Query 040067
Match_columns 195
No_of_seqs 235 out of 1691
Neff 7.3
Searched_HMMs 46136
Date Fri Mar 29 04:47:48 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/040067.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/040067hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF00498 FHA: FHA domain; Int 99.8 2.9E-20 6.2E-25 125.8 9.9 67 90-157 1-68 (68)
2 PLN02927 antheraxanthin epoxid 99.8 1.7E-18 3.7E-23 162.2 12.5 108 57-173 531-651 (668)
3 cd00060 FHA Forkhead associate 99.7 4.9E-16 1.1E-20 111.5 13.7 92 60-161 2-96 (102)
4 TIGR03354 VI_FHA type VI secre 99.7 5.6E-16 1.2E-20 137.9 11.2 83 81-165 17-103 (396)
5 COG1716 FOG: FHA domain [Signa 99.6 1.7E-14 3.7E-19 115.3 11.3 78 81-161 82-159 (191)
6 COG3456 Predicted component of 99.5 9.4E-14 2E-18 122.1 7.5 79 83-163 21-102 (430)
7 smart00240 FHA Forkhead associ 99.4 1.8E-13 3.8E-18 87.4 5.7 50 90-140 1-52 (52)
8 KOG1882 Transcriptional regula 99.4 4.9E-13 1.1E-17 110.0 6.7 94 58-159 172-278 (293)
9 KOG1881 Anion exchanger adapto 99.2 7.8E-12 1.7E-16 115.8 4.4 86 87-174 176-272 (793)
10 KOG1892 Actin filament-binding 98.9 4.2E-09 9.1E-14 100.3 8.9 145 6-171 313-458 (1629)
11 KOG1880 Nuclear inhibitor of p 98.9 3.9E-09 8.5E-14 89.5 6.1 93 60-161 19-113 (337)
12 TIGR02500 type_III_yscD type I 98.5 1.8E-06 3.9E-11 77.6 11.4 90 60-161 1-91 (410)
13 KOG0245 Kinesin-like protein [ 98.5 8.6E-07 1.9E-11 85.5 9.6 80 82-164 471-554 (1221)
14 KOG0615 Serine/threonine prote 98.4 6.5E-07 1.4E-11 79.5 6.5 88 81-170 57-159 (475)
15 KOG2293 Daxx-interacting prote 98.1 1.3E-05 2.8E-10 72.8 7.7 84 82-167 442-532 (547)
16 TIGR01663 PNK-3'Pase polynucle 97.5 0.00069 1.5E-08 62.8 10.3 74 82-159 26-101 (526)
17 KOG0241 Kinesin-like protein [ 96.5 0.013 2.7E-07 57.4 8.3 100 57-169 443-543 (1714)
18 PRK15367 type III secretion sy 90.7 1.9 4E-05 38.8 8.8 87 58-161 3-89 (395)
19 TIGR02988 YaaA_near_RecF S4 do 77.0 3.3 7.2E-05 26.6 3.0 25 130-156 33-58 (59)
20 COG2501 S4-like RNA binding pr 76.9 4.7 0.0001 27.7 3.8 33 130-163 36-68 (73)
21 PF13275 S4_2: S4 domain; PDB: 75.7 2.1 4.6E-05 28.7 1.8 32 131-163 33-64 (65)
22 PRK01777 hypothetical protein; 75.1 3.4 7.5E-05 29.7 3.0 28 126-156 46-73 (95)
23 PRK11507 ribosome-associated p 75.0 6.4 0.00014 26.8 4.1 31 131-162 37-67 (70)
24 smart00363 S4 S4 RNA-binding d 74.1 5.9 0.00013 24.0 3.6 27 130-158 25-52 (60)
25 PF01479 S4: S4 domain; Inter 70.8 2.8 6.1E-05 25.5 1.4 23 130-154 25-48 (48)
26 smart00797 AHS2 Allophanate hy 66.6 21 0.00044 30.7 6.3 47 113-160 38-84 (280)
27 COG1188 Ribosome-associated he 65.7 11 0.00024 27.4 3.9 37 131-170 34-72 (100)
28 COG1984 DUR1 Allophanate hydro 62.6 29 0.00063 30.4 6.5 51 110-161 56-106 (314)
29 COG5025 Transcription factor o 62.6 7.4 0.00016 37.1 3.1 61 106-168 125-190 (610)
30 PF02626 AHS2: Allophanate hyd 62.3 15 0.00032 31.4 4.7 32 128-159 52-83 (271)
31 cd01764 Urm1 Urm1-like ubuitin 61.6 7.6 0.00017 27.7 2.4 24 133-156 62-87 (94)
32 cd00165 S4 S4/Hsp/ tRNA synthe 61.3 13 0.00027 23.2 3.3 27 130-158 25-52 (70)
33 TIGR01687 moaD_arch MoaD famil 61.1 9.3 0.0002 26.3 2.8 25 132-156 57-81 (88)
34 PRK06437 hypothetical protein; 60.5 14 0.0003 24.5 3.4 23 132-156 38-60 (67)
35 cd00754 MoaD Ubiquitin domain 58.7 11 0.00025 25.1 2.8 24 131-156 50-73 (80)
36 cd00565 ThiS ThiaminS ubiquiti 56.9 14 0.00029 24.1 2.9 24 133-156 33-58 (65)
37 TIGR00724 urea_amlyse_rel biot 56.1 34 0.00074 29.9 5.9 33 128-160 74-107 (314)
38 PF14478 DUF4430: Domain of un 53.3 12 0.00026 24.7 2.1 23 134-156 44-67 (68)
39 PF14451 Ub-Mut7C: Mut7-C ubiq 53.2 19 0.00041 25.0 3.2 24 132-157 51-74 (81)
40 cd01666 TGS_DRG_C TGS_DRG_C: 49.8 15 0.00033 25.1 2.2 20 135-156 54-73 (75)
41 PF02824 TGS: TGS domain; Int 49.5 12 0.00026 24.2 1.6 24 131-156 35-58 (60)
42 PRK06488 sulfur carrier protei 48.7 15 0.00032 23.9 2.0 24 133-156 33-58 (65)
43 TIGR01683 thiS thiamine biosyn 47.6 22 0.00048 23.0 2.7 23 134-156 33-57 (64)
44 PRK05659 sulfur carrier protei 44.9 21 0.00046 23.1 2.3 23 134-156 35-59 (66)
45 PRK08364 sulfur carrier protei 44.2 29 0.00063 23.0 2.9 21 134-156 43-63 (70)
46 PRK06944 sulfur carrier protei 43.4 29 0.00062 22.3 2.8 24 133-156 33-58 (65)
47 PRK07440 hypothetical protein; 42.9 27 0.0006 23.3 2.6 23 134-156 39-63 (70)
48 PRK10348 ribosome-associated h 42.6 72 0.0016 24.4 5.1 37 131-170 34-72 (133)
49 PRK07696 sulfur carrier protei 42.3 30 0.00065 22.8 2.7 23 134-156 36-60 (67)
50 PF02597 ThiS: ThiS family; I 39.8 15 0.00033 24.2 1.0 26 131-156 44-70 (77)
51 TIGR01682 moaD molybdopterin c 38.9 38 0.00082 22.8 2.9 22 133-156 52-73 (80)
52 COG5131 URM1 Ubiquitin-like pr 38.4 43 0.00092 24.0 3.1 39 120-158 49-91 (96)
53 PRK06083 sulfur carrier protei 38.2 27 0.0006 24.4 2.1 22 135-156 54-77 (84)
54 PLN02799 Molybdopterin synthas 37.4 40 0.00088 22.8 2.9 22 133-156 54-75 (82)
55 COG2104 ThiS Sulfur transfer p 34.7 43 0.00094 22.4 2.6 24 133-156 36-61 (68)
56 PRK08053 sulfur carrier protei 34.2 47 0.001 21.7 2.7 23 134-156 35-59 (66)
57 PRK10626 hypothetical protein; 33.5 52 0.0011 27.7 3.4 41 98-141 23-64 (239)
58 cd01669 TGS_Ygr210_C TGS_Ygr21 31.0 46 0.001 22.7 2.3 19 136-156 56-74 (76)
59 TIGR02712 urea_carbox urea car 29.5 1.8E+02 0.0039 30.2 7.1 33 128-160 523-555 (1201)
60 PF11101 DUF2884: Protein of u 29.4 73 0.0016 26.4 3.6 42 99-142 1-43 (229)
61 PF05123 S_layer_N: S-layer li 28.2 1.3E+02 0.0029 26.0 5.1 46 113-161 242-288 (290)
62 PRK05863 sulfur carrier protei 27.8 41 0.00088 22.0 1.5 23 134-156 35-58 (65)
63 PRK11092 bifunctional (p)ppGpp 27.1 56 0.0012 31.8 2.9 25 130-156 421-445 (702)
64 PF14168 YjzC: YjzC-like prote 25.5 63 0.0014 21.0 2.0 12 143-154 32-43 (57)
65 cd00050 MH2 MH2 domain; C term 25.5 2.3E+02 0.005 22.7 5.7 28 113-141 69-96 (176)
66 PRK11130 moaD molybdopterin sy 25.3 78 0.0017 21.4 2.6 22 133-156 53-74 (81)
67 smart00524 DWB Domain B in dwa 24.7 2.4E+02 0.0053 22.4 5.7 28 113-141 64-91 (171)
68 TIGR00691 spoT_relA (p)ppGpp s 23.9 68 0.0015 31.1 2.8 23 132-156 397-419 (683)
69 PF09138 Urm1: Urm1 (Ubiquitin 23.4 29 0.00063 25.0 0.2 27 130-156 59-89 (96)
70 PF14453 ThiS-like: ThiS-like 23.1 96 0.0021 20.2 2.5 22 133-156 32-53 (57)
71 COG0564 RluA Pseudouridylate s 22.4 1E+02 0.0022 26.5 3.3 27 132-160 38-64 (289)
72 COG0317 SpoT Guanosine polypho 22.2 87 0.0019 30.5 3.1 25 130-156 422-446 (701)
73 PRK10872 relA (p)ppGpp synthet 22.0 77 0.0017 31.1 2.8 24 131-156 440-463 (743)
74 PRK05327 rpsD 30S ribosomal pr 21.8 1E+02 0.0022 25.1 3.1 27 131-159 118-145 (203)
75 PF09269 DUF1967: Domain of un 21.3 86 0.0019 20.9 2.2 15 147-161 53-67 (69)
76 PF03658 Ub-RnfH: RnfH family 20.0 68 0.0015 22.5 1.5 28 126-156 43-70 (84)
No 1
>PF00498 FHA: FHA domain; InterPro: IPR000253 The forkhead-associated (FHA) domain [] is a phosphopeptide recognition domain found in many regulatory proteins. It displays specificity for phosphothreonine-containing epitopes but will also recognise phosphotyrosine with relatively high affinity. It spans approximately 80-100 amino acid residues folded into an 11-stranded beta sandwich, which sometimes contain small helical insertions between the loops connecting the strands []. To date, genes encoding FHA-containing proteins have been identified in eubacterial and eukaryotic but not archaeal genomes. The domain is present in a diverse range of proteins, such as kinases, phosphatases, kinesins, transcription factors, RNA-binding proteins and metabolic enzymes which partake in many different cellular processes - DNA repair, signal transduction, vesicular transport and protein degradation are just a few examples.; GO: 0005515 protein binding; PDB: 1LGQ_B 1LGP_A 2CSW_A 2PIE_A 3FM8_A 3MDB_B 3GQS_B 1UHT_A 1WLN_A 3POA_A ....
Probab=99.84 E-value=2.9e-20 Score=125.78 Aligned_cols=67 Identities=43% Similarity=0.719 Sum_probs=63.1
Q ss_pred EEEcCCCCCCCEEeCCCCcCccceEEEEECC-EEEEEeCCCCCceEECCEEccCCceEECCCCCEEEEC
Q 040067 90 VTVGRLPERADMVIPVATVSGLHARIQKKGD-SLLVTDLDSTNGTFIDEKRLRSGVVAVASPGSRITFG 157 (195)
Q Consensus 90 ~~IGR~~~~~di~l~~~~VSr~Ha~I~~~~~-~~~l~Dl~S~nGT~VNg~~l~~~~~~~L~~gd~I~lG 157 (195)
++|||++. |||+|+++.||+.||.|.++++ .|+|+|++|+|||||||+++.++.++.|++||+|+||
T Consensus 1 ~~iGR~~~-~di~l~~~~iSr~Ha~i~~~~~~~~~i~d~~s~ngt~vng~~l~~~~~~~L~~gd~i~~G 68 (68)
T PF00498_consen 1 VTIGRSPD-CDIVLPDPSISRRHARISFDDDGQFYIEDLGSTNGTFVNGQRLGPGEPVPLKDGDIIRFG 68 (68)
T ss_dssp EEEESSTT-SSEEETSTTSSTTSEEEEEETTEEEEEEESSSSS-EEETTEEESSTSEEEE-TTEEEEET
T ss_pred CEEcCCCC-CCEEECCHheeeeeeEEEEeceeeEEEEeCCCCCcEEECCEEcCCCCEEECCCCCEEEcC
Confidence 58999988 9999999999999999999998 9999999999999999999999999999999999998
No 2
>PLN02927 antheraxanthin epoxidase/zeaxanthin epoxidase
Probab=99.78 E-value=1.7e-18 Score=162.20 Aligned_cols=108 Identities=30% Similarity=0.501 Sum_probs=92.1
Q ss_pred CCCEEEEEccCCCcceecccCCCCceEEE---CCCeEEEcCCCCCCCE-----EeCCCCcCccceEEEEECCEEEEEeCC
Q 040067 57 AERWLLQPVGDGDTSHIGFKVPMPDAFEI---ASTEVTVGRLPERADM-----VIPVATVSGLHARIQKKGDSLLVTDLD 128 (195)
Q Consensus 57 ~~~~~L~~~~~g~~~~i~~~~~~~~~~~l---~~~~~~IGR~~~~~di-----~l~~~~VSr~Ha~I~~~~~~~~l~Dl~ 128 (195)
.+.|+|++++++.... ..++| .+.+++|||.++ ||+ +|+++.||+.||+|.++++.|||+||+
T Consensus 531 ~~~w~l~~~~~~~~~~--------~~~~l~~~~~~p~~iG~~~~-~~~~~~~i~i~~~~vS~~Ha~i~~~~~~~~~~Dl~ 601 (668)
T PLN02927 531 KGEWYLIPHGDDCCVS--------ETLCLTKDEDQPCIVGSEPD-QDFPGMRIVIPSSQVSKMHARVIYKDGAFFLMDLR 601 (668)
T ss_pred cCCeEEEecCCCCccc--------ceeeeecCCCCCeEecCCCC-cCCCCceEEecCCccChhHeEEEEECCEEEEEECC
Confidence 4789999987776531 34666 678999999998 885 999999999999999999999999999
Q ss_pred CCCceEECCEE-----ccCCceEECCCCCEEEECCceEEEEEeeccCcCC
Q 040067 129 STNGTFIDEKR-----LRSGVVAVASPGSRITFGDTHLAMFRVSKIDTVE 173 (195)
Q Consensus 129 S~nGT~VNg~~-----l~~~~~~~L~~gd~I~lG~~~~~~~~~~~~~~~~ 173 (195)
|+|||||||.+ +.++.++.|++||+|+||+.+-..||+.......
T Consensus 602 S~nGT~v~~~~~~r~~~~p~~~~~l~~~d~I~~g~~~~~~fr~~~~~~~~ 651 (668)
T PLN02927 602 SEHGTYVTDNEGRRYRATPNFPARFRSSDIIEFGSDKKAAFRVKVIRKTP 651 (668)
T ss_pred CCCccEEeCCCCceEecCCCCceEeCCCCEEEeCCCcceeEEEEeecCCC
Confidence 99999997765 5577889999999999999876578887775543
No 3
>cd00060 FHA Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins localize to the nucleus, where they participate in establishing or maintaining cell cycle checkpoints, DNA repair, or transcriptional regulation. Members of the FHA family include: Dun1, Rad53, Cds1, Mek1, KAPP(kinase-associated protein phosphatase),and Ki-67 (a human nuclear protein related to cell proliferation).
Probab=99.71 E-value=4.9e-16 Score=111.50 Aligned_cols=92 Identities=28% Similarity=0.441 Sum_probs=80.3
Q ss_pred EEEEEccCCCcceecccCCCCceEEECC-CeEEEcCCCCCC-CEEeCCCCcCccceEEEEEC-CEEEEEeCCCCCceEEC
Q 040067 60 WLLQPVGDGDTSHIGFKVPMPDAFEIAS-TEVTVGRLPERA-DMVIPVATVSGLHARIQKKG-DSLLVTDLDSTNGTFID 136 (195)
Q Consensus 60 ~~L~~~~~g~~~~i~~~~~~~~~~~l~~-~~~~IGR~~~~~-di~l~~~~VSr~Ha~I~~~~-~~~~l~Dl~S~nGT~VN 136 (195)
|.|.+..++... ..+.|.. ..++|||+.. | ++.|++..||+.||.|.++. +.+++.++.|.||||||
T Consensus 2 ~~L~~~~~~~~~---------~~~~l~~~~~~~iGr~~~-~~~i~l~~~~iS~~H~~i~~~~~~~~~~~~~~s~~g~~vn 71 (102)
T cd00060 2 PRLVVLSGDASG---------RRYYLDPGGTYTIGRDSD-NCDIVLDDPSVSRRHAVIRYDGDGGVVLIDLGSTNGTFVN 71 (102)
T ss_pred eEEEEecCCCce---------eEEEECCCCeEEECcCCC-cCCEEcCCCCeeCcceEEEEcCCCCEEEEECCCCCCeEEC
Confidence 566666554322 6788888 9999999998 8 99999999999999999998 89999999999999999
Q ss_pred CEEccCCceEECCCCCEEEECCceE
Q 040067 137 EKRLRSGVVAVASPGSRITFGDTHL 161 (195)
Q Consensus 137 g~~l~~~~~~~L~~gd~I~lG~~~~ 161 (195)
++++..+....|.+||.|.||...+
T Consensus 72 ~~~~~~~~~~~l~~gd~i~ig~~~~ 96 (102)
T cd00060 72 GQRVSPGEPVRLRDGDVIRLGNTSI 96 (102)
T ss_pred CEECCCCCcEECCCCCEEEECCeEE
Confidence 9999977789999999999996333
No 4
>TIGR03354 VI_FHA type VI secretion system FHA domain protein. Members of this protein family are FHA (forkhead-associated) domain-containing proteins that are part of type VI secretion loci in a considerable number of bacteria, most of which are known pathogens. Species include Pseudomonas aeruginosa PAO1, Aeromonas hydrophila, Yersinia pestis, Burkholderia mallei, etc.
Probab=99.66 E-value=5.6e-16 Score=137.86 Aligned_cols=83 Identities=34% Similarity=0.515 Sum_probs=77.4
Q ss_pred ceEEECCCeEEEcCCCCCCCEEeCCCC--cCccceEEEEECCEEEEEeCCCCCceEEC--CEEccCCceEECCCCCEEEE
Q 040067 81 DAFEIASTEVTVGRLPERADMVIPVAT--VSGLHARIQKKGDSLLVTDLDSTNGTFID--EKRLRSGVVAVASPGSRITF 156 (195)
Q Consensus 81 ~~~~l~~~~~~IGR~~~~~di~l~~~~--VSr~Ha~I~~~~~~~~l~Dl~S~nGT~VN--g~~l~~~~~~~L~~gd~I~l 156 (195)
..+.+....++|||+++ ||++|+++. ||+.||+|.+.++.|+|+|+ |+|||||| |.++..+.++.|++||+|+|
T Consensus 17 ~~~~f~~~~~~IGR~~~-~d~~l~d~~~~VS~~Ha~I~~~~g~~~l~Dl-StNGT~VN~sg~~l~~~~~~~L~~GD~I~i 94 (396)
T TIGR03354 17 AQKTFGTNGGTIGRSED-CDWVLPDPERHVSGRHARIRYRDGAYLLTDL-STNGVFLNGSGSPLGRGNPVRLEQGDRLRL 94 (396)
T ss_pred eEEEECCCCEEEecCCC-CCEEeCCCCCCcchhhcEEEEECCEEEEEEC-CCCCeEECCCCCCCCCCCceEcCCCCEEEE
Confidence 57889999999999998 999999988 99999999999999999999 99999999 89999888899999999999
Q ss_pred CCceEEEEE
Q 040067 157 GDTHLAMFR 165 (195)
Q Consensus 157 G~~~~~~~~ 165 (195)
|.+.++++.
T Consensus 95 G~~~lrv~~ 103 (396)
T TIGR03354 95 GDYEIRVSL 103 (396)
T ss_pred CCEEEEEEe
Confidence 999986543
No 5
>COG1716 FOG: FHA domain [Signal transduction mechanisms]
Probab=99.58 E-value=1.7e-14 Score=115.31 Aligned_cols=78 Identities=29% Similarity=0.554 Sum_probs=71.8
Q ss_pred ceEEECCCeEEEcCCCCCCCEEeCCCCcCccceEEEEECCEEEEEeCCCCCceEECCEEccCCceEECCCCCEEEECCce
Q 040067 81 DAFEIASTEVTVGRLPERADMVIPVATVSGLHARIQKKGDSLLVTDLDSTNGTFIDEKRLRSGVVAVASPGSRITFGDTH 160 (195)
Q Consensus 81 ~~~~l~~~~~~IGR~~~~~di~l~~~~VSr~Ha~I~~~~~~~~l~Dl~S~nGT~VNg~~l~~~~~~~L~~gd~I~lG~~~ 160 (195)
..+.+....++|||+++ +++++++..|||+||.|.++++.++++|++|+|||||||+++.. ...|++||+|.||...
T Consensus 82 ~~~~~~~~~~tigr~~~-~~i~~~~~~vSR~Ha~l~~~~~~~~~~d~~S~nGt~vn~~~v~~--~~~l~~gd~i~i~~~~ 158 (191)
T COG1716 82 SVIVLGEPVTTIGRDPD-NDIVLDDDVVSRRHAELRREGNEVFLEDLGSTNGTYVNGEKVRQ--RVLLQDGDVIRLGGTL 158 (191)
T ss_pred cccccccceEEeccCCC-CCEEcCCCccccceEEEEEeCCceEEEECCCCcceEECCeEccC--cEEcCCCCEEEECccc
Confidence 34555556899999988 99999999999999999999999999999999999999999997 5999999999999988
Q ss_pred E
Q 040067 161 L 161 (195)
Q Consensus 161 ~ 161 (195)
.
T Consensus 159 ~ 159 (191)
T COG1716 159 A 159 (191)
T ss_pred e
Confidence 7
No 6
>COG3456 Predicted component of the type VI protein secretion system, contains a FHA domain [Intracellular trafficking, secretion, and vesicular transport; Signal transduction mechanisms]
Probab=99.47 E-value=9.4e-14 Score=122.13 Aligned_cols=79 Identities=24% Similarity=0.290 Sum_probs=72.0
Q ss_pred EEECCCeEEEcCCCCCCCEEeCC--CCcCccceEEEEECCEEEEEeCCCCCceEECCEEccCCce-EECCCCCEEEECCc
Q 040067 83 FEIASTEVTVGRLPERADMVIPV--ATVSGLHARIQKKGDSLLVTDLDSTNGTFIDEKRLRSGVV-AVASPGSRITFGDT 159 (195)
Q Consensus 83 ~~l~~~~~~IGR~~~~~di~l~~--~~VSr~Ha~I~~~~~~~~l~Dl~S~nGT~VNg~~l~~~~~-~~L~~gd~I~lG~~ 159 (195)
..+..+...|||+++ ||+.|+| ..||+.||+|.+++|.|||+|. |.|||||||..+..+.. .+|+.||+|.||+.
T Consensus 21 ~~f~~~~g~IGrs~d-cdW~i~D~~~~VS~~Hc~I~~~dg~f~L~Dt-S~g~l~VNgs~~~~g~~~~RLqqGd~i~iG~y 98 (430)
T COG3456 21 KLFDRGGGVIGRSPD-CDWQIDDPERFVSKQHCTISYRDGGFCLTDT-SNGGLLVNGSDLPLGEGSARLQQGDEILIGRY 98 (430)
T ss_pred hhhhcCCcccccCCC-CCccccCcccccchhheEEEecCCeEEEEec-CCCceeecccccCCCCCccccccCCEEeeccE
Confidence 455567889999998 9999997 6899999999999999999998 69999999999998887 99999999999999
Q ss_pred eEEE
Q 040067 160 HLAM 163 (195)
Q Consensus 160 ~~~~ 163 (195)
.+.+
T Consensus 99 ~i~V 102 (430)
T COG3456 99 IIRV 102 (430)
T ss_pred EEEE
Confidence 8754
No 7
>smart00240 FHA Forkhead associated domain. Found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain.
Probab=99.45 E-value=1.8e-13 Score=87.39 Aligned_cols=50 Identities=42% Similarity=0.714 Sum_probs=46.4
Q ss_pred EEEcCCC-CCCCEEeCCCCcCccceEEEEECCE-EEEEeCCCCCceEECCEEc
Q 040067 90 VTVGRLP-ERADMVIPVATVSGLHARIQKKGDS-LLVTDLDSTNGTFIDEKRL 140 (195)
Q Consensus 90 ~~IGR~~-~~~di~l~~~~VSr~Ha~I~~~~~~-~~l~Dl~S~nGT~VNg~~l 140 (195)
++|||.+ . |++.++++.||+.||.|.++.+. |+|.|++|+|||||||+++
T Consensus 1 ~~iGr~~~~-~~i~~~~~~vs~~H~~i~~~~~~~~~i~d~~s~~gt~vng~~v 52 (52)
T smart00240 1 VTIGRSSED-CDIQLPGPSISRRHAEIVYDGGGRFYLIDLGSTNGTFVNGKRI 52 (52)
T ss_pred CEeCCCCCC-CCEEeCCCCcchhHcEEEECCCCeEEEEECCCCCCeeECCEEC
Confidence 4799999 6 99999999999999999999875 9999999999999999875
No 8
>KOG1882 consensus Transcriptional regulator SNIP1, contains FHA domain [Signal transduction mechanisms]
Probab=99.40 E-value=4.9e-13 Score=109.97 Aligned_cols=94 Identities=27% Similarity=0.287 Sum_probs=74.8
Q ss_pred CCEEEEEccCCCcceecccCCCCceEEECCCeEEEcCCCCCCCEEeCCCCcCccceEEEEEC------C-------EEEE
Q 040067 58 ERWLLQPVGDGDTSHIGFKVPMPDAFEIASTEVTVGRLPERADMVIPVATVSGLHARIQKKG------D-------SLLV 124 (195)
Q Consensus 58 ~~~~L~~~~~g~~~~i~~~~~~~~~~~l~~~~~~IGR~~~~~di~l~~~~VSr~Ha~I~~~~------~-------~~~l 124 (195)
.+|-|.+..++...+ ..+-=....+.+||.-.-+||.|++++.|.+||.|+|.. + ..||
T Consensus 172 kRwrLy~fk~~e~l~--------~l~iHrqs~yL~gRerkIaDi~idhpScSKQHaviQyR~v~~~r~dGt~grrvkpYi 243 (293)
T KOG1882|consen 172 KRWRLYPFKCYEVLP--------VLYIHRQSCYLDGRERKIADIPIDHPSCSKQHAVIQYRLVEFTRADGTVGRRVKPYI 243 (293)
T ss_pred hheecccccCCcccc--------hheeeeeeeeecCceeeeeccCCCCccccccceeeeeeecccccCCCccceeeeeEE
Confidence 466677666665441 112222456889997656899999999999999998852 2 4899
Q ss_pred EeCCCCCceEECCEEccCCceEECCCCCEEEECCc
Q 040067 125 TDLDSTNGTFIDEKRLRSGVVAVASPGSRITFGDT 159 (195)
Q Consensus 125 ~Dl~S~nGT~VNg~~l~~~~~~~L~~gd~I~lG~~ 159 (195)
.||||.||||||++.|.+..+++|..+|+|+||-.
T Consensus 244 iDLgS~NgTfLNnk~IepqRYyEL~ekDvlkfgfs 278 (293)
T KOG1882|consen 244 IDLGSGNGTFLNNKVIEPQRYYELREKDVLKFGFS 278 (293)
T ss_pred EecCCCCcceecCcccCchheeeeecCceeeeccc
Confidence 99999999999999999999999999999999954
No 9
>KOG1881 consensus Anion exchanger adaptor protein Kanadaptin, contains FHA domain [General function prediction only]
Probab=99.22 E-value=7.8e-12 Score=115.80 Aligned_cols=86 Identities=26% Similarity=0.416 Sum_probs=74.7
Q ss_pred CCeEEEcCCCCCCCEEeCCCCcCccceEEEEEC-----------CEEEEEeCCCCCceEECCEEccCCceEECCCCCEEE
Q 040067 87 STEVTVGRLPERADMVIPVATVSGLHARIQKKG-----------DSLLVTDLDSTNGTFIDEKRLRSGVVAVASPGSRIT 155 (195)
Q Consensus 87 ~~~~~IGR~~~~~di~l~~~~VSr~Ha~I~~~~-----------~~~~l~Dl~S~nGT~VNg~~l~~~~~~~L~~gd~I~ 155 (195)
...++|||... ||+.+.|+.|||.||.|+|.. .+|||.|+||++|||+|..++++..++.++-|++++
T Consensus 176 ~~~~~fgr~~~-cD~~~eHpsISr~h~vlQy~~~~~~~p~~s~~~g~~i~dlgsThgt~~NK~rvppk~yir~~Vg~v~~ 254 (793)
T KOG1881|consen 176 AAACLFGRLGG-CDVALEHPSISRFHAVLQYKASGPDDPCASNGEGWYIYDLGSTHGTFLNKDRVPPKVYIRDRVGHVAR 254 (793)
T ss_pred ceeEEecccCC-CccccccCcccccceeeeccCCCCCccccCCCCceEEeeccccccceeccccCCCcchhhhhHHHHHH
Confidence 46799999997 999999999999999999864 249999999999999999999999999999999999
Q ss_pred ECCceEEEEEeeccCcCCC
Q 040067 156 FGDTHLAMFRVSKIDTVEA 174 (195)
Q Consensus 156 lG~~~~~~~~~~~~~~~~~ 174 (195)
||+..+ +|.+.....+.+
T Consensus 255 fggsTr-l~i~Qgp~eD~E 272 (793)
T KOG1881|consen 255 FGGSTR-LYIFQGPEEDEE 272 (793)
T ss_pred hcCceE-EEEeeCCCcCCC
Confidence 999877 565555444433
No 10
>KOG1892 consensus Actin filament-binding protein Afadin [Cytoskeleton]
Probab=98.92 E-value=4.2e-09 Score=100.30 Aligned_cols=145 Identities=14% Similarity=0.182 Sum_probs=113.8
Q ss_pred CCCcccccCcchhhhhhhhhhhhhhccCCcccccccCCCCCCccccccccCCCCEEEEEccCCCcceecccCCCCceEEE
Q 040067 6 SNSVPFHSSRTLLTQLQGLRIKAKKHRNLGAIRASEADSSTTTTTTSTDVAAERWLLQPVGDGDTSHIGFKVPMPDAFEI 85 (195)
Q Consensus 6 ~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~s~~~~~~~~~t~~~~~~~~~~~L~~~~~g~~~~i~~~~~~~~~~~l 85 (195)
.|+++||+.+.+.+.|+..++|++++.-++...-++...+.- .....++...+|+.+. +++.|
T Consensus 313 ~g~~~f~~kRrP~D~qP~~~kk~P~g~~~~~~~v~g~~~~~~---------~lPvLve~s~dG~~s~--------~ri~L 375 (1629)
T KOG1892|consen 313 KGILVFQLKRRPPDHQPKKTKKTPKGKERADGSVYGSTLPPE---------KLPVLVELSPDGSDSR--------KRIRL 375 (1629)
T ss_pred cceEEEEEccCCcccCccccccCccccccCCCcccCCCCCcc---------cCcEEEEEcCCCCCcc--------eeEEe
Confidence 578899999999999998888888877776655555433221 2233445566666542 67899
Q ss_pred CCCeEEEcCCCCC-CCEEeCCCCcCccceEEEEECCEEEEEeCCCCCceEECCEEccCCceEECCCCCEEEECCceEEEE
Q 040067 86 ASTEVTVGRLPER-ADMVIPVATVSGLHARIQKKGDSLLVTDLDSTNGTFIDEKRLRSGVVAVASPGSRITFGDTHLAMF 164 (195)
Q Consensus 86 ~~~~~~IGR~~~~-~di~l~~~~VSr~Ha~I~~~~~~~~l~Dl~S~nGT~VNg~~l~~~~~~~L~~gd~I~lG~~~~~~~ 164 (195)
....+-||.+... +.|.|..+.|-.+||-|.+-+|.+.|+...-..-|||||.+|.+ +..|++|+.|+||.... |
T Consensus 376 ~~~vtEVGs~~~~~~~iqLfGP~IqprHc~it~meGVvTvTP~~~DA~t~VnGh~isq--ttiL~~G~~v~fGa~hs--f 451 (1629)
T KOG1892|consen 376 QLSVTEVGSEKLDDNSIQLFGPGIQPRHCDITNMEGVVTVTPRSMDAETYVNGHRISQ--TTILQSGMKVQFGASHS--F 451 (1629)
T ss_pred ccCceeccccccCCcceeeeCCCCCccccchhhccceEEecccccchhhhccceecch--hhhhccCCEEEecccee--E
Confidence 9999999998652 46999999999999999999999999998666789999999998 68999999999999875 5
Q ss_pred EeeccCc
Q 040067 165 RVSKIDT 171 (195)
Q Consensus 165 ~~~~~~~ 171 (195)
++.+...
T Consensus 452 kF~dss~ 458 (1629)
T KOG1892|consen 452 KFVDSSQ 458 (1629)
T ss_pred EecCCch
Confidence 5544443
No 11
>KOG1880 consensus Nuclear inhibitor of phosphatase-1 [General function prediction only]
Probab=98.86 E-value=3.9e-09 Score=89.47 Aligned_cols=93 Identities=27% Similarity=0.318 Sum_probs=79.3
Q ss_pred EEEEEccCCCcceecccCCCCceEEECCCeEEEcCCCCCCCEEeCCCCcCccceEEEEEC--CEEEEEeCCCCCceEECC
Q 040067 60 WLLQPVGDGDTSHIGFKVPMPDAFEIASTEVTVGRLPERADMVIPVATVSGLHARIQKKG--DSLLVTDLDSTNGTFIDE 137 (195)
Q Consensus 60 ~~L~~~~~g~~~~i~~~~~~~~~~~l~~~~~~IGR~~~~~di~l~~~~VSr~Ha~I~~~~--~~~~l~Dl~S~nGT~VNg 137 (195)
...+..+++... ..+.+.+..+.+||....||.+|++.++||.||.+.+.. ..++|.|++|+.|||+..
T Consensus 19 hldv~k~d~li~---------kl~iddkr~y~Fgrn~q~~df~idh~scSrvhaa~vyhkhl~~~~lidl~s~hgtf~g~ 89 (337)
T KOG1880|consen 19 HLDVVKGDKLIQ---------KLIIDDKRRYLFGRNHQTCDFVIDHASCSRVHAALVYHKHLSRIFLIDLGSTHGTFLGN 89 (337)
T ss_pred ceeeeecchhHH---------HHHhhhhhhhhhccCCCccceEeecchhhhhHhhhhhhhccceEEEEEccCCcceeeee
Confidence 334445555543 445566788999999988999999999999999998876 669999999999999999
Q ss_pred EEccCCceEECCCCCEEEECCceE
Q 040067 138 KRLRSGVVAVASPGSRITFGDTHL 161 (195)
Q Consensus 138 ~~l~~~~~~~L~~gd~I~lG~~~~ 161 (195)
.+|.+..++.|+.|..+.||....
T Consensus 90 ~rL~~~~p~~l~i~~~~~fgasTr 113 (337)
T KOG1880|consen 90 ERLEPHKPVQLEIGSTFHFGASTR 113 (337)
T ss_pred eeeccCCCccccCCceEEEeccce
Confidence 999999999999999999998655
No 12
>TIGR02500 type_III_yscD type III secretion apparatus protein, YscD/HrpQ family. This family represents a conserved protein of bacterial type III secretion systems. Gene symbols are variable from species to species. Members are designated YscD in Yersinia, HrpQ in Pseudomonas syringae, and EscD in enteropathogenic Escherichia coli. In the Chlamydiae, this model describes the C-terminal 400 residues of a longer protein.
Probab=98.46 E-value=1.8e-06 Score=77.56 Aligned_cols=90 Identities=9% Similarity=0.254 Sum_probs=75.6
Q ss_pred EEEEEccCCCcceecccCCCCceEEECCCeEEEc-CCCCCCCEEeCCCCcCccceEEEEECCEEEEEeCCCCCceEECCE
Q 040067 60 WLLQPVGDGDTSHIGFKVPMPDAFEIASTEVTVG-RLPERADMVIPVATVSGLHARIQKKGDSLLVTDLDSTNGTFIDEK 138 (195)
Q Consensus 60 ~~L~~~~~g~~~~i~~~~~~~~~~~l~~~~~~IG-R~~~~~di~l~~~~VSr~Ha~I~~~~~~~~l~Dl~S~nGT~VNg~ 138 (195)
|.|...++...+ .+++|..+.++|| ++++ |||++.|+.|+++|++|.....++.+.+. ..++++||.
T Consensus 1 ~~lrvl~G~~~G---------~~~~L~~g~~~iG~~~~~-~di~L~d~~~~~~h~~l~v~~~~~~l~~~--~~~~~~~g~ 68 (410)
T TIGR02500 1 WKLRVLSGPHRG---------AELPLPEGNLVLGTDAAD-CDIVLSDGGIAAVHVSLHVRLEGVTLAGA--VEPAWEEGG 68 (410)
T ss_pred CEEEEecCCCCC---------cEEECCCCceEeccCCCC-cEEEeCCCCccchheEEEEcCceEEEecC--CcceeECCc
Confidence 566777776665 8899999999999 8888 99999999999999999999999988874 677999994
Q ss_pred EccCCceEECCCCCEEEECCceE
Q 040067 139 RLRSGVVAVASPGSRITFGDTHL 161 (195)
Q Consensus 139 ~l~~~~~~~L~~gd~I~lG~~~~ 161 (195)
++.......|..+..|.+|...+
T Consensus 69 ~~~~~~g~~l~~~~~l~~g~~~~ 91 (410)
T TIGR02500 69 VLPDEEGTPLPSGTPLLVAGVAF 91 (410)
T ss_pred ccccCCCCccCCCCceecceeEE
Confidence 44433347799999999999877
No 13
>KOG0245 consensus Kinesin-like protein [Cytoskeleton]
Probab=98.46 E-value=8.6e-07 Score=85.49 Aligned_cols=80 Identities=24% Similarity=0.426 Sum_probs=69.4
Q ss_pred eEEECCCeEEEcCCCC--CCCEEeCCCCcCccceEEEEECCE--EEEEeCCCCCceEECCEEccCCceEECCCCCEEEEC
Q 040067 82 AFEIASTEVTVGRLPE--RADMVIPVATVSGLHARIQKKGDS--LLVTDLDSTNGTFIDEKRLRSGVVAVASPGSRITFG 157 (195)
Q Consensus 82 ~~~l~~~~~~IGR~~~--~~di~l~~~~VSr~Ha~I~~~~~~--~~l~Dl~S~nGT~VNg~~l~~~~~~~L~~gd~I~lG 157 (195)
.|.|..+..+|||... ..||+|....|-.+||.|...++. +.|.... ..-|||||+.|.. +..|+.||+|.||
T Consensus 471 lY~ikeG~TrVG~~~a~~~~DI~LsG~~I~~qHC~i~~~~g~~~vtl~p~e-~aetyVNGk~v~e--p~qL~~GdRiilG 547 (1221)
T KOG0245|consen 471 LYYIKEGETRVGREDASSRQDIVLSGQLIREQHCSIRNEGGNDVVTLEPCE-DAETYVNGKLVTE--PTQLRSGDRIILG 547 (1221)
T ss_pred EEEeccCceecCCCCcccCCceEecchhhhhhceEEEecCCCceEEeccCC-ccceeEccEEcCC--cceeccCCEEEEc
Confidence 3788889999999754 389999999999999999999877 7787764 6779999999998 8999999999999
Q ss_pred CceEEEE
Q 040067 158 DTHLAMF 164 (195)
Q Consensus 158 ~~~~~~~ 164 (195)
+..++.|
T Consensus 548 ~~H~frf 554 (1221)
T KOG0245|consen 548 GNHVFRF 554 (1221)
T ss_pred CceeEEe
Confidence 9887333
No 14
>KOG0615 consensus Serine/threonine protein kinase Chk2 and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=98.39 E-value=6.5e-07 Score=79.51 Aligned_cols=88 Identities=24% Similarity=0.425 Sum_probs=75.9
Q ss_pred ceEEECCCeEEEcCCCCCCCEEeCCCCcCccceEEEEE---------------CCEEEEEeCCCCCceEECCEEccCCce
Q 040067 81 DAFEIASTEVTVGRLPERADMVIPVATVSGLHARIQKK---------------GDSLLVTDLDSTNGTFIDEKRLRSGVV 145 (195)
Q Consensus 81 ~~~~l~~~~~~IGR~~~~~di~l~~~~VSr~Ha~I~~~---------------~~~~~l~Dl~S~nGT~VNg~~l~~~~~ 145 (195)
....+....+++||.+. ||..+....+|..|..|..- ...+|+.|. |+||||||.+.+..+..
T Consensus 57 ~~~d~~nd~f~fGR~~~-~d~~ln~~~~s~~~~~i~~~~~~~~~~f~~dr~~~sn~~y~~Dh-S~nGT~VN~e~i~k~~~ 134 (475)
T KOG0615|consen 57 KSIDLANDEFTFGRGDS-CDAPLNLNNVSNKHFKILLYNKISKIHFRIDRDKNSNRVYLHDH-SRNGTFVNDEMIGKGLS 134 (475)
T ss_pred ccceeccceEEecCCCc-ccccccCccccccchheeeeeeeeeeeecccCCCccceEEEEec-ccCcccccHhHhhcccc
Confidence 34677788999999988 99999998899999887533 145999998 89999999999999999
Q ss_pred EECCCCCEEEECCceEEEEEeeccC
Q 040067 146 AVASPGSRITFGDTHLAMFRVSKID 170 (195)
Q Consensus 146 ~~L~~gd~I~lG~~~~~~~~~~~~~ 170 (195)
..|++||+|.||-....+|.+....
T Consensus 135 r~lkN~dei~is~p~~~~~v~~~~s 159 (475)
T KOG0615|consen 135 RILKNGDEISISIPALKIFVFEDLS 159 (475)
T ss_pred ccccCCCEEEeccchhheeeeeccc
Confidence 9999999999999988888877763
No 15
>KOG2293 consensus Daxx-interacting protein MSP58/p78, contains FHA domain [Transcription; Signal transduction mechanisms]
Probab=98.06 E-value=1.3e-05 Score=72.78 Aligned_cols=84 Identities=18% Similarity=0.313 Sum_probs=72.5
Q ss_pred eEEECCCeEEEcCCCCCCCEEeC------CCCcCccceEEEEEC-CEEEEEeCCCCCceEECCEEccCCceEECCCCCEE
Q 040067 82 AFEIASTEVTVGRLPERADMVIP------VATVSGLHARIQKKG-DSLLVTDLDSTNGTFIDEKRLRSGVVAVASPGSRI 154 (195)
Q Consensus 82 ~~~l~~~~~~IGR~~~~~di~l~------~~~VSr~Ha~I~~~~-~~~~l~Dl~S~nGT~VNg~~l~~~~~~~L~~gd~I 154 (195)
.|.+.+..+++||+...|.|-|+ ...|||+.|.|...+ |.|+|.++| .-..||||.+|..|+.+.|.+..+|
T Consensus 442 kh~mrk~EVtlGRat~d~~VDIDLgkegpatKISRRQa~IkL~n~GsF~IkNlG-K~~I~vng~~l~~gq~~~L~~nclv 520 (547)
T KOG2293|consen 442 KHYMRKKEVTLGRATGDLKVDIDLGKEGPATKISRRQALIKLKNDGSFFIKNLG-KRSILVNGGELDRGQKVILKNNCLV 520 (547)
T ss_pred HhhhcCcceEeeccCCCcceeeeccccCccceeeccceeEEeccCCcEEeccCc-ceeEEeCCccccCCceEEeccCcEE
Confidence 47777899999999876666554 367999999998865 889999997 7889999999999999999999999
Q ss_pred EECCceEEEEEee
Q 040067 155 TFGDTHLAMFRVS 167 (195)
Q Consensus 155 ~lG~~~~~~~~~~ 167 (195)
+|-+..| +|.+.
T Consensus 521 eIrg~~F-iF~~N 532 (547)
T KOG2293|consen 521 EIRGLRF-IFEIN 532 (547)
T ss_pred EEccceE-EEeec
Confidence 9999998 66653
No 16
>TIGR01663 PNK-3'Pase polynucleotide 5'-kinase 3'-phosphatase. Note that the EC number for the kinase function is: 2.7.1.78
Probab=97.54 E-value=0.00069 Score=62.79 Aligned_cols=74 Identities=16% Similarity=0.159 Sum_probs=63.7
Q ss_pred eEEECCCeEEEcCCCCCCCEEeCCCCcCccceEEEEE--CCEEEEEeCCCCCceEECCEEccCCceEECCCCCEEEECCc
Q 040067 82 AFEIASTEVTVGRLPERADMVIPVATVSGLHARIQKK--GDSLLVTDLDSTNGTFIDEKRLRSGVVAVASPGSRITFGDT 159 (195)
Q Consensus 82 ~~~l~~~~~~IGR~~~~~di~l~~~~VSr~Ha~I~~~--~~~~~l~Dl~S~nGT~VNg~~l~~~~~~~L~~gd~I~lG~~ 159 (195)
.++|..+.++|||.+. -.|.|...||++..+..+ .+.+.+..|| .|.+-|||+.+.++....|++||.+.|=..
T Consensus 26 ~~~~~~~~~~~gr~pe---t~i~d~~cs~~qv~l~a~~~~~~v~~k~lg-~np~~~~~~~~~~~~~~~l~~g~~l~~v~~ 101 (526)
T TIGR01663 26 FIHLDAGALFLGRGPE---TGIRDRKCSKRQIELQADLEKATVALKQLG-VNPCGTGGLELKPGGEGELGHGDLLEIVNG 101 (526)
T ss_pred eeccCCCceEEccCcc---cccchhhhchhhheeeecccCceEEEEEcc-CCCcccCceEecCCCeeeecCCCEEEEecc
Confidence 4667778899999987 466799999999998765 4778899996 899999999999999999999999988443
No 17
>KOG0241 consensus Kinesin-like protein [Cytoskeleton]
Probab=96.47 E-value=0.013 Score=57.38 Aligned_cols=100 Identities=17% Similarity=0.236 Sum_probs=74.7
Q ss_pred CCCEEEEEccCCCcceecccCCCCceEEECCCeEEEcCCCCCCCEEeCCCCcCccceEEEEEC-CEEEEEeCCCCCceEE
Q 040067 57 AERWLLQPVGDGDTSHIGFKVPMPDAFEIASTEVTVGRLPERADMVIPVATVSGLHARIQKKG-DSLLVTDLDSTNGTFI 135 (195)
Q Consensus 57 ~~~~~L~~~~~g~~~~i~~~~~~~~~~~l~~~~~~IGR~~~~~di~l~~~~VSr~Ha~I~~~~-~~~~l~Dl~S~nGT~V 135 (195)
..+.+|+...+....... -+|.+. +...||-..+ -||++..-.|-++||.|..+. +.+++..+. ...++|
T Consensus 443 dDK~ylvnlnadP~lnel------lvyyl~-~~tlig~~~~-~~i~l~glgi~p~h~vidI~~dg~l~~~p~~-~~R~~V 513 (1714)
T KOG0241|consen 443 DDKCYLVNLNADPALNEL------LVYYLK-DHTLIGLFKS-QDIQLSGLGIQPKHCVIDIESDGELRLTPLL-NARSCV 513 (1714)
T ss_pred ccceEEEeccCCccHHHH------HHHhhc-CceeeccccC-cceeeecCcccCccceeeeccCCcEEecccc-cceeee
Confidence 457777765444332111 224443 4568898877 899999999999999998876 558888884 458999
Q ss_pred CCEEccCCceEECCCCCEEEECCceEEEEEeecc
Q 040067 136 DEKRLRSGVVAVASPGSRITFGDTHLAMFRVSKI 169 (195)
Q Consensus 136 Ng~~l~~~~~~~L~~gd~I~lG~~~~~~~~~~~~ 169 (195)
||..+.. +..|.+||+|-.|..++ |++...
T Consensus 514 NGs~v~~--~t~L~~GdRiLwGnnHF--FrvN~P 543 (1714)
T KOG0241|consen 514 NGSLVCS--TTQLWHGDRILWGNNHF--FRVNLP 543 (1714)
T ss_pred cCceecc--ccccccCceEEecccce--EEecCc
Confidence 9999988 69999999999999986 665443
No 18
>PRK15367 type III secretion system protein SsaD; Provisional
Probab=90.65 E-value=1.9 Score=38.80 Aligned_cols=87 Identities=13% Similarity=0.267 Sum_probs=65.2
Q ss_pred CCEEEEEccCCCcceecccCCCCceEEECCCeEEEcCCCCCCCEEeCCCCcCccceEEEEECCEEEEEeCCCCCceEECC
Q 040067 58 ERWLLQPVGDGDTSHIGFKVPMPDAFEIASTEVTVGRLPERADMVIPVATVSGLHARIQKKGDSLLVTDLDSTNGTFIDE 137 (195)
Q Consensus 58 ~~~~L~~~~~g~~~~i~~~~~~~~~~~l~~~~~~IGR~~~~~di~l~~~~VSr~Ha~I~~~~~~~~l~Dl~S~nGT~VNg 137 (195)
..|-|...++.-.+ ++..|..+.+++|-. + |||.++=+. ..-..+..+.+++++.-- .--+||||
T Consensus 3 ~~~Klr~Lng~L~G---------rEl~Lp~G~~tlG~~-g-cDi~lpL~~--~~~~~L~i~e~gi~l~~~--~~~vwVnG 67 (395)
T PRK15367 3 SSWKIRFLGHVLQG---------REVWLNEGNLSLGEK-G-CDICIPLTI--NEKIILREQADSLFVDAG--KARVRVNG 67 (395)
T ss_pred cceeeeecCCcccC---------cEEecCCCceeecCC-C-ceEEEECCC--CCEEEEEEcCCcEEEecC--CceEEECC
Confidence 34777767666555 899999999999984 4 999988544 334456677788887532 34689999
Q ss_pred EEccCCceEECCCCCEEEECCceE
Q 040067 138 KRLRSGVVAVASPGSRITFGDTHL 161 (195)
Q Consensus 138 ~~l~~~~~~~L~~gd~I~lG~~~~ 161 (195)
.+-..+ .+|.-+..|.+.+..+
T Consensus 68 ~~~~~~--~~LPl~q~Ie~aG~~~ 89 (395)
T PRK15367 68 RRFNPN--KPLPSSGVLQVAGVAI 89 (395)
T ss_pred EEcCCC--CCCCCcchhhhcceEE
Confidence 988775 4588888999999877
No 19
>TIGR02988 YaaA_near_RecF S4 domain protein YaaA. This small protein has a single S4 domain (pfam01479), as do bacterial ribosomal protein S4, some pseudouridine synthases, tyrosyl-tRNA synthetases. The S4 domain may bind RNA. Members of this protein family are found almost exclusively in the Firmicutes, and almost invariably just a few nucleotides upstream of the gene for the DNA replication and repair protein RecF. The few members of this family that are not near recF are found instead near dnaA and/or dnaN, the usual neighbors of recF, near the origin of replication. The conserved location suggests a possible role in replication in the Firmicutes lineage.
Probab=76.99 E-value=3.3 Score=26.60 Aligned_cols=25 Identities=20% Similarity=0.258 Sum_probs=19.9
Q ss_pred CCceEECCEEc-cCCceEECCCCCEEEE
Q 040067 130 TNGTFIDEKRL-RSGVVAVASPGSRITF 156 (195)
Q Consensus 130 ~nGT~VNg~~l-~~~~~~~L~~gd~I~l 156 (195)
.+..+|||+.+ .+ ...|..||+|.|
T Consensus 33 ~G~V~VNg~~~~~~--~~~l~~Gd~v~i 58 (59)
T TIGR02988 33 ENEVLVNGELENRR--GKKLYPGDVIEI 58 (59)
T ss_pred cCCEEECCEEccCC--CCCCCCCCEEEe
Confidence 35689999988 44 379999999976
No 20
>COG2501 S4-like RNA binding protein [Replication, recombination, and repair]
Probab=76.88 E-value=4.7 Score=27.67 Aligned_cols=33 Identities=3% Similarity=-0.020 Sum_probs=26.0
Q ss_pred CCceEECCEEccCCceEECCCCCEEEECCceEEE
Q 040067 130 TNGTFIDEKRLRSGVVAVASPGSRITFGDTHLAM 163 (195)
Q Consensus 130 ~nGT~VNg~~l~~~~~~~L~~gd~I~lG~~~~~~ 163 (195)
.+.++|||+.-... ...|..||+|.|.+..+.+
T Consensus 36 eg~V~vNGe~EtRR-gkKlr~gd~V~i~~~~~~v 68 (73)
T COG2501 36 EGEVKVNGEVETRR-GKKLRDGDVVEIPGQRYQV 68 (73)
T ss_pred CCeEEECCeeeecc-CCEeecCCEEEECCEEEEE
Confidence 35699999866542 4899999999999987643
No 21
>PF13275 S4_2: S4 domain; PDB: 1P9K_A.
Probab=75.68 E-value=2.1 Score=28.66 Aligned_cols=32 Identities=6% Similarity=0.077 Sum_probs=18.9
Q ss_pred CceEECCEEccCCceEECCCCCEEEECCceEEE
Q 040067 131 NGTFIDEKRLRSGVVAVASPGSRITFGDTHLAM 163 (195)
Q Consensus 131 nGT~VNg~~l~~~~~~~L~~gd~I~lG~~~~~~ 163 (195)
+.++|||+..... ...|.+||+|.|++..+.+
T Consensus 33 g~V~VNGe~e~rr-g~Kl~~GD~V~~~~~~~~V 64 (65)
T PF13275_consen 33 GEVKVNGEVETRR-GKKLRPGDVVEIDGEEYRV 64 (65)
T ss_dssp HHHEETTB----S-S----SSEEEEETTEEEEE
T ss_pred CceEECCEEcccc-CCcCCCCCEEEECCEEEEE
Confidence 4578999865542 4899999999998877643
No 22
>PRK01777 hypothetical protein; Validated
Probab=75.07 E-value=3.4 Score=29.67 Aligned_cols=28 Identities=25% Similarity=0.308 Sum_probs=22.8
Q ss_pred eCCCCCceEECCEEccCCceEECCCCCEEEE
Q 040067 126 DLDSTNGTFIDEKRLRSGVVAVASPGSRITF 156 (195)
Q Consensus 126 Dl~S~nGT~VNg~~l~~~~~~~L~~gd~I~l 156 (195)
|+ +.+-..|||+....+ ..|++||+|.|
T Consensus 46 ~~-~~~~vgI~Gk~v~~d--~~L~dGDRVeI 73 (95)
T PRK01777 46 DL-AKNKVGIYSRPAKLT--DVLRDGDRVEI 73 (95)
T ss_pred cc-ccceEEEeCeECCCC--CcCCCCCEEEE
Confidence 44 457788999999874 89999999974
No 23
>PRK11507 ribosome-associated protein; Provisional
Probab=75.00 E-value=6.4 Score=26.78 Aligned_cols=31 Identities=10% Similarity=0.127 Sum_probs=24.2
Q ss_pred CceEECCEEccCCceEECCCCCEEEECCceEE
Q 040067 131 NGTFIDEKRLRSGVVAVASPGSRITFGDTHLA 162 (195)
Q Consensus 131 nGT~VNg~~l~~~~~~~L~~gd~I~lG~~~~~ 162 (195)
+.+.|||+.-..- ...|.+||+|.|++..+.
T Consensus 37 g~V~VNGeve~rR-gkKl~~GD~V~~~g~~~~ 67 (70)
T PRK11507 37 GQVKVDGAVETRK-RCKIVAGQTVSFAGHSVQ 67 (70)
T ss_pred CceEECCEEeccc-CCCCCCCCEEEECCEEEE
Confidence 5689999854432 479999999999997653
No 24
>smart00363 S4 S4 RNA-binding domain.
Probab=74.06 E-value=5.9 Score=24.02 Aligned_cols=27 Identities=15% Similarity=0.358 Sum_probs=21.1
Q ss_pred CCceEECCEEc-cCCceEECCCCCEEEECC
Q 040067 130 TNGTFIDEKRL-RSGVVAVASPGSRITFGD 158 (195)
Q Consensus 130 ~nGT~VNg~~l-~~~~~~~L~~gd~I~lG~ 158 (195)
.+..+|||+.+ .+ ...|..||.|.+-.
T Consensus 25 ~g~i~vng~~~~~~--~~~l~~gd~i~~~~ 52 (60)
T smart00363 25 QGRVKVNGKKVTKP--SYIVKPGDVISVRG 52 (60)
T ss_pred cCCEEECCEEecCC--CeEeCCCCEEEEcc
Confidence 35689999988 55 47889999988754
No 25
>PF01479 S4: S4 domain; InterPro: IPR002942 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. The S4 domain is a small domain consisting of 60-65 amino acid residues that was detected in the bacterial ribosomal protein S4, eukaryotic ribosomal S9, two families of pseudouridine synthases, a novel family of predicted RNA methylases, a yeast protein containing a pseudouridine synthetase and a deaminase domain, bacterial tyrosyl-tRNA synthetases, and a number of uncharacterised, small proteins that may be involved in translation regulation []. The S4 domain probably mediates binding to RNA.; GO: 0003723 RNA binding; PDB: 3BBU_A 1DM9_B 2K6P_A 3U5G_E 3U5C_E 3IZB_D 2XZM_D 2XZN_D 3O30_E 3O2Z_E ....
Probab=70.75 E-value=2.8 Score=25.53 Aligned_cols=23 Identities=17% Similarity=0.362 Sum_probs=18.4
Q ss_pred CCceEECCEEcc-CCceEECCCCCEE
Q 040067 130 TNGTFIDEKRLR-SGVVAVASPGSRI 154 (195)
Q Consensus 130 ~nGT~VNg~~l~-~~~~~~L~~gd~I 154 (195)
.++.+|||+.+. ++ ..+..||+|
T Consensus 25 ~g~V~VNg~~v~~~~--~~v~~~d~I 48 (48)
T PF01479_consen 25 QGRVKVNGKVVKDPS--YIVKPGDVI 48 (48)
T ss_dssp TTTEEETTEEESSTT--SBESTTEEE
T ss_pred CCEEEECCEEEcCCC--CCCCCcCCC
Confidence 367899999998 54 778888876
No 26
>smart00797 AHS2 Allophanate hydrolase subunit 2. This domain represents subunit 2 of allophanate hydrolase (AHS2).
Probab=66.56 E-value=21 Score=30.71 Aligned_cols=47 Identities=9% Similarity=0.168 Sum_probs=32.8
Q ss_pred eEEEEECCEEEEEeCCCCCceEECCEEccCCceEECCCCCEEEECCce
Q 040067 113 ARIQKKGDSLLVTDLDSTNGTFIDEKRLRSGVVAVASPGSRITFGDTH 160 (195)
Q Consensus 113 a~I~~~~~~~~l~Dl~S~nGT~VNg~~l~~~~~~~L~~gd~I~lG~~~ 160 (195)
+++.+....++.. .|..-...|||+++.....+.++.||+|+||...
T Consensus 38 ~~l~f~~~~~iAi-tGA~~~~~ln~~~~~~~~~~~v~~Gd~L~~g~~~ 84 (280)
T smart00797 38 PTLRFTADAVIAL-TGADFPATLDGQPVPPWKPFLVRAGQVLSLGAPK 84 (280)
T ss_pred EEEEECCCcEEEE-eCCCCeeeECCEEcCCCeEEEECCCCEEEeCCCC
Confidence 3444444433322 2445567799999998888999999999998654
No 27
>COG1188 Ribosome-associated heat shock protein implicated in the recycling of the 50S subunit (S4 paralog) [Translation, ribosomal structure and biogenesis]
Probab=65.71 E-value=11 Score=27.39 Aligned_cols=37 Identities=11% Similarity=0.235 Sum_probs=25.9
Q ss_pred CceEECCEEccCCceEECCCCCEEEEC--CceEEEEEeeccC
Q 040067 131 NGTFIDEKRLRSGVVAVASPGSRITFG--DTHLAMFRVSKID 170 (195)
Q Consensus 131 nGT~VNg~~l~~~~~~~L~~gd~I~lG--~~~~~~~~~~~~~ 170 (195)
.-+.|||+..++. ..++.||+|.|. ...+ .+.+....
T Consensus 34 GrV~vNG~~aKpS--~~VK~GD~l~i~~~~~~~-~v~Vl~~~ 72 (100)
T COG1188 34 GRVKVNGQRAKPS--KEVKVGDILTIRFGNKEF-TVKVLALG 72 (100)
T ss_pred CeEEECCEEcccc--cccCCCCEEEEEeCCcEE-EEEEEecc
Confidence 3478999999885 799999988764 4433 44554443
No 28
>COG1984 DUR1 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]
Probab=62.58 E-value=29 Score=30.36 Aligned_cols=51 Identities=10% Similarity=0.133 Sum_probs=39.5
Q ss_pred ccceEEEEECCEEEEEeCCCCCceEECCEEccCCceEECCCCCEEEECCceE
Q 040067 110 GLHARIQKKGDSLLVTDLDSTNGTFIDEKRLRSGVVAVASPGSRITFGDTHL 161 (195)
Q Consensus 110 r~Ha~I~~~~~~~~l~Dl~S~nGT~VNg~~l~~~~~~~L~~gd~I~lG~~~~ 161 (195)
--...|++..+.++..- |..-..++||+.+.....+.++.||+|+||....
T Consensus 56 l~g~t~~f~~~~~ialT-Gad~~a~ld~~~i~~~~~~~vk~Gq~L~~g~~~~ 106 (314)
T COG1984 56 LGGPTLEFTSDALIALT-GADCEATLDGQEVPPWSPYLVKAGQTLKLGRPKQ 106 (314)
T ss_pred cCCeEEEEecCcEEEEe-CCcccceECCEEcCCCceEEccCCCEEEecCCCC
Confidence 34457777776655443 4466688999999999999999999999998654
No 29
>COG5025 Transcription factor of the Forkhead/HNF3 family [Transcription]
Probab=62.55 E-value=7.4 Score=37.05 Aligned_cols=61 Identities=18% Similarity=0.258 Sum_probs=49.0
Q ss_pred CCcCccceEEEEEC--CEEEEEeCCCCCceEECCEEccCCc---eEECCCCCEEEECCceEEEEEeec
Q 040067 106 ATVSGLHARIQKKG--DSLLVTDLDSTNGTFIDEKRLRSGV---VAVASPGSRITFGDTHLAMFRVSK 168 (195)
Q Consensus 106 ~~VSr~Ha~I~~~~--~~~~l~Dl~S~nGT~VNg~~l~~~~---~~~L~~gd~I~lG~~~~~~~~~~~ 168 (195)
..+++.|+.|.++. +.|++.+.+ +||..|+|++..-+. +..|..|..+..|.... +|.+..
T Consensus 125 k~~~~~~~sIr~Nls~~~a~~~i~g-~~g~~~~g~~~~igP~~~~~~l~~g~~~~~~~~~~-~~~~p~ 190 (610)
T COG5025 125 KVVSRWQNSIRHNLSLNDAFIKIEG-RNGAKVKGHFWSIGPGHETQFLKSGLRLDGGGKQM-MFTLPS 190 (610)
T ss_pred cccchhhhhhhcccccCceEEEEec-cCCccccceeeccCCCccceeeccccccccccccc-cccCcc
Confidence 67899999998876 789999986 899999999766543 68899999999888877 454433
No 30
>PF02626 AHS2: Allophanate hydrolase subunit 2; InterPro: IPR003778 Allophanate hydrolase catalyses the second reaction in an ATP-dependent, two-step degradation of urea to ammonia and C02. This follows the action of the biotin-containing urea carboxylase. Saccharomyces cerevisiae can use urea as a sole nitrogen source via this degradation pathway []. In yeast, the fusion of allophanate hydrolase to urea carboxylase is called urea amidolyase. In bacteria, the second step in the urea degradation pathway is also the ATP-dependent allophanate hydrolase. The gene encoding this enzyme is found adjacent to the urea carboxylase gene []. Allophanate hydrolase has strict substrate specificity, as analogues of allophanate are not hydrolysed by it []. This domain represents subunit 2 of allophanate hydrolase (AHS2) which is found in urea carboxylase.; PDB: 3MML_G 3VA7_A 3OEP_A 3OPF_C 3ORE_B.
Probab=62.26 E-value=15 Score=31.43 Aligned_cols=32 Identities=13% Similarity=0.162 Sum_probs=25.0
Q ss_pred CCCCceEECCEEccCCceEECCCCCEEEECCc
Q 040067 128 DSTNGTFIDEKRLRSGVVAVASPGSRITFGDT 159 (195)
Q Consensus 128 ~S~nGT~VNg~~l~~~~~~~L~~gd~I~lG~~ 159 (195)
|..-...|||+++.....+.++.||+|+||..
T Consensus 52 Ga~~~~~lng~~~~~~~~~~v~~Gd~L~~~~~ 83 (271)
T PF02626_consen 52 GADFEATLNGKPVPMWQPFLVKAGDVLKFGPP 83 (271)
T ss_dssp ESCEEEEETTEEE-TTSEEEE-TT-EEEEEEE
T ss_pred CCCCceEECCEEccCCEEEEECCCCEEEecCC
Confidence 44566789999999999999999999999875
No 31
>cd01764 Urm1 Urm1-like ubuitin domain. Urm1 (Ubiquitin-Related Modifier1) The Urm1 fold, like those of two closely related proteins MoaD (molybdopterin synthase) and ThiS (sulfur carrier protein), is similar to that of ubiquitin although there is little or no sequence similarity. The C-terminal glycines of Urm1 are conjugated to an E1-like protein Uba4 as part of a novel conjugation system in yeast. The Urm1 fold is found only in eukaryotes.
Probab=61.62 E-value=7.6 Score=27.67 Aligned_cols=24 Identities=13% Similarity=0.310 Sum_probs=18.9
Q ss_pred eEECCEEcc--CCceEECCCCCEEEE
Q 040067 133 TFIDEKRLR--SGVVAVASPGSRITF 156 (195)
Q Consensus 133 T~VNg~~l~--~~~~~~L~~gd~I~l 156 (195)
.+|||..+. .+..+.|++||.|.|
T Consensus 62 VlvN~~di~~l~g~~t~L~dgD~v~i 87 (94)
T cd01764 62 VLINDTDWELLGEEDYILEDGDHVVF 87 (94)
T ss_pred EEECCccccccCCcccCCCCcCEEEE
Confidence 577998765 355699999999976
No 32
>cd00165 S4 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized functional similarity between these three protein classes.
Probab=61.27 E-value=13 Score=23.22 Aligned_cols=27 Identities=15% Similarity=0.292 Sum_probs=21.0
Q ss_pred CCceEECCEEc-cCCceEECCCCCEEEECC
Q 040067 130 TNGTFIDEKRL-RSGVVAVASPGSRITFGD 158 (195)
Q Consensus 130 ~nGT~VNg~~l-~~~~~~~L~~gd~I~lG~ 158 (195)
.++.+|||+.+ .+ ...+..||.|.+..
T Consensus 25 ~g~V~vn~~~~~~~--~~~v~~~d~i~i~~ 52 (70)
T cd00165 25 HGHVLVNGKVVTKP--SYKVKPGDVIEVDG 52 (70)
T ss_pred cCCEEECCEEccCC--ccCcCCCCEEEEcC
Confidence 46789999988 44 37888999888764
No 33
>TIGR01687 moaD_arch MoaD family protein, archaeal. Members of this family appear to be archaeal versions of MoaD, subunit 1 of molybdopterin converting factor. This model has been split from the bacterial/eukaryotic equivalog model TIGR01682 because the presence of two members of this family in a substantial number of archaeal species suggests that roles might not be interchangeable.
Probab=61.14 E-value=9.3 Score=26.31 Aligned_cols=25 Identities=8% Similarity=0.194 Sum_probs=18.6
Q ss_pred ceEECCEEccCCceEECCCCCEEEE
Q 040067 132 GTFIDEKRLRSGVVAVASPGSRITF 156 (195)
Q Consensus 132 GT~VNg~~l~~~~~~~L~~gd~I~l 156 (195)
-++|||+.+......+|++||+|.|
T Consensus 57 ~v~vN~~~v~~~~~~~l~dgdev~i 81 (88)
T TIGR01687 57 IILVNGRNVDWGLGTELKDGDVVAI 81 (88)
T ss_pred EEEECCEecCccCCCCCCCCCEEEE
Confidence 3577888877653358999999875
No 34
>PRK06437 hypothetical protein; Provisional
Probab=60.48 E-value=14 Score=24.53 Aligned_cols=23 Identities=0% Similarity=-0.039 Sum_probs=18.0
Q ss_pred ceEECCEEccCCceEECCCCCEEEE
Q 040067 132 GTFIDEKRLRSGVVAVASPGSRITF 156 (195)
Q Consensus 132 GT~VNg~~l~~~~~~~L~~gd~I~l 156 (195)
...+||+.+.. ...|++||.|.|
T Consensus 38 aV~vNg~iv~~--~~~L~dgD~Vei 60 (67)
T PRK06437 38 VVIVNGSPVLE--DHNVKKEDDVLI 60 (67)
T ss_pred EEEECCEECCC--ceEcCCCCEEEE
Confidence 34578888875 589999999975
No 35
>cd00754 MoaD Ubiquitin domain of MoaD-like proteins. MoaD family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor of a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and eukaryotes. Moco contains a tricyclic pyranopterin, termed molybdopterin (MPT), that contains the cis-dithiolene group responsible for molybdenum ligation. This dithiolene group is generated by MPT synthase, the second major step in Moco biosynthesis. MPT synthase consists of a large (MoeE) and small (MoaD) subunit. The small subunit is inserted into the lare subunit to form the active site. The small subunit, which is structurally similar to ubiquitin, contains a C-terminal thiocarboxylated glycine residue that serves as a sulfur donor for the synthesis of the MPT dithiolene group.
Probab=58.74 E-value=11 Score=25.09 Aligned_cols=24 Identities=8% Similarity=0.120 Sum_probs=19.1
Q ss_pred CceEECCEEccCCceEECCCCCEEEE
Q 040067 131 NGTFIDEKRLRSGVVAVASPGSRITF 156 (195)
Q Consensus 131 nGT~VNg~~l~~~~~~~L~~gd~I~l 156 (195)
.-.+|||+.+.. ...|++||.|.|
T Consensus 50 ~~v~vNg~~v~~--~~~l~~gD~v~i 73 (80)
T cd00754 50 VRIAVNGEYVRL--DTPLKDGDEVAI 73 (80)
T ss_pred EEEEECCeEcCC--CcccCCCCEEEE
Confidence 346788888875 478999999975
No 36
>cd00565 ThiS ThiaminS ubiquitin-like sulfur carrier protein. ThiS (ThiaminS) is a sulfur carrier protein involved in thiamin biosynthesis in bacteria. The ThiS fold, like those of two closely related proteins MoaD and Urm1, is similar to that of ubiquitin although there is little or no sequence similarity.
Probab=56.90 E-value=14 Score=24.11 Aligned_cols=24 Identities=13% Similarity=0.206 Sum_probs=17.7
Q ss_pred eEECCEEccCC--ceEECCCCCEEEE
Q 040067 133 TFIDEKRLRSG--VVAVASPGSRITF 156 (195)
Q Consensus 133 T~VNg~~l~~~--~~~~L~~gd~I~l 156 (195)
+.|||+.+... ....|++||.|.|
T Consensus 33 V~vNg~~v~~~~~~~~~L~~gD~V~i 58 (65)
T cd00565 33 VALNGEIVPRSEWASTPLQDGDRIEI 58 (65)
T ss_pred EEECCEEcCHHHcCceecCCCCEEEE
Confidence 45788877763 2378999999875
No 37
>TIGR00724 urea_amlyse_rel biotin-dependent carboxylase uncharacterized domain. Urea amidolyase of Saccharomyces cerevisiae is a 1835 amino acid protein with an amidase domain, a biotin/lipoyl cofactor attachment domain, a carbamoyl-phosphate synthase L chain-like domain, and uncharacterized regions. It has both urea carboxylase and allophanate hydrolase activities. This alignment models a domain that represents uncharacterized prokaryotic proteins of about 300 amino acids, regions of prokaryotic urea carboxylase and of the urea carboxylase region of yeast urea amidolyase, and regions of other biotin-containing proteins.
Probab=56.09 E-value=34 Score=29.90 Aligned_cols=33 Identities=6% Similarity=0.116 Sum_probs=26.9
Q ss_pred CCCCceEECCEEccC-CceEECCCCCEEEECCce
Q 040067 128 DSTNGTFIDEKRLRS-GVVAVASPGSRITFGDTH 160 (195)
Q Consensus 128 ~S~nGT~VNg~~l~~-~~~~~L~~gd~I~lG~~~ 160 (195)
|..-...|||+++.. ...+.++.||+|.||...
T Consensus 74 GA~~~~~lng~~~~~~~~~~~v~~Gd~L~~g~~~ 107 (314)
T TIGR00724 74 GADTDLCLNDGQVIPQWRPYEVKRGQILSLGRLK 107 (314)
T ss_pred CCCCcceeCCcccCCCceEEEECCCCEEEeCCCC
Confidence 445678899999866 667999999999998654
No 38
>PF14478 DUF4430: Domain of unknown function (DUF4430); PDB: 3U7Z_B 2BB5_A.
Probab=53.32 E-value=12 Score=24.73 Aligned_cols=23 Identities=17% Similarity=0.416 Sum_probs=13.1
Q ss_pred EECCEEccCCc-eEECCCCCEEEE
Q 040067 134 FIDEKRLRSGV-VAVASPGSRITF 156 (195)
Q Consensus 134 ~VNg~~l~~~~-~~~L~~gd~I~l 156 (195)
+|||+....+. .+.|++||.|.|
T Consensus 44 ~vNG~~~~~ga~~~~l~~GD~i~~ 67 (68)
T PF14478_consen 44 YVNGESANVGAGSYKLKDGDKITW 67 (68)
T ss_dssp EETTEE-SS-CCC-B--TTEEEEE
T ss_pred EECCEEhhcCcceeEeCCCCEEEe
Confidence 56777665543 489999999976
No 39
>PF14451 Ub-Mut7C: Mut7-C ubiquitin
Probab=53.18 E-value=19 Score=25.02 Aligned_cols=24 Identities=8% Similarity=0.109 Sum_probs=19.7
Q ss_pred ceEECCEEccCCceEECCCCCEEEEC
Q 040067 132 GTFIDEKRLRSGVVAVASPGSRITFG 157 (195)
Q Consensus 132 GT~VNg~~l~~~~~~~L~~gd~I~lG 157 (195)
-.+|||+.+... +.+++||.|.+=
T Consensus 51 ~i~vNG~~v~~~--~~~~~Gd~v~V~ 74 (81)
T PF14451_consen 51 LILVNGRPVDFD--YRLKDGDRVAVY 74 (81)
T ss_pred EEEECCEECCCc--ccCCCCCEEEEE
Confidence 367899999884 899999999753
No 40
>cd01666 TGS_DRG_C TGS_DRG_C: DRG (developmentally regulated GTP-binding protein) represents a family of GTP-binding proteins that includes two members, DRG1 and DRG2. DRG1 and DRG2 have a C-terminal TGS domain (named after the ThrRS, GTPase, and SpoT proteins where it occurs) with a predominantly beta-sheet structure. The function of TGS is unknown but its presence in two types of regulatory proteins (the DRG GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role.
Probab=49.75 E-value=15 Score=25.10 Aligned_cols=20 Identities=10% Similarity=0.094 Sum_probs=17.1
Q ss_pred ECCEEccCCceEECCCCCEEEE
Q 040067 135 IDEKRLRSGVVAVASPGSRITF 156 (195)
Q Consensus 135 VNg~~l~~~~~~~L~~gd~I~l 156 (195)
++|+++... ..|++||+|+|
T Consensus 54 ~~gq~Vgl~--~~L~d~DvVeI 73 (75)
T cd01666 54 HSPQRVGLD--HVLEDEDVVQI 73 (75)
T ss_pred CCCeECCCC--CEecCCCEEEE
Confidence 588888884 89999999986
No 41
>PF02824 TGS: TGS domain; InterPro: IPR004095 The TGS domain is present in a number of enzymes, for example, in threonyl-tRNA synthetase (ThrRS), GTPase, and guanosine-3',5'-bis(diphosphate) 3'-pyrophosphohydrolase (SpoT) []. The TGS domain is also present at the amino terminus of the uridine kinase from the spirochaete Treponema pallidum (but not any other organism, including the related spirochaete Borrelia burgdorferi). TGS is a small domain that consists of ~50 amino acid residues and is predicted to possess a predominantly beta-sheet structure. There is no direct information on the functions of the TGS domain, but its presence in two types of regulatory proteins (the GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role []. ; PDB: 1WXQ_A 1NYR_B 1NYQ_B 2KMM_A 1WWT_A 1TKE_A 1TKG_A 1TJE_A 1QF6_A 1TKY_A ....
Probab=49.54 E-value=12 Score=24.24 Aligned_cols=24 Identities=4% Similarity=0.054 Sum_probs=18.2
Q ss_pred CceEECCEEccCCceEECCCCCEEEE
Q 040067 131 NGTFIDEKRLRSGVVAVASPGSRITF 156 (195)
Q Consensus 131 nGT~VNg~~l~~~~~~~L~~gd~I~l 156 (195)
-+..|||+++.-. .+|.+||+|+|
T Consensus 35 ~~A~Vng~~vdl~--~~L~~~d~v~i 58 (60)
T PF02824_consen 35 VAAKVNGQLVDLD--HPLEDGDVVEI 58 (60)
T ss_dssp EEEEETTEEEETT--SBB-SSEEEEE
T ss_pred eEEEEcCEECCCC--CCcCCCCEEEE
Confidence 3566899888774 79999999976
No 42
>PRK06488 sulfur carrier protein ThiS; Validated
Probab=48.68 E-value=15 Score=23.93 Aligned_cols=24 Identities=21% Similarity=0.278 Sum_probs=17.2
Q ss_pred eEECCEEccCCc--eEECCCCCEEEE
Q 040067 133 TFIDEKRLRSGV--VAVASPGSRITF 156 (195)
Q Consensus 133 T~VNg~~l~~~~--~~~L~~gd~I~l 156 (195)
.-+|++.+++.. ...|++||.|.|
T Consensus 33 vavN~~iv~~~~~~~~~L~dgD~Iei 58 (65)
T PRK06488 33 TAVNGELVHKEARAQFVLHEGDRIEI 58 (65)
T ss_pred EEECCEEcCHHHcCccccCCCCEEEE
Confidence 345777766532 378999999975
No 43
>TIGR01683 thiS thiamine biosynthesis protein ThiS. This model represents ThiS, a small thiamine-biosynthesis protein related to MoaD, a molybdenum cofactor biosynthesis protein. Both proteins are involved in sulfur transfer. ThiS has a conserved Gly-Gly C-terminus that is modified, in reactions requiring ThiI, ThiF, IscS, and a sulfur atom from Cys, into the thiocarboxylate that provides the sulfur for thiazole biosynthesis.
Probab=47.57 E-value=22 Score=23.02 Aligned_cols=23 Identities=13% Similarity=0.235 Sum_probs=16.6
Q ss_pred EECCEEccCCc--eEECCCCCEEEE
Q 040067 134 FIDEKRLRSGV--VAVASPGSRITF 156 (195)
Q Consensus 134 ~VNg~~l~~~~--~~~L~~gd~I~l 156 (195)
.+||+.+.+.. ...|++||.|.|
T Consensus 33 ~vN~~iv~~~~~~~~~L~~gD~vei 57 (64)
T TIGR01683 33 AVNGEIVPRSEWDDTILKEGDRIEI 57 (64)
T ss_pred EECCEEcCHHHcCceecCCCCEEEE
Confidence 46777776432 368999999975
No 44
>PRK05659 sulfur carrier protein ThiS; Validated
Probab=44.91 E-value=21 Score=23.08 Aligned_cols=23 Identities=4% Similarity=0.111 Sum_probs=15.0
Q ss_pred EECCEEccCC--ceEECCCCCEEEE
Q 040067 134 FIDEKRLRSG--VVAVASPGSRITF 156 (195)
Q Consensus 134 ~VNg~~l~~~--~~~~L~~gd~I~l 156 (195)
.+||+-+++. ....|++||+|.|
T Consensus 35 ~vNg~iv~r~~~~~~~l~~gD~vei 59 (66)
T PRK05659 35 EVNGEIVPRSQHASTALREGDVVEI 59 (66)
T ss_pred EECCeEeCHHHcCcccCCCCCEEEE
Confidence 3455555432 1378999999975
No 45
>PRK08364 sulfur carrier protein ThiS; Provisional
Probab=44.23 E-value=29 Score=23.03 Aligned_cols=21 Identities=10% Similarity=0.036 Sum_probs=16.1
Q ss_pred EECCEEccCCceEECCCCCEEEE
Q 040067 134 FIDEKRLRSGVVAVASPGSRITF 156 (195)
Q Consensus 134 ~VNg~~l~~~~~~~L~~gd~I~l 156 (195)
.+||+.+.. ...|++||.|.|
T Consensus 43 ~vNg~iv~~--~~~l~~gD~Vei 63 (70)
T PRK08364 43 KVNGKVALE--DDPVKDGDYVEV 63 (70)
T ss_pred EECCEECCC--CcCcCCCCEEEE
Confidence 467777765 478999999875
No 46
>PRK06944 sulfur carrier protein ThiS; Provisional
Probab=43.41 E-value=29 Score=22.32 Aligned_cols=24 Identities=8% Similarity=0.223 Sum_probs=16.9
Q ss_pred eEECCEEccCC--ceEECCCCCEEEE
Q 040067 133 TFIDEKRLRSG--VVAVASPGSRITF 156 (195)
Q Consensus 133 T~VNg~~l~~~--~~~~L~~gd~I~l 156 (195)
..+||+.+... ....|++||+|.|
T Consensus 33 v~vN~~~v~~~~~~~~~L~~gD~vei 58 (65)
T PRK06944 33 VAVNGDFVARTQHAARALAAGDRLDL 58 (65)
T ss_pred EEECCEEcCchhcccccCCCCCEEEE
Confidence 36677766542 2478999999975
No 47
>PRK07440 hypothetical protein; Provisional
Probab=42.87 E-value=27 Score=23.30 Aligned_cols=23 Identities=17% Similarity=0.293 Sum_probs=16.7
Q ss_pred EECCEEccCCc--eEECCCCCEEEE
Q 040067 134 FIDEKRLRSGV--VAVASPGSRITF 156 (195)
Q Consensus 134 ~VNg~~l~~~~--~~~L~~gd~I~l 156 (195)
-+||+.+++.. ...|++||.|.+
T Consensus 39 ~~N~~iv~r~~w~~~~L~~gD~IEI 63 (70)
T PRK07440 39 EYNGEILHRQFWEQTQVQPGDRLEI 63 (70)
T ss_pred EECCEEeCHHHcCceecCCCCEEEE
Confidence 35777777433 389999999975
No 48
>PRK10348 ribosome-associated heat shock protein Hsp15; Provisional
Probab=42.59 E-value=72 Score=24.39 Aligned_cols=37 Identities=14% Similarity=0.254 Sum_probs=25.2
Q ss_pred CceEECCEEccCCceEECCCCCEEEE--CCceEEEEEeeccC
Q 040067 131 NGTFIDEKRLRSGVVAVASPGSRITF--GDTHLAMFRVSKID 170 (195)
Q Consensus 131 nGT~VNg~~l~~~~~~~L~~gd~I~l--G~~~~~~~~~~~~~ 170 (195)
..++|||++.+++ ..+..||+|.| |...+ .+.|..+.
T Consensus 34 G~V~vnG~~~Kps--~~V~~gd~l~v~~~~~~~-~v~Vl~l~ 72 (133)
T PRK10348 34 GKVHYNGQRSKPS--KIVELNATLTLRQGNDER-TVIVKAIT 72 (133)
T ss_pred CCEEECCEECCCC--CccCCCCEEEEEECCEEE-EEEEeECc
Confidence 5578999997775 77889998876 44444 44554443
No 49
>PRK07696 sulfur carrier protein ThiS; Provisional
Probab=42.31 E-value=30 Score=22.83 Aligned_cols=23 Identities=13% Similarity=0.072 Sum_probs=16.9
Q ss_pred EECCEEccCCc--eEECCCCCEEEE
Q 040067 134 FIDEKRLRSGV--VAVASPGSRITF 156 (195)
Q Consensus 134 ~VNg~~l~~~~--~~~L~~gd~I~l 156 (195)
-+|++.+++.. ...|++||.|.+
T Consensus 36 ~vN~~iv~r~~w~~~~L~~gD~iEI 60 (67)
T PRK07696 36 ERNKDILQKDDHTDTSVFDGDQIEI 60 (67)
T ss_pred EECCEEeCHHHcCceecCCCCEEEE
Confidence 45777776643 388999999975
No 50
>PF02597 ThiS: ThiS family; InterPro: IPR003749 ThiS (thiaminS) is a 66 aa protein involved in sulphur transfer. ThiS is coded in the thiCEFSGH operon in Escherichia coli. This family of proteins have two conserved Glycines at the COOH terminus. Thiocarboxylate is formed at the last G in the activation process. Sulphur is transferred from ThiI to ThiS in a reaction catalysed by IscS []. MoaD, a protein involved in sulphur transfer during molybdopterin synthesis, is about the same length and shows limited sequence similarity to ThiS. Both have the conserved GG at the COOH end.; PDB: 1JW9_D 1JWB_D 1JWA_D 3BII_D 1NVI_D 1FMA_D 1FM0_D 2QIE_G 2Q5W_D 2K5P_A ....
Probab=39.83 E-value=15 Score=24.23 Aligned_cols=26 Identities=8% Similarity=0.199 Sum_probs=18.8
Q ss_pred CceEECCEEccC-CceEECCCCCEEEE
Q 040067 131 NGTFIDEKRLRS-GVVAVASPGSRITF 156 (195)
Q Consensus 131 nGT~VNg~~l~~-~~~~~L~~gd~I~l 156 (195)
--.+|||+.+.. +....|++||.|.|
T Consensus 44 ~~v~vN~~~v~~~~~~~~l~~gD~V~i 70 (77)
T PF02597_consen 44 VAVAVNGEIVPDDGLDTPLKDGDEVAI 70 (77)
T ss_dssp EEEEETTEEEGGGTTTSBEETTEEEEE
T ss_pred EEEEECCEEcCCccCCcCcCCCCEEEE
Confidence 446778887776 22378999999875
No 51
>TIGR01682 moaD molybdopterin converting factor, subunit 1, non-archaeal. The C-terminal Gly-Gly of this model is critical to function.
Probab=38.90 E-value=38 Score=22.83 Aligned_cols=22 Identities=18% Similarity=0.407 Sum_probs=17.6
Q ss_pred eEECCEEccCCceEECCCCCEEEE
Q 040067 133 TFIDEKRLRSGVVAVASPGSRITF 156 (195)
Q Consensus 133 T~VNg~~l~~~~~~~L~~gd~I~l 156 (195)
..||++.+.. ...|++||.|.|
T Consensus 52 v~vn~~~v~~--~~~l~dgDevai 73 (80)
T TIGR01682 52 VAVNEEYVTD--DALLNEGDEVAF 73 (80)
T ss_pred EEECCEEcCC--CcCcCCCCEEEE
Confidence 5678887775 489999999875
No 52
>COG5131 URM1 Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones]
Probab=38.42 E-value=43 Score=23.95 Aligned_cols=39 Identities=21% Similarity=0.250 Sum_probs=27.7
Q ss_pred CEEEEEeCCCCCce--EECCE--EccCCceEECCCCCEEEECC
Q 040067 120 DSLLVTDLDSTNGT--FIDEK--RLRSGVVAVASPGSRITFGD 158 (195)
Q Consensus 120 ~~~~l~Dl~S~nGT--~VNg~--~l~~~~~~~L~~gd~I~lG~ 158 (195)
..+++.+-.=+.|+ .||++ .+-..+.+.|.+||.|.|=.
T Consensus 49 ~sifie~g~lrpGiI~LINd~DWeLleke~y~ledgDiIvfis 91 (96)
T COG5131 49 DSIFIEHGELRPGIICLINDMDWELLEKERYPLEDGDIIVFIS 91 (96)
T ss_pred ceeeecCCCCcccEEEEEcCccHhhhhcccccCCCCCEEEEEe
Confidence 45677765446675 66887 45556679999999998743
No 53
>PRK06083 sulfur carrier protein ThiS; Provisional
Probab=38.17 E-value=27 Score=24.37 Aligned_cols=22 Identities=23% Similarity=0.368 Sum_probs=14.8
Q ss_pred ECCEEccCCc--eEECCCCCEEEE
Q 040067 135 IDEKRLRSGV--VAVASPGSRITF 156 (195)
Q Consensus 135 VNg~~l~~~~--~~~L~~gd~I~l 156 (195)
+||+-+++.. ...|++||.|.|
T Consensus 54 vNg~iVpr~~w~~t~L~egD~IEI 77 (84)
T PRK06083 54 INNQVVPRSEWQSTVLSSGDAISL 77 (84)
T ss_pred ECCEEeCHHHcCcccCCCCCEEEE
Confidence 4555555432 378999999975
No 54
>PLN02799 Molybdopterin synthase sulfur carrier subunit
Probab=37.44 E-value=40 Score=22.76 Aligned_cols=22 Identities=14% Similarity=0.225 Sum_probs=16.8
Q ss_pred eEECCEEccCCceEECCCCCEEEE
Q 040067 133 TFIDEKRLRSGVVAVASPGSRITF 156 (195)
Q Consensus 133 T~VNg~~l~~~~~~~L~~gd~I~l 156 (195)
..||++.+.. ...|++||.|.|
T Consensus 54 vavN~~~v~~--~~~l~dgDeVai 75 (82)
T PLN02799 54 LALNEEYTTE--SAALKDGDELAI 75 (82)
T ss_pred EEECCEEcCC--CcCcCCCCEEEE
Confidence 5677777654 478999999976
No 55
>COG2104 ThiS Sulfur transfer protein involved in thiamine biosynthesis [Coenzyme metabolism]
Probab=34.73 E-value=43 Score=22.44 Aligned_cols=24 Identities=13% Similarity=0.219 Sum_probs=16.7
Q ss_pred eEECCEEccCCc--eEECCCCCEEEE
Q 040067 133 TFIDEKRLRSGV--VAVASPGSRITF 156 (195)
Q Consensus 133 T~VNg~~l~~~~--~~~L~~gd~I~l 156 (195)
+-+||+.++... ...|+.||.|.+
T Consensus 36 v~vNg~iVpr~~~~~~~l~~gD~iev 61 (68)
T COG2104 36 VAVNGEIVPRSQWADTILKEGDRIEV 61 (68)
T ss_pred EEECCEEccchhhhhccccCCCEEEE
Confidence 345777777322 378999999975
No 56
>PRK08053 sulfur carrier protein ThiS; Provisional
Probab=34.17 E-value=47 Score=21.66 Aligned_cols=23 Identities=13% Similarity=0.260 Sum_probs=16.3
Q ss_pred EECCEEccCCc--eEECCCCCEEEE
Q 040067 134 FIDEKRLRSGV--VAVASPGSRITF 156 (195)
Q Consensus 134 ~VNg~~l~~~~--~~~L~~gd~I~l 156 (195)
-+|++-+++.. ...|++||.|.|
T Consensus 35 avN~~iv~r~~w~~~~L~~gD~Iei 59 (66)
T PRK08053 35 AINQQIIPREQWAQHIVQDGDQILL 59 (66)
T ss_pred EECCEEeChHHcCccccCCCCEEEE
Confidence 45777666432 367999999975
No 57
>PRK10626 hypothetical protein; Provisional
Probab=33.51 E-value=52 Score=27.72 Aligned_cols=41 Identities=10% Similarity=0.163 Sum_probs=30.8
Q ss_pred CCCEEeCC-CCcCccceEEEEECCEEEEEeCCCCCceEECCEEcc
Q 040067 98 RADMVIPV-ATVSGLHARIQKKGDSLLVTDLDSTNGTFIDEKRLR 141 (195)
Q Consensus 98 ~~di~l~~-~~VSr~Ha~I~~~~~~~~l~Dl~S~nGT~VNg~~l~ 141 (195)
.|++-+.+ -.|+..+.+|.-..+.+.| +. .|-.||||+++.
T Consensus 23 qC~V~l~~DV~Itpq~v~V~~~sg~l~I-~~--dg~L~inGk~v~ 64 (239)
T PRK10626 23 QCSVTPQDDVIISPQTVQVVGASGNLVI-SP--DGNVMRNGKQLS 64 (239)
T ss_pred CCCCCCCCCeEEcCCeEEEEecCCceEE-cC--CCCEEECCEEec
Confidence 38888875 5688899999888777555 43 367999999765
No 58
>cd01669 TGS_Ygr210_C TGS_Ygr210_C: The C-terminal TGS domain of Ygr210 GTP-binding protein which is a member of Obg-like family of GTPases, and present in archaea. Several Obg-like family members possess a C-terminal RNA-binding domain, the TGS domain, which is also present in threonyl-tRNA synthetase and in bacterial guanosine polyphosphatase SpoT. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information on the function of the TGS domain, but its presence in two types of regulatory proteins (the GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role.
Probab=31.04 E-value=46 Score=22.71 Aligned_cols=19 Identities=11% Similarity=0.020 Sum_probs=15.6
Q ss_pred CCEEccCCceEECCCCCEEEE
Q 040067 136 DEKRLRSGVVAVASPGSRITF 156 (195)
Q Consensus 136 Ng~~l~~~~~~~L~~gd~I~l 156 (195)
|++++.. .+.|++||+|+|
T Consensus 56 ~~~~vg~--~~~L~dgDvV~I 74 (76)
T cd01669 56 TGRRVGE--DYELKHRDVIKI 74 (76)
T ss_pred CCEEeCC--CcEecCCCEEEE
Confidence 6777776 489999999986
No 59
>TIGR02712 urea_carbox urea carboxylase. Members of this family are ATP-dependent urea carboxylase, including characterized members from Oleomonas sagaranensis (alpha class Proteobacterium) and yeasts such as Saccharomyces cerevisiae. The allophanate hydrolase domain of the yeast enzyme is not included in this model and is represented by an adjacent gene in Oleomonas sagaranensis. The fusion of urea carboxylase and allophanate hydrolase is designated urea amidolyase. The enzyme from Oleomonas sagaranensis was shown to be highly active on acetamide and formamide as well as urea.
Probab=29.53 E-value=1.8e+02 Score=30.23 Aligned_cols=33 Identities=12% Similarity=0.184 Sum_probs=28.9
Q ss_pred CCCCceEECCEEccCCceEECCCCCEEEECCce
Q 040067 128 DSTNGTFIDEKRLRSGVVAVASPGSRITFGDTH 160 (195)
Q Consensus 128 ~S~nGT~VNg~~l~~~~~~~L~~gd~I~lG~~~ 160 (195)
|..-...|||+++.....+.++.||+|+||...
T Consensus 523 Ga~~~~~l~g~~v~~~~~~~v~~G~~L~~g~~~ 555 (1201)
T TIGR02712 523 GAPAPATLDGQPVPQWKPITVKAGSTLSIGKIA 555 (1201)
T ss_pred CCCCcceECCEEcCCCeEEEECCCCEEEecCCC
Confidence 455677899999999888999999999999766
No 60
>PF11101 DUF2884: Protein of unknown function (DUF2884); InterPro: IPR021307 Some members in this bacterial family of proteins are annotated as YggN which currently has no known function.
Probab=29.38 E-value=73 Score=26.38 Aligned_cols=42 Identities=12% Similarity=0.195 Sum_probs=27.8
Q ss_pred CCEEeCC-CCcCccceEEEEECCEEEEEeCCCCCceEECCEEccC
Q 040067 99 ADMVIPV-ATVSGLHARIQKKGDSLLVTDLDSTNGTFIDEKRLRS 142 (195)
Q Consensus 99 ~di~l~~-~~VSr~Ha~I~~~~~~~~l~Dl~S~nGT~VNg~~l~~ 142 (195)
|+|.+.+ -.|+..+..|...++.-++.|. .+-.||||+.+.=
T Consensus 1 C~V~~~~dv~i~~~~l~v~~~~~~~~~I~~--~g~L~i~G~~v~L 43 (229)
T PF11101_consen 1 CNVDLNYDVRINPQSLEVVQASGEKLRIDP--DGNLFINGKKVSL 43 (229)
T ss_pred CCccCCCCeEEeCCEEEEEeCCCceEEEcC--CCcEEECCEEccC
Confidence 5555553 4567777788887774444443 3668999997753
No 61
>PF05123 S_layer_N: S-layer like family, N-terminal region ; InterPro: IPR022650 This entry represents the N-terminal domain of archael S-layer proteins. Members of this family are found in (for example) Pyrococcus horikoshii (split into two tandem reading frames), Methanocaldococcus jannaschii (Methanococcus jannaschii), and related species. Some local similarity can be found to other S-layer protein families. This entry is found in association with PF05124 from PFAM
Probab=28.16 E-value=1.3e+02 Score=26.02 Aligned_cols=46 Identities=17% Similarity=0.344 Sum_probs=36.0
Q ss_pred eEEEEECCEEEEEeCCCCCceEECCEEccCCceEECCCCCEEEECC-ceE
Q 040067 113 ARIQKKGDSLLVTDLDSTNGTFIDEKRLRSGVVAVASPGSRITFGD-THL 161 (195)
Q Consensus 113 a~I~~~~~~~~l~Dl~S~nGT~VNg~~l~~~~~~~L~~gd~I~lG~-~~~ 161 (195)
-+|-+-+..|+|.+++..++.+.=|+.+-. ..++.|+.+.||+ ..+
T Consensus 242 ~~ipfLG~ey~iv~id~d~d~i~lG~~~y~---g~ikeGesy~lGnGY~V 288 (290)
T PF05123_consen 242 MRIPFLGEEYVIVKIDTDDDIIYLGKEVYD---GVIKEGESYDLGNGYEV 288 (290)
T ss_pred ceeeecCceEEEEEecCCCCEEEeccccce---eEeecCCEEEccCCeEE
Confidence 366677788999999888888887777776 5888888888887 443
No 62
>PRK05863 sulfur carrier protein ThiS; Provisional
Probab=27.79 E-value=41 Score=21.95 Aligned_cols=23 Identities=17% Similarity=0.134 Sum_probs=14.3
Q ss_pred EECCEEccCCce-EECCCCCEEEE
Q 040067 134 FIDEKRLRSGVV-AVASPGSRITF 156 (195)
Q Consensus 134 ~VNg~~l~~~~~-~~L~~gd~I~l 156 (195)
.+|+.-+++..+ ..|++||.|.|
T Consensus 35 ~~N~~iv~r~~~~~~L~~gD~ieI 58 (65)
T PRK05863 35 AVDWSVLPRSDWATKLRDGARLEV 58 (65)
T ss_pred EECCcCcChhHhhhhcCCCCEEEE
Confidence 446665544321 34999999975
No 63
>PRK11092 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional
Probab=27.13 E-value=56 Score=31.77 Aligned_cols=25 Identities=12% Similarity=0.207 Sum_probs=21.4
Q ss_pred CCceEECCEEccCCceEECCCCCEEEE
Q 040067 130 TNGTFIDEKRLRSGVVAVASPGSRITF 156 (195)
Q Consensus 130 ~nGT~VNg~~l~~~~~~~L~~gd~I~l 156 (195)
.-|-.|||+.++- .+.|++||+|.|
T Consensus 421 c~gAkVNg~~vpL--~~~L~~Gd~VeI 445 (702)
T PRK11092 421 CVGARVDRQPYPL--SQPLTSGQTVEI 445 (702)
T ss_pred eEEEEECCEECCC--CccCCCCCEEEE
Confidence 3678999999888 489999999976
No 64
>PF14168 YjzC: YjzC-like protein
Probab=25.50 E-value=63 Score=21.02 Aligned_cols=12 Identities=17% Similarity=0.122 Sum_probs=6.6
Q ss_pred CceEECCCCCEE
Q 040067 143 GVVAVASPGSRI 154 (195)
Q Consensus 143 ~~~~~L~~gd~I 154 (195)
...+.|..||.+
T Consensus 32 p~~v~l~~Gd~f 43 (57)
T PF14168_consen 32 PKEVKLKKGDRF 43 (57)
T ss_pred CcEEEecCCCcC
Confidence 334566666653
No 65
>cd00050 MH2 MH2 domain; C terminal domain of SMAD family proteins, responsible for receptor interaction, transactivation, and homo- and heterooligomerisation; also known as Domain B in dwarfin family proteins
Probab=25.45 E-value=2.3e+02 Score=22.67 Aligned_cols=28 Identities=14% Similarity=0.302 Sum_probs=22.9
Q ss_pred eEEEEECCEEEEEeCCCCCceEECCEEcc
Q 040067 113 ARIQKKGDSLLVTDLDSTNGTFIDEKRLR 141 (195)
Q Consensus 113 a~I~~~~~~~~l~Dl~S~nGT~VNg~~l~ 141 (195)
.+|.+++|.++++.+ |....||+.-.+.
T Consensus 69 v~L~~~~g~Vw~~~~-S~~~VFVqS~~l~ 96 (176)
T cd00050 69 VQLSYENGEVWAYNL-SDHPIFVQSPTLD 96 (176)
T ss_pred EEEEEeCCeEEEEEc-CCCCEEEcCCCCC
Confidence 466778899999999 7999999876544
No 66
>PRK11130 moaD molybdopterin synthase small subunit; Provisional
Probab=25.28 E-value=78 Score=21.43 Aligned_cols=22 Identities=9% Similarity=0.218 Sum_probs=15.9
Q ss_pred eEECCEEccCCceEECCCCCEEEE
Q 040067 133 TFIDEKRLRSGVVAVASPGSRITF 156 (195)
Q Consensus 133 T~VNg~~l~~~~~~~L~~gd~I~l 156 (195)
..||++.... ...|++||.|.|
T Consensus 53 ~aVN~~~~~~--~~~l~dgDeVai 74 (81)
T PRK11130 53 AAVNQTLVSF--DHPLTDGDEVAF 74 (81)
T ss_pred EEECCEEcCC--CCCCCCCCEEEE
Confidence 5667765544 368999999875
No 67
>smart00524 DWB Domain B in dwarfin family proteins.
Probab=24.75 E-value=2.4e+02 Score=22.42 Aligned_cols=28 Identities=11% Similarity=0.229 Sum_probs=22.4
Q ss_pred eEEEEECCEEEEEeCCCCCceEECCEEcc
Q 040067 113 ARIQKKGDSLLVTDLDSTNGTFIDEKRLR 141 (195)
Q Consensus 113 a~I~~~~~~~~l~Dl~S~nGT~VNg~~l~ 141 (195)
.+|.+++|.++|+.+ |....||+.--+.
T Consensus 64 v~L~~~~g~Vw~~~~-s~~~VFVqS~~~~ 91 (171)
T smart00524 64 VQLSYENGDVWLYNR-SDSPIFVQSPYLD 91 (171)
T ss_pred eEEEEeCCeEEEEEc-CCCCeEEcCCCcc
Confidence 466778899999999 7999999765444
No 68
>TIGR00691 spoT_relA (p)ppGpp synthetase, RelA/SpoT family. (p)ppGpp is a regulatory metabolite of the stringent response, but appears also to be involved in antibiotic biosynthesis in some species.
Probab=23.90 E-value=68 Score=31.07 Aligned_cols=23 Identities=13% Similarity=0.147 Sum_probs=19.8
Q ss_pred ceEECCEEccCCceEECCCCCEEEE
Q 040067 132 GTFIDEKRLRSGVVAVASPGSRITF 156 (195)
Q Consensus 132 GT~VNg~~l~~~~~~~L~~gd~I~l 156 (195)
|..|||+++.- ...|++||+|+|
T Consensus 397 ~a~vng~~v~l--~~~l~~gd~vei 419 (683)
T TIGR00691 397 GAKVNGKIVPL--DKELENGDVVEI 419 (683)
T ss_pred EEEECCEECCC--CccCCCCCEEEE
Confidence 56799999887 489999999986
No 69
>PF09138 Urm1: Urm1 (Ubiquitin related modifier); InterPro: IPR015221 Ubiquitin related modifier 1 (Urm1) is a ubiquitin related protein that modifies proteins in the yeast ubiquitin-like urmylation pathway []. Structural comparisons and phylogenetic analysis of the ubiquitin superfamily has indicated that Urm1 has the most conserved structural and sequence features of the common ancestor of the entire superfamily []. ; GO: 0034227 tRNA thio-modification, 0005737 cytoplasm; PDB: 2AX5_A 2QJL_A 2PKO_A 1WGK_A 1XO3_A 2K9X_A.
Probab=23.36 E-value=29 Score=25.01 Aligned_cols=27 Identities=30% Similarity=0.396 Sum_probs=16.5
Q ss_pred CCce--EECCEE--ccCCceEECCCCCEEEE
Q 040067 130 TNGT--FIDEKR--LRSGVVAVASPGSRITF 156 (195)
Q Consensus 130 ~nGT--~VNg~~--l~~~~~~~L~~gd~I~l 156 (195)
+.|. +||+.- +..+..+.|++||.|.|
T Consensus 59 rPGILvLINd~DwEl~g~~~y~l~~~D~I~F 89 (96)
T PF09138_consen 59 RPGILVLINDADWELLGEEDYVLKDGDNITF 89 (96)
T ss_dssp -TTEEEEETTCEHHHHTCCCSB--TTEEEEE
T ss_pred cCcEEEEEcCccceeecCcceEcCCCCEEEE
Confidence 4453 557763 44455689999999987
No 70
>PF14453 ThiS-like: ThiS-like ubiquitin
Probab=23.05 E-value=96 Score=20.15 Aligned_cols=22 Identities=5% Similarity=0.135 Sum_probs=17.0
Q ss_pred eEECCEEccCCceEECCCCCEEEE
Q 040067 133 TFIDEKRLRSGVVAVASPGSRITF 156 (195)
Q Consensus 133 T~VNg~~l~~~~~~~L~~gd~I~l 156 (195)
+-+||=++... ..|++||.|.|
T Consensus 32 ~I~NGF~~~~d--~~L~e~D~v~~ 53 (57)
T PF14453_consen 32 VILNGFPTKED--IELKEGDEVFL 53 (57)
T ss_pred EEEcCcccCCc--cccCCCCEEEE
Confidence 34588888774 89999998864
No 71
>COG0564 RluA Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]
Probab=22.40 E-value=1e+02 Score=26.51 Aligned_cols=27 Identities=11% Similarity=0.207 Sum_probs=23.2
Q ss_pred ceEECCEEccCCceEECCCCCEEEECCce
Q 040067 132 GTFIDEKRLRSGVVAVASPGSRITFGDTH 160 (195)
Q Consensus 132 GT~VNg~~l~~~~~~~L~~gd~I~lG~~~ 160 (195)
-+.|||+++.. ...|..||+|.++...
T Consensus 38 ~v~vNg~~v~~--~~~l~~gd~i~~~~~~ 64 (289)
T COG0564 38 RVRVNGKKVKP--SYKLKPGDVVRIPLPE 64 (289)
T ss_pred CEEECCEEccC--CeeeCCCCEEEEeccc
Confidence 48999999996 5899999999988754
No 72
>COG0317 SpoT Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]
Probab=22.24 E-value=87 Score=30.51 Aligned_cols=25 Identities=8% Similarity=0.199 Sum_probs=20.5
Q ss_pred CCceEECCEEccCCceEECCCCCEEEE
Q 040067 130 TNGTFIDEKRLRSGVVAVASPGSRITF 156 (195)
Q Consensus 130 ~nGT~VNg~~l~~~~~~~L~~gd~I~l 156 (195)
--|..|||+.++= .+.|+.||+|.|
T Consensus 422 c~gAkVnG~ivpl--~~~Lk~Gd~VEI 446 (701)
T COG0317 422 CIGAKVNGRIVPL--TTKLQTGDQVEI 446 (701)
T ss_pred eeEEEECCEEecc--ceecCCCCEEEE
Confidence 3578899987776 489999999975
No 73
>PRK10872 relA (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional
Probab=22.01 E-value=77 Score=31.11 Aligned_cols=24 Identities=17% Similarity=0.130 Sum_probs=20.4
Q ss_pred CceEECCEEccCCceEECCCCCEEEE
Q 040067 131 NGTFIDEKRLRSGVVAVASPGSRITF 156 (195)
Q Consensus 131 nGT~VNg~~l~~~~~~~L~~gd~I~l 156 (195)
-|..|||+.++- .+.|++||+|.|
T Consensus 440 ~gAkvng~~v~l--~~~L~~GD~VeI 463 (743)
T PRK10872 440 IGAKIGGRIVPF--TYQLQMGDQIEI 463 (743)
T ss_pred eEEEECCEECCC--CcCCCCCCEEEE
Confidence 466899999887 489999999976
No 74
>PRK05327 rpsD 30S ribosomal protein S4; Validated
Probab=21.76 E-value=1e+02 Score=25.08 Aligned_cols=27 Identities=15% Similarity=0.332 Sum_probs=21.0
Q ss_pred CceEECCEEcc-CCceEECCCCCEEEECCc
Q 040067 131 NGTFIDEKRLR-SGVVAVASPGSRITFGDT 159 (195)
Q Consensus 131 nGT~VNg~~l~-~~~~~~L~~gd~I~lG~~ 159 (195)
+.++|||+.+. + ...|..||+|.+-+.
T Consensus 118 G~V~VNgk~v~~p--s~~v~~GD~I~v~~~ 145 (203)
T PRK05327 118 GHILVNGKKVNIP--SYRVKPGDVIEVREK 145 (203)
T ss_pred CcEEECCEEECCC--CcCCCCCCEEEECCc
Confidence 45889998876 4 378999999998754
No 75
>PF09269 DUF1967: Domain of unknown function (DUF1967); InterPro: IPR015349 The Obg family comprises a group of ancient P-loop small G proteins (GTPases) belonging to the TRAFAC (for translation factors) class and can be subdivided into several distinct protein subfamilies []. OBG GTPases have been found in both prokaryotes and eukaryotes []. The structure of the OBG GTPase from Thermus thermophilus has been determined []. This entry represents a C-terminal domain found in certain OBG GTPases. This domain contains a four-stranded beta sheet and three alpha helices flanked by an additional beta strand. It is predominantly found in the bacterial GTP-binding protein Obg, and is functionally uncharacterised. ; GO: 0000166 nucleotide binding; PDB: 1UDX_A.
Probab=21.30 E-value=86 Score=20.86 Aligned_cols=15 Identities=27% Similarity=0.474 Sum_probs=10.5
Q ss_pred ECCCCCEEEECCceE
Q 040067 147 VASPGSRITFGDTHL 161 (195)
Q Consensus 147 ~L~~gd~I~lG~~~~ 161 (195)
-+++||.|.||+..+
T Consensus 53 G~~~GD~V~Ig~~eF 67 (69)
T PF09269_consen 53 GAKEGDTVRIGDYEF 67 (69)
T ss_dssp T--TT-EEEETTEEE
T ss_pred CCCCCCEEEEcCEEE
Confidence 478999999999876
No 76
>PF03658 Ub-RnfH: RnfH family Ubiquitin; InterPro: IPR005346 This is a small family of proteins of unknown function.; PDB: 2HJ1_B.
Probab=20.04 E-value=68 Score=22.53 Aligned_cols=28 Identities=29% Similarity=0.316 Sum_probs=14.3
Q ss_pred eCCCCCceEECCEEccCCceEECCCCCEEEE
Q 040067 126 DLDSTNGTFIDEKRLRSGVVAVASPGSRITF 156 (195)
Q Consensus 126 Dl~S~nGT~VNg~~l~~~~~~~L~~gd~I~l 156 (195)
|+ +.|.+=|-|+.+... ..|++||+|+|
T Consensus 43 dl-~~~~vGIfGk~~~~d--~~L~~GDRVEI 70 (84)
T PF03658_consen 43 DL-EKNKVGIFGKLVKLD--TVLRDGDRVEI 70 (84)
T ss_dssp -T-TTSEEEEEE-S--TT---B--TT-EEEE
T ss_pred Cc-ccceeeeeeeEcCCC--CcCCCCCEEEE
Confidence 55 466666777777763 89999999984
Done!