27 (119)
+|...|+.+|.||+ +|-|.
T Consensus 66 ~Ac~~L~~~g~ldd--~L~P~ 84 (90)
T PF03368_consen 66 EACKKLHEAGELDD--HLLPI 84 (90)
T ss_dssp HHHHHHHHH-S-TT--TS--H
T ss_pred HHHHHHHHcCCCcc--ccCCC
Confidence 67889999999997 45544
No 35
>COG2238 RPS19A Ribosomal protein S19E (S16A) [Translation, ribosomal structure and biogenesis]
Probab=23.83 E-value=62 Score=22.74 Aligned_cols=29 Identities=17% Similarity=0.118 Sum_probs=21.9
Q ss_pred hHHHHHHHhhhcCccCC--CC-CCCHHHHHhh
Q psy14229 4 LDANDELTPLEMKCLDA--ND-ELTPLGKILA 32 (119)
Q Consensus 4 ~~~~A~~~L~~lgald~--~~-~lT~~G~~~~ 32 (119)
++..++++|...|.+.. +| .|||.||-+-
T Consensus 97 I~RkilqqLE~~G~V~k~~~GR~ltp~Grsll 128 (147)
T COG2238 97 IIRKVLQQLEKAGLVEKTPKGRVLTPKGRSLL 128 (147)
T ss_pred HHHHHHHHHHHCCceeecCCCceeCccchhHH
Confidence 45688999999999974 23 5788887653
No 36
>PRK14845 translation initiation factor IF-2; Provisional
Probab=23.08 E-value=61 Score=29.81 Aligned_cols=27 Identities=22% Similarity=0.121 Sum_probs=20.0
Q ss_pred HHHHHHhhhcCccCCCCCCCHHHHHhhc
Q psy14229 6 ANDELTPLEMKCLDANDELTPLGKILAR 33 (119)
Q Consensus 6 ~~A~~~L~~lgald~~~~lT~~G~~~~~ 33 (119)
.+.++.+..-|.| ++|+||++||.+-+
T Consensus 390 ~~~~~~~~~~~~~-~~~~~~~~~~~~~~ 416 (1049)
T PRK14845 390 HNYLKAFESDGLI-KDGKLTELGRELLE 416 (1049)
T ss_pred hHHHHHhhhcccc-ccCccchHHHHHHH
Confidence 3455666677777 67999999998764
No 37
>PF11865 DUF3385: Domain of unknown function (DUF3385); InterPro: IPR024585 This uncharacterised domain is is typically between 160 to 172 amino acids in length. It is found in the phosphatidylinositol kinase-related protein kinases TOR (target of rapamycin). In Saccharomyces cerevisiae the TOR proteins, TOR1 and TOR2, regulate growth in a rapamycin-sensitive manner [].
Probab=21.30 E-value=63 Score=22.60 Aligned_cols=15 Identities=13% Similarity=-0.068 Sum_probs=13.4
Q ss_pred HHHHHHhhhcCccCC
Q psy14229 6 ANDELTPLEMKCLDA 20 (119)
Q Consensus 6 ~~A~~~L~~lgald~ 20 (119)
.++++.|-.+||||.
T Consensus 29 ~E~lr~lGilGALDP 43 (160)
T PF11865_consen 29 REALRVLGILGALDP 43 (160)
T ss_pred HHHHHHhhhccccCc
Confidence 578999999999995
No 38
>PF13463 HTH_27: Winged helix DNA-binding domain; PDB: 3GFL_A 2YR2_B 3GFM_A 3GFJ_A 3GF2_A 3GEZ_A 2GXG_A 3GFI_A 2EB7_A.
Probab=21.13 E-value=81 Score=17.89 Aligned_cols=25 Identities=20% Similarity=0.134 Sum_probs=16.8
Q ss_pred hHHHHHHHhhhcCccCC-----CC-----CCCHHH
Q psy14229 4 LDANDELTPLEMKCLDA-----ND-----ELTPLG 28 (119)
Q Consensus 4 ~~~~A~~~L~~lgald~-----~~-----~lT~~G 28 (119)
.+..+++.|...|.|.. ++ .||+.|
T Consensus 34 ~vs~~i~~L~~~glv~~~~~~~d~R~~~~~LT~~G 68 (68)
T PF13463_consen 34 TVSRIIKKLEEKGLVEKERDPHDKRSKRYRLTPAG 68 (68)
T ss_dssp HHHHHHHHHHHTTSEEEEEESSCTTSEEEEE-HHH
T ss_pred HHHHHHHHHHHCCCEEecCCCCcCCeeEEEeCCCC
Confidence 35578889999999931 22 578776
No 39
>PF04458 DUF505: Protein of unknown function (DUF505); InterPro: IPR007548 This is a family of uncharacterised prokaryotic proteins.
Probab=20.34 E-value=89 Score=26.89 Aligned_cols=23 Identities=35% Similarity=0.432 Sum_probs=18.3
Q ss_pred HHhhhcCccCCCCCCCHHHHHhh
Q psy14229 10 LTPLEMKCLDANDELTPLGKILA 32 (119)
Q Consensus 10 ~~L~~lgald~~~~lT~~G~~~~ 32 (119)
..+..++.+|.+|++|+.|+.+-
T Consensus 244 ~~~l~l~g~~~~g~lt~aGe~~l 266 (591)
T PF04458_consen 244 EALLELLGYDDEGKLTPAGEHLL 266 (591)
T ss_pred HHHHHhcCcCCCCCCcHHHHHHH
Confidence 34556677799999999999875
Done!