Query psy13346
Match_columns 238
No_of_seqs 232 out of 1604
Neff 6.5
Searched_HMMs 46136
Date Fri Aug 16 17:04:32 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy13346.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/13346hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1882|consensus 100.0 6E-31 1.3E-35 226.9 4.8 140 93-233 147-292 (293)
2 PF00498 FHA: FHA domain; Int 99.8 1.7E-19 3.8E-24 128.0 9.1 68 142-217 1-68 (68)
3 KOG1881|consensus 99.8 3E-18 6.6E-23 166.4 10.2 127 103-231 141-270 (793)
4 cd00060 FHA Forkhead associate 99.7 9.4E-16 2E-20 115.2 13.1 98 120-225 2-100 (102)
5 PLN02927 antheraxanthin epoxid 99.6 7.5E-15 1.6E-19 145.4 11.3 99 119-226 533-645 (668)
6 KOG1880|consensus 99.6 2E-15 4.3E-20 134.5 4.7 118 104-228 3-120 (337)
7 TIGR03354 VI_FHA type VI secre 99.6 2.3E-14 5.1E-19 134.4 12.1 96 121-227 2-105 (396)
8 COG1716 FOG: FHA domain [Signa 99.5 1.7E-13 3.8E-18 114.8 10.0 81 139-230 88-169 (191)
9 smart00240 FHA Forkhead associ 99.4 8.3E-13 1.8E-17 88.5 5.3 52 142-200 1-52 (52)
10 COG3456 Predicted component of 99.1 1.6E-10 3.5E-15 107.6 9.0 84 133-227 20-106 (430)
11 KOG0615|consensus 98.4 3.5E-07 7.6E-12 85.7 5.7 98 134-234 59-163 (475)
12 TIGR02500 type_III_yscD type I 98.2 5.6E-06 1.2E-10 78.3 9.0 90 120-223 1-93 (410)
13 KOG2293|consensus 97.5 0.00031 6.8E-09 67.6 7.7 83 136-226 444-532 (547)
14 KOG0245|consensus 97.2 0.0012 2.7E-08 67.9 8.5 97 121-228 456-557 (1221)
15 TIGR01663 PNK-3'Pase polynucle 96.8 0.0035 7.5E-08 61.4 7.1 85 132-227 25-109 (526)
16 KOG1892|consensus 96.4 0.01 2.3E-07 61.0 7.8 101 120-232 357-460 (1629)
17 KOG0241|consensus 93.2 0.14 3E-06 53.2 5.2 95 119-227 445-542 (1714)
18 PRK15367 type III secretion sy 88.3 2.5 5.4E-05 40.1 8.2 86 119-221 4-89 (395)
19 PF13275 S4_2: S4 domain; PDB: 77.1 1.8 3.8E-05 30.8 1.9 32 191-223 33-64 (65)
20 PRK11507 ribosome-associated p 74.7 6.3 0.00014 28.4 4.2 39 179-222 29-67 (70)
21 COG1188 Ribosome-associated he 74.2 5.3 0.00012 30.8 3.9 34 192-227 35-70 (100)
22 COG5025 Transcription factor o 74.1 1.8 3.9E-05 43.3 1.7 65 156-227 123-190 (610)
23 COG2501 S4-like RNA binding pr 73.7 7.9 0.00017 28.2 4.5 41 178-223 28-68 (73)
24 TIGR02988 YaaA_near_RecF S4 do 71.3 4.8 0.0001 27.3 2.9 26 190-216 33-58 (59)
25 PRK01777 hypothetical protein; 68.6 6 0.00013 30.1 3.1 29 186-217 46-74 (95)
26 smart00363 S4 S4 RNA-binding d 67.9 9.2 0.0002 24.4 3.6 27 190-218 25-52 (60)
27 PF01479 S4: S4 domain; Inter 67.8 4.2 9.1E-05 26.2 1.9 23 190-214 25-48 (48)
28 PF02824 TGS: TGS domain; Int 58.9 9 0.00019 26.3 2.3 24 191-216 35-58 (60)
29 PF02626 AHS2: Allophanate hyd 56.9 18 0.00038 32.7 4.5 38 188-225 52-92 (271)
30 TIGR01687 moaD_arch MoaD famil 55.6 12 0.00026 27.1 2.7 26 191-216 56-81 (88)
31 cd01764 Urm1 Urm1-like ubuitin 54.0 11 0.00024 28.4 2.3 24 193-216 62-87 (94)
32 cd00165 S4 S4/Hsp/ tRNA synthe 53.4 19 0.0004 23.6 3.2 28 190-219 25-53 (70)
33 smart00797 AHS2 Allophanate hy 53.4 35 0.00077 30.9 5.8 33 187-219 51-83 (280)
34 cd00754 MoaD Ubiquitin domain 52.4 15 0.00033 25.8 2.7 25 190-216 49-73 (80)
35 PRK06437 hypothetical protein; 49.2 24 0.00052 24.7 3.3 24 191-216 37-60 (67)
36 PRK10348 ribosome-associated h 47.9 31 0.00068 27.9 4.1 38 190-229 33-72 (133)
37 cd01666 TGS_DRG_C TGS_DRG_C: 47.6 17 0.00037 26.3 2.3 20 195-216 54-73 (75)
38 TIGR00724 urea_amlyse_rel biot 45.9 46 0.001 30.7 5.4 36 184-219 70-106 (314)
39 PF14451 Ub-Mut7C: Mut7-C ubiq 45.4 26 0.00057 25.7 3.1 24 192-217 51-74 (81)
40 TIGR01683 thiS thiamine biosyn 45.1 23 0.0005 24.3 2.6 23 194-216 33-57 (64)
41 COG1984 DUR1 Allophanate hydro 45.0 58 0.0013 30.1 5.9 50 161-219 55-104 (314)
42 PF09269 DUF1967: Domain of un 44.3 20 0.00043 25.5 2.2 16 208-223 54-69 (69)
43 PF11012 DUF2850: Protein of u 43.5 50 0.0011 24.4 4.2 38 189-229 22-61 (79)
44 PRK06488 sulfur carrier protei 43.5 19 0.00041 24.8 2.0 23 194-216 34-58 (65)
45 cd00565 ThiS ThiaminS ubiquiti 43.0 29 0.00063 23.8 2.9 25 192-216 32-58 (65)
46 PF14478 DUF4430: Domain of un 41.2 24 0.00052 24.6 2.2 22 195-216 45-67 (68)
47 PRK06944 sulfur carrier protei 40.5 31 0.00067 23.5 2.7 24 193-216 33-58 (65)
48 TIGR03595 Obg_CgtA_exten Obg f 39.4 24 0.00053 25.0 2.0 16 208-223 54-69 (69)
49 COG5131 URM1 Ubiquitin-like pr 38.0 23 0.0005 26.8 1.8 40 179-218 48-91 (96)
50 PRK07440 hypothetical protein; 36.2 32 0.00069 24.4 2.2 22 195-216 40-63 (70)
51 PF02597 ThiS: ThiS family; I 35.6 30 0.00066 24.0 2.1 28 189-216 42-70 (77)
52 PF08804 gp32: gp32 DNA bindin 33.9 28 0.00061 26.5 1.7 16 179-194 43-58 (94)
53 cd01669 TGS_Ygr210_C TGS_Ygr21 31.3 50 0.0011 23.9 2.6 19 196-216 56-74 (76)
54 PRK05659 sulfur carrier protei 30.9 32 0.00068 23.5 1.5 12 205-216 48-59 (66)
55 PRK08364 sulfur carrier protei 30.7 62 0.0013 22.7 3.0 20 195-216 44-63 (70)
56 PRK08053 sulfur carrier protei 30.4 46 0.001 23.0 2.3 23 194-216 35-59 (66)
57 PRK07696 sulfur carrier protei 29.4 59 0.0013 22.7 2.7 23 194-216 36-60 (67)
58 PLN02799 Molybdopterin synthas 29.3 66 0.0014 22.9 3.0 22 193-216 54-75 (82)
59 TIGR02712 urea_carbox urea car 28.6 1.4E+02 0.0031 32.5 6.5 43 184-226 519-565 (1201)
60 PRK11092 bifunctional (p)ppGpp 27.8 53 0.0011 33.7 3.0 26 190-217 421-446 (702)
61 TIGR01682 moaD molybdopterin c 27.6 72 0.0016 22.6 3.0 23 192-216 51-73 (80)
62 PF04710 Pellino: Pellino; In 27.5 2.3E+02 0.005 27.2 6.9 34 140-173 96-145 (416)
63 COG2104 ThiS Sulfur transfer p 27.2 64 0.0014 22.9 2.5 23 194-216 37-61 (68)
64 TIGR00691 spoT_relA (p)ppGpp s 26.5 56 0.0012 33.3 2.9 25 191-217 396-420 (683)
65 cd04089 eRF3_II eRF3_II: domai 26.4 93 0.002 22.2 3.4 26 191-220 13-38 (82)
66 PRK06083 sulfur carrier protei 26.3 53 0.0011 24.3 2.1 22 195-216 54-77 (84)
67 PRK10872 relA (p)ppGpp synthet 24.4 64 0.0014 33.4 2.9 26 190-217 439-464 (743)
68 cd04486 YhcR_OBF_like YhcR_OBF 23.9 1.5E+02 0.0033 21.3 4.1 40 180-224 16-61 (78)
69 COG0317 SpoT Guanosine polypho 22.3 84 0.0018 32.3 3.2 26 190-217 422-447 (701)
70 PHA02550 32 single-stranded DN 20.6 87 0.0019 28.7 2.7 17 179-195 71-87 (304)
71 PF09138 Urm1: Urm1 (Ubiquitin 20.4 34 0.00074 26.1 0.0 25 193-217 64-90 (96)
No 1
>KOG1882|consensus
Probab=99.96 E-value=6e-31 Score=226.94 Aligned_cols=140 Identities=51% Similarity=0.870 Sum_probs=129.1
Q ss_pred hhhhhcCCCC-ccccCCCCCCCCCCCCceEEEEeeCCCCCceEEeecCCeEEEeeeCCcccEEeCCCcccccceEEEEEe
Q psy13346 93 DILKRSTLRP-IVIYYEPKDAKLPSQYKWRLYPFKNHQPLPIMYIHRQSAYIIGRNAKVSDILIRHCSCSNQHAVLQYRE 171 (238)
Q Consensus 93 ~~~e~n~~~G-~~~~~~P~~a~~P~~~~w~L~v~kg~~~~~~~~l~~~~~~~IGR~~~~~DI~l~d~sVSr~Ha~I~~~~ 171 (238)
+..+.|.+.| +++|++|++|+.|.. .|+|+.+++...+..+.++.+++|++||....+||.|++|+||++||+|+|..
T Consensus 147 l~E~tn~~~gv~v~y~eppearkP~k-RwrLy~fk~~e~l~~l~iHrqs~yL~gRerkIaDi~idhpScSKQHaviQyR~ 225 (293)
T KOG1882|consen 147 LLEDTNRFRGVVVKYNEPPEARKPKK-RWRLYPFKCYEVLPVLYIHRQSCYLDGRERKIADIPIDHPSCSKQHAVIQYRL 225 (293)
T ss_pred hhhhhcceeeEEEEecCCchhcCchh-heecccccCCcccchheeeeeeeeecCceeeeeccCCCCccccccceeeeeee
Confidence 3459999999 999999999999999 99999999999999999999999999999888999999999999999999987
Q ss_pred eccCC-----cccceEEEEeCCCCCceeECCEEcCCCceEEccCCCEEEEcCeeEEEEEecCCCchh
Q psy13346 172 LSLNN-----TRVVRPYLMDLKSMNGTFVNGMKIAPLTYVELFEGDVIEFGLSTREYVLLHQNSECL 233 (238)
Q Consensus 172 ~~~~~-----~~~~~~~I~DlgS~NGT~VNg~rI~~~~~~~L~~GD~I~~G~~~~~fvl~~~~~~~~ 233 (238)
..-+. |...++||+||||.||||||+.+|++..|++|..+|+|+||.+..+|||+++.+...
T Consensus 226 v~~~r~dGt~grrvkpYiiDLgS~NgTfLNnk~IepqRYyEL~ekDvlkfgfs~rEyvllhe~s~~~ 292 (293)
T KOG1882|consen 226 VEFTRADGTVGRRVKPYIIDLGSGNGTFLNNKVIEPQRYYELREKDVLKFGFSSREYVLLHEISMNV 292 (293)
T ss_pred cccccCCCccceeeeeEEEecCCCCcceecCcccCchheeeeecCceeeeccchHHHHHHHhhhccc
Confidence 65322 556689999999999999999999999999999999999999999999999886654
No 2
>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=99.81 E-value=1.7e-19 Score=128.02 Aligned_cols=68 Identities=41% Similarity=0.635 Sum_probs=61.8
Q ss_pred EEEeeeCCcccEEeCCCcccccceEEEEEeeccCCcccceEEEEeCCCCCceeECCEEcCCCceEEccCCCEEEEc
Q psy13346 142 YIIGRNAKVSDILIRHCSCSNQHAVLQYRELSLNNTRVVRPYLMDLKSMNGTFVNGMKIAPLTYVELFEGDVIEFG 217 (238)
Q Consensus 142 ~~IGR~~~~~DI~l~d~sVSr~Ha~I~~~~~~~~~~~~~~~~I~DlgS~NGT~VNg~rI~~~~~~~L~~GD~I~~G 217 (238)
|+|||+ ..|||.|.++.||++||.|.+.. ...|+|+|++|+|||||||++|.++.++.|.+||+|.||
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-PDCDIVLPDPSISRRHARISFDD-------DGQFYIEDLGSTNGTFVNGQRLGPGEPVPLKDGDIIRFG 68 (68)
T ss_dssp EEEESS-TTSSEEETSTTSSTTSEEEEEET-------TEEEEEEESSSSS-EEETTEEESSTSEEEE-TTEEEEET
T ss_pred CEEcCC-CCCCEEECCHheeeeeeEEEEec-------eeeEEEEeCCCCCcEEECCEEcCCCCEEECCCCCEEEcC
Confidence 689999 47999999999999999999984 248999999999999999999999999999999999998
No 3
>KOG1881|consensus
Probab=99.75 E-value=3e-18 Score=166.40 Aligned_cols=127 Identities=28% Similarity=0.386 Sum_probs=114.6
Q ss_pred ccccCCCCCCCCCCCCceEEEEeeCCCCCceEEeecCCeEEEeeeCCcccEEeCCCcccccceEEEEEeeccC---Cccc
Q psy13346 103 IVIYYEPKDAKLPSQYKWRLYPFKNHQPLPIMYIHRQSAYIIGRNAKVSDILIRHCSCSNQHAVLQYRELSLN---NTRV 179 (238)
Q Consensus 103 ~~~~~~P~~a~~P~~~~w~L~v~kg~~~~~~~~l~~~~~~~IGR~~~~~DI~l~d~sVSr~Ha~I~~~~~~~~---~~~~ 179 (238)
..-|..|+|+..|.. .+.|.+++.+..+..+.|.....|+|||.. .||+.+.|++|||.||+|++...... +..+
T Consensus 141 ~~py~vppw~~P~~~-~~~lEvlKeg~iiet~~l~~~~~~~fgr~~-~cD~~~eHpsISr~h~vlQy~~~~~~~p~~s~~ 218 (793)
T KOG1881|consen 141 AAPYEVPPWSGPPAA-IFQLEVLKEGAIIETEDLKGAAACLFGRLG-GCDVALEHPSISRFHAVLQYKASGPDDPCASNG 218 (793)
T ss_pred CCcccCCCCCCCccc-chhhhhhccCceeeeeecccceeEEecccC-CCccccccCcccccceeeeccCCCCCccccCCC
Confidence 678999999999888 999999999999999999989999999995 89999999999999999999865432 1234
Q ss_pred ceEEEEeCCCCCceeECCEEcCCCceEEccCCCEEEEcCeeEEEEEecCCCc
Q psy13346 180 VRPYLMDLKSMNGTFVNGMKIAPLTYVELFEGDVIEFGLSTREYVLLHQNSE 231 (238)
Q Consensus 180 ~~~~I~DlgS~NGT~VNg~rI~~~~~~~L~~GD~I~~G~~~~~fvl~~~~~~ 231 (238)
..|||.||||++|||+|..++++..|+.++-|++++||++++.|+|++...+
T Consensus 219 ~g~~i~dlgsThgt~~NK~rvppk~yir~~Vg~v~~fggsTrl~i~Qgp~eD 270 (793)
T KOG1881|consen 219 EGWYIYDLGSTHGTFLNKDRVPPKVYIRDRVGHVARFGGSTRLYIFQGPEED 270 (793)
T ss_pred CceEEeeccccccceeccccCCCcchhhhhHHHHHHhcCceEEEEeeCCCcC
Confidence 5799999999999999999999999999999999999999999999986543
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=99.68 E-value=9.4e-16 Score=115.20 Aligned_cols=98 Identities=35% Similarity=0.519 Sum_probs=84.9
Q ss_pred eEEEEeeCCCCCceEEeecCCeEEEeeeCCcc-cEEeCCCcccccceEEEEEeeccCCcccceEEEEeCCCCCceeECCE
Q psy13346 120 WRLYPFKNHQPLPIMYIHRQSAYIIGRNAKVS-DILIRHCSCSNQHAVLQYRELSLNNTRVVRPYLMDLKSMNGTFVNGM 198 (238)
Q Consensus 120 w~L~v~kg~~~~~~~~l~~~~~~~IGR~~~~~-DI~l~d~sVSr~Ha~I~~~~~~~~~~~~~~~~I~DlgS~NGT~VNg~ 198 (238)
|.|.++.+......+.|..+..++|||+. .| +|.|.++.||+.||+|.++. ...+++.|+.|+||||||++
T Consensus 2 ~~L~~~~~~~~~~~~~l~~~~~~~iGr~~-~~~~i~l~~~~iS~~H~~i~~~~-------~~~~~~~~~~s~~g~~vn~~ 73 (102)
T cd00060 2 PRLVVLSGDASGRRYYLDPGGTYTIGRDS-DNCDIVLDDPSVSRRHAVIRYDG-------DGGVVLIDLGSTNGTFVNGQ 73 (102)
T ss_pred eEEEEecCCCceeEEEECCCCeEEECcCC-CcCCEEcCCCCeeCcceEEEEcC-------CCCEEEEECCCCCCeEECCE
Confidence 67888888777778888865779999995 57 99999999999999999984 26899999999999999999
Q ss_pred EcCCCceEEccCCCEEEEcCeeEEEEE
Q psy13346 199 KIAPLTYVELFEGDVIEFGLSTREYVL 225 (238)
Q Consensus 199 rI~~~~~~~L~~GD~I~~G~~~~~fvl 225 (238)
++..+..+.|..||.|.||.....|.+
T Consensus 74 ~~~~~~~~~l~~gd~i~ig~~~~~~~~ 100 (102)
T cd00060 74 RVSPGEPVRLRDGDVIRLGNTSISFRF 100 (102)
T ss_pred ECCCCCcEECCCCCEEEECCeEEEEEE
Confidence 999877899999999999975445544
No 5
>PLN02927 antheraxanthin epoxidase/zeaxanthin epoxidase
Probab=99.58 E-value=7.5e-15 Score=145.35 Aligned_cols=99 Identities=25% Similarity=0.429 Sum_probs=80.1
Q ss_pred ceEEEEeeCCCC-CceEEe--ecCCeEEEeeeCCcccE-----EeCCCcccccceEEEEEeeccCCcccceEEEEeCCCC
Q psy13346 119 KWRLYPFKNHQP-LPIMYI--HRQSAYIIGRNAKVSDI-----LIRHCSCSNQHAVLQYRELSLNNTRVVRPYLMDLKSM 190 (238)
Q Consensus 119 ~w~L~v~kg~~~-~~~~~l--~~~~~~~IGR~~~~~DI-----~l~d~sVSr~Ha~I~~~~~~~~~~~~~~~~I~DlgS~ 190 (238)
.|.|....++.. .+.+.| .++..++|||.+ .||+ +|.++.||+.||+|.+. ++.|||+||+|+
T Consensus 533 ~w~l~~~~~~~~~~~~~~l~~~~~~p~~iG~~~-~~~~~~~~i~i~~~~vS~~Ha~i~~~--------~~~~~~~Dl~S~ 603 (668)
T PLN02927 533 EWYLIPHGDDCCVSETLCLTKDEDQPCIVGSEP-DQDFPGMRIVIPSSQVSKMHARVIYK--------DGAFFLMDLRSE 603 (668)
T ss_pred CeEEEecCCCCcccceeeeecCCCCCeEecCCC-CcCCCCceEEecCCccChhHeEEEEE--------CCEEEEEECCCC
Confidence 799999765533 455666 245669999995 6885 99999999999999998 579999999999
Q ss_pred CceeECCEE-----cCCCceEEccCCCEEEEcCee-EEEEEe
Q psy13346 191 NGTFVNGMK-----IAPLTYVELFEGDVIEFGLST-REYVLL 226 (238)
Q Consensus 191 NGT~VNg~r-----I~~~~~~~L~~GD~I~~G~~~-~~fvl~ 226 (238)
|||||||.+ +.++.+..|++||+|+||... ..|++.
T Consensus 604 nGT~v~~~~~~r~~~~p~~~~~l~~~d~I~~g~~~~~~fr~~ 645 (668)
T PLN02927 604 HGTYVTDNEGRRYRATPNFPARFRSSDIIEFGSDKKAAFRVK 645 (668)
T ss_pred CccEEeCCCCceEecCCCCceEeCCCCEEEeCCCcceeEEEE
Confidence 999997766 567889999999999999942 334443
No 6
>KOG1880|consensus
Probab=99.56 E-value=2e-15 Score=134.46 Aligned_cols=118 Identities=33% Similarity=0.532 Sum_probs=107.3
Q ss_pred cccCCCCCCCCCCCCceEEEEeeCCCCCceEEeecCCeEEEeeeCCcccEEeCCCcccccceEEEEEeeccCCcccceEE
Q psy13346 104 VIYYEPKDAKLPSQYKWRLYPFKNHQPLPIMYIHRQSAYIIGRNAKVSDILIRHCSCSNQHAVLQYRELSLNNTRVVRPY 183 (238)
Q Consensus 104 ~~~~~P~~a~~P~~~~w~L~v~kg~~~~~~~~l~~~~~~~IGR~~~~~DI~l~d~sVSr~Ha~I~~~~~~~~~~~~~~~~ 183 (238)
-+|..|.||..|.. ...|.+.++...+....+..+..|++||....||++|++.+|||.||.+.+... ...++
T Consensus 3 s~~~~p~wA~kpp~-g~hldv~k~d~li~kl~iddkr~y~Fgrn~q~~df~idh~scSrvhaa~vyhkh------l~~~~ 75 (337)
T KOG1880|consen 3 SNFDPPSWAGKPPA-GLHLDVVKGDKLIQKLIIDDKRRYLFGRNHQTCDFVIDHASCSRVHAALVYHKH------LSRIF 75 (337)
T ss_pred CcCCCCCcccCCCC-CCceeeeecchhHHHHHhhhhhhhhhccCCCccceEeecchhhhhHhhhhhhhc------cceEE
Confidence 46789999999999 888999998888877777778889999998899999999999999999998753 34699
Q ss_pred EEeCCCCCceeECCEEcCCCceEEccCCCEEEEcCeeEEEEEecC
Q psy13346 184 LMDLKSMNGTFVNGMKIAPLTYVELFEGDVIEFGLSTREYVLLHQ 228 (238)
Q Consensus 184 I~DlgS~NGT~VNg~rI~~~~~~~L~~GD~I~~G~~~~~fvl~~~ 228 (238)
|+||||++||||...||.+..++.|..|-.+.||.+++.|.+..-
T Consensus 76 lidl~s~hgtf~g~~rL~~~~p~~l~i~~~~~fgasTr~y~lr~k 120 (337)
T KOG1880|consen 76 LIDLGSTHGTFLGNERLEPHKPVQLEIGSTFHFGASTRIYLLREK 120 (337)
T ss_pred EEEccCCcceeeeeeeeccCCCccccCCceEEEeccceeeeeecc
Confidence 999999999999999999999999999999999999999998765
No 7
>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=99.56 E-value=2.3e-14 Score=134.42 Aligned_cols=96 Identities=26% Similarity=0.261 Sum_probs=80.3
Q ss_pred EEEEeeC----CCCCceEEeecCCeEEEeeeCCcccEEeCCCc--ccccceEEEEEeeccCCcccceEEEEeCCCCCcee
Q psy13346 121 RLYPFKN----HQPLPIMYIHRQSAYIIGRNAKVSDILIRHCS--CSNQHAVLQYRELSLNNTRVVRPYLMDLKSMNGTF 194 (238)
Q Consensus 121 ~L~v~kg----~~~~~~~~l~~~~~~~IGR~~~~~DI~l~d~s--VSr~Ha~I~~~~~~~~~~~~~~~~I~DlgS~NGT~ 194 (238)
.|.|++. ......+.+. ...++|||+. .||++|.++. ||+.||+|.++ ++.|+|+|+ |+||||
T Consensus 2 ~L~v~n~~~l~~g~~~~~~f~-~~~~~IGR~~-~~d~~l~d~~~~VS~~Ha~I~~~--------~g~~~l~Dl-StNGT~ 70 (396)
T TIGR03354 2 VLTVLNAHQLTPGIAAQKTFG-TNGGTIGRSE-DCDWVLPDPERHVSGRHARIRYR--------DGAYLLTDL-STNGVF 70 (396)
T ss_pred EEEEeccccCCCCcceEEEEC-CCCEEEecCC-CCCEEeCCCCCCcchhhcEEEEE--------CCEEEEEEC-CCCCeE
Confidence 3555543 2233466666 4559999995 6999999988 99999999998 468999999 999999
Q ss_pred EC--CEEcCCCceEEccCCCEEEEcCeeEEEEEec
Q psy13346 195 VN--GMKIAPLTYVELFEGDVIEFGLSTREYVLLH 227 (238)
Q Consensus 195 VN--g~rI~~~~~~~L~~GD~I~~G~~~~~fvl~~ 227 (238)
|| |.+|..+.++.|++||+|+||...+.|.+..
T Consensus 71 VN~sg~~l~~~~~~~L~~GD~I~iG~~~lrv~~~~ 105 (396)
T TIGR03354 71 LNGSGSPLGRGNPVRLEQGDRLRLGDYEIRVSLGD 105 (396)
T ss_pred ECCCCCCCCCCCceEcCCCCEEEECCEEEEEEeCC
Confidence 99 8999998889999999999999998888854
No 8
>COG1716 FOG: FHA domain [Signal transduction mechanisms]
Probab=99.49 E-value=1.7e-13 Score=114.84 Aligned_cols=81 Identities=33% Similarity=0.453 Sum_probs=70.4
Q ss_pred CCeEEEeeeCCcccEEeCCCcccccceEEEEEeeccCCcccceEEEEeCCCCCceeECCEEcCCCceEEccCCCEEEEcC
Q psy13346 139 QSAYIIGRNAKVSDILIRHCSCSNQHAVLQYRELSLNNTRVVRPYLMDLKSMNGTFVNGMKIAPLTYVELFEGDVIEFGL 218 (238)
Q Consensus 139 ~~~~~IGR~~~~~DI~l~d~sVSr~Ha~I~~~~~~~~~~~~~~~~I~DlgS~NGT~VNg~rI~~~~~~~L~~GD~I~~G~ 218 (238)
...++|||+ ..+++++.+..|||+||.|.++ ...++++|++|+|||||||.++.. .+.|.+||.|.||.
T Consensus 88 ~~~~tigr~-~~~~i~~~~~~vSR~Ha~l~~~--------~~~~~~~d~~S~nGt~vn~~~v~~--~~~l~~gd~i~i~~ 156 (191)
T COG1716 88 EPVTTIGRD-PDNDIVLDDDVVSRRHAELRRE--------GNEVFLEDLGSTNGTYVNGEKVRQ--RVLLQDGDVIRLGG 156 (191)
T ss_pred cceEEeccC-CCCCEEcCCCccccceEEEEEe--------CCceEEEECCCCcceEECCeEccC--cEEcCCCCEEEECc
Confidence 346999998 5799999999999999999999 468999999999999999999996 47999999999999
Q ss_pred eeE-EEEEecCCC
Q psy13346 219 STR-EYVLLHQNS 230 (238)
Q Consensus 219 ~~~-~fvl~~~~~ 230 (238)
... .+.......
T Consensus 157 ~~~~~~~~~~~~~ 169 (191)
T COG1716 157 TLAERLRIILTEL 169 (191)
T ss_pred cceeeEeeccccc
Confidence 887 555554433
No 9
>smart00240 FHA Forkhead associated domain. Found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain.
Probab=99.37 E-value=8.3e-13 Score=88.47 Aligned_cols=52 Identities=46% Similarity=0.609 Sum_probs=45.8
Q ss_pred EEEeeeCCcccEEeCCCcccccceEEEEEeeccCCcccceEEEEeCCCCCceeECCEEc
Q psy13346 142 YIIGRNAKVSDILIRHCSCSNQHAVLQYRELSLNNTRVVRPYLMDLKSMNGTFVNGMKI 200 (238)
Q Consensus 142 ~~IGR~~~~~DI~l~d~sVSr~Ha~I~~~~~~~~~~~~~~~~I~DlgS~NGT~VNg~rI 200 (238)
++|||.+..|+|.|+++.||+.||.|.++. .+.|+|.|++|+|||||||++|
T Consensus 1 ~~iGr~~~~~~i~~~~~~vs~~H~~i~~~~-------~~~~~i~d~~s~~gt~vng~~v 52 (52)
T smart00240 1 VTIGRSSEDCDIQLPGPSISRRHAEIVYDG-------GGRFYLIDLGSTNGTFVNGKRI 52 (52)
T ss_pred CEeCCCCCCCCEEeCCCCcchhHcEEEECC-------CCeEEEEECCCCCCeeECCEEC
Confidence 479999536999999999999999999974 2359999999999999999985
No 10
>COG3456 Predicted component of the type VI protein secretion system, contains a FHA domain [Intracellular trafficking, secretion, and vesicular transport; Signal transduction mechanisms]
Probab=99.14 E-value=1.6e-10 Score=107.62 Aligned_cols=84 Identities=29% Similarity=0.260 Sum_probs=71.9
Q ss_pred eEEeecCCeEEEeeeCCcccEEeCCC--cccccceEEEEEeeccCCcccceEEEEeCCCCCceeECCEEcCCCce-EEcc
Q psy13346 133 IMYIHRQSAYIIGRNAKVSDILIRHC--SCSNQHAVLQYRELSLNNTRVVRPYLMDLKSMNGTFVNGMKIAPLTY-VELF 209 (238)
Q Consensus 133 ~~~l~~~~~~~IGR~~~~~DI~l~d~--sVSr~Ha~I~~~~~~~~~~~~~~~~I~DlgS~NGT~VNg~rI~~~~~-~~L~ 209 (238)
...+..+ ...|||++ .||-.|+|+ .||++||.|.++ ++.|||.|. |.|||||||..+..+.. ..|+
T Consensus 20 q~~f~~~-~g~IGrs~-dcdW~i~D~~~~VS~~Hc~I~~~--------dg~f~L~Dt-S~g~l~VNgs~~~~g~~~~RLq 88 (430)
T COG3456 20 QKLFDRG-GGVIGRSP-DCDWQIDDPERFVSKQHCTISYR--------DGGFCLTDT-SNGGLLVNGSDLPLGEGSARLQ 88 (430)
T ss_pred hhhhhcC-CcccccCC-CCCccccCcccccchhheEEEec--------CCeEEEEec-CCCceeecccccCCCCCccccc
Confidence 3344434 48999995 699999776 599999999999 679999999 79999999999988877 9999
Q ss_pred CCCEEEEcCeeEEEEEec
Q psy13346 210 EGDVIEFGLSTREYVLLH 227 (238)
Q Consensus 210 ~GD~I~~G~~~~~fvl~~ 227 (238)
.||.|.||...+.+.|..
T Consensus 89 qGd~i~iG~y~i~V~l~~ 106 (430)
T COG3456 89 QGDEILIGRYIIRVHLSR 106 (430)
T ss_pred cCCEEeeccEEEEEEecc
Confidence 999999999987777764
No 11
>KOG0615|consensus
Probab=98.41 E-value=3.5e-07 Score=85.74 Aligned_cols=98 Identities=23% Similarity=0.252 Sum_probs=74.9
Q ss_pred EEeecCCeEEEeeeCCcccEEeCCCcccccceEEEEEee-------ccCCcccceEEEEeCCCCCceeECCEEcCCCceE
Q psy13346 134 MYIHRQSAYIIGRNAKVSDILIRHCSCSNQHAVLQYREL-------SLNNTRVVRPYLMDLKSMNGTFVNGMKIAPLTYV 206 (238)
Q Consensus 134 ~~l~~~~~~~IGR~~~~~DI~l~d~sVSr~Ha~I~~~~~-------~~~~~~~~~~~I~DlgS~NGT~VNg~rI~~~~~~ 206 (238)
+.+. ...+++||+ +.||..+....+|..|..|..... ...+.....+|+.|. |+||||||.+.|..+...
T Consensus 59 ~d~~-nd~f~fGR~-~~~d~~ln~~~~s~~~~~i~~~~~~~~~~f~~dr~~~sn~~y~~Dh-S~nGT~VN~e~i~k~~~r 135 (475)
T KOG0615|consen 59 IDLA-NDEFTFGRG-DSCDAPLNLNNVSNKHFKILLYNKISKIHFRIDRDKNSNRVYLHDH-SRNGTFVNDEMIGKGLSR 135 (475)
T ss_pred ceec-cceEEecCC-CcccccccCccccccchheeeeeeeeeeeecccCCCccceEEEEec-ccCcccccHhHhhccccc
Confidence 3444 556999999 479999988889999988866511 011133568999998 999999999999999999
Q ss_pred EccCCCEEEEcCeeEEEEEecCCCchhc
Q psy13346 207 ELFEGDVIEFGLSTREYVLLHQNSECLQ 234 (238)
Q Consensus 207 ~L~~GD~I~~G~~~~~fvl~~~~~~~~~ 234 (238)
.|++||+|.||.......+..+.+.+++
T Consensus 136 ~lkN~dei~is~p~~~~~v~~~~s~d~~ 163 (475)
T KOG0615|consen 136 ILKNGDEISISIPALKIFVFEDLSRDSS 163 (475)
T ss_pred cccCCCEEEeccchhheeeeecccchhc
Confidence 9999999999987666555555444443
No 12
>TIGR02500 type_III_yscD type III secretion apparatus protein, YscD/HrpQ family. This family represents a conserved protein of bacterial type III secretion systems. Gene symbols are variable from species to species. Members are designated YscD in Yersinia, HrpQ in Pseudomonas syringae, and EscD in enteropathogenic Escherichia coli. In the Chlamydiae, this model describes the C-terminal 400 residues of a longer protein.
Probab=98.21 E-value=5.6e-06 Score=78.30 Aligned_cols=90 Identities=13% Similarity=0.162 Sum_probs=74.3
Q ss_pred eEEEEeeCCCCCceEEeecCCeEEEe-eeCCcccEEeCCCcccccceEEEEEeeccCCcccceEEEEeCCCCCceeECC-
Q psy13346 120 WRLYPFKNHQPLPIMYIHRQSAYIIG-RNAKVSDILIRHCSCSNQHAVLQYRELSLNNTRVVRPYLMDLKSMNGTFVNG- 197 (238)
Q Consensus 120 w~L~v~kg~~~~~~~~l~~~~~~~IG-R~~~~~DI~l~d~sVSr~Ha~I~~~~~~~~~~~~~~~~I~DlgS~NGT~VNg- 197 (238)
|.|.++.|...+..+.|..+. ++|| ++ ..|||+|.|+.||++|+.|.+.. ..+.+.+ +..++++||
T Consensus 1 ~~lrvl~G~~~G~~~~L~~g~-~~iG~~~-~~~di~L~d~~~~~~h~~l~v~~--------~~~~l~~--~~~~~~~~g~ 68 (410)
T TIGR02500 1 WKLRVLSGPHRGAELPLPEGN-LVLGTDA-ADCDIVLSDGGIAAVHVSLHVRL--------EGVTLAG--AVEPAWEEGG 68 (410)
T ss_pred CEEEEecCCCCCcEEECCCCc-eEeccCC-CCcEEEeCCCCccchheEEEEcC--------ceEEEec--CCcceeECCc
Confidence 789999999999999999776 9999 77 57999999999999999999983 4677775 477899999
Q ss_pred -EEcCCCceEEccCCCEEEEcCeeEEE
Q psy13346 198 -MKIAPLTYVELFEGDVIEFGLSTREY 223 (238)
Q Consensus 198 -~rI~~~~~~~L~~GD~I~~G~~~~~f 223 (238)
.....+ ..|..+-.|.+|...+.|
T Consensus 69 ~~~~~~g--~~l~~~~~l~~g~~~~~~ 93 (410)
T TIGR02500 69 VLPDEEG--TPLPSGTPLLVAGVAFAL 93 (410)
T ss_pred ccccCCC--CccCCCCceecceeEEec
Confidence 445444 578888888888775443
No 13
>KOG2293|consensus
Probab=97.50 E-value=0.00031 Score=67.57 Aligned_cols=83 Identities=17% Similarity=0.164 Sum_probs=68.9
Q ss_pred eecCCeEEEeeeCCcc--cEEe--CC--CcccccceEEEEEeeccCCcccceEEEEeCCCCCceeECCEEcCCCceEEcc
Q psy13346 136 IHRQSAYIIGRNAKVS--DILI--RH--CSCSNQHAVLQYRELSLNNTRVVRPYLMDLKSMNGTFVNGMKIAPLTYVELF 209 (238)
Q Consensus 136 l~~~~~~~IGR~~~~~--DI~l--~d--~sVSr~Ha~I~~~~~~~~~~~~~~~~I~DlgS~NGT~VNg~rI~~~~~~~L~ 209 (238)
+..+.+++|||+...+ ||.| .. ..|||..|.|.... .+.|+|..|| +.-.||||.+|..|+.+.|.
T Consensus 444 ~mrk~EVtlGRat~d~~VDIDLgkegpatKISRRQa~IkL~n-------~GsF~IkNlG-K~~I~vng~~l~~gq~~~L~ 515 (547)
T KOG2293|consen 444 YMRKKEVTLGRATGDLKVDIDLGKEGPATKISRRQALIKLKN-------DGSFFIKNLG-KRSILVNGGELDRGQKVILK 515 (547)
T ss_pred hhcCcceEeeccCCCcceeeeccccCccceeeccceeEEecc-------CCcEEeccCc-ceeEEeCCccccCCceEEec
Confidence 3446779999996544 4444 22 24999999999985 6789999997 99999999999999999999
Q ss_pred CCCEEEEcCeeEEEEEe
Q psy13346 210 EGDVIEFGLSTREYVLL 226 (238)
Q Consensus 210 ~GD~I~~G~~~~~fvl~ 226 (238)
+..+|+|-+-+|.|.+.
T Consensus 516 ~nclveIrg~~FiF~~N 532 (547)
T KOG2293|consen 516 NNCLVEIRGLRFIFEIN 532 (547)
T ss_pred cCcEEEEccceEEEeec
Confidence 99999999998877654
No 14
>KOG0245|consensus
Probab=97.22 E-value=0.0012 Score=67.85 Aligned_cols=97 Identities=21% Similarity=0.231 Sum_probs=69.2
Q ss_pred EEEEeeCCCC---CceEEeecCCeEEEeeeC--CcccEEeCCCcccccceEEEEEeeccCCcccceEEEEeCCCCCceeE
Q psy13346 121 RLYPFKNHQP---LPIMYIHRQSAYIIGRNA--KVSDILIRHCSCSNQHAVLQYRELSLNNTRVVRPYLMDLKSMNGTFV 195 (238)
Q Consensus 121 ~L~v~kg~~~---~~~~~l~~~~~~~IGR~~--~~~DI~l~d~sVSr~Ha~I~~~~~~~~~~~~~~~~I~DlgS~NGT~V 195 (238)
.|+-+..+-. ...|+|. .+...|||.. ...||.|....|--+||.|.-... ...+.|.-. -.--|||
T Consensus 456 hLVNLneDPllSe~LlY~ik-eG~TrVG~~~a~~~~DI~LsG~~I~~qHC~i~~~~g------~~~vtl~p~-e~aetyV 527 (1221)
T KOG0245|consen 456 HLVNLNEDPLLSECLLYYIK-EGETRVGREDASSRQDIVLSGQLIREQHCSIRNEGG------NDVVTLEPC-EDAETYV 527 (1221)
T ss_pred ceeccCCCchhhccEEEEec-cCceecCCCCcccCCceEecchhhhhhceEEEecCC------CceEEeccC-CccceeE
Confidence 4555554422 2234444 5568999863 247999999999999999998741 223555554 3667999
Q ss_pred CCEEcCCCceEEccCCCEEEEcCeeEEEEEecC
Q psy13346 196 NGMKIAPLTYVELFEGDVIEFGLSTREYVLLHQ 228 (238)
Q Consensus 196 Ng~rI~~~~~~~L~~GD~I~~G~~~~~fvl~~~ 228 (238)
||+.|.. +..|+.||.|-||+.. .|++.+.
T Consensus 528 NGk~v~e--p~qL~~GdRiilG~~H-~frfn~P 557 (1221)
T KOG0245|consen 528 NGKLVTE--PTQLRSGDRIILGGNH-VFRFNHP 557 (1221)
T ss_pred ccEEcCC--cceeccCCEEEEcCce-eEEecCH
Confidence 9999986 6899999999999964 5666654
No 15
>TIGR01663 PNK-3'Pase polynucleotide 5'-kinase 3'-phosphatase. Note that the EC number for the kinase function is: 2.7.1.78
Probab=96.78 E-value=0.0035 Score=61.38 Aligned_cols=85 Identities=24% Similarity=0.249 Sum_probs=68.6
Q ss_pred ceEEeecCCeEEEeeeCCcccEEeCCCcccccceEEEEEeeccCCcccceEEEEeCCCCCceeECCEEcCCCceEEccCC
Q psy13346 132 PIMYIHRQSAYIIGRNAKVSDILIRHCSCSNQHAVLQYRELSLNNTRVVRPYLMDLKSMNGTFVNGMKIAPLTYVELFEG 211 (238)
Q Consensus 132 ~~~~l~~~~~~~IGR~~~~~DI~l~d~sVSr~Ha~I~~~~~~~~~~~~~~~~I~DlgS~NGT~VNg~rI~~~~~~~L~~G 211 (238)
..++|..+ ..+|||+++ -.|.|..|||+...++.+-. .+.+.+.-|| .|-+-|||+.|.++..+.|++|
T Consensus 25 ~~~~~~~~-~~~~gr~pe---t~i~d~~cs~~qv~l~a~~~------~~~v~~k~lg-~np~~~~~~~~~~~~~~~l~~g 93 (526)
T TIGR01663 25 HFIHLDAG-ALFLGRGPE---TGIRDRKCSKRQIELQADLE------KATVALKQLG-VNPCGTGGLELKPGGEGELGHG 93 (526)
T ss_pred CeeccCCC-ceEEccCcc---cccchhhhchhhheeeeccc------CceEEEEEcc-CCCcccCceEecCCCeeeecCC
Confidence 56677744 488999963 46779999999999998863 4578888997 9999999999999999999999
Q ss_pred CEEEEcCeeEEEEEec
Q psy13346 212 DVIEFGLSTREYVLLH 227 (238)
Q Consensus 212 D~I~~G~~~~~fvl~~ 227 (238)
|++.|=...+-|.+..
T Consensus 94 ~~l~~v~~~~~~~~~f 109 (526)
T TIGR01663 94 DLLEIVNGLHPLTLQF 109 (526)
T ss_pred CEEEEeccccceeEEe
Confidence 9999866555444443
No 16
>KOG1892|consensus
Probab=96.42 E-value=0.01 Score=61.02 Aligned_cols=101 Identities=15% Similarity=0.126 Sum_probs=73.4
Q ss_pred eEEEEeeCC-CCC-ceEEeecCCeEEEeeeCC-cccEEeCCCcccccceEEEEEeeccCCcccceEEEEeCCCCCceeEC
Q psy13346 120 WRLYPFKNH-QPL-PIMYIHRQSAYIIGRNAK-VSDILIRHCSCSNQHAVLQYRELSLNNTRVVRPYLMDLKSMNGTFVN 196 (238)
Q Consensus 120 w~L~v~kg~-~~~-~~~~l~~~~~~~IGR~~~-~~DI~l~d~sVSr~Ha~I~~~~~~~~~~~~~~~~I~DlgS~NGT~VN 196 (238)
..|+.+... ... ..|.|. -+..-+|.... .+.|.|..|.|-.+||.|.+- .+.+.|+-+.----||||
T Consensus 357 PvLve~s~dG~~s~~ri~L~-~~vtEVGs~~~~~~~iqLfGP~IqprHc~it~m--------eGVvTvTP~~~DA~t~Vn 427 (1629)
T KOG1892|consen 357 PVLVELSPDGSDSRKRIRLQ-LSVTEVGSEKLDDNSIQLFGPGIQPRHCDITNM--------EGVVTVTPRSMDAETYVN 427 (1629)
T ss_pred cEEEEEcCCCCCcceeEEec-cCceeccccccCCcceeeeCCCCCccccchhhc--------cceEEecccccchhhhcc
Confidence 345555543 333 466666 44578998742 247889999999999999987 467888877555669999
Q ss_pred CEEcCCCceEEccCCCEEEEcCeeEEEEEecCCCch
Q psy13346 197 GMKIAPLTYVELFEGDVIEFGLSTREYVLLHQNSEC 232 (238)
Q Consensus 197 g~rI~~~~~~~L~~GD~I~~G~~~~~fvl~~~~~~~ 232 (238)
|.+|.. ...|++|+.|.||... .|.|...+.+.
T Consensus 428 Gh~isq--ttiL~~G~~v~fGa~h-sfkF~dss~d~ 460 (1629)
T KOG1892|consen 428 GHRISQ--TTILQSGMKVQFGASH-SFKFVDSSQDH 460 (1629)
T ss_pred ceecch--hhhhccCCEEEeccce-eEEecCCchhh
Confidence 999986 5799999999999864 55555554443
No 17
>KOG0241|consensus
Probab=93.19 E-value=0.14 Score=53.15 Aligned_cols=95 Identities=22% Similarity=0.279 Sum_probs=69.8
Q ss_pred ceEEEEeeCCCCC---ceEEeecCCeEEEeeeCCcccEEeCCCcccccceEEEEEeeccCCcccceEEEEeCCCCCceeE
Q psy13346 119 KWRLYPFKNHQPL---PIMYIHRQSAYIIGRNAKVSDILIRHCSCSNQHAVLQYRELSLNNTRVVRPYLMDLKSMNGTFV 195 (238)
Q Consensus 119 ~w~L~v~kg~~~~---~~~~l~~~~~~~IGR~~~~~DI~l~d~sVSr~Ha~I~~~~~~~~~~~~~~~~I~DlgS~NGT~V 195 (238)
.+.|+-+.+.-.+ ..|++. ...+||-. ..-||++..-.|=++||+|..+. .+.+++.-+- ..-+||
T Consensus 445 K~ylvnlnadP~lnellvyyl~--~~tlig~~-~~~~i~l~glgi~p~h~vidI~~-------dg~l~~~p~~-~~R~~V 513 (1714)
T KOG0241|consen 445 KCYLVNLNADPALNELLVYYLK--DHTLIGLF-KSQDIQLSGLGIQPKHCVIDIES-------DGELRLTPLL-NARSCV 513 (1714)
T ss_pred ceEEEeccCCccHHHHHHHhhc--Cceeeccc-cCcceeeecCcccCccceeeecc-------CCcEEecccc-cceeee
Confidence 4445544444332 245554 33789977 46899998889999999999985 4568888874 449999
Q ss_pred CCEEcCCCceEEccCCCEEEEcCeeEEEEEec
Q psy13346 196 NGMKIAPLTYVELFEGDVIEFGLSTREYVLLH 227 (238)
Q Consensus 196 Ng~rI~~~~~~~L~~GD~I~~G~~~~~fvl~~ 227 (238)
||..+.. .+.|.+||.|-.|...| |.+..
T Consensus 514 NGs~v~~--~t~L~~GdRiLwGnnHF-FrvN~ 542 (1714)
T KOG0241|consen 514 NGSLVCS--TTQLWHGDRILWGNNHF-FRVNL 542 (1714)
T ss_pred cCceecc--ccccccCceEEecccce-EEecC
Confidence 9999886 57999999999998864 44443
No 18
>PRK15367 type III secretion system protein SsaD; Provisional
Probab=88.27 E-value=2.5 Score=40.14 Aligned_cols=86 Identities=15% Similarity=0.210 Sum_probs=63.1
Q ss_pred ceEEEEeeCCCCCceEEeecCCeEEEeeeCCcccEEeCCCcccccceEEEEEeeccCCcccceEEEEeCCCCCceeECCE
Q psy13346 119 KWRLYPFKNHQPLPIMYIHRQSAYIIGRNAKVSDILIRHCSCSNQHAVLQYRELSLNNTRVVRPYLMDLKSMNGTFVNGM 198 (238)
Q Consensus 119 ~w~L~v~kg~~~~~~~~l~~~~~~~IGR~~~~~DI~l~d~sVSr~Ha~I~~~~~~~~~~~~~~~~I~DlgS~NGT~VNg~ 198 (238)
.|+|..+.|.-.++++.|..+. +++|-. .|||.+.-+. ..-..+..+ ..++++.- +.--++|||.
T Consensus 4 ~~Klr~Lng~L~GrEl~Lp~G~-~tlG~~--gcDi~lpL~~--~~~~~L~i~--------e~gi~l~~--~~~~vwVnG~ 68 (395)
T PRK15367 4 SWKIRFLGHVLQGREVWLNEGN-LSLGEK--GCDICIPLTI--NEKIILREQ--------ADSLFVDA--GKARVRVNGR 68 (395)
T ss_pred ceeeeecCCcccCcEEecCCCc-eeecCC--CceEEEECCC--CCEEEEEEc--------CCcEEEec--CCceEEECCE
Confidence 7999999999999999999777 899986 4999986543 222333433 34666642 2356899999
Q ss_pred EcCCCceEEccCCCEEEEcCeeE
Q psy13346 199 KIAPLTYVELFEGDVIEFGLSTR 221 (238)
Q Consensus 199 rI~~~~~~~L~~GD~I~~G~~~~ 221 (238)
+-..+. .|--+-+|.+.+..+
T Consensus 69 ~~~~~~--~LPl~q~Ie~aG~~~ 89 (395)
T PRK15367 69 RFNPNK--PLPSSGVLQVAGVAI 89 (395)
T ss_pred EcCCCC--CCCCcchhhhcceEE
Confidence 998765 577788888888743
No 19
>PF13275 S4_2: S4 domain; PDB: 1P9K_A.
Probab=77.09 E-value=1.8 Score=30.79 Aligned_cols=32 Identities=25% Similarity=0.155 Sum_probs=19.2
Q ss_pred CceeECCEEcCCCceEEccCCCEEEEcCeeEEE
Q psy13346 191 NGTFVNGMKIAPLTYVELFEGDVIEFGLSTREY 223 (238)
Q Consensus 191 NGT~VNg~rI~~~~~~~L~~GD~I~~G~~~~~f 223 (238)
+..+|||+.... +...|+.||+|.|++..+..
T Consensus 33 g~V~VNGe~e~r-rg~Kl~~GD~V~~~~~~~~V 64 (65)
T PF13275_consen 33 GEVKVNGEVETR-RGKKLRPGDVVEIDGEEYRV 64 (65)
T ss_dssp HHHEETTB-----SS----SSEEEEETTEEEEE
T ss_pred CceEECCEEccc-cCCcCCCCCEEEECCEEEEE
Confidence 478999986554 35799999999998876543
No 20
>PRK11507 ribosome-associated protein; Provisional
Probab=74.71 E-value=6.3 Score=28.44 Aligned_cols=39 Identities=10% Similarity=0.175 Sum_probs=28.2
Q ss_pred cceEEEEeCCCCCceeECCEEcCCCceEEccCCCEEEEcCeeEE
Q psy13346 179 VVRPYLMDLKSMNGTFVNGMKIAPLTYVELFEGDVIEFGLSTRE 222 (238)
Q Consensus 179 ~~~~~I~DlgS~NGT~VNg~rI~~~~~~~L~~GD~I~~G~~~~~ 222 (238)
..+++|.+ +.+.|||+.-. .+...|++||+|.|.+..+.
T Consensus 29 ~AK~~I~e----g~V~VNGeve~-rRgkKl~~GD~V~~~g~~~~ 67 (70)
T PRK11507 29 QAKIAIAE----GQVKVDGAVET-RKRCKIVAGQTVSFAGHSVQ 67 (70)
T ss_pred HHHHHHHc----CceEECCEEec-ccCCCCCCCCEEEECCEEEE
Confidence 33555554 57999998544 34679999999999997543
No 21
>COG1188 Ribosome-associated heat shock protein implicated in the recycling of the 50S subunit (S4 paralog) [Translation, ribosomal structure and biogenesis]
Probab=74.19 E-value=5.3 Score=30.79 Aligned_cols=34 Identities=24% Similarity=0.266 Sum_probs=24.9
Q ss_pred ceeECCEEcCCCceEEccCCCEEEEc--CeeEEEEEec
Q psy13346 192 GTFVNGMKIAPLTYVELFEGDVIEFG--LSTREYVLLH 227 (238)
Q Consensus 192 GT~VNg~rI~~~~~~~L~~GD~I~~G--~~~~~fvl~~ 227 (238)
-+.|||++..+. ..++.||+|.|. .-.+.|.++.
T Consensus 35 rV~vNG~~aKpS--~~VK~GD~l~i~~~~~~~~v~Vl~ 70 (100)
T COG1188 35 RVKVNGQRAKPS--KEVKVGDILTIRFGNKEFTVKVLA 70 (100)
T ss_pred eEEECCEEcccc--cccCCCCEEEEEeCCcEEEEEEEe
Confidence 477999999886 599999987665 4455555544
No 22
>COG5025 Transcription factor of the Forkhead/HNF3 family [Transcription]
Probab=74.09 E-value=1.8 Score=43.31 Aligned_cols=65 Identities=14% Similarity=-0.031 Sum_probs=54.4
Q ss_pred CCCcccccceEEEEEeeccCCcccceEEEEeCCCCCceeECCEEcCCCc---eEEccCCCEEEEcCeeEEEEEec
Q psy13346 156 RHCSCSNQHAVLQYRELSLNNTRVVRPYLMDLKSMNGTFVNGMKIAPLT---YVELFEGDVIEFGLSTREYVLLH 227 (238)
Q Consensus 156 ~d~sVSr~Ha~I~~~~~~~~~~~~~~~~I~DlgS~NGT~VNg~rI~~~~---~~~L~~GD~I~~G~~~~~fvl~~ 227 (238)
....+++.|+.|+++.. .+.|+|.+.| +||..|+|.++.-+. ...|..|-.+..|+..++|.+..
T Consensus 123 ~~k~~~~~~~sIr~Nls------~~~a~~~i~g-~~g~~~~g~~~~igP~~~~~~l~~g~~~~~~~~~~~~~~p~ 190 (610)
T COG5025 123 YAKVVSRWQNSIRHNLS------LNDAFIKIEG-RNGAKVKGHFWSIGPGHETQFLKSGLRLDGGGKQMMFTLPS 190 (610)
T ss_pred cccccchhhhhhhcccc------cCceEEEEec-cCCccccceeeccCCCccceeeccccccccccccccccCcc
Confidence 44568999999999864 5689999997 999999999876543 68899999999999988888764
No 23
>COG2501 S4-like RNA binding protein [Replication, recombination, and repair]
Probab=73.71 E-value=7.9 Score=28.17 Aligned_cols=41 Identities=20% Similarity=0.229 Sum_probs=30.2
Q ss_pred ccceEEEEeCCCCCceeECCEEcCCCceEEccCCCEEEEcCeeEEE
Q psy13346 178 RVVRPYLMDLKSMNGTFVNGMKIAPLTYVELFEGDVIEFGLSTREY 223 (238)
Q Consensus 178 ~~~~~~I~DlgS~NGT~VNg~rI~~~~~~~L~~GD~I~~G~~~~~f 223 (238)
+..+|||.| +.++|||+.-.. +...|+.||+|.|.+..+..
T Consensus 28 G~AK~~i~e----g~V~vNGe~EtR-RgkKlr~gd~V~i~~~~~~v 68 (73)
T COG2501 28 GQAKAFIAE----GEVKVNGEVETR-RGKKLRDGDVVEIPGQRYQV 68 (73)
T ss_pred HHHHHHHHC----CeEEECCeeeec-cCCEeecCCEEEECCEEEEE
Confidence 344666654 479999986554 36799999999999875443
No 24
>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=71.30 E-value=4.8 Score=27.31 Aligned_cols=26 Identities=38% Similarity=0.437 Sum_probs=20.3
Q ss_pred CCceeECCEEcCCCceEEccCCCEEEE
Q psy13346 190 MNGTFVNGMKIAPLTYVELFEGDVIEF 216 (238)
Q Consensus 190 ~NGT~VNg~rI~~~~~~~L~~GD~I~~ 216 (238)
.+..+|||+.+... .+.|..||.|.|
T Consensus 33 ~G~V~VNg~~~~~~-~~~l~~Gd~v~i 58 (59)
T TIGR02988 33 ENEVLVNGELENRR-GKKLYPGDVIEI 58 (59)
T ss_pred cCCEEECCEEccCC-CCCCCCCCEEEe
Confidence 45789999988421 369999999986
No 25
>PRK01777 hypothetical protein; Validated
Probab=68.64 E-value=6 Score=30.08 Aligned_cols=29 Identities=24% Similarity=0.147 Sum_probs=23.9
Q ss_pred eCCCCCceeECCEEcCCCceEEccCCCEEEEc
Q psy13346 186 DLKSMNGTFVNGMKIAPLTYVELFEGDVIEFG 217 (238)
Q Consensus 186 DlgS~NGT~VNg~rI~~~~~~~L~~GD~I~~G 217 (238)
|+ +.+-..|||+.+... ..|++||.|.|=
T Consensus 46 ~~-~~~~vgI~Gk~v~~d--~~L~dGDRVeIy 74 (95)
T PRK01777 46 DL-AKNKVGIYSRPAKLT--DVLRDGDRVEIY 74 (95)
T ss_pred cc-ccceEEEeCeECCCC--CcCCCCCEEEEe
Confidence 55 577888999999875 599999999873
No 26
>smart00363 S4 S4 RNA-binding domain.
Probab=67.94 E-value=9.2 Score=24.37 Aligned_cols=27 Identities=33% Similarity=0.333 Sum_probs=21.4
Q ss_pred CCceeECCEEc-CCCceEEccCCCEEEEcC
Q psy13346 190 MNGTFVNGMKI-APLTYVELFEGDVIEFGL 218 (238)
Q Consensus 190 ~NGT~VNg~rI-~~~~~~~L~~GD~I~~G~ 218 (238)
.++.+|||+.+ .+ ...|..||.|.+-.
T Consensus 25 ~g~i~vng~~~~~~--~~~l~~gd~i~~~~ 52 (60)
T smart00363 25 QGRVKVNGKKVTKP--SYIVKPGDVISVRG 52 (60)
T ss_pred cCCEEECCEEecCC--CeEeCCCCEEEEcc
Confidence 45789999998 54 36889999998864
No 27
>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=67.84 E-value=4.2 Score=26.17 Aligned_cols=23 Identities=35% Similarity=0.391 Sum_probs=18.9
Q ss_pred CCceeECCEEcC-CCceEEccCCCEE
Q psy13346 190 MNGTFVNGMKIA-PLTYVELFEGDVI 214 (238)
Q Consensus 190 ~NGT~VNg~rI~-~~~~~~L~~GD~I 214 (238)
.++.+|||+.+. ++ +.+..||+|
T Consensus 25 ~g~V~VNg~~v~~~~--~~v~~~d~I 48 (48)
T PF01479_consen 25 QGRVKVNGKVVKDPS--YIVKPGDVI 48 (48)
T ss_dssp TTTEEETTEEESSTT--SBESTTEEE
T ss_pred CCEEEECCEEEcCCC--CCCCCcCCC
Confidence 468999999998 54 588899886
No 28
>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=58.90 E-value=9 Score=26.27 Aligned_cols=24 Identities=33% Similarity=0.355 Sum_probs=18.6
Q ss_pred CceeECCEEcCCCceEEccCCCEEEE
Q psy13346 191 NGTFVNGMKIAPLTYVELFEGDVIEF 216 (238)
Q Consensus 191 NGT~VNg~rI~~~~~~~L~~GD~I~~ 216 (238)
-+..|||+++.-. ++|.+||+|+|
T Consensus 35 ~~A~Vng~~vdl~--~~L~~~d~v~i 58 (60)
T PF02824_consen 35 VAAKVNGQLVDLD--HPLEDGDVVEI 58 (60)
T ss_dssp EEEEETTEEEETT--SBB-SSEEEEE
T ss_pred eEEEEcCEECCCC--CCcCCCCEEEE
Confidence 3566899988875 59999999986
No 29
>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=56.91 E-value=18 Score=32.66 Aligned_cols=38 Identities=24% Similarity=0.342 Sum_probs=28.0
Q ss_pred CCCCceeECCEEcCCCceEEccCCCEEEEcCe---eEEEEE
Q psy13346 188 KSMNGTFVNGMKIAPLTYVELFEGDVIEFGLS---TREYVL 225 (238)
Q Consensus 188 gS~NGT~VNg~rI~~~~~~~L~~GD~I~~G~~---~~~fvl 225 (238)
|..-...|||+.+...+.+.++.||+|+||.. .+.|+-
T Consensus 52 Ga~~~~~lng~~~~~~~~~~v~~Gd~L~~~~~~~G~r~YLA 92 (271)
T PF02626_consen 52 GADFEATLNGKPVPMWQPFLVKAGDVLKFGPPRSGARAYLA 92 (271)
T ss_dssp ESCEEEEETTEEE-TTSEEEE-TT-EEEEEEESSECEEEEE
T ss_pred CCCCceEECCEEccCCEEEEECCCCEEEecCCCCccEEEEE
Confidence 45667788999999999999999999999964 444543
No 30
>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=55.61 E-value=12 Score=27.15 Aligned_cols=26 Identities=31% Similarity=0.277 Sum_probs=19.2
Q ss_pred CceeECCEEcCCCceEEccCCCEEEE
Q psy13346 191 NGTFVNGMKIAPLTYVELFEGDVIEF 216 (238)
Q Consensus 191 NGT~VNg~rI~~~~~~~L~~GD~I~~ 216 (238)
.-.+|||+.+.......|++||.|.|
T Consensus 56 ~~v~vN~~~v~~~~~~~l~dgdev~i 81 (88)
T TIGR01687 56 VIILVNGRNVDWGLGTELKDGDVVAI 81 (88)
T ss_pred EEEEECCEecCccCCCCCCCCCEEEE
Confidence 34667888776554468999999876
No 31
>cd01764 Urm1 Urm1-like ubuitin domain. Urm1 (Ubiquitin-Related Modifier1) The Urm1 fold, like those of two closely related proteins MoaD (molybdopterin synthase) and ThiS (sulfur carrier protein), is similar to that of ubiquitin although there is little or no sequence similarity. The C-terminal glycines of Urm1 are conjugated to an E1-like protein Uba4 as part of a novel conjugation system in yeast. The Urm1 fold is found only in eukaryotes.
Probab=53.96 E-value=11 Score=28.39 Aligned_cols=24 Identities=21% Similarity=0.228 Sum_probs=18.9
Q ss_pred eeECCEEcC--CCceEEccCCCEEEE
Q psy13346 193 TFVNGMKIA--PLTYVELFEGDVIEF 216 (238)
Q Consensus 193 T~VNg~rI~--~~~~~~L~~GD~I~~ 216 (238)
.+|||+.+. .+..+.|++||.|.|
T Consensus 62 VlvN~~di~~l~g~~t~L~dgD~v~i 87 (94)
T cd01764 62 VLINDTDWELLGEEDYILEDGDHVVF 87 (94)
T ss_pred EEECCccccccCCcccCCCCcCEEEE
Confidence 567888764 455689999999987
No 32
>cd00165 S4 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized functional similarity between these three protein classes.
Probab=53.41 E-value=19 Score=23.60 Aligned_cols=28 Identities=32% Similarity=0.417 Sum_probs=22.0
Q ss_pred CCceeECCEEc-CCCceEEccCCCEEEEcCe
Q psy13346 190 MNGTFVNGMKI-APLTYVELFEGDVIEFGLS 219 (238)
Q Consensus 190 ~NGT~VNg~rI-~~~~~~~L~~GD~I~~G~~ 219 (238)
.++.+|||+.+ .++ ..|..||.|.+...
T Consensus 25 ~g~V~vn~~~~~~~~--~~v~~~d~i~i~~~ 53 (70)
T cd00165 25 HGHVLVNGKVVTKPS--YKVKPGDVIEVDGK 53 (70)
T ss_pred cCCEEECCEEccCCc--cCcCCCCEEEEcCC
Confidence 56889999988 443 58889999988753
No 33
>smart00797 AHS2 Allophanate hydrolase subunit 2. This domain represents subunit 2 of allophanate hydrolase (AHS2).
Probab=53.37 E-value=35 Score=30.88 Aligned_cols=33 Identities=15% Similarity=0.237 Sum_probs=28.0
Q ss_pred CCCCCceeECCEEcCCCceEEccCCCEEEEcCe
Q psy13346 187 LKSMNGTFVNGMKIAPLTYVELFEGDVIEFGLS 219 (238)
Q Consensus 187 lgS~NGT~VNg~rI~~~~~~~L~~GD~I~~G~~ 219 (238)
.|-.....|||+.+...+.+.++.||+|+||..
T Consensus 51 tGA~~~~~ln~~~~~~~~~~~v~~Gd~L~~g~~ 83 (280)
T smart00797 51 TGADFPATLDGQPVPPWKPFLVRAGQVLSLGAP 83 (280)
T ss_pred eCCCCeeeECCEEcCCCeEEEECCCCEEEeCCC
Confidence 355667779999999988999999999999964
No 34
>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=52.37 E-value=15 Score=25.81 Aligned_cols=25 Identities=24% Similarity=0.211 Sum_probs=19.3
Q ss_pred CCceeECCEEcCCCceEEccCCCEEEE
Q psy13346 190 MNGTFVNGMKIAPLTYVELFEGDVIEF 216 (238)
Q Consensus 190 ~NGT~VNg~rI~~~~~~~L~~GD~I~~ 216 (238)
..-.+|||+.+.. ...|++||.|.|
T Consensus 49 ~~~v~vNg~~v~~--~~~l~~gD~v~i 73 (80)
T cd00754 49 RVRIAVNGEYVRL--DTPLKDGDEVAI 73 (80)
T ss_pred cEEEEECCeEcCC--CcccCCCCEEEE
Confidence 3457788888874 468999999976
No 35
>PRK06437 hypothetical protein; Provisional
Probab=49.22 E-value=24 Score=24.74 Aligned_cols=24 Identities=17% Similarity=0.108 Sum_probs=18.5
Q ss_pred CceeECCEEcCCCceEEccCCCEEEE
Q psy13346 191 NGTFVNGMKIAPLTYVELFEGDVIEF 216 (238)
Q Consensus 191 NGT~VNg~rI~~~~~~~L~~GD~I~~ 216 (238)
-...+||+.+.. .+.|++||.|.|
T Consensus 37 vaV~vNg~iv~~--~~~L~dgD~Vei 60 (67)
T PRK06437 37 YVVIVNGSPVLE--DHNVKKEDDVLI 60 (67)
T ss_pred EEEEECCEECCC--ceEcCCCCEEEE
Confidence 345678888874 579999999976
No 36
>PRK10348 ribosome-associated heat shock protein Hsp15; Provisional
Probab=47.93 E-value=31 Score=27.89 Aligned_cols=38 Identities=13% Similarity=0.121 Sum_probs=26.7
Q ss_pred CCceeECCEEcCCCceEEccCCCEEEE--cCeeEEEEEecCC
Q psy13346 190 MNGTFVNGMKIAPLTYVELFEGDVIEF--GLSTREYVLLHQN 229 (238)
Q Consensus 190 ~NGT~VNg~rI~~~~~~~L~~GD~I~~--G~~~~~fvl~~~~ 229 (238)
..-++|||++..++ ..+..||+|.| |...+.+.++...
T Consensus 33 ~G~V~vnG~~~Kps--~~V~~gd~l~v~~~~~~~~v~Vl~l~ 72 (133)
T PRK10348 33 GGKVHYNGQRSKPS--KIVELNATLTLRQGNDERTVIVKAIT 72 (133)
T ss_pred CCCEEECCEECCCC--CccCCCCEEEEEECCEEEEEEEeECc
Confidence 35688999997776 57789998765 5556666665443
No 37
>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=47.57 E-value=17 Score=26.33 Aligned_cols=20 Identities=15% Similarity=0.140 Sum_probs=17.2
Q ss_pred ECCEEcCCCceEEccCCCEEEE
Q psy13346 195 VNGMKIAPLTYVELFEGDVIEF 216 (238)
Q Consensus 195 VNg~rI~~~~~~~L~~GD~I~~ 216 (238)
++|+++... +.|++||+|+|
T Consensus 54 ~~gq~Vgl~--~~L~d~DvVeI 73 (75)
T cd01666 54 HSPQRVGLD--HVLEDEDVVQI 73 (75)
T ss_pred CCCeECCCC--CEecCCCEEEE
Confidence 588999875 69999999987
No 38
>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=45.93 E-value=46 Score=30.70 Aligned_cols=36 Identities=14% Similarity=0.201 Sum_probs=29.0
Q ss_pred EEeCCCCCceeECCEEcCC-CceEEccCCCEEEEcCe
Q psy13346 184 LMDLKSMNGTFVNGMKIAP-LTYVELFEGDVIEFGLS 219 (238)
Q Consensus 184 I~DlgS~NGT~VNg~rI~~-~~~~~L~~GD~I~~G~~ 219 (238)
|.=.|..-...|||+++.. .+.+.++.||+|+||..
T Consensus 70 iAltGA~~~~~lng~~~~~~~~~~~v~~Gd~L~~g~~ 106 (314)
T TIGR00724 70 FAVTGADTDLCLNDGQVIPQWRPYEVKRGQILSLGRL 106 (314)
T ss_pred EEEeCCCCcceeCCcccCCCceEEEECCCCEEEeCCC
Confidence 3334556788999999976 77899999999999964
No 39
>PF14451 Ub-Mut7C: Mut7-C ubiquitin
Probab=45.36 E-value=26 Score=25.74 Aligned_cols=24 Identities=25% Similarity=0.206 Sum_probs=19.8
Q ss_pred ceeECCEEcCCCceEEccCCCEEEEc
Q psy13346 192 GTFVNGMKIAPLTYVELFEGDVIEFG 217 (238)
Q Consensus 192 GT~VNg~rI~~~~~~~L~~GD~I~~G 217 (238)
-.+|||+.+... +.|++||.|.+=
T Consensus 51 ~i~vNG~~v~~~--~~~~~Gd~v~V~ 74 (81)
T PF14451_consen 51 LILVNGRPVDFD--YRLKDGDRVAVY 74 (81)
T ss_pred EEEECCEECCCc--ccCCCCCEEEEE
Confidence 367899999875 799999999874
No 40
>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=45.08 E-value=23 Score=24.28 Aligned_cols=23 Identities=39% Similarity=0.355 Sum_probs=16.6
Q ss_pred eECCEEcCCCc--eEEccCCCEEEE
Q psy13346 194 FVNGMKIAPLT--YVELFEGDVIEF 216 (238)
Q Consensus 194 ~VNg~rI~~~~--~~~L~~GD~I~~ 216 (238)
.|||+-+.+.. .+.|++||.|.|
T Consensus 33 ~vN~~iv~~~~~~~~~L~~gD~vei 57 (64)
T TIGR01683 33 AVNGEIVPRSEWDDTILKEGDRIEI 57 (64)
T ss_pred EECCEEcCHHHcCceecCCCCEEEE
Confidence 35777776443 368999999876
No 41
>COG1984 DUR1 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]
Probab=44.98 E-value=58 Score=30.13 Aligned_cols=50 Identities=10% Similarity=0.158 Sum_probs=37.5
Q ss_pred cccceEEEEEeeccCCcccceEEEEeCCCCCceeECCEEcCCCceEEccCCCEEEEcCe
Q psy13346 161 SNQHAVLQYRELSLNNTRVVRPYLMDLKSMNGTFVNGMKIAPLTYVELFEGDVIEFGLS 219 (238)
Q Consensus 161 Sr~Ha~I~~~~~~~~~~~~~~~~I~DlgS~NGT~VNg~rI~~~~~~~L~~GD~I~~G~~ 219 (238)
.--...|+|.. ..| |.=-|......|||+.+.....+.++.||+|+||..
T Consensus 55 tl~g~t~~f~~--------~~~-ialTGad~~a~ld~~~i~~~~~~~vk~Gq~L~~g~~ 104 (314)
T COG1984 55 TLGGPTLEFTS--------DAL-IALTGADCEATLDGQEVPPWSPYLVKAGQTLKLGRP 104 (314)
T ss_pred ecCCeEEEEec--------CcE-EEEeCCcccceECCEEcCCCceEEccCCCEEEecCC
Confidence 33455677763 233 333356777899999999999999999999999964
No 42
>PF09269 DUF1967: Domain of unknown function (DUF1967); InterPro: IPR015349 The Obg family comprises a group of ancient P-loop small G proteins (GTPases) belonging to the TRAFAC (for translation factors) class and can be subdivided into several distinct protein subfamilies []. OBG GTPases have been found in both prokaryotes and eukaryotes []. The structure of the OBG GTPase from Thermus thermophilus has been determined []. This entry represents a C-terminal domain found in certain OBG GTPases. This domain contains a four-stranded beta sheet and three alpha helices flanked by an additional beta strand. It is predominantly found in the bacterial GTP-binding protein Obg, and is functionally uncharacterised. ; GO: 0000166 nucleotide binding; PDB: 1UDX_A.
Probab=44.32 E-value=20 Score=25.46 Aligned_cols=16 Identities=38% Similarity=0.495 Sum_probs=11.0
Q ss_pred ccCCCEEEEcCeeEEE
Q psy13346 208 LFEGDVIEFGLSTREY 223 (238)
Q Consensus 208 L~~GD~I~~G~~~~~f 223 (238)
+++||+|.||+..+.|
T Consensus 54 ~~~GD~V~Ig~~eFe~ 69 (69)
T PF09269_consen 54 AKEGDTVRIGDYEFEY 69 (69)
T ss_dssp --TT-EEEETTEEEE-
T ss_pred CCCCCEEEEcCEEEEC
Confidence 6799999999988775
No 43
>PF11012 DUF2850: Protein of unknown function (DUF2850); InterPro: IPR021271 This family of proteins with unknown function appear to be restricted to Vibrionaceae.
Probab=43.51 E-value=50 Score=24.37 Aligned_cols=38 Identities=29% Similarity=0.406 Sum_probs=28.1
Q ss_pred CCCceeECCEEcCCCceEEccCCCE--EEEcCeeEEEEEecCC
Q psy13346 189 SMNGTFVNGMKIAPLTYVELFEGDV--IEFGLSTREYVLLHQN 229 (238)
Q Consensus 189 S~NGT~VNg~rI~~~~~~~L~~GD~--I~~G~~~~~fvl~~~~ 229 (238)
+.+|+++||..|.-. -=-+|+. ++.|+....|.+....
T Consensus 22 ~~~GV~~ngrlV~T~---F~fDG~~l~~~~G~~~~~y~~~~~~ 61 (79)
T PF11012_consen 22 NESGVFRNGRLVATS---FEFDGKTLEYRTGSGTYRYQISGEN 61 (79)
T ss_pred CCCcEEECCCEEeeE---EEECCCEEEEEECCeEEEEEEcCCC
Confidence 689999999988753 3345665 4668888888887764
No 44
>PRK06488 sulfur carrier protein ThiS; Validated
Probab=43.49 E-value=19 Score=24.77 Aligned_cols=23 Identities=39% Similarity=0.418 Sum_probs=16.6
Q ss_pred eECCEEcCCCc--eEEccCCCEEEE
Q psy13346 194 FVNGMKIAPLT--YVELFEGDVIEF 216 (238)
Q Consensus 194 ~VNg~rI~~~~--~~~L~~GD~I~~ 216 (238)
-||++-+++.. .+.|++||.|.|
T Consensus 34 avN~~iv~~~~~~~~~L~dgD~Iei 58 (65)
T PRK06488 34 AVNGELVHKEARAQFVLHEGDRIEI 58 (65)
T ss_pred EECCEEcCHHHcCccccCCCCEEEE
Confidence 45777666532 468999999976
No 45
>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=42.98 E-value=29 Score=23.82 Aligned_cols=25 Identities=28% Similarity=0.360 Sum_probs=17.9
Q ss_pred ceeECCEEcCCC--ceEEccCCCEEEE
Q psy13346 192 GTFVNGMKIAPL--TYVELFEGDVIEF 216 (238)
Q Consensus 192 GT~VNg~rI~~~--~~~~L~~GD~I~~ 216 (238)
.+.|||+.+... ....|++||.|.|
T Consensus 32 ~V~vNg~~v~~~~~~~~~L~~gD~V~i 58 (65)
T cd00565 32 AVALNGEIVPRSEWASTPLQDGDRIEI 58 (65)
T ss_pred EEEECCEEcCHHHcCceecCCCCEEEE
Confidence 345788777653 2368999999976
No 46
>PF14478 DUF4430: Domain of unknown function (DUF4430); PDB: 3U7Z_B 2BB5_A.
Probab=41.23 E-value=24 Score=24.62 Aligned_cols=22 Identities=32% Similarity=0.338 Sum_probs=11.2
Q ss_pred ECCEEcCCC-ceEEccCCCEEEE
Q psy13346 195 VNGMKIAPL-TYVELFEGDVIEF 216 (238)
Q Consensus 195 VNg~rI~~~-~~~~L~~GD~I~~ 216 (238)
|||+....+ ..+.|++||.|.|
T Consensus 45 vNG~~~~~ga~~~~l~~GD~i~~ 67 (68)
T PF14478_consen 45 VNGESANVGAGSYKLKDGDKITW 67 (68)
T ss_dssp ETTEE-SS-CCC-B--TTEEEEE
T ss_pred ECCEEhhcCcceeEeCCCCEEEe
Confidence 455544332 2579999999986
No 47
>PRK06944 sulfur carrier protein ThiS; Provisional
Probab=40.54 E-value=31 Score=23.47 Aligned_cols=24 Identities=29% Similarity=0.326 Sum_probs=16.8
Q ss_pred eeECCEEcCCC--ceEEccCCCEEEE
Q psy13346 193 TFVNGMKIAPL--TYVELFEGDVIEF 216 (238)
Q Consensus 193 T~VNg~rI~~~--~~~~L~~GD~I~~ 216 (238)
..|||+.+... ....|++||.|.|
T Consensus 33 v~vN~~~v~~~~~~~~~L~~gD~vei 58 (65)
T PRK06944 33 VAVNGDFVARTQHAARALAAGDRLDL 58 (65)
T ss_pred EEECCEEcCchhcccccCCCCCEEEE
Confidence 35677766532 2468999999976
No 48
>TIGR03595 Obg_CgtA_exten Obg family GTPase CgtA, C-terminal extension. CgtA (see model TIGR02729) is a broadly conserved member of the obg family of GTPases associated with ribosome maturation. This model represents a unique C-terminal domain found in some but not all sequences of CgtA. This region is preceded, and may be followed, by a region of low-complexity sequence.
Probab=39.35 E-value=24 Score=25.01 Aligned_cols=16 Identities=25% Similarity=0.380 Sum_probs=13.7
Q ss_pred ccCCCEEEEcCeeEEE
Q psy13346 208 LFEGDVIEFGLSTREY 223 (238)
Q Consensus 208 L~~GD~I~~G~~~~~f 223 (238)
+++||+|.||+..+.|
T Consensus 54 ~~~GD~V~Ig~~eFe~ 69 (69)
T TIGR03595 54 AKDGDTVRIGDFEFEW 69 (69)
T ss_pred CCCCCEEEEccEEEeC
Confidence 6899999999987765
No 49
>COG5131 URM1 Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones]
Probab=38.00 E-value=23 Score=26.84 Aligned_cols=40 Identities=20% Similarity=0.217 Sum_probs=28.2
Q ss_pred cceEEEEeCCCCCc--eeECCEE--cCCCceEEccCCCEEEEcC
Q psy13346 179 VVRPYLMDLKSMNG--TFVNGMK--IAPLTYVELFEGDVIEFGL 218 (238)
Q Consensus 179 ~~~~~I~DlgS~NG--T~VNg~r--I~~~~~~~L~~GD~I~~G~ 218 (238)
...+++.+-.=+.| +.||++. |...+.+.|.+||.|.|=.
T Consensus 48 ~~sifie~g~lrpGiI~LINd~DWeLleke~y~ledgDiIvfis 91 (96)
T COG5131 48 RDSIFIEHGELRPGIICLINDMDWELLEKERYPLEDGDIIVFIS 91 (96)
T ss_pred cceeeecCCCCcccEEEEEcCccHhhhhcccccCCCCCEEEEEe
Confidence 34677776555677 4568884 4455679999999998743
No 50
>PRK07440 hypothetical protein; Provisional
Probab=36.20 E-value=32 Score=24.36 Aligned_cols=22 Identities=23% Similarity=0.273 Sum_probs=15.8
Q ss_pred ECCEEcCCCc--eEEccCCCEEEE
Q psy13346 195 VNGMKIAPLT--YVELFEGDVIEF 216 (238)
Q Consensus 195 VNg~rI~~~~--~~~L~~GD~I~~ 216 (238)
+||+-|++.. .+.|++||.|.|
T Consensus 40 ~N~~iv~r~~w~~~~L~~gD~IEI 63 (70)
T PRK07440 40 YNGEILHRQFWEQTQVQPGDRLEI 63 (70)
T ss_pred ECCEEeCHHHcCceecCCCCEEEE
Confidence 4777666432 378999999976
No 51
>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=35.59 E-value=30 Score=23.97 Aligned_cols=28 Identities=21% Similarity=0.182 Sum_probs=19.9
Q ss_pred CCCceeECCEEcCC-CceEEccCCCEEEE
Q psy13346 189 SMNGTFVNGMKIAP-LTYVELFEGDVIEF 216 (238)
Q Consensus 189 S~NGT~VNg~rI~~-~~~~~L~~GD~I~~ 216 (238)
..--.+|||+.+.. .....|++||.|.|
T Consensus 42 ~~~~v~vN~~~v~~~~~~~~l~~gD~V~i 70 (77)
T PF02597_consen 42 DRVAVAVNGEIVPDDGLDTPLKDGDEVAI 70 (77)
T ss_dssp TTEEEEETTEEEGGGTTTSBEETTEEEEE
T ss_pred ccEEEEECCEEcCCccCCcCcCCCCEEEE
Confidence 34456778887776 22369999999876
No 52
>PF08804 gp32: gp32 DNA binding protein like; InterPro: IPR012339 This entry is represented by the Bacteriophage T4, Gp32, single-stranded DNA-binding protein. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. Gp32 is essential for T4 DNA replication, recombination and repair, acting to stimulate replisome processing and accuracy through its binding to ssDNA as the replication fork advances. The crystal structure of Gp32 shows an ssDNA binding cleft comprised of regions from three structural subdomains, through which ssDNA can slide freely []. The structure of Gp32 is similar to other phage ssDNA-binding proteins such as Gp2.5 from bacteriophage T4, and gene V protein, both of which have a nucleic acid-binding OB-type fold. However, Gp32 contains a zinc-finger subdomain at residues 63-111 that is not found in the other two phage proteins.; GO: 0003697 single-stranded DNA binding; PDB: 1GPC_A 2A1K_B 2ATQ_B.
Probab=33.95 E-value=28 Score=26.50 Aligned_cols=16 Identities=19% Similarity=0.245 Sum_probs=13.3
Q ss_pred cceEEEEeCCCCCcee
Q psy13346 179 VVRPYLMDLKSMNGTF 194 (238)
Q Consensus 179 ~~~~~I~DlgS~NGT~ 194 (238)
.++|||++.-|+.|.|
T Consensus 43 ~g~WyiEN~~sT~G~~ 58 (94)
T PF08804_consen 43 NGGWYIENCPSTHGDY 58 (94)
T ss_dssp TTEEEEEEEGGGGT-S
T ss_pred CCcEEEecCccccCCC
Confidence 5789999999999986
No 53
>cd01669 TGS_Ygr210_C TGS_Ygr210_C: The C-terminal TGS domain of Ygr210 GTP-binding protein which is a member of Obg-like family of GTPases, and present in archaea. Several Obg-like family members possess a C-terminal RNA-binding domain, the TGS domain, which is also present in threonyl-tRNA synthetase and in bacterial guanosine polyphosphatase SpoT. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information on the function of the TGS domain, but its presence in two types of regulatory proteins (the GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role.
Probab=31.27 E-value=50 Score=23.89 Aligned_cols=19 Identities=32% Similarity=0.424 Sum_probs=15.7
Q ss_pred CCEEcCCCceEEccCCCEEEE
Q psy13346 196 NGMKIAPLTYVELFEGDVIEF 216 (238)
Q Consensus 196 Ng~rI~~~~~~~L~~GD~I~~ 216 (238)
|++++... +.|++||+|+|
T Consensus 56 ~~~~vg~~--~~L~dgDvV~I 74 (76)
T cd01669 56 TGRRVGED--YELKHRDVIKI 74 (76)
T ss_pred CCEEeCCC--cEecCCCEEEE
Confidence 67777764 79999999986
No 54
>PRK05659 sulfur carrier protein ThiS; Validated
Probab=30.89 E-value=32 Score=23.54 Aligned_cols=12 Identities=50% Similarity=0.692 Sum_probs=10.1
Q ss_pred eEEccCCCEEEE
Q psy13346 205 YVELFEGDVIEF 216 (238)
Q Consensus 205 ~~~L~~GD~I~~ 216 (238)
.+.|++||.|.|
T Consensus 48 ~~~l~~gD~vei 59 (66)
T PRK05659 48 STALREGDVVEI 59 (66)
T ss_pred cccCCCCCEEEE
Confidence 368999999976
No 55
>PRK08364 sulfur carrier protein ThiS; Provisional
Probab=30.73 E-value=62 Score=22.67 Aligned_cols=20 Identities=30% Similarity=0.338 Sum_probs=15.2
Q ss_pred ECCEEcCCCceEEccCCCEEEE
Q psy13346 195 VNGMKIAPLTYVELFEGDVIEF 216 (238)
Q Consensus 195 VNg~rI~~~~~~~L~~GD~I~~ 216 (238)
+||+.+.. ...|++||.|.|
T Consensus 44 vNg~iv~~--~~~l~~gD~Vei 63 (70)
T PRK08364 44 VNGKVALE--DDPVKDGDYVEV 63 (70)
T ss_pred ECCEECCC--CcCcCCCCEEEE
Confidence 57776655 368999999876
No 56
>PRK08053 sulfur carrier protein ThiS; Provisional
Probab=30.38 E-value=46 Score=22.97 Aligned_cols=23 Identities=22% Similarity=0.150 Sum_probs=15.7
Q ss_pred eECCEEcCCC--ceEEccCCCEEEE
Q psy13346 194 FVNGMKIAPL--TYVELFEGDVIEF 216 (238)
Q Consensus 194 ~VNg~rI~~~--~~~~L~~GD~I~~ 216 (238)
-||++-|++. ..+.|++||.|.|
T Consensus 35 avN~~iv~r~~w~~~~L~~gD~Iei 59 (66)
T PRK08053 35 AINQQIIPREQWAQHIVQDGDQILL 59 (66)
T ss_pred EECCEEeChHHcCccccCCCCEEEE
Confidence 3566666543 2357999999976
No 57
>PRK07696 sulfur carrier protein ThiS; Provisional
Probab=29.41 E-value=59 Score=22.67 Aligned_cols=23 Identities=26% Similarity=0.248 Sum_probs=16.4
Q ss_pred eECCEEcCCCc--eEEccCCCEEEE
Q psy13346 194 FVNGMKIAPLT--YVELFEGDVIEF 216 (238)
Q Consensus 194 ~VNg~rI~~~~--~~~L~~GD~I~~ 216 (238)
-+|++-|++.. .+.|++||.|.|
T Consensus 36 ~vN~~iv~r~~w~~~~L~~gD~iEI 60 (67)
T PRK07696 36 ERNKDILQKDDHTDTSVFDGDQIEI 60 (67)
T ss_pred EECCEEeCHHHcCceecCCCCEEEE
Confidence 35776666542 378999999876
No 58
>PLN02799 Molybdopterin synthase sulfur carrier subunit
Probab=29.31 E-value=66 Score=22.93 Aligned_cols=22 Identities=18% Similarity=0.175 Sum_probs=16.7
Q ss_pred eeECCEEcCCCceEEccCCCEEEE
Q psy13346 193 TFVNGMKIAPLTYVELFEGDVIEF 216 (238)
Q Consensus 193 T~VNg~rI~~~~~~~L~~GD~I~~ 216 (238)
..||++.+.. ...|++||.|.|
T Consensus 54 vavN~~~v~~--~~~l~dgDeVai 75 (82)
T PLN02799 54 LALNEEYTTE--SAALKDGDELAI 75 (82)
T ss_pred EEECCEEcCC--CcCcCCCCEEEE
Confidence 5577777654 468999999977
No 59
>TIGR02712 urea_carbox urea carboxylase. Members of this family are ATP-dependent urea carboxylase, including characterized members from Oleomonas sagaranensis (alpha class Proteobacterium) and yeasts such as Saccharomyces cerevisiae. The allophanate hydrolase domain of the yeast enzyme is not included in this model and is represented by an adjacent gene in Oleomonas sagaranensis. The fusion of urea carboxylase and allophanate hydrolase is designated urea amidolyase. The enzyme from Oleomonas sagaranensis was shown to be highly active on acetamide and formamide as well as urea.
Probab=28.61 E-value=1.4e+02 Score=32.55 Aligned_cols=43 Identities=12% Similarity=0.244 Sum_probs=34.1
Q ss_pred EEeCCCCCceeECCEEcCCCceEEccCCCEEEEcCee----EEEEEe
Q psy13346 184 LMDLKSMNGTFVNGMKIAPLTYVELFEGDVIEFGLST----REYVLL 226 (238)
Q Consensus 184 I~DlgS~NGT~VNg~rI~~~~~~~L~~GD~I~~G~~~----~~fvl~ 226 (238)
|.=.|..-...|||+.+...+.+.++.||+|+||... +.|+-.
T Consensus 519 ialtGa~~~~~l~g~~v~~~~~~~v~~G~~L~~g~~~~~G~r~Ylav 565 (1201)
T TIGR02712 519 IAITGAPAPATLDGQPVPQWKPITVKAGSTLSIGKIAGSGCRTYLAI 565 (1201)
T ss_pred EEEeCCCCcceECCEEcCCCeEEEECCCCEEEecCCCcCceEEEEEe
Confidence 3334567778999999999999999999999999654 556544
No 60
>PRK11092 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional
Probab=27.83 E-value=53 Score=33.66 Aligned_cols=26 Identities=19% Similarity=0.128 Sum_probs=22.1
Q ss_pred CCceeECCEEcCCCceEEccCCCEEEEc
Q psy13346 190 MNGTFVNGMKIAPLTYVELFEGDVIEFG 217 (238)
Q Consensus 190 ~NGT~VNg~rI~~~~~~~L~~GD~I~~G 217 (238)
.-|..|||+.++-. +.|++||+|.|=
T Consensus 421 c~gAkVNg~~vpL~--~~L~~Gd~VeIi 446 (702)
T PRK11092 421 CVGARVDRQPYPLS--QPLTSGQTVEII 446 (702)
T ss_pred eEEEEECCEECCCC--ccCCCCCEEEEE
Confidence 46889999988875 699999999874
No 61
>TIGR01682 moaD molybdopterin converting factor, subunit 1, non-archaeal. The C-terminal Gly-Gly of this model is critical to function.
Probab=27.60 E-value=72 Score=22.63 Aligned_cols=23 Identities=30% Similarity=0.263 Sum_probs=17.6
Q ss_pred ceeECCEEcCCCceEEccCCCEEEE
Q psy13346 192 GTFVNGMKIAPLTYVELFEGDVIEF 216 (238)
Q Consensus 192 GT~VNg~rI~~~~~~~L~~GD~I~~ 216 (238)
-.+||++.+.. ...|++||.|.|
T Consensus 51 ~v~vn~~~v~~--~~~l~dgDevai 73 (80)
T TIGR01682 51 MVAVNEEYVTD--DALLNEGDEVAF 73 (80)
T ss_pred EEEECCEEcCC--CcCcCCCCEEEE
Confidence 36678877765 469999999976
No 62
>PF04710 Pellino: Pellino; InterPro: IPR006800 Pellino is involved in Toll-like signalling pathways, and associates with the kinase domain of the Pelle Ser/Thr kinase [, , ].; PDB: 3EGB_B 3EGA_A.
Probab=27.53 E-value=2.3e+02 Score=27.22 Aligned_cols=34 Identities=15% Similarity=0.236 Sum_probs=17.8
Q ss_pred CeEEEeeeCC-cccEEeCC---------------CcccccceEEEEEeec
Q psy13346 140 SAYIIGRNAK-VSDILIRH---------------CSCSNQHAVLQYRELS 173 (238)
Q Consensus 140 ~~~~IGR~~~-~~DI~l~d---------------~sVSr~Ha~I~~~~~~ 173 (238)
+.+-|||+.+ ..|+++-| .+|||.=|+|..+..+
T Consensus 96 DMFQIGRSte~~IDFvV~dt~~G~~~~~~~~~~qStISRfACRI~~dR~p 145 (416)
T PF04710_consen 96 DMFQIGRSTESPIDFVVMDTVPGGQDNEDTQPTQSTISRFACRILCDRSP 145 (416)
T ss_dssp EEEEEES--STT-SEE---------------EEE--S-TT-EEEEEESST
T ss_pred chhhhccCCCCCcCEEEeCCCCCCCcCCCCCccccchhheeEEEEeccCC
Confidence 4578999843 25666643 2599999999988643
No 63
>COG2104 ThiS Sulfur transfer protein involved in thiamine biosynthesis [Coenzyme metabolism]
Probab=27.22 E-value=64 Score=22.91 Aligned_cols=23 Identities=39% Similarity=0.352 Sum_probs=15.9
Q ss_pred eECCEEcCCC--ceEEccCCCEEEE
Q psy13346 194 FVNGMKIAPL--TYVELFEGDVIEF 216 (238)
Q Consensus 194 ~VNg~rI~~~--~~~~L~~GD~I~~ 216 (238)
-+||+.++.. ....|+.||.|.+
T Consensus 37 ~vNg~iVpr~~~~~~~l~~gD~iev 61 (68)
T COG2104 37 AVNGEIVPRSQWADTILKEGDRIEV 61 (68)
T ss_pred EECCEEccchhhhhccccCCCEEEE
Confidence 3577766632 1368999999876
No 64
>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=26.48 E-value=56 Score=33.32 Aligned_cols=25 Identities=40% Similarity=0.436 Sum_probs=20.7
Q ss_pred CceeECCEEcCCCceEEccCCCEEEEc
Q psy13346 191 NGTFVNGMKIAPLTYVELFEGDVIEFG 217 (238)
Q Consensus 191 NGT~VNg~rI~~~~~~~L~~GD~I~~G 217 (238)
-|..|||++++.. +.|++||+|+|=
T Consensus 396 ~~a~vng~~v~l~--~~l~~gd~vei~ 420 (683)
T TIGR00691 396 TGAKVNGKIVPLD--KELENGDVVEII 420 (683)
T ss_pred eEEEECCEECCCC--ccCCCCCEEEEE
Confidence 3667999998864 699999999873
No 65
>cd04089 eRF3_II eRF3_II: domain II of the eukaryotic class II release factor (eRF3). In eukaryotes, translation termination is mediated by two interacting release factors, eRF1 and eRF3, which act as class I and II factors, respectively. eRF1 functions as an omnipotent release factor, decoding all three stop codons and triggering the release of the nascent peptide catalyzed by the ribsome. eRF3 is a GTPase, which enhances the termination efficiency by stimulating the eRF1 activity in a GTP-dependent manner. Sequence comparison of class II release factors with elongation factors shows that eRF3 is more similar to eEF1alpha whereas prokaryote RF3 is more similar to EF-G, implying that their precise function may differ. Only eukaryote RF3s are found in this group. Saccharomyces cerevisiae eRF3 (Sup35p) is a translation termination factor which is divided into three regions N, M and a C-terminal eEF1a-like region essential for translation termination. Sup35NM is a non-pathogenic prion-li
Probab=26.36 E-value=93 Score=22.20 Aligned_cols=26 Identities=27% Similarity=0.281 Sum_probs=19.8
Q ss_pred CceeECCEEcCCCceEEccCCCEEEEcCee
Q psy13346 191 NGTFVNGMKIAPLTYVELFEGDVIEFGLST 220 (238)
Q Consensus 191 NGT~VNg~rI~~~~~~~L~~GD~I~~G~~~ 220 (238)
+||.|.| +|..| .|+.||.|.|....
T Consensus 13 ~g~vv~G-~v~~G---~i~~G~~v~i~P~~ 38 (82)
T cd04089 13 MGTVVLG-KVESG---TIKKGDKLLVMPNK 38 (82)
T ss_pred CCEEEEE-EEeee---EEecCCEEEEeCCC
Confidence 4888888 56665 78899998887653
No 66
>PRK06083 sulfur carrier protein ThiS; Provisional
Probab=26.29 E-value=53 Score=24.27 Aligned_cols=22 Identities=23% Similarity=0.306 Sum_probs=14.3
Q ss_pred ECCEEcCCCc--eEEccCCCEEEE
Q psy13346 195 VNGMKIAPLT--YVELFEGDVIEF 216 (238)
Q Consensus 195 VNg~rI~~~~--~~~L~~GD~I~~ 216 (238)
|||+-|++.. .+.|++||.|.|
T Consensus 54 vNg~iVpr~~w~~t~L~egD~IEI 77 (84)
T PRK06083 54 INNQVVPRSEWQSTVLSSGDAISL 77 (84)
T ss_pred ECCEEeCHHHcCcccCCCCCEEEE
Confidence 3454444322 368999999976
No 67
>PRK10872 relA (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional
Probab=24.43 E-value=64 Score=33.36 Aligned_cols=26 Identities=27% Similarity=0.241 Sum_probs=21.4
Q ss_pred CCceeECCEEcCCCceEEccCCCEEEEc
Q psy13346 190 MNGTFVNGMKIAPLTYVELFEGDVIEFG 217 (238)
Q Consensus 190 ~NGT~VNg~rI~~~~~~~L~~GD~I~~G 217 (238)
--|..|||+.++-. +.|++||+|.|=
T Consensus 439 ~~gAkvng~~v~l~--~~L~~GD~VeIi 464 (743)
T PRK10872 439 CIGAKIGGRIVPFT--YQLQMGDQIEII 464 (743)
T ss_pred ceEEEECCEECCCC--cCCCCCCEEEEE
Confidence 34678999998864 799999999874
No 68
>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=23.90 E-value=1.5e+02 Score=21.26 Aligned_cols=40 Identities=23% Similarity=0.281 Sum_probs=28.2
Q ss_pred ceEEEEeCCC------CCceeECCEEcCCCceEEccCCCEEEEcCeeEEEE
Q psy13346 180 VRPYLMDLKS------MNGTFVNGMKIAPLTYVELFEGDVIEFGLSTREYV 224 (238)
Q Consensus 180 ~~~~I~DlgS------~NGT~VNg~rI~~~~~~~L~~GD~I~~G~~~~~fv 224 (238)
..|||+|... +.|.||=... ...+..||.|++-+..-+|.
T Consensus 16 ~GffiQd~~~d~~~~ts~gifV~~~~-----~~~~~~Gd~V~vtG~v~ey~ 61 (78)
T cd04486 16 GGFYIQDEDGDGDPATSEGIFVYTGS-----GADVAVGDLVRVTGTVTEYY 61 (78)
T ss_pred CEEEEEcCCCCCCCcccceEEEecCC-----CCCCCCCCEEEEEEEEEeeC
Confidence 5799999732 5677772211 34789999999988766665
No 69
>COG0317 SpoT Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]
Probab=22.35 E-value=84 Score=32.28 Aligned_cols=26 Identities=31% Similarity=0.321 Sum_probs=20.8
Q ss_pred CCceeECCEEcCCCceEEccCCCEEEEc
Q psy13346 190 MNGTFVNGMKIAPLTYVELFEGDVIEFG 217 (238)
Q Consensus 190 ~NGT~VNg~rI~~~~~~~L~~GD~I~~G 217 (238)
--|..|||+.++= .+.|++||+|.|=
T Consensus 422 c~gAkVnG~ivpl--~~~Lk~Gd~VEIi 447 (701)
T COG0317 422 CIGAKVNGRIVPL--TTKLQTGDQVEII 447 (701)
T ss_pred eeEEEECCEEecc--ceecCCCCEEEEE
Confidence 4578899977765 4799999999874
No 70
>PHA02550 32 single-stranded DNA binding protein; Provisional
Probab=20.65 E-value=87 Score=28.74 Aligned_cols=17 Identities=18% Similarity=0.188 Sum_probs=14.3
Q ss_pred cceEEEEeCCCCCceeE
Q psy13346 179 VVRPYLMDLKSMNGTFV 195 (238)
Q Consensus 179 ~~~~~I~DlgS~NGT~V 195 (238)
.++|||+.+-||+|-|-
T Consensus 71 ~ggWYIENc~sT~Gd~D 87 (304)
T PHA02550 71 NGGWYIENCSSTHGDYD 87 (304)
T ss_pred CCceEeecCccccCCCC
Confidence 56899999999999554
No 71
>PF09138 Urm1: Urm1 (Ubiquitin related modifier); InterPro: IPR015221 Ubiquitin related modifier 1 (Urm1) is a ubiquitin related protein that modifies proteins in the yeast ubiquitin-like urmylation pathway []. Structural comparisons and phylogenetic analysis of the ubiquitin superfamily has indicated that Urm1 has the most conserved structural and sequence features of the common ancestor of the entire superfamily []. ; GO: 0034227 tRNA thio-modification, 0005737 cytoplasm; PDB: 2AX5_A 2QJL_A 2PKO_A 1WGK_A 1XO3_A 2K9X_A.
Probab=20.36 E-value=34 Score=26.12 Aligned_cols=25 Identities=24% Similarity=0.194 Sum_probs=16.3
Q ss_pred eeECCEEc--CCCceEEccCCCEEEEc
Q psy13346 193 TFVNGMKI--APLTYVELFEGDVIEFG 217 (238)
Q Consensus 193 T~VNg~rI--~~~~~~~L~~GD~I~~G 217 (238)
++||+... ..+..+.|++||.|.|=
T Consensus 64 vLINd~DwEl~g~~~y~l~~~D~I~Fi 90 (96)
T PF09138_consen 64 VLINDADWELLGEEDYVLKDGDNITFI 90 (96)
T ss_dssp EEETTCEHHHHTCCCSB--TTEEEEEE
T ss_pred EEEcCccceeecCcceEcCCCCEEEEE
Confidence 45687753 44557899999999873
Done!