Query psy961
Match_columns 118
No_of_seqs 133 out of 1099
Neff 7.4
Searched_HMMs 46136
Date Sat Aug 17 00:10:16 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy961.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/961hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG0060 IleS Isoleucyl-tRNA sy 99.9 1.8E-22 4E-27 172.2 10.8 102 14-117 654-757 (933)
2 COG0525 ValS Valyl-tRNA synthe 99.9 1E-21 2.3E-26 166.4 10.6 109 4-117 567-676 (877)
3 cd07961 Anticodon_Ia_Ile_ABEc 99.8 6.3E-19 1.4E-23 126.2 10.5 113 4-117 4-119 (183)
4 cd07960 Anticodon_Ia_Ile_BEm A 99.8 9.8E-18 2.1E-22 119.8 11.7 101 15-117 16-118 (180)
5 KOG0433|consensus 99.7 1E-17 2.3E-22 139.4 10.7 107 9-117 665-774 (937)
6 PLN02381 valyl-tRNA synthetase 99.7 2.6E-17 5.6E-22 143.6 11.6 111 5-117 735-849 (1066)
7 PLN02843 isoleucyl-tRNA synthe 99.7 1E-16 2.2E-21 139.0 12.0 101 14-117 672-774 (974)
8 KOG0432|consensus 99.7 1.8E-16 4E-21 133.8 11.2 103 14-117 683-785 (995)
9 PRK13804 ileS isoleucyl-tRNA s 99.7 4E-16 8.7E-21 135.2 11.7 102 14-117 682-785 (961)
10 PRK05743 ileS isoleucyl-tRNA s 99.7 2.6E-16 5.5E-21 135.8 9.6 102 14-117 644-747 (912)
11 PF08264 Anticodon_1: Anticodo 99.7 2.6E-16 5.6E-21 108.9 7.8 70 47-117 1-71 (153)
12 PLN02943 aminoacyl-tRNA ligase 99.7 1.1E-15 2.3E-20 132.5 11.6 107 8-117 628-748 (958)
13 PTZ00427 isoleucine-tRNA ligas 99.6 1.2E-15 2.6E-20 134.3 11.7 102 14-117 775-883 (1205)
14 PTZ00419 valyl-tRNA synthetase 99.6 1.8E-15 3.9E-20 131.6 12.1 113 5-117 665-782 (995)
15 TIGR00422 valS valyl-tRNA synt 99.6 4E-15 8.8E-20 127.7 11.6 99 14-117 578-677 (861)
16 PRK14900 valS valyl-tRNA synth 99.6 9.5E-15 2.1E-19 127.6 11.9 101 15-117 592-692 (1052)
17 PLN02882 aminoacyl-tRNA ligase 99.6 9.6E-15 2.1E-19 128.5 12.0 104 13-117 668-778 (1159)
18 PRK06039 ileS isoleucyl-tRNA s 99.6 3.1E-14 6.6E-19 123.7 11.8 104 13-117 645-749 (975)
19 PRK05729 valS valyl-tRNA synth 99.6 3.4E-14 7.4E-19 122.3 11.6 97 15-117 574-670 (874)
20 TIGR00392 ileS isoleucyl-tRNA 99.5 7.2E-13 1.6E-17 113.9 11.9 101 15-117 665-768 (861)
21 PRK13208 valS valyl-tRNA synth 99.4 1.3E-12 2.8E-17 111.6 11.2 103 9-117 579-683 (800)
22 cd07375 Anticodon_Ia_like Anti 99.2 6.9E-10 1.5E-14 72.4 10.1 103 5-116 3-106 (117)
23 cd07962 Anticodon_Ia_Val Antic 99.1 2.8E-09 6.2E-14 72.7 11.1 108 5-116 5-113 (135)
24 cd07959 Anticodon_Ia_Leu_AEc A 99.1 9.2E-10 2E-14 72.7 7.9 52 43-96 33-85 (117)
25 KOG0434|consensus 99.0 1.9E-09 4.2E-14 90.5 9.3 101 12-116 654-761 (1070)
26 cd07957 Anticodon_Ia_Met Antic 99.0 2.9E-09 6.2E-14 71.1 7.7 55 43-99 34-88 (129)
27 TIGR00398 metG methionyl-tRNA 98.9 2.7E-08 5.8E-13 81.6 11.0 73 43-117 408-480 (530)
28 PRK12268 methionyl-tRNA synthe 98.7 5.3E-08 1.1E-12 80.3 8.6 55 43-99 414-468 (556)
29 PRK12300 leuS leucyl-tRNA synt 98.7 7.8E-08 1.7E-12 83.6 9.7 62 43-116 647-708 (897)
30 cd07958 Anticodon_Ia_Leu_BEm A 98.6 4.1E-07 8.9E-12 59.6 9.2 80 4-93 4-84 (117)
31 PRK00390 leuS leucyl-tRNA synt 98.5 1E-06 2.3E-11 75.9 10.3 72 7-89 615-687 (805)
32 PLN02610 probable methionyl-tR 98.4 1.1E-06 2.5E-11 75.7 9.1 72 43-116 436-508 (801)
33 PLN02959 aminoacyl-tRNA ligase 98.4 1.3E-06 2.8E-11 77.4 9.4 62 43-117 792-856 (1084)
34 PRK12267 methionyl-tRNA synthe 98.4 9.2E-07 2E-11 74.4 7.9 73 42-116 379-454 (648)
35 PRK00133 metG methionyl-tRNA s 98.4 2E-06 4.3E-11 72.8 8.6 71 44-116 408-479 (673)
36 PRK11893 methionyl-tRNA synthe 98.3 2.8E-06 6.1E-11 69.2 8.7 73 43-117 380-453 (511)
37 TIGR00395 leuS_arch leucyl-tRN 98.0 3E-05 6.4E-10 68.0 7.8 51 43-95 693-744 (938)
38 TIGR00396 leuS_bact leucyl-tRN 98.0 3.9E-05 8.5E-10 66.6 8.3 75 6-87 648-724 (842)
39 PLN02224 methionine-tRNA ligas 97.9 6.9E-05 1.5E-09 63.1 8.7 71 44-116 448-522 (616)
40 PLN02563 aminoacyl-tRNA ligase 97.6 0.00021 4.6E-09 62.9 6.7 77 5-88 766-843 (963)
41 PRK01611 argS arginyl-tRNA syn 97.1 0.004 8.7E-08 51.3 8.9 45 44-89 421-465 (507)
42 PTZ00399 cysteinyl-tRNA-synthe 95.5 0.048 1E-06 46.5 6.7 47 43-91 390-437 (651)
43 COG0143 MetG Methionyl-tRNA sy 94.8 0.15 3.3E-06 42.8 7.5 49 45-95 417-465 (558)
44 PRK00260 cysS cysteinyl-tRNA s 94.2 0.31 6.7E-06 39.9 8.0 45 45-91 330-375 (463)
45 COG0495 LeuS Leucyl-tRNA synth 90.4 3.3 7.1E-05 36.6 9.7 80 4-95 621-700 (814)
46 TIGR00456 argS arginyl-tRNA sy 86.5 6.5 0.00014 33.0 8.8 54 44-100 479-532 (566)
47 PF06844 DUF1244: Protein of u 71.8 7.2 0.00016 23.8 3.3 22 75-96 7-28 (68)
48 PRK12451 arginyl-tRNA syntheta 70.6 47 0.001 28.0 9.1 47 44-92 477-523 (562)
49 PF05746 DALR_1: DALR anticodo 58.4 46 0.001 21.3 6.2 45 44-89 32-76 (119)
50 KOG0437|consensus 49.4 51 0.0011 29.5 5.7 49 44-94 785-834 (1080)
51 PF02787 CPSase_L_D3: Carbamoy 49.3 41 0.00088 22.7 4.2 48 43-92 32-80 (123)
52 PHA03056 putative myristoylate 35.6 75 0.0016 22.1 3.8 35 47-81 121-155 (165)
53 cd07956 Anticodon_Ia_Arg Antic 31.3 1.7E+02 0.0037 19.8 6.1 44 45-89 71-114 (156)
54 PF00522 VPR: VPR/VPX protein; 30.7 1E+02 0.0022 20.1 3.7 37 44-80 16-52 (96)
55 PHA02754 hypothetical protein; 28.4 36 0.00079 20.3 1.2 42 58-101 4-45 (67)
56 KOG0370|consensus 25.9 39 0.00085 31.0 1.4 32 42-74 814-845 (1435)
57 PF13132 DUF3950: Domain of un 23.9 53 0.0011 16.8 1.1 15 83-97 15-29 (30)
58 PF07105 DUF1367: Protein of u 22.6 1.1E+02 0.0024 22.6 3.0 26 63-88 152-177 (196)
59 KOG2007|consensus 21.6 5.2E+02 0.011 22.2 7.4 57 41-99 376-433 (586)
60 COG3579 PepC Aminopeptidase C 20.6 2.1E+02 0.0044 23.4 4.4 45 47-95 68-116 (444)
No 1
>COG0060 IleS Isoleucyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=99.88 E-value=1.8e-22 Score=172.25 Aligned_cols=102 Identities=25% Similarity=0.328 Sum_probs=94.2
Q ss_pred HHHHHHHHHHHhcCCCCCCccccccCCCCCChHHHHHHHHHHHHHHHHHHHhhcCcHHHHHHHHHHHhHHhhhHHHHHhh
Q psy961 14 TRWYGHVTELKKKQDADVNAALDQASKVKVSPIDSWILSRLADAVATCNKAFQKYEFNTVTSACYNLWLYELCDVYLECI 93 (118)
Q Consensus 14 ~~wn~~~f~l~~~~~~~f~~~~~~~~~~~l~~~DrWils~l~~~~~~v~~~~e~~~f~~a~~~i~~F~~~~ls~~Yle~~ 93 (118)
++||+++|.+.++ ++|+|+.+.++.+++..+|||||++++.++++++++|++|+|+++++.+.+|+.++||+|||+++
T Consensus 654 ~irNt~rF~l~nl--~~fdp~~~~~~~~~~~~~Drwil~rl~~l~~~v~eaye~y~f~~v~~~l~~F~~~dLS~~Yld~~ 731 (933)
T COG0060 654 KIRNTYRFLLGNL--DDFDPKKDAVLPEELRELDRWILSRLNSLVKEVREAYENYDFHKVVRALMNFVSEDLSNWYLDII 731 (933)
T ss_pred HHHHHHHHHHHhc--cCCCccccccchhhcchhHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhhhhHHHHHHH
Confidence 4799999999984 46999887666678899999999999999999999999999999999999999999999999999
Q ss_pred cccccC--CChHHHHHHHHHHHHHhc
Q psy961 94 KPVMAD--GSLIEKANAARTLVTSIV 117 (118)
Q Consensus 94 K~~ly~--~~~~~r~~a~~tL~~vl~ 117 (118)
|+|+|+ +++++|++||+||++||+
T Consensus 732 kdr~y~~~~~s~~rraa~~~Ly~il~ 757 (933)
T COG0060 732 KDRLYTEAADSPDRRAAQTTLYHILK 757 (933)
T ss_pred HHHhhhcCCCCHHHHHHHHHHHHHHH
Confidence 999996 578999999999999985
No 2
>COG0525 ValS Valyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=99.86 E-value=1e-21 Score=166.41 Aligned_cols=109 Identities=30% Similarity=0.433 Sum_probs=92.3
Q ss_pred ccccccchhhH-HHHHHHHHHHhcCCCCCCccccccCCCCCChHHHHHHHHHHHHHHHHHHHhhcCcHHHHHHHHHHHhH
Q psy961 4 DRVSAPYTHLT-RWYGHVTELKKKQDADVNAALDQASKVKVSPIDSWILSRLADAVATCNKAFQKYEFNTVTSACYNLWL 82 (118)
Q Consensus 4 ~~~~~~~~~l~-~wn~~~f~l~~~~~~~f~~~~~~~~~~~l~~~DrWils~l~~~~~~v~~~~e~~~f~~a~~~i~~F~~ 82 (118)
.|+++.+.... +||+.+|.+++..+..+.+... ...+++||||+++|++++++++++|++|+|..|+++||+|+|
T Consensus 567 ~~~~~~rnF~nKlWNa~Rfv~~~~~~~~~~~~~~----~~~~~~drWIls~l~~~v~~v~~~ld~y~f~~a~~~ly~F~W 642 (877)
T COG0525 567 KRVEGYRNFLNKLWNATRFVLMNLDDLGPDDLDL----LALSLADRWILSRLNETVKEVTEALDNYRFDEAARALYEFIW 642 (877)
T ss_pred HHHHHHHHHHHHHHhHHHHHHhcccccCcccccc----cccchHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHhH
Confidence 46666666665 6999999999875544333221 233689999999999999999999999999999999999999
Q ss_pred HhhhHHHHHhhcccccCCChHHHHHHHHHHHHHhc
Q psy961 83 YELCDVYLECIKPVMADGSLIEKANAARTLVTSIV 117 (118)
Q Consensus 83 ~~ls~~Yle~~K~~ly~~~~~~r~~a~~tL~~vl~ 117 (118)
++|||||||++|.++|++ ..++++++.||++||+
T Consensus 643 ~~fcD~YlEl~K~~l~~~-~~~~~~a~~tL~~vl~ 676 (877)
T COG0525 643 NDFCDWYLELAKPRLYGG-EEEKRAARATLYYVLD 676 (877)
T ss_pred HHHHHHHHHHhhhhhcCc-HHHHHHHHHHHHHHHH
Confidence 999999999999999988 6678899999999985
No 3
>cd07961 Anticodon_Ia_Ile_ABEc Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases. This domain is found in isoleucyl tRNA synthetases (IleRS), which belong to the class Ia aminoacyl tRNA synthetases. It lies C-terminal to the catalytic core domain, and recognizes and specifically binds to the tRNA anticodon. This family includes bacterial, archaeal, and eukaryotic cytoplasmic members. IleRS catalyzes the transfer of isoleucine to the 3'-end of its tRNA.
Probab=99.80 E-value=6.3e-19 Score=126.24 Aligned_cols=113 Identities=19% Similarity=0.230 Sum_probs=87.4
Q ss_pred ccccccch-hhH-HHHHHHHHHHhcCCCCCCccccccCCCCCChHHHHHHHHHHHHHHHHHHHhhcCcHHHHHHHHHHHh
Q psy961 4 DRVSAPYT-HLT-RWYGHVTELKKKQDADVNAALDQASKVKVSPIDSWILSRLADAVATCNKAFQKYEFNTVTSACYNLW 81 (118)
Q Consensus 4 ~~~~~~~~-~l~-~wn~~~f~l~~~~~~~f~~~~~~~~~~~l~~~DrWils~l~~~~~~v~~~~e~~~f~~a~~~i~~F~ 81 (118)
++|.++.+ .+. +||+.+|.+......+++|+....+...++.+|+||++++++++++++++|++|+|+.|++.++.|+
T Consensus 4 ~~v~~~~~~f~~KlwN~~rf~l~~~~~~~~~~~~~~~~~~~~~~~D~wil~~l~~~i~~~~~~~e~~~f~~a~~~l~~f~ 83 (183)
T cd07961 4 KGVREVVRKVLLPLWNAYRFFVTYANLDGFDPGKDDDAVASLNVLDRWILSRLNSLIKEVTEEMEAYDLYTAVRALLEFI 83 (183)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCccccccccCchhHHHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence 34556666 444 7999999975222224655432222334688999999999999999999999999999999999999
Q ss_pred HHhhhHHHHHhhcccccCCC-hHHHHHHHHHHHHHhc
Q psy961 82 LYELCDVYLECIKPVMADGS-LIEKANAARTLVTSIV 117 (118)
Q Consensus 82 ~~~ls~~Yle~~K~~ly~~~-~~~r~~a~~tL~~vl~ 117 (118)
+ .+++||+|++|+++|+++ +..+++++.++.++++
T Consensus 84 ~-~~~~~Y~e~~K~~~~~~~~~~~~~~~~~~l~~~l~ 119 (183)
T cd07961 84 D-ELTNWYIRRNRKRFWGEEGDDDKLAAYATLYEVLL 119 (183)
T ss_pred H-HhhhhHhhhchHHhcCCCCchhHHHHHHHHHHHHH
Confidence 7 467999999999999753 4456788999988774
No 4
>cd07960 Anticodon_Ia_Ile_BEm Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases. This domain is found in isoleucyl tRNA synthetases (IleRS), which belong to the class Ia aminoacyl tRNA synthetases. It lies C-terminal to the catalytic core domain, and recognizes and specifically binds to the tRNA anticodon. This family includes bacterial and eukaryotic mitochondrial members. IleRS catalyzes the transfer of isoleucine to the 3'-end of its tRNA.
Probab=99.76 E-value=9.8e-18 Score=119.78 Aligned_cols=101 Identities=23% Similarity=0.305 Sum_probs=82.9
Q ss_pred HHHHHHHHHHhcCCCCCCccccccCCCCCChHHHHHHHHHHHHHHHHHHHhhcCcHHHHHHHHHHHhHHhhhHHHHHhhc
Q psy961 15 RWYGHVTELKKKQDADVNAALDQASKVKVSPIDSWILSRLADAVATCNKAFQKYEFNTVTSACYNLWLYELCDVYLECIK 94 (118)
Q Consensus 15 ~wn~~~f~l~~~~~~~f~~~~~~~~~~~l~~~DrWils~l~~~~~~v~~~~e~~~f~~a~~~i~~F~~~~ls~~Yle~~K 94 (118)
+||+++|.+.... +++|.........++..|+||+++++++++++.++|++|+|+.|++.+++|+++++|++|++.+|
T Consensus 16 l~N~~rf~~~~~~--~~~~~~~~~~~~~~~~~D~~il~~l~~~i~~~~~~~e~~~f~~a~~~i~~f~~~~l~n~Yi~~~k 93 (180)
T cd07960 16 IRNTFRFLLGNLN--DFDPAKDAVPYEELLELDRYALHRLNELIKEVREAYENYEFHKVYQALNNFCTVDLSAFYLDIIK 93 (180)
T ss_pred HHHHHHHHHHccc--CCCcccccCChhhccHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 7999999876543 36554321112346789999999999999999999999999999999999999999999999999
Q ss_pred ccccCC--ChHHHHHHHHHHHHHhc
Q psy961 95 PVMADG--SLIEKANAARTLVTSIV 117 (118)
Q Consensus 95 ~~ly~~--~~~~r~~a~~tL~~vl~ 117 (118)
++++++ +++.+++++.+++.+++
T Consensus 94 ~~~~~~~~~~~~~~~~~~~l~~~l~ 118 (180)
T cd07960 94 DRLYCDAKDSLERRSAQTVLYHILD 118 (180)
T ss_pred cceecCCCCCHHHHHHHHHHHHHHH
Confidence 999964 34556778889988874
No 5
>KOG0433|consensus
Probab=99.74 E-value=1e-17 Score=139.42 Aligned_cols=107 Identities=17% Similarity=0.203 Sum_probs=95.2
Q ss_pred cchhhHHHHH-HHHHHHhcCCCCCCccccccCCCCCChHHHHHHHHHHHHHHHHHHHhhcCcHHHHHHHHHHHhHHhhhH
Q psy961 9 PYTHLTRWYG-HVTELKKKQDADVNAALDQASKVKVSPIDSWILSRLADAVATCNKAFQKYEFNTVTSACYNLWLYELCD 87 (118)
Q Consensus 9 ~~~~l~~wn~-~~f~l~~~~~~~f~~~~~~~~~~~l~~~DrWils~l~~~~~~v~~~~e~~~f~~a~~~i~~F~~~~ls~ 87 (118)
+.+.+..|.. ++|++.+.+ +|++....++...+..+|+++|+.|..++++++++|++|+|+++++.+..|+.+++|+
T Consensus 665 v~e~l~K~R~T~RfllGnl~--d~~~~~~~~p~~dl~~iDq~~L~ql~~~~~~i~e~Y~~Y~f~kVv~~lq~F~~~~lSa 742 (937)
T KOG0433|consen 665 VDEKLIKFRNTFRFLLGNLQ--DFDGKQVKFPLKDLRYIDQYMLQQLDAIVKRIIELYNDYKFRKVVNDLQQFLQRNLSA 742 (937)
T ss_pred HHHHHHHHHhHHHHHhhccc--ccCCccccccchhhhhhhHHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHhhH
Confidence 3455555544 478888876 4888877788888999999999999999999999999999999999999999999999
Q ss_pred HHHHhhcccccCC--ChHHHHHHHHHHHHHhc
Q psy961 88 VYLECIKPVMADG--SLIEKANAARTLVTSIV 117 (118)
Q Consensus 88 ~Yle~~K~~ly~~--~~~~r~~a~~tL~~vl~ 117 (118)
+|++++||||||+ ++..|+++|+||++++.
T Consensus 743 ~YfdivKDRLY~~~~~s~~rrs~QttL~h~l~ 774 (937)
T KOG0433|consen 743 FYFDIVKDRLYCDKVGSESRRSAQTTLHHLLH 774 (937)
T ss_pred HHHHHHhhhhhcCCCCcHHHHHHHHHHHHHHH
Confidence 9999999999986 78999999999999874
No 6
>PLN02381 valyl-tRNA synthetase
Probab=99.73 E-value=2.6e-17 Score=143.62 Aligned_cols=111 Identities=29% Similarity=0.459 Sum_probs=88.2
Q ss_pred cccccchhh-HHHHHHHHHHHhcCCCCCCccccccCCCCCChHHHHHHHHHHHHHHHHHHHhhcCcHHHHHHHHHHHhHH
Q psy961 5 RVSAPYTHL-TRWYGHVTELKKKQDADVNAALDQASKVKVSPIDSWILSRLADAVATCNKAFQKYEFNTVTSACYNLWLY 83 (118)
Q Consensus 5 ~~~~~~~~l-~~wn~~~f~l~~~~~~~f~~~~~~~~~~~l~~~DrWils~l~~~~~~v~~~~e~~~f~~a~~~i~~F~~~ 83 (118)
|+.+....+ ++||+..|.+.+.. ++|+|+.. ++...++++|+||+++|++++++++++|++|+|++|++.+++|+|+
T Consensus 735 ~v~~~r~f~nKlwNa~rf~~~~~~-~~~~~~~~-~~~~~~~~~DrWILskL~~~i~~v~~~~e~y~F~~A~~~l~~F~~~ 812 (1066)
T PLN02381 735 RVVGYRQWCNKLWNAVRFAMSKLG-DDYTPPAT-LSVETMPFSCKWILSVLNKAISKTVSSLDAYEFSDAASTVYSWWQY 812 (1066)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhcc-cccCcccc-cCccccCHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence 344333333 37999999887653 24655421 1223467899999999999999999999999999999999999999
Q ss_pred hhhHHHHHhhcccccCCC---hHHHHHHHHHHHHHhc
Q psy961 84 ELCDVYLECIKPVMADGS---LIEKANAARTLVTSIV 117 (118)
Q Consensus 84 ~ls~~Yle~~K~~ly~~~---~~~r~~a~~tL~~vl~ 117 (118)
+||+||||.+|+++++.+ +.+|++|+.||+++++
T Consensus 813 dl~d~Yie~~K~~l~~~~~~~~~~r~~a~~~L~~vL~ 849 (1066)
T PLN02381 813 QFCDVFIEAIKPYFAGDNPEFASERAAAQDTLWICLD 849 (1066)
T ss_pred HhHHHHHHHhHHHHccCCccccHHHHHHHHHHHHHHH
Confidence 999999999999999753 3567889999999875
No 7
>PLN02843 isoleucyl-tRNA synthetase
Probab=99.71 E-value=1e-16 Score=138.96 Aligned_cols=101 Identities=15% Similarity=0.246 Sum_probs=86.5
Q ss_pred HHHHHHHHHHHhcCCCCCCccccccCCCCCChHHHHHHHHHHHHHHHHHHHhhcCcHHHHHHHHHHHhHHhhhHHHHHhh
Q psy961 14 TRWYGHVTELKKKQDADVNAALDQASKVKVSPIDSWILSRLADAVATCNKAFQKYEFNTVTSACYNLWLYELCDVYLECI 93 (118)
Q Consensus 14 ~~wn~~~f~l~~~~~~~f~~~~~~~~~~~l~~~DrWils~l~~~~~~v~~~~e~~~f~~a~~~i~~F~~~~ls~~Yle~~ 93 (118)
++||+++|.+.++. +|+|. ..++...++.+|+||+++++++++++.++|++|+|++|++.|++|++.++|++||+.+
T Consensus 672 kl~n~~rf~lgnl~--~~~~~-~~~~~~~~~~~D~wiLskL~~li~~v~~aye~y~f~~A~~~i~~f~~~dlsn~Yie~~ 748 (974)
T PLN02843 672 KLRGTLRYLLGNLH--DWKPD-NAVPYEDLPSIDKYALFQLENVVNEIEESYDNYQFFKIFQILQRFTIVDLSNFYLDVA 748 (974)
T ss_pred HHHHHHHHHHhCcc--CCCcc-cccCccccCHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhHHHHHhc
Confidence 37999999987765 46652 2233345678899999999999999999999999999999999999999999999999
Q ss_pred cccccCC--ChHHHHHHHHHHHHHhc
Q psy961 94 KPVMADG--SLIEKANAARTLVTSIV 117 (118)
Q Consensus 94 K~~ly~~--~~~~r~~a~~tL~~vl~ 117 (118)
|+++|++ ++..|+++|+||+.+++
T Consensus 749 Kprly~~~~~~~~r~~~qtvL~~iLe 774 (974)
T PLN02843 749 KDRLYVGGTTSFTRRSCQTVLAAHLL 774 (974)
T ss_pred chhhhccCCCHHHHHHHHHHHHHHHH
Confidence 9999975 56778899999999875
No 8
>KOG0432|consensus
Probab=99.69 E-value=1.8e-16 Score=133.80 Aligned_cols=103 Identities=34% Similarity=0.555 Sum_probs=88.4
Q ss_pred HHHHHHHHHHHhcCCCCCCccccccCCCCCChHHHHHHHHHHHHHHHHHHHhhcCcHHHHHHHHHHHhHHhhhHHHHHhh
Q psy961 14 TRWYGHVTELKKKQDADVNAALDQASKVKVSPIDSWILSRLADAVATCNKAFQKYEFNTVTSACYNLWLYELCDVYLECI 93 (118)
Q Consensus 14 ~~wn~~~f~l~~~~~~~f~~~~~~~~~~~l~~~DrWils~l~~~~~~v~~~~e~~~f~~a~~~i~~F~~~~ls~~Yle~~ 93 (118)
++||+++|.+.... .+|.|+....+......+|+||+|+|+..++++.+.|+.|+|..|++++++|+..+|||.|+|.+
T Consensus 683 KlWNa~rF~l~~lg-~~~~p~~~~~~~~~~~~~d~WIlsrL~~av~~~~~~~~~~~f~~at~a~~~Fwl~~lCDVYlE~~ 761 (995)
T KOG0432|consen 683 KLWNATRFALQRLG-ENFVPSPTEDLSGNESLVDEWILSRLAEAVEEVNESLEARNFHLATSALYAFWLYDLCDVYLEAT 761 (995)
T ss_pred HHHHHHHHHHHhcc-cCCCCCcccccCCCcchhHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 37999999998743 35777653322222223999999999999999999999999999999999999999999999999
Q ss_pred cccccCCChHHHHHHHHHHHHHhc
Q psy961 94 KPVMADGSLIEKANAARTLVTSIV 117 (118)
Q Consensus 94 K~~ly~~~~~~r~~a~~tL~~vl~ 117 (118)
|+.+++++...+.+|+.||+.||+
T Consensus 762 Kp~l~~~~~~~~~~a~~vL~~~ld 785 (995)
T KOG0432|consen 762 KPLLWGDSEALAYEARRVLYRCLD 785 (995)
T ss_pred hHHhcCCcHHHHHHHHHHHHHHHH
Confidence 999998887889999999999986
No 9
>PRK13804 ileS isoleucyl-tRNA synthetase; Provisional
Probab=99.67 E-value=4e-16 Score=135.18 Aligned_cols=102 Identities=16% Similarity=0.218 Sum_probs=86.9
Q ss_pred HHHHHHHHHHHhcCCCCCCccccccCCCCCChHHHHHHHHHHHHHHHHHHHhhcCcHHHHHHHHHHHhHHhhhHHHHHhh
Q psy961 14 TRWYGHVTELKKKQDADVNAALDQASKVKVSPIDSWILSRLADAVATCNKAFQKYEFNTVTSACYNLWLYELCDVYLECI 93 (118)
Q Consensus 14 ~~wn~~~f~l~~~~~~~f~~~~~~~~~~~l~~~DrWils~l~~~~~~v~~~~e~~~f~~a~~~i~~F~~~~ls~~Yle~~ 93 (118)
++||.++|.+.+.. +|+|..+.++...+..+|+||++++++++++++++|++|+|++|++.+++|+|+++|++||+++
T Consensus 682 kL~N~~rf~l~nl~--~~~~~~~~~~~~~~~~~D~wil~~l~~~~~~v~~~~e~y~f~~a~~~l~~f~~~~lsn~Yle~~ 759 (961)
T PRK13804 682 KLRNTLRWLLGNLA--HFDPGEDVVAYADLPELERYMLHRLNELDGLVREAYDAYDFKRIYKALVNFVNVDLSAFYFDIR 759 (961)
T ss_pred HHHHHHHHHHhccc--cCCcccccCChhhcCHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 47999988877654 4666543333345678899999999999999999999999999999999999999999999999
Q ss_pred cccccCC--ChHHHHHHHHHHHHHhc
Q psy961 94 KPVMADG--SLIEKANAARTLVTSIV 117 (118)
Q Consensus 94 K~~ly~~--~~~~r~~a~~tL~~vl~ 117 (118)
|+++|+. ++..|+++++||+.+++
T Consensus 760 K~rl~~~~~~~~~r~~~~~vL~~il~ 785 (961)
T PRK13804 760 KDALYCDAPSSLRRRAAQTVFYEIFV 785 (961)
T ss_pred hHhhhcCCCCcHHHHHHHHHHHHHHH
Confidence 9999974 56678899999999875
No 10
>PRK05743 ileS isoleucyl-tRNA synthetase; Reviewed
Probab=99.67 E-value=2.6e-16 Score=135.81 Aligned_cols=102 Identities=22% Similarity=0.296 Sum_probs=86.7
Q ss_pred HHHHHHHHHHHhcCCCCCCccccccCCCCCChHHHHHHHHHHHHHHHHHHHhhcCcHHHHHHHHHHHhHHhhhHHHHHhh
Q psy961 14 TRWYGHVTELKKKQDADVNAALDQASKVKVSPIDSWILSRLADAVATCNKAFQKYEFNTVTSACYNLWLYELCDVYLECI 93 (118)
Q Consensus 14 ~~wn~~~f~l~~~~~~~f~~~~~~~~~~~l~~~DrWils~l~~~~~~v~~~~e~~~f~~a~~~i~~F~~~~ls~~Yle~~ 93 (118)
++||..+|.+.+.. +|+|..+.++...+..+|+||++++++++++++++|++|+|++|++.|++|+|+++|++|||++
T Consensus 644 kl~N~~rf~~~nl~--~~~~~~~~~~~~~l~~~D~~il~~l~~~~~~v~~~~e~~~f~~a~~~l~~f~~~~ls~~Yie~~ 721 (912)
T PRK05743 644 RIRNTLRFLLGNLN--DFDPAKDAVPYEELLELDRWALHRLAELQEEILEAYENYDFHKVYQKLHNFCSVDLSAFYLDII 721 (912)
T ss_pred HHHHHHHHHHhCcc--CCCcccccCCchhCCHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHhhhhhceeeheec
Confidence 47999999887654 3666433333345678999999999999999999999999999999999999999999999999
Q ss_pred cccccCC--ChHHHHHHHHHHHHHhc
Q psy961 94 KPVMADG--SLIEKANAARTLVTSIV 117 (118)
Q Consensus 94 K~~ly~~--~~~~r~~a~~tL~~vl~ 117 (118)
|+|||+. ++..|+++++||+.+++
T Consensus 722 K~rly~~~~~~~~r~~~~~vL~~~l~ 747 (912)
T PRK05743 722 KDRLYTDAADSLARRSAQTALYHILE 747 (912)
T ss_pred cHhhhcCCCCcHHHHHHHHHHHHHHH
Confidence 9999974 45678899999999875
No 11
>PF08264 Anticodon_1: Anticodon-binding domain of tRNA; InterPro: IPR013155 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This domain is found valyl, leucyl and isoleucyl tRNA synthetases. It binds to the anticodon of the tRNA.; GO: 0000166 nucleotide binding, 0004812 aminoacyl-tRNA ligase activity, 0005524 ATP binding, 0006418 tRNA aminoacylation for protein translation, 0005737 cytoplasm; PDB: 4DLP_A 1RQG_A 4ARI_A 4AQ7_D 4ARC_A 4AS1_A 1IVS_B 1GAX_B 2CT8_B 2CSX_A ....
Probab=99.67 E-value=2.6e-16 Score=108.89 Aligned_cols=70 Identities=31% Similarity=0.494 Sum_probs=62.9
Q ss_pred HHHHHHHHHHHHHHHHHHhhcCcHHHHHHHHHHHhHHhhhHHHHHhhcccccCCCh-HHHHHHHHHHHHHhc
Q psy961 47 DSWILSRLADAVATCNKAFQKYEFNTVTSACYNLWLYELCDVYLECIKPVMADGSL-IEKANAARTLVTSIV 117 (118)
Q Consensus 47 DrWils~l~~~~~~v~~~~e~~~f~~a~~~i~~F~~~~ls~~Yle~~K~~ly~~~~-~~r~~a~~tL~~vl~ 117 (118)
|+||++++++++++++++|++|+|+.|++.+++|+++++|++|++.+|++++++++ ..|+ ++.++..+++
T Consensus 1 D~~il~~~~~~~~~~~~~~e~~~f~~a~~~i~~f~~~~~~n~Yl~~~k~~~~~~~~~~~~~-~~~~l~~~l~ 71 (153)
T PF08264_consen 1 DRWILSKLNELIKKVTEAYENYEFNKALKEIMNFIWNDLSNWYLELIKPWLYCKDDDESRE-AQYTLYEILK 71 (153)
T ss_dssp HHHHHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHCHHHHHHHHHHHCTTTTCHHHH-HHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHhcccchhcccchhHHH-HHHHHHHHHH
Confidence 89999999999999999999999999999999999999999999999999997532 3356 9999998875
No 12
>PLN02943 aminoacyl-tRNA ligase
Probab=99.65 E-value=1.1e-15 Score=132.49 Aligned_cols=107 Identities=16% Similarity=0.306 Sum_probs=85.0
Q ss_pred ccchhh-HHHHHHHHHHHhcCCC------------CCCccccccCCCCCChHHHHHHHHHHHHHHHHHHHhhcCcHHHHH
Q psy961 8 APYTHL-TRWYGHVTELKKKQDA------------DVNAALDQASKVKVSPIDSWILSRLADAVATCNKAFQKYEFNTVT 74 (118)
Q Consensus 8 ~~~~~l-~~wn~~~f~l~~~~~~------------~f~~~~~~~~~~~l~~~DrWils~l~~~~~~v~~~~e~~~f~~a~ 74 (118)
.....+ ++||+..|.+.+..+. .|++.. +...++..|+||++++++++++++++|++|+|++|+
T Consensus 628 ~~~~~~~kl~N~~rf~~~~l~~~~~~~~~~~~~~~~~~~~~---~~~~l~~~D~wilskl~~~i~~v~~~~e~y~f~~A~ 704 (958)
T PLN02943 628 SNKAFTNKLWNAGKFVLQNLPSQSDTSAWEHILACKFDKEE---SLLSLPLPECWVVSKLHELIDSVTTSYDKYFFGDVG 704 (958)
T ss_pred HHHHHHHHHHHHHHHHHhccccccccccccccccccCCccc---cccccCHHHHHHHHHHHHHHHHHHHHHHhcChhHHH
Confidence 334444 4799999988765321 133221 112457899999999999999999999999999999
Q ss_pred HHHHHHhHHhhhHHHHHhhcccccCCC-hHHHHHHHHHHHHHhc
Q psy961 75 SACYNLWLYELCDVYLECIKPVMADGS-LIEKANAARTLVTSIV 117 (118)
Q Consensus 75 ~~i~~F~~~~ls~~Yle~~K~~ly~~~-~~~r~~a~~tL~~vl~ 117 (118)
+.+++|+|+++|+||||.+|+++|+.+ ...+++++.||+++++
T Consensus 705 ~~i~~f~~~~~~d~YiE~~Kprl~~~~~~~~~~~a~~vL~~vl~ 748 (958)
T PLN02943 705 REIYDFFWSDFADWYIEASKTRLYHSGDNSALSRAQAVLLYVFE 748 (958)
T ss_pred HHHHHHHHHHHHHHHHHhccHhhccCCchHHHHHHHHHHHHHHH
Confidence 999999999999999999999999754 3457789999998875
No 13
>PTZ00427 isoleucine-tRNA ligase, putative; Provisional
Probab=99.65 E-value=1.2e-15 Score=134.31 Aligned_cols=102 Identities=11% Similarity=0.099 Sum_probs=82.1
Q ss_pred HHHHHHHHHHHhcCC------CCCCccccccCCCCCChHHHHHHHHHHHHHHHHHHHhhcCcHHHHHHHHHHHhHHhhhH
Q psy961 14 TRWYGHVTELKKKQD------ADVNAALDQASKVKVSPIDSWILSRLADAVATCNKAFQKYEFNTVTSACYNLWLYELCD 87 (118)
Q Consensus 14 ~~wn~~~f~l~~~~~------~~f~~~~~~~~~~~l~~~DrWils~l~~~~~~v~~~~e~~~f~~a~~~i~~F~~~~ls~ 87 (118)
++||+..|.+.+..+ .+|++.+... ......+|+||++++++++++|+++|++|+|+.|++.|++|++ ++|+
T Consensus 775 klwN~~rF~~~~i~~~~~~~~~~f~~~~~~~-~~~~~~~DrWILs~l~~li~~v~~~me~Y~f~~A~~~i~~Fi~-~lsn 852 (1205)
T PTZ00427 775 PFYHSFRFFSQEVTRYECLNKKQFLFNTDYI-YKNDNIMDQWIFSSVQSLTKSVHTEMKAYKLYNVLPKLLQFIE-NLTN 852 (1205)
T ss_pred HHHHHHHHHHhccccccccccccCCcCcccc-cccCCHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHH-Hhcc
Confidence 579999998875431 1343322111 1235678999999999999999999999999999999999996 5999
Q ss_pred HHHHhhcccccCC-ChHHHHHHHHHHHHHhc
Q psy961 88 VYLECIKPVMADG-SLIEKANAARTLVTSIV 117 (118)
Q Consensus 88 ~Yle~~K~~ly~~-~~~~r~~a~~tL~~vl~ 117 (118)
|||+++|+|||++ +.+++.+|++||+++|+
T Consensus 853 wYIe~~K~rl~~~~~~~~~~~a~~tL~~vL~ 883 (1205)
T PTZ00427 853 WYIRLNRDRMRGSLGEENCLQSLCTTYRTLH 883 (1205)
T ss_pred HHHHHcchhhccCCCcHHHHHHHHHHHHHHH
Confidence 9999999999975 35567889999999985
No 14
>PTZ00419 valyl-tRNA synthetase-like protein; Provisional
Probab=99.64 E-value=1.8e-15 Score=131.55 Aligned_cols=113 Identities=33% Similarity=0.474 Sum_probs=86.1
Q ss_pred cccccchhh-HHHHHHHHHHHhcCCCCCCccccc---cCCCCCChHHHHHHHHHHHHHHHHHHHhhcCcHHHHHHHHHHH
Q psy961 5 RVSAPYTHL-TRWYGHVTELKKKQDADVNAALDQ---ASKVKVSPIDSWILSRLADAVATCNKAFQKYEFNTVTSACYNL 80 (118)
Q Consensus 5 ~~~~~~~~l-~~wn~~~f~l~~~~~~~f~~~~~~---~~~~~l~~~DrWils~l~~~~~~v~~~~e~~~f~~a~~~i~~F 80 (118)
++......+ ++||+..|.+.+..+....+.... .+...++.+|+||++++++++++++++|++|+|+.|++.+++|
T Consensus 665 ~v~~~~~f~nklwN~~rf~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~wIls~L~~~i~~v~~~~e~y~f~~A~~~i~~F 744 (995)
T PTZ00419 665 RVVGYRHFCNKLWNAVKFALMKLLKDFNLPNSTLFKPNNVESLPWEDKWILHRLNVAIKEVTEGFKEYDFSEATQATYNF 744 (995)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcccccccccccccccccccccCCHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence 344333333 479999999876543211111100 1123456789999999999999999999999999999999999
Q ss_pred hHHhhhHHHHHhhcccccC-CChHHHHHHHHHHHHHhc
Q psy961 81 WLYELCDVYLECIKPVMAD-GSLIEKANAARTLVTSIV 117 (118)
Q Consensus 81 ~~~~ls~~Yle~~K~~ly~-~~~~~r~~a~~tL~~vl~ 117 (118)
+|+++|+||||++|++++. .++.++++++.||+++++
T Consensus 745 ~~~~~~n~Yie~~K~~l~~~~~~~~~~~~~~~L~~vL~ 782 (995)
T PTZ00419 745 WLYELCDVYLELIKPRLSKQSDGERKQHAQDVLHTVLD 782 (995)
T ss_pred HHHhhHHHHHHHhhhhhhcCCCcHHHHHHHHHHHHHHH
Confidence 9999999999999999953 355567889999999875
No 15
>TIGR00422 valS valyl-tRNA synthetase. The valyl-tRNA synthetase (ValS) is a class I amino acyl-tRNA ligase and is particularly closely related to the isoleucyl tRNA synthetase.
Probab=99.62 E-value=4e-15 Score=127.72 Aligned_cols=99 Identities=29% Similarity=0.482 Sum_probs=81.8
Q ss_pred HHHHHHHHHHHhcCCC-CCCccccccCCCCCChHHHHHHHHHHHHHHHHHHHhhcCcHHHHHHHHHHHhHHhhhHHHHHh
Q psy961 14 TRWYGHVTELKKKQDA-DVNAALDQASKVKVSPIDSWILSRLADAVATCNKAFQKYEFNTVTSACYNLWLYELCDVYLEC 92 (118)
Q Consensus 14 ~~wn~~~f~l~~~~~~-~f~~~~~~~~~~~l~~~DrWils~l~~~~~~v~~~~e~~~f~~a~~~i~~F~~~~ls~~Yle~ 92 (118)
++||+.+|...+.... ++++. .......|+||+++++.++++++++|++|+|++|++.+++|+|+++|+|||+.
T Consensus 578 kl~N~~rf~~~~~~~~~~~~~~-----~~~~~~~D~wil~~l~~~~~~v~~~~e~~~f~~A~~~l~~f~~~~~~n~Yie~ 652 (861)
T TIGR00422 578 KLWNASRFVLMNLSDDLELSGG-----EEKLSLADRWILSKLNRTIKEVRKALDKYRFAEAAKALYEFIWNDFCDWYIEL 652 (861)
T ss_pred HHHHHHHHHHhccccccccccc-----cccCCHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4799888887654321 12111 12356789999999999999999999999999999999999999999999999
Q ss_pred hcccccCCChHHHHHHHHHHHHHhc
Q psy961 93 IKPVMADGSLIEKANAARTLVTSIV 117 (118)
Q Consensus 93 ~K~~ly~~~~~~r~~a~~tL~~vl~ 117 (118)
+|+++++++..++++++.||+++++
T Consensus 653 ~k~~~~~~~~~~~~~~~~~l~~~l~ 677 (861)
T TIGR00422 653 VKYRLYNGNEAEKKAARDTLYYVLD 677 (861)
T ss_pred hHHHHcCCCcHHHHHHHHHHHHHHH
Confidence 9999997666678899999999875
No 16
>PRK14900 valS valyl-tRNA synthetase; Provisional
Probab=99.60 E-value=9.5e-15 Score=127.63 Aligned_cols=101 Identities=26% Similarity=0.448 Sum_probs=82.6
Q ss_pred HHHHHHHHHHhcCCCCCCccccccCCCCCChHHHHHHHHHHHHHHHHHHHhhcCcHHHHHHHHHHHhHHhhhHHHHHhhc
Q psy961 15 RWYGHVTELKKKQDADVNAALDQASKVKVSPIDSWILSRLADAVATCNKAFQKYEFNTVTSACYNLWLYELCDVYLECIK 94 (118)
Q Consensus 15 ~wn~~~f~l~~~~~~~f~~~~~~~~~~~l~~~DrWils~l~~~~~~v~~~~e~~~f~~a~~~i~~F~~~~ls~~Yle~~K 94 (118)
+||+.+|.+.+.. +|.++........++..|+||+++++.++++++++|++|+|+.|++.+++|+|+++|+|||+.+|
T Consensus 592 l~N~~R~~~~~~~--~~~~~~~~~~~~~~~~~D~wils~l~~~i~~v~~~~e~y~f~~A~~~i~~f~~~~~~n~Yie~~k 669 (1052)
T PRK14900 592 LWNASRFALMNLS--GYQERGEDPARLARTPADRWILARLQRAVNETVEALEAFRFNDAANAVYAFVWHELCDWYIELAK 669 (1052)
T ss_pred HHHHHHHHHHhhh--ccCcccccccccccCHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhhHHHHHhcc
Confidence 6998788776543 35443221112235678999999999999999999999999999999999999999999999999
Q ss_pred ccccCCChHHHHHHHHHHHHHhc
Q psy961 95 PVMADGSLIEKANAARTLVTSIV 117 (118)
Q Consensus 95 ~~ly~~~~~~r~~a~~tL~~vl~ 117 (118)
++|++.+...+++++.+|+.+|+
T Consensus 670 ~~l~~~~~~~~~~~~~~L~~~L~ 692 (1052)
T PRK14900 670 EALASEDPEARRSVQAVLVHCLQ 692 (1052)
T ss_pred HhhccCCHHHHHHHHHHHHHHHH
Confidence 99998766667788999988875
No 17
>PLN02882 aminoacyl-tRNA ligase
Probab=99.60 E-value=9.6e-15 Score=128.47 Aligned_cols=104 Identities=14% Similarity=0.139 Sum_probs=83.5
Q ss_pred hHHHHHHHHHHHhcCC------CCCCccccccCCCCCChHHHHHHHHHHHHHHHHHHHhhcCcHHHHHHHHHHHhHHhhh
Q psy961 13 LTRWYGHVTELKKKQD------ADVNAALDQASKVKVSPIDSWILSRLADAVATCNKAFQKYEFNTVTSACYNLWLYELC 86 (118)
Q Consensus 13 l~~wn~~~f~l~~~~~------~~f~~~~~~~~~~~l~~~DrWils~l~~~~~~v~~~~e~~~f~~a~~~i~~F~~~~ls 86 (118)
.++||+..|.+.+... ++|.|............+|+||+++++++++++.++|++|+|++|++.|++|++ ++|
T Consensus 668 ~kl~Na~rfl~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~D~wIls~l~~li~~v~~~me~y~f~~A~~~I~~Fv~-~ls 746 (1159)
T PLN02882 668 LPWYNAYRFLVQNAKRLEVEGGAPFVPLDLAKLQNSANVLDRWINSATQSLVKFVREEMGAYRLYTVVPYLVKFID-NLT 746 (1159)
T ss_pred HHHHHHHHHHHhhhhhhhhccccCCCccccccccccCCHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHH-HHh
Confidence 4589999888876432 346654210000124678999999999999999999999999999999999995 699
Q ss_pred HHHHHhhcccccCC-ChHHHHHHHHHHHHHhc
Q psy961 87 DVYLECIKPVMADG-SLIEKANAARTLVTSIV 117 (118)
Q Consensus 87 ~~Yle~~K~~ly~~-~~~~r~~a~~tL~~vl~ 117 (118)
+|||+.+|+|+|++ ++++++++++||+++|+
T Consensus 747 N~YIe~~Kprl~~~~~~~~~~~al~tL~~vL~ 778 (1159)
T PLN02882 747 NIYVRFNRKRLKGRTGEEDCRTALSTLYNVLL 778 (1159)
T ss_pred HHHHHhCCHhhhCCCChHHHHHHHHHHHHHHH
Confidence 99999999999964 45678899999999885
No 18
>PRK06039 ileS isoleucyl-tRNA synthetase; Reviewed
Probab=99.56 E-value=3.1e-14 Score=123.73 Aligned_cols=104 Identities=20% Similarity=0.235 Sum_probs=82.5
Q ss_pred hHHHHHHHHHHHhcCCCCCCccccccCCCCCChHHHHHHHHHHHHHHHHHHHhhcCcHHHHHHHHHHHhHHhhhHHHHHh
Q psy961 13 LTRWYGHVTELKKKQDADVNAALDQASKVKVSPIDSWILSRLADAVATCNKAFQKYEFNTVTSACYNLWLYELCDVYLEC 92 (118)
Q Consensus 13 l~~wn~~~f~l~~~~~~~f~~~~~~~~~~~l~~~DrWils~l~~~~~~v~~~~e~~~f~~a~~~i~~F~~~~ls~~Yle~ 92 (118)
.++||.+.|.+.....++|++.....+...+.+.|+||++++++++++++++|++|+|+.|++.|++|+ +++|+||+++
T Consensus 645 ~kl~N~~~f~~~y~~~~~~~~~~~~~~~~~~~~~D~wils~l~~li~~v~~a~e~y~~~~A~~~l~~f~-~~lsn~Yi~~ 723 (975)
T PRK06039 645 LTLWNVYSFFVLYANLDGFDYPPAEDEVDSLNELDRWILSRLNSLVKEVTEALDNYDITKAARAIRDFV-DDLSNWYIRR 723 (975)
T ss_pred HHHHHHHHHHHHHhhhccCCccccccccccCCHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHH-HHHHHHHHHH
Confidence 457999988764322234544321112234578999999999999999999999999999999999999 8999999999
Q ss_pred hcccccCC-ChHHHHHHHHHHHHHhc
Q psy961 93 IKPVMADG-SLIEKANAARTLVTSIV 117 (118)
Q Consensus 93 ~K~~ly~~-~~~~r~~a~~tL~~vl~ 117 (118)
+|+|+|+. ++.+++++++||+++|+
T Consensus 724 ~k~r~w~~~~~~~~~~a~~~L~~~L~ 749 (975)
T PRK06039 724 SRRRFWKEEDDPDKLAAYATLYTVLE 749 (975)
T ss_pred hhhhhccCCCcHHHHHHHHHHHHHHH
Confidence 99999964 34567889999999875
No 19
>PRK05729 valS valyl-tRNA synthetase; Reviewed
Probab=99.56 E-value=3.4e-14 Score=122.27 Aligned_cols=97 Identities=31% Similarity=0.479 Sum_probs=78.8
Q ss_pred HHHHHHHHHHhcCCCCCCccccccCCCCCChHHHHHHHHHHHHHHHHHHHhhcCcHHHHHHHHHHHhHHhhhHHHHHhhc
Q psy961 15 RWYGHVTELKKKQDADVNAALDQASKVKVSPIDSWILSRLADAVATCNKAFQKYEFNTVTSACYNLWLYELCDVYLECIK 94 (118)
Q Consensus 15 ~wn~~~f~l~~~~~~~f~~~~~~~~~~~l~~~DrWils~l~~~~~~v~~~~e~~~f~~a~~~i~~F~~~~ls~~Yle~~K 94 (118)
+||+.+|.+.+..+ +.+.. ..+...+...|+||+++++++++++.++|++|+|+.|++.|++|+|+++|+||||++|
T Consensus 574 l~N~~Rf~~~~~~~--~~~~~-~~~~~~~~~~D~wil~~l~~~~~~v~~~~e~y~f~~a~~~l~~f~~~~~~~~Yle~~k 650 (874)
T PRK05729 574 LWNASRFVLMNLEG--ADVGE-LPDPEELSLADRWILSRLNRTVAEVTEALDKYRFDEAARALYEFIWNEFCDWYLELAK 650 (874)
T ss_pred HHHHHHHHHHhccc--CCccc-ccccccCCHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 69988888766432 22211 1112245788999999999999999999999999999999999999999999999999
Q ss_pred ccccCCChHHHHHHHHHHHHHhc
Q psy961 95 PVMADGSLIEKANAARTLVTSIV 117 (118)
Q Consensus 95 ~~ly~~~~~~r~~a~~tL~~vl~ 117 (118)
+++| . . .+++++.||+++++
T Consensus 651 ~~l~-~-~-~~~~~~~~l~~~l~ 670 (874)
T PRK05729 651 PVLQ-E-A-AKRATRATLAYVLE 670 (874)
T ss_pred HHhh-h-h-HHHHHHHHHHHHHH
Confidence 9998 2 2 37789999999875
No 20
>TIGR00392 ileS isoleucyl-tRNA synthetase. The isoleucyl tRNA synthetase (IleS) is a class I amino acyl-tRNA ligase and is particularly closely related to the valyl tRNA synthetase. This model may recognize IleS from every species, including eukaryotic cytosolic and mitochondrial forms.
Probab=99.46 E-value=7.2e-13 Score=113.92 Aligned_cols=101 Identities=27% Similarity=0.380 Sum_probs=80.0
Q ss_pred HHHHHHHHH--HhcCCCCCCccccccCCCCCChHHHHHHHHHHHHHHHHHHHhhcCcHHHHHHHHHHHhHHhhhHHHHHh
Q psy961 15 RWYGHVTEL--KKKQDADVNAALDQASKVKVSPIDSWILSRLADAVATCNKAFQKYEFNTVTSACYNLWLYELCDVYLEC 92 (118)
Q Consensus 15 ~wn~~~f~l--~~~~~~~f~~~~~~~~~~~l~~~DrWils~l~~~~~~v~~~~e~~~f~~a~~~i~~F~~~~ls~~Yle~ 92 (118)
+||.+.|.+ .+. .+|+|+...++...+...|+|++++++++++++.++|++|+|+.|++.+++|+++++|++|++.
T Consensus 665 l~N~~~~~~~~~~l--~~~~~~~~~~~~~~l~~~d~~ll~~l~~~~~~v~~~~e~~~~~~a~~~l~~f~~~~l~n~Yi~~ 742 (861)
T TIGR00392 665 RWNTYRFLLTYANL--DKFDPLFNSVAVEKFPEEDRWILSRLNSLVEEVNEALEKYNFHKVLRALQDFIVEELSNWYIRI 742 (861)
T ss_pred HHHHHHHHHHHhcc--ccCCccccccccccCCHHHHHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHHHHHH
Confidence 588888876 433 3455542222223457789999999999999999999999999999999999988899999999
Q ss_pred hcccccCC-ChHHHHHHHHHHHHHhc
Q psy961 93 IKPVMADG-SLIEKANAARTLVTSIV 117 (118)
Q Consensus 93 ~K~~ly~~-~~~~r~~a~~tL~~vl~ 117 (118)
+|+++|+. .+..+++++++|+.+++
T Consensus 743 ~k~~lw~~~~~~~~~~~~~~l~~~l~ 768 (861)
T TIGR00392 743 IRDRLYCEAKDNDKRAAQTTLYYALL 768 (861)
T ss_pred hhHHhccCCCCHHHHHHHHHHHHHHH
Confidence 99999964 22333489999988875
No 21
>PRK13208 valS valyl-tRNA synthetase; Reviewed
Probab=99.43 E-value=1.3e-12 Score=111.61 Aligned_cols=103 Identities=26% Similarity=0.400 Sum_probs=78.6
Q ss_pred cchhhH-HHHHHHHHHHhcCCCCCCccccccCCCCCChHHHHHHHHHHHHHHHHHHHhhcCcHHHHHHHHHHHhHHhhhH
Q psy961 9 PYTHLT-RWYGHVTELKKKQDADVNAALDQASKVKVSPIDSWILSRLADAVATCNKAFQKYEFNTVTSACYNLWLYELCD 87 (118)
Q Consensus 9 ~~~~l~-~wn~~~f~l~~~~~~~f~~~~~~~~~~~l~~~DrWils~l~~~~~~v~~~~e~~~f~~a~~~i~~F~~~~ls~ 87 (118)
..+.+. +||...+.......... . ....+...|+|++++++.+++++.++|++|+|+.|++.|++|+++++|+
T Consensus 579 ~~~~l~kl~N~~r~~~~~~~~~~~--~----~~~~~~~~D~~il~~l~~~i~~v~~~~e~~~f~~A~~~i~~f~~~~~~n 652 (800)
T PRK13208 579 GRRLLTKLWNASRFVLHFSADPEP--D----KAEVLEPLDRWILAKLAKVVEKATEALENYDFAKALEEIESFFWHVFCD 652 (800)
T ss_pred HHHHHHHHHHHHHHHHhccccccc--C----ccccCCHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHhhH
Confidence 333443 68887776532111111 0 1123567899999999999999999999999999999999999989999
Q ss_pred HHHHhhcccccCCCh-HHHHHHHHHHHHHhc
Q psy961 88 VYLECIKPVMADGSL-IEKANAARTLVTSIV 117 (118)
Q Consensus 88 ~Yle~~K~~ly~~~~-~~r~~a~~tL~~vl~ 117 (118)
+||+.+|+++++++. ..+++++.+++++++
T Consensus 653 ~Yie~~k~~~~~~~~~~~~~~~~~~l~~~l~ 683 (800)
T PRK13208 653 DYLELVKSRAYGEDEEEEQKSARYTLYTVLD 683 (800)
T ss_pred HHHHHhhHHhcCCCCcHHHHHHHHHHHHHHH
Confidence 999999999996543 236788899988875
No 22
>cd07375 Anticodon_Ia_like Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains. This domain is found in a variety of class Ia aminoacyl tRNA synthetases, C-terminal to the catalytic core domain. It recognizes and specifically binds to the anticodon of the tRNA. Aminoacyl tRNA synthetases catalyze the transfer of cognate amino acids to the 3'-end of their tRNAs by specifically recognizing cognate from non-cognate amino acids. Members include valyl-, leucyl-, isoleucyl-, cysteinyl-, arginyl-, and methionyl-tRNA synthethases. This superfamily also includes a domain from MshC, an enzyme in the mycothiol biosynthetic pathway.
Probab=99.15 E-value=6.9e-10 Score=72.41 Aligned_cols=103 Identities=17% Similarity=0.206 Sum_probs=71.5
Q ss_pred cccccchhhH-HHHHHHHHHHhcCCCCCCccccccCCCCCChHHHHHHHHHHHHHHHHHHHhhcCcHHHHHHHHHHHhHH
Q psy961 5 RVSAPYTHLT-RWYGHVTELKKKQDADVNAALDQASKVKVSPIDSWILSRLADAVATCNKAFQKYEFNTVTSACYNLWLY 83 (118)
Q Consensus 5 ~~~~~~~~l~-~wn~~~f~l~~~~~~~f~~~~~~~~~~~l~~~DrWils~l~~~~~~v~~~~e~~~f~~a~~~i~~F~~~ 83 (118)
.|.++.+.+. .|+...+....... ..|... .......|+|+++++++++++++++|++|+|+.|++.+++|++
T Consensus 3 ~v~~~~~~~n~~~r~~~~~~~~~~~--~~~~~~---~~~~~~~d~~l~~~~~~~~~~~~~~~e~~~~~~a~~~i~~~~~- 76 (117)
T cd07375 3 RLKQARAFLNRLYRLLSFFRKALGG--TQPKWD---NELLEEADRELLARLQEFIKRTTNALEALDPTTAVQELFKFTN- 76 (117)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcCC--CCCCcC---hhhcCHhhHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH-
Confidence 3455555555 47777665443221 222211 0123567999999999999999999999999999999999984
Q ss_pred hhhHHHHHhhcccccCCChHHHHHHHHHHHHHh
Q psy961 84 ELCDVYLECIKPVMADGSLIEKANAARTLVTSI 116 (118)
Q Consensus 84 ~ls~~Yle~~K~~ly~~~~~~r~~a~~tL~~vl 116 (118)
.+ ++|++..|++.++++ .+.++..++..++
T Consensus 77 ~~-n~y~~~~~pw~~~~~--~~~~~~~~~~~~l 106 (117)
T cd07375 77 EL-NWYLDELKPALQTEE--LREAVLAVLRAAL 106 (117)
T ss_pred hc-cHHHHHhhHHHcCch--hHHHHHHHHHHHH
Confidence 43 999999999988653 2334555665554
No 23
>cd07962 Anticodon_Ia_Val Anticodon-binding domain of valyl tRNA synthetases. This domain is found in valyl tRNA synthetases (ValRS), which belong to the class Ia aminoacyl tRNA synthetases. It lies C-terminal to the catalytic core domain, and recognizes and specifically binds to the tRNA anticodon. ValRS catalyzes the transfer of valine to the 3'-end of its tRNA.
Probab=99.08 E-value=2.8e-09 Score=72.73 Aligned_cols=108 Identities=29% Similarity=0.474 Sum_probs=75.1
Q ss_pred cccccchhhHH-HHHHHHHHHhcCCCCCCccccccCCCCCChHHHHHHHHHHHHHHHHHHHhhcCcHHHHHHHHHHHhHH
Q psy961 5 RVSAPYTHLTR-WYGHVTELKKKQDADVNAALDQASKVKVSPIDSWILSRLADAVATCNKAFQKYEFNTVTSACYNLWLY 83 (118)
Q Consensus 5 ~~~~~~~~l~~-wn~~~f~l~~~~~~~f~~~~~~~~~~~l~~~DrWils~l~~~~~~v~~~~e~~~f~~a~~~i~~F~~~ 83 (118)
.|+++.+.|.. ||...|....... +++.++ +.......|+|++++++++++++.++|++|+|++|++.++.++.+
T Consensus 5 ~~~~~~~~l~k~~~~~~~~~~~~~~--~~~~~~--~~~~~~~~d~~l~~~~~~~~~~~~~~~e~~~~~~al~~i~~~~~~ 80 (135)
T cd07962 5 RVEGGRNFCNKLWNAARFVLMNLED--DDEPEE--DPESLSLADRWILSRLNKTVEEVTEALENYRFSEAATALYEFFWN 80 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcccc--cCcccc--ccccCCHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence 35566677764 6666665342121 122111 112345689999999999999999999999999999999999865
Q ss_pred hhhHHHHHhhcccccCCChHHHHHHHHHHHHHh
Q psy961 84 ELCDVYLECIKPVMADGSLIEKANAARTLVTSI 116 (118)
Q Consensus 84 ~ls~~Yle~~K~~ly~~~~~~r~~a~~tL~~vl 116 (118)
+++++|++..++.....++.+..+...++..++
T Consensus 81 ~~~N~Yi~~~~pW~~~~~~~~~~~~~~~~~~~l 113 (135)
T cd07962 81 DFCDWYLELVKPRLYGEDEEEKKAARATLYYVL 113 (135)
T ss_pred HHhHHHHHHhhHHHcCCChHHHHHHHHHHHHHH
Confidence 699999999999755444333444555555544
No 24
>cd07959 Anticodon_Ia_Leu_AEc Anticodon-binding domain of archaeal and eukaryotic cytoplasmic leucyl tRNA synthetases. This domain is found in leucyl tRNA synthetases (LeuRS), which belong to the class Ia aminoacyl tRNA synthetases. It lies C-terminal to the catalytic core domain. In contrast to other class Ia enzymes, the anticodon is not used as an identity element in LeuRS (with exceptions such as Saccharomyces cerevisiae and some other eukaryotes). No anticodon-binding site can be defined for this family, which includes archaeal and eukaryotic cytoplasmic members. LeuRS catalyzes the transfer of leucine to the 3'-end of its tRNA.
Probab=99.07 E-value=9.2e-10 Score=72.68 Aligned_cols=52 Identities=27% Similarity=0.393 Sum_probs=46.9
Q ss_pred CChHHHHHHHHHHHHHHHHHHHhhcCcHHHHHHHH-HHHhHHhhhHHHHHhhccc
Q psy961 43 VSPIDSWILSRLADAVATCNKAFQKYEFNTVTSAC-YNLWLYELCDVYLECIKPV 96 (118)
Q Consensus 43 l~~~DrWils~l~~~~~~v~~~~e~~~f~~a~~~i-~~F~~~~ls~~Yle~~K~~ 96 (118)
++..|+|+++++++++++++++|++|+|++|++.+ +.|. + .+++|++.+|++
T Consensus 33 ~~~~d~~~~~~~~~~i~~v~~~~~~~~f~~a~~~~~~~~~-~-~~~~Y~~~~~~~ 85 (117)
T cd07959 33 LTFIDRWLLSRLNRLIKETTEAYENMQFREALKEGLYELQ-N-DLDWYRERGGAG 85 (117)
T ss_pred cchhHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH-H-HHHHHHHHhCcc
Confidence 46789999999999999999999999999999998 6664 4 699999999986
No 25
>KOG0434|consensus
Probab=99.01 E-value=1.9e-09 Score=90.51 Aligned_cols=101 Identities=16% Similarity=0.206 Sum_probs=82.2
Q ss_pred hhHHHHHHHHHHHhcC------CCCCCccccccCCCCCChHHHHHHHHHHHHHHHHHHHhhcCcHHHHHHHHHHHhHHhh
Q psy961 12 HLTRWYGHVTELKKKQ------DADVNAALDQASKVKVSPIDSWILSRLADAVATCNKAFQKYEFNTVTSACYNLWLYEL 85 (118)
Q Consensus 12 ~l~~wn~~~f~l~~~~------~~~f~~~~~~~~~~~l~~~DrWils~l~~~~~~v~~~~e~~~f~~a~~~i~~F~~~~l 85 (118)
.|+.||++.|.+.+.. ..+|+++.. ++ ..+.+||||++..+.++..+++.|+.|++..++..+..|+ +++
T Consensus 654 ~lPW~NsyrF~~qn~~~~~~~~g~~f~~~~~-~~--S~NvmDrWI~a~~qslv~fv~~eM~~YrLytVvp~llkfi-D~L 729 (1070)
T KOG0434|consen 654 LLPWYNSYRFLVQNAALLKKETGKDFVFDDS-VT--SSNVMDRWILASTQSLVGFVREEMDQYRLYTVVPRLLKFI-DEL 729 (1070)
T ss_pred hhhhhHHHHHHHHHHHHhccccCCccccccc-cc--cchhHHHHHHHHHHHHHHHHHHHHHheehhhhHHHHHHHH-HHh
Confidence 4567999999987632 224555432 21 3467999999999999999999999999999999999998 899
Q ss_pred hHHHHHhhcccccCCC-hHHHHHHHHHHHHHh
Q psy961 86 CDVYLECIKPVMADGS-LIEKANAARTLVTSI 116 (118)
Q Consensus 86 s~~Yle~~K~~ly~~~-~~~r~~a~~tL~~vl 116 (118)
.+||+.+-+.||.+.+ ..+.-.|.++|..+|
T Consensus 730 TNwYiR~nRrrlkGe~G~~d~~~AL~~Lf~vL 761 (1070)
T KOG0434|consen 730 TNWYIRFNRRRLKGENGEHDCHNALNVLFEVL 761 (1070)
T ss_pred hhhheehhhhhhcCCCchHHHHHHHHHHHHHH
Confidence 9999999999999643 345678899998876
No 26
>cd07957 Anticodon_Ia_Met Anticodon-binding domain of methionyl tRNA synthetases. This domain is found in methionyl tRNA synthetases (MetRS), which belong to the class Ia aminoacyl tRNA synthetases. It lies C-terminal to the catalytic core domain, and recognizes and specifically binds to the tRNA anticodon (CAU). MetRS catalyzes the transfer of methionine to the 3'-end of its tRNA.
Probab=98.98 E-value=2.9e-09 Score=71.12 Aligned_cols=55 Identities=15% Similarity=0.241 Sum_probs=50.4
Q ss_pred CChHHHHHHHHHHHHHHHHHHHhhcCcHHHHHHHHHHHhHHhhhHHHHHhhcccccC
Q psy961 43 VSPIDSWILSRLADAVATCNKAFQKYEFNTVTSACYNLWLYELCDVYLECIKPVMAD 99 (118)
Q Consensus 43 l~~~DrWils~l~~~~~~v~~~~e~~~f~~a~~~i~~F~~~~ls~~Yle~~K~~ly~ 99 (118)
.+..|+|+++++++++++++++|++|+|++|++.+++|+ ++|++|++..|+-..+
T Consensus 34 ~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~--~~~n~y~~~~kpw~~~ 88 (129)
T cd07957 34 LTEEDEELLEEAEELLEEVAEAMEELEFRKALEEIMELA--RAANKYIDETAPWKLA 88 (129)
T ss_pred CCcccHHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHH--HHHHhhhccCCCHHHH
Confidence 466899999999999999999999999999999999998 6899999999986554
No 27
>TIGR00398 metG methionyl-tRNA synthetase. The methionyl-tRNA synthetase (metG) is a class I amino acyl-tRNA ligase. This model appears to recognize the methionyl-tRNA synthetase of every species, including eukaryotic cytosolic and mitochondrial forms. The UPGMA difference tree calculated after search and alignment according to this model shows an unusual deep split between two families of MetG. One family contains forms from the Archaea, yeast cytosol, spirochetes, and E. coli, among others. The other family includes forms from yeast mitochondrion, Synechocystis sp., Bacillus subtilis, the Mycoplasmas, Aquifex aeolicus, and Helicobacter pylori. The E. coli enzyme is homodimeric, although monomeric forms can be prepared that are fully active. Activity of this enzyme in bacteria includes aminoacylation of fMet-tRNA with Met; subsequent formylation of the Met to fMet is catalyzed by a separate enzyme. Note that the protein from Aquifex aeolicus is split into an alpha (large) and beta (sma
Probab=98.87 E-value=2.7e-08 Score=81.62 Aligned_cols=73 Identities=15% Similarity=0.134 Sum_probs=65.4
Q ss_pred CChHHHHHHHHHHHHHHHHHHHhhcCcHHHHHHHHHHHhHHhhhHHHHHhhcccccCCChHHHHHHHHHHHHHhc
Q psy961 43 VSPIDSWILSRLADAVATCNKAFQKYEFNTVTSACYNLWLYELCDVYLECIKPVMADGSLIEKANAARTLVTSIV 117 (118)
Q Consensus 43 l~~~DrWils~l~~~~~~v~~~~e~~~f~~a~~~i~~F~~~~ls~~Yle~~K~~ly~~~~~~r~~a~~tL~~vl~ 117 (118)
....|+|++++++++.+.+.++|++|+|+.|++.+++|+ ++|++|++.+|+..+.+++++++++++++.++++
T Consensus 408 ~~~~d~~ll~~l~~~~~~v~~a~e~~~~~~a~~~l~~l~--~~~n~Yi~~~kpw~~~~~~~~~~~~~~~l~~~l~ 480 (530)
T TIGR00398 408 TDEEDKKLLKLINEALEQIDEAIESFEFRKALREIMKLA--DRGNKYIDENKPWELFKQSPRLKELLAVCSMLIR 480 (530)
T ss_pred cchhhHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHH--HHHHHHHhcCCChhhcCChHHHHHHHHHHHHHHH
Confidence 356899999999999999999999999999999999998 6899999999998776655577889999988875
No 28
>PRK12268 methionyl-tRNA synthetase; Reviewed
Probab=98.73 E-value=5.3e-08 Score=80.32 Aligned_cols=55 Identities=13% Similarity=0.141 Sum_probs=50.7
Q ss_pred CChHHHHHHHHHHHHHHHHHHHhhcCcHHHHHHHHHHHhHHhhhHHHHHhhcccccC
Q psy961 43 VSPIDSWILSRLADAVATCNKAFQKYEFNTVTSACYNLWLYELCDVYLECIKPVMAD 99 (118)
Q Consensus 43 l~~~DrWils~l~~~~~~v~~~~e~~~f~~a~~~i~~F~~~~ls~~Yle~~K~~ly~ 99 (118)
++..|+|++++++++++.+.++|++|+|+.|++.+++|+ ++|++|++..|+....
T Consensus 414 ~~~~d~~ll~~l~~~~~~v~~~~~~~~~~~a~~~l~~~~--~~~n~yi~~~kpw~~~ 468 (556)
T PRK12268 414 LGDEDRELIAEAEALFKEVGELLEAGEFKKALEEIMELA--REANKYLDEKAPWKLA 468 (556)
T ss_pred CCcccHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHH--HHHHHHHHcCCChhhh
Confidence 467899999999999999999999999999999999998 5999999999996543
No 29
>PRK12300 leuS leucyl-tRNA synthetase; Reviewed
Probab=98.72 E-value=7.8e-08 Score=83.57 Aligned_cols=62 Identities=19% Similarity=0.380 Sum_probs=53.2
Q ss_pred CChHHHHHHHHHHHHHHHHHHHhhcCcHHHHHHHHHHHhHHhhhHHHHHhhcccccCCChHHHHHHHHHHHHHh
Q psy961 43 VSPIDSWILSRLADAVATCNKAFQKYEFNTVTSACYNLWLYELCDVYLECIKPVMADGSLIEKANAARTLVTSI 116 (118)
Q Consensus 43 l~~~DrWils~l~~~~~~v~~~~e~~~f~~a~~~i~~F~~~~ls~~Yle~~K~~ly~~~~~~r~~a~~tL~~vl 116 (118)
+...|+|+++++++++++++++|++|+|+.|++.++.|++++ ++||++.+|+ +++.+|++++
T Consensus 647 ~~~~D~wils~l~~~i~~v~~~~e~~~~~~A~~~i~~~l~~~-~n~Yi~~~k~-----------~~~~~l~~~l 708 (897)
T PRK12300 647 LRFIDKWLLSRLNRIIKETTEAMESFQTRDAVQEAFYELLND-LRWYLRRVGE-----------ANNKVLREVL 708 (897)
T ss_pred cCHhHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHH-HHHHHHhcch-----------HHHHHHHHHH
Confidence 467899999999999999999999999999999998888776 6899999886 3555666554
No 30
>cd07958 Anticodon_Ia_Leu_BEm Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases. This domain is found in leucyl tRNA synthetases (LeuRS), which belong to the class Ia aminoacyl tRNA synthetases. It lies C-terminal to the catalytic core domain. In contrast to other class Ia enzymes, the anticodon is not used as an identity element in LeuRS (with exceptions such as Saccharomyces cerevisiae and some other eukaryotes). No anticodon-binding site can be defined for this family, which includes bacterial and eukaryotic mitochondrial members, as well as LeuRS from the archaeal Halobacteria. LeuRS catalyzes the transfer of leucine to the 3'-end of its tRNA.
Probab=98.64 E-value=4.1e-07 Score=59.59 Aligned_cols=80 Identities=19% Similarity=0.217 Sum_probs=56.5
Q ss_pred ccccccchhhHH-HHHHHHHHHhcCCCCCCccccccCCCCCChHHHHHHHHHHHHHHHHHHHhhcCcHHHHHHHHHHHhH
Q psy961 4 DRVSAPYTHLTR-WYGHVTELKKKQDADVNAALDQASKVKVSPIDSWILSRLADAVATCNKAFQKYEFNTVTSACYNLWL 82 (118)
Q Consensus 4 ~~~~~~~~~l~~-wn~~~f~l~~~~~~~f~~~~~~~~~~~l~~~DrWils~l~~~~~~v~~~~e~~~f~~a~~~i~~F~~ 82 (118)
+++.++...+.+ |+......... .|.. +....+..|+|++++++++++++.++|++|+|++|++.+++|+
T Consensus 4 ~~~~~~~n~l~R~~~~~~~~~~~~-----~~~~---~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~a~~~i~~~~- 74 (117)
T cd07958 4 SGVEGAYRFLNRVWRLVTELAEAL-----AAPA---AAAELSEEDKELRRKLHKTIKKVTEDIERLRFNTAIAALMELV- 74 (117)
T ss_pred chhHHHHHHHHHHHHHHHHHHhhc-----cccc---cccccchhhHHHHHHHHHHHHHHHHHHhCCcchHHHHHHHHHH-
Confidence 466777777776 55444322211 1110 0123456899999999999999999999999999999999998
Q ss_pred HhhhHHHHHhh
Q psy961 83 YELCDVYLECI 93 (118)
Q Consensus 83 ~~ls~~Yle~~ 93 (118)
+ .++.|++..
T Consensus 75 ~-~~n~~~~~~ 84 (117)
T cd07958 75 N-ALYKYKKKD 84 (117)
T ss_pred H-HHHHhhccc
Confidence 3 367776543
No 31
>PRK00390 leuS leucyl-tRNA synthetase; Validated
Probab=98.50 E-value=1e-06 Score=75.89 Aligned_cols=72 Identities=17% Similarity=0.242 Sum_probs=54.0
Q ss_pred cccchhhH-HHHHHHHHHHhcCCCCCCccccccCCCCCChHHHHHHHHHHHHHHHHHHHhhcCcHHHHHHHHHHHhHHhh
Q psy961 7 SAPYTHLT-RWYGHVTELKKKQDADVNAALDQASKVKVSPIDSWILSRLADAVATCNKAFQKYEFNTVTSACYNLWLYEL 85 (118)
Q Consensus 7 ~~~~~~l~-~wn~~~f~l~~~~~~~f~~~~~~~~~~~l~~~DrWils~l~~~~~~v~~~~e~~~f~~a~~~i~~F~~~~l 85 (118)
..+.+.+. +||...+.+.+. ..+++ ....+|+|+++++++++++++++|++|+|+.|++.+++|+ +++
T Consensus 615 ~~~~~~l~kl~~~~~~~~~~~--~~~~~--------~~~~~D~~il~~l~~~i~~v~~~~e~~~f~~ai~~l~~f~-n~l 683 (805)
T PRK00390 615 EGAYRFLQRVWRLVVDAKGEA--GALDV--------AALSEDKELRRKLHKTIKKVTEDIERLRFNTAIAALMELV-NAL 683 (805)
T ss_pred HHHHHHHHHHHHHHHHhhhcc--cccCc--------ccChhhHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH-HHH
Confidence 34445555 477777743332 12221 2346899999999999999999999999999999999998 577
Q ss_pred hHHH
Q psy961 86 CDVY 89 (118)
Q Consensus 86 s~~Y 89 (118)
+.+|
T Consensus 684 sk~~ 687 (805)
T PRK00390 684 YKAE 687 (805)
T ss_pred HHHH
Confidence 7776
No 32
>PLN02610 probable methionyl-tRNA synthetase
Probab=98.45 E-value=1.1e-06 Score=75.66 Aligned_cols=72 Identities=13% Similarity=0.116 Sum_probs=57.6
Q ss_pred CChHHHHHHHHHHHHHHHHHHHhhcCcHHHHHHHHHHHhHHhhhHHHHHhhcc-cccCCChHHHHHHHHHHHHHh
Q psy961 43 VSPIDSWILSRLADAVATCNKAFQKYEFNTVTSACYNLWLYELCDVYLECIKP-VMADGSLIEKANAARTLVTSI 116 (118)
Q Consensus 43 l~~~DrWils~l~~~~~~v~~~~e~~~f~~a~~~i~~F~~~~ls~~Yle~~K~-~ly~~~~~~r~~a~~tL~~vl 116 (118)
...+|+|++++++++++++.++|++|+|++|++.|++|. ++|++||+..|+ .|..++..+...+..++.+++
T Consensus 436 ~~~~d~~Ll~~~~~~i~~v~~~me~~~~~~Al~~I~~l~--~~~NkYIe~~kPW~L~k~d~~~l~~vl~~~le~l 508 (801)
T PLN02610 436 SHPLTKKLAEKVGKLVEQYVEAMEKVKLKQGLKTAMSIS--SEGNAYLQESQFWKLYKEDKPSCAIVVKTSVGLV 508 (801)
T ss_pred cchhhHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHH--HHHHHHHHhcCchhhhCCCHHHHHHHHHHHHHHH
Confidence 356799999999999999999999999999999999986 789999999988 665544433344444444444
No 33
>PLN02959 aminoacyl-tRNA ligase
Probab=98.43 E-value=1.3e-06 Score=77.36 Aligned_cols=62 Identities=15% Similarity=0.160 Sum_probs=50.3
Q ss_pred CChHHHHHHHHHHHHHHHHHHHhhcCcHHHHHHHHHHHhHHhhhHHH-HHhhcc--cccCCChHHHHHHHHHHHHHhc
Q psy961 43 VSPIDSWILSRLADAVATCNKAFQKYEFNTVTSACYNLWLYELCDVY-LECIKP--VMADGSLIEKANAARTLVTSIV 117 (118)
Q Consensus 43 l~~~DrWils~l~~~~~~v~~~~e~~~f~~a~~~i~~F~~~~ls~~Y-le~~K~--~ly~~~~~~r~~a~~tL~~vl~ 117 (118)
++.+|+||++++++++++++++|++|+|++|++. .|| |+.+|+ |+|++++ ..++.+|+++|+
T Consensus 792 ~~~~D~wils~l~~~i~~v~~a~e~y~f~~A~~~----------~~Yel~~~k~~yr~~~~~~---~~~~~~L~~vl~ 856 (1084)
T PLN02959 792 STYADRVFENEINIAIAETEKNYEAMMFREALKS----------GFYDLQAARDEYRLSCGSG---GMNRDLVWRFMD 856 (1084)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHH----------HHHHHHHhHHHHhhccccc---hHHHHHHHHHHH
Confidence 4679999999999999999999999999999884 356 777888 8887532 145777777764
No 34
>PRK12267 methionyl-tRNA synthetase; Reviewed
Probab=98.42 E-value=9.2e-07 Score=74.42 Aligned_cols=73 Identities=12% Similarity=0.236 Sum_probs=56.9
Q ss_pred CCChHHHHHHHHHHHHHHHHHHHhhcCcHHHHHHHHHHHhHHhhhHHHHHhhcccccCCC---hHHHHHHHHHHHHHh
Q psy961 42 KVSPIDSWILSRLADAVATCNKAFQKYEFNTVTSACYNLWLYELCDVYLECIKPVMADGS---LIEKANAARTLVTSI 116 (118)
Q Consensus 42 ~l~~~DrWils~l~~~~~~v~~~~e~~~f~~a~~~i~~F~~~~ls~~Yle~~K~~ly~~~---~~~r~~a~~tL~~vl 116 (118)
..+..|+|++++++++++++.++|++|+|++|++.+++|+ ..|++|++..|+--...+ ..+.+++.+++.+++
T Consensus 379 ~~~~~D~~ll~~l~~~~~~v~~~~e~~~~~~al~~i~~~~--~~~N~Yi~~~kpW~~~~~~~~~~~~~~~l~~~~~~l 454 (648)
T PRK12267 379 NVTEFDEELIALAEETLKNYEELMEELQFSRALEEVWKLI--SRANKYIDETAPWVLAKDEGKKERLATVMYHLAESL 454 (648)
T ss_pred CCchhhHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHH--HHHHHHHHhCCChhhhcCcccHHHHHHHHHHHHHHH
Confidence 3467899999999999999999999999999999999998 479999999998322222 223344555555544
No 35
>PRK00133 metG methionyl-tRNA synthetase; Reviewed
Probab=98.37 E-value=2e-06 Score=72.81 Aligned_cols=71 Identities=14% Similarity=0.176 Sum_probs=56.6
Q ss_pred ChHHHHHHHHHHHHHHHHHHHhhcCcHHHHHHHHHHHhHHhhhHHHHHhhccc-ccCCChHHHHHHHHHHHHHh
Q psy961 44 SPIDSWILSRLADAVATCNKAFQKYEFNTVTSACYNLWLYELCDVYLECIKPV-MADGSLIEKANAARTLVTSI 116 (118)
Q Consensus 44 ~~~DrWils~l~~~~~~v~~~~e~~~f~~a~~~i~~F~~~~ls~~Yle~~K~~-ly~~~~~~r~~a~~tL~~vl 116 (118)
...|+|++++++++++++.++|++|+|+.|++.+++|+ ++|++|++..|+. +..++..+.+.+..++.+++
T Consensus 408 ~~~d~~ll~~l~~~~~~v~~a~e~~~~~~a~~~l~~l~--~~~N~yi~~~kpw~~~~~~~~~~~~~l~~~~~~l 479 (673)
T PRK00133 408 ALADPELLEEFEAAAEKIAEAYEAREFRKALREIMALA--DFANKYVDDNEPWKLAKQDGERLQAVCSVGLNLF 479 (673)
T ss_pred CcccHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHH--HHHHHHHHhcCChhhhcCCHHHHHHHHHHHHHHH
Confidence 45699999999999999999999999999999999997 6899999999994 33334333444555554443
No 36
>PRK11893 methionyl-tRNA synthetase; Reviewed
Probab=98.34 E-value=2.8e-06 Score=69.23 Aligned_cols=73 Identities=16% Similarity=0.177 Sum_probs=60.1
Q ss_pred CChHHHHHHHHHHHHHHHHHHHhhcCcHHHHHHHHHHHhHHhhhHHHHHhhcccccC-CChHHHHHHHHHHHHHhc
Q psy961 43 VSPIDSWILSRLADAVATCNKAFQKYEFNTVTSACYNLWLYELCDVYLECIKPVMAD-GSLIEKANAARTLVTSIV 117 (118)
Q Consensus 43 l~~~DrWils~l~~~~~~v~~~~e~~~f~~a~~~i~~F~~~~ls~~Yle~~K~~ly~-~~~~~r~~a~~tL~~vl~ 117 (118)
+...|+|++++++++.+.+.++|++|+|+.|++.+++|+ ..+++|++..|+.... ++...++++..+++++++
T Consensus 380 ~~~~d~~l~~~l~~~~~~v~~~~~~~~~~~a~~~l~~l~--~~~n~y~~~~~pw~~~~~~~~~~~~~l~~~~~~l~ 453 (511)
T PRK11893 380 LTEADEALLEAAAALLERVRAAMDNLAFDKALEAILALV--RAANKYIDEQAPWSLAKTDPERLATVLYTLLEVLR 453 (511)
T ss_pred cchhhHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHH--HHHHHHHhhCCChhhhcCCHHHHHHHHHHHHHHHH
Confidence 467899999999999999999999999999999999998 4689999999985432 344455667777776653
No 37
>TIGR00395 leuS_arch leucyl-tRNA synthetase, archaeal and cytosolic family. The leucyl-tRNA synthetases belong to two families so broadly different that they are represented by separate models. This model includes both archaeal and cytosolic eukaryotic leucyl-tRNA synthetases; the eubacterial and mitochondrial forms differ so substantially that some other tRNA ligases score higher by this model than does any eubacterial LeuS.
Probab=97.96 E-value=3e-05 Score=68.02 Aligned_cols=51 Identities=24% Similarity=0.309 Sum_probs=44.9
Q ss_pred CChHHHHHHHHHHHHHHHHHHHhhcCcHHHHH-HHHHHHhHHhhhHHHHHhhcc
Q psy961 43 VSPIDSWILSRLADAVATCNKAFQKYEFNTVT-SACYNLWLYELCDVYLECIKP 95 (118)
Q Consensus 43 l~~~DrWils~l~~~~~~v~~~~e~~~f~~a~-~~i~~F~~~~ls~~Yle~~K~ 95 (118)
.+..|+|+++++++++++++++|++|+|++|+ ..+++|++ .|+||++..|+
T Consensus 693 ~~~~D~wlls~l~~~i~~v~~a~e~~~~~~Al~~~l~~~~~--~~n~Yl~~~~~ 744 (938)
T TIGR00395 693 TSFIDRWLESRMNAAIKETYEAMENFQTRKAVKYALFDLQA--DVDWYRRRGGV 744 (938)
T ss_pred CChHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHH--HHHHHHHhCcc
Confidence 46789999999999999999999999999999 66899984 38999987544
No 38
>TIGR00396 leuS_bact leucyl-tRNA synthetase, eubacterial and mitochondrial family. The leucyl-tRNA synthetases belong to two families so broadly different that they are represented by separate models. This model includes both eubacterial and mitochondrial leucyl-tRNA synthetases. It generates higher scores for some valyl-tRNA synthetases than for any archaeal or eukaryotic cytosolic leucyl-tRNA synthetase. Note that the enzyme from Aquifex aeolicus is split into alpha and beta chains; neither chain is long enough to score above the trusted cutoff, but the alpha chain scores well above the noise cutoff. The beta chain must be found by a model and search designed for partial length matches.
Probab=97.95 E-value=3.9e-05 Score=66.62 Aligned_cols=75 Identities=16% Similarity=0.157 Sum_probs=54.5
Q ss_pred ccccchhhH-HHHHHHHHHHhcCCCCCCccccccCCCCCChHHHHHHHHHHHHHHHHHHHhhcCc-HHHHHHHHHHHhHH
Q psy961 6 VSAPYTHLT-RWYGHVTELKKKQDADVNAALDQASKVKVSPIDSWILSRLADAVATCNKAFQKYE-FNTVTSACYNLWLY 83 (118)
Q Consensus 6 ~~~~~~~l~-~wn~~~f~l~~~~~~~f~~~~~~~~~~~l~~~DrWils~l~~~~~~v~~~~e~~~-f~~a~~~i~~F~~~ 83 (118)
+..+.+.+. +||...+.+.+... +. ..+...++..|+||++++++++++|+++|++|+ |+.|++.+++|+ |
T Consensus 648 l~~~~~~l~kl~~~~~~~~~~~~~--~~----~~~~~~l~~~d~~il~~l~~~i~~v~~~~e~y~~fn~ai~~l~~f~-n 720 (842)
T TIGR00396 648 LEGARRFLDRVWNLFYNILGELDG--KT----YLTPTILEEAQKELRRDVHKFLKKVTEDLEKLESFNTAISAMMILL-N 720 (842)
T ss_pred HHHHHHHHHHHHHHHHHHHhhhcc--cc----cCCcccCCHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHH-H
Confidence 344455555 57777776554321 21 011123567899999999999999999999999 999999999998 5
Q ss_pred hhhH
Q psy961 84 ELCD 87 (118)
Q Consensus 84 ~ls~ 87 (118)
++++
T Consensus 721 ~L~~ 724 (842)
T TIGR00396 721 ALYK 724 (842)
T ss_pred HHHh
Confidence 6665
No 39
>PLN02224 methionine-tRNA ligase
Probab=97.90 E-value=6.9e-05 Score=63.15 Aligned_cols=71 Identities=10% Similarity=0.194 Sum_probs=55.8
Q ss_pred ChHHHHHHHHHHHHHHHHHHHhhcCcHHHHHHHHHHHhHHhhhHHHHHhhcccc--cCCC-hHH-HHHHHHHHHHHh
Q psy961 44 SPIDSWILSRLADAVATCNKAFQKYEFNTVTSACYNLWLYELCDVYLECIKPVM--ADGS-LIE-KANAARTLVTSI 116 (118)
Q Consensus 44 ~~~DrWils~l~~~~~~v~~~~e~~~f~~a~~~i~~F~~~~ls~~Yle~~K~~l--y~~~-~~~-r~~a~~tL~~vl 116 (118)
...|+|++++++++++++.++|++|+|++|++.+++|+ ..+++|++..++.- ..++ +.+ ..++..++.+++
T Consensus 448 ~~~d~~l~~~l~~li~~v~~~me~~~~~~Al~~i~el~--~~~N~Yi~~~~PW~l~k~~~~~~~~~~~~l~~l~e~l 522 (616)
T PLN02224 448 AAEGVPLKDTVEKLVEKAQTNYENLSLSSACEAVLEIG--NAGNTYMDQRAPWFLFKQGGVSAEEAAKDLVIILEVM 522 (616)
T ss_pred ccccHHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHH--HHHHHHHHhCCchhhhccccccHHHHHHHHHHHHHHH
Confidence 44589999999999999999999999999999999997 67999999988873 2221 222 344555565554
No 40
>PLN02563 aminoacyl-tRNA ligase
Probab=97.55 E-value=0.00021 Score=62.91 Aligned_cols=77 Identities=18% Similarity=0.113 Sum_probs=52.8
Q ss_pred cccccchhhHH-HHHHHHHHHhcCCCCCCccccccCCCCCChHHHHHHHHHHHHHHHHHHHhhcCcHHHHHHHHHHHhHH
Q psy961 5 RVSAPYTHLTR-WYGHVTELKKKQDADVNAALDQASKVKVSPIDSWILSRLADAVATCNKAFQKYEFNTVTSACYNLWLY 83 (118)
Q Consensus 5 ~~~~~~~~l~~-wn~~~f~l~~~~~~~f~~~~~~~~~~~l~~~DrWils~l~~~~~~v~~~~e~~~f~~a~~~i~~F~~~ 83 (118)
.+.++++.|.. ||....... .+..|.+.. .+ .....|+|+++++++++++|+++|++|+|+.|++.+++|+ +
T Consensus 766 ~V~g~~rfL~rlwn~~~~~~~--~~~~~~~~~--~~--~~~~~d~~ll~kl~~~ikkVte~~e~y~FntAi~~lmef~-n 838 (963)
T PLN02563 766 GVEGVHRFLGRTWRLVVGAPL--PDGSFRDGT--VV--TDEEPSLEQLRLLHKCIAKVTEEIESTRFNTAISAMMEFT-N 838 (963)
T ss_pred HHHHHHHHHHHHHHHHHHhhh--cccccCccc--cc--cCCcchHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH-H
Confidence 45667777764 666543211 122232211 11 1134699999999999999999999999999999999998 4
Q ss_pred hhhHH
Q psy961 84 ELCDV 88 (118)
Q Consensus 84 ~ls~~ 88 (118)
.+++|
T Consensus 839 ~l~~~ 843 (963)
T PLN02563 839 AAYKW 843 (963)
T ss_pred HHhCc
Confidence 56553
No 41
>PRK01611 argS arginyl-tRNA synthetase; Reviewed
Probab=97.10 E-value=0.004 Score=51.28 Aligned_cols=45 Identities=16% Similarity=0.215 Sum_probs=43.4
Q ss_pred ChHHHHHHHHHHHHHHHHHHHhhcCcHHHHHHHHHHHhHHhhhHHH
Q psy961 44 SPIDSWILSRLADAVATCNKAFQKYEFNTVTSACYNLWLYELCDVY 89 (118)
Q Consensus 44 ~~~DrWils~l~~~~~~v~~~~e~~~f~~a~~~i~~F~~~~ls~~Y 89 (118)
++.|+|+++++.++.+.+.+++++|+.+.+++.+++|. +.|++||
T Consensus 421 ~~~e~~Ll~~L~~~~~~v~~a~~~~~p~~l~~yl~~la-~~f~~fY 465 (507)
T PRK01611 421 EEEEKELIKKLAEFPEVVESAAEELEPHRIANYLYELA-GAFHSFY 465 (507)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHH-HHHHHHH
Confidence 57899999999999999999999999999999999997 8999999
No 42
>PTZ00399 cysteinyl-tRNA-synthetase; Provisional
Probab=95.51 E-value=0.048 Score=46.54 Aligned_cols=47 Identities=13% Similarity=0.167 Sum_probs=42.6
Q ss_pred CChHHHHHHHHHHHHHHHHHHHh-hcCcHHHHHHHHHHHhHHhhhHHHHH
Q psy961 43 VSPIDSWILSRLADAVATCNKAF-QKYEFNTVTSACYNLWLYELCDVYLE 91 (118)
Q Consensus 43 l~~~DrWils~l~~~~~~v~~~~-e~~~f~~a~~~i~~F~~~~ls~~Yle 91 (118)
+...|+|++..+..+.+.+.++| ++|+++.|+..|++|+ ..++.|++
T Consensus 390 ~~~~d~~Ll~~l~~~~~~v~~Am~Ddfnt~~Al~~L~eLv--~~~N~yi~ 437 (651)
T PTZ00399 390 WTQHDFELNELFEETKSAVHAALLDNFDTPEALQALQKLI--SATNTYLN 437 (651)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHH--HHHHHHHh
Confidence 35689999999999999999999 7899999999999998 45899996
No 43
>COG0143 MetG Methionyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=94.79 E-value=0.15 Score=42.82 Aligned_cols=49 Identities=22% Similarity=0.340 Sum_probs=45.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHhhcCcHHHHHHHHHHHhHHhhhHHHHHhhcc
Q psy961 45 PIDSWILSRLADAVATCNKAFQKYEFNTVTSACYNLWLYELCDVYLECIKP 95 (118)
Q Consensus 45 ~~DrWils~l~~~~~~v~~~~e~~~f~~a~~~i~~F~~~~ls~~Yle~~K~ 95 (118)
..|+-++.+...+.+.+.++|++++|++|+..+..+. ..++.||.-.+|
T Consensus 417 ~~d~~~~~~~~~~~~~~~~~~e~~~~~~Al~~i~~l~--~~~N~Yi~~~~P 465 (558)
T COG0143 417 EEDEELLALAREALEAVAEAMEKYEFRKALEEIMALA--SRANKYIDEQAP 465 (558)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHH--HHHHHHhhcCCC
Confidence 6899999999999999999999999999999999998 669999998766
No 44
>PRK00260 cysS cysteinyl-tRNA synthetase; Validated
Probab=94.22 E-value=0.31 Score=39.87 Aligned_cols=45 Identities=18% Similarity=0.186 Sum_probs=39.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHhh-cCcHHHHHHHHHHHhHHhhhHHHHH
Q psy961 45 PIDSWILSRLADAVATCNKAFQ-KYEFNTVTSACYNLWLYELCDVYLE 91 (118)
Q Consensus 45 ~~DrWils~l~~~~~~v~~~~e-~~~f~~a~~~i~~F~~~~ls~~Yle 91 (118)
..|+|++++++.+++.+.++|+ +|++..|+..|++|+ ++ .+.|++
T Consensus 330 ~~d~~~~~~l~~~~~~~~~al~ddln~~~Al~~l~~lv-~~-~n~~~~ 375 (463)
T PRK00260 330 EDDEALLAELEEFKERFIEAMDDDFNTPEALAVLFELA-RE-INRALE 375 (463)
T ss_pred cchhhHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHH-HH-HHHHhh
Confidence 3689999999999999999995 999999999999997 44 566664
No 45
>COG0495 LeuS Leucyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=90.44 E-value=3.3 Score=36.56 Aligned_cols=80 Identities=25% Similarity=0.255 Sum_probs=52.8
Q ss_pred ccccccchhhHHHHHHHHHHHhcCCCCCCccccccCCCCCChHHHHHHHHHHHHHHHHHHHhhcCcHHHHHHHHHHHhHH
Q psy961 4 DRVSAPYTHLTRWYGHVTELKKKQDADVNAALDQASKVKVSPIDSWILSRLADAVATCNKAFQKYEFNTVTSACYNLWLY 83 (118)
Q Consensus 4 ~~~~~~~~~l~~wn~~~f~l~~~~~~~f~~~~~~~~~~~l~~~DrWils~l~~~~~~v~~~~e~~~f~~a~~~i~~F~~~ 83 (118)
+=|.++.++|.++..+.+........ .. ..+. ...|+|.+|++.+.+++..+++ +.|+.+...+|.|+ |
T Consensus 621 ~gv~g~~rfL~r~~~l~~~~~~~~~~---~~----~~~~-~~~~~~~~h~~~~~v~~~~e~~--~~~nt~i~~~m~l~-N 689 (814)
T COG0495 621 SGVEGARRFLQRVWNLVKEHLEKLVE---EL----TKEQ-GKEDRWLLHRTIKKVTEDFEAR--QTFNTAIAALMELL-N 689 (814)
T ss_pred hhhHHHHHHHHHHHHHHHHhhhcccc---cc----cchh-hHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHH-H
Confidence 34677888888877776665432100 00 0111 1689999998887766666665 78888889999998 5
Q ss_pred hhhHHHHHhhcc
Q psy961 84 ELCDVYLECIKP 95 (118)
Q Consensus 84 ~ls~~Yle~~K~ 95 (118)
+ .++|....+.
T Consensus 690 ~-l~~~~~~~~~ 700 (814)
T COG0495 690 A-LRKYLRRTEG 700 (814)
T ss_pred H-HHHHHhcccc
Confidence 5 5778765444
No 46
>TIGR00456 argS arginyl-tRNA synthetase. This model recognizes arginyl-tRNA synthetase in every completed genome to date. An interesting feature of the alignment of all arginyl-tRNA synthetases is a fairly deep split between two families. One family includes archaeal, eukaryotic and organellar, spirochete, E. coli, and Synechocystis sp. The second, sharing a deletion of about 25 residues in the central region relative to the first, includes Bacillus subtilis, Aquifex aeolicus, the Mycoplasmas and Mycobacteria, and the Gram-negative bacterium Helicobacter pylori.
Probab=86.51 E-value=6.5 Score=33.02 Aligned_cols=54 Identities=19% Similarity=0.226 Sum_probs=43.7
Q ss_pred ChHHHHHHHHHHHHHHHHHHHhhcCcHHHHHHHHHHHhHHhhhHHHHHhhcccccCC
Q psy961 44 SPIDSWILSRLADAVATCNKAFQKYEFNTVTSACYNLWLYELCDVYLECIKPVMADG 100 (118)
Q Consensus 44 ~~~DrWils~l~~~~~~v~~~~e~~~f~~a~~~i~~F~~~~ls~~Yle~~K~~ly~~ 100 (118)
.+.++-++..+.++.+.+.+++++++++.++..++++. ...+-|++.. +.+-.+
T Consensus 479 ~~~e~~Ll~~l~~~~~~v~~a~~~~~p~~~~~~l~~La--~~~N~yy~~~-~Vl~~~ 532 (566)
T TIGR00456 479 EEKEKELLKLLLQFPDVLEEAAEELEPHVLTNYLYELA--SLFSSFYKAC-PVLDAE 532 (566)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHH--HHHHHHHhcC-ccCCCC
Confidence 56678899999999999999999999999999999998 3466666654 445433
No 47
>PF06844 DUF1244: Protein of unknown function (DUF1244); InterPro: IPR009654 This family consists of several short bacterial proteins of around 100 residues in length. The function of this family is unknown.; PDB: 2O35_A 3FYB_B.
Probab=71.77 E-value=7.2 Score=23.80 Aligned_cols=22 Identities=14% Similarity=-0.013 Sum_probs=16.5
Q ss_pred HHHHHHhHHhhhHHHHHhhccc
Q psy961 75 SACYNLWLYELCDVYLECIKPV 96 (118)
Q Consensus 75 ~~i~~F~~~~ls~~Yle~~K~~ 96 (118)
..+-.|+.|-||+||.+....+
T Consensus 7 MnLAgFCRNCLskWy~~aA~~~ 28 (68)
T PF06844_consen 7 MNLAGFCRNCLSKWYREAAEER 28 (68)
T ss_dssp HHHHS--HHHHHHHHHHHHHHC
T ss_pred HHHHHHHHHHHHHHHHHHHHhc
Confidence 3456799999999999998776
No 48
>PRK12451 arginyl-tRNA synthetase; Reviewed
Probab=70.63 E-value=47 Score=27.99 Aligned_cols=47 Identities=13% Similarity=0.108 Sum_probs=38.6
Q ss_pred ChHHHHHHHHHHHHHHHHHHHhhcCcHHHHHHHHHHHhHHhhhHHHHHh
Q psy961 44 SPIDSWILSRLADAVATCNKAFQKYEFNTVTSACYNLWLYELCDVYLEC 92 (118)
Q Consensus 44 ~~~DrWils~l~~~~~~v~~~~e~~~f~~a~~~i~~F~~~~ls~~Yle~ 92 (118)
.+..+=++..+.++.+.+.+++++++++.++..+++.. ..+.. |++.
T Consensus 477 ~~~E~~Ll~~L~~~~~~v~~a~e~~ep~~~~~yl~~LA-~~fN~-fy~~ 523 (562)
T PRK12451 477 DDYSWSVVKLLNKFPQVIEAAFNKNEPSVISKYVLDVA-QSFNK-YYGN 523 (562)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHH-HHHHH-HHHh
Confidence 45556688899999999999999999999999999998 45554 4454
No 49
>PF05746 DALR_1: DALR anticodon binding domain; InterPro: IPR008909 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This all alpha helical domain is the anticodon binding domain of Arginyl tRNA synthetase. This domain is known as the DALR domain after characteristic conserved amino acids [].; GO: 0004814 arginine-tRNA ligase activity, 0005524 ATP binding, 0006420 arginyl-tRNA aminoacylation; PDB: 2ZUE_A 2ZUF_A 3FNR_A 1F7V_A 1F7U_A 1BS2_A 1IQ0_A.
Probab=58.39 E-value=46 Score=21.27 Aligned_cols=45 Identities=20% Similarity=0.189 Sum_probs=38.1
Q ss_pred ChHHHHHHHHHHHHHHHHHHHhhcCcHHHHHHHHHHHhHHhhhHHH
Q psy961 44 SPIDSWILSRLADAVATCNKAFQKYEFNTVTSACYNLWLYELCDVY 89 (118)
Q Consensus 44 ~~~DrWils~l~~~~~~v~~~~e~~~f~~a~~~i~~F~~~~ls~~Y 89 (118)
...++=++..+.++-..+.+++++++.+.++..++++. ..++++|
T Consensus 32 ~~~e~~L~~~l~~~~~~l~~a~~~~~p~~l~~yL~~La-~~f~~fy 76 (119)
T PF05746_consen 32 EEEERELLKQLARFPDVLEKAAKDLEPHKLCDYLYELA-QAFNSFY 76 (119)
T ss_dssp SHHHHHHHHHHCTHHHHHHHHHHHT-CHHHHHHHHHHH-HHHHHHH
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH-HHHHHHH
Confidence 44567788889999999999999999999999999997 5788877
No 50
>KOG0437|consensus
Probab=49.44 E-value=51 Score=29.53 Aligned_cols=49 Identities=18% Similarity=0.241 Sum_probs=42.0
Q ss_pred ChHHHHHHHHHHHHHHHHHHHhhcCcHHHHHHHH-HHHhHHhhhHHHHHhhc
Q psy961 44 SPIDSWILSRLADAVATCNKAFQKYEFNTVTSAC-YNLWLYELCDVYLECIK 94 (118)
Q Consensus 44 ~~~DrWils~l~~~~~~v~~~~e~~~f~~a~~~i-~~F~~~~ls~~Yle~~K 94 (118)
...||-+.++++.+++...++|+...|.+|++.- |+|- ..-++|=|..-
T Consensus 785 ~FaDrvf~nemN~~i~~t~~aye~~~fk~aLK~Gfyd~q--aArD~Yrel~g 834 (1080)
T KOG0437|consen 785 TFADRVFENEMNALIAKTERAYEDTLFKDALKYGFYDLQ--AARDMYRELCG 834 (1080)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHhhhHHHH--HHHHHHHHHhc
Confidence 4789999999999999999999999999999765 7776 45788877644
No 51
>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=49.25 E-value=41 Score=22.67 Aligned_cols=48 Identities=19% Similarity=0.385 Sum_probs=23.9
Q ss_pred CChHHHHHHHHHHHHHHHHHHHhhcCcHHHHH-HHHHHHhHHhhhHHHHHh
Q psy961 43 VSPIDSWILSRLADAVATCNKAFQKYEFNTVT-SACYNLWLYELCDVYLEC 92 (118)
Q Consensus 43 l~~~DrWils~l~~~~~~v~~~~e~~~f~~a~-~~i~~F~~~~ls~~Yle~ 92 (118)
++.+|.|+|.++..+++ +.+.+.++ ..... ..+..-=...|||-.|..
T Consensus 32 ~T~ID~wFL~~i~~Iv~-~e~~L~~~-~~~~~~~~L~~aK~~GFsD~~IA~ 80 (123)
T PF02787_consen 32 LTKIDPWFLEQIKNIVD-MEKELKEY-LNELDPELLRKAKRLGFSDRQIAR 80 (123)
T ss_dssp HH---HHHHHHHHHHHH-HHHHHHHH-GGG--HHHHHHHHHTT--HHHHHH
T ss_pred HHCccHHHHHHHHHHHH-HHHHHHHh-hccchHHHHHHHHHcCCCHHHHHh
Confidence 56799999999999976 45555542 11111 122222234677776654
No 52
>PHA03056 putative myristoylated protein; Provisional
Probab=35.58 E-value=75 Score=22.11 Aligned_cols=35 Identities=17% Similarity=0.427 Sum_probs=32.9
Q ss_pred HHHHHHHHHHHHHHHHHHhhcCcHHHHHHHHHHHh
Q psy961 47 DSWILSRLADAVATCNKAFQKYEFNTVTSACYNLW 81 (118)
Q Consensus 47 DrWils~l~~~~~~v~~~~e~~~f~~a~~~i~~F~ 81 (118)
++|+.+.|+.+-..-..-+.+..+...++..|.|+
T Consensus 121 n~W~~dQL~~i~~~n~~~fN~~SyGNlaRiaytff 155 (165)
T PHA03056 121 NEWMLEQLSTLNFNNLHTWNSCSIGNVTRLFYTFF 155 (165)
T ss_pred cHHHHHHHHHHHHhhhhhhccccchhHHHHHHHHH
Confidence 79999999999999999999999999999889998
No 53
>cd07956 Anticodon_Ia_Arg Anticodon-binding domain of arginyl tRNA synthetases. This domain is found in arginyl tRNA synthetases (ArgRS), which belong to the class Ia aminoacyl tRNA synthetases. It lies C-terminal to the catalytic core domain, and recognizes and specifically binds to the tRNA anticodon. ArgRS catalyzes the transfer of arginine to the 3'-end of its tRNA.
Probab=31.33 E-value=1.7e+02 Score=19.84 Aligned_cols=44 Identities=18% Similarity=0.227 Sum_probs=34.4
Q ss_pred hHHHHHHHHHHHHHHHHHHHhhcCcHHHHHHHHHHHhHHhhhHHH
Q psy961 45 PIDSWILSRLADAVATCNKAFQKYEFNTVTSACYNLWLYELCDVY 89 (118)
Q Consensus 45 ~~DrWils~l~~~~~~v~~~~e~~~f~~a~~~i~~F~~~~ls~~Y 89 (118)
+.++=++..+..+-+.+.++..+.+++.++..++++. ..+.++|
T Consensus 71 ~~E~~L~~~l~~~~~~i~~~~~~~~~~~l~~~l~~L~-~~~~~ff 114 (156)
T cd07956 71 PDERDLILLLAKFPEVVKNAAETLEPHTIATYLFDLA-HAFSKFY 114 (156)
T ss_pred HHHHHHHHHHHHhHHHHHHHHHHcCcHHHHHHHHHHH-HHHHHHH
Confidence 3455567778888888888999999999999999987 4566555
No 54
>PF00522 VPR: VPR/VPX protein; InterPro: IPR000012 Human immunodeficiency virus (HIV) is the human retrovirus associated with AIDS (acquired immune deficiency syndrome), and SIV its simian counterpart. Three main groups of primate lentivirus are known, designated Human immunodeficiency virus 1 (HIV-1), Human immunodeficiency virus 2 (HIV-2)/Simian immunodeficiency virus - mac (SIVMAC)/Simian immunodeficiency virus - sm (SIVSM) and Simian immunodeficiency virus - agm (SIVAGM). Simian immunodeficiency virus - mnd (SIVMND) has been suggested to represent a fourth distinct group []. These groups are believed to have diverged from a common ancestor long before the spread of AIDS in humans. Genetic variation in HIV-1 and HIV-2 has been studied extensively, and the nucleotide sequences reported for several strains []. ORF analysis has revealed two open reading frames, yielding the so-called R- and X-ORF proteins, which show a high degree of sequence similarity. Vpx plays a role in nuclear translocation of the viral pre-integration complex (PIC) and is thus required for the virus to infect non-dividing cells. Vpr also plays a role in nuclear translocation of the (PIC) and may target specific host proteins for degradation by the 26S proteasome. It acts by associating with the cellular CUL4A-DDB1 E3 ligase complex through direct interaction with host VPRPB/DCAF-1. This would result in cell cycle arrest or apoptosis in infected cells, creating a favourable environment for maximizing viral expression and production by rendering the HIV-1 LTR transcription more active.; GO: 0019058 viral infectious cycle, 0042025 host cell nucleus; PDB: 1VPC_A 1X9V_B 1ESX_A 1CEU_A 1M8L_A 1DSJ_A 1BDE_A 1DSK_A 1FI0_A.
Probab=30.67 E-value=1e+02 Score=20.15 Aligned_cols=37 Identities=16% Similarity=0.341 Sum_probs=29.2
Q ss_pred ChHHHHHHHHHHHHHHHHHHHhhcCcHHHHHHHHHHH
Q psy961 44 SPIDSWILSRLADAVATCNKAFQKYEFNTVTSACYNL 80 (118)
Q Consensus 44 ~~~DrWils~l~~~~~~v~~~~e~~~f~~a~~~i~~F 80 (118)
.+.|.|.+..|.++.+++.+++..--+..+-+.+++-
T Consensus 16 Ep~~eWl~~~Leelk~EAvrHFpr~~L~~lgq~i~e~ 52 (96)
T PF00522_consen 16 EPYNEWLLELLEELKEEAVRHFPREWLFGLGQYIYET 52 (96)
T ss_dssp -CCCHHHHHHHHHHHHHHHHSTCCCHHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHHHhccCChHHHHHHhhHHhhc
Confidence 5679999999999999999999876666665665553
No 55
>PHA02754 hypothetical protein; Provisional
Probab=28.37 E-value=36 Score=20.30 Aligned_cols=42 Identities=17% Similarity=0.329 Sum_probs=32.1
Q ss_pred HHHHHHHhhcCcHHHHHHHHHHHhHHhhhHHHHHhhcccccCCC
Q psy961 58 VATCNKAFQKYEFNTVTSACYNLWLYELCDVYLECIKPVMADGS 101 (118)
Q Consensus 58 ~~~v~~~~e~~~f~~a~~~i~~F~~~~ls~~Yle~~K~~ly~~~ 101 (118)
.+++.++.-+-+|.++.+++-+-+.+ .+.|++.+|..--++|
T Consensus 4 AeEi~k~i~eK~Fke~MRelkD~LSe--~GiYi~RIkai~~SGd 45 (67)
T PHA02754 4 AEEIPKAIMEKDFKEAMRELKDILSE--AGIYIDRIKAITTSGD 45 (67)
T ss_pred HHHHHHHHHHhHHHHHHHHHHHHHhh--CceEEEEEEEEEecCC
Confidence 35677777777999999999888733 6899999987644443
No 56
>KOG0370|consensus
Probab=25.93 E-value=39 Score=31.03 Aligned_cols=32 Identities=22% Similarity=0.499 Sum_probs=22.7
Q ss_pred CCChHHHHHHHHHHHHHHHHHHHhhcCcHHHHH
Q psy961 42 KVSPIDSWILSRLADAVATCNKAFQKYEFNTVT 74 (118)
Q Consensus 42 ~l~~~DrWils~l~~~~~~v~~~~e~~~f~~a~ 74 (118)
+++.+|+|+|.++..++. +.+.+++.+.....
T Consensus 814 elt~IdkWFL~k~~~i~~-~~~~l~~~~~~~l~ 845 (1435)
T KOG0370|consen 814 ELTRIDKWFLYKLMNIVN-IYKLLESHSLSSLP 845 (1435)
T ss_pred HHHHHHHHHHHHHHHHHH-HHHHHHhcccccCC
Confidence 456799999999999876 55566665544433
No 57
>PF13132 DUF3950: Domain of unknown function (DUF3950)
Probab=23.88 E-value=53 Score=16.82 Aligned_cols=15 Identities=0% Similarity=-0.044 Sum_probs=10.5
Q ss_pred HhhhHHHHHhhcccc
Q psy961 83 YELCDVYLECIKPVM 97 (118)
Q Consensus 83 ~~ls~~Yle~~K~~l 97 (118)
..||+|=+|..+.+|
T Consensus 15 ~NFSaWV~dACr~kl 29 (30)
T PF13132_consen 15 GNFSAWVKDACRRKL 29 (30)
T ss_pred cChHHHHHHHHHHHh
Confidence 467888777776654
No 58
>PF07105 DUF1367: Protein of unknown function (DUF1367); InterPro: IPR009797 This entry is represented by Bacteriophage VT2phi_272, P37. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several highly conserved, hypothetical bacterial and phage proteins of around 200 resides in length. The function of this family is unknown.
Probab=22.59 E-value=1.1e+02 Score=22.56 Aligned_cols=26 Identities=19% Similarity=0.257 Sum_probs=19.5
Q ss_pred HHhhcCcHHHHHHHHHHHhHHhhhHH
Q psy961 63 KAFQKYEFNTVTSACYNLWLYELCDV 88 (118)
Q Consensus 63 ~~~e~~~f~~a~~~i~~F~~~~ls~~ 88 (118)
..||+-+|.+..+.+.+++|+....-
T Consensus 152 a~Mdq~eF~~lY~av~~vlw~~il~~ 177 (196)
T PF07105_consen 152 ANMDQEEFEELYKAVINVLWNEILSR 177 (196)
T ss_pred cccCHHHHHHHHHHHHHHHHHHHHHh
Confidence 35666788888889999998865543
No 59
>KOG2007|consensus
Probab=21.63 E-value=5.2e+02 Score=22.19 Aligned_cols=57 Identities=14% Similarity=0.164 Sum_probs=48.4
Q ss_pred CCCChHHHHHHHHHHHHHHHHHHHh-hcCcHHHHHHHHHHHhHHhhhHHHHHhhcccccC
Q psy961 41 VKVSPIDSWILSRLADAVATCNKAF-QKYEFNTVTSACYNLWLYELCDVYLECIKPVMAD 99 (118)
Q Consensus 41 ~~l~~~DrWils~l~~~~~~v~~~~-e~~~f~~a~~~i~~F~~~~ls~~Yle~~K~~ly~ 99 (118)
+.+.+.+.=++.++..+..+|+.++ ++++...++..+.+.+ ..++-|+...+.+.++
T Consensus 376 ~~~~~~e~~l~~~~~~t~~~vh~al~d~~dT~~v~~~~~~lv--s~~N~~i~~~~~~~~~ 433 (586)
T KOG2007|consen 376 EKLSEKEAELLEDFGKTQTAVHAALCDNFDTPRVMEAIRELV--SQGNAYIRESGERPNS 433 (586)
T ss_pred hccChHHHHHHHhhhhHHHHHHHHHHhccccHHHHHHHHHHH--hhhhHHHHHhccccch
Confidence 4567788889999999999998775 6999999999999998 5799999988866654
No 60
>COG3579 PepC Aminopeptidase C [Amino acid transport and metabolism]
Probab=20.57 E-value=2.1e+02 Score=23.38 Aligned_cols=45 Identities=18% Similarity=0.422 Sum_probs=34.2
Q ss_pred HHHHHHHHHHHHHHHHHHh--hcCcHHHHHHHHHHHhHHhh--hHHHHHhhcc
Q psy961 47 DSWILSRLADAVATCNKAF--QKYEFNTVTSACYNLWLYEL--CDVYLECIKP 95 (118)
Q Consensus 47 DrWils~l~~~~~~v~~~~--e~~~f~~a~~~i~~F~~~~l--s~~Yle~~K~ 95 (118)
-.||..-|+.+--++...+ ++|+|+++ |-|+|+.+ ++|++|-+=.
T Consensus 68 RCWmFAAlNtfRhk~~~el~le~fElSQa----ytfFwDKlEKaN~FleqIi~ 116 (444)
T COG3579 68 RCWMFAALNTFRHKLISELKLEDFELSQA----YTFFWDKLEKANWFLEQIIE 116 (444)
T ss_pred eehHHHHHHHHHHHHHHhcCcceeehhhH----HHHHHHHHHHhhHHHHHHHh
Confidence 5899999999877776654 58888877 67777754 7898886544
Done!