Query 044418
Match_columns 41
No_of_seqs 102 out of 1024
Neff 6.9
Searched_HMMs 46136
Date Fri Mar 29 03:06:45 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/044418.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/044418hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG0545 FkpA FKBP-type peptidy 99.6 1.8E-15 3.9E-20 87.9 4.9 36 2-37 169-205 (205)
2 KOG0544 FKBP-type peptidyl-pro 99.5 1.3E-14 2.8E-19 77.1 4.5 36 2-37 72-108 (108)
3 KOG0549 FKBP-type peptidyl-pro 99.5 1.8E-14 3.8E-19 82.8 5.2 39 2-40 140-179 (188)
4 KOG0552 FKBP-type peptidyl-pro 99.5 8.7E-14 1.9E-18 81.8 4.8 35 2-36 191-225 (226)
5 PRK11570 peptidyl-prolyl cis-t 99.3 2.6E-12 5.6E-17 74.2 4.6 36 2-37 170-206 (206)
6 TIGR03516 ppisom_GldI peptidyl 99.3 2.3E-12 4.9E-17 73.1 4.1 37 2-38 140-177 (177)
7 PRK10902 FKBP-type peptidyl-pr 99.2 9E-11 1.9E-15 70.1 5.3 39 2-40 214-252 (269)
8 PF00254 FKBP_C: FKBP-type pep 99.1 2.5E-10 5.4E-15 57.8 4.0 33 2-34 60-94 (94)
9 KOG0543 FKBP-type peptidyl-pro 99.0 7.8E-10 1.7E-14 69.2 5.5 36 2-37 153-190 (397)
10 KOG0549 FKBP-type peptidyl-pro 92.5 0.21 4.4E-06 29.3 3.1 32 2-36 24-55 (188)
11 KOG0543 FKBP-type peptidyl-pro 92.2 0.11 2.4E-06 33.2 1.9 21 14-34 61-82 (397)
12 PRK15095 FKBP-type peptidyl-pr 88.8 0.22 4.7E-06 27.8 0.9 15 2-16 60-74 (156)
13 KOG3657 Mitochondrial DNA poly 80.5 2.4 5.3E-05 30.1 3.1 23 12-34 168-193 (1075)
14 PRK10737 FKBP-type peptidyl-pr 71.3 6.4 0.00014 22.9 2.9 16 23-38 126-141 (196)
15 COG1047 SlpA FKBP-type peptidy 68.5 8.6 0.00019 22.2 3.0 17 23-39 127-143 (174)
16 TIGR00115 tig trigger factor. 67.1 24 0.00052 21.9 4.9 33 3-39 200-232 (408)
17 PF09465 LBR_tudor: Lamin-B re 66.9 11 0.00024 18.1 2.7 17 23-39 17-33 (55)
18 PF11386 VERL: Vitelline envel 52.7 31 0.00068 17.6 3.4 14 20-33 35-49 (78)
19 PF02149 KA1: Kinase associate 52.0 24 0.00051 16.0 2.6 14 24-37 2-15 (47)
20 COG1523 PulA Type II secretory 48.0 36 0.00078 23.5 3.6 19 20-38 166-184 (697)
21 cd01287 FabA FabA, beta-hydrox 45.6 36 0.00077 18.7 2.8 18 21-38 100-117 (150)
22 PF07657 MNNL: N terminus of N 45.5 31 0.00067 17.4 2.4 12 28-39 4-15 (77)
23 PRK05416 glmZ(sRNA)-inactivati 44.9 17 0.00038 22.1 1.6 14 20-33 177-190 (288)
24 cd02868 PseudoU_synth_hTruB2_l 42.4 21 0.00045 21.2 1.7 24 15-38 137-161 (226)
25 COG1660 Predicted P-loop-conta 40.8 25 0.00054 21.9 1.9 15 20-34 175-189 (286)
26 cd03446 MaoC_like MoaC_like 40.3 55 0.0012 16.8 3.4 19 20-38 90-108 (140)
27 PF02806 Alpha-amylase_C: Alph 38.8 22 0.00048 17.4 1.2 13 20-32 82-94 (95)
28 KOG1535 Predicted fumarylaceto 37.0 47 0.001 20.0 2.6 31 4-34 38-70 (217)
29 PF11906 DUF3426: Protein of u 36.2 61 0.0013 17.2 2.8 18 19-36 120-137 (149)
30 PF06483 ChiC: Chitinase C; I 34.4 29 0.00063 20.3 1.4 14 19-32 66-79 (180)
31 PF10633 NPCBM_assoc: NPCBM-as 33.8 55 0.0012 15.6 2.2 31 4-34 27-59 (78)
32 PF08924 DUF1906: Domain of un 32.1 36 0.00077 18.4 1.5 13 20-32 90-102 (136)
33 PF14702 hGDE_central: central 31.6 44 0.00096 20.2 1.9 17 20-36 138-154 (260)
34 PF03668 ATP_bind_2: P-loop AT 31.1 35 0.00075 21.1 1.4 14 20-33 174-187 (284)
35 cd03451 FkbR2 FkbR2 is a Strep 30.8 85 0.0018 16.2 3.5 19 20-38 91-109 (146)
36 PF01509 TruB_N: TruB family p 30.6 38 0.00083 18.7 1.4 24 16-39 111-135 (149)
37 PRK03705 glycogen debranching 28.8 95 0.0021 21.2 3.3 20 19-38 144-163 (658)
38 PF11444 DUF2895: Protein of u 28.1 32 0.0007 20.3 0.9 25 2-26 38-63 (199)
39 PF03061 4HBT: Thioesterase su 27.2 73 0.0016 14.3 2.2 20 20-39 43-62 (79)
40 cd03454 YdeM YdeM is a Bacillu 26.6 1E+02 0.0023 15.9 3.6 19 20-38 88-106 (140)
41 TIGR02402 trehalose_TreZ malto 26.3 1.1E+02 0.0024 20.2 3.1 33 5-37 73-105 (542)
42 cd03452 MaoC_C MaoC_C The C-t 26.0 1.1E+02 0.0024 16.1 3.6 18 20-37 88-105 (142)
43 PF13128 DUF3954: Protein of u 26.0 60 0.0013 15.2 1.5 14 4-17 21-34 (50)
44 PRK13692 (3R)-hydroxyacyl-ACP 25.3 1.3E+02 0.0028 16.5 3.6 19 20-38 96-114 (159)
45 PF12735 Trs65: TRAPP traffick 25.2 1.2E+02 0.0026 18.5 3.0 21 19-39 258-278 (306)
46 COG3212 Predicted membrane pro 24.9 97 0.0021 17.2 2.4 13 23-35 108-120 (144)
47 COG2091 Sfp Phosphopantetheiny 24.7 58 0.0013 19.3 1.6 23 9-31 66-88 (223)
48 cd01288 FabZ FabZ is a 17kD be 24.7 1.1E+02 0.0023 15.4 3.3 18 20-37 87-104 (131)
49 PF12690 BsuPI: Intracellular 24.4 74 0.0016 15.8 1.7 14 21-34 56-69 (82)
50 PF11889 DUF3409: Domain of un 23.9 66 0.0014 15.4 1.4 10 21-30 34-43 (56)
51 PRK04424 fatty acid biosynthes 23.6 1.5E+02 0.0033 16.7 3.1 19 20-38 138-156 (185)
52 cd00506 PseudoU_synth_TruB_lik 23.0 1E+02 0.0022 18.1 2.3 25 14-38 129-154 (210)
53 TIGR00431 TruB tRNA pseudourid 22.5 1E+02 0.0022 18.1 2.3 23 16-38 132-155 (209)
54 PF10714 LEA_6: Late embryogen 22.5 63 0.0014 16.5 1.3 9 11-19 32-40 (79)
55 PF07977 FabA: FabA-like domai 22.3 1E+02 0.0022 16.1 2.1 17 20-36 96-113 (138)
56 cd06418 GH25_BacA-like BacA is 22.2 99 0.0021 18.0 2.2 14 20-33 102-115 (212)
57 PRK14124 tRNA pseudouridine sy 22.2 1.1E+02 0.0023 19.1 2.4 26 13-38 130-156 (308)
58 cd02978 KaiB_like KaiB-like fa 20.5 86 0.0019 15.6 1.5 13 28-40 33-45 (72)
59 PRK14122 tRNA pseudouridine sy 20.5 87 0.0019 19.6 1.8 26 13-38 129-155 (312)
60 PHA02583 11 baseplate wedge su 20.4 70 0.0015 19.3 1.3 16 1-16 177-192 (218)
No 1
>COG0545 FkpA FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]
Probab=99.60 E-value=1.8e-15 Score=87.89 Aligned_cols=36 Identities=58% Similarity=1.047 Sum_probs=33.3
Q ss_pred EEEEEeCCCCCcCCCCCC-CCCCCCeEEEEEEEEEee
Q 044418 2 QRLLIVPPELAYGSKGVQ-EIPPNATIEIDVELLAIK 37 (41)
Q Consensus 2 ~~~l~ip~~layg~~g~~-~ip~~s~lvf~iel~~~~ 37 (41)
+|+|+|||++|||++|.+ .|||||+|+|||||+++.
T Consensus 169 k~~l~IP~~laYG~~g~~g~Ippns~LvFeVeLl~v~ 205 (205)
T COG0545 169 KRKLTIPPELAYGERGVPGVIPPNSTLVFEVELLDVK 205 (205)
T ss_pred eEEEEeCchhccCcCCCCCCCCCCCeEEEEEEEEecC
Confidence 799999999999999976 499999999999999873
No 2
>KOG0544 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.54 E-value=1.3e-14 Score=77.10 Aligned_cols=36 Identities=47% Similarity=0.856 Sum_probs=33.3
Q ss_pred EEEEEeCCCCCcCCCCCC-CCCCCCeEEEEEEEEEee
Q 044418 2 QRLLIVPPELAYGSKGVQ-EIPPNATIEIDVELLAIK 37 (41)
Q Consensus 2 ~~~l~ip~~layg~~g~~-~ip~~s~lvf~iel~~~~ 37 (41)
+++|.|+|++|||..|.+ .|||||+|+|||||+++.
T Consensus 72 kakLti~pd~aYG~~G~p~~IppNatL~FdVEll~v~ 108 (108)
T KOG0544|consen 72 KAKLTISPDYAYGPRGHPGGIPPNATLVFDVELLKVN 108 (108)
T ss_pred cceeeeccccccCCCCCCCccCCCcEEEEEEEEEecC
Confidence 689999999999999987 599999999999999873
No 3
>KOG0549 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.53 E-value=1.8e-14 Score=82.84 Aligned_cols=39 Identities=44% Similarity=0.904 Sum_probs=36.0
Q ss_pred EEEEEeCCCCCcCCCCCCC-CCCCCeEEEEEEEEEeeeCC
Q 044418 2 QRLLIVPPELAYGSKGVQE-IPPNATIEIDVELLAIKQSP 40 (41)
Q Consensus 2 ~~~l~ip~~layg~~g~~~-ip~~s~lvf~iel~~~~~~~ 40 (41)
||+++|||+||||++|.++ ||++|+|+|||||+++.+.+
T Consensus 140 kRkl~IPp~LgYG~~G~~~~IP~~A~LiFdiELv~i~~~~ 179 (188)
T KOG0549|consen 140 KRKLIIPPHLGYGERGAPPKIPGDAVLIFDIELVKIERGP 179 (188)
T ss_pred ceEEecCccccCccCCCCCCCCCCeeEEEEEEEEEeecCC
Confidence 7899999999999999874 99999999999999998753
No 4
>KOG0552 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.47 E-value=8.7e-14 Score=81.77 Aligned_cols=35 Identities=63% Similarity=1.139 Sum_probs=33.8
Q ss_pred EEEEEeCCCCCcCCCCCCCCCCCCeEEEEEEEEEe
Q 044418 2 QRLLIVPPELAYGSKGVQEIPPNATIEIDVELLAI 36 (41)
Q Consensus 2 ~~~l~ip~~layg~~g~~~ip~~s~lvf~iel~~~ 36 (41)
+|+|+|||.+|||.+|.+.|||||+|+|||||+.+
T Consensus 191 kRrviIPp~lgYg~~g~~~IppnstL~fdVEL~~v 225 (226)
T KOG0552|consen 191 KRRVIIPPELGYGKKGVPEIPPNSTLVFDVELLSV 225 (226)
T ss_pred eeEEEeCccccccccCcCcCCCCCcEEEEEEEEec
Confidence 68999999999999999999999999999999986
No 5
>PRK11570 peptidyl-prolyl cis-trans isomerase; Provisional
Probab=99.32 E-value=2.6e-12 Score=74.23 Aligned_cols=36 Identities=47% Similarity=0.782 Sum_probs=33.6
Q ss_pred EEEEEeCCCCCcCCCCCC-CCCCCCeEEEEEEEEEee
Q 044418 2 QRLLIVPPELAYGSKGVQ-EIPPNATIEIDVELLAIK 37 (41)
Q Consensus 2 ~~~l~ip~~layg~~g~~-~ip~~s~lvf~iel~~~~ 37 (41)
+|+++||+++|||+.|.+ .||||++|+|+|||++|.
T Consensus 170 k~~~~IP~~lAYG~~g~~~~Ipp~s~Lif~veLl~i~ 206 (206)
T PRK11570 170 KWELTIPHELAYGERGAGASIPPFSTLVFEVELLEIL 206 (206)
T ss_pred EEEEEECHHHcCCCCCCCCCcCCCCeEEEEEEEEEEC
Confidence 799999999999999987 699999999999999973
No 6
>TIGR03516 ppisom_GldI peptidyl-prolyl isomerase, gliding motility-associated. Members of this protein family are exclusive to the Bacteroidetes phylum (previously Cytophaga-Flavobacteria-Bacteroides). GldI is a FKBP-type peptidyl-prolyl cis-trans isomerase (pfam00254) linked to a type of rapid surface gliding motility found in certain Bacteroidetes, such as Flavobacterium johnsoniae and Cytophaga hutchinsonii. Knockout of this gene abolishes the gliding phenotype. Gliding motility appears closely linked to chitin utilization in the model species Flavobacterium johnsoniae. This family is only found in Bacteroidetes containing the suite of genes proposed to confer the gliding motility phenotype.
Probab=99.32 E-value=2.3e-12 Score=73.10 Aligned_cols=37 Identities=41% Similarity=0.540 Sum_probs=34.1
Q ss_pred EEEEEeCCCCCcCCCCCC-CCCCCCeEEEEEEEEEeee
Q 044418 2 QRLLIVPPELAYGSKGVQ-EIPPNATIEIDVELLAIKQ 38 (41)
Q Consensus 2 ~~~l~ip~~layg~~g~~-~ip~~s~lvf~iel~~~~~ 38 (41)
+++++|||++|||..|.+ .||||++|+|+|||++|.+
T Consensus 140 ~~~~~iP~~~AYG~~g~~~~Ippns~L~f~IeL~~i~~ 177 (177)
T TIGR03516 140 TATFLFPSHKAYGYYGDQNKIGPNLPIISTVTLLNIKP 177 (177)
T ss_pred EEEEEECHHHcCCCCCCCCCcCcCCcEEEEEEEEEecC
Confidence 789999999999999986 6999999999999999863
No 7
>PRK10902 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional
Probab=99.16 E-value=9e-11 Score=70.13 Aligned_cols=39 Identities=54% Similarity=0.947 Sum_probs=35.9
Q ss_pred EEEEEeCCCCCcCCCCCCCCCCCCeEEEEEEEEEeeeCC
Q 044418 2 QRLLIVPPELAYGSKGVQEIPPNATIEIDVELLAIKQSP 40 (41)
Q Consensus 2 ~~~l~ip~~layg~~g~~~ip~~s~lvf~iel~~~~~~~ 40 (41)
+|+++||++++||++|.+.||||++|+|+|+|+++...+
T Consensus 214 k~~l~IP~~laYG~~g~~gIppns~LvfeVeLl~V~~~~ 252 (269)
T PRK10902 214 KIKLVIPPELAYGKAGVPGIPANSTLVFDVELLDVKPAP 252 (269)
T ss_pred EEEEEECchhhCCCCCCCCCCCCCcEEEEEEEEEeccCc
Confidence 689999999999999988899999999999999997643
No 8
>PF00254 FKBP_C: FKBP-type peptidyl-prolyl cis-trans isomerase; InterPro: IPR001179 Synonym(s): Peptidylprolyl cis-trans isomerase FKBP-type peptidylprolyl isomerases (5.2.1.8 from EC) in vertebrates, are receptors for the two immunosuppressants, FK506 and rapamycin. The drugs inhibit T cell proliferation by arresting two distinct cytoplasmic signal transmission pathways. Peptidylprolyl isomerases accelerate protein folding by catalysing the cis-trans isomerisation of proline imidic peptide bonds in oligopeptides. These proteins are found in a variety of organisms.; GO: 0006457 protein folding; PDB: 1IX5_A 3JXV_A 3JYM_A 1T11_A 1PBK_A 1FD9_A 2VCD_A 3B7X_A 1Q6H_B 1Q6I_B ....
Probab=99.07 E-value=2.5e-10 Score=57.78 Aligned_cols=33 Identities=58% Similarity=1.093 Sum_probs=30.3
Q ss_pred EEEEEeCCCCCcCCCCCC--CCCCCCeEEEEEEEE
Q 044418 2 QRLLIVPPELAYGSKGVQ--EIPPNATIEIDVELL 34 (41)
Q Consensus 2 ~~~l~ip~~layg~~g~~--~ip~~s~lvf~iel~ 34 (41)
+++++||+++|||+++.. .||++++|+|+|||+
T Consensus 60 ~~~~~vp~~~ayg~~~~~~~~ip~~~~l~f~Iell 94 (94)
T PF00254_consen 60 KREFYVPPELAYGEKGLEPPKIPPNSTLVFEIELL 94 (94)
T ss_dssp EEEEEEEGGGTTTTTTBCTTTBTTTSEEEEEEEEE
T ss_pred EeeeEeCChhhcCccccCCCCcCCCCeEEEEEEEC
Confidence 689999999999999874 499999999999996
No 9
>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.02 E-value=7.8e-10 Score=69.20 Aligned_cols=36 Identities=44% Similarity=0.737 Sum_probs=32.0
Q ss_pred EEEEEeCCCCCcCCCCC-C-CCCCCCeEEEEEEEEEee
Q 044418 2 QRLLIVPPELAYGSKGV-Q-EIPPNATIEIDVELLAIK 37 (41)
Q Consensus 2 ~~~l~ip~~layg~~g~-~-~ip~~s~lvf~iel~~~~ 37 (41)
++.|+|+|+||||+.|. + .||||++|.|+|||+++.
T Consensus 153 ~a~v~i~~~YayG~~~~~~p~IPPnA~l~yEVeL~~f~ 190 (397)
T KOG0543|consen 153 VALVTIDPKYAYGEEGGEPPLIPPNATLLYEVELLDFE 190 (397)
T ss_pred eEEEEeCcccccCCCCCCCCCCCCCceEEEEEEEEeee
Confidence 57899999999996654 3 599999999999999998
No 10
>KOG0549 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=92.54 E-value=0.21 Score=29.26 Aligned_cols=32 Identities=25% Similarity=0.605 Sum_probs=21.2
Q ss_pred EEEEEeCCCCCcCCCCCCCCCCCCeEEEEEEEEEe
Q 044418 2 QRLLIVPPELAYGSKGVQEIPPNATIEIDVELLAI 36 (41)
Q Consensus 2 ~~~l~ip~~layg~~g~~~ip~~s~lvf~iel~~~ 36 (41)
+++++|||+++||..+... -..++|.+.++.+
T Consensus 24 ~rkvv~pp~l~fg~~~~~~---~~~~~~~~~l~~~ 55 (188)
T KOG0549|consen 24 KRKVVIPPHLGFGEGGRGD---LNILVITILLVLL 55 (188)
T ss_pred cceeccCCccccccccccc---ccceEEEeeeeeh
Confidence 6899999999999655432 2235555555443
No 11
>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=92.22 E-value=0.11 Score=33.21 Aligned_cols=21 Identities=52% Similarity=0.832 Sum_probs=17.8
Q ss_pred CCCCCC-CCCCCCeEEEEEEEE
Q 044418 14 GSKGVQ-EIPPNATIEIDVELL 34 (41)
Q Consensus 14 g~~g~~-~ip~~s~lvf~iel~ 34 (41)
|+.+.+ .||++++|.|+|+|+
T Consensus 61 g~~~~pp~ip~~a~l~fe~el~ 82 (397)
T KOG0543|consen 61 GEAGSPPKIPSNATLLFEVELL 82 (397)
T ss_pred cccCCCCCCCCCcceeeeeccc
Confidence 666666 499999999999985
No 12
>PRK15095 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional
Probab=88.82 E-value=0.22 Score=27.76 Aligned_cols=15 Identities=27% Similarity=0.598 Sum_probs=13.5
Q ss_pred EEEEEeCCCCCcCCC
Q 044418 2 QRLLIVPPELAYGSK 16 (41)
Q Consensus 2 ~~~l~ip~~layg~~ 16 (41)
++++.|||+.|||+.
T Consensus 60 ~~~v~ipp~~ayG~~ 74 (156)
T PRK15095 60 KKTFSLEPEAAFGVP 74 (156)
T ss_pred EEEEEEChHHhcCCC
Confidence 688999999999976
No 13
>KOG3657 consensus Mitochondrial DNA polymerase gamma, catalytic subunit [Replication, recombination and repair]
Probab=80.47 E-value=2.4 Score=30.09 Aligned_cols=23 Identities=30% Similarity=0.605 Sum_probs=18.4
Q ss_pred CcCCCCCC---CCCCCCeEEEEEEEE
Q 044418 12 AYGSKGVQ---EIPPNATIEIDVELL 34 (41)
Q Consensus 12 ayg~~g~~---~ip~~s~lvf~iel~ 34 (41)
.|+.+|.+ .+|..+.|+||||++
T Consensus 168 kY~p~g~~~~V~~Pde~~lVFDVEvl 193 (1075)
T KOG3657|consen 168 KYPPEGPPVPVDYPDESILVFDVEVL 193 (1075)
T ss_pred ecCCCCCCcccCCCccceeEEEEEEE
Confidence 46666765 489999999999985
No 14
>PRK10737 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional
Probab=71.34 E-value=6.4 Score=22.94 Aligned_cols=16 Identities=25% Similarity=0.617 Sum_probs=12.1
Q ss_pred CCCeEEEEEEEEEeee
Q 044418 23 PNATIEIDVELLAIKQ 38 (41)
Q Consensus 23 ~~s~lvf~iel~~~~~ 38 (41)
++.+|.|+|+++++..
T Consensus 126 AG~~L~F~veV~~vr~ 141 (196)
T PRK10737 126 AGQNLKFNVEVVAIRE 141 (196)
T ss_pred CCCEEEEEEEEEEecc
Confidence 4467889999888854
No 15
>COG1047 SlpA FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]
Probab=68.55 E-value=8.6 Score=22.22 Aligned_cols=17 Identities=18% Similarity=0.567 Sum_probs=12.9
Q ss_pred CCCeEEEEEEEEEeeeC
Q 044418 23 PNATIEIDVELLAIKQS 39 (41)
Q Consensus 23 ~~s~lvf~iel~~~~~~ 39 (41)
++.+|.|+++++++...
T Consensus 127 AGktL~feveVv~v~~a 143 (174)
T COG1047 127 AGKTLHFEVEVVEVREA 143 (174)
T ss_pred CCCeEEEEEEEEEEecC
Confidence 45689999999887643
No 16
>TIGR00115 tig trigger factor. Trigger factor is a ribosome-associated molecular chaperone and is the first chaperone to interact with nascent polypeptide. Trigger factor can bind at the same time as the signal recognition particle (SRP), but is excluded by the SRP receptor (FtsY). The central domain of trigger factor has peptidyl-prolyl cis/trans isomerase activity. This protein is found in a single copy in virtually every bacterial genome.
Probab=67.09 E-value=24 Score=21.91 Aligned_cols=33 Identities=12% Similarity=0.146 Sum_probs=22.8
Q ss_pred EEEEeCCCCCcCCCCCCCCCCCCeEEEEEEEEEeeeC
Q 044418 3 RLLIVPPELAYGSKGVQEIPPNATIEIDVELLAIKQS 39 (41)
Q Consensus 3 ~~l~ip~~layg~~g~~~ip~~s~lvf~iel~~~~~~ 39 (41)
..+.++....|+... -+|.+..|+|++.++.+.
T Consensus 200 ~~~~v~~p~~~~~~~----~~gk~~~f~v~i~~I~~~ 232 (408)
T TIGR00115 200 KEIKVTFPEDYHAEE----LAGKEATFKVTVKEVKEK 232 (408)
T ss_pred eEEEecCccccCccc----CCCCeEEEEEEEEEeccC
Confidence 456666555565433 257899999999999753
No 17
>PF09465 LBR_tudor: Lamin-B receptor of TUDOR domain; InterPro: IPR019023 The Lamin-B receptor is a chromatin and lamin binding protein in the inner nuclear membrane. It is one of the integral inner nuclear envelope membrane proteins responsible for targeting nuclear membranes to chromatin, being a downstream effector of Ran, a small Ras-like nuclear GTPase which regulates NE assembly. Lamin-B receptor interacts with importin beta, a Ran-binding protein, thereby directly contributing to the fusion of membrane vesicles and the formation of the nuclear envelope []. ; PDB: 2L8D_A 2DIG_A.
Probab=66.91 E-value=11 Score=18.09 Aligned_cols=17 Identities=12% Similarity=0.346 Sum_probs=13.4
Q ss_pred CCCeEEEEEEEEEeeeC
Q 044418 23 PNATIEIDVELLAIKQS 39 (41)
Q Consensus 23 ~~s~lvf~iel~~~~~~ 39 (41)
|++.|.|+.+++++...
T Consensus 17 P~s~lYYe~kV~~~d~~ 33 (55)
T PF09465_consen 17 PGSSLYYEGKVLSYDSK 33 (55)
T ss_dssp TTTS-EEEEEEEEEETT
T ss_pred CCCCcEEEEEEEEeccc
Confidence 78999999999997643
No 18
>PF11386 VERL: Vitelline envelope receptor for lysin; InterPro: IPR021526 VERL, the egg vitelline envelope (VE) receptor for lysin, is a giant unbranched glycoprotein comprising 30% of the vitelline envelope. Lysin binds to VERL and creates a hole as VERL molecules lose cohesion and splay apart. These proteins are important in the mediation of fertilisation [].
Probab=52.67 E-value=31 Score=17.61 Aligned_cols=14 Identities=21% Similarity=0.551 Sum_probs=12.3
Q ss_pred CCCCCCeEE-EEEEE
Q 044418 20 EIPPNATIE-IDVEL 33 (41)
Q Consensus 20 ~ip~~s~lv-f~iel 33 (41)
.||.|++++ |.|.+
T Consensus 35 ~Vp~ndsv~~YnVT~ 49 (78)
T PF11386_consen 35 SVPKNDSVVLYNVTV 49 (78)
T ss_pred ccCCCCeEEEEEEEE
Confidence 599999999 98876
No 19
>PF02149 KA1: Kinase associated domain 1; InterPro: IPR001772 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases. Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. Eukaryotic protein kinases [, , , , ] are enzymes that belong to a very extensive family of proteins which share a conserved catalytic core common with both serine/threonine and tyrosine protein kinases. There are a number of conserved regions in the catalytic domain of protein kinases. In the N-terminal extremity of the catalytic domain there is a glycine-rich stretch of residues in the vicinity of a lysine residue, which has been shown to be involved in ATP binding. In the central part of the catalytic domain there is a conserved aspartic acid residue which is important for the catalytic activity of the enzyme []. Members of the KIN2/PAR-1/MARK kinase subfamily are conserved from yeast to human and share the same domain organisation: an N-terminal kinase domain (IPR000719 from INTERPRO) and a C-terminal kinase associated domain 1 (KA1). Some members of the KIN1/PAR-1/MARK family also contain an UBA domain (IPR000449 from INTERPRO). Members of this kinase subfamily are involved in various biological processes such as cell polarity, cell cycle control, intracellular signalling, microtubule stability and protein stability []. The function of the KA1 domain is not yet known. Some proteins known to contain a KA1 domain are listed below: Mammalian MAP/microtubule affinity-regulating kinases (MARK 1,2,3). They regulate polarity in neuronal cell models and appear to function redundantly in phosphorylating MT-associated proteins and in regulating MT stability []. Mammalian maternal embryonic leucine zipper kinase (MELK). It phosphorylates ZNF622 and may contribute to its redirection to the nucleus. It may be involved in the inhibition of spliceosome assembly during mitosis. Caenorhabditis elegans and drosophila PAR-1 protein. It is required for establishing polarity in embryos where it is asymmetrically distributed []. Fungal Kin1 and Kin2 protein kinases involved in regulation of exocytosis. They localise to the cytoplasmic face of the plasma membrane []. Plant KIN10 and KIN11 proteins, catalytic subunits of the putative trimeric SNF1-related protein kinase (SnRK) complex. This entry represents the KA1 domain.; GO: 0004674 protein serine/threonine kinase activity, 0005524 ATP binding, 0006468 protein phosphorylation; PDB: 3OSE_A 1V5S_A 1UL7_A.
Probab=51.95 E-value=24 Score=16.00 Aligned_cols=14 Identities=7% Similarity=0.420 Sum_probs=11.0
Q ss_pred CCeEEEEEEEEEee
Q 044418 24 NATIEIDVELLAIK 37 (41)
Q Consensus 24 ~s~lvf~iel~~~~ 37 (41)
++.+.||+|+..+.
T Consensus 2 ~~~v~fEieV~kl~ 15 (47)
T PF02149_consen 2 KEVVKFEIEVCKLP 15 (47)
T ss_dssp CC-EEEEEEEEEEC
T ss_pred CcceEEEEEEEEec
Confidence 57899999998776
No 20
>COG1523 PulA Type II secretory pathway, pullulanase PulA and related glycosidases [Carbohydrate transport and metabolism]
Probab=48.02 E-value=36 Score=23.52 Aligned_cols=19 Identities=21% Similarity=0.284 Sum_probs=16.8
Q ss_pred CCCCCCeEEEEEEEEEeee
Q 044418 20 EIPPNATIEIDVELLAIKQ 38 (41)
Q Consensus 20 ~ip~~s~lvf~iel~~~~~ 38 (41)
.+|...++|||+++.++.+
T Consensus 166 ~~p~~~~vIYE~HVr~fT~ 184 (697)
T COG1523 166 RIPWEDTVIYEAHVRDFTQ 184 (697)
T ss_pred CCCccceEEEEeeeccccc
Confidence 5899999999999999873
No 21
>cd01287 FabA FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA structure is a homodimer with two independent active sites located at the dimer interface. Each active site is tunnel-shaped and completely inaccessible to solvent. No metal ions or cofactors are required for ligand binding or catalysis.
Probab=45.56 E-value=36 Score=18.73 Aligned_cols=18 Identities=17% Similarity=0.416 Sum_probs=14.0
Q ss_pred CCCCCeEEEEEEEEEeee
Q 044418 21 IPPNATIEIDVELLAIKQ 38 (41)
Q Consensus 21 ip~~s~lvf~iel~~~~~ 38 (41)
.|.+++|.+++++.++..
T Consensus 100 ~Pgd~~l~~e~~i~~~~~ 117 (150)
T cd01287 100 TPHNKKVTYEVHIKEVGR 117 (150)
T ss_pred cCCCEEEEEEEEEEEEEc
Confidence 444559999999999863
No 22
>PF07657 MNNL: N terminus of Notch ligand; InterPro: IPR011651 This entry represents a region of conserved sequence at the N terminus of several Notch ligand proteins.; GO: 0007219 Notch signaling pathway, 0007275 multicellular organismal development, 0016021 integral to membrane
Probab=45.46 E-value=31 Score=17.37 Aligned_cols=12 Identities=8% Similarity=0.338 Sum_probs=9.9
Q ss_pred EEEEEEEEeeeC
Q 044418 28 EIDVELLAIKQS 39 (41)
Q Consensus 28 vf~iel~~~~~~ 39 (41)
+||++|.++...
T Consensus 4 ~FEL~l~sf~N~ 15 (77)
T PF07657_consen 4 VFELQLHSFQNP 15 (77)
T ss_pred EEEEEEEEEECC
Confidence 799999998753
No 23
>PRK05416 glmZ(sRNA)-inactivating NTPase; Provisional
Probab=44.88 E-value=17 Score=22.06 Aligned_cols=14 Identities=36% Similarity=0.608 Sum_probs=12.2
Q ss_pred CCCCCCeEEEEEEE
Q 044418 20 EIPPNATIEIDVEL 33 (41)
Q Consensus 20 ~ip~~s~lvf~iel 33 (41)
++|.++.++|||..
T Consensus 177 g~p~dad~vfDvR~ 190 (288)
T PRK05416 177 GIPLDADLVFDVRF 190 (288)
T ss_pred CCCCCCCEEEEeCc
Confidence 48999999999974
No 24
>cd02868 PseudoU_synth_hTruB2_like PseudoU_synth_ hTRUB2_Like: Pseudouridine synthase, humanTRUB2_like. This group consists of eukaryotic pseudouridine synthases similar to human TruB pseudouridine synthase homolog 2 (TRUB2). Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi).
Probab=42.45 E-value=21 Score=21.18 Aligned_cols=24 Identities=17% Similarity=0.344 Sum_probs=18.9
Q ss_pred CCCCC-CCCCCCeEEEEEEEEEeee
Q 044418 15 SKGVQ-EIPPNATIEIDVELLAIKQ 38 (41)
Q Consensus 15 ~~g~~-~ip~~s~lvf~iel~~~~~ 38 (41)
.+|.. ..++...-+|.++|++++.
T Consensus 137 R~G~~ve~~~r~v~I~~i~l~~~~~ 161 (226)
T cd02868 137 ARGLIRPADKSPPIIYGIRLLEFRP 161 (226)
T ss_pred HCCCccCCCCcceEEEEEEEEEecC
Confidence 34544 5889999999999998864
No 25
>COG1660 Predicted P-loop-containing kinase [General function prediction only]
Probab=40.79 E-value=25 Score=21.94 Aligned_cols=15 Identities=40% Similarity=0.649 Sum_probs=12.9
Q ss_pred CCCCCCeEEEEEEEE
Q 044418 20 EIPPNATIEIDVELL 34 (41)
Q Consensus 20 ~ip~~s~lvf~iel~ 34 (41)
+||-+|.|+|||..+
T Consensus 175 GiP~DADlVFDVRfL 189 (286)
T COG1660 175 GIPIDADLVFDVRFL 189 (286)
T ss_pred CCCCCcceEEEeccc
Confidence 699999999999754
No 26
>cd03446 MaoC_like MoaC_like Similar to the MaoC (monoamine oxidase C) dehydratase regulatory protein but without the N-terminal PutA domain. This protein family has a hot-dog fold similar to that of (R)-specific enoyl-CoA hydratase, the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit.
Probab=40.35 E-value=55 Score=16.83 Aligned_cols=19 Identities=16% Similarity=0.233 Sum_probs=16.5
Q ss_pred CCCCCCeEEEEEEEEEeee
Q 044418 20 EIPPNATIEIDVELLAIKQ 38 (41)
Q Consensus 20 ~ip~~s~lvf~iel~~~~~ 38 (41)
++.++++|..+.++++...
T Consensus 90 pv~~GD~l~~~~~v~~~~~ 108 (140)
T cd03446 90 PVFIGDTIRAEAEVVEKEE 108 (140)
T ss_pred CCCCCCEEEEEEEEEEecc
Confidence 5889999999999998753
No 27
>PF02806 Alpha-amylase_C: Alpha amylase, C-terminal all-beta domain; InterPro: IPR006048 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. Alpha-amylase is classified as family 13 of the glycosyl hydrolases and is present in archaea, bacteria, plants and animals. Alpha-amylase is an essential enzyme in alpha-glucan metabolism, acting to catalyse the hydrolysis of alpha-1,4-glucosidic bonds of glycogen, starch and related polysaccharides. Although all alpha-amylases possess the same catalytic function, they can vary with respect to sequence. In general, they are composed of three domains: a TIM barrel containing the active site residues and chloride ion-binding site (domain A), a long loop region inserted between the third beta strand and the alpha-helix of domain A that contains calcium-binding site(s) (domain B), and a C-terminal beta-sheet domain that appears to show some variability in sequence and length between amylases (domain C) []. Amylases have at least one conserved calcium-binding site, as calcium is essential for the stability of the enzyme. The chloride-binding functions to activate the enzyme, which acts by a two-step mechanism involving a catalytic nucleophile base (usually an Asp) and a catalytic proton donor (usually a Glu) that are responsible for the formation of the beta-linked glycosyl-enzyme intermediate. This entry represents the all-beta domain that is found in several alpha-amylases, usually at the C terminus, and which forms a Greek key beta-barrel fold in these enzymes []. More information about this protein can be found at Protein of the Month: alpha-Amylase [].; GO: 0003824 catalytic activity, 0043169 cation binding, 0005975 carbohydrate metabolic process; PDB: 1TCM_A 1CXL_A 1PJ9_A 1OT2_A 2DIJ_A 1CGV_A 1CXK_A 1PEZ_A 1CGX_A 2CXG_A ....
Probab=38.76 E-value=22 Score=17.35 Aligned_cols=13 Identities=15% Similarity=0.652 Sum_probs=10.7
Q ss_pred CCCCCCeEEEEEE
Q 044418 20 EIPPNATIEIDVE 32 (41)
Q Consensus 20 ~ip~~s~lvf~ie 32 (41)
.|||.+.++|.+.
T Consensus 82 ~lp~~s~~vl~~~ 94 (95)
T PF02806_consen 82 TLPPYSALVLKLK 94 (95)
T ss_dssp EESTTEEEEEEEE
T ss_pred EECCCEEEEEEEc
Confidence 3899999999874
No 28
>KOG1535 consensus Predicted fumarylacetoacetate hydralase [General function prediction only]
Probab=37.00 E-value=47 Score=20.00 Aligned_cols=31 Identities=26% Similarity=0.474 Sum_probs=22.7
Q ss_pred EEEeCCCCCcCCCCCC-CCCCCCe-EEEEEEEE
Q 044418 4 LLIVPPELAYGSKGVQ-EIPPNAT-IEIDVELL 34 (41)
Q Consensus 4 ~l~ip~~layg~~g~~-~ip~~s~-lvf~iel~ 34 (41)
.+++-+..+|-..|.+ .+|+++. |-+||||-
T Consensus 38 ~~FlKptss~v~~g~~i~~p~~~~~lh~EvEL~ 70 (217)
T KOG1535|consen 38 FFFLKPTSSIVGPGGPIVIPPGSKGLHHEVELA 70 (217)
T ss_pred eEEeecchhhcCCCCceEcCCCcCccceeEEEE
Confidence 4666677778777655 3777766 99999974
No 29
>PF11906 DUF3426: Protein of unknown function (DUF3426); InterPro: IPR021834 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 262 to 463 amino acids in length.
Probab=36.20 E-value=61 Score=17.20 Aligned_cols=18 Identities=17% Similarity=0.421 Sum_probs=14.8
Q ss_pred CCCCCCCeEEEEEEEEEe
Q 044418 19 QEIPPNATIEIDVELLAI 36 (41)
Q Consensus 19 ~~ip~~s~lvf~iel~~~ 36 (41)
..+||+++..|.+.+.+-
T Consensus 120 ~~l~pg~~~~~~~~~~~p 137 (149)
T PF11906_consen 120 AGLPPGESVPFRLRLEDP 137 (149)
T ss_pred cccCCCCeEEEEEEeeCC
Confidence 369999999999987654
No 30
>PF06483 ChiC: Chitinase C; InterPro: IPR009470 This ~170 aa region is found at the C-terminal to the catalytic domain (IPR001223 from INTERPRO) found in members of glycoside hydrolase family 18.
Probab=34.38 E-value=29 Score=20.30 Aligned_cols=14 Identities=36% Similarity=0.529 Sum_probs=11.4
Q ss_pred CCCCCCCeEEEEEE
Q 044418 19 QEIPPNATIEIDVE 32 (41)
Q Consensus 19 ~~ip~~s~lvf~ie 32 (41)
..||.++.+.||+-
T Consensus 66 ~~iPGGt~~~FD~p 79 (180)
T PF06483_consen 66 QTIPGGTEFEFDYP 79 (180)
T ss_pred cccCCccEEEEccc
Confidence 45899999999874
No 31
>PF10633 NPCBM_assoc: NPCBM-associated, NEW3 domain of alpha-galactosidase; InterPro: IPR018905 This domain has been named NEW3, but its function is not known. It is found on proteins which are bacterial galactosidases [].; PDB: 1EUT_A 2BZD_A 1WCQ_C 2BER_A 1W8O_A 1EUU_A 1W8N_A.
Probab=33.75 E-value=55 Score=15.56 Aligned_cols=31 Identities=16% Similarity=0.395 Sum_probs=15.1
Q ss_pred EEEeCCCCC--cCCCCCCCCCCCCeEEEEEEEE
Q 044418 4 LLIVPPELA--YGSKGVQEIPPNATIEIDVELL 34 (41)
Q Consensus 4 ~l~ip~~la--yg~~g~~~ip~~s~lvf~iel~ 34 (41)
.+-.|..+. .+......++|+++..+++++.
T Consensus 27 ~l~~P~GW~~~~~~~~~~~l~pG~s~~~~~~V~ 59 (78)
T PF10633_consen 27 SLSLPEGWTVSASPASVPSLPPGESVTVTFTVT 59 (78)
T ss_dssp EEE--TTSE---EEEEE--B-TTSEEEEEEEEE
T ss_pred EEeCCCCccccCCccccccCCCCCEEEEEEEEE
Confidence 445566665 2222223688998877777663
No 32
>PF08924 DUF1906: Domain of unknown function (DUF1906); InterPro: IPR015020 This entry represents a family of uncharacterised hypothetical bacterial proteins. ; PDB: 1SFS_A.
Probab=32.10 E-value=36 Score=18.43 Aligned_cols=13 Identities=23% Similarity=0.445 Sum_probs=7.4
Q ss_pred CCCCCCeEEEEEE
Q 044418 20 EIPPNATIEIDVE 32 (41)
Q Consensus 20 ~ip~~s~lvf~ie 32 (41)
.+|+++++.|+||
T Consensus 90 G~p~gt~IYfavD 102 (136)
T PF08924_consen 90 GFPAGTPIYFAVD 102 (136)
T ss_dssp T--SS-EEEEE--
T ss_pred CCCCCCEEEEEee
Confidence 5899999999999
No 33
>PF14702 hGDE_central: central domain of human glycogen debranching enzyme
Probab=31.61 E-value=44 Score=20.16 Aligned_cols=17 Identities=12% Similarity=0.345 Sum_probs=14.3
Q ss_pred CCCCCCeEEEEEEEEEe
Q 044418 20 EIPPNATIEIDVELLAI 36 (41)
Q Consensus 20 ~ip~~s~lvf~iel~~~ 36 (41)
..||+|.++|++++.+.
T Consensus 138 ~FppGSi~vf~t~~~~~ 154 (260)
T PF14702_consen 138 NFPPGSIAVFETSIPGE 154 (260)
T ss_pred CCCCccEEEEEEecCHH
Confidence 48999999999987654
No 34
>PF03668 ATP_bind_2: P-loop ATPase protein family; InterPro: IPR005337 This entry represents UPF0042 nucleotide-binding proteins. This is a family of putative P-loop ATPases [], as they contain an ATP-binding site and display ATPase and GTPase activities.; GO: 0005524 ATP binding
Probab=31.09 E-value=35 Score=21.12 Aligned_cols=14 Identities=43% Similarity=0.842 Sum_probs=12.2
Q ss_pred CCCCCCeEEEEEEE
Q 044418 20 EIPPNATIEIDVEL 33 (41)
Q Consensus 20 ~ip~~s~lvf~iel 33 (41)
++|.++.++|||..
T Consensus 174 GiP~dAD~VfDvRf 187 (284)
T PF03668_consen 174 GIPPDADLVFDVRF 187 (284)
T ss_pred CCCCCCCEEEEcCc
Confidence 58999999999964
No 35
>cd03451 FkbR2 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. The function of FkbR2 is unknown.
Probab=30.81 E-value=85 Score=16.21 Aligned_cols=19 Identities=16% Similarity=0.249 Sum_probs=16.5
Q ss_pred CCCCCCeEEEEEEEEEeee
Q 044418 20 EIPPNATIEIDVELLAIKQ 38 (41)
Q Consensus 20 ~ip~~s~lvf~iel~~~~~ 38 (41)
++.++++|.++.++++...
T Consensus 91 pv~~GDtl~~~~~v~~~~~ 109 (146)
T cd03451 91 PVFHGDTLYAESEVLSKRE 109 (146)
T ss_pred CCCCCCEEEEEEEEEEEec
Confidence 5889999999999998763
No 36
>PF01509 TruB_N: TruB family pseudouridylate synthase (N terminal domain); InterPro: IPR002501 Pseudouridine synthases catalyse the isomerisation of uridine to pseudouridine (Psi) in a variety of RNA molecules, and may function as RNA chaperones. Pseudouridine is the most abundant modified nucleotide found in all cellular RNAs. There are four distinct families of pseudouridine synthases that share no global sequence similarity, but which do share the same fold of their catalytic domain(s) and uracil-binding site and are descended from a common molecular ancestor. The catalytic domain consists of two subdomains, each of which has an alpha+beta structure that has some similarity to the ferredoxin-like fold (note: some pseudouridine synthases contain additional domains). The active site is the most conserved structural region of the superfamily and is located between the two homologous domains. These families are []: Pseudouridine synthase I, TruA. Pseudouridine synthase II, TruB, which contains and additional C-terminal PUA domain. Pseudouridine synthase RsuA (ribosomal small subunit) and RluC/RluD (ribosomal large subunits), both of which contain an additional N-terminal alpha-L RNA-binding motif. Pseudouridine synthase TruD, which has a natural circular permutation in the catalytic domain, as well as an insertion of a family-specific alpha+beta subdomain. TruB is responsible for the pseudouridine residue present in the T loops of virtually all tRNAs. TruB recognises the preformed 3-D structure of the T loop primarily through shape complementarity. It accesses its substrate uridyl residue by flipping out the nucleotide and disrupts the tertiary structure of tRNA []. This entry represents pseudouridine synthase TruB, as well as Cbf5p that modifies rRNA [].; GO: 0006396 RNA processing; PDB: 1SGV_B 2AUS_C 3UAI_A 3U28_A 2RFK_A 3LWV_A 3HJY_A 3HAX_A 3LWO_A 3HAY_A ....
Probab=30.56 E-value=38 Score=18.75 Aligned_cols=24 Identities=33% Similarity=0.641 Sum_probs=17.5
Q ss_pred CCCC-CCCCCCeEEEEEEEEEeeeC
Q 044418 16 KGVQ-EIPPNATIEIDVELLAIKQS 39 (41)
Q Consensus 16 ~g~~-~ip~~s~lvf~iel~~~~~~ 39 (41)
+|.. .+++....+|+++++++...
T Consensus 111 ~G~~v~~~~r~v~I~~i~l~~~~~~ 135 (149)
T PF01509_consen 111 KGEEVELPPRPVTIYSIELLSFNPP 135 (149)
T ss_dssp TTSSTSSS-EEEEEEEEEEEEEETT
T ss_pred CCCccCCCCeeEEEEEEEEEEEcCC
Confidence 3443 47888899999999998754
No 37
>PRK03705 glycogen debranching enzyme; Provisional
Probab=28.84 E-value=95 Score=21.17 Aligned_cols=20 Identities=10% Similarity=0.175 Sum_probs=15.9
Q ss_pred CCCCCCCeEEEEEEEEEeee
Q 044418 19 QEIPPNATIEIDVELLAIKQ 38 (41)
Q Consensus 19 ~~ip~~s~lvf~iel~~~~~ 38 (41)
+.+|....++||+++-++..
T Consensus 144 p~~~~~~~vIYE~hvr~ft~ 163 (658)
T PRK03705 144 PRTPWGSTVIYEAHVRGLTY 163 (658)
T ss_pred CCCCccccEEEEEehhhhcc
Confidence 34677889999999988764
No 38
>PF11444 DUF2895: Protein of unknown function (DUF2895); InterPro: IPR021548 This is a bacterial family of uncharacterised proteins.
Probab=28.15 E-value=32 Score=20.31 Aligned_cols=25 Identities=32% Similarity=0.570 Sum_probs=18.0
Q ss_pred EEEEEeCCCCCcCCCCC-CCCCCCCe
Q 044418 2 QRLLIVPPELAYGSKGV-QEIPPNAT 26 (41)
Q Consensus 2 ~~~l~ip~~layg~~g~-~~ip~~s~ 26 (41)
+.++.+||++..|+.-. ..||+.+.
T Consensus 38 ~ltih~PPDLrsGstr~~~eVP~~~V 63 (199)
T PF11444_consen 38 RLTIHNPPDLRSGSTRKWWEVPPETV 63 (199)
T ss_pred ceEEECCCccCCCceeEcccCChHHH
Confidence 45789999999987543 35887553
No 39
>PF03061 4HBT: Thioesterase superfamily; InterPro: IPR006683 This family contains a wide variety of enzymes, principally thioesterases. This family includes 4HBT (3.1.2.23 from EC) which catalyses the final step in the biosynthesis of 4-hydroxybenzoate from 4-chlorobenzoate in the soil dwelling microbe Pseudomonas CBS-3. This family includes various cytosolic long-chain acyl-CoA thioester hydrolases. Long-chain acyl-CoA hydrolases hydrolyse palmitoyl-CoA to CoA and palmitate, they also catalyse the hydrolysis of other long chain fatty acyl-CoA thioesters. ; PDB: 3F5O_F 2F0X_D 2H4U_C 2PRX_A 2OV9_D 1YLI_B 3BJK_F 1IXL_A 3DKZ_B 2EIS_B ....
Probab=27.23 E-value=73 Score=14.28 Aligned_cols=20 Identities=10% Similarity=0.468 Sum_probs=15.4
Q ss_pred CCCCCCeEEEEEEEEEeeeC
Q 044418 20 EIPPNATIEIDVELLAIKQS 39 (41)
Q Consensus 20 ~ip~~s~lvf~iel~~~~~~ 39 (41)
+++.++.+..+.++..+.+.
T Consensus 43 p~~~gd~l~~~~~v~~~g~~ 62 (79)
T PF03061_consen 43 PVRPGDTLRVEARVVRVGRK 62 (79)
T ss_dssp -BBTTSEEEEEEEEEEEESS
T ss_pred ccCCCeEEEEEEEEEEECCE
Confidence 46788899999998887654
No 40
>cd03454 YdeM YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit.
Probab=26.57 E-value=1e+02 Score=15.87 Aligned_cols=19 Identities=26% Similarity=0.590 Sum_probs=16.8
Q ss_pred CCCCCCeEEEEEEEEEeee
Q 044418 20 EIPPNATIEIDVELLAIKQ 38 (41)
Q Consensus 20 ~ip~~s~lvf~iel~~~~~ 38 (41)
++.++.+|..++++.++..
T Consensus 88 pv~~Gd~l~~~~~v~~~~~ 106 (140)
T cd03454 88 PVRPGDTLSVEVEVLDKRP 106 (140)
T ss_pred CCCCCCEEEEEEEEEEEee
Confidence 5889999999999998864
No 41
>TIGR02402 trehalose_TreZ malto-oligosyltrehalose trehalohydrolase. Members of this family are the trehalose biosynthetic enzyme malto-oligosyltrehalose trehalohydrolase, formally known as 4-alpha-D-{(1-4)-alpha-D-glucano}trehalose trehalohydrolase (EC 3.2.1.141). It is the TreZ protein of the TreYZ pathway for trehalose biosynthesis, and alternative to the OtsAB system.
Probab=26.27 E-value=1.1e+02 Score=20.20 Aligned_cols=33 Identities=12% Similarity=0.286 Sum_probs=20.4
Q ss_pred EEeCCCCCcCCCCCCCCCCCCeEEEEEEEEEee
Q 044418 5 LIVPPELAYGSKGVQEIPPNATIEIDVELLAIK 37 (41)
Q Consensus 5 l~ip~~layg~~g~~~ip~~s~lvf~iel~~~~ 37 (41)
++.|..+.+...+....|....++||+.+-++.
T Consensus 73 V~d~~~~~w~~~~~~~~~~~~~viYE~hv~~f~ 105 (542)
T TIGR02402 73 VVDPDRYAWQDTGWRGRPLEEAVIYELHVGTFT 105 (542)
T ss_pred EecCcccCCCCccccCCCccccEEEEEEhhhcC
Confidence 333443334333334467788999999987764
No 42
>cd03452 MaoC_C MaoC_C The C-terminal hot dog fold of the MaoC (monoamine oxidase C) dehydratase regulatory protein. Orthologs of MaoC include PaaZ [Escherichia coli] and PaaN [Pseudomonas putida], which are putative ring-opening enzymes involved in phenylacetic acid degradation. The C-terminal domain of MaoC has sequence similarity to (R)-specific enoyl-CoA hydratase,Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. MaoC also has an N-terminal PutA domain like that found in the E. coli PutA proline dehydrogenase and other members of the aldehyde dehydrogenase family.
Probab=26.04 E-value=1.1e+02 Score=16.09 Aligned_cols=18 Identities=17% Similarity=0.215 Sum_probs=16.0
Q ss_pred CCCCCCeEEEEEEEEEee
Q 044418 20 EIPPNATIEIDVELLAIK 37 (41)
Q Consensus 20 ~ip~~s~lvf~iel~~~~ 37 (41)
++.++++|..+.++++..
T Consensus 88 PV~~GDtl~~~~~V~~~~ 105 (142)
T cd03452 88 PVYPGDTIQVRLTCKRKI 105 (142)
T ss_pred CCCCCCEEEEEEEEEEEe
Confidence 588999999999999885
No 43
>PF13128 DUF3954: Protein of unknown function (DUF3954)
Probab=26.01 E-value=60 Score=15.24 Aligned_cols=14 Identities=36% Similarity=0.717 Sum_probs=10.1
Q ss_pred EEEeCCCCCcCCCC
Q 044418 4 LLIVPPELAYGSKG 17 (41)
Q Consensus 4 ~l~ip~~layg~~g 17 (41)
.++=||..+||+.-
T Consensus 21 ~~i~pP~sGfGeq~ 34 (50)
T PF13128_consen 21 TFIEPPESGFGEQV 34 (50)
T ss_pred EEcCCCCCCcceEE
Confidence 34449999999853
No 44
>PRK13692 (3R)-hydroxyacyl-ACP dehydratase subunit HadA; Provisional
Probab=25.31 E-value=1.3e+02 Score=16.53 Aligned_cols=19 Identities=16% Similarity=0.230 Sum_probs=16.1
Q ss_pred CCCCCCeEEEEEEEEEeee
Q 044418 20 EIPPNATIEIDVELLAIKQ 38 (41)
Q Consensus 20 ~ip~~s~lvf~iel~~~~~ 38 (41)
++-++.+|..++++++.+.
T Consensus 96 PV~~GDtL~~~~eV~~~~~ 114 (159)
T PRK13692 96 PIVAGDKLYCDVYVDSVRE 114 (159)
T ss_pred CccCCCEEEEEEEEEEEEE
Confidence 5789999999999988754
No 45
>PF12735 Trs65: TRAPP trafficking subunit Trs65; InterPro: IPR024662 This family is one of the subunits of the TRAPP Golgi trafficking complex []. TRAPP subunits are found in two different sized complexes, TRAPP I and TRAPP II. While both complexes contain the same seven subunits, Bet3p, Bet5p, Trs20p, Trs23p, Trs31p, Trs33p and Trs85p, with TRAPPC human equivalents, TRAPP II has the additional three subunits ,Trs65p, Trs120p and Trs130p []. While it has been implicated in cell wall biogenesis and stress response, the role of Trs65 in TRAPP II is supported by the findings that the protein co-localises with Trs130p, and deletion of TRS65 in yeast leads to a conditional lethal phenotype if either one of the other TRAPP II-specific subunits is modified []. Furthermore, the trs65 mutant has reduced Ypt31/32p guanine nucleotide exchange, GEF, activity []. Trs65 is also known as killer toxin-resistance protein 11.
Probab=25.24 E-value=1.2e+02 Score=18.54 Aligned_cols=21 Identities=14% Similarity=0.466 Sum_probs=17.8
Q ss_pred CCCCCCCeEEEEEEEEEeeeC
Q 044418 19 QEIPPNATIEIDVELLAIKQS 39 (41)
Q Consensus 19 ~~ip~~s~lvf~iel~~~~~~ 39 (41)
|.+.|+++...+++++.+..+
T Consensus 258 GpL~P~~c~~~eL~fi~l~~G 278 (306)
T PF12735_consen 258 GPLAPGACYSVELRFIALSPG 278 (306)
T ss_pred cccCCCceEEEEEEEEEeccc
Confidence 457899999999999988764
No 46
>COG3212 Predicted membrane protein [Function unknown]
Probab=24.94 E-value=97 Score=17.17 Aligned_cols=13 Identities=23% Similarity=0.450 Sum_probs=10.6
Q ss_pred CCCeEEEEEEEEE
Q 044418 23 PNATIEIDVELLA 35 (41)
Q Consensus 23 ~~s~lvf~iel~~ 35 (41)
.|..++|+|++..
T Consensus 108 ~~g~~vYevei~~ 120 (144)
T COG3212 108 DNGRLVYEVEIVK 120 (144)
T ss_pred cCCEEEEEEEEEe
Confidence 4678999999875
No 47
>COG2091 Sfp Phosphopantetheinyl transferase [Coenzyme metabolism]
Probab=24.67 E-value=58 Score=19.27 Aligned_cols=23 Identities=17% Similarity=0.629 Sum_probs=16.9
Q ss_pred CCCCcCCCCCCCCCCCCeEEEEE
Q 044418 9 PELAYGSKGVQEIPPNATIEIDV 31 (41)
Q Consensus 9 ~~layg~~g~~~ip~~s~lvf~i 31 (41)
.+..||+.|.+.++.+..+.|.|
T Consensus 66 ~~~~~~~~GKP~~~~~~~~~Fni 88 (223)
T COG2091 66 LQISYGERGKPYLPDENLLDFNI 88 (223)
T ss_pred ceeeECCCCCccccCCCCCcEEE
Confidence 35678899988887777666655
No 48
>cd01288 FabZ FabZ is a 17kD beta-hydroxyacyl-acyl carrier protein (ACP) dehydratase that primarily catalyzes the dehydration of beta-hydroxyacyl-ACP to trans-2-acyl-ACP, the third step in the elongation phase of the bacterial/ plastid, type II, fatty-acid biosynthesis pathway.
Probab=24.66 E-value=1.1e+02 Score=15.37 Aligned_cols=18 Identities=28% Similarity=0.634 Sum_probs=14.8
Q ss_pred CCCCCCeEEEEEEEEEee
Q 044418 20 EIPPNATIEIDVELLAIK 37 (41)
Q Consensus 20 ~ip~~s~lvf~iel~~~~ 37 (41)
.+.++++|..+++++...
T Consensus 87 pv~pgd~l~i~~~v~~~~ 104 (131)
T cd01288 87 PVVPGDQLILEVELLKLR 104 (131)
T ss_pred ccCCCCEEEEEEEEEEee
Confidence 477899999999988654
No 49
>PF12690 BsuPI: Intracellular proteinase inhibitor; InterPro: IPR020481 BsuPI is a intracellular proteinase inhibitor that directly regulates the major intracellular proteinase (ISP-1) activity in vivo. It inhibits ISP-1 in the early stages of sporulation and then may be inactivated by a membrane-bound proteinase [].; PDB: 3ISY_A.
Probab=24.36 E-value=74 Score=15.79 Aligned_cols=14 Identities=7% Similarity=0.235 Sum_probs=10.3
Q ss_pred CCCCCeEEEEEEEE
Q 044418 21 IPPNATIEIDVELL 34 (41)
Q Consensus 21 ip~~s~lvf~iel~ 34 (41)
++||..+.|+.++-
T Consensus 56 l~pGe~~~~~~~~~ 69 (82)
T PF12690_consen 56 LEPGESLTYEETWD 69 (82)
T ss_dssp E-TT-EEEEEEEES
T ss_pred ECCCCEEEEEEEEC
Confidence 79999999998863
No 50
>PF11889 DUF3409: Domain of unknown function (DUF3409); InterPro: IPR021824 This domain is functionally uncharacterised. This domain is found in viruses. This presumed domain is about 60 amino acids in length. This domain is found associated with PF00271 from PFAM, PF05550 from PFAM, PF05578 from PFAM. ; GO: 0003968 RNA-directed RNA polymerase activity, 0004197 cysteine-type endopeptidase activity, 0004252 serine-type endopeptidase activity, 0016817 hydrolase activity, acting on acid anhydrides, 0017111 nucleoside-triphosphatase activity, 0070008 serine-type exopeptidase activity
Probab=23.92 E-value=66 Score=15.43 Aligned_cols=10 Identities=60% Similarity=1.002 Sum_probs=8.1
Q ss_pred CCCCCeEEEE
Q 044418 21 IPPNATIEID 30 (41)
Q Consensus 21 ip~~s~lvf~ 30 (41)
-||+++++.+
T Consensus 34 kPPdativv~ 43 (56)
T PF11889_consen 34 KPPDATIVVD 43 (56)
T ss_pred CCCCceEEEe
Confidence 6899998865
No 51
>PRK04424 fatty acid biosynthesis transcriptional regulator; Provisional
Probab=23.57 E-value=1.5e+02 Score=16.68 Aligned_cols=19 Identities=11% Similarity=0.135 Sum_probs=15.8
Q ss_pred CCCCCCeEEEEEEEEEeee
Q 044418 20 EIPPNATIEIDVELLAIKQ 38 (41)
Q Consensus 20 ~ip~~s~lvf~iel~~~~~ 38 (41)
++.||++|.+++++++...
T Consensus 138 PV~pGD~L~~ea~v~~~~~ 156 (185)
T PRK04424 138 PVKLGERVVAKAEVVRKKG 156 (185)
T ss_pred CCCCCCEEEEEEEEEEccC
Confidence 5789999999999987553
No 52
>cd00506 PseudoU_synth_TruB_like PseudoU_synth_TruB: Pseudouridine synthase, TruB family. This group consists of eukaryotic, bacterial and archeal pseudouridine synthases similar to Escherichia coli TruB, Saccharomyces cerevisiae Pus4, M. tuberculosis TruB, S. cerevisiae Cbf5 and human dyskerin. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactors are required. E. coli TruB, M. tuberculosis TruB and S. cerevisiae Pus4, make psi55 in the T loop of tRNAs. Pus4 catalyses the formation of psi55 in both cytoplasmic and mitochondrial tRNAs. Psi55 is almost universally conserved. S. cerevisiae Cbf5 and human dyskerin are nucleolar proteins that, with the help of guide RNAs, make the hundreds of psueudouridnes present in rRNA and small nuclear RNAs (snRNAs). Cbf5/Dyskerin is the catalytic subunit of eukaryotic box H/ACA small nucleolar ribonucleoprotein (snoRNP) particles. Mutations in human dysker
Probab=23.01 E-value=1e+02 Score=18.13 Aligned_cols=25 Identities=4% Similarity=0.082 Sum_probs=19.1
Q ss_pred CCCCCC-CCCCCCeEEEEEEEEEeee
Q 044418 14 GSKGVQ-EIPPNATIEIDVELLAIKQ 38 (41)
Q Consensus 14 g~~g~~-~ip~~s~lvf~iel~~~~~ 38 (41)
..+|.. .+++....+|+++++++..
T Consensus 129 AR~G~~v~~~~r~v~I~~i~ll~~~~ 154 (210)
T cd00506 129 ARRGLLVPDEARPPTIYELLCIRFNP 154 (210)
T ss_pred HHCCCccccCcEeEEEEEEEEEEEcC
Confidence 344544 4788999999999998864
No 53
>TIGR00431 TruB tRNA pseudouridine 55 synthase. TruB, the tRNA pseudouridine 55 synthase, converts uracil to pseudouridine in the T loop (not the anticodon loop - beware mis-annotation in Swiss-Prot) of most tRNAs of all three domains of life. This model is built on a seed alignment of bacterial proteins only. Saccharomyces cerevisiae protein YNL292w (Pus4) has been shown to be the pseudouridine 55 synthase of both cytosolic and mitochondrial compartments, active at no other position on tRNA and the only enzyme active at that position in the species. A distinct yeast protein YLR175w, (centromere/microtubule-binding protein CBF5) is an rRNA pseudouridine synthase, and the archaeal set is much more similar to CBF5 than to Pus4. It is unclear whether the archaeal proteins found by this model are tRNA pseudouridine 55 synthases like TruB, rRNA pseudouridine synthases like CBF5, or (as suggested by the absence of paralogs in the Archaea) both. CBF5 likely has additional, eukaryotic-specific
Probab=22.53 E-value=1e+02 Score=18.14 Aligned_cols=23 Identities=17% Similarity=0.356 Sum_probs=17.7
Q ss_pred CCCC-CCCCCCeEEEEEEEEEeee
Q 044418 16 KGVQ-EIPPNATIEIDVELLAIKQ 38 (41)
Q Consensus 16 ~g~~-~ip~~s~lvf~iel~~~~~ 38 (41)
+|.. .+++....+|.+++++++.
T Consensus 132 ~g~~v~~~~r~v~I~~i~ll~~~~ 155 (209)
T TIGR00431 132 QGIEVERKARPVTVYDLQFLKYEG 155 (209)
T ss_pred CCCccccCcceeEEEEEEEEEEcC
Confidence 3444 4788889999999998853
No 54
>PF10714 LEA_6: Late embryogenesis abundant protein 18; InterPro: IPR018930 This is a family of late embryogenesis-abundant proteins There is high accumulation of this protein in dry seeds, and in the roots of full-grown plants in response to dehydration and ABA (abscisic acid application) treatments []. This LEA protein disappears after germination. It accumulates in growing regions of well irrigated hypocotyls and meristems suggesting a role in seedling growth resumption on rehydration []. As a group the LEA proteins are highly hydrophilic, contain a high percentage of glycine residues, lack Cys and Trp residues and do not coagulate upon exposure to high temperature, and for these reasons are considered to be members of a group of proteins called hydrophilins []. Expression of the protein is negatively regulated during etiolating growth, particularly in roots, in contrast to its expression patterns during normal growth [].
Probab=22.53 E-value=63 Score=16.53 Aligned_cols=9 Identities=44% Similarity=0.844 Sum_probs=6.6
Q ss_pred CCcCCCCCC
Q 044418 11 LAYGSKGVQ 19 (41)
Q Consensus 11 layg~~g~~ 19 (41)
-|||.+|+.
T Consensus 32 ~gYGt~GH~ 40 (79)
T PF10714_consen 32 KGYGTEGHQ 40 (79)
T ss_pred hcccccccc
Confidence 478888874
No 55
>PF07977 FabA: FabA-like domain; InterPro: IPR013114 Fatty acids biosynthesis occurs by two distinct pathways: in fungi, mammals and mycobacteria, type I or associative fatty-acid biosynthesis (type I FAS) is accomplished by multifunctional proteins in which distinct domains catalyse specific reactions; in plants and most bacteria, type II or dissociative fatty-acid biosynthesis (type II FAS) is accomplished by distinct enzymes []. Both FabZ and FabA catalyse the dehydration of beta-hydroxyacyl acyl carrier protein (ACP) to trans 2-enoyl ACP. However, FabZ and FabA display subtle differences in substrate specificities, whereby FabA is most effective on acyl ACPs of 9-11 carbon atoms in length, while FabZ is less specific. Unlike FabA, FabZ does not function as an isomerase and cannot initiate unsaturated fatty acid biosynthesis. However, only FabZ can act during the elongation of unsaturated fatty acid chains. This enzyme domain has a HotDog fold.; PDB: 3D6X_F 2GLV_J 2GLM_E 2GLP_E 2GLL_C 1U1Z_F 3ESI_A 3AZB_T 3AZA_M 3AZ9_U ....
Probab=22.27 E-value=1e+02 Score=16.10 Aligned_cols=17 Identities=35% Similarity=0.606 Sum_probs=13.0
Q ss_pred CCCCCC-eEEEEEEEEEe
Q 044418 20 EIPPNA-TIEIDVELLAI 36 (41)
Q Consensus 20 ~ip~~s-~lvf~iel~~~ 36 (41)
.+.|++ +|.+++++.++
T Consensus 96 ~v~Pg~~~l~~~v~i~~~ 113 (138)
T PF07977_consen 96 PVYPGDKTLRIEVEIKKI 113 (138)
T ss_dssp -B-TTE-EEEEEEEEEEE
T ss_pred cEeCCCcEEEEEEEEEEe
Confidence 477788 99999999884
No 56
>cd06418 GH25_BacA-like BacA is a bacterial lysin from Enterococcus faecalis that degrades bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues. BacA is homologous to the YbfG and YkuG lysins of Bacillus subtilis. BacA has a C-terminal catalytic glycosyl hydrolase family 25 (GH25) domain and an N-terminal peptidoglycan-binding domain comprised of three alpha helices which is similar to a domain found in matrixins.
Probab=22.20 E-value=99 Score=17.97 Aligned_cols=14 Identities=29% Similarity=0.617 Sum_probs=12.4
Q ss_pred CCCCCCeEEEEEEE
Q 044418 20 EIPPNATIEIDVEL 33 (41)
Q Consensus 20 ~ip~~s~lvf~iel 33 (41)
.+|+++.+.|+||-
T Consensus 102 G~p~gs~IYfavD~ 115 (212)
T cd06418 102 GFPPGTIIYFAVDF 115 (212)
T ss_pred CCCCCCEEEEEeec
Confidence 48999999999984
No 57
>PRK14124 tRNA pseudouridine synthase B; Provisional
Probab=22.18 E-value=1.1e+02 Score=19.13 Aligned_cols=26 Identities=15% Similarity=0.313 Sum_probs=19.6
Q ss_pred cCCCCCC-CCCCCCeEEEEEEEEEeee
Q 044418 13 YGSKGVQ-EIPPNATIEIDVELLAIKQ 38 (41)
Q Consensus 13 yg~~g~~-~ip~~s~lvf~iel~~~~~ 38 (41)
|..+|.. ..|+...-+|+++++++..
T Consensus 130 lAR~G~~ve~~~r~v~I~~i~ll~~~~ 156 (308)
T PRK14124 130 LAREGKIINLPPKEVKIYEIWDISIEG 156 (308)
T ss_pred HHhCCCccccCceeeEEEEEEEEEEeC
Confidence 3344554 4788999999999998864
No 58
>cd02978 KaiB_like KaiB-like family; composed of the circadian clock proteins, KaiB and the N-terminal KaiB-like sensory domain of SasA. KaiB is an essential protein in maintaining circadian rhythm. It was originally discovered from the cyanobacterium Synechococcus as part of the circadian clock gene cluster, kaiABC. KaiB attenuates KaiA-enhanced KaiC autokinase activity by interacting with KaiA-KaiC complexes in a circadian fashion. KaiB is membrane-associated as well as cytosolic. The amount of membrane-associated protein peaks in the evening (at circadian time (CT) 12-16) while the cytosolic form peaks later (at CT 20). The rhythmic localization of KaiB may function in regulating the formation of Kai complexes. SasA is a sensory histidine kinase which associates with KaiC. Although it is not an essential oscillator component, it is important in enhancing kaiABC expression and is important in metabolic growth control under day/night cycle conditions. SasA contains an N-terminal sensor
Probab=20.55 E-value=86 Score=15.58 Aligned_cols=13 Identities=15% Similarity=0.552 Sum_probs=10.2
Q ss_pred EEEEEEEEeeeCC
Q 044418 28 EIDVELLAIKQSP 40 (41)
Q Consensus 28 vf~iel~~~~~~~ 40 (41)
.|++|++|+.+.|
T Consensus 33 ~~~LeVIDv~~~P 45 (72)
T cd02978 33 PYELEVIDVLKQP 45 (72)
T ss_pred cEEEEEEEcccCH
Confidence 6889999987654
No 59
>PRK14122 tRNA pseudouridine synthase B; Provisional
Probab=20.54 E-value=87 Score=19.61 Aligned_cols=26 Identities=27% Similarity=0.442 Sum_probs=19.9
Q ss_pred cCCCCCC-CCCCCCeEEEEEEEEEeee
Q 044418 13 YGSKGVQ-EIPPNATIEIDVELLAIKQ 38 (41)
Q Consensus 13 yg~~g~~-~ip~~s~lvf~iel~~~~~ 38 (41)
|..+|.. .+++....+|.++++++..
T Consensus 129 lAR~G~~vel~~R~v~I~~i~ll~~~~ 155 (312)
T PRK14122 129 AARAGGALELPARPVVYHELELLAFEP 155 (312)
T ss_pred HHhCCCccccCCeeEEEEEEEEEEecc
Confidence 4445554 5889999999999998854
No 60
>PHA02583 11 baseplate wedge subunit and tail pin; Provisional
Probab=20.44 E-value=70 Score=19.26 Aligned_cols=16 Identities=19% Similarity=0.308 Sum_probs=12.4
Q ss_pred CEEEEEeCCCCCcCCC
Q 044418 1 MQRLLIVPPELAYGSK 16 (41)
Q Consensus 1 ~~~~l~ip~~layg~~ 16 (41)
|..++..|+..|||.=
T Consensus 177 v~~~I~~~~~~GYG~W 192 (218)
T PHA02583 177 VTGEIDSPARPGYGTW 192 (218)
T ss_pred EEEEEccCCCCCccch
Confidence 3567788999999973
Done!