Query psy10574
Match_columns 232
No_of_seqs 160 out of 311
Neff 5.4
Searched_HMMs 46136
Date Fri Aug 16 21:54:29 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy10574.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/10574hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2293|consensus 100.0 8.5E-44 1.8E-48 338.6 9.8 218 11-229 221-527 (547)
2 PF13325 MCRS_N: N-terminal re 100.0 1.2E-41 2.5E-46 293.5 9.1 116 5-120 9-199 (199)
3 PF00498 FHA: FHA domain; Int 99.6 1.3E-15 2.8E-20 108.5 7.3 67 152-225 1-68 (68)
4 cd00060 FHA Forkhead associate 99.5 4E-13 8.7E-18 100.5 10.8 87 134-226 3-93 (102)
5 TIGR03354 VI_FHA type VI secre 99.2 3.5E-11 7.7E-16 113.9 7.7 83 140-228 14-98 (396)
6 PLN02927 antheraxanthin epoxid 99.0 7.2E-10 1.6E-14 111.1 7.6 79 145-226 549-636 (668)
7 COG1716 FOG: FHA domain [Signa 99.0 2.2E-09 4.8E-14 89.7 9.3 78 142-229 81-159 (191)
8 smart00240 FHA Forkhead associ 98.9 3.1E-09 6.6E-14 71.4 5.8 51 152-208 1-52 (52)
9 COG3456 Predicted component of 98.7 1.2E-08 2.6E-13 96.8 5.6 84 140-229 16-100 (430)
10 COG5025 Transcription factor o 98.2 5.3E-07 1.1E-11 89.7 2.2 96 131-229 70-184 (610)
11 KOG1882|consensus 97.3 0.0004 8.6E-09 62.5 5.6 69 151-225 195-276 (293)
12 KOG0245|consensus 97.3 0.00058 1.3E-08 71.3 7.5 80 142-227 469-549 (1221)
13 TIGR01663 PNK-3'Pase polynucle 97.2 0.00079 1.7E-08 66.4 6.3 76 140-224 22-98 (526)
14 KOG1881|consensus 97.0 0.00031 6.8E-09 70.9 2.3 73 148-227 175-258 (793)
15 KOG1880|consensus 96.3 0.0036 7.8E-08 57.9 3.6 86 134-225 19-109 (337)
16 TIGR02500 type_III_yscD type I 95.8 0.035 7.6E-07 53.0 7.7 86 135-229 3-91 (410)
17 KOG2293|consensus 94.4 0.007 1.5E-07 59.5 -1.4 30 20-49 4-34 (547)
18 KOG0615|consensus 94.0 0.066 1.4E-06 51.9 4.2 81 146-226 60-147 (475)
19 KOG0241|consensus 93.9 0.24 5.3E-06 52.4 8.3 116 105-230 413-538 (1714)
20 PF13921 Myb_DNA-bind_6: Myb-l 93.1 0.24 5.2E-06 34.1 4.8 54 3-80 6-60 (60)
21 PRK11507 ribosome-associated p 78.3 2.5 5.4E-05 31.3 3.0 31 199-230 37-67 (70)
22 PF03166 MH2: MH2 domain; Int 77.8 2.3 5.1E-05 36.2 3.1 84 143-226 20-119 (181)
23 PLN03212 Transcription repress 77.3 2.8 6.2E-05 38.0 3.7 58 3-83 33-92 (249)
24 cd00050 MH2 MH2 domain; C term 76.2 4.9 0.00011 34.6 4.7 45 182-227 70-120 (176)
25 PRK06488 sulfur carrier protei 76.1 2.4 5.2E-05 29.9 2.3 25 200-224 32-58 (65)
26 TIGR02988 YaaA_near_RecF S4 do 75.6 3.3 7.1E-05 28.6 2.9 24 200-224 35-58 (59)
27 smart00524 DWB Domain B in dwa 75.4 5.2 0.00011 34.4 4.6 45 182-227 65-115 (171)
28 smart00797 AHS2 Allophanate hy 75.0 6.4 0.00014 36.1 5.4 45 182-228 39-84 (280)
29 cd00565 ThiS ThiaminS ubiquiti 74.5 3.5 7.7E-05 29.0 2.9 25 200-224 32-58 (65)
30 PRK06437 hypothetical protein; 74.2 4.2 9.1E-05 29.2 3.2 24 199-224 37-60 (67)
31 KOG2294|consensus 72.6 4.1 8.9E-05 38.5 3.7 90 142-231 59-160 (454)
32 PF02626 AHS2: Allophanate hyd 72.2 5.1 0.00011 36.5 4.1 44 182-227 39-83 (271)
33 TIGR01683 thiS thiamine biosyn 72.2 3.7 8.1E-05 28.8 2.5 25 200-224 31-57 (64)
34 smart00363 S4 S4 RNA-binding d 72.1 6.5 0.00014 25.3 3.6 25 200-226 27-52 (60)
35 PRK06944 sulfur carrier protei 72.1 4.4 9.4E-05 28.2 2.9 25 200-224 32-58 (65)
36 PRK15367 type III secretion sy 71.7 7 0.00015 37.8 5.0 76 138-229 14-89 (395)
37 COG2501 S4-like RNA binding pr 70.9 5.3 0.00012 29.8 3.2 29 199-228 37-65 (73)
38 PF14478 DUF4430: Domain of un 69.4 4.8 0.0001 28.7 2.6 24 201-224 43-67 (68)
39 PRK07696 sulfur carrier protei 69.0 5 0.00011 28.8 2.6 25 200-224 34-60 (67)
40 PRK05659 sulfur carrier protei 68.9 5.1 0.00011 28.0 2.7 25 200-224 33-59 (66)
41 PF01479 S4: S4 domain; Inter 67.7 4.9 0.00011 26.3 2.2 22 199-222 26-48 (48)
42 PRK08053 sulfur carrier protei 67.4 6.2 0.00013 28.0 2.8 25 200-224 33-59 (66)
43 KOG1892|consensus 67.0 12 0.00027 40.2 5.9 87 134-228 358-449 (1629)
44 PRK06083 sulfur carrier protei 66.0 4.5 9.8E-05 30.6 2.0 25 200-224 51-77 (84)
45 cd00754 MoaD Ubiquitin domain 65.8 7.1 0.00015 27.9 2.9 23 200-224 51-73 (80)
46 PRK07440 hypothetical protein; 65.5 6.2 0.00013 28.6 2.6 25 200-224 37-63 (70)
47 PF02824 TGS: TGS domain; Int 63.6 6.2 0.00014 27.6 2.2 24 199-224 35-58 (60)
48 TIGR00724 urea_amlyse_rel biot 62.9 14 0.00031 34.5 5.1 45 182-228 61-107 (314)
49 cd00165 S4 S4/Hsp/ tRNA synthe 62.0 13 0.00028 24.6 3.5 27 199-227 26-53 (70)
50 PF13275 S4_2: S4 domain; PDB: 62.0 3.9 8.5E-05 29.7 0.9 29 199-228 33-61 (65)
51 PRK01777 hypothetical protein; 61.9 9.4 0.0002 29.6 3.1 27 197-225 48-74 (95)
52 PF02597 ThiS: ThiS family; I 60.9 6.6 0.00014 27.7 2.0 27 198-224 43-70 (77)
53 PF14451 Ub-Mut7C: Mut7-C ubiq 60.3 10 0.00023 28.5 3.0 46 178-225 20-74 (81)
54 TIGR01687 moaD_arch MoaD famil 60.2 11 0.00023 27.8 3.1 25 200-224 57-81 (88)
55 PRK11092 bifunctional (p)ppGpp 59.0 7.2 0.00016 40.2 2.6 29 195-225 416-446 (702)
56 COG1984 DUR1 Allophanate hydro 58.7 23 0.00049 33.3 5.6 47 180-228 58-105 (314)
57 PLN03091 hypothetical protein; 56.6 11 0.00024 37.0 3.2 57 3-82 22-80 (459)
58 COG2104 ThiS Sulfur transfer p 55.2 12 0.00027 27.2 2.6 25 200-224 35-61 (68)
59 cd01764 Urm1 Urm1-like ubuitin 54.9 12 0.00026 28.7 2.7 25 200-224 61-87 (94)
60 smart00717 SANT SANT SWI3, AD 54.3 22 0.00047 22.0 3.5 36 4-42 10-47 (49)
61 COG0317 SpoT Guanosine polypho 53.5 11 0.00025 38.9 2.9 32 195-228 417-450 (701)
62 PRK05863 sulfur carrier protei 52.8 9.4 0.0002 27.0 1.6 26 199-224 32-58 (65)
63 PRK08364 sulfur carrier protei 48.7 21 0.00045 25.6 2.9 23 200-224 41-63 (70)
64 COG3354 FlaG Putative archaeal 45.8 40 0.00086 28.5 4.5 33 190-222 73-123 (154)
65 TIGR00691 spoT_relA (p)ppGpp s 42.2 21 0.00046 36.6 2.9 29 195-225 390-420 (683)
66 PRK10872 relA (p)ppGpp synthet 41.1 23 0.00049 37.0 2.9 29 195-225 434-464 (743)
67 TIGR02712 urea_carbox urea car 39.3 47 0.001 36.5 5.0 39 190-228 516-555 (1201)
68 PLN02799 Molybdopterin synthas 38.6 38 0.00082 24.6 3.0 23 200-224 53-75 (82)
69 COG1188 Ribosome-associated he 37.1 37 0.0008 26.8 2.9 23 201-225 36-58 (100)
70 TIGR01682 moaD molybdopterin c 36.9 40 0.00086 24.4 2.9 23 200-224 51-73 (80)
71 PF01436 NHL: NHL repeat; Int 36.4 57 0.0012 19.2 3.0 21 183-203 7-27 (28)
72 PF08130 Antimicrobial18: Type 36.2 20 0.00043 25.5 1.1 32 170-201 28-59 (60)
73 PF13934 ELYS: Nuclear pore co 35.9 50 0.0011 29.0 3.9 53 19-83 156-211 (226)
74 cd01666 TGS_DRG_C TGS_DRG_C: 35.6 31 0.00067 25.5 2.1 22 201-224 52-73 (75)
75 PF06371 Drf_GBD: Diaphanous G 34.1 31 0.00067 28.2 2.2 36 30-65 4-39 (187)
76 TIGR03069 PS_II_S4 photosystem 32.5 50 0.0011 29.8 3.4 29 200-229 209-237 (257)
77 COG5131 URM1 Ubiquitin-like pr 32.0 38 0.00082 26.5 2.1 39 189-227 49-92 (96)
78 PRK10348 ribosome-associated h 31.8 49 0.0011 27.3 2.9 24 200-225 35-58 (133)
79 PF07610 DUF1573: Protein of u 31.7 84 0.0018 20.5 3.6 24 190-213 1-24 (45)
80 PRK05327 rpsD 30S ribosomal pr 31.6 53 0.0012 28.6 3.3 39 175-226 105-144 (203)
81 cd01668 TGS_RelA_SpoT TGS_RelA 29.8 66 0.0014 21.1 2.9 23 200-224 36-58 (60)
82 PF00249 Myb_DNA-binding: Myb- 28.7 98 0.0021 20.1 3.5 37 4-42 10-48 (48)
83 COG0564 RluA Pseudouridylate s 28.3 57 0.0012 29.9 3.1 27 200-228 38-64 (289)
84 PF11976 Rad60-SLD: Ubiquitin- 27.0 55 0.0012 22.8 2.2 25 200-224 43-70 (72)
85 KOG1271|consensus 26.1 36 0.00078 30.3 1.3 16 24-39 179-194 (227)
86 cd04486 YhcR_OBF_like YhcR_OBF 25.8 1.4E+02 0.003 21.9 4.3 38 189-226 16-55 (78)
87 TIGR01017 rpsD_bact ribosomal 25.5 73 0.0016 27.6 3.1 41 175-227 102-142 (200)
88 PRK11840 bifunctional sulfur c 24.9 56 0.0012 30.9 2.4 25 200-224 33-59 (326)
89 PF11142 DUF2917: Protein of u 24.6 1.6E+02 0.0035 20.8 4.3 44 178-226 15-58 (63)
90 PRK13259 regulatory protein Sp 24.5 87 0.0019 24.4 3.0 28 177-204 15-46 (94)
91 COG2088 SpoVG Uncharacterized 23.9 87 0.0019 24.4 2.8 27 178-204 16-46 (95)
92 CHL00113 rps4 ribosomal protei 23.1 92 0.002 27.3 3.3 41 175-227 101-141 (201)
93 COG3908 Uncharacterized protei 22.5 86 0.0019 23.4 2.5 31 179-210 11-42 (77)
94 PF08914 Myb_DNA-bind_2: Rap1 22.4 44 0.00096 24.1 1.0 14 69-82 2-15 (65)
95 cd01616 TGS The TGS domain, na 21.6 1.3E+02 0.0027 18.9 3.0 22 201-224 37-58 (60)
96 PRK10700 23S rRNA pseudouridyl 21.5 1E+02 0.0022 28.2 3.3 41 175-226 14-54 (289)
97 PRK10475 23S rRNA pseudouridin 21.3 1.1E+02 0.0023 28.2 3.4 39 175-226 18-56 (290)
98 KOG3701|consensus 21.2 1.6E+02 0.0035 28.8 4.7 44 183-227 290-339 (411)
99 PF07273 DUF1439: Protein of u 20.5 99 0.0021 25.5 2.8 56 142-197 27-91 (152)
100 PLN00051 RNA-binding S4 domain 20.2 1.1E+02 0.0023 28.0 3.2 43 175-229 203-245 (267)
No 1
>KOG2293|consensus
Probab=100.00 E-value=8.5e-44 Score=338.58 Aligned_cols=218 Identities=36% Similarity=0.497 Sum_probs=200.3
Q ss_pred hcccchHHHHhccccCccccHHHHHHhhHHhhcChHhhH-HHHHhhhcCChHHHHhhhhccCCChHHHHHhhhcC--CCC
Q psy10574 11 NRTNDIKAVHRGLKFSCKFTFNECLQRWFTLLYDPNLSR-LAVQGMQNLHPEVVHNIQAKALFSNDEEELLGSIK--SPG 87 (232)
Q Consensus 11 ~~~~~l~~v~~~~~Fs~~fT~~ei~~Rw~~llyd~~is~-~a~~~m~~l~~~~~~~v~~~~~~s~~Ee~~L~~~~--s~~ 87 (232)
++++++..||.|++|+ +|++.||++||+.++|+|.+++ .|.++++++|||.++.++.+++++..++.+|.++. ++.
T Consensus 221 ~~~s~~~~vr~g~k~~-~~~~~ei~~r~~~~ly~pk~~~~la~s~vrn~~pE~~~~~~~s~l~i~~~~~ll~~~~~gss~ 299 (547)
T KOG2293|consen 221 EPTSVSAKVRCGVKFS-MRDLAEIQERWYALLYEPKTSKPLAESAVRNNHPERLDPEQRSALQIKHSKDLLDTVGYGSSK 299 (547)
T ss_pred ccccccceeeeccccc-ccchhhhhhhchhhhcChhhccccchhhcccCCCCccCchhcchhhhhhhHHhhhcccCCccc
Confidence 8999999999999999 9999999999999999999999 99999999999999999999999999999999988 444
Q ss_pred C--------------------------------------------CC----cccCchHH---------------------
Q psy10574 88 Y--------------------------------------------TL----RFIGFSLL--------------------- 98 (232)
Q Consensus 88 ~--------------------------------------------t~----~~lsfsd~--------------------- 98 (232)
+ || ..|+|+++
T Consensus 300 q~~~~~l~~ll~~~~d~f~~~~T~~~lq~h~~l~k~~s~~e~~~v~p~~~sd~l~~~~ae~q~~~~~~~~e~DE~Le~di 379 (547)
T KOG2293|consen 300 QAALITLQELLVRLGDTFKEKATGTALQNHWQLMKQYSCLEDQEVTPQNESDHLRRIDAEDQIQGENYNEESDEELESDI 379 (547)
T ss_pred cchhhHHHHHhhccCcchhhhhHHHHHHhhhhhhhhcccccccccccccCCcccccccchhccchhhhcccccccccchH
Confidence 4 11 12455555
Q ss_pred ------HHhh---HHHHHHHHHhhhhhhhhhhhcCCC-CcCCCCc-------eEEEEEccceEEEeecCeeEeCCCCCCC
Q psy10574 99 ------ILEK---KELKKVEEEMKNWAVIVDHVTGSN-TPELDKQ-------TYAVLRGRAVRYLMKFRDVTLGRSTADH 161 (232)
Q Consensus 99 ------r~~~---~~i~~le~e~~~~~~lvd~v~~~~-~~~~d~~-------~lAvL~G~~~~y~m~~~ei~IGR~s~~~ 161 (232)
++.+ +.++.||+++++|++|++++++.. .+.++.+ |+|||+|+..+|+|++++|++||++.+.
T Consensus 380 Eami~D~dl~p~~qd~r~le~e~~r~~~l~~~iirleqs~~~~mqrai~~hgAiAvL~Gr~skh~mrk~EVtlGRat~d~ 459 (547)
T KOG2293|consen 380 EAMILDMDLEPDDQDIRSLEAEKSRSQVLVRSIIRLEQSAESYMQRAIAFHGAIAVLYGRFSKHYMRKKEVTLGRATGDL 459 (547)
T ss_pred HHHHhhcccCCcchHHHHHHHHHhhhHHHHHHhhhhhhcccchhhhhhhhcceeEEEechhhHhhhcCcceEeeccCCCc
Confidence 2445 889999999999999999998843 6677776 9999999999999999999999999999
Q ss_pred CcceecCCCCCCcccchhceeEEEccCCcEEEEEcCcCceEECCEEecCCCceeCCCCCeEEECCCCc
Q psy10574 162 SVDIDLSLEGPAWKVSRRQACIRMRNNGDFFIANEGKRPIYVDGRPIIASNKYKLNHNSIIERFDRGN 229 (232)
Q Consensus 162 ~VDIDLs~eG~~~~ISR~HA~I~~~~d~~f~L~nlGkngi~VNG~~l~~g~~~~L~~gdiIeig~~~~ 229 (232)
+|||||+.+||+++|||+||.|++..+|.|+|+|+||+.|+|||.+|.+|+++.|+++|+|||.|..|
T Consensus 460 ~VDIDLgkegpatKISRRQa~IkL~n~GsF~IkNlGK~~I~vng~~l~~gq~~~L~~nclveIrg~~F 527 (547)
T KOG2293|consen 460 KVDIDLGKEGPATKISRRQALIKLKNDGSFFIKNLGKRSILVNGGELDRGQKVILKNNCLVEIRGLRF 527 (547)
T ss_pred ceeeeccccCccceeeccceeEEeccCCcEEeccCcceeEEeCCccccCCceEEeccCcEEEEccceE
Confidence 99999999999999999999999999999999999999999999999999999999999999999876
No 2
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=100.00 E-value=1.2e-41 Score=293.54 Aligned_cols=116 Identities=47% Similarity=0.859 Sum_probs=110.4
Q ss_pred HHHHHHhcccchHHHHhccccCccccHHHHHHhhHHhhcChHhhHHHHHhhhcCChHHHHhhhhccCCChHHHHHhhhcC
Q psy10574 5 IRELNLNRTNDIKAVHRGLKFSCKFTFNECLQRWFTLLYDPNLSRLAVQGMQNLHPEVVHNIQAKALFSNDEEELLGSIK 84 (232)
Q Consensus 5 ~~i~av~~~~~l~~v~~~~~Fs~~fT~~ei~~Rw~~llyd~~is~~a~~~m~~l~~~~~~~v~~~~~~s~~Ee~~L~~~~ 84 (232)
.|||||+||+||++||+||||||+||++||++|||+|||||.||+.|+++|++|||+++.++|+|+|||.+||++|++++
T Consensus 9 ~Li~av~~~~~L~~v~~gvkFS~~fT~~Ei~~RW~~llyd~~is~~a~~~m~~l~p~~~~~iq~kalfS~~EE~lL~~v~ 88 (199)
T PF13325_consen 9 LLINAVEQTNDLESVHLGVKFSCKFTLQEIEERWYALLYDPVISRIAVAAMRNLHPELIAAIQSKALFSKEEEQLLGTVA 88 (199)
T ss_pred HHHHHHHHhcCHHHHHccCCcCCcCcHHHHHHHHHHHHcChhhHHHHHHHHHhCCcchhhcccccCCCCHHHHHHHHhhh
Confidence 69999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCC---------------------CC-----------------------------cccCchHH----------------
Q psy10574 85 SPGY---------------------TL-----------------------------RFIGFSLL---------------- 98 (232)
Q Consensus 85 s~~~---------------------t~-----------------------------~~lsfsd~---------------- 98 (232)
++.. || +++||||+
T Consensus 89 s~~~p~le~Fq~LL~~n~~vFh~sRTak~L~~HW~lmkqy~LL~DQ~v~~~~~~~~~~~sfsDaEd~i~d~~l~~~~de~ 168 (199)
T PF13325_consen 89 SSSQPSLETFQELLDKNRSVFHPSRTAKSLQDHWRLMKQYHLLPDQSVQPLPKQDDQVLSFSDAEDLIDDSELKDPRDEA 168 (199)
T ss_pred hccCCcHHHHHHHHHhChhhhccccCHHHHHHHHHHHHHhchhhccccCCCCCCCccccccccHHHHhhccccccCcccc
Confidence 8765 33 47899998
Q ss_pred ---------HHhhHHHHHHHHHhhhhhhhhh
Q psy10574 99 ---------ILEKKELKKVEEEMKNWAVIVD 120 (232)
Q Consensus 99 ---------r~~~~~i~~le~e~~~~~~lvd 120 (232)
|++||+||+||+|+++|++|||
T Consensus 169 l~~el~~~dr~~k~~ir~lE~el~~w~~lvd 199 (199)
T PF13325_consen 169 LEHELELADRRQKREIRQLENELSRWQVLVD 199 (199)
T ss_pred cchhhhHHhHHHHHHHHHHHHHhhhhhhccC
Confidence 7999999999999999999987
No 3
>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=99.62 E-value=1.3e-15 Score=108.49 Aligned_cols=67 Identities=33% Similarity=0.506 Sum_probs=58.0
Q ss_pred eEeCCCCCCCCcceecCCCCCCcccchhceeEEEccCCcEEEEEcC-cCceEECCEEecCCCceeCCCCCeEEEC
Q psy10574 152 VTLGRSTADHSVDIDLSLEGPAWKVSRRQACIRMRNNGDFFIANEG-KRPIYVDGRPIIASNKYKLNHNSIIERF 225 (232)
Q Consensus 152 i~IGR~s~~~~VDIDLs~eG~~~~ISR~HA~I~~~~d~~f~L~nlG-kngi~VNG~~l~~g~~~~L~~gdiIeig 225 (232)
++|||+ ...||.|. .+.|||+||.|.++.++.|+|+|+| +||++|||+++.++.+++|++||+|.||
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 VTIGRS---PDCDIVLP----DPSISRRHARISFDDDGQFYIEDLGSTNGTFVNGQRLGPGEPVPLKDGDIIRFG 68 (68)
T ss_dssp EEEESS---TTSSEEET----STTSSTTSEEEEEETTEEEEEEESSSSS-EEETTEEESSTSEEEE-TTEEEEET
T ss_pred CEEcCC---CCCCEEEC----CHheeeeeeEEEEeceeeEEEEeCCCCCcEEECCEEcCCCCEEECCCCCEEEcC
Confidence 589999 35677775 5789999999999986589999997 6999999999999999999999999997
No 4
>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=99.48 E-value=4e-13 Score=100.50 Aligned_cols=87 Identities=28% Similarity=0.437 Sum_probs=73.1
Q ss_pred eEEEEEc--cceEEEeec-CeeEeCCCCCCCCcceecCCCCCCcccchhceeEEEccCCc-EEEEEcCcCceEECCEEec
Q psy10574 134 TYAVLRG--RAVRYLMKF-RDVTLGRSTADHSVDIDLSLEGPAWKVSRRQACIRMRNNGD-FFIANEGKRPIYVDGRPII 209 (232)
Q Consensus 134 ~lAvL~G--~~~~y~m~~-~ei~IGR~s~~~~VDIDLs~eG~~~~ISR~HA~I~~~~d~~-f~L~nlGkngi~VNG~~l~ 209 (232)
.|.++.| ....|.|.. ..++|||++.. +||.|. ...|||+||+|.++.++. |++.+.+++|++|||+++.
T Consensus 3 ~L~~~~~~~~~~~~~l~~~~~~~iGr~~~~--~~i~l~----~~~iS~~H~~i~~~~~~~~~~~~~~s~~g~~vn~~~~~ 76 (102)
T cd00060 3 RLVVLSGDASGRRYYLDPGGTYTIGRDSDN--CDIVLD----DPSVSRRHAVIRYDGDGGVVLIDLGSTNGTFVNGQRVS 76 (102)
T ss_pred EEEEecCCCceeEEEECCCCeEEECcCCCc--CCEEcC----CCCeeCcceEEEEcCCCCEEEEECCCCCCeEECCEECC
Confidence 3555666 578899999 99999999876 677775 799999999999998444 5555556799999999999
Q ss_pred CCCceeCCCCCeEEECC
Q psy10574 210 ASNKYKLNHNSIIERFD 226 (232)
Q Consensus 210 ~g~~~~L~~gdiIeig~ 226 (232)
++.+++|.+||.|.||.
T Consensus 77 ~~~~~~l~~gd~i~ig~ 93 (102)
T cd00060 77 PGEPVRLRDGDVIRLGN 93 (102)
T ss_pred CCCcEECCCCCEEEECC
Confidence 99999999999999994
No 5
>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=99.19 E-value=3.5e-11 Score=113.89 Aligned_cols=83 Identities=27% Similarity=0.410 Sum_probs=70.0
Q ss_pred ccceEEEeecCeeEeCCCCCCCCcceecCCCCCCcccchhceeEEEccCCcEEEEEcCcCceEEC--CEEecCCCceeCC
Q psy10574 140 GRAVRYLMKFRDVTLGRSTADHSVDIDLSLEGPAWKVSRRQACIRMRNNGDFFIANEGKRPIYVD--GRPIIASNKYKLN 217 (232)
Q Consensus 140 G~~~~y~m~~~ei~IGR~s~~~~VDIDLs~eG~~~~ISR~HA~I~~~~d~~f~L~nlGkngi~VN--G~~l~~g~~~~L~ 217 (232)
|....|.+.....+|||+.. .|+-| .++...|||+||+|.++ +|.|+|+++++||+||| |.++.+|.+++|.
T Consensus 14 g~~~~~~f~~~~~~IGR~~~---~d~~l--~d~~~~VS~~Ha~I~~~-~g~~~l~DlStNGT~VN~sg~~l~~~~~~~L~ 87 (396)
T TIGR03354 14 GIAAQKTFGTNGGTIGRSED---CDWVL--PDPERHVSGRHARIRYR-DGAYLLTDLSTNGVFLNGSGSPLGRGNPVRLE 87 (396)
T ss_pred CcceEEEECCCCEEEecCCC---CCEEe--CCCCCCcchhhcEEEEE-CCEEEEEECCCCCeEECCCCCCCCCCCceEcC
Confidence 44567888899999999863 34444 34556799999999998 47899999988999999 9999999999999
Q ss_pred CCCeEEECCCC
Q psy10574 218 HNSIIERFDRG 228 (232)
Q Consensus 218 ~gdiIeig~~~ 228 (232)
+||+|.||++.
T Consensus 88 ~GD~I~iG~~~ 98 (396)
T TIGR03354 88 QGDRLRLGDYE 98 (396)
T ss_pred CCCEEEECCEE
Confidence 99999999864
No 6
>PLN02927 antheraxanthin epoxidase/zeaxanthin epoxidase
Probab=99.00 E-value=7.2e-10 Score=111.11 Aligned_cols=79 Identities=16% Similarity=0.243 Sum_probs=64.9
Q ss_pred EEe---ecCeeEeCCCCCCCCcceecCCCCCCcccchhceeEEEccCCcEEEEEcCc-CceEECCEE-----ecCCCcee
Q psy10574 145 YLM---KFRDVTLGRSTADHSVDIDLSLEGPAWKVSRRQACIRMRNNGDFFIANEGK-RPIYVDGRP-----IIASNKYK 215 (232)
Q Consensus 145 y~m---~~~ei~IGR~s~~~~VDIDLs~eG~~~~ISR~HA~I~~~~d~~f~L~nlGk-ngi~VNG~~-----l~~g~~~~ 215 (232)
+.+ .+.-.+|||.+....++.-+. =+++.||+.||+|.++ ++.|||+|+++ |||||||.. ++|+.+++
T Consensus 549 ~~l~~~~~~p~~iG~~~~~~~~~~~i~--i~~~~vS~~Ha~i~~~-~~~~~~~Dl~S~nGT~v~~~~~~r~~~~p~~~~~ 625 (668)
T PLN02927 549 LCLTKDEDQPCIVGSEPDQDFPGMRIV--IPSSQVSKMHARVIYK-DGAFFLMDLRSEHGTYVTDNEGRRYRATPNFPAR 625 (668)
T ss_pred eeeecCCCCCeEecCCCCcCCCCceEE--ecCCccChhHeEEEEE-CCEEEEEECCCCCccEEeCCCCceEecCCCCceE
Confidence 566 667789999985544333222 2468999999999998 57899999997 999998777 67999999
Q ss_pred CCCCCeEEECC
Q psy10574 216 LNHNSIIERFD 226 (232)
Q Consensus 216 L~~gdiIeig~ 226 (232)
|++||+|+||+
T Consensus 626 l~~~d~I~~g~ 636 (668)
T PLN02927 626 FRSSDIIEFGS 636 (668)
T ss_pred eCCCCEEEeCC
Confidence 99999999998
No 7
>COG1716 FOG: FHA domain [Signal transduction mechanisms]
Probab=98.99 E-value=2.2e-09 Score=89.69 Aligned_cols=78 Identities=26% Similarity=0.317 Sum_probs=62.6
Q ss_pred ceEEEeecCeeEeCCCCCCCCcceecCCCCCCcccchhceeEEEccCCcEEEEEcCc-CceEECCEEecCCCceeCCCCC
Q psy10574 142 AVRYLMKFRDVTLGRSTADHSVDIDLSLEGPAWKVSRRQACIRMRNNGDFFIANEGK-RPIYVDGRPIIASNKYKLNHNS 220 (232)
Q Consensus 142 ~~~y~m~~~ei~IGR~s~~~~VDIDLs~eG~~~~ISR~HA~I~~~~d~~f~L~nlGk-ngi~VNG~~l~~g~~~~L~~gd 220 (232)
...+......++|||.. ..|+=| ++..|||+||.|+++++ .++++++|+ ||+||||.++.+ .+.|++||
T Consensus 81 ~~~~~~~~~~~tigr~~---~~~i~~----~~~~vSR~Ha~l~~~~~-~~~~~d~~S~nGt~vn~~~v~~--~~~l~~gd 150 (191)
T COG1716 81 GSVIVLGEPVTTIGRDP---DNDIVL----DDDVVSRRHAELRREGN-EVFLEDLGSTNGTYVNGEKVRQ--RVLLQDGD 150 (191)
T ss_pred CcccccccceEEeccCC---CCCEEc----CCCccccceEEEEEeCC-ceEEEECCCCcceEECCeEccC--cEEcCCCC
Confidence 34455566689999932 233333 36899999999999974 688899995 999999999986 78999999
Q ss_pred eEEECCCCc
Q psy10574 221 IIERFDRGN 229 (232)
Q Consensus 221 iIeig~~~~ 229 (232)
+|.||....
T Consensus 151 ~i~i~~~~~ 159 (191)
T COG1716 151 VIRLGGTLA 159 (191)
T ss_pred EEEECccce
Confidence 999998765
No 8
>smart00240 FHA Forkhead associated domain. Found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain.
Probab=98.91 E-value=3.1e-09 Score=71.43 Aligned_cols=51 Identities=37% Similarity=0.648 Sum_probs=42.0
Q ss_pred eEeCCCCCCCCcceecCCCCCCcccchhceeEEEccCCcEEEEEcC-cCceEECCEEe
Q psy10574 152 VTLGRSTADHSVDIDLSLEGPAWKVSRRQACIRMRNNGDFFIANEG-KRPIYVDGRPI 208 (232)
Q Consensus 152 i~IGR~s~~~~VDIDLs~eG~~~~ISR~HA~I~~~~d~~f~L~nlG-kngi~VNG~~l 208 (232)
++|||... ..||-|. ...|||.||.|+++.++.|+|++.+ ++|++|||+++
T Consensus 1 ~~iGr~~~--~~~i~~~----~~~vs~~H~~i~~~~~~~~~i~d~~s~~gt~vng~~v 52 (52)
T smart00240 1 VTIGRSSE--DCDIQLP----GPSISRRHAEIVYDGGGRFYLIDLGSTNGTFVNGKRI 52 (52)
T ss_pred CEeCCCCC--CCCEEeC----CCCcchhHcEEEECCCCeEEEEECCCCCCeeECCEEC
Confidence 47999875 3466554 2459999999999987779999999 79999999975
No 9
>COG3456 Predicted component of the type VI protein secretion system, contains a FHA domain [Intracellular trafficking, secretion, and vesicular transport; Signal transduction mechanisms]
Probab=98.74 E-value=1.2e-08 Score=96.85 Aligned_cols=84 Identities=23% Similarity=0.331 Sum_probs=70.0
Q ss_pred ccceEEEeecCeeEeCCCCCCCCcceecCCCCCCcccchhceeEEEccCCcEEEEEcCcCceEECCEEecCCCc-eeCCC
Q psy10574 140 GRAVRYLMKFRDVTLGRSTADHSVDIDLSLEGPAWKVSRRQACIRMRNNGDFFIANEGKRPIYVDGRPIIASNK-YKLNH 218 (232)
Q Consensus 140 G~~~~y~m~~~ei~IGR~s~~~~VDIDLs~eG~~~~ISR~HA~I~~~~d~~f~L~nlGkngi~VNG~~l~~g~~-~~L~~ 218 (232)
|+--++......-+|||+. |-|-+...+..+||++||+|.++ ||.|||++...+|++|||-.++.|.. .+|.+
T Consensus 16 G~~aq~~f~~~~g~IGrs~-----dcdW~i~D~~~~VS~~Hc~I~~~-dg~f~L~DtS~g~l~VNgs~~~~g~~~~RLqq 89 (430)
T COG3456 16 GKAAQKLFDRGGGVIGRSP-----DCDWQIDDPERFVSKQHCTISYR-DGGFCLTDTSNGGLLVNGSDLPLGEGSARLQQ 89 (430)
T ss_pred chhhhhhhhcCCcccccCC-----CCCccccCcccccchhheEEEec-CCeEEEEecCCCceeecccccCCCCCcccccc
Confidence 4445667778889999975 33434445678999999999998 57899999999999999999999998 99999
Q ss_pred CCeEEECCCCc
Q psy10574 219 NSIIERFDRGN 229 (232)
Q Consensus 219 gdiIeig~~~~ 229 (232)
||.|.||++-+
T Consensus 90 Gd~i~iG~y~i 100 (430)
T COG3456 90 GDEILIGRYII 100 (430)
T ss_pred CCEEeeccEEE
Confidence 99999998743
No 10
>COG5025 Transcription factor of the Forkhead/HNF3 family [Transcription]
Probab=98.21 E-value=5.3e-07 Score=89.66 Aligned_cols=96 Identities=25% Similarity=0.175 Sum_probs=81.6
Q ss_pred CCceEEEEEccceEEEeecCeeEeCCCCCC---------------CCcceecCCCCCCcccchhceeEEEccC-CcEEEE
Q psy10574 131 DKQTYAVLRGRAVRYLMKFRDVTLGRSTAD---------------HSVDIDLSLEGPAWKVSRRQACIRMRNN-GDFFIA 194 (232)
Q Consensus 131 d~~~lAvL~G~~~~y~m~~~ei~IGR~s~~---------------~~VDIDLs~eG~~~~ISR~HA~I~~~~d-~~f~L~ 194 (232)
+.+++|.+.|-.|.|+....++.+||...- +..|+++ ++.+.+||+|+.|+++.+ +.|++.
T Consensus 70 ~~qayak~~g~~~t~~v~~~s~a~gr~~~il~s~~~~lt~s~~~~~~~~~~~---~~~k~~~~~~~sIr~Nls~~~a~~~ 146 (610)
T COG5025 70 EIQAYAKLAGSNWTYYVPPYSYATGRGLAILNSPDKPLTLSKIYTWIHNTFF---YYAKVVSRWQNSIRHNLSLNDAFIK 146 (610)
T ss_pred HhhhHHHhcCCCcccccCCeeeeeccccccccCcccCCcccceeeeeeeccc---ccccccchhhhhhhcccccCceEEE
Confidence 567999999999999999999999995443 1245555 778999999999999875 789999
Q ss_pred EcCcCceEECCEEecCC--C-ceeCCCCCeEEECCCCc
Q psy10574 195 NEGKRPIYVDGRPIIAS--N-KYKLNHNSIIERFDRGN 229 (232)
Q Consensus 195 nlGkngi~VNG~~l~~g--~-~~~L~~gdiIeig~~~~ 229 (232)
..|++|+.|+|.+..-| . ...|..|..++.++.+.
T Consensus 147 i~g~~g~~~~g~~~~igP~~~~~~l~~g~~~~~~~~~~ 184 (610)
T COG5025 147 IEGRNGAKVKGHFWSIGPGHETQFLKSGLRLDGGGKQM 184 (610)
T ss_pred EeccCCccccceeeccCCCccceeeccccccccccccc
Confidence 99999999999996644 4 68999999999998764
No 11
>KOG1882|consensus
Probab=97.32 E-value=0.0004 Score=62.54 Aligned_cols=69 Identities=20% Similarity=0.311 Sum_probs=53.0
Q ss_pred eeEeCCCCCCCCcceecCCCCCCcccchhceeEEEcc------CC------cEEEEEcCc-CceEECCEEecCCCceeCC
Q psy10574 151 DVTLGRSTADHSVDIDLSLEGPAWKVSRRQACIRMRN------NG------DFFIANEGK-RPIYVDGRPIIASNKYKLN 217 (232)
Q Consensus 151 ei~IGR~s~~~~VDIDLs~eG~~~~ISR~HA~I~~~~------d~------~f~L~nlGk-ngi~VNG~~l~~g~~~~L~ 217 (232)
..++||. -.-.||-+ +.+.-|.+||+|.|.. || .-||-++|+ ||||+|.++|.|-.=+-|.
T Consensus 195 ~yL~gRe--rkIaDi~i----dhpScSKQHaviQyR~v~~~r~dGt~grrvkpYiiDLgS~NgTfLNnk~IepqRYyEL~ 268 (293)
T KOG1882|consen 195 CYLDGRE--RKIADIPI----DHPSCSKQHAVIQYRLVEFTRADGTVGRRVKPYIIDLGSGNGTFLNNKVIEPQRYYELR 268 (293)
T ss_pred eeecCce--eeeeccCC----CCccccccceeeeeeecccccCCCccceeeeeEEEecCCCCcceecCcccCchheeeee
Confidence 3456772 22344433 2467899999999875 32 378999997 9999999999877778999
Q ss_pred CCCeEEEC
Q psy10574 218 HNSIIERF 225 (232)
Q Consensus 218 ~gdiIeig 225 (232)
.+|+|.||
T Consensus 269 ekDvlkfg 276 (293)
T KOG1882|consen 269 EKDVLKFG 276 (293)
T ss_pred cCceeeec
Confidence 99999998
No 12
>KOG0245|consensus
Probab=97.31 E-value=0.00058 Score=71.28 Aligned_cols=80 Identities=21% Similarity=0.277 Sum_probs=69.0
Q ss_pred ceEEEeecCeeEeCCCCCCCCcceecCCCCCCcccchhceeEEEccCCc-EEEEEcCcCceEECCEEecCCCceeCCCCC
Q psy10574 142 AVRYLMKFRDVTLGRSTADHSVDIDLSLEGPAWKVSRRQACIRMRNNGD-FFIANEGKRPIYVDGRPIIASNKYKLNHNS 220 (232)
Q Consensus 142 ~~~y~m~~~ei~IGR~s~~~~VDIDLs~eG~~~~ISR~HA~I~~~~d~~-f~L~nlGkngi~VNG~~l~~g~~~~L~~gd 220 (232)
..-|+|+.-++.|||...+...||-|+ ...|--.||.|+..+++. +.|..-+.--+||||++|.. +..|++||
T Consensus 469 ~LlY~ikeG~TrVG~~~a~~~~DI~Ls----G~~I~~qHC~i~~~~g~~~vtl~p~e~aetyVNGk~v~e--p~qL~~Gd 542 (1221)
T KOG0245|consen 469 CLLYYIKEGETRVGREDASSRQDIVLS----GQLIREQHCSIRNEGGNDVVTLEPCEDAETYVNGKLVTE--PTQLRSGD 542 (1221)
T ss_pred cEEEEeccCceecCCCCcccCCceEec----chhhhhhceEEEecCCCceEEeccCCccceeEccEEcCC--cceeccCC
Confidence 356999999999999999999999998 368889999999776332 67887777889999999974 88999999
Q ss_pred eEEECCC
Q psy10574 221 IIERFDR 227 (232)
Q Consensus 221 iIeig~~ 227 (232)
.|-+|+-
T Consensus 543 RiilG~~ 549 (1221)
T KOG0245|consen 543 RIILGGN 549 (1221)
T ss_pred EEEEcCc
Confidence 9999984
No 13
>TIGR01663 PNK-3'Pase polynucleotide 5'-kinase 3'-phosphatase. Note that the EC number for the kinase function is: 2.7.1.78
Probab=97.15 E-value=0.00079 Score=66.44 Aligned_cols=76 Identities=17% Similarity=0.178 Sum_probs=63.3
Q ss_pred ccceEEEeecCeeEeCCCCCCCCcceecCCCCCCcccchhceeEEEccCC-cEEEEEcCcCceEECCEEecCCCceeCCC
Q psy10574 140 GRAVRYLMKFRDVTLGRSTADHSVDIDLSLEGPAWKVSRRQACIRMRNNG-DFFIANEGKRPIYVDGRPIIASNKYKLNH 218 (232)
Q Consensus 140 G~~~~y~m~~~ei~IGR~s~~~~VDIDLs~eG~~~~ISR~HA~I~~~~d~-~f~L~nlGkngi~VNG~~l~~g~~~~L~~ 218 (232)
++.....+....++|||..+..-- +++=||+|-.+.-+.+. ...++.+|.||.-|||+.+.+|..+.|++
T Consensus 22 ~~~~~~~~~~~~~~~gr~pet~i~---------d~~cs~~qv~l~a~~~~~~v~~k~lg~np~~~~~~~~~~~~~~~l~~ 92 (526)
T TIGR01663 22 AEHHFIHLDAGALFLGRGPETGIR---------DRKCSKRQIELQADLEKATVALKQLGVNPCGTGGLELKPGGEGELGH 92 (526)
T ss_pred CCCCeeccCCCceEEccCcccccc---------hhhhchhhheeeecccCceEEEEEccCCCcccCceEecCCCeeeecC
Confidence 445566667888999999765433 47889999999887764 45699999999999999999999999999
Q ss_pred CCeEEE
Q psy10574 219 NSIIER 224 (232)
Q Consensus 219 gdiIei 224 (232)
||+++|
T Consensus 93 g~~l~~ 98 (526)
T TIGR01663 93 GDLLEI 98 (526)
T ss_pred CCEEEE
Confidence 999987
No 14
>KOG1881|consensus
Probab=97.04 E-value=0.00031 Score=70.93 Aligned_cols=73 Identities=15% Similarity=0.226 Sum_probs=60.2
Q ss_pred ecCeeEeCCCCCCCCcceecCCCCCCcccchhceeEEEccCC-c---------EEEEEcCc-CceEECCEEecCCCceeC
Q psy10574 148 KFRDVTLGRSTADHSVDIDLSLEGPAWKVSRRQACIRMRNNG-D---------FFIANEGK-RPIYVDGRPIIASNKYKL 216 (232)
Q Consensus 148 ~~~ei~IGR~s~~~~VDIDLs~eG~~~~ISR~HA~I~~~~d~-~---------f~L~nlGk-ngi~VNG~~l~~g~~~~L 216 (232)
....++|||-+ --|+-|- ...|||-||.|.|..+| . |||.++|+ ||+|+|-.+++|-.=+++
T Consensus 175 ~~~~~~fgr~~---~cD~~~e----HpsISr~h~vlQy~~~~~~~p~~s~~~g~~i~dlgsThgt~~NK~rvppk~yir~ 247 (793)
T KOG1881|consen 175 GAAACLFGRLG---GCDVALE----HPSISRFHAVLQYKASGPDDPCASNGEGWYIYDLGSTHGTFLNKDRVPPKVYIRD 247 (793)
T ss_pred cceeEEecccC---CCccccc----cCcccccceeeeccCCCCCccccCCCCceEEeeccccccceeccccCCCcchhhh
Confidence 34568999987 3455443 46899999999998743 4 99999997 999999999999887899
Q ss_pred CCCCeEEECCC
Q psy10574 217 NHNSIIERFDR 227 (232)
Q Consensus 217 ~~gdiIeig~~ 227 (232)
.-|+++++||-
T Consensus 248 ~Vg~v~~fggs 258 (793)
T KOG1881|consen 248 RVGHVARFGGS 258 (793)
T ss_pred hHHHHHHhcCc
Confidence 99999999874
No 15
>KOG1880|consensus
Probab=96.31 E-value=0.0036 Score=57.90 Aligned_cols=86 Identities=16% Similarity=0.193 Sum_probs=68.4
Q ss_pred eEEEEEccc---eEEEeecCeeEeCCCCCCCCcceecCCCCCCcccchhceeEEEccCCc-EEEEEcCc-CceEECCEEe
Q psy10574 134 TYAVLRGRA---VRYLMKFRDVTLGRSTADHSVDIDLSLEGPAWKVSRRQACIRMRNNGD-FFIANEGK-RPIYVDGRPI 208 (232)
Q Consensus 134 ~lAvL~G~~---~~y~m~~~ei~IGR~s~~~~VDIDLs~eG~~~~ISR~HA~I~~~~d~~-f~L~nlGk-ngi~VNG~~l 208 (232)
.|-+..|.. ......++.-++||+......+||- ...||.||.+-|....+ ++|-++|+ +|+|+-...|
T Consensus 19 hldv~k~d~li~kl~iddkr~y~Fgrn~q~~df~idh------~scSrvhaa~vyhkhl~~~~lidl~s~hgtf~g~~rL 92 (337)
T KOG1880|consen 19 HLDVVKGDKLIQKLIIDDKRRYLFGRNHQTCDFVIDH------ASCSRVHAALVYHKHLSRIFLIDLGSTHGTFLGNERL 92 (337)
T ss_pred ceeeeecchhHHHHHhhhhhhhhhccCCCccceEeec------chhhhhHhhhhhhhccceEEEEEccCCcceeeeeeee
Confidence 444555552 2333456667899998877666665 78999999999988766 99999996 9999999999
Q ss_pred cCCCceeCCCCCeEEEC
Q psy10574 209 IASNKYKLNHNSIIERF 225 (232)
Q Consensus 209 ~~g~~~~L~~gdiIeig 225 (232)
.+..++.|.-|....||
T Consensus 93 ~~~~p~~l~i~~~~~fg 109 (337)
T KOG1880|consen 93 EPHKPVQLEIGSTFHFG 109 (337)
T ss_pred ccCCCccccCCceEEEe
Confidence 99999999999988876
No 16
>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=95.75 E-value=0.035 Score=52.98 Aligned_cols=86 Identities=16% Similarity=0.229 Sum_probs=61.1
Q ss_pred EEEEEcc--ceEEEeecCeeEeC-CCCCCCCcceecCCCCCCcccchhceeEEEccCCcEEEEEcCcCceEECCEEecCC
Q psy10574 135 YAVLRGR--AVRYLMKFRDVTLG-RSTADHSVDIDLSLEGPAWKVSRRQACIRMRNNGDFFIANEGKRPIYVDGRPIIAS 211 (232)
Q Consensus 135 lAvL~G~--~~~y~m~~~ei~IG-R~s~~~~VDIDLs~eG~~~~ISR~HA~I~~~~d~~f~L~nlGkngi~VNG~~l~~g 211 (232)
+-+|.|. ..++.+...+.+|| ++ .|+|+.+ ++..|||+|+.|..+.++ +.+... ..++.+||.++...
T Consensus 3 lrvl~G~~~G~~~~L~~g~~~iG~~~-----~~~di~L--~d~~~~~~h~~l~v~~~~-~~l~~~-~~~~~~~g~~~~~~ 73 (410)
T TIGR02500 3 LRVLSGPHRGAELPLPEGNLVLGTDA-----ADCDIVL--SDGGIAAVHVSLHVRLEG-VTLAGA-VEPAWEEGGVLPDE 73 (410)
T ss_pred EEEecCCCCCcEEECCCCceEeccCC-----CCcEEEe--CCCCccchheEEEEcCce-EEEecC-CcceeECCcccccC
Confidence 5667776 47889998999999 77 3555443 268999999999998755 556533 33589999554444
Q ss_pred CceeCCCCCeEEECCCCc
Q psy10574 212 NKYKLNHNSIIERFDRGN 229 (232)
Q Consensus 212 ~~~~L~~gdiIeig~~~~ 229 (232)
.-.+|..+..|++|++.|
T Consensus 74 ~g~~l~~~~~l~~g~~~~ 91 (410)
T TIGR02500 74 EGTPLPSGTPLLVAGVAF 91 (410)
T ss_pred CCCccCCCCceecceeEE
Confidence 445577888888887654
No 17
>KOG2293|consensus
Probab=94.40 E-value=0.007 Score=59.49 Aligned_cols=30 Identities=40% Similarity=0.776 Sum_probs=25.9
Q ss_pred Hhcc-ccCccccHHHHHHhhHHhhcChHhhH
Q psy10574 20 HRGL-KFSCKFTFNECLQRWFTLLYDPNLSR 49 (232)
Q Consensus 20 ~~~~-~Fs~~fT~~ei~~Rw~~llyd~~is~ 49 (232)
++|+ .|||+||+.|+++||++|||-+.+-+
T Consensus 4 a~ga~~~sr~~s~~~~~~~w~~~l~~~~~~~ 34 (547)
T KOG2293|consen 4 AKGAVQFSRKFSLSELTERWHALLYMEEVLR 34 (547)
T ss_pred cccceeeeccccccCCCcchhhhhhhHhhhh
Confidence 4454 99999999999999999998887654
No 18
>KOG0615|consensus
Probab=93.97 E-value=0.066 Score=51.88 Aligned_cols=81 Identities=15% Similarity=0.082 Sum_probs=52.9
Q ss_pred EeecCeeEeCCCCCCC-C-cceecCC---CCC-CcccchhceeEEEccC-CcEEEEEcCcCceEECCEEecCCCceeCCC
Q psy10574 146 LMKFRDVTLGRSTADH-S-VDIDLSL---EGP-AWKVSRRQACIRMRNN-GDFFIANEGKRPIYVDGRPIIASNKYKLNH 218 (232)
Q Consensus 146 ~m~~~ei~IGR~s~~~-~-VDIDLs~---eG~-~~~ISR~HA~I~~~~d-~~f~L~nlGkngi~VNG~~l~~g~~~~L~~ 218 (232)
-.-+.+.++||..... . =++.|+. .+- -.++|-.|-.+--+.+ ..+|+++..+|||+||...+..|....|++
T Consensus 60 d~~nd~f~fGR~~~~d~~ln~~~~s~~~~~i~~~~~~~~~~f~~dr~~~sn~~y~~DhS~nGT~VN~e~i~k~~~r~lkN 139 (475)
T KOG0615|consen 60 DLANDEFTFGRGDSCDAPLNLNNVSNKHFKILLYNKISKIHFRIDRDKNSNRVYLHDHSRNGTFVNDEMIGKGLSRILKN 139 (475)
T ss_pred eeccceEEecCCCcccccccCccccccchheeeeeeeeeeeecccCCCccceEEEEecccCcccccHhHhhccccccccC
Confidence 4456788899984331 1 1111111 000 1244444443332222 469999999999999999999999999999
Q ss_pred CCeEEECC
Q psy10574 219 NSIIERFD 226 (232)
Q Consensus 219 gdiIeig~ 226 (232)
||.|.|+-
T Consensus 140 ~dei~is~ 147 (475)
T KOG0615|consen 140 GDEISISI 147 (475)
T ss_pred CCEEEecc
Confidence 99999864
No 19
>KOG0241|consensus
Probab=93.89 E-value=0.24 Score=52.39 Aligned_cols=116 Identities=19% Similarity=0.198 Sum_probs=78.8
Q ss_pred HHHHHHHhhhhhh----hhhhhcCCCCcCCCCc-eEEEEEcc-----ceEEEeecCeeEeCCCCCCCCcceecCCCCCCc
Q psy10574 105 LKKVEEEMKNWAV----IVDHVTGSNTPELDKQ-TYAVLRGR-----AVRYLMKFRDVTLGRSTADHSVDIDLSLEGPAW 174 (232)
Q Consensus 105 i~~le~e~~~~~~----lvd~v~~~~~~~~d~~-~lAvL~G~-----~~~y~m~~~ei~IGR~s~~~~VDIDLs~eG~~~ 174 (232)
|+.+|...+.-+. +++++...+.-.+|.+ .+..+.|. ...||+. ...+|| .....||-|+. -
T Consensus 413 l~ktE~in~erq~~L~~~gis~~~sgikv~dDK~ylvnlnadP~lnellvyyl~-~~tlig---~~~~~~i~l~g----l 484 (1714)
T KOG0241|consen 413 LRKTEEINQERQAQLESMGISLENSGIKVGDDKCYLVNLNADPALNELLVYYLK-DHTLIG---LFKSQDIQLSG----L 484 (1714)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcccccccccceEEEeccCCccHHHHHHHhhc-Cceeec---cccCcceeeec----C
Confidence 5555544444332 3333333223334444 56666666 3567765 445666 33467887763 5
Q ss_pred ccchhceeEEEccCCcEEEEEcCcCceEECCEEecCCCceeCCCCCeEEECCCCcc
Q psy10574 175 KVSRRQACIRMRNNGDFFIANEGKRPIYVDGRPIIASNKYKLNHNSIIERFDRGNW 230 (232)
Q Consensus 175 ~ISR~HA~I~~~~d~~f~L~nlGkngi~VNG~~l~~g~~~~L~~gdiIeig~~~~~ 230 (232)
.|=++|+.|..+.+|..++.-+-.-.++|||..+- .+..|.|||.|-.|..-|+
T Consensus 485 gi~p~h~vidI~~dg~l~~~p~~~~R~~VNGs~v~--~~t~L~~GdRiLwGnnHFF 538 (1714)
T KOG0241|consen 485 GIQPKHCVIDIESDGELRLTPLLNARSCVNGSLVC--STTQLWHGDRILWGNNHFF 538 (1714)
T ss_pred cccCccceeeeccCCcEEecccccceeeecCceec--cccccccCceEEecccceE
Confidence 78899999999999998888877668999999986 3789999999999887665
No 20
>PF13921 Myb_DNA-bind_6: Myb-like DNA-binding domain; PDB: 1A5J_A 1MBH_A 1GV5_A 1H89_C 1IDY_A 1MBK_A 1IDZ_A 1H88_C 1GVD_A 1MBG_A ....
Probab=93.06 E-value=0.24 Score=34.12 Aligned_cols=54 Identities=24% Similarity=0.393 Sum_probs=40.0
Q ss_pred hhHHHHHHh-cccchHHHHhccccCccccHHHHHHhhHHhhcChHhhHHHHHhhhcCChHHHHhhhhccCCChHHHHHh
Q psy10574 3 NEIRELNLN-RTNDIKAVHRGLKFSCKFTFNECLQRWFTLLYDPNLSRLAVQGMQNLHPEVVHNIQAKALFSNDEEELL 80 (232)
Q Consensus 3 ~~~~i~av~-~~~~l~~v~~~~~Fs~~fT~~ei~~Rw~~llyd~~is~~a~~~m~~l~~~~~~~v~~~~~~s~~Ee~~L 80 (232)
.++|+..|. ++++-..|+.-+. ..|-..+..||+..|- |. -++.|||.+|++.|
T Consensus 6 d~~L~~~~~~~g~~W~~Ia~~l~---~Rt~~~~~~r~~~~l~-~~--------------------~~~~~wt~eEd~~L 60 (60)
T PF13921_consen 6 DELLLELVKKYGNDWKKIAEHLG---NRTPKQCRNRWRNHLR-PK--------------------ISRGPWTKEEDQRL 60 (60)
T ss_dssp HHHHHHHHHHHTS-HHHHHHHST---TS-HHHHHHHHHHTTS-TT--------------------STSSSSSHHHHHHH
T ss_pred HHHHHHHHHHHCcCHHHHHHHHC---cCCHHHHHHHHHHHCc-cc--------------------ccCCCcCHHHHhcC
Confidence 357888887 7788888877653 6899999999999542 22 34889999999876
No 21
>PRK11507 ribosome-associated protein; Provisional
Probab=78.33 E-value=2.5 Score=31.31 Aligned_cols=31 Identities=13% Similarity=0.095 Sum_probs=24.7
Q ss_pred CceEECCEEecCCCceeCCCCCeEEECCCCcc
Q psy10574 199 RPIYVDGRPIIASNKYKLNHNSIIERFDRGNW 230 (232)
Q Consensus 199 ngi~VNG~~l~~g~~~~L~~gdiIeig~~~~~ 230 (232)
+.+.|||+.-. -...+|.+||+|+|.|..++
T Consensus 37 g~V~VNGeve~-rRgkKl~~GD~V~~~g~~~~ 67 (70)
T PRK11507 37 GQVKVDGAVET-RKRCKIVAGQTVSFAGHSVQ 67 (70)
T ss_pred CceEECCEEec-ccCCCCCCCCEEEECCEEEE
Confidence 57999999754 33468999999999997654
No 22
>PF03166 MH2: MH2 domain; InterPro: IPR001132 Mammalian dwarfins are phosphorylated in response to transforming growth factor beta and are implicated in control of cell growth []. The dwarfin family also includes the Drosophila protein MAD that is required for the function of decapentaplegic (DPP) and may play a role in DPP signalling. Drosophila Mad binds to DNA and directly mediates activation of vestigial by Dpp []. This domain is also found in nuclear factor I (NF-I) or CCAAT box-binding transcription factor (CTF). This entry represents the SMAD (Mothers against decapentaplegic (MAD) homologue) (also called MH2 for MAD homology 2) domain found at the carboxy terminus of MAD related proteins such as Smads. This domain is separated from the MH1 domain by a non-conserved linker region. The MH2 domain mediates interaction with a wide variety of proteins and provides specificity and selectivity to Smad function and also is critical for mediating interactions in Smad oligomers. Unlike MH1, MH2 does not bind DNA. The well-studied MH2 domain of Smad4 is composed of five alpha helices and three loops enclosing a beta sandwich. Smads are involved in the propagation of TGF-beta signals by direct association with the TGF-beta receptor kinase which phosphorylates the last two Ser of a conserved 'SSXS' motif located at the C terminus of MH2 [, , ].; GO: 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1MK2_A 1U7F_A 1MJS_A 1KHU_A 1DD1_C 1G88_A 1U7V_B 1MR1_B 1YGS_A 3DIT_B ....
Probab=77.75 E-value=2.3 Score=36.21 Aligned_cols=84 Identities=15% Similarity=0.265 Sum_probs=46.4
Q ss_pred eEEEeecCeeEe-CCCCCCCCcceecCCCCC---Cccc--chhc----eeEEEccCCcEEEEEcCcCceEECCEEec---
Q psy10574 143 VRYLMKFRDVTL-GRSTADHSVDIDLSLEGP---AWKV--SRRQ----ACIRMRNNGDFFIANEGKRPIYVDGRPII--- 209 (232)
Q Consensus 143 ~~y~m~~~ei~I-GR~s~~~~VDIDLs~eG~---~~~I--SR~H----A~I~~~~d~~f~L~nlGkngi~VNG~~l~--- 209 (232)
..|..+++.++| |-.++...-.+-|+.... +..+ -|+| -.|+++.+|+.||+|+++++|||+...+.
T Consensus 20 ~~f~~~~~~v~idG~~d~~~~~r~~Lg~~~n~~R~~~~~~~R~~IG~Gi~l~~~~~G~V~l~n~s~~pVFVqS~~~n~~~ 99 (181)
T PF03166_consen 20 EAFKARSPSVIIDGFTDPSDGDRFCLGQLSNVNRDSKTEKIRRHIGKGIKLSYEEDGNVWLYNRSDSPVFVQSPTLNYQH 99 (181)
T ss_dssp EEEEEESSEEEEESSSSSSSSSEEECTT---TT--HHHHHHHTTCTT-EEEEEETTTEEEEEE-SSS-EEEE-HHHHHHT
T ss_pred ceeEccCCeEEEeeccCCCCCCcEecCccCCCCCChHHhhHHheecCcEEEEEecCCeEEEEECCCCCEEEccCCCCccc
Confidence 447777787655 543333333345543221 2222 2344 46777778999999999999999865443
Q ss_pred ---CCCceeCCCCCeEEECC
Q psy10574 210 ---ASNKYKLNHNSIIERFD 226 (232)
Q Consensus 210 ---~g~~~~L~~gdiIeig~ 226 (232)
++..+++.+|..+.|=|
T Consensus 100 ~~~~~~V~Kv~pg~~~kvFd 119 (181)
T PF03166_consen 100 GFHPGTVCKVPPGYSLKVFD 119 (181)
T ss_dssp TSTTTSEEEE-TT-EEEEEE
T ss_pred CcCCCCcEEeCCCceeeccC
Confidence 33456777777776643
No 23
>PLN03212 Transcription repressor MYB5; Provisional
Probab=77.29 E-value=2.8 Score=38.00 Aligned_cols=58 Identities=19% Similarity=0.360 Sum_probs=42.6
Q ss_pred hhHHHHHHhc--ccchHHHHhccccCccccHHHHHHhhHHhhcChHhhHHHHHhhhcCChHHHHhhhhccCCChHHHHHh
Q psy10574 3 NEIRELNLNR--TNDIKAVHRGLKFSCKFTFNECLQRWFTLLYDPNLSRLAVQGMQNLHPEVVHNIQAKALFSNDEEELL 80 (232)
Q Consensus 3 ~~~~i~av~~--~~~l~~v~~~~~Fs~~fT~~ei~~Rw~~llyd~~is~~a~~~m~~l~~~~~~~v~~~~~~s~~Ee~~L 80 (232)
.++|+.+|.. .++-..|++- +...-|-+.+.+||...| +|.|. +-+||.+|+++|
T Consensus 33 De~L~~lV~kyG~~nW~~IAk~--~g~gRT~KQCReRW~N~L-~P~I~--------------------kgpWT~EED~lL 89 (249)
T PLN03212 33 DEILVSFIKKEGEGRWRSLPKR--AGLLRCGKSCRLRWMNYL-RPSVK--------------------RGGITSDEEDLI 89 (249)
T ss_pred HHHHHHHHHHhCcccHHHHHHh--hhcCCCcchHHHHHHHhh-chhcc--------------------cCCCChHHHHHH
Confidence 3577888875 3567777543 334468999999999988 56544 679999999998
Q ss_pred hhc
Q psy10574 81 GSI 83 (232)
Q Consensus 81 ~~~ 83 (232)
...
T Consensus 90 lel 92 (249)
T PLN03212 90 LRL 92 (249)
T ss_pred HHH
Confidence 763
No 24
>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=76.23 E-value=4.9 Score=34.65 Aligned_cols=45 Identities=20% Similarity=0.289 Sum_probs=34.6
Q ss_pred eEEEccCCcEEEEEcCcCceEECCEEecC------CCceeCCCCCeEEECCC
Q psy10574 182 CIRMRNNGDFFIANEGKRPIYVDGRPIIA------SNKYKLNHNSIIERFDR 227 (232)
Q Consensus 182 ~I~~~~d~~f~L~nlGkngi~VNG~~l~~------g~~~~L~~gdiIeig~~ 227 (232)
+|+++. |+.|++|+++.+|||+.--+.. ...+++.+|.-|.+=|.
T Consensus 70 ~L~~~~-g~Vw~~~~S~~~VFVqS~~l~~~~~~~~~~V~Kv~pg~~lKvFd~ 120 (176)
T cd00050 70 QLSYEN-GEVWAYNLSDHPIFVQSPTLDYPLGRPLLTVHKVPPGYSLKVFDF 120 (176)
T ss_pred EEEEeC-CeEEEEEcCCCCEEEcCCCCCcccCCCCcceEEeCCCCEEEEeCH
Confidence 566665 8899999999999999766542 23468889988887654
No 25
>PRK06488 sulfur carrier protein ThiS; Validated
Probab=76.09 E-value=2.4 Score=29.86 Aligned_cols=25 Identities=20% Similarity=0.300 Sum_probs=21.6
Q ss_pred ceEECCEEecCCC--ceeCCCCCeEEE
Q psy10574 200 PIYVDGRPIIASN--KYKLNHNSIIER 224 (232)
Q Consensus 200 gi~VNG~~l~~g~--~~~L~~gdiIei 224 (232)
.+-|||+.+++.+ ..+|++||.|+|
T Consensus 32 avavN~~iv~~~~~~~~~L~dgD~Iei 58 (65)
T PRK06488 32 ATAVNGELVHKEARAQFVLHEGDRIEI 58 (65)
T ss_pred EEEECCEEcCHHHcCccccCCCCEEEE
Confidence 3789999998754 689999999997
No 26
>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=75.61 E-value=3.3 Score=28.63 Aligned_cols=24 Identities=25% Similarity=0.254 Sum_probs=19.4
Q ss_pred ceEECCEEecCCCceeCCCCCeEEE
Q psy10574 200 PIYVDGRPIIASNKYKLNHNSIIER 224 (232)
Q Consensus 200 gi~VNG~~l~~g~~~~L~~gdiIei 224 (232)
.++|||+++. ...++|..||.|+|
T Consensus 35 ~V~VNg~~~~-~~~~~l~~Gd~v~i 58 (59)
T TIGR02988 35 EVLVNGELEN-RRGKKLYPGDVIEI 58 (59)
T ss_pred CEEECCEEcc-CCCCCCCCCCEEEe
Confidence 5999999984 22578999999987
No 27
>smart00524 DWB Domain B in dwarfin family proteins.
Probab=75.40 E-value=5.2 Score=34.37 Aligned_cols=45 Identities=27% Similarity=0.396 Sum_probs=34.6
Q ss_pred eEEEccCCcEEEEEcCcCceEECCEEecC------CCceeCCCCCeEEECCC
Q psy10574 182 CIRMRNNGDFFIANEGKRPIYVDGRPIIA------SNKYKLNHNSIIERFDR 227 (232)
Q Consensus 182 ~I~~~~d~~f~L~nlGkngi~VNG~~l~~------g~~~~L~~gdiIeig~~ 227 (232)
+|+++. |+.|++|+++.+|||+...+.. ...++|.+|.-|.+=+.
T Consensus 65 ~L~~~~-g~Vw~~~~s~~~VFVqS~~~~~~~~~~~~~V~Kv~pg~~lKvFd~ 115 (171)
T smart00524 65 QLSYEN-GDVWLYNRSDSPIFVQSPYLDEPGGRTLDTVHKLPPGYSIKVFDM 115 (171)
T ss_pred EEEEeC-CeEEEEEcCCCCeEEcCCCcccccCCCCcceEEECCCCeEEEeCh
Confidence 566664 8899999999999999766552 24567889888887654
No 28
>smart00797 AHS2 Allophanate hydrolase subunit 2. This domain represents subunit 2 of allophanate hydrolase (AHS2).
Probab=74.97 E-value=6.4 Score=36.10 Aligned_cols=45 Identities=20% Similarity=0.327 Sum_probs=36.2
Q ss_pred eEEEccCCcEEEEEcC-cCceEECCEEecCCCceeCCCCCeEEECCCC
Q psy10574 182 CIRMRNNGDFFIANEG-KRPIYVDGRPIIASNKYKLNHNSIIERFDRG 228 (232)
Q Consensus 182 ~I~~~~d~~f~L~nlG-kngi~VNG~~l~~g~~~~L~~gdiIeig~~~ 228 (232)
++++.. .-+|...| .-.+.|||+++.++..+.++.||+|+|+...
T Consensus 39 ~l~f~~--~~~iAitGA~~~~~ln~~~~~~~~~~~v~~Gd~L~~g~~~ 84 (280)
T smart00797 39 TLRFTA--DAVIALTGADFPATLDGQPVPPWKPFLVRAGQVLSLGAPK 84 (280)
T ss_pred EEEECC--CcEEEEeCCCCeeeECCEEcCCCeEEEECCCCEEEeCCCC
Confidence 455553 34677777 4789999999999999999999999999654
No 29
>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=74.55 E-value=3.5 Score=28.97 Aligned_cols=25 Identities=20% Similarity=0.239 Sum_probs=21.0
Q ss_pred ceEECCEEecCC--CceeCCCCCeEEE
Q psy10574 200 PIYVDGRPIIAS--NKYKLNHNSIIER 224 (232)
Q Consensus 200 gi~VNG~~l~~g--~~~~L~~gdiIei 224 (232)
.+.|||+.+++. ...+|++||.|+|
T Consensus 32 ~V~vNg~~v~~~~~~~~~L~~gD~V~i 58 (65)
T cd00565 32 AVALNGEIVPRSEWASTPLQDGDRIEI 58 (65)
T ss_pred EEEECCEEcCHHHcCceecCCCCEEEE
Confidence 577999999874 4589999999987
No 30
>PRK06437 hypothetical protein; Provisional
Probab=74.24 E-value=4.2 Score=29.21 Aligned_cols=24 Identities=13% Similarity=0.321 Sum_probs=20.4
Q ss_pred CceEECCEEecCCCceeCCCCCeEEE
Q psy10574 199 RPIYVDGRPIIASNKYKLNHNSIIER 224 (232)
Q Consensus 199 ngi~VNG~~l~~g~~~~L~~gdiIei 224 (232)
-.+.+||+.++ ....|++||.|+|
T Consensus 37 vaV~vNg~iv~--~~~~L~dgD~Vei 60 (67)
T PRK06437 37 YVVIVNGSPVL--EDHNVKKEDDVLI 60 (67)
T ss_pred EEEEECCEECC--CceEcCCCCEEEE
Confidence 35779999997 5789999999987
No 31
>KOG2294|consensus
Probab=72.60 E-value=4.1 Score=38.51 Aligned_cols=90 Identities=20% Similarity=0.163 Sum_probs=67.9
Q ss_pred ceEEEeecCeeEeCCCCCCC------Ccceec--CCCCCCcccchhceeEEEccC-CcEEEEEcCcCceEECCEEecCC-
Q psy10574 142 AVRYLMKFRDVTLGRSTADH------SVDIDL--SLEGPAWKVSRRQACIRMRNN-GDFFIANEGKRPIYVDGRPIIAS- 211 (232)
Q Consensus 142 ~~~y~m~~~ei~IGR~s~~~------~VDIDL--s~eG~~~~ISR~HA~I~~~~d-~~f~L~nlGkngi~VNG~~l~~g- 211 (232)
.+.+++....+..||..... ..+++. ...++...++|.|+.+.+..+ ..|.....|+++..+++..-..+
T Consensus 59 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kpp~SY~~L 138 (454)
T KOG2294|consen 59 DFTYYVQKLHVILGRPGSSSNSSPSASSGVDVNVQDLGPTKAISRKHAKIFYDLGRQRFSLPVPGKNGAGVKPPYSYSGL 138 (454)
T ss_pred cceeeccchhhccccccccccccccccccccccccccCCcccccccccccccccccCCccccccccCCCCcCCccccccc
Confidence 47888899999999954331 222221 124778999999999998875 46888888888777777665555
Q ss_pred --CceeCCCCCeEEECCCCccc
Q psy10574 212 --NKYKLNHNSIIERFDRGNWN 231 (232)
Q Consensus 212 --~~~~L~~gdiIeig~~~~~~ 231 (232)
..+.+.++..|.++++..|-
T Consensus 139 I~mAI~~Sp~krLtLs~Iy~~i 160 (454)
T KOG2294|consen 139 IAMAIRLSPGKRLTLGGIYFYI 160 (454)
T ss_pred cccccccCCCcceeecCeeEEE
Confidence 46789999999999999885
No 32
>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=72.21 E-value=5.1 Score=36.54 Aligned_cols=44 Identities=16% Similarity=0.242 Sum_probs=31.6
Q ss_pred eEEEccCCcEEEEEcCc-CceEECCEEecCCCceeCCCCCeEEECCC
Q psy10574 182 CIRMRNNGDFFIANEGK-RPIYVDGRPIIASNKYKLNHNSIIERFDR 227 (232)
Q Consensus 182 ~I~~~~d~~f~L~nlGk-ngi~VNG~~l~~g~~~~L~~gdiIeig~~ 227 (232)
.+++. ..-.|...|- -...|||+++++++.+.++.||+|+|+..
T Consensus 39 ~l~f~--~~~~ialtGa~~~~~lng~~~~~~~~~~v~~Gd~L~~~~~ 83 (271)
T PF02626_consen 39 ELRFE--EDTVIALTGADFEATLNGKPVPMWQPFLVKAGDVLKFGPP 83 (271)
T ss_dssp EEEES--S-EEEEEEESCEEEEETTEEE-TTSEEEE-TT-EEEEEEE
T ss_pred EEEEC--CCeEEEEECCCCceEECCEEccCCEEEEECCCCEEEecCC
Confidence 34443 3456666774 57899999999999999999999999865
No 33
>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=72.20 E-value=3.7 Score=28.81 Aligned_cols=25 Identities=24% Similarity=0.263 Sum_probs=20.8
Q ss_pred ceEECCEEecCCC--ceeCCCCCeEEE
Q psy10574 200 PIYVDGRPIIASN--KYKLNHNSIIER 224 (232)
Q Consensus 200 gi~VNG~~l~~g~--~~~L~~gdiIei 224 (232)
.+.|||+.+++.+ .+.|++||.|+|
T Consensus 31 ~v~vN~~iv~~~~~~~~~L~~gD~vei 57 (64)
T TIGR01683 31 AVAVNGEIVPRSEWDDTILKEGDRIEI 57 (64)
T ss_pred EEEECCEEcCHHHcCceecCCCCEEEE
Confidence 5779999997653 578999999987
No 34
>smart00363 S4 S4 RNA-binding domain.
Probab=72.14 E-value=6.5 Score=25.27 Aligned_cols=25 Identities=16% Similarity=0.349 Sum_probs=20.5
Q ss_pred ceEECCEEe-cCCCceeCCCCCeEEECC
Q psy10574 200 PIYVDGRPI-IASNKYKLNHNSIIERFD 226 (232)
Q Consensus 200 gi~VNG~~l-~~g~~~~L~~gdiIeig~ 226 (232)
.++|||+++ .+ ..+|..||.|.+..
T Consensus 27 ~i~vng~~~~~~--~~~l~~gd~i~~~~ 52 (60)
T smart00363 27 RVKVNGKKVTKP--SYIVKPGDVISVRG 52 (60)
T ss_pred CEEECCEEecCC--CeEeCCCCEEEEcc
Confidence 699999998 54 45789999999876
No 35
>PRK06944 sulfur carrier protein ThiS; Provisional
Probab=72.10 E-value=4.4 Score=28.22 Aligned_cols=25 Identities=12% Similarity=0.193 Sum_probs=21.0
Q ss_pred ceEECCEEecCC--CceeCCCCCeEEE
Q psy10574 200 PIYVDGRPIIAS--NKYKLNHNSIIER 224 (232)
Q Consensus 200 gi~VNG~~l~~g--~~~~L~~gdiIei 224 (232)
.+.|||+.+++. ....|++||.|+|
T Consensus 32 ~v~vN~~~v~~~~~~~~~L~~gD~vei 58 (65)
T PRK06944 32 AVAVNGDFVARTQHAARALAAGDRLDL 58 (65)
T ss_pred EEEECCEEcCchhcccccCCCCCEEEE
Confidence 579999999754 4678999999997
No 36
>PRK15367 type III secretion system protein SsaD; Provisional
Probab=71.70 E-value=7 Score=37.75 Aligned_cols=76 Identities=22% Similarity=0.396 Sum_probs=50.7
Q ss_pred EEccceEEEeecCeeEeCCCCCCCCcceecCCCCCCcccchhceeEEEccCCcEEEEEcCcCceEECCEEecCCCceeCC
Q psy10574 138 LRGRAVRYLMKFRDVTLGRSTADHSVDIDLSLEGPAWKVSRRQACIRMRNNGDFFIANEGKRPIYVDGRPIIASNKYKLN 217 (232)
Q Consensus 138 L~G~~~~y~m~~~ei~IGR~s~~~~VDIDLs~eG~~~~ISR~HA~I~~~~d~~f~L~nlGkngi~VNG~~l~~g~~~~L~ 217 (232)
|+||.. .+..-+.++|=. ..||-|.++ ......++.+++|- ++. .+.-.++|||.+...+++ |.
T Consensus 14 L~GrEl--~Lp~G~~tlG~~----gcDi~lpL~------~~~~~~L~i~e~gi-~l~-~~~~~vwVnG~~~~~~~~--LP 77 (395)
T PRK15367 14 LQGREV--WLNEGNLSLGEK----GCDICIPLT------INEKIILREQADSL-FVD-AGKARVRVNGRRFNPNKP--LP 77 (395)
T ss_pred ccCcEE--ecCCCceeecCC----CceEEEECC------CCCEEEEEEcCCcE-EEe-cCCceEEECCEEcCCCCC--CC
Confidence 456654 455568899975 367766543 23445567776553 332 233469999999988777 66
Q ss_pred CCCeEEECCCCc
Q psy10574 218 HNSIIERFDRGN 229 (232)
Q Consensus 218 ~gdiIeig~~~~ 229 (232)
-+-.||++|+.+
T Consensus 78 l~q~Ie~aG~~~ 89 (395)
T PRK15367 78 SSGVLQVAGVAI 89 (395)
T ss_pred CcchhhhcceEE
Confidence 788999998764
No 37
>COG2501 S4-like RNA binding protein [Replication, recombination, and repair]
Probab=70.88 E-value=5.3 Score=29.82 Aligned_cols=29 Identities=17% Similarity=0.192 Sum_probs=23.3
Q ss_pred CceEECCEEecCCCceeCCCCCeEEECCCC
Q psy10574 199 RPIYVDGRPIIASNKYKLNHNSIIERFDRG 228 (232)
Q Consensus 199 ngi~VNG~~l~~g~~~~L~~gdiIeig~~~ 228 (232)
+.++|||+.-.+ ...+|.+||+|+|.|..
T Consensus 37 g~V~vNGe~EtR-RgkKlr~gd~V~i~~~~ 65 (73)
T COG2501 37 GEVKVNGEVETR-RGKKLRDGDVVEIPGQR 65 (73)
T ss_pred CeEEECCeeeec-cCCEeecCCEEEECCEE
Confidence 479999998653 34689999999999864
No 38
>PF14478 DUF4430: Domain of unknown function (DUF4430); PDB: 3U7Z_B 2BB5_A.
Probab=69.43 E-value=4.8 Score=28.70 Aligned_cols=24 Identities=29% Similarity=0.475 Sum_probs=16.6
Q ss_pred eEECCEEecCCC-ceeCCCCCeEEE
Q psy10574 201 IYVDGRPIIASN-KYKLNHNSIIER 224 (232)
Q Consensus 201 i~VNG~~l~~g~-~~~L~~gdiIei 224 (232)
.+|||++...|. .++|++||.|.+
T Consensus 43 ~~vNG~~~~~ga~~~~l~~GD~i~~ 67 (68)
T PF14478_consen 43 YYVNGESANVGAGSYKLKDGDKITW 67 (68)
T ss_dssp EEETTEE-SS-CCC-B--TTEEEEE
T ss_pred EEECCEEhhcCcceeEeCCCCEEEe
Confidence 689999999987 489999999986
No 39
>PRK07696 sulfur carrier protein ThiS; Provisional
Probab=69.02 E-value=5 Score=28.76 Aligned_cols=25 Identities=8% Similarity=-0.020 Sum_probs=21.7
Q ss_pred ceEECCEEecCC--CceeCCCCCeEEE
Q psy10574 200 PIYVDGRPIIAS--NKYKLNHNSIIER 224 (232)
Q Consensus 200 gi~VNG~~l~~g--~~~~L~~gdiIei 224 (232)
.+-+||+.+++. ..+.|++||.|+|
T Consensus 34 av~vN~~iv~r~~w~~~~L~~gD~iEI 60 (67)
T PRK07696 34 VVERNKDILQKDDHTDTSVFDGDQIEI 60 (67)
T ss_pred EEEECCEEeCHHHcCceecCCCCEEEE
Confidence 588999999976 4688999999997
No 40
>PRK05659 sulfur carrier protein ThiS; Validated
Probab=68.88 E-value=5.1 Score=27.99 Aligned_cols=25 Identities=20% Similarity=0.312 Sum_probs=20.9
Q ss_pred ceEECCEEecCC--CceeCCCCCeEEE
Q psy10574 200 PIYVDGRPIIAS--NKYKLNHNSIIER 224 (232)
Q Consensus 200 gi~VNG~~l~~g--~~~~L~~gdiIei 224 (232)
.+.+||+.+++. ....|++||.|+|
T Consensus 33 av~vNg~iv~r~~~~~~~l~~gD~vei 59 (66)
T PRK05659 33 AVEVNGEIVPRSQHASTALREGDVVEI 59 (66)
T ss_pred EEEECCeEeCHHHcCcccCCCCCEEEE
Confidence 377999998865 4678999999997
No 41
>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=67.67 E-value=4.9 Score=26.29 Aligned_cols=22 Identities=23% Similarity=0.469 Sum_probs=16.7
Q ss_pred CceEECCEEec-CCCceeCCCCCeE
Q psy10574 199 RPIYVDGRPII-ASNKYKLNHNSII 222 (232)
Q Consensus 199 ngi~VNG~~l~-~g~~~~L~~gdiI 222 (232)
..++|||+.+. |+ .++..||+|
T Consensus 26 g~V~VNg~~v~~~~--~~v~~~d~I 48 (48)
T PF01479_consen 26 GRVKVNGKVVKDPS--YIVKPGDVI 48 (48)
T ss_dssp TTEEETTEEESSTT--SBESTTEEE
T ss_pred CEEEECCEEEcCCC--CCCCCcCCC
Confidence 36999999998 64 456678776
No 42
>PRK08053 sulfur carrier protein ThiS; Provisional
Probab=67.42 E-value=6.2 Score=27.95 Aligned_cols=25 Identities=8% Similarity=0.041 Sum_probs=21.1
Q ss_pred ceEECCEEecCC--CceeCCCCCeEEE
Q psy10574 200 PIYVDGRPIIAS--NKYKLNHNSIIER 224 (232)
Q Consensus 200 gi~VNG~~l~~g--~~~~L~~gdiIei 224 (232)
.+-|||+.++.. ..+.|++||.|+|
T Consensus 33 aVavN~~iv~r~~w~~~~L~~gD~Iei 59 (66)
T PRK08053 33 ALAINQQIIPREQWAQHIVQDGDQILL 59 (66)
T ss_pred EEEECCEEeChHHcCccccCCCCEEEE
Confidence 478999999865 5678999999997
No 43
>KOG1892|consensus
Probab=67.00 E-value=12 Score=40.23 Aligned_cols=87 Identities=20% Similarity=0.246 Sum_probs=61.6
Q ss_pred eEEEEE--cc--ceEEEeecCeeEeCCCCCCCCcceecCCCCCCcccchhceeEEEccCCcEEEEEcCc-CceEECCEEe
Q psy10574 134 TYAVLR--GR--AVRYLMKFRDVTLGRSTADHSVDIDLSLEGPAWKVSRRQACIRMRNNGDFFIANEGK-RPIYVDGRPI 208 (232)
Q Consensus 134 ~lAvL~--G~--~~~y~m~~~ei~IGR~s~~~~VDIDLs~eG~~~~ISR~HA~I~~~~d~~f~L~nlGk-ngi~VNG~~l 208 (232)
.|..+. |. ..+|.+....+-+|-...+ |-.+-++|| .|--+||.|.+- +|-..++-... --+||||..|
T Consensus 358 vLve~s~dG~~s~~ri~L~~~vtEVGs~~~~---~~~iqLfGP--~IqprHc~it~m-eGVvTvTP~~~DA~t~VnGh~i 431 (1629)
T KOG1892|consen 358 VLVELSPDGSDSRKRIRLQLSVTEVGSEKLD---DNSIQLFGP--GIQPRHCDITNM-EGVVTVTPRSMDAETYVNGHRI 431 (1629)
T ss_pred EEEEEcCCCCCcceeEEeccCceeccccccC---CcceeeeCC--CCCccccchhhc-cceEEecccccchhhhccceec
Confidence 566664 33 3567777777777765322 223344454 577899999976 47777777765 6899999999
Q ss_pred cCCCceeCCCCCeEEECCCC
Q psy10574 209 IASNKYKLNHNSIIERFDRG 228 (232)
Q Consensus 209 ~~g~~~~L~~gdiIeig~~~ 228 (232)
.. +..|++|+.|+||..-
T Consensus 432 sq--ttiL~~G~~v~fGa~h 449 (1629)
T KOG1892|consen 432 SQ--TTILQSGMKVQFGASH 449 (1629)
T ss_pred ch--hhhhccCCEEEeccce
Confidence 74 7889999999999754
No 44
>PRK06083 sulfur carrier protein ThiS; Provisional
Probab=65.99 E-value=4.5 Score=30.62 Aligned_cols=25 Identities=12% Similarity=0.118 Sum_probs=21.4
Q ss_pred ceEECCEEecCCC--ceeCCCCCeEEE
Q psy10574 200 PIYVDGRPIIASN--KYKLNHNSIIER 224 (232)
Q Consensus 200 gi~VNG~~l~~g~--~~~L~~gdiIei 224 (232)
.+-|||+.+++.+ .+.|++||.|+|
T Consensus 51 AVevNg~iVpr~~w~~t~L~egD~IEI 77 (84)
T PRK06083 51 VFAINNQVVPRSEWQSTVLSSGDAISL 77 (84)
T ss_pred EEEECCEEeCHHHcCcccCCCCCEEEE
Confidence 5689999998754 678999999997
No 45
>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=65.75 E-value=7.1 Score=27.86 Aligned_cols=23 Identities=17% Similarity=0.150 Sum_probs=19.9
Q ss_pred ceEECCEEecCCCceeCCCCCeEEE
Q psy10574 200 PIYVDGRPIIASNKYKLNHNSIIER 224 (232)
Q Consensus 200 gi~VNG~~l~~g~~~~L~~gdiIei 224 (232)
.++|||+.+. ...+|++||.|.|
T Consensus 51 ~v~vNg~~v~--~~~~l~~gD~v~i 73 (80)
T cd00754 51 RIAVNGEYVR--LDTPLKDGDEVAI 73 (80)
T ss_pred EEEECCeEcC--CCcccCCCCEEEE
Confidence 5899999997 4678999999986
No 46
>PRK07440 hypothetical protein; Provisional
Probab=65.54 E-value=6.2 Score=28.59 Aligned_cols=25 Identities=8% Similarity=0.166 Sum_probs=21.4
Q ss_pred ceEECCEEecCC--CceeCCCCCeEEE
Q psy10574 200 PIYVDGRPIIAS--NKYKLNHNSIIER 224 (232)
Q Consensus 200 gi~VNG~~l~~g--~~~~L~~gdiIei 224 (232)
.+-+||+.+++. ....|++||.|+|
T Consensus 37 av~~N~~iv~r~~w~~~~L~~gD~IEI 63 (70)
T PRK07440 37 AVEYNGEILHRQFWEQTQVQPGDRLEI 63 (70)
T ss_pred EEEECCEEeCHHHcCceecCCCCEEEE
Confidence 678999999865 4689999999997
No 47
>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=63.58 E-value=6.2 Score=27.59 Aligned_cols=24 Identities=17% Similarity=0.227 Sum_probs=18.9
Q ss_pred CceEECCEEecCCCceeCCCCCeEEE
Q psy10574 199 RPIYVDGRPIIASNKYKLNHNSIIER 224 (232)
Q Consensus 199 ngi~VNG~~l~~g~~~~L~~gdiIei 224 (232)
-+..|||+.+.. ..+|.+||+++|
T Consensus 35 ~~A~Vng~~vdl--~~~L~~~d~v~i 58 (60)
T PF02824_consen 35 VAAKVNGQLVDL--DHPLEDGDVVEI 58 (60)
T ss_dssp EEEEETTEEEET--TSBB-SSEEEEE
T ss_pred eEEEEcCEECCC--CCCcCCCCEEEE
Confidence 367899988765 578999999997
No 48
>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=62.90 E-value=14 Score=34.47 Aligned_cols=45 Identities=18% Similarity=0.294 Sum_probs=35.2
Q ss_pred eEEEccCCcEEEEEcC-cCceEECCEEecC-CCceeCCCCCeEEECCCC
Q psy10574 182 CIRMRNNGDFFIANEG-KRPIYVDGRPIIA-SNKYKLNHNSIIERFDRG 228 (232)
Q Consensus 182 ~I~~~~d~~f~L~nlG-kngi~VNG~~l~~-g~~~~L~~gdiIeig~~~ 228 (232)
++++.. .-+|...| .-...+||+++.+ ...+.++.||+|+|+...
T Consensus 61 ~l~f~~--~~~iAltGA~~~~~lng~~~~~~~~~~~v~~Gd~L~~g~~~ 107 (314)
T TIGR00724 61 TIRFHC--DVIFAVTGADTDLCLNDGQVIPQWRPYEVKRGQILSLGRLK 107 (314)
T ss_pred EEEEcC--CeEEEEeCCCCcceeCCcccCCCceEEEECCCCEEEeCCCC
Confidence 444443 45677777 4789999999977 788999999999999654
No 49
>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=62.02 E-value=13 Score=24.55 Aligned_cols=27 Identities=22% Similarity=0.444 Sum_probs=20.7
Q ss_pred CceEECCEEe-cCCCceeCCCCCeEEECCC
Q psy10574 199 RPIYVDGRPI-IASNKYKLNHNSIIERFDR 227 (232)
Q Consensus 199 ngi~VNG~~l-~~g~~~~L~~gdiIeig~~ 227 (232)
.+++|||+.+ .+ ..++..||.|.+.+.
T Consensus 26 g~V~vn~~~~~~~--~~~v~~~d~i~i~~~ 53 (70)
T cd00165 26 GHVLVNGKVVTKP--SYKVKPGDVIEVDGK 53 (70)
T ss_pred CCEEECCEEccCC--ccCcCCCCEEEEcCC
Confidence 3699999988 44 356778899998764
No 50
>PF13275 S4_2: S4 domain; PDB: 1P9K_A.
Probab=62.00 E-value=3.9 Score=29.73 Aligned_cols=29 Identities=17% Similarity=0.161 Sum_probs=16.9
Q ss_pred CceEECCEEecCCCceeCCCCCeEEECCCC
Q psy10574 199 RPIYVDGRPIIASNKYKLNHNSIIERFDRG 228 (232)
Q Consensus 199 ngi~VNG~~l~~g~~~~L~~gdiIeig~~~ 228 (232)
+.++|||+.-. ....+|.+||+|++++..
T Consensus 33 g~V~VNGe~e~-rrg~Kl~~GD~V~~~~~~ 61 (65)
T PF13275_consen 33 GEVKVNGEVET-RRGKKLRPGDVVEIDGEE 61 (65)
T ss_dssp HHHEETTB-----SS----SSEEEEETTEE
T ss_pred CceEECCEEcc-ccCCcCCCCCEEEECCEE
Confidence 36899999864 344789999999997754
No 51
>PRK01777 hypothetical protein; Validated
Probab=61.89 E-value=9.4 Score=29.57 Aligned_cols=27 Identities=19% Similarity=0.244 Sum_probs=22.0
Q ss_pred CcCceEECCEEecCCCceeCCCCCeEEEC
Q psy10574 197 GKRPIYVDGRPIIASNKYKLNHNSIIERF 225 (232)
Q Consensus 197 Gkngi~VNG~~l~~g~~~~L~~gdiIeig 225 (232)
..+.+.|||+.... ...|++||.|+|-
T Consensus 48 ~~~~vgI~Gk~v~~--d~~L~dGDRVeIy 74 (95)
T PRK01777 48 AKNKVGIYSRPAKL--TDVLRDGDRVEIY 74 (95)
T ss_pred ccceEEEeCeECCC--CCcCCCCCEEEEe
Confidence 34578899999976 4589999999984
No 52
>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=60.94 E-value=6.6 Score=27.75 Aligned_cols=27 Identities=11% Similarity=0.145 Sum_probs=22.5
Q ss_pred cCceEECCEEecC-CCceeCCCCCeEEE
Q psy10574 198 KRPIYVDGRPIIA-SNKYKLNHNSIIER 224 (232)
Q Consensus 198 kngi~VNG~~l~~-g~~~~L~~gdiIei 224 (232)
.-.+.|||+.+.. +...+|++||.|.|
T Consensus 43 ~~~v~vN~~~v~~~~~~~~l~~gD~V~i 70 (77)
T PF02597_consen 43 RVAVAVNGEIVPDDGLDTPLKDGDEVAI 70 (77)
T ss_dssp TEEEEETTEEEGGGTTTSBEETTEEEEE
T ss_pred cEEEEECCEEcCCccCCcCcCCCCEEEE
Confidence 3568999999987 55689999999986
No 53
>PF14451 Ub-Mut7C: Mut7-C ubiquitin
Probab=60.31 E-value=10 Score=28.47 Aligned_cols=46 Identities=26% Similarity=0.422 Sum_probs=31.2
Q ss_pred hhceeEEEccCCcE----EEEEcCc-----CceEECCEEecCCCceeCCCCCeEEEC
Q psy10574 178 RRQACIRMRNNGDF----FIANEGK-----RPIYVDGRPIIASNKYKLNHNSIIERF 225 (232)
Q Consensus 178 R~HA~I~~~~d~~f----~L~nlGk-----ngi~VNG~~l~~g~~~~L~~gdiIeig 225 (232)
+++..+.+..++.= .|+.+|= .-++|||+++.. .+.|++||.|.+-
T Consensus 20 ~r~~~~~~~~~~~~tvkd~IEsLGVP~tEV~~i~vNG~~v~~--~~~~~~Gd~v~V~ 74 (81)
T PF14451_consen 20 RRGGPFTHPFDGGATVKDVIESLGVPHTEVGLILVNGRPVDF--DYRLKDGDRVAVY 74 (81)
T ss_pred hcCCceEEecCCCCcHHHHHHHcCCChHHeEEEEECCEECCC--cccCCCCCEEEEE
Confidence 34455555544322 2555661 568999999987 4889999999874
No 54
>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=60.22 E-value=11 Score=27.77 Aligned_cols=25 Identities=20% Similarity=0.250 Sum_probs=20.5
Q ss_pred ceEECCEEecCCCceeCCCCCeEEE
Q psy10574 200 PIYVDGRPIIASNKYKLNHNSIIER 224 (232)
Q Consensus 200 gi~VNG~~l~~g~~~~L~~gdiIei 224 (232)
-+.|||+.+......+|++||.|.|
T Consensus 57 ~v~vN~~~v~~~~~~~l~dgdev~i 81 (88)
T TIGR01687 57 IILVNGRNVDWGLGTELKDGDVVAI 81 (88)
T ss_pred EEEECCEecCccCCCCCCCCCEEEE
Confidence 4789999987665478999999875
No 55
>PRK11092 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional
Probab=59.00 E-value=7.2 Score=40.21 Aligned_cols=29 Identities=21% Similarity=0.227 Sum_probs=24.8
Q ss_pred EcCc--CceEECCEEecCCCceeCCCCCeEEEC
Q psy10574 195 NEGK--RPIYVDGRPIIASNKYKLNHNSIIERF 225 (232)
Q Consensus 195 nlGk--ngi~VNG~~l~~g~~~~L~~gdiIeig 225 (232)
.+|. .|.+|||+.++. .++|++||+|+|=
T Consensus 416 ~iG~~c~gAkVNg~~vpL--~~~L~~Gd~VeIi 446 (702)
T PRK11092 416 DIGHACVGARVDRQPYPL--SQPLTSGQTVEII 446 (702)
T ss_pred hhhceeEEEEECCEECCC--CccCCCCCEEEEE
Confidence 4574 699999999987 6789999999984
No 56
>COG1984 DUR1 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]
Probab=58.68 E-value=23 Score=33.30 Aligned_cols=47 Identities=13% Similarity=0.198 Sum_probs=38.6
Q ss_pred ceeEEEccCCcEEEEEcC-cCceEECCEEecCCCceeCCCCCeEEECCCC
Q psy10574 180 QACIRMRNNGDFFIANEG-KRPIYVDGRPIIASNKYKLNHNSIIERFDRG 228 (232)
Q Consensus 180 HA~I~~~~d~~f~L~nlG-kngi~VNG~~l~~g~~~~L~~gdiIeig~~~ 228 (232)
..++.+..+. +|.-.| .-...+||++++++.++.++.|++|.|+-..
T Consensus 58 g~t~~f~~~~--~ialTGad~~a~ld~~~i~~~~~~~vk~Gq~L~~g~~~ 105 (314)
T COG1984 58 GPTLEFTSDA--LIALTGADCEATLDGQEVPPWSPYLVKAGQTLKLGRPK 105 (314)
T ss_pred CeEEEEecCc--EEEEeCCcccceECCEEcCCCceEEccCCCEEEecCCC
Confidence 3477777755 666677 5789999999999999999999999998653
No 57
>PLN03091 hypothetical protein; Provisional
Probab=56.61 E-value=11 Score=37.00 Aligned_cols=57 Identities=23% Similarity=0.362 Sum_probs=38.5
Q ss_pred hhHHHHHHhcc--cchHHHHhccccCccccHHHHHHhhHHhhcChHhhHHHHHhhhcCChHHHHhhhhccCCChHHHHHh
Q psy10574 3 NEIRELNLNRT--NDIKAVHRGLKFSCKFTFNECLQRWFTLLYDPNLSRLAVQGMQNLHPEVVHNIQAKALFSNDEEELL 80 (232)
Q Consensus 3 ~~~~i~av~~~--~~l~~v~~~~~Fs~~fT~~ei~~Rw~~llyd~~is~~a~~~m~~l~~~~~~~v~~~~~~s~~Ee~~L 80 (232)
+++|+.+|..- .+-..|++- +....|-+.+.+||+..| ||.|. +-+||.+|+++|
T Consensus 22 De~L~~~V~kyG~~nWs~IAk~--~g~gRT~KQCRERW~NyL-dP~Ik--------------------KgpWT~EED~lL 78 (459)
T PLN03091 22 DEKLLRHITKYGHGCWSSVPKQ--AGLQRCGKSCRLRWINYL-RPDLK--------------------RGTFSQQEENLI 78 (459)
T ss_pred HHHHHHHHHHhCcCCHHHHhhh--hccCcCcchHhHHHHhcc-CCccc--------------------CCCCCHHHHHHH
Confidence 45777777654 355566532 223458888999998776 44333 679999999987
Q ss_pred hh
Q psy10574 81 GS 82 (232)
Q Consensus 81 ~~ 82 (232)
..
T Consensus 79 Le 80 (459)
T PLN03091 79 IE 80 (459)
T ss_pred HH
Confidence 76
No 58
>COG2104 ThiS Sulfur transfer protein involved in thiamine biosynthesis [Coenzyme metabolism]
Probab=55.19 E-value=12 Score=27.23 Aligned_cols=25 Identities=24% Similarity=0.266 Sum_probs=20.6
Q ss_pred ceEECCEEecCCC--ceeCCCCCeEEE
Q psy10574 200 PIYVDGRPIIASN--KYKLNHNSIIER 224 (232)
Q Consensus 200 gi~VNG~~l~~g~--~~~L~~gdiIei 224 (232)
.+-|||.+++..+ ...|++||.|+|
T Consensus 35 av~vNg~iVpr~~~~~~~l~~gD~iev 61 (68)
T COG2104 35 AVAVNGEIVPRSQWADTILKEGDRIEV 61 (68)
T ss_pred EEEECCEEccchhhhhccccCCCEEEE
Confidence 4779999998543 578999999997
No 59
>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=54.94 E-value=12 Score=28.67 Aligned_cols=25 Identities=8% Similarity=0.139 Sum_probs=21.2
Q ss_pred ceEECCEEec--CCCceeCCCCCeEEE
Q psy10574 200 PIYVDGRPII--ASNKYKLNHNSIIER 224 (232)
Q Consensus 200 gi~VNG~~l~--~g~~~~L~~gdiIei 224 (232)
-++|||..+. .|..++|++||.|.|
T Consensus 61 ~VlvN~~di~~l~g~~t~L~dgD~v~i 87 (94)
T cd01764 61 IVLINDTDWELLGEEDYILEDGDHVVF 87 (94)
T ss_pred EEEECCccccccCCcccCCCCcCEEEE
Confidence 4889999875 577899999999987
No 60
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=54.29 E-value=22 Score=21.97 Aligned_cols=36 Identities=25% Similarity=0.422 Sum_probs=27.9
Q ss_pred hHHHHHHhcc--cchHHHHhccccCccccHHHHHHhhHHhh
Q psy10574 4 EIRELNLNRT--NDIKAVHRGLKFSCKFTFNECLQRWFTLL 42 (232)
Q Consensus 4 ~~~i~av~~~--~~l~~v~~~~~Fs~~fT~~ei~~Rw~~ll 42 (232)
++++.++.+- .+...|+..+. .-|..++..||+.++
T Consensus 10 ~~l~~~~~~~g~~~w~~Ia~~~~---~rt~~~~~~~~~~~~ 47 (49)
T smart00717 10 ELLIELVKKYGKNNWEKIAKELP---GRTAEQCRERWNNLL 47 (49)
T ss_pred HHHHHHHHHHCcCCHHHHHHHcC---CCCHHHHHHHHHHHc
Confidence 3566666655 58888888876 679999999999875
No 61
>COG0317 SpoT Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]
Probab=53.47 E-value=11 Score=38.85 Aligned_cols=32 Identities=22% Similarity=0.233 Sum_probs=25.4
Q ss_pred EcCc--CceEECCEEecCCCceeCCCCCeEEECCCC
Q psy10574 195 NEGK--RPIYVDGRPIIASNKYKLNHNSIIERFDRG 228 (232)
Q Consensus 195 nlGk--ngi~VNG~~l~~g~~~~L~~gdiIeig~~~ 228 (232)
+.|- -|.+|||+.++- .++|++||++||--.+
T Consensus 417 ~iG~~c~gAkVnG~ivpl--~~~Lk~Gd~VEIit~k 450 (701)
T COG0317 417 DIGHRCIGAKVNGRIVPL--TTKLQTGDQVEIITSK 450 (701)
T ss_pred hhcceeeEEEECCEEecc--ceecCCCCEEEEEeCC
Confidence 4573 699999988875 5789999999995443
No 62
>PRK05863 sulfur carrier protein ThiS; Provisional
Probab=52.76 E-value=9.4 Score=27.01 Aligned_cols=26 Identities=23% Similarity=0.181 Sum_probs=20.0
Q ss_pred CceEECCEEecCCC-ceeCCCCCeEEE
Q psy10574 199 RPIYVDGRPIIASN-KYKLNHNSIIER 224 (232)
Q Consensus 199 ngi~VNG~~l~~g~-~~~L~~gdiIei 224 (232)
=.+.+||..+++.+ ...|++||.|+|
T Consensus 32 vav~~N~~iv~r~~~~~~L~~gD~ieI 58 (65)
T PRK05863 32 IAVAVDWSVLPRSDWATKLRDGARLEV 58 (65)
T ss_pred EEEEECCcCcChhHhhhhcCCCCEEEE
Confidence 36788999887654 235999999997
No 63
>PRK08364 sulfur carrier protein ThiS; Provisional
Probab=48.68 E-value=21 Score=25.59 Aligned_cols=23 Identities=13% Similarity=0.213 Sum_probs=18.9
Q ss_pred ceEECCEEecCCCceeCCCCCeEEE
Q psy10574 200 PIYVDGRPIIASNKYKLNHNSIIER 224 (232)
Q Consensus 200 gi~VNG~~l~~g~~~~L~~gdiIei 224 (232)
-+.+||+.+.+ ...|++||.|++
T Consensus 41 ~v~vNg~iv~~--~~~l~~gD~Vei 63 (70)
T PRK08364 41 IAKVNGKVALE--DDPVKDGDYVEV 63 (70)
T ss_pred EEEECCEECCC--CcCcCCCCEEEE
Confidence 56789999864 567999999987
No 64
>COG3354 FlaG Putative archaeal flagellar protein G [Cell motility and secretion]
Probab=45.77 E-value=40 Score=28.51 Aligned_cols=33 Identities=21% Similarity=0.512 Sum_probs=22.5
Q ss_pred cEEEEEcCcCc---------eEECCEEecC---------CCceeCCCCCeE
Q psy10574 190 DFFIANEGKRP---------IYVDGRPIIA---------SNKYKLNHNSII 222 (232)
Q Consensus 190 ~f~L~nlGkng---------i~VNG~~l~~---------g~~~~L~~gdiI 222 (232)
.|||+|.||-+ ++|||..+.+ |..++|.+|++.
T Consensus 73 t~yiKNtG~~~~~fd~~sitVliDG~iv~~a~~~~~~~~gs~i~l~PG~Vg 123 (154)
T COG3354 73 TFYIKNTGSDSIAFDNTSITVLIDGNIVTPAYVTFTSVNGSSIRLSPGQVG 123 (154)
T ss_pred EEEEecCCCcccccCCCeEEEEEcCcEeccceEEEEecCCCeeEecCCcee
Confidence 58999999854 5788855443 444557777765
No 65
>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=42.22 E-value=21 Score=36.63 Aligned_cols=29 Identities=17% Similarity=0.342 Sum_probs=23.4
Q ss_pred EcCc--CceEECCEEecCCCceeCCCCCeEEEC
Q psy10574 195 NEGK--RPIYVDGRPIIASNKYKLNHNSIIERF 225 (232)
Q Consensus 195 nlGk--ngi~VNG~~l~~g~~~~L~~gdiIeig 225 (232)
++|. -|.+|||++++. ..+|++||+|+|-
T Consensus 390 ~~g~~~~~a~vng~~v~l--~~~l~~gd~vei~ 420 (683)
T TIGR00691 390 DVGNKCTGAKVNGKIVPL--DKELENGDVVEII 420 (683)
T ss_pred HhHhceeEEEECCEECCC--CccCCCCCEEEEE
Confidence 5665 466999998874 6789999999984
No 66
>PRK10872 relA (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional
Probab=41.06 E-value=23 Score=36.98 Aligned_cols=29 Identities=24% Similarity=0.331 Sum_probs=23.5
Q ss_pred EcCc--CceEECCEEecCCCceeCCCCCeEEEC
Q psy10574 195 NEGK--RPIYVDGRPIIASNKYKLNHNSIIERF 225 (232)
Q Consensus 195 nlGk--ngi~VNG~~l~~g~~~~L~~gdiIeig 225 (232)
++|. .|.+|||+.++. .++|++||+|+|=
T Consensus 434 ~iG~~~~gAkvng~~v~l--~~~L~~GD~VeIi 464 (743)
T PRK10872 434 DVGHRCIGAKIGGRIVPF--TYQLQMGDQIEII 464 (743)
T ss_pred HHHhhceEEEECCEECCC--CcCCCCCCEEEEE
Confidence 4564 577999999874 6789999999984
No 67
>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=39.28 E-value=47 Score=36.47 Aligned_cols=39 Identities=23% Similarity=0.283 Sum_probs=33.4
Q ss_pred cEEEEEcC-cCceEECCEEecCCCceeCCCCCeEEECCCC
Q psy10574 190 DFFIANEG-KRPIYVDGRPIIASNKYKLNHNSIIERFDRG 228 (232)
Q Consensus 190 ~f~L~nlG-kngi~VNG~~l~~g~~~~L~~gdiIeig~~~ 228 (232)
.-.|...| .-...+||+++++++++.++.||++.||...
T Consensus 516 ~~~ialtGa~~~~~l~g~~v~~~~~~~v~~G~~L~~g~~~ 555 (1201)
T TIGR02712 516 DAVIAITGAPAPATLDGQPVPQWKPITVKAGSTLSIGKIA 555 (1201)
T ss_pred CcEEEEeCCCCcceECCEEcCCCeEEEECCCCEEEecCCC
Confidence 34566677 4789999999999999999999999999764
No 68
>PLN02799 Molybdopterin synthase sulfur carrier subunit
Probab=38.64 E-value=38 Score=24.56 Aligned_cols=23 Identities=4% Similarity=0.007 Sum_probs=18.8
Q ss_pred ceEECCEEecCCCceeCCCCCeEEE
Q psy10574 200 PIYVDGRPIIASNKYKLNHNSIIER 224 (232)
Q Consensus 200 gi~VNG~~l~~g~~~~L~~gdiIei 224 (232)
-+.|||+.+. ...+|++||.|.|
T Consensus 53 ~vavN~~~v~--~~~~l~dgDeVai 75 (82)
T PLN02799 53 VLALNEEYTT--ESAALKDGDELAI 75 (82)
T ss_pred EEEECCEEcC--CCcCcCCCCEEEE
Confidence 4788998874 5678999999986
No 69
>COG1188 Ribosome-associated heat shock protein implicated in the recycling of the 50S subunit (S4 paralog) [Translation, ribosomal structure and biogenesis]
Probab=37.11 E-value=37 Score=26.82 Aligned_cols=23 Identities=17% Similarity=0.263 Sum_probs=19.0
Q ss_pred eEECCEEecCCCceeCCCCCeEEEC
Q psy10574 201 IYVDGRPIIASNKYKLNHNSIIERF 225 (232)
Q Consensus 201 i~VNG~~l~~g~~~~L~~gdiIeig 225 (232)
+.|||...+|+. -++.||+|+|.
T Consensus 36 V~vNG~~aKpS~--~VK~GD~l~i~ 58 (100)
T COG1188 36 VKVNGQRAKPSK--EVKVGDILTIR 58 (100)
T ss_pred EEECCEEccccc--ccCCCCEEEEE
Confidence 899999998754 57789999875
No 70
>TIGR01682 moaD molybdopterin converting factor, subunit 1, non-archaeal. The C-terminal Gly-Gly of this model is critical to function.
Probab=36.95 E-value=40 Score=24.36 Aligned_cols=23 Identities=13% Similarity=0.079 Sum_probs=19.5
Q ss_pred ceEECCEEecCCCceeCCCCCeEEE
Q psy10574 200 PIYVDGRPIIASNKYKLNHNSIIER 224 (232)
Q Consensus 200 gi~VNG~~l~~g~~~~L~~gdiIei 224 (232)
-+.|||+.+.. ..+|++||.|.|
T Consensus 51 ~v~vn~~~v~~--~~~l~dgDevai 73 (80)
T TIGR01682 51 MVAVNEEYVTD--DALLNEGDEVAF 73 (80)
T ss_pred EEEECCEEcCC--CcCcCCCCEEEE
Confidence 48899999874 579999999986
No 71
>PF01436 NHL: NHL repeat; InterPro: IPR001258 The NHL repeat, named after NCL-1, HT2A and Lin-41, is found largely in a large number of eukaryotic and prokaryotic proteins. For example, the repeat is found in a variety of enzymes of the copper type II, ascorbate-dependent monooxygenase family which catalyse the C terminus alpha-amidation of biological peptides []. In many it occurs in tandem arrays, for example in the ringfinger beta-box, coiled-coil (RBCC) eukaryotic growth regulators []. The 'Brain Tumor' protein (Brat) is one such growth regulator that contains a 6-bladed NHL-repeat beta-propeller [, ]. The NHL repeats are also found in serine/threonine protein kinase (STPK) in diverse range of pathogenic bacteria. These STPK are transmembrane receptors with a intracellular N-terminal kinase domain and extracellular C-terminal sensor domain. In the STPK, PknD, from Mycobacterium tuberculosis, the sensor domain forms a rigid, six-bladed b-propeller composed of NHL repeats with a flexible tether to the transmembrane domain.; GO: 0005515 protein binding; PDB: 3FVZ_A 3FW0_A 1RWL_A 1RWI_A 1Q7F_A.
Probab=36.43 E-value=57 Score=19.16 Aligned_cols=21 Identities=19% Similarity=0.661 Sum_probs=16.0
Q ss_pred EEEccCCcEEEEEcCcCceEE
Q psy10574 183 IRMRNNGDFFIANEGKRPIYV 203 (232)
Q Consensus 183 I~~~~d~~f~L~nlGkngi~V 203 (232)
|..+.+|+.|+.+.+.+-+.+
T Consensus 7 vav~~~g~i~VaD~~n~rV~v 27 (28)
T PF01436_consen 7 VAVDSDGNIYVADSGNHRVQV 27 (28)
T ss_dssp EEEETTSEEEEEECCCTEEEE
T ss_pred EEEeCCCCEEEEECCCCEEEE
Confidence 455678999999998876654
No 72
>PF08130 Antimicrobial18: Type A lantibiotic family; InterPro: IPR012519 This family consists of the type A lantibiotic peptides. Both Pep5 and epicidin-280 are ribosomally-synthesised antimicrobial peptides produced by Gram-positive bacteria that are characterised by the presence of lanthionine and/or methyllanthionine residues. The lantibiotics family has a highly specific activity against multi- drug resistant bacteria and has potential to be utilised in a wide range of medical applications [,].
Probab=36.25 E-value=20 Score=25.53 Aligned_cols=32 Identities=28% Similarity=0.407 Sum_probs=25.8
Q ss_pred CCCCcccchhceeEEEccCCcEEEEEcCcCce
Q psy10574 170 EGPAWKVSRRQACIRMRNNGDFFIANEGKRPI 201 (232)
Q Consensus 170 eG~~~~ISR~HA~I~~~~d~~f~L~nlGkngi 201 (232)
-||+-++||.++.-.+....-|.|.+.||++.
T Consensus 28 ~g~ai~~s~~~C~~t~k~T~~~TvSC~~k~~C 59 (60)
T PF08130_consen 28 AGPAIKASRKVCKKTLKATRIFTVSCKGKNNC 59 (60)
T ss_pred cCceeeehhhhcccccceeEEEEEEecccCCC
Confidence 47888999999997766655688999999764
No 73
>PF13934 ELYS: Nuclear pore complex assembly
Probab=35.95 E-value=50 Score=29.04 Aligned_cols=53 Identities=9% Similarity=0.142 Sum_probs=35.0
Q ss_pred HHhccccCccccHHH---HHHhhHHhhcChHhhHHHHHhhhcCChHHHHhhhhccCCChHHHHHhhhc
Q psy10574 19 VHRGLKFSCKFTFNE---CLQRWFTLLYDPNLSRLAVQGMQNLHPEVVHNIQAKALFSNDEEELLGSI 83 (232)
Q Consensus 19 v~~~~~Fs~~fT~~e---i~~Rw~~llyd~~is~~a~~~m~~l~~~~~~~v~~~~~~s~~Ee~~L~~~ 83 (232)
|.-+..|.|.+.-.+ .-++|-.-++++.-.......| -..||+.+||++|.+.
T Consensus 156 v~EAf~~~R~~~~~~~~~l~e~l~~~~~~~~~~~~~~~~L------------l~LPl~~~EE~~l~~~ 211 (226)
T PF13934_consen 156 VTEAFSFQRSYPDELRRRLFEQLLEHCLEECARSGRLDEL------------LSLPLDEEEEQWLEKY 211 (226)
T ss_pred HHHHHHHHHhCchhhhHHHHHHHHHHHHHHhhhhhHHHHH------------HhCCCChHHHHHHHHH
Confidence 444556667766655 7777777777765432222222 3679999999999884
No 74
>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=35.61 E-value=31 Score=25.50 Aligned_cols=22 Identities=5% Similarity=0.073 Sum_probs=17.1
Q ss_pred eEECCEEecCCCceeCCCCCeEEE
Q psy10574 201 IYVDGRPIIASNKYKLNHNSIIER 224 (232)
Q Consensus 201 i~VNG~~l~~g~~~~L~~gdiIei 224 (232)
..++|+.+.. ..+|++||+|+|
T Consensus 52 ~~~~gq~Vgl--~~~L~d~DvVeI 73 (75)
T cd01666 52 VKHSPQRVGL--DHVLEDEDVVQI 73 (75)
T ss_pred CcCCCeECCC--CCEecCCCEEEE
Confidence 4557777654 578999999998
No 75
>PF06371 Drf_GBD: Diaphanous GTPase-binding Domain; InterPro: IPR010473 Diaphanous-related formins (Drfs) are a family of formin homology (FH) proteins that act as effectors of Rho small GTPases during growth factor-induced cytoskeletal remodelling, stress fibre formation, and cell division []. Drf proteins are characterised by a variety of shared domains: an N-terminal GTPase-binding domain (GBD), formin-homology domains FH1, FH2 (IPR003104 from INTERPRO) and FH3 (IPR010472 from INTERPRO), and a C-terminal conserved Dia-autoregulatory domain (DAD) that binds the GBD. This entry represents the GBD, which is a bifunctional autoinhibitory domain that interacts with and is regulated by activated Rho family members. Mammalian Drf3 contains a CRIB-like motif within its GBD for binding to Cdc42, which is required for Cdc42 to activate and guide Drf3 towards the cell cortex where it remodels the actin skeleton [].; GO: 0003779 actin binding, 0017048 Rho GTPase binding, 0030036 actin cytoskeleton organization; PDB: 3OBV_A 2BNX_A 3EG5_D 2BAP_B 3O4X_B 1Z2C_B 2F31_A.
Probab=34.07 E-value=31 Score=28.24 Aligned_cols=36 Identities=25% Similarity=0.244 Sum_probs=25.6
Q ss_pred cHHHHHHhhHHhhcChHhhHHHHHhhhcCChHHHHh
Q psy10574 30 TFNECLQRWFTLLYDPNLSRLAVQGMQNLHPEVVHN 65 (232)
Q Consensus 30 T~~ei~~Rw~~llyd~~is~~a~~~m~~l~~~~~~~ 65 (232)
+-.||++.|..||.+-.++..+.+.|.++|++..-.
T Consensus 4 ~~~~v~~~F~~ll~~~~~~~~~r~~l~~~~~ekKw~ 39 (187)
T PF06371_consen 4 SEEEVDEMFEELLEELNLPEEKRKELRNLPPEKKWQ 39 (187)
T ss_dssp -----HHHHHHHHHHTT--HHHHHHHHTS-HHHHHH
T ss_pred CHHHHHHHHHHHHHhcCCCHHHHHHHHCCCHHHHHH
Confidence 568999999999999999999999999999997643
No 76
>TIGR03069 PS_II_S4 photosystem II S4 domain protein. Members of this protein family are about 265 residues long and each contains an S4 RNA-binding domain of about 48 residues. The member from the Cyanobacterium, Synechocystis sp. PCC 6803, was detected as a novel polypeptide in a highly purified preparation of active photosystem II (Kashino, et al., 2002). The phylogenetic distribution, including Cyanobacteria and Arabidopsis, supports a role in photosystem II, although the high bit score cutoffs for this model reflect similar sequences in non-photosynthetic organisms such as Carboxydothermus hydrogenoformans, a Gram-positive bacterium.
Probab=32.46 E-value=50 Score=29.80 Aligned_cols=29 Identities=7% Similarity=0.162 Sum_probs=22.6
Q ss_pred ceEECCEEecCCCceeCCCCCeEEECCCCc
Q psy10574 200 PIYVDGRPIIASNKYKLNHNSIIERFDRGN 229 (232)
Q Consensus 200 gi~VNG~~l~~g~~~~L~~gdiIeig~~~~ 229 (232)
-+.|||+++.. ....++.||+|.+-|.+-
T Consensus 209 ~V~VNg~~v~~-~s~~v~~gD~IsvrG~Gr 237 (257)
T TIGR03069 209 RLRLNWKTVTQ-PSRELKVGDRLQLRGKGR 237 (257)
T ss_pred eEEECCEEcCC-CCCcCCCCCEEEEcCCce
Confidence 49999999842 235789999999998763
No 77
>COG5131 URM1 Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones]
Probab=32.01 E-value=38 Score=26.47 Aligned_cols=39 Identities=18% Similarity=0.397 Sum_probs=27.0
Q ss_pred CcEEEEEcC-cCce--EECCEE--ecCCCceeCCCCCeEEECCC
Q psy10574 189 GDFFIANEG-KRPI--YVDGRP--IIASNKYKLNHNSIIERFDR 227 (232)
Q Consensus 189 ~~f~L~nlG-kngi--~VNG~~--l~~g~~~~L~~gdiIeig~~ 227 (232)
..+++++-- +.|| .||++- +...+.++|.+||+|.|=.+
T Consensus 49 ~sifie~g~lrpGiI~LINd~DWeLleke~y~ledgDiIvfist 92 (96)
T COG5131 49 DSIFIEHGELRPGIICLINDMDWELLEKERYPLEDGDIIVFIST 92 (96)
T ss_pred ceeeecCCCCcccEEEEEcCccHhhhhcccccCCCCCEEEEEec
Confidence 346666543 5554 678876 55556799999999998543
No 78
>PRK10348 ribosome-associated heat shock protein Hsp15; Provisional
Probab=31.75 E-value=49 Score=27.31 Aligned_cols=24 Identities=13% Similarity=0.077 Sum_probs=19.2
Q ss_pred ceEECCEEecCCCceeCCCCCeEEEC
Q psy10574 200 PIYVDGRPIIASNKYKLNHNSIIERF 225 (232)
Q Consensus 200 gi~VNG~~l~~g~~~~L~~gdiIeig 225 (232)
-++|||++.+|+..+ ..||.|.|.
T Consensus 35 ~V~vnG~~~Kps~~V--~~gd~l~v~ 58 (133)
T PRK10348 35 KVHYNGQRSKPSKIV--ELNATLTLR 58 (133)
T ss_pred CEEECCEECCCCCcc--CCCCEEEEE
Confidence 388999998887766 479998874
No 79
>PF07610 DUF1573: Protein of unknown function (DUF1573); InterPro: IPR011467 These hypothetical proteins from bacteria, such as Rhodopirellula baltica, Bacteroides thetaiotaomicron and Porphyromonas gingivalis, share a region of conserved sequence towards their N termini.
Probab=31.74 E-value=84 Score=20.55 Aligned_cols=24 Identities=17% Similarity=0.313 Sum_probs=18.8
Q ss_pred cEEEEEcCcCceEECCEEecCCCc
Q psy10574 190 DFFIANEGKRPIYVDGRPIIASNK 213 (232)
Q Consensus 190 ~f~L~nlGkngi~VNG~~l~~g~~ 213 (232)
.|.++|.|+.++.|....-..|..
T Consensus 1 ~F~~~N~g~~~L~I~~v~tsCgCt 24 (45)
T PF07610_consen 1 TFEFTNTGDSPLVITDVQTSCGCT 24 (45)
T ss_pred CEEEEECCCCcEEEEEeeEccCCE
Confidence 388999999999998776666643
No 80
>PRK05327 rpsD 30S ribosomal protein S4; Validated
Probab=31.61 E-value=53 Score=28.58 Aligned_cols=39 Identities=28% Similarity=0.477 Sum_probs=27.9
Q ss_pred ccchhceeEEEccCCcEEEEEcCcCceEECCEEec-CCCceeCCCCCeEEECC
Q psy10574 175 KVSRRQACIRMRNNGDFFIANEGKRPIYVDGRPII-ASNKYKLNHNSIIERFD 226 (232)
Q Consensus 175 ~ISR~HA~I~~~~d~~f~L~nlGkngi~VNG~~l~-~g~~~~L~~gdiIeig~ 226 (232)
..||.+|.-.... | .|+|||+.+. | ..+|+.||+|++.+
T Consensus 105 ~~SR~~arqlI~~-G----------~V~VNgk~v~~p--s~~v~~GD~I~v~~ 144 (203)
T PRK05327 105 APTRRQARQLVSH-G----------HILVNGKKVNIP--SYRVKPGDVIEVRE 144 (203)
T ss_pred cCCHHHHHHHHHC-C----------cEEECCEEECCC--CcCCCCCCEEEECC
Confidence 3577777665443 3 4889999875 3 45788999999876
No 81
>cd01668 TGS_RelA_SpoT TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after the Threonyl-tRNA Synthetase, GTPase, and SpoT proteins where it occurs. The function of the TGS domain is unknown.
Probab=29.80 E-value=66 Score=21.15 Aligned_cols=23 Identities=22% Similarity=0.267 Sum_probs=17.6
Q ss_pred ceEECCEEecCCCceeCCCCCeEEE
Q psy10574 200 PIYVDGRPIIASNKYKLNHNSIIER 224 (232)
Q Consensus 200 gi~VNG~~l~~g~~~~L~~gdiIei 224 (232)
...+||+.+.. ..+|.+||.|++
T Consensus 36 a~~vng~~vdl--~~~l~~~~~ve~ 58 (60)
T cd01668 36 GAKVNGKLVPL--STVLKDGDIVEI 58 (60)
T ss_pred EEEECCEECCC--CCCCCCCCEEEE
Confidence 35688888764 377999999886
No 82
>PF00249 Myb_DNA-binding: Myb-like DNA-binding domain; InterPro: IPR014778 The retroviral oncogene v-myb, and its cellular counterpart c-myb, encode nuclear DNA-binding proteins. These belong to the SANT domain family that specifically recognise the sequence YAAC(G/T)G [, ]. In myb, one of the most conserved regions consisting of three tandem repeats has been shown to be involved in DNA-binding [].; PDB: 1X41_A 2XAF_B 2XAG_B 2XAH_B 2UXN_B 2Y48_B 2XAQ_B 2X0L_B 2IW5_B 2XAJ_B ....
Probab=28.67 E-value=98 Score=20.10 Aligned_cols=37 Identities=22% Similarity=0.280 Sum_probs=28.3
Q ss_pred hHHHHHHhc-ccc-hHHHHhccccCccccHHHHHHhhHHhh
Q psy10574 4 EIRELNLNR-TND-IKAVHRGLKFSCKFTFNECLQRWFTLL 42 (232)
Q Consensus 4 ~~~i~av~~-~~~-l~~v~~~~~Fs~~fT~~ei~~Rw~~ll 42 (232)
+.|+.||.+ +.+ -..|+.-++ ..-|..++..||+.+|
T Consensus 10 ~~l~~~v~~~g~~~W~~Ia~~~~--~~Rt~~qc~~~~~~~~ 48 (48)
T PF00249_consen 10 EKLLEAVKKYGKDNWKKIAKRMP--GGRTAKQCRSRYQNLL 48 (48)
T ss_dssp HHHHHHHHHSTTTHHHHHHHHHS--SSSTHHHHHHHHHHHT
T ss_pred HHHHHHHHHhCCcHHHHHHHHcC--CCCCHHHHHHHHHhhC
Confidence 456666654 445 788888777 7889999999999876
No 83
>COG0564 RluA Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]
Probab=28.29 E-value=57 Score=29.87 Aligned_cols=27 Identities=19% Similarity=0.313 Sum_probs=23.3
Q ss_pred ceEECCEEecCCCceeCCCCCeEEECCCC
Q psy10574 200 PIYVDGRPIIASNKYKLNHNSIIERFDRG 228 (232)
Q Consensus 200 gi~VNG~~l~~g~~~~L~~gdiIeig~~~ 228 (232)
-++|||+.+. ...+|..||+|++.-..
T Consensus 38 ~v~vNg~~v~--~~~~l~~gd~i~~~~~~ 64 (289)
T COG0564 38 RVRVNGKKVK--PSYKLKPGDVVRIPLPE 64 (289)
T ss_pred CEEECCEEcc--CCeeeCCCCEEEEeccc
Confidence 4999999998 57899999999997654
No 84
>PF11976 Rad60-SLD: Ubiquitin-2 like Rad60 SUMO-like; InterPro: IPR022617 This entry includes small ubiquitin-related modifier (SUMO) proteins. SUMOs are small proteins that are covalently attached to lysines as post-translational modifications and are used to control multiple cellular process including signal transduction, nuclear transport and DNA replication and repair []. Unlike ubiquitin, they are not involved in protein degradation. This entry also contains the C-terminal Rad60 DNA repair protein SUMO-like domain.; PDB: 3RD2_A 2JXX_A 3RCZ_A 3GOE_A 3A4S_D 3A4R_B 2IO1_D 1U4A_A 2K1F_A 1WZ0_A ....
Probab=26.95 E-value=55 Score=22.77 Aligned_cols=25 Identities=12% Similarity=0.333 Sum_probs=18.0
Q ss_pred ceEECCEEecCCCc---eeCCCCCeEEE
Q psy10574 200 PIYVDGRPIIASNK---YKLNHNSIIER 224 (232)
Q Consensus 200 gi~VNG~~l~~g~~---~~L~~gdiIei 224 (232)
-++.||++|.+... .-|.+||+|++
T Consensus 43 ~l~fdG~~L~~~~T~~~~~ied~d~Idv 70 (72)
T PF11976_consen 43 RLIFDGKRLDPNDTPEDLGIEDGDTIDV 70 (72)
T ss_dssp EEEETTEEE-TTSCHHHHT-STTEEEEE
T ss_pred EEEECCEEcCCCCCHHHCCCCCCCEEEE
Confidence 36678899988765 46999999986
No 85
>KOG1271|consensus
Probab=26.09 E-value=36 Score=30.29 Aligned_cols=16 Identities=31% Similarity=0.507 Sum_probs=14.3
Q ss_pred ccCccccHHHHHHhhH
Q psy10574 24 KFSCKFTFNECLQRWF 39 (232)
Q Consensus 24 ~Fs~~fT~~ei~~Rw~ 39 (232)
-+||+||..|+.+++-
T Consensus 179 ItSCN~T~dELv~~f~ 194 (227)
T KOG1271|consen 179 ITSCNFTKDELVEEFE 194 (227)
T ss_pred EEecCccHHHHHHHHh
Confidence 5899999999999874
No 86
>cd04486 YhcR_OBF_like YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate nucleosides. YhcR appears to be the major Ca2+ activated nuclease of B. subtilis. YhcR may be localized in the cell wall.
Probab=25.75 E-value=1.4e+02 Score=21.89 Aligned_cols=38 Identities=16% Similarity=0.337 Sum_probs=23.7
Q ss_pred CcEEEEEcC--cCceEECCEEecCCCceeCCCCCeEEECC
Q psy10574 189 GDFFIANEG--KRPIYVDGRPIIASNKYKLNHNSIIERFD 226 (232)
Q Consensus 189 ~~f~L~nlG--kngi~VNG~~l~~g~~~~L~~gdiIeig~ 226 (232)
+.|||.+.. .++..-+|.++..+....+..||.|++-|
T Consensus 16 ~GffiQd~~~d~~~~ts~gifV~~~~~~~~~~Gd~V~vtG 55 (78)
T cd04486 16 GGFYIQDEDGDGDPATSEGIFVYTGSGADVAVGDLVRVTG 55 (78)
T ss_pred CEEEEEcCCCCCCCcccceEEEecCCCCCCCCCCEEEEEE
Confidence 459999973 24444455554433355677788888755
No 87
>TIGR01017 rpsD_bact ribosomal protein S4, bacterial/organelle type. This model finds organelle (chloroplast and mitochondrial) ribosomal protein S4 as well as bacterial ribosomal protein S4.
Probab=25.50 E-value=73 Score=27.64 Aligned_cols=41 Identities=22% Similarity=0.326 Sum_probs=29.1
Q ss_pred ccchhceeEEEccCCcEEEEEcCcCceEECCEEecCCCceeCCCCCeEEECCC
Q psy10574 175 KVSRRQACIRMRNNGDFFIANEGKRPIYVDGRPIIASNKYKLNHNSIIERFDR 227 (232)
Q Consensus 175 ~ISR~HA~I~~~~d~~f~L~nlGkngi~VNG~~l~~g~~~~L~~gdiIeig~~ 227 (232)
..||.+|.-.... | -|+|||+.+.. ....+..||+|.+.+.
T Consensus 102 ~~SR~~ArqlI~~-G----------~V~VNgk~v~~-ps~~V~~GD~I~V~~~ 142 (200)
T TIGR01017 102 APTRFAARQLVSH-G----------HILVNGKKVDI-PSYQVRPGDIISIKEK 142 (200)
T ss_pred CCCHHHHHHHHHC-C----------CEEECCEEeCC-CCCCCCCCCEEEEeeC
Confidence 4578888766543 3 48899998742 2357788999999764
No 88
>PRK11840 bifunctional sulfur carrier protein/thiazole synthase protein; Provisional
Probab=24.92 E-value=56 Score=30.87 Aligned_cols=25 Identities=12% Similarity=0.066 Sum_probs=21.1
Q ss_pred ceEECCEEecCCC--ceeCCCCCeEEE
Q psy10574 200 PIYVDGRPIIASN--KYKLNHNSIIER 224 (232)
Q Consensus 200 gi~VNG~~l~~g~--~~~L~~gdiIei 224 (232)
.+.|||+.+++.+ .+.|++||.|+|
T Consensus 33 AVeVNgeIVpr~~w~~t~LkeGD~IEI 59 (326)
T PRK11840 33 AVERNLEIVPRSEYGQVALEEGDELEI 59 (326)
T ss_pred EEEECCEECCHHHcCccccCCCCEEEE
Confidence 5779999998654 678999999997
No 89
>PF11142 DUF2917: Protein of unknown function (DUF2917); InterPro: IPR021317 This bacterial family of proteins appears to be restricted to Proteobacteria.
Probab=24.63 E-value=1.6e+02 Score=20.81 Aligned_cols=44 Identities=16% Similarity=0.262 Sum_probs=33.4
Q ss_pred hhceeEEEccCCcEEEEEcCcCceEECCEEecCCCceeCCCCCeEEECC
Q psy10574 178 RRQACIRMRNNGDFFIANEGKRPIYVDGRPIIASNKYKLNHNSIIERFD 226 (232)
Q Consensus 178 R~HA~I~~~~d~~f~L~nlGkngi~VNG~~l~~g~~~~L~~gdiIeig~ 226 (232)
+....|+.. .|.-+|+..|. .+...|.+|+.+.|..|..+-+..
T Consensus 15 ~~~~~l~v~-~G~vWlT~~g~----~~D~~L~~G~~l~l~~g~~vvl~a 58 (63)
T PF11142_consen 15 AAGQRLRVE-SGRVWLTREGD----PDDYWLQAGDSLRLRRGGRVVLSA 58 (63)
T ss_pred CCCcEEEEc-cccEEEECCCC----CCCEEECCCCEEEeCCCCEEEEEe
Confidence 345567766 48899998884 456778899999999998887653
No 90
>PRK13259 regulatory protein SpoVG; Reviewed
Probab=24.53 E-value=87 Score=24.44 Aligned_cols=28 Identities=14% Similarity=0.469 Sum_probs=20.4
Q ss_pred chhceeEEEccCCcEEEEEc----CcCceEEC
Q psy10574 177 SRRQACIRMRNNGDFFIANE----GKRPIYVD 204 (232)
Q Consensus 177 SR~HA~I~~~~d~~f~L~nl----Gkngi~VN 204 (232)
+|.-|.-+...|++|.|.++ |++|.||.
T Consensus 15 g~lka~asit~dd~fvI~~ikVieg~~GlFVa 46 (94)
T PRK13259 15 GRMKAIVSITFDNEFVVHDIRVIEGNNGLFIA 46 (94)
T ss_pred CcEEEEEEEEECCEEEEeeeEEEECCCCeEEE
Confidence 35555555555678999876 78999997
No 91
>COG2088 SpoVG Uncharacterized protein, involved in the regulation of septum location [Cell envelope biogenesis, outer membrane]
Probab=23.92 E-value=87 Score=24.42 Aligned_cols=27 Identities=19% Similarity=0.482 Sum_probs=20.7
Q ss_pred hhceeEEEccCCcEEEEEc----CcCceEEC
Q psy10574 178 RRQACIRMRNNGDFFIANE----GKRPIYVD 204 (232)
Q Consensus 178 R~HA~I~~~~d~~f~L~nl----Gkngi~VN 204 (232)
|.-|......|++|.++++ |.+|.||-
T Consensus 16 rmkA~vsvT~D~efVvhdirVi~G~~GlfVA 46 (95)
T COG2088 16 RMKAYVSVTLDNEFVVHDIRVIEGNNGLFVA 46 (95)
T ss_pred cEEEEEEEEecceEEEeccEEEeCCcceEEE
Confidence 5566666666779999887 78999985
No 92
>CHL00113 rps4 ribosomal protein S4; Reviewed
Probab=23.11 E-value=92 Score=27.27 Aligned_cols=41 Identities=24% Similarity=0.290 Sum_probs=28.0
Q ss_pred ccchhceeEEEccCCcEEEEEcCcCceEECCEEecCCCceeCCCCCeEEECCC
Q psy10574 175 KVSRRQACIRMRNNGDFFIANEGKRPIYVDGRPIIASNKYKLNHNSIIERFDR 227 (232)
Q Consensus 175 ~ISR~HA~I~~~~d~~f~L~nlGkngi~VNG~~l~~g~~~~L~~gdiIeig~~ 227 (232)
..||.+|.-.... | -|+|||+.+. -..+.+..||.|++.+.
T Consensus 101 ~~SR~~ArqlI~~-G----------~V~VNGk~v~-~ps~~Vk~GD~I~V~~~ 141 (201)
T CHL00113 101 APTIPAARQLVNH-G----------HILVNGRIVD-IPSYRCKPKDIITVKDK 141 (201)
T ss_pred CCCHHHHHHHHHC-C----------cEEECCEEec-CccccCCCCCEEEEccc
Confidence 3467777665443 3 4888999874 12467888999999764
No 93
>COG3908 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.49 E-value=86 Score=23.38 Aligned_cols=31 Identities=39% Similarity=0.605 Sum_probs=23.9
Q ss_pred hceeEEEccCCcEEEEEcCc-CceEECCEEecC
Q psy10574 179 RQACIRMRNNGDFFIANEGK-RPIYVDGRPIIA 210 (232)
Q Consensus 179 ~HA~I~~~~d~~f~L~nlGk-ngi~VNG~~l~~ 210 (232)
+-|+|+|- ||+|.+..-|+ --+-|-|++|+-
T Consensus 11 ~ea~iryl-dgdf~vv~~GsfV~CAVtgk~IPl 42 (77)
T COG3908 11 REAVIRYL-DGDFQVVSPGSFVLCAVTGKPIPL 42 (77)
T ss_pred ceeEEEEe-cCceEEEcCCcEEEEEecCCcccH
Confidence 56899987 68999998888 356677777753
No 94
>PF08914 Myb_DNA-bind_2: Rap1 Myb domain; InterPro: IPR015010 Rap1 Myb adopts a canonical three-helix bundle tertiary structure, with the second and third helices forming a helix-turn-helix variant motif. The function is unclear but it may either interact with DNA via an adaptor protein or it may be only involved in protein-protein interactions []. ; PDB: 1FEX_A.
Probab=22.42 E-value=44 Score=24.09 Aligned_cols=14 Identities=14% Similarity=0.415 Sum_probs=8.4
Q ss_pred ccCCChHHHHHhhh
Q psy10574 69 KALFSNDEEELLGS 82 (232)
Q Consensus 69 ~~~~s~~Ee~~L~~ 82 (232)
++|||.+|+++|..
T Consensus 2 R~~fT~edD~~l~~ 15 (65)
T PF08914_consen 2 RTPFTEEDDAALLD 15 (65)
T ss_dssp -----HHHHHHHHH
T ss_pred CCCCCHHHHHHHHH
Confidence 68999999999888
No 95
>cd01616 TGS The TGS domain, named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. 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=21.55 E-value=1.3e+02 Score=18.90 Aligned_cols=22 Identities=18% Similarity=0.323 Sum_probs=16.3
Q ss_pred eEECCEEecCCCceeCCCCCeEEE
Q psy10574 201 IYVDGRPIIASNKYKLNHNSIIER 224 (232)
Q Consensus 201 i~VNG~~l~~g~~~~L~~gdiIei 224 (232)
..+||+.+. -..+|.+||.|++
T Consensus 37 ~~vn~~~~~--l~~~l~~~~~i~~ 58 (60)
T cd01616 37 ALVNGQLVD--LSYTLQDGDTVSI 58 (60)
T ss_pred EEECCEECC--CCcCcCCCCEEEE
Confidence 458887755 3477899999886
No 96
>PRK10700 23S rRNA pseudouridylate synthase B; Provisional
Probab=21.49 E-value=1e+02 Score=28.21 Aligned_cols=41 Identities=20% Similarity=0.203 Sum_probs=29.2
Q ss_pred ccchhceeEEEccCCcEEEEEcCcCceEECCEEecCCCceeCCCCCeEEECC
Q psy10574 175 KVSRRQACIRMRNNGDFFIANEGKRPIYVDGRPIIASNKYKLNHNSIIERFD 226 (232)
Q Consensus 175 ~ISR~HA~I~~~~d~~f~L~nlGkngi~VNG~~l~~g~~~~L~~gdiIeig~ 226 (232)
..||+.|.-.+.. | .|+|||+.+.+|..+...+.|.|.+.|
T Consensus 14 ~~SRr~a~~lI~~-G----------~V~VNG~~~~~g~~V~~~~~d~I~v~g 54 (289)
T PRK10700 14 HGSRREIESIIEA-G----------RVSVDGKIATLGDRVEVTPGLKIRIDG 54 (289)
T ss_pred CCCHHHHHHHHHc-C----------CEEECCEeccCCCEeCCCCCeEEEECC
Confidence 4688887765543 3 388888888777777666667787766
No 97
>PRK10475 23S rRNA pseudouridine synthase F; Provisional
Probab=21.25 E-value=1.1e+02 Score=28.23 Aligned_cols=39 Identities=15% Similarity=0.381 Sum_probs=26.8
Q ss_pred ccchhceeEEEccCCcEEEEEcCcCceEECCEEecCCCceeCCCCCeEEECC
Q psy10574 175 KVSRRQACIRMRNNGDFFIANEGKRPIYVDGRPIIASNKYKLNHNSIIERFD 226 (232)
Q Consensus 175 ~ISR~HA~I~~~~d~~f~L~nlGkngi~VNG~~l~~g~~~~L~~gdiIeig~ 226 (232)
..||++|.-... .| .|+|||+++.++.+ +..||.|.+.+
T Consensus 18 ~~SRr~a~~lI~-~G----------~V~VNGk~v~~~~~--V~~gD~V~v~g 56 (290)
T PRK10475 18 ICSRREADRYIE-QG----------NVFINGKRATIGDQ--VKAGDVVKVNG 56 (290)
T ss_pred CCCHHHHHHHHH-CC----------cEEECCEEccCCCC--cCCCCEEEECC
Confidence 457777665443 23 48899998866554 57889998876
No 98
>KOG3701|consensus
Probab=21.17 E-value=1.6e+02 Score=28.80 Aligned_cols=44 Identities=25% Similarity=0.366 Sum_probs=31.0
Q ss_pred EEEccCCcEEEEEcCcCceEECCEEecC--C----CceeCCCCCeEEECCC
Q psy10574 183 IRMRNNGDFFIANEGKRPIYVDGRPIIA--S----NKYKLNHNSIIERFDR 227 (232)
Q Consensus 183 I~~~~d~~f~L~nlGkngi~VNG~~l~~--g----~~~~L~~gdiIeig~~ 227 (232)
|.+.+ |+.||+|+|..+|||.-..+.. | ..+++..|+-|.+=+.
T Consensus 290 L~~~~-gdVw~~n~sd~pIFVqS~~ln~~~g~~~~~v~ki~Pg~~iKvFd~ 339 (411)
T KOG3701|consen 290 LSYEN-GDVWLYNLSDYPIFVQSPNLNYPNGRTLDTVHKVPPGYSIKVFDF 339 (411)
T ss_pred eeEec-CcEEEEecCCCceeeeCCCCcCCCCCcccceEeeCCCceeEeech
Confidence 45555 8999999999999998544331 2 2346888887776553
No 99
>PF07273 DUF1439: Protein of unknown function (DUF1439); InterPro: IPR010835 This family consists of several hypothetical bacterial proteins of around 190 residues in length. Several members of this family are annotated as being putative lipoproteins and are often known as YceB. The function of this family is unknown.; PDB: 3L6I_B.
Probab=20.48 E-value=99 Score=25.46 Aligned_cols=56 Identities=23% Similarity=0.310 Sum_probs=33.1
Q ss_pred ceEEEeecCeeEeCCCCCCC---CcceecC--CC-CC--CcccchhceeEEEccC-CcEEEEEcC
Q psy10574 142 AVRYLMKFRDVTLGRSTADH---SVDIDLS--LE-GP--AWKVSRRQACIRMRNN-GDFFIANEG 197 (232)
Q Consensus 142 ~~~y~m~~~ei~IGR~s~~~---~VDIDLs--~e-G~--~~~ISR~HA~I~~~~d-~~f~L~nlG 197 (232)
...+-+....+.|||...+. ..|+++. .. ++ ...--.--+..+|+.+ |.+||+++-
T Consensus 27 ~~~v~l~~~~v~ig~~~~~~i~l~~~~~~~i~~~~~~~~~~~~l~~s~~p~YD~~~~avyL~~l~ 91 (152)
T PF07273_consen 27 PADVTLSNPKVQIGRDDPDRIALSADADVSINSPLGPYPASGKLTLSGQPRYDAEKGAVYLKDLR 91 (152)
T ss_dssp EEEEEEEEEEEEESSSSTT-EEEEEEEEEEEEETTEEEEEEEEEEEEEEEEEETTTTEEEEEEEE
T ss_pred EEEEEEcCceEecCCCCCCEEEEEEEEEEEEeccCCCcceEEEEEEEEEEEEecCCCeEEEccce
Confidence 47788999999999887662 2333322 11 11 2233344456666654 678888753
No 100
>PLN00051 RNA-binding S4 domain-containing protein; Provisional
Probab=20.24 E-value=1.1e+02 Score=27.98 Aligned_cols=43 Identities=19% Similarity=0.321 Sum_probs=30.8
Q ss_pred ccchhceeEEEccCCcEEEEEcCcCceEECCEEecCCCceeCCCCCeEEECCCCc
Q psy10574 175 KVSRRQACIRMRNNGDFFIANEGKRPIYVDGRPIIASNKYKLNHNSIIERFDRGN 229 (232)
Q Consensus 175 ~ISR~HA~I~~~~d~~f~L~nlGkngi~VNG~~l~~g~~~~L~~gdiIeig~~~~ 229 (232)
.+||..|.-.... | -++|||+.+.. ....++.||+|.+-|.+-
T Consensus 203 ~~SRsk~~~lI~~-g----------~V~vN~~~v~~-~s~~v~~gD~isiRG~GR 245 (267)
T PLN00051 203 RMSRSKLVDLISS-G----------DVRVNWREVTK-NGTTLKTGDVVSVSGKGR 245 (267)
T ss_pred ccCHHHHHHHHHc-C----------cEEECCEEcCC-CCCCCCCCCEEEEeeCCE
Confidence 5677666554442 3 48999999842 246899999999988763
Done!