Query 002685
Match_columns 893
No_of_seqs 366 out of 1366
Neff 4.4
Searched_HMMs 46136
Date Fri Mar 29 05:03:32 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/002685.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/002685hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF06087 Tyr-DNA_phospho: Tyro 100.0 5.5E-54 1.2E-58 483.3 0.6 321 414-797 2-358 (443)
2 KOG2031 Tyrosyl-DNA phosphodie 100.0 3.1E-48 6.7E-53 428.0 14.3 330 397-804 63-414 (519)
3 PF00498 FHA: FHA domain; Int 99.5 6.8E-14 1.5E-18 118.7 6.6 67 71-174 1-67 (68)
4 cd00060 FHA Forkhead associate 99.1 5.1E-10 1.1E-14 99.9 10.8 79 60-175 13-92 (102)
5 TIGR03354 VI_FHA type VI secre 99.0 9.4E-10 2E-14 124.1 7.7 74 61-174 17-94 (396)
6 KOG1882 Transcriptional regula 98.9 4.8E-10 1E-14 117.4 4.4 97 57-177 182-278 (293)
7 COG1716 FOG: FHA domain [Signa 98.9 2.8E-09 6E-14 106.6 9.2 68 69-176 89-156 (191)
8 PLN02927 antheraxanthin epoxid 98.7 2.2E-08 4.7E-13 119.5 7.7 97 55-197 541-649 (668)
9 smart00240 FHA Forkhead associ 98.7 2.9E-08 6.2E-13 79.8 5.5 52 71-158 1-52 (52)
10 COG3456 Predicted component of 98.4 3.9E-07 8.4E-12 102.4 6.1 71 64-174 22-95 (430)
11 KOG1881 Anion exchanger adapto 97.9 3.8E-06 8.2E-11 99.2 1.5 93 55-174 163-255 (793)
12 KOG0615 Serine/threonine prote 97.8 2E-05 4.3E-10 89.1 4.3 90 61-176 57-147 (475)
13 KOG1880 Nuclear inhibitor of p 97.2 0.00015 3.4E-09 78.9 1.7 86 56-177 26-111 (337)
14 TIGR02500 type_III_yscD type I 95.7 0.026 5.7E-07 64.7 7.8 46 49-99 3-50 (410)
15 PF06087 Tyr-DNA_phospho: Tyro 95.7 0.0067 1.5E-07 70.1 2.9 76 796-871 156-267 (443)
16 TIGR01663 PNK-3'Pase polynucle 91.5 0.34 7.3E-06 57.8 6.5 79 61-179 25-103 (526)
17 KOG0245 Kinesin-like protein [ 91.3 0.51 1.1E-05 59.3 7.8 76 62-175 470-547 (1221)
18 PF08797 HIRAN: HIRAN domain; 87.1 0.1 2.2E-06 48.8 -1.7 63 712-776 29-91 (107)
19 KOG2293 Daxx-interacting prote 80.2 4 8.8E-05 48.5 6.9 74 64-174 443-522 (547)
20 KOG1892 Actin filament-binding 73.1 10 0.00023 48.0 7.9 85 51-176 360-447 (1629)
21 PF00614 PLDc: Phospholipase D 72.0 3 6.6E-05 31.1 2.0 24 525-551 3-26 (28)
22 smart00155 PLDc Phospholipase 70.0 4.4 9.5E-05 29.6 2.5 24 525-551 3-26 (28)
23 cd00138 PLDc Phospholipase D. 62.0 9.9 0.00022 37.5 4.1 37 525-564 112-149 (176)
24 PF13091 PLDc_2: PLD-like doma 58.8 7.3 0.00016 36.2 2.4 36 526-564 74-110 (126)
25 TIGR02868 CydC thiol reductant 53.6 5.8 0.00013 46.6 1.0 67 191-281 350-416 (529)
26 cd01764 Urm1 Urm1-like ubuitin 47.7 16 0.00036 34.1 2.8 27 151-177 62-90 (94)
27 PRK13657 cyclic beta-1,2-gluca 46.0 8.4 0.00018 46.0 0.8 67 191-280 350-416 (588)
28 TIGR02988 YaaA_near_RecF S4 do 44.8 25 0.00053 29.7 3.2 25 149-174 34-58 (59)
29 PF01479 S4: S4 domain; Inter 44.1 19 0.0004 28.9 2.3 24 148-172 25-48 (48)
30 PRK13912 nuclease NucT; Provis 42.3 23 0.0005 36.2 3.2 93 450-555 50-145 (177)
31 smart00363 S4 S4 RNA-binding d 41.2 36 0.00078 26.7 3.5 28 147-175 24-51 (60)
32 TIGR01687 moaD_arch MoaD famil 40.1 31 0.00067 31.0 3.3 28 149-176 56-83 (88)
33 cd00754 MoaD Ubiquitin domain 38.1 33 0.00073 29.9 3.1 27 148-176 49-75 (80)
34 COG1188 Ribosome-associated he 33.5 49 0.0011 31.9 3.6 28 150-179 35-62 (100)
35 cd00165 S4 S4/Hsp/ tRNA synthe 32.7 53 0.0011 26.5 3.3 28 147-175 24-51 (70)
36 PRK01777 hypothetical protein; 32.4 46 0.00099 31.5 3.2 28 146-175 47-74 (95)
37 TIGR02857 CydD thiol reductant 31.9 18 0.00038 42.6 0.5 52 190-262 336-387 (529)
38 COG2501 S4-like RNA binding pr 28.6 56 0.0012 29.9 2.9 26 147-174 35-61 (73)
39 PRK11507 ribosome-associated p 27.1 69 0.0015 29.1 3.2 26 147-174 35-61 (70)
40 cd03292 ABC_FtsE_transporter F 26.9 34 0.00073 35.1 1.5 48 190-258 15-62 (214)
41 TIGR00958 3a01208 Conjugate Tr 26.3 22 0.00047 43.9 -0.0 53 190-263 495-547 (711)
42 PF09014 Sushi_2: Beta-2-glyco 25.9 1.1E+02 0.0024 28.8 4.4 39 151-195 13-54 (85)
43 PF02824 TGS: TGS domain; Int 25.8 58 0.0013 27.9 2.5 27 147-175 33-59 (60)
44 cd01666 TGS_DRG_C TGS_DRG_C: 25.3 57 0.0012 29.6 2.4 21 153-175 54-74 (75)
45 TIGR01193 bacteriocin_ABC ABC- 25.1 27 0.00059 42.8 0.5 51 191-262 489-539 (708)
46 PF09565 RE_NgoFVII: NgoFVII r 24.8 60 0.0013 36.6 3.0 27 526-552 80-107 (296)
47 COG1124 DppF ABC-type dipeptid 24.6 26 0.00056 38.6 0.1 52 191-263 22-73 (252)
48 PF02597 ThiS: ThiS family; I 23.8 57 0.0012 28.1 2.1 28 149-176 44-72 (77)
49 PRK06944 sulfur carrier protei 23.7 86 0.0019 26.6 3.2 26 151-176 33-60 (65)
50 TIGR02673 FtsE cell division A 23.6 47 0.001 34.1 1.8 48 191-259 17-64 (214)
51 PRK10348 ribosome-associated h 23.1 1.2E+02 0.0027 30.5 4.5 29 148-178 33-61 (133)
52 COG1559 Aminodeoxychorismate l 23.0 1.6E+02 0.0035 33.9 6.0 94 750-846 76-174 (342)
53 PRK11174 cysteine/glutathione 22.9 29 0.00063 41.5 0.1 50 190-261 364-413 (588)
54 PRK11176 lipid transporter ATP 22.8 28 0.00062 41.4 0.0 50 191-261 358-407 (582)
55 TIGR00960 3a0501s02 Type II (G 22.8 48 0.001 34.2 1.7 49 191-260 18-66 (216)
56 TIGR02982 heterocyst_DevA ABC 22.7 37 0.00079 35.3 0.8 48 191-259 20-67 (220)
57 PRK10790 putative multidrug tr 22.5 38 0.00082 40.6 1.0 51 191-262 356-406 (592)
58 PF13275 S4_2: S4 domain; PDB: 22.4 42 0.00091 29.9 1.0 27 146-174 30-57 (65)
59 PRK06437 hypothetical protein; 22.3 1.1E+02 0.0024 26.8 3.6 26 149-176 37-62 (67)
60 TIGR03873 F420-0_ABC_ATP propo 21.5 53 0.0012 34.9 1.8 33 213-259 31-63 (256)
61 TIGR01682 moaD molybdopterin c 21.5 1.1E+02 0.0023 27.3 3.4 24 151-176 52-75 (80)
62 cd00565 ThiS ThiaminS ubiquiti 21.3 96 0.0021 26.6 3.0 27 150-176 32-60 (65)
63 PRK10908 cell division protein 21.2 46 0.00099 34.5 1.2 49 190-259 16-64 (222)
64 PF14451 Ub-Mut7C: Mut7-C ubiq 21.1 1E+02 0.0022 28.5 3.2 26 149-176 50-75 (81)
65 PRK11160 cysteine/glutathione 20.6 38 0.00081 40.7 0.4 51 191-262 355-405 (574)
66 TIGR03797 NHPM_micro_ABC2 NHPM 20.5 34 0.00074 41.8 0.0 52 190-262 467-518 (686)
67 cd03256 ABC_PhnC_transporter A 20.2 40 0.00088 35.2 0.5 49 190-259 15-63 (241)
68 PRK13644 cbiO cobalt transport 20.2 59 0.0013 35.3 1.8 48 191-259 17-64 (274)
69 PRK06488 sulfur carrier protei 20.1 82 0.0018 27.1 2.3 25 152-176 34-60 (65)
No 1
>PF06087 Tyr-DNA_phospho: Tyrosyl-DNA phosphodiesterase; InterPro: IPR010347 Covalent intermediates between topoisomerase I and DNA can become dead-end complexes that lead to cell death. Tyrosyl-DNA phosphodiesterase can hydrolyse the bond between topoisomerase I and DNA [].; GO: 0008081 phosphoric diester hydrolase activity, 0006281 DNA repair, 0005634 nucleus; PDB: 3SQ8_A 3SQ5_B 3SQ3_A 1Q32_D 3SQ7_A 1QZQ_A 1RGU_B 1RG2_B 1MU9_B 1RFI_B ....
Probab=100.00 E-value=5.5e-54 Score=483.34 Aligned_cols=321 Identities=24% Similarity=0.383 Sum_probs=209.1
Q ss_pred CcEEEEEeccCCCC-CCCCCccccccccCCchhHhHHHHhhcccchhhhhhhcCCC-C-CCcEEEEEccCccccccCcCC
Q 002685 414 KKFYLNRLEFMDLT-SLNYDVISLPELLYPVESISRMFIATFTSDILWFMSYCEIP-S-HLPVTIACHNTERCWSTSADK 490 (893)
Q Consensus 414 spFyLnrI~~lp~~-~~n~dtISL~DLLgP~~~L~~allfnF~~DidWLLs~f~~~-r-~lpVtIVvh~~~~~wk~e~~~ 490 (893)
.+|++|++.+++.. ..+.++|||+|||++ ++|++||+||||+|++|||++|+.. + .+||+++.+...... ..
T Consensus 2 ~~~~~~~i~~~~~~~~~~~~~itl~dil~~-~~l~~~~~~nf~~D~~wll~~~~~~~~~~~~i~~v~g~~~~~~----~~ 76 (443)
T PF06087_consen 2 FKLYLTTIYDLPPRSNNNPDTITLEDILGD-PDLEEALLFNFMIDLDWLLSQFPPSTRKNIPITIVHGTKDPPD----KR 76 (443)
T ss_dssp CEEEEBTTTTS-GG--GTTTEE-HHHHCSG-TTEEEEEEE-SSEEHHHHHCCS-CCGTTCEEEEEECTSEEHHH----HH
T ss_pred cceEEeeecCCCccccCCCCcEeHHHHcCC-ccHHHHHhhhheeeHHHHHHhCCHhhcccceEEEEeCCCcchh----hh
Confidence 36899999999987 347999999999997 6899999999999999999999842 2 468888644222211 11
Q ss_pred cCCCCCCCCCCeEEEcCCCCccccccccccCCCcccccceEEEEEeCCc-EEEEEeCCCCCHHhhccccCeEEeecC-CC
Q 002685 491 RTSVPYPNFPNLVLVFPPFPESVAFGENCKKQGIACHHPKLFVLQREDS-IRVIVTSANLGAKQWNAVTNTVWWQDF-PR 568 (893)
Q Consensus 491 rl~~~~~~~pNv~li~PpMPe~I~FG~d~~~~g~GtHHSKMmIL~Y~D~-LRVVI~TANLi~~DW~~~TQ~VWiQDF-Pr 568 (893)
.+......++|+++|.|+|| ++|| |||||||||+|+|+ ||||||||||++.||+.+||+||+||| |+
T Consensus 77 ~~~~~~~~~~nv~~~~~~mp--~~~g---------~hHsKm~ll~y~~~~lRVvI~TaNl~~~Dw~~~~q~vw~~d~lP~ 145 (443)
T PF06087_consen 77 EIRQQAAIYPNVKLIFPPMP--IPFG---------THHSKMMLLFYEDGSLRVVIPTANLTPYDWNNKTQGVWIQDFLPR 145 (443)
T ss_dssp HHHHHHCCHTTEEEEEE-----STT-----------B--EEEEEEETTCEEEEEEESS-BSHHHHCSSB-EEEE---E-B
T ss_pred hhhhhcccCCCeEEEccCCC--cccc---------cccceeEEEEeCCccEEEEEECCCCCHHHHCCcceeEEEecccCc
Confidence 11112347899999999999 4788 99999999999988 999999999999999999999999999 99
Q ss_pred CCCCCccccccCCCcccccCCCCCcHHHHHHHHHHHhccCCCchhHHHHhhcccccccccEEEEEecCCcccCCCCCCcC
Q 002685 569 RCAPDYLSLFVQTPVEEINQDSRSDFTAQLASFMASLVIDVPSQAHWIVELTKYDFASAAGHLVASVPGIHSYRNPNLSE 648 (893)
Q Consensus 569 l~~~~~~~~~~~~~~~e~~~~s~sdFk~dL~~YL~sy~~~~Ps~~~~i~~L~kyDFSsakv~LVaSVPG~H~g~~~~~~~ 648 (893)
++..... ....+++|+.+|++||.+|+. +....|++.|++||||+++|+||+||||+|. .+.
T Consensus 146 ~~~~~~~-----------~~~~~~~F~~dL~~yL~~y~~--~~~~~~~~~l~~yDFS~~~v~lV~SvPG~h~-~~~---- 207 (443)
T PF06087_consen 146 LPSSKSS-----------SEESGSRFKKDLVAYLNSYGK--SPLDKLIERLRKYDFSSARVHLVASVPGKHK-EDK---- 207 (443)
T ss_dssp -ECTS-S-------------SSTTHHHHHHHHHHHTT----HHHHHCHHHHHTEE-CCGTSEEEEE-SECCC-GGG----
T ss_pred ccccccc-----------cCCCCCchHHHHHHHHHHhCC--cchhHHHHHHHhcCCccCceEEEeccCcccc-CCC----
Confidence 9752111 135789999999999999974 3366899999999999999999999999999 222
Q ss_pred CcccCCCCCCcccccccccccceeccc----cCcceeEEeecccccchhhhhH-HHhhhhh-hccchhhh--hh-----c
Q 002685 649 STYSKPVDHGAIWSSDGKFLGSVETSV----VGLSHLFRTAADSNGTQIKKLA-AFLGKSF-SAHGMLKI--LL-----R 715 (893)
Q Consensus 649 ~~~G~~rl~n~~~~~~~s~LgSv~~s~----~gls~l~~q~~DSs~asLg~~~-~~L~k~~-~~~~~~E~--v~-----~ 715 (893)
..||+++| .+.|....... ....+++.|+ ||+++++... +||...+ ..+..... .. .
T Consensus 208 ~~~G~~~L--------~~~L~~~~~~~~~~~~~~~~~~~Q~--SSIGs~~~~~~~Wl~~~f~~sl~~~~~~~~~~~~~~~ 277 (443)
T PF06087_consen 208 DKWGHMRL--------RKVLKRLGLPSNKDKDKESDIVCQF--SSIGSLGSSPKDWLTSEFLTSLYPASFSSPSTPSSKS 277 (443)
T ss_dssp GGSHHHHH--------HHHHHHCCTT---TTCCCCEEEEE---SBB---SSSTTTTTTTHHHHHCCHHCCT------HHH
T ss_pred cchhHHHH--------HHHHHhccccccCCcCCCCeEEEEc--ccccccCcchhhhHHHHHHHHHhhccccccccccccc
Confidence 26997655 44444433332 1246788888 8898887555 3765433 22221100 00 0
Q ss_pred cCCCCCCCCCCeEEEecCCCccc-------CCce-----------eeccCcchhcccccCCCCCcccceeecccchHHHH
Q 002685 716 RNTNVPADANAVSVLVPNPDELS-------DGDC-----------IQLGFMPRDIAKWVSPLWDIGFIRFSGFISRDEVL 777 (893)
Q Consensus 716 sn~n~P~~~~~~~IIfPT~deVr-------sg~s-----------kQL~fL~~~l~kW~s~~~D~~~~~f~g~~~p~~~l 777 (893)
.....+...++++|||||.++|+ +|++ .+..||+++||+|.++..
T Consensus 278 ~~~~~~~~~~~~~IvfPT~e~Vr~S~~G~~~ggsi~~~~~~~~~~~~~~~l~~~~~~w~~~~~----------------- 340 (443)
T PF06087_consen 278 SSSQQENNRPPLKIVFPTVEEVRNSPEGYNGGGSIPFKYKWWEPNFPQEWLRPYFHKWYASDD----------------- 340 (443)
T ss_dssp HHHHCCHHTEEEEEE--BCHHHCTSTTGGGGGGGSB--HC--GHHCCHHHHHHCCE-EEEC-T-----------------
T ss_pred cccccccCCCCceEECCCHHHHhhCccCCcCceeEEecchhccccchHHHHHHHHhhhccccc-----------------
Confidence 00011123578999999999999 4444 223689999999998833
Q ss_pred HHHhhcccceeEEEEeeccC
Q 002685 778 AAALEGISKKVQLILHVSQG 797 (893)
Q Consensus 778 ~~a~g~~~~~~ql~~~~~~~ 797 (893)
..||..+.+|+|+|++-.
T Consensus 341 --~~~R~~~~pH~K~y~~~~ 358 (443)
T PF06087_consen 341 --PSGRSRAPPHIKTYMRFS 358 (443)
T ss_dssp --GCTTTTS-B--EEEEEEE
T ss_pred --cCCCCCcCcceEEEEEec
Confidence 678999999999999765
No 2
>KOG2031 consensus Tyrosyl-DNA phosphodiesterase [Replication, recombination and repair]
Probab=100.00 E-value=3.1e-48 Score=428.02 Aligned_cols=330 Identities=19% Similarity=0.275 Sum_probs=244.0
Q ss_pred CCCCCcccCCCCCCCCCCcEEEEEeccC-CCCCCCCCccccccccCC-chhHhHHHHhhcccchhhhhhhcC-CCCCCcE
Q 002685 397 GSMDKSKSLGSSCSPPGKKFYLNRLEFM-DLTSLNYDVISLPELLYP-VESISRMFIATFTSDILWFMSYCE-IPSHLPV 473 (893)
Q Consensus 397 ~~~~~~~~~~~~~~~~gspFyLnrI~~l-p~~~~n~dtISL~DLLgP-~~~L~~allfnF~~DidWLLs~f~-~~r~lpV 473 (893)
.+.+...+...+|.|-+ ++++.+.+. -..+.+...+++.+||.+ .+++..+++||||+|++||+.+|+ .++..|+
T Consensus 63 ~e~~~~~~~~~~~~p~~--~~ft~v~~~s~~~~~s~~s~sl~~il~~i~g~~v~silfsfmvdid~Lv~~y~~~~~~~~i 140 (519)
T KOG2031|consen 63 QEKDDSERILTNDNPKG--AVFTTVKGDSVPRYDSMGSVSLMEILADIFGTPVNSILFSFMVDIDWLVGQYPPSVRIKPI 140 (519)
T ss_pred cccccHHHHhccCCccc--ccccccccccccccCcccchHHHHHHHHhhCCchhheEEEEEeEHHHHHhhCcchhccCce
Confidence 34444457777887776 666776662 222334567787777763 246899999999999999999998 4688888
Q ss_pred EEEEccCccccccCcCCcCCCCCCCCCCeEEEcCCCCccccccccccCCCcccccceEEEEEeCCcEEEEEeCCCCCHHh
Q 002685 474 TIACHNTERCWSTSADKRTSVPYPNFPNLVLVFPPFPESVAFGENCKKQGIACHHPKLFVLQREDSIRVIVTSANLGAKQ 553 (893)
Q Consensus 474 tIVvh~~~~~wk~e~~~rl~~~~~~~pNv~li~PpMPe~I~FG~d~~~~g~GtHHSKMmIL~Y~D~LRVVI~TANLi~~D 553 (893)
|++ |++.. ..++........+++++.+.|| |||| |||+|||+|+|++++|||||||||++.|
T Consensus 141 ~l~-~G~~d------~~~~~~~~K~~~l~~~~~~~Lp--ipF~---------thHtKm~~l~y~~G~rvvv~taNl~~~D 202 (519)
T KOG2031|consen 141 TLV-HGEPD------EARLLAQTKAPILVTVKLASLP--IPFG---------THHTKMIILFYEEGCRVVVHTANLIHDD 202 (519)
T ss_pred EEE-ecCCc------hHHHHhhhhccceeeeeccccc--cccc---------ccccceEEEeccCccEEEEecCCcceec
Confidence 875 55431 1122223344559999999999 8999 9999999999999999999999999999
Q ss_pred hccccCeEEeecCCCCCCCCccccccCCCcccccCCCCCcHHHHHHHHHHHhccCCCchhHHHHhhcccccccccEEEEE
Q 002685 554 WNAVTNTVWWQDFPRRCAPDYLSLFVQTPVEEINQDSRSDFTAQLASFMASLVIDVPSQAHWIVELTKYDFASAAGHLVA 633 (893)
Q Consensus 554 W~~~TQ~VWiQDFPrl~~~~~~~~~~~~~~~e~~~~s~sdFk~dL~~YL~sy~~~~Ps~~~~i~~L~kyDFSsakv~LVa 633 (893)
|+++||++|++++++.... ....++.|+.||++||.+|. .|.++.|++.|++||||.++|+||+
T Consensus 203 w~~ktQ~~w~sp~~~~~~~--------------~g~~~~~Fk~DLi~YL~~Y~--~~~l~~~i~~lkk~DfS~i~v~fIg 266 (519)
T KOG2031|consen 203 WNNKTQGFWCSPLLKIGDK--------------KGVSPTGFKQDLIEYLNSYR--LPQLKEWIASLKKVDFSAINVRFIG 266 (519)
T ss_pred ccccccceeecCCcccccC--------------CCCCCCchHHHHHHHHHHhc--cchhHHHHHHHHhcchhhceEEEEe
Confidence 9999999999976665421 13578999999999999995 4888999999999999999999999
Q ss_pred ecCCcccCCCCCCcCCcccCCCCCCcccccccccccceeccc-cCcceeEEeecccccchhhhhH-HHhhhhh-hccchh
Q 002685 634 SVPGIHSYRNPNLSESTYSKPVDHGAIWSSDGKFLGSVETSV-VGLSHLFRTAADSNGTQIKKLA-AFLGKSF-SAHGML 710 (893)
Q Consensus 634 SVPG~H~g~~~~~~~~~~G~~rl~n~~~~~~~s~LgSv~~s~-~gls~l~~q~~DSs~asLg~~~-~~L~k~~-~~~~~~ 710 (893)
||||++.+.... +|||.+| ++.|.-..++. ..-...+-|. ||+++||+.- +|+...+ ..+.
T Consensus 267 StPG~f~gs~~~----~WGh~kL--------~kiL~~~~~~~~~~r~~~v~q~--sS~gsl~~~~~~~~~~~f~~~l~-- 330 (519)
T KOG2031|consen 267 STPGKFQGSGLL----SWGHNKL--------KKILKEHAASPYLERTPVVGQS--SSIGSLGSLWSAWFIGDFVESLA-- 330 (519)
T ss_pred ecCCcccCcccc----cccHHHH--------HHHHHhhccCcccccCceeeee--eccccccchhhhhhhhhhccchh--
Confidence 999998877544 6999776 22332211110 0111233344 5566666443 4444333 3221
Q ss_pred hhhhccCCCCCCCCCCeEEEecCCCccc-------CCce---------eeccCcchhcccccCCCCCcccceeecccchH
Q 002685 711 KILLRRNTNVPADANAVSVLVPNPDELS-------DGDC---------IQLGFMPRDIAKWVSPLWDIGFIRFSGFISRD 774 (893)
Q Consensus 711 E~v~~sn~n~P~~~~~~~IIfPT~deVr-------sg~s---------kQL~fL~~~l~kW~s~~~D~~~~~f~g~~~p~ 774 (893)
+.++..-..++.+.+||||.++|| +|+| +|. ||..|||||.+.
T Consensus 331 ----kdt~~~gk~~~~~yiIfPTveeVrtS~~G~~~Ggsipy~~~~~~kq~-~lk~y~~kW~A~---------------- 389 (519)
T KOG2031|consen 331 ----KDTTPPGKLRPPFYIIFPTVEEVRTSLLGYAGGGSLPYGKNTNEKQP-WLKKYLCKWKAM---------------- 389 (519)
T ss_pred ----hccCCCCCCCCCeeEEcccHHHhhccccccccCceecccchhhhhhH-HHHHHHHhhhhh----------------
Confidence 222222223466999999999999 6666 555 999999999999
Q ss_pred HHHHHHhhcccceeEEEEeeccCCChhHHH
Q 002685 775 EVLAAALEGISKKVQLILHVSQGPKFSDIS 804 (893)
Q Consensus 775 ~~l~~a~g~~~~~~ql~~~~~~~~~f~~~~ 804 (893)
+.||+++++|+++||+-.++|+.|+
T Consensus 390 -----~s~R~ramPHiKtYmr~~~d~q~l~ 414 (519)
T KOG2031|consen 390 -----DSRRSRAMPHIKTYMRFNLDDQKLA 414 (519)
T ss_pred -----hhhccccCCcceeeeeecCCCCEEE
Confidence 8899999999999999999998874
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=99.47 E-value=6.8e-14 Score=118.68 Aligned_cols=67 Identities=43% Similarity=0.762 Sum_probs=57.8
Q ss_pred EEEcCCCCCCCEEecCCccccceEEEEEccCcceEEecCCcccccccccccchhhhcccccccCcccccccccccccccc
Q 002685 71 YSIGRASINCDFTFDNRLVSRQHCQILFDSSERKIYVLDGTFLLPAFSSVVNEFRKKRDKSLEDEEEDEGFSRVMVSLNG 150 (893)
Q Consensus 71 ytIGR~~~~cDivi~d~~VSr~Ha~I~fd~~~~~iy~~~g~~~~~~~~~~v~~~r~~~~~~i~D~~~~~~L~~~~~S~NG 150 (893)
|+|||++ .||++++++.|||+||.|.++.. + .| +|+| + .|+||
T Consensus 1 ~~iGR~~-~~di~l~~~~iSr~Ha~i~~~~~--------~------------~~------~i~d------~----~s~ng 43 (68)
T PF00498_consen 1 VTIGRSP-DCDIVLPDPSISRRHARISFDDD--------G------------QF------YIED------L----GSTNG 43 (68)
T ss_dssp EEEESST-TSSEEETSTTSSTTSEEEEEETT--------E------------EE------EEEE------S----SSSS-
T ss_pred CEEcCCC-CCCEEECCHheeeeeeEEEEece--------e------------eE------EEEe------C----CCCCc
Confidence 6899998 99999999999999999996532 1 14 7888 3 79999
Q ss_pred eEECCEEccCCCeeeCCCCCEEEE
Q 002685 151 VFVNGIRLKSGIVRELNAGDEVLF 174 (893)
Q Consensus 151 TfVNG~RI~k~~~~~L~~GD~I~~ 174 (893)
|||||+++.+++.++|.+||+|.|
T Consensus 44 t~vng~~l~~~~~~~L~~gd~i~~ 67 (68)
T PF00498_consen 44 TFVNGQRLGPGEPVPLKDGDIIRF 67 (68)
T ss_dssp EEETTEEESSTSEEEE-TTEEEEE
T ss_pred EEECCEEcCCCCEEECCCCCEEEc
Confidence 999999999999999999999998
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=99.11 E-value=5.1e-10 Score=99.87 Aligned_cols=79 Identities=38% Similarity=0.558 Sum_probs=66.0
Q ss_pred ceeEEecCCCCEEEcCCCCCC-CEEecCCccccceEEEEEccCcceEEecCCcccccccccccchhhhcccccccCcccc
Q 002685 60 VDSLTLEPDRPYSIGRASINC-DFTFDNRLVSRQHCQILFDSSERKIYVLDGTFLLPAFSSVVNEFRKKRDKSLEDEEED 138 (893)
Q Consensus 60 ~~~i~L~~~~~ytIGR~~~~c-Divi~d~~VSr~Ha~I~fd~~~~~iy~~~g~~~~~~~~~~v~~~r~~~~~~i~D~~~~ 138 (893)
...+.|.++..++|||++ .| |++|.++.|||+||+|.++.. ++ + .+.|
T Consensus 13 ~~~~~l~~~~~~~iGr~~-~~~~i~l~~~~iS~~H~~i~~~~~-------~~-------------~------~~~~---- 61 (102)
T cd00060 13 GRRYYLDPGGTYTIGRDS-DNCDIVLDDPSVSRRHAVIRYDGD-------GG-------------V------VLID---- 61 (102)
T ss_pred eeEEEECCCCeEEECcCC-CcCCEEcCCCCeeCcceEEEEcCC-------CC-------------E------EEEE----
Confidence 458888885689999999 88 999999999999999997642 11 2 3444
Q ss_pred cccccccccccceEECCEEccCCCeeeCCCCCEEEEE
Q 002685 139 EGFSRVMVSLNGVFVNGIRLKSGIVRELNAGDEVLFV 175 (893)
Q Consensus 139 ~~L~~~~~S~NGTfVNG~RI~k~~~~~L~~GD~I~~~ 175 (893)
. .|.|||||||+++.++....|.+||+|.|+
T Consensus 62 ~------~s~~g~~vn~~~~~~~~~~~l~~gd~i~ig 92 (102)
T cd00060 62 L------GSTNGTFVNGQRVSPGEPVRLRDGDVIRLG 92 (102)
T ss_pred C------CCCCCeEECCEECCCCCcEECCCCCEEEEC
Confidence 2 799999999999998778999999999994
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=98.96 E-value=9.4e-10 Score=124.13 Aligned_cols=74 Identities=35% Similarity=0.612 Sum_probs=64.2
Q ss_pred eeEEecCCCCEEEcCCCCCCCEEecCCc--cccceEEEEEccCcceEEecCCcccccccccccchhhhcccccccCcccc
Q 002685 61 DSLTLEPDRPYSIGRASINCDFTFDNRL--VSRQHCQILFDSSERKIYVLDGTFLLPAFSSVVNEFRKKRDKSLEDEEED 138 (893)
Q Consensus 61 ~~i~L~~~~~ytIGR~~~~cDivi~d~~--VSr~Ha~I~fd~~~~~iy~~~g~~~~~~~~~~v~~~r~~~~~~i~D~~~~ 138 (893)
..+.+..+ .++|||++ +||++|+|+. ||++||+|.++ +| .| +|+|
T Consensus 17 ~~~~f~~~-~~~IGR~~-~~d~~l~d~~~~VS~~Ha~I~~~---------~g------------~~------~l~D---- 63 (396)
T TIGR03354 17 AQKTFGTN-GGTIGRSE-DCDWVLPDPERHVSGRHARIRYR---------DG------------AY------LLTD---- 63 (396)
T ss_pred eEEEECCC-CEEEecCC-CCCEEeCCCCCCcchhhcEEEEE---------CC------------EE------EEEE----
Confidence 36777764 59999999 9999999998 99999999954 23 25 7889
Q ss_pred cccccccccccceEEC--CEEccCCCeeeCCCCCEEEE
Q 002685 139 EGFSRVMVSLNGVFVN--GIRLKSGIVRELNAGDEVLF 174 (893)
Q Consensus 139 ~~L~~~~~S~NGTfVN--G~RI~k~~~~~L~~GD~I~~ 174 (893)
.|+|||||| |.+|.++..+.|.+||+|.|
T Consensus 64 -------lStNGT~VN~sg~~l~~~~~~~L~~GD~I~i 94 (396)
T TIGR03354 64 -------LSTNGVFLNGSGSPLGRGNPVRLEQGDRLRL 94 (396)
T ss_pred -------CCCCCeEECCCCCCCCCCCceEcCCCCEEEE
Confidence 599999999 99999988889999999999
No 6
>KOG1882 consensus Transcriptional regulator SNIP1, contains FHA domain [Signal transduction mechanisms]
Probab=98.95 E-value=4.8e-10 Score=117.41 Aligned_cols=97 Identities=25% Similarity=0.254 Sum_probs=78.3
Q ss_pred CCcceeEEecCCCCEEEcCCCCCCCEEecCCccccceEEEEEccCcceEEecCCcccccccccccchhhhcccccccCcc
Q 002685 57 GSPVDSLTLEPDRPYSIGRASINCDFTFDNRLVSRQHCQILFDSSERKIYVLDGTFLLPAFSSVVNEFRKKRDKSLEDEE 136 (893)
Q Consensus 57 g~~~~~i~L~~~~~ytIGR~~~~cDivi~d~~VSr~Ha~I~fd~~~~~iy~~~g~~~~~~~~~~v~~~r~~~~~~i~D~~ 136 (893)
++++..+.+.....|.+||...-.||-|++|..|+|||+|+|......- .||+ ..+++..+|.|
T Consensus 182 ~e~l~~l~iHrqs~yL~gRerkIaDi~idhpScSKQHaviQyR~v~~~r--~dGt------------~grrvkpYiiD-- 245 (293)
T KOG1882|consen 182 YEVLPVLYIHRQSCYLDGRERKIADIPIDHPSCSKQHAVIQYRLVEFTR--ADGT------------VGRRVKPYIID-- 245 (293)
T ss_pred CcccchheeeeeeeeecCceeeeeccCCCCccccccceeeeeeeccccc--CCCc------------cceeeeeEEEe--
Confidence 4444566777778899999888899999999999999999997654322 4652 33445557889
Q ss_pred cccccccccccccceEECCEEccCCCeeeCCCCCEEEEEeC
Q 002685 137 EDEGFSRVMVSLNGVFVNGIRLKSGIVRELNAGDEVLFVCR 177 (893)
Q Consensus 137 ~~~~L~~~~~S~NGTfVNG~RI~k~~~~~L~~GD~I~~~~g 177 (893)
| +|+||||+|..+|...++.+|..+|+|.|+..
T Consensus 246 ----L----gS~NgTfLNnk~IepqRYyEL~ekDvlkfgfs 278 (293)
T KOG1882|consen 246 ----L----GSGNGTFLNNKVIEPQRYYELREKDVLKFGFS 278 (293)
T ss_pred ----c----CCCCcceecCcccCchheeeeecCceeeeccc
Confidence 4 99999999999999999999999999999543
No 7
>COG1716 FOG: FHA domain [Signal transduction mechanisms]
Probab=98.94 E-value=2.8e-09 Score=106.59 Aligned_cols=68 Identities=32% Similarity=0.510 Sum_probs=57.8
Q ss_pred CCEEEcCCCCCCCEEecCCccccceEEEEEccCcceEEecCCcccccccccccchhhhcccccccCcccccccccccccc
Q 002685 69 RPYSIGRASINCDFTFDNRLVSRQHCQILFDSSERKIYVLDGTFLLPAFSSVVNEFRKKRDKSLEDEEEDEGFSRVMVSL 148 (893)
Q Consensus 69 ~~ytIGR~~~~cDivi~d~~VSr~Ha~I~fd~~~~~iy~~~g~~~~~~~~~~v~~~r~~~~~~i~D~~~~~~L~~~~~S~ 148 (893)
..++|||++ ++|+++++..|||+||.|..+. + ++ +++| | .|+
T Consensus 89 ~~~tigr~~-~~~i~~~~~~vSR~Ha~l~~~~--------~-------------~~------~~~d------~----~S~ 130 (191)
T COG1716 89 PVTTIGRDP-DNDIVLDDDVVSRRHAELRREG--------N-------------EV------FLED------L----GST 130 (191)
T ss_pred ceEEeccCC-CCCEEcCCCccccceEEEEEeC--------C-------------ce------EEEE------C----CCC
Confidence 479999998 9999999999999999998432 2 23 6778 4 899
Q ss_pred cceEECCEEccCCCeeeCCCCCEEEEEe
Q 002685 149 NGVFVNGIRLKSGIVRELNAGDEVLFVC 176 (893)
Q Consensus 149 NGTfVNG~RI~k~~~~~L~~GD~I~~~~ 176 (893)
|||||||.++... +.|.+||.|.|+.
T Consensus 131 nGt~vn~~~v~~~--~~l~~gd~i~i~~ 156 (191)
T COG1716 131 NGTYVNGEKVRQR--VLLQDGDVIRLGG 156 (191)
T ss_pred cceEECCeEccCc--EEcCCCCEEEECc
Confidence 9999999999973 6799999999943
No 8
>PLN02927 antheraxanthin epoxidase/zeaxanthin epoxidase
Probab=98.70 E-value=2.2e-08 Score=119.52 Aligned_cols=97 Identities=23% Similarity=0.390 Sum_probs=71.4
Q ss_pred CCCCcceeEEec--CCCCEEEcCCCCCCCE-----EecCCccccceEEEEEccCcceEEecCCcccccccccccchhhhc
Q 002685 55 ATGSPVDSLTLE--PDRPYSIGRASINCDF-----TFDNRLVSRQHCQILFDSSERKIYVLDGTFLLPAFSSVVNEFRKK 127 (893)
Q Consensus 55 ~~g~~~~~i~L~--~~~~ytIGR~~~~cDi-----vi~d~~VSr~Ha~I~fd~~~~~iy~~~g~~~~~~~~~~v~~~r~~ 127 (893)
..+...+.+.|. .+.+++|||.+ +||+ ||+++.||++||+|.+ .++ .|
T Consensus 541 ~~~~~~~~~~l~~~~~~p~~iG~~~-~~~~~~~~i~i~~~~vS~~Ha~i~~---------~~~------------~~--- 595 (668)
T PLN02927 541 DDCCVSETLCLTKDEDQPCIVGSEP-DQDFPGMRIVIPSSQVSKMHARVIY---------KDG------------AF--- 595 (668)
T ss_pred CCCcccceeeeecCCCCCeEecCCC-CcCCCCceEEecCCccChhHeEEEE---------ECC------------EE---
Confidence 334444567772 23689999999 9996 9999999999999984 344 25
Q ss_pred ccccccCcccccccccccccccceEECCEE---cc--CCCeeeCCCCCEEEEEeCCCccccccceeEEEEEEEEE
Q 002685 128 RDKSLEDEEEDEGFSRVMVSLNGVFVNGIR---LK--SGIVRELNAGDEVLFVCRDESLCRLQTRIGFLILGIIF 197 (893)
Q Consensus 128 ~~~~i~D~~~~~~L~~~~~S~NGTfVNG~R---I~--k~~~~~L~~GD~I~~~~g~~~~~~~~~~igf~v~~i~~ 197 (893)
+|+| | +|+|||||||.+ |. .+.++.|++||+|.|+-.++ +.|.|+.+..
T Consensus 596 ---~~~D------l----~S~nGT~v~~~~~~r~~~~p~~~~~l~~~d~I~~g~~~~--------~~fr~~~~~~ 649 (668)
T PLN02927 596 ---FLMD------L----RSEHGTYVTDNEGRRYRATPNFPARFRSSDIIEFGSDKK--------AAFRVKVIRK 649 (668)
T ss_pred ---EEEE------C----CCCCccEEeCCCCceEecCCCCceEeCCCCEEEeCCCcc--------eeEEEEeecC
Confidence 8999 4 999999996665 54 45568899999999944322 2466665543
No 9
>smart00240 FHA Forkhead associated domain. Found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain.
Probab=98.68 E-value=2.9e-08 Score=79.79 Aligned_cols=52 Identities=44% Similarity=0.800 Sum_probs=42.8
Q ss_pred EEEcCCCCCCCEEecCCccccceEEEEEccCcceEEecCCcccccccccccchhhhcccccccCcccccccccccccccc
Q 002685 71 YSIGRASINCDFTFDNRLVSRQHCQILFDSSERKIYVLDGTFLLPAFSSVVNEFRKKRDKSLEDEEEDEGFSRVMVSLNG 150 (893)
Q Consensus 71 ytIGR~~~~cDivi~d~~VSr~Ha~I~fd~~~~~iy~~~g~~~~~~~~~~v~~~r~~~~~~i~D~~~~~~L~~~~~S~NG 150 (893)
++|||.+..||++++++.||+.||.|.++.. + .| +++| + .|+||
T Consensus 1 ~~iGr~~~~~~i~~~~~~vs~~H~~i~~~~~--------~------------~~------~i~d------~----~s~~g 44 (52)
T smart00240 1 VTIGRSSEDCDIQLPGPSISRRHAEIVYDGG--------G------------RF------YLID------L----GSTNG 44 (52)
T ss_pred CEeCCCCCCCCEEeCCCCcchhHcEEEECCC--------C------------eE------EEEE------C----CCCCC
Confidence 4799998679999999999999999997532 1 13 6778 2 67999
Q ss_pred eEECCEEc
Q 002685 151 VFVNGIRL 158 (893)
Q Consensus 151 TfVNG~RI 158 (893)
|||||++|
T Consensus 45 t~vng~~v 52 (52)
T smart00240 45 TFVNGKRI 52 (52)
T ss_pred eeECCEEC
Confidence 99999986
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=98.38 E-value=3.9e-07 Score=102.45 Aligned_cols=71 Identities=42% Similarity=0.753 Sum_probs=59.5
Q ss_pred EecCCCCEEEcCCCCCCCEEecC--CccccceEEEEEccCcceEEecCCcccccccccccchhhhcccccccCccccccc
Q 002685 64 TLEPDRPYSIGRASINCDFTFDN--RLVSRQHCQILFDSSERKIYVLDGTFLLPAFSSVVNEFRKKRDKSLEDEEEDEGF 141 (893)
Q Consensus 64 ~L~~~~~ytIGR~~~~cDivi~d--~~VSr~Ha~I~fd~~~~~iy~~~g~~~~~~~~~~v~~~r~~~~~~i~D~~~~~~L 141 (893)
.+.. +...|||++ +||-+|+| +.||++||.|.++ +|. | +|+|
T Consensus 22 ~f~~-~~g~IGrs~-dcdW~i~D~~~~VS~~Hc~I~~~---------dg~------------f------~L~D------- 65 (430)
T COG3456 22 LFDR-GGGVIGRSP-DCDWQIDDPERFVSKQHCTISYR---------DGG------------F------CLTD------- 65 (430)
T ss_pred hhhc-CCcccccCC-CCCccccCcccccchhheEEEec---------CCe------------E------EEEe-------
Confidence 3433 347999999 99999997 6899999999953 442 6 8899
Q ss_pred ccccccccceEECCEEccCCCe-eeCCCCCEEEE
Q 002685 142 SRVMVSLNGVFVNGIRLKSGIV-RELNAGDEVLF 174 (893)
Q Consensus 142 ~~~~~S~NGTfVNG~RI~k~~~-~~L~~GD~I~~ 174 (893)
.|.|||||||..+..|.. ..|+.||+|.|
T Consensus 66 ----tS~g~l~VNgs~~~~g~~~~RLqqGd~i~i 95 (430)
T COG3456 66 ----TSNGGLLVNGSDLPLGEGSARLQQGDEILI 95 (430)
T ss_pred ----cCCCceeecccccCCCCCccccccCCEEee
Confidence 789999999999987766 88999999999
No 11
>KOG1881 consensus Anion exchanger adaptor protein Kanadaptin, contains FHA domain [General function prediction only]
Probab=97.90 E-value=3.8e-06 Score=99.22 Aligned_cols=93 Identities=23% Similarity=0.365 Sum_probs=74.0
Q ss_pred CCCCcceeEEecCCCCEEEcCCCCCCCEEecCCccccceEEEEEccCcceEEecCCcccccccccccchhhhcccccccC
Q 002685 55 ATGSPVDSLTLEPDRPYSIGRASINCDFTFDNRLVSRQHCQILFDSSERKIYVLDGTFLLPAFSSVVNEFRKKRDKSLED 134 (893)
Q Consensus 55 ~~g~~~~~i~L~~~~~ytIGR~~~~cDivi~d~~VSr~Ha~I~fd~~~~~iy~~~g~~~~~~~~~~v~~~r~~~~~~i~D 134 (893)
..|..+++.+|.....|+|||.. .||+.+.||.|||.||.|.+.... .++ |-.+--+ .| +|.|
T Consensus 163 Keg~iiet~~l~~~~~~~fgr~~-~cD~~~eHpsISr~h~vlQy~~~~-----~~~----p~~s~~~-g~------~i~d 225 (793)
T KOG1881|consen 163 KEGAIIETEDLKGAAACLFGRLG-GCDVALEHPSISRFHAVLQYKASG-----PDD----PCASNGE-GW------YIYD 225 (793)
T ss_pred ccCceeeeeecccceeEEecccC-CCccccccCcccccceeeeccCCC-----CCc----cccCCCC-ce------EEee
Confidence 35778889999988889999999 999999999999999999965432 121 0000001 14 7778
Q ss_pred cccccccccccccccceEECCEEccCCCeeeCCCCCEEEE
Q 002685 135 EEEDEGFSRVMVSLNGVFVNGIRLKSGIVRELNAGDEVLF 174 (893)
Q Consensus 135 ~~~~~~L~~~~~S~NGTfVNG~RI~k~~~~~L~~GD~I~~ 174 (893)
| +|+.|||+|..||.+..+..++.|+++.|
T Consensus 226 ------l----gsThgt~~NK~rvppk~yir~~Vg~v~~f 255 (793)
T KOG1881|consen 226 ------L----GSTHGTFLNKDRVPPKVYIRDRVGHVARF 255 (793)
T ss_pred ------c----cccccceeccccCCCcchhhhhHHHHHHh
Confidence 4 99999999999999999999999999988
No 12
>KOG0615 consensus Serine/threonine protein kinase Chk2 and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=97.76 E-value=2e-05 Score=89.14 Aligned_cols=90 Identities=33% Similarity=0.469 Sum_probs=67.9
Q ss_pred eeEEecCCCCEEEcCCCCCCCEEecCCccccceEEEEEccCcceEE-ecCCcccccccccccchhhhcccccccCccccc
Q 002685 61 DSLTLEPDRPYSIGRASINCDFTFDNRLVSRQHCQILFDSSERKIY-VLDGTFLLPAFSSVVNEFRKKRDKSLEDEEEDE 139 (893)
Q Consensus 61 ~~i~L~~~~~ytIGR~~~~cDivi~d~~VSr~Ha~I~fd~~~~~iy-~~~g~~~~~~~~~~v~~~r~~~~~~i~D~~~~~ 139 (893)
..+.+..+ .|++||.+ .||++++...+|..|..+.+-....++. ..++ .=+.+ +++++|
T Consensus 57 ~~~d~~nd-~f~fGR~~-~~d~~ln~~~~s~~~~~i~~~~~~~~~~f~~dr---------~~~sn----~~y~~D----- 116 (475)
T KOG0615|consen 57 KSIDLAND-EFTFGRGD-SCDAPLNLNNVSNKHFKILLYNKISKIHFRIDR---------DKNSN----RVYLHD----- 116 (475)
T ss_pred ccceeccc-eEEecCCC-cccccccCccccccchheeeeeeeeeeeecccC---------CCccc----eEEEEe-----
Confidence 45666654 69999999 9999999999999999988642211221 1111 10111 448889
Q ss_pred ccccccccccceEECCEEccCCCeeeCCCCCEEEEEe
Q 002685 140 GFSRVMVSLNGVFVNGIRLKSGIVRELNAGDEVLFVC 176 (893)
Q Consensus 140 ~L~~~~~S~NGTfVNG~RI~k~~~~~L~~GD~I~~~~ 176 (893)
.|+||||||-++++++..++|++||+|.|..
T Consensus 117 ------hS~nGT~VN~e~i~k~~~r~lkN~dei~is~ 147 (475)
T KOG0615|consen 117 ------HSRNGTFVNDEMIGKGLSRILKNGDEISISI 147 (475)
T ss_pred ------cccCcccccHhHhhccccccccCCCEEEecc
Confidence 7999999999999999999999999999844
No 13
>KOG1880 consensus Nuclear inhibitor of phosphatase-1 [General function prediction only]
Probab=97.17 E-value=0.00015 Score=78.91 Aligned_cols=86 Identities=24% Similarity=0.348 Sum_probs=67.9
Q ss_pred CCCcceeEEecCCCCEEEcCCCCCCCEEecCCccccceEEEEEccCcceEEecCCcccccccccccchhhhcccccccCc
Q 002685 56 TGSPVDSLTLEPDRPYSIGRASINCDFTFDNRLVSRQHCQILFDSSERKIYVLDGTFLLPAFSSVVNEFRKKRDKSLEDE 135 (893)
Q Consensus 56 ~g~~~~~i~L~~~~~ytIGR~~~~cDivi~d~~VSr~Ha~I~fd~~~~~iy~~~g~~~~~~~~~~v~~~r~~~~~~i~D~ 135 (893)
++.+.+.+.+. ++.|.+||.+..||++|++..+||+|+-+.+- ..+ + ++++.|
T Consensus 26 d~li~kl~idd-kr~y~Fgrn~q~~df~idh~scSrvhaa~vyh--------khl-----------~------~~~lid- 78 (337)
T KOG1880|consen 26 DKLIQKLIIDD-KRRYLFGRNHQTCDFVIDHASCSRVHAALVYH--------KHL-----------S------RIFLID- 78 (337)
T ss_pred chhHHHHHhhh-hhhhhhccCCCccceEeecchhhhhHhhhhhh--------hcc-----------c------eEEEEE-
Confidence 45444555555 46799999999999999999999999987731 111 1 126778
Q ss_pred ccccccccccccccceEECCEEccCCCeeeCCCCCEEEEEeC
Q 002685 136 EEDEGFSRVMVSLNGVFVNGIRLKSGIVRELNAGDEVLFVCR 177 (893)
Q Consensus 136 ~~~~~L~~~~~S~NGTfVNG~RI~k~~~~~L~~GD~I~~~~g 177 (893)
| +|+-|||+...|++..+.++|..|-...|+.+
T Consensus 79 -----l----~s~hgtf~g~~rL~~~~p~~l~i~~~~~fgas 111 (337)
T KOG1880|consen 79 -----L----GSTHGTFLGNERLEPHKPVQLEIGSTFHFGAS 111 (337)
T ss_pred -----c----cCCcceeeeeeeeccCCCccccCCceEEEecc
Confidence 4 89999999999999999999999999999554
No 14
>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=95.70 E-value=0.026 Score=64.70 Aligned_cols=46 Identities=22% Similarity=0.455 Sum_probs=38.6
Q ss_pred eeEEecC-CCCcceeEEecCCCCEEEc-CCCCCCCEEecCCccccceEEEEEc
Q 002685 49 LPLVSTA-TGSPVDSLTLEPDRPYSIG-RASINCDFTFDNRLVSRQHCQILFD 99 (893)
Q Consensus 49 ~~lis~~-~g~~~~~i~L~~~~~ytIG-R~~~~cDivi~d~~VSr~Ha~I~fd 99 (893)
+-++++. .|. .+.|.+++ ++|| |++ +||+++.|+.||++|+.|..+
T Consensus 3 lrvl~G~~~G~---~~~L~~g~-~~iG~~~~-~~di~L~d~~~~~~h~~l~v~ 50 (410)
T TIGR02500 3 LRVLSGPHRGA---ELPLPEGN-LVLGTDAA-DCDIVLSDGGIAAVHVSLHVR 50 (410)
T ss_pred EEEecCCCCCc---EEECCCCc-eEeccCCC-CcEEEeCCCCccchheEEEEc
Confidence 4566677 565 67888875 9999 998 999999999999999999854
No 15
>PF06087 Tyr-DNA_phospho: Tyrosyl-DNA phosphodiesterase; InterPro: IPR010347 Covalent intermediates between topoisomerase I and DNA can become dead-end complexes that lead to cell death. Tyrosyl-DNA phosphodiesterase can hydrolyse the bond between topoisomerase I and DNA [].; GO: 0008081 phosphoric diester hydrolase activity, 0006281 DNA repair, 0005634 nucleus; PDB: 3SQ8_A 3SQ5_B 3SQ3_A 1Q32_D 3SQ7_A 1QZQ_A 1RGU_B 1RG2_B 1MU9_B 1RFI_B ....
Probab=95.67 E-value=0.0067 Score=70.10 Aligned_cols=76 Identities=32% Similarity=0.445 Sum_probs=54.6
Q ss_pred cCCCh-hHHHhhhchhhHHHHHHHHHHhHh-----------------------hhchhhHHHHhhccCCCc----ccccc
Q 002685 796 QGPKF-SDISKMMQIEHVVALSSLIASIQR-----------------------CRGLWRLQEVLGQYRWPE----LQESD 847 (893)
Q Consensus 796 ~~~~f-~~~~~~~~~~~~~~~~~~~~~~~~-----------------------~~~~~~~~~~~~~~~~~~----~~~~~ 847 (893)
.+.+| .++...+..........|+..|++ .+|+.||.++|.++.++. ..+.+
T Consensus 156 ~~~~F~~dL~~yL~~y~~~~~~~~~~~l~~yDFS~~~v~lV~SvPG~h~~~~~~~G~~~L~~~L~~~~~~~~~~~~~~~~ 235 (443)
T PF06087_consen 156 SGSRFKKDLVAYLNSYGKSPLDKLIERLRKYDFSSARVHLVASVPGKHKEDKDKWGHMRLRKVLKRLGLPSNKDKDKESD 235 (443)
T ss_dssp STTHHHHHHHHHHHTT--HHHHHCHHHHHTEE-CCGTSEEEEE-SECCCGGGGGSHHHHHHHHHHHCCTT---TTCCCCE
T ss_pred CCCchHHHHHHHHHHhCCcchhHHHHHHHhcCCccCceEEEeccCccccCCCcchhHHHHHHHHHhccccccCCcCCCCe
Confidence 57777 456666655554445556666655 599999999999999987 88999
Q ss_pred eeeeccCcccc--------cHHHHHHHHHhhc
Q 002685 848 FSYGSSSIGSI--------NAQFLAAFAAASG 871 (893)
Q Consensus 848 ~~~~~~~~~~~--------~~~~~~~~~~~~~ 871 (893)
|+|-+|||||. +..|+.+++.++.
T Consensus 236 ~~~Q~SSIGs~~~~~~~Wl~~~f~~sl~~~~~ 267 (443)
T PF06087_consen 236 IVCQFSSIGSLGSSPKDWLTSEFLTSLYPASF 267 (443)
T ss_dssp EEEE-SBB---SSSTTTTTTTHHHHHCCHHCC
T ss_pred EEEEcccccccCcchhhhHHHHHHHHHhhccc
Confidence 99999999977 6779998888775
No 16
>TIGR01663 PNK-3'Pase polynucleotide 5'-kinase 3'-phosphatase. Note that the EC number for the kinase function is: 2.7.1.78
Probab=91.51 E-value=0.34 Score=57.75 Aligned_cols=79 Identities=22% Similarity=0.274 Sum_probs=63.1
Q ss_pred eeEEecCCCCEEEcCCCCCCCEEecCCccccceEEEEEccCcceEEecCCcccccccccccchhhhcccccccCcccccc
Q 002685 61 DSLTLEPDRPYSIGRASINCDFTFDNRLVSRQHCQILFDSSERKIYVLDGTFLLPAFSSVVNEFRKKRDKSLEDEEEDEG 140 (893)
Q Consensus 61 ~~i~L~~~~~ytIGR~~~~cDivi~d~~VSr~Ha~I~fd~~~~~iy~~~g~~~~~~~~~~v~~~r~~~~~~i~D~~~~~~ 140 (893)
..|+|.. ....|||.| +..|.|..-||+..++.-|-.. | + |.+.- +
T Consensus 25 ~~~~~~~-~~~~~gr~p---et~i~d~~cs~~qv~l~a~~~~-------~-------------~-----v~~k~----l- 70 (526)
T TIGR01663 25 HFIHLDA-GALFLGRGP---ETGIRDRKCSKRQIELQADLEK-------A-------------T-----VALKQ----L- 70 (526)
T ss_pred CeeccCC-CceEEccCc---ccccchhhhchhhheeeecccC-------c-------------e-----EEEEE----c-
Confidence 4778775 568899999 7788899999999998865332 1 1 24444 3
Q ss_pred cccccccccceEECCEEccCCCeeeCCCCCEEEEEeCCC
Q 002685 141 FSRVMVSLNGVFVNGIRLKSGIVRELNAGDEVLFVCRDE 179 (893)
Q Consensus 141 L~~~~~S~NGTfVNG~RI~k~~~~~L~~GD~I~~~~g~~ 179 (893)
..|-+-|||+-+.++...+|++||.+.|+.|..
T Consensus 71 ------g~np~~~~~~~~~~~~~~~l~~g~~l~~v~~~~ 103 (526)
T TIGR01663 71 ------GVNPCGTGGLELKPGGEGELGHGDLLEIVNGLH 103 (526)
T ss_pred ------cCCCcccCceEecCCCeeeecCCCEEEEecccc
Confidence 459999999999999999999999999988764
No 17
>KOG0245 consensus Kinesin-like protein [Cytoskeleton]
Probab=91.33 E-value=0.51 Score=59.26 Aligned_cols=76 Identities=24% Similarity=0.405 Sum_probs=53.4
Q ss_pred eEEecCCCCEEEcCCC--CCCCEEecCCccccceEEEEEccCcceEEecCCcccccccccccchhhhcccccccCccccc
Q 002685 62 SLTLEPDRPYSIGRAS--INCDFTFDNRLVSRQHCQILFDSSERKIYVLDGTFLLPAFSSVVNEFRKKRDKSLEDEEEDE 139 (893)
Q Consensus 62 ~i~L~~~~~ytIGR~~--~~cDivi~d~~VSr~Ha~I~fd~~~~~iy~~~g~~~~~~~~~~v~~~r~~~~~~i~D~~~~~ 139 (893)
.+.+-++...+|||.+ ...||+++-..|--+||.|.-++... + |.-- -.+|
T Consensus 470 LlY~ikeG~TrVG~~~a~~~~DI~LsG~~I~~qHC~i~~~~g~~-~---------------vtl~------p~e~----- 522 (1221)
T KOG0245|consen 470 LLYYIKEGETRVGREDASSRQDIVLSGQLIREQHCSIRNEGGND-V---------------VTLE------PCED----- 522 (1221)
T ss_pred EEEEeccCceecCCCCcccCCceEecchhhhhhceEEEecCCCc-e---------------EEec------cCCc-----
Confidence 3444455678999876 46899999999999999998332210 0 0000 2233
Q ss_pred ccccccccccceEECCEEccCCCeeeCCCCCEEEEE
Q 002685 140 GFSRVMVSLNGVFVNGIRLKSGIVRELNAGDEVLFV 175 (893)
Q Consensus 140 ~L~~~~~S~NGTfVNG~RI~k~~~~~L~~GD~I~~~ 175 (893)
--|||||..|..- ..|+.||+|.++
T Consensus 523 ---------aetyVNGk~v~ep--~qL~~GdRiilG 547 (1221)
T KOG0245|consen 523 ---------AETYVNGKLVTEP--TQLRSGDRIILG 547 (1221)
T ss_pred ---------cceeEccEEcCCc--ceeccCCEEEEc
Confidence 3499999999974 579999999993
No 18
>PF08797 HIRAN: HIRAN domain; InterPro: IPR014905 The HIRAN protein (HIP116, Rad5p N-terminal) is found in the N-terminal regions of the SWI2/SNF2 proteins typified by HIP116 and Rad5p. HIRAN is found as a standalone protein in several bacteria and prophages, or fused to other catalytic domains, such as a nuclease of the restriction endonuclease fold and TDP1-like DNA phosphoesterases, in the eukaryotes []. It has been predicted that this protein functions as a DNA-binding domain that probably recognises features associated with damaged DNA or stalled replication forks [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides; PDB: 2L1I_A 3K2Y_C.
Probab=87.15 E-value=0.1 Score=48.80 Aligned_cols=63 Identities=35% Similarity=0.592 Sum_probs=44.6
Q ss_pred hhhccCCCCCCCCCCeEEEecCCCcccCCceeeccCcchhcccccCCCCCcccceeecccchHHH
Q 002685 712 ILLRRNTNVPADANAVSVLVPNPDELSDGDCIQLGFMPRDIAKWVSPLWDIGFIRFSGFISRDEV 776 (893)
Q Consensus 712 ~v~~sn~n~P~~~~~~~IIfPT~deVrsg~skQL~fL~~~l~kW~s~~~D~~~~~f~g~~~p~~~ 776 (893)
..+.+..+.|.|.+++++.....-.... ..++|||++..++|.+++-|.+.+.|.|.+...+.
T Consensus 29 v~L~re~~N~~D~nAi~v~~~~~~~~~~--~~~iGylp~~~a~~l~~Lld~~~~~~~~~v~~~~~ 91 (107)
T PF08797_consen 29 VVLVREPDNPYDPNAIKVYTIDRFSNSR--GREIGYLPREIAKWLSPLLDSGGVKFEGTVVFVPD 91 (107)
T ss_dssp EEEEEETT-TTHCCCCCEEETT--------BGCCCCCHHHHHHHHHHHCCT-TEEEEEEEECCCT
T ss_pred EEEEEcCCCCCCcccEEEEEeecccccC--CCEEEEecHHHHHHHHHHHhCCCcEEEEEEEECCc
Confidence 4445555666678888888877532222 24899999999999999999999999999876555
No 19
>KOG2293 consensus Daxx-interacting protein MSP58/p78, contains FHA domain [Transcription; Signal transduction mechanisms]
Probab=80.22 E-value=4 Score=48.50 Aligned_cols=74 Identities=23% Similarity=0.302 Sum_probs=54.1
Q ss_pred EecCCCCEEEcCCCCCCCEEec------CCccccceEEEEEccCcceEEecCCcccccccccccchhhhcccccccCccc
Q 002685 64 TLEPDRPYSIGRASINCDFTFD------NRLVSRQHCQILFDSSERKIYVLDGTFLLPAFSSVVNEFRKKRDKSLEDEEE 137 (893)
Q Consensus 64 ~L~~~~~ytIGR~~~~cDivi~------d~~VSr~Ha~I~fd~~~~~iy~~~g~~~~~~~~~~v~~~r~~~~~~i~D~~~ 137 (893)
++...+.+++||+..+|-+=|| .-.|||+.++|... .+| -| +|..
T Consensus 443 h~mrk~EVtlGRat~d~~VDIDLgkegpatKISRRQa~IkL~--------n~G------------sF------~IkN--- 493 (547)
T KOG2293|consen 443 HYMRKKEVTLGRATGDLKVDIDLGKEGPATKISRRQALIKLK--------NDG------------SF------FIKN--- 493 (547)
T ss_pred hhhcCcceEeeccCCCcceeeeccccCccceeeccceeEEec--------cCC------------cE------Eecc---
Confidence 3444578999999976666555 36899999998731 344 25 6766
Q ss_pred ccccccccccccceEECCEEccCCCeeeCCCCCEEEE
Q 002685 138 DEGFSRVMVSLNGVFVNGIRLKSGIVRELNAGDEVLF 174 (893)
Q Consensus 138 ~~~L~~~~~S~NGTfVNG~RI~k~~~~~L~~GD~I~~ 174 (893)
+ ..--.||||.+|..|+.+.|++.-.|.|
T Consensus 494 -l-------GK~~I~vng~~l~~gq~~~L~~nclveI 522 (547)
T KOG2293|consen 494 -L-------GKRSILVNGGELDRGQKVILKNNCLVEI 522 (547)
T ss_pred -C-------cceeEEeCCccccCCceEEeccCcEEEE
Confidence 3 3355899999999999988887777766
No 20
>KOG1892 consensus Actin filament-binding protein Afadin [Cytoskeleton]
Probab=73.09 E-value=10 Score=47.97 Aligned_cols=85 Identities=20% Similarity=0.338 Sum_probs=58.9
Q ss_pred EEecCCCCcc-eeEEecCCCCEEEcCCC-CCCCEEecCCccccceEEEEEccCcceEEecCCcccccccccccchhhhcc
Q 002685 51 LVSTATGSPV-DSLTLEPDRPYSIGRAS-INCDFTFDNRLVSRQHCQILFDSSERKIYVLDGTFLLPAFSSVVNEFRKKR 128 (893)
Q Consensus 51 lis~~~g~~~-~~i~L~~~~~ytIGR~~-~~cDivi~d~~VSr~Ha~I~fd~~~~~iy~~~g~~~~~~~~~~v~~~r~~~ 128 (893)
+.-+.+|.-- ..|.|..+ +.-+|-.. .++.|.+.-|.|-.+||-|.+ .+||.
T Consensus 360 ve~s~dG~~s~~ri~L~~~-vtEVGs~~~~~~~iqLfGP~IqprHc~it~---------meGVv---------------- 413 (1629)
T KOG1892|consen 360 VELSPDGSDSRKRIRLQLS-VTEVGSEKLDDNSIQLFGPGIQPRHCDITN---------MEGVV---------------- 413 (1629)
T ss_pred EEEcCCCCCcceeEEeccC-ceeccccccCCcceeeeCCCCCccccchhh---------ccceE----------------
Confidence 3334455432 56777764 56788877 346899999999999998873 45632
Q ss_pred cccccCcccccccccccccc-cceEECCEEccCCCeeeCCCCCEEEEEe
Q 002685 129 DKSLEDEEEDEGFSRVMVSL-NGVFVNGIRLKSGIVRELNAGDEVLFVC 176 (893)
Q Consensus 129 ~~~i~D~~~~~~L~~~~~S~-NGTfVNG~RI~k~~~~~L~~GD~I~~~~ 176 (893)
.++- .++ -=|||||.+|..- ..|..|+.|.|+.
T Consensus 414 --TvTP-----------~~~DA~t~VnGh~isqt--tiL~~G~~v~fGa 447 (1629)
T KOG1892|consen 414 --TVTP-----------RSMDAETYVNGHRISQT--TILQSGMKVQFGA 447 (1629)
T ss_pred --Eecc-----------cccchhhhccceecchh--hhhccCCEEEecc
Confidence 2222 122 3499999999874 6799999999953
No 21
>PF00614 PLDc: Phospholipase D Active site motif; InterPro: IPR001736 Phosphatidylcholine-hydrolysing phospholipase D (PLD) isoforms are activated by ADP-ribosylation factors (ARFs). PLD produces phosphatidic acid from phosphatidylcholine, which may be essential for the formation of certain types of transport vesicles or may be constitutive vesicular transport to signal transduction pathways. PC-hydrolysing PLD is a homologue of cardiolipin synthase, phosphatidylserine synthase, bacterial PLDs, and viral proteins. Each of these appears to possess a domain duplication which is apparent by the presence of two motifs containing well-conserved histidine, lysine, and/or asparagine residues which may contribute to the active site aspartic acid. An Escherichia coli endonuclease (nuc) and similar proteins appear to be PLD homologues but possess only one of these motifs [, , , ].; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 3HSI_C.
Probab=71.96 E-value=3 Score=31.12 Aligned_cols=24 Identities=33% Similarity=0.468 Sum_probs=13.8
Q ss_pred ccccceEEEEEeCCcEEEEEeCCCCCH
Q 002685 525 ACHHPKLFVLQREDSIRVIVTSANLGA 551 (893)
Q Consensus 525 GtHHSKMmIL~Y~D~LRVVI~TANLi~ 551 (893)
++||+|++++--+ +..|.++||..
T Consensus 3 ~~~H~K~~vvD~~---~a~vGg~nl~~ 26 (28)
T PF00614_consen 3 GSHHQKFVVVDDR---VAFVGGANLCD 26 (28)
T ss_dssp BEE---EEEETTT---EEEEE---SSH
T ss_pred cceeeEEEEEcCC---EEEECceecCC
Confidence 4899999998433 88999999864
No 22
>smart00155 PLDc Phospholipase D. Active site motifs. Phosphatidylcholine-hydrolyzing phospholipase D (PLD) isoforms are activated by ADP-ribosylation factors (ARFs). PLD produces phosphatidic acid from phosphatidylcholine, which may be essential for the formation of certain types of transport vesicles or may be constitutive vesicular transport to signal transduction pathways. PC-hydrolysing PLD is a homologue of cardiolipin synthase, phosphatidylserine synthase, bacterial PLDs, and viral proteins. Each of these appears to possess a domain duplication which is apparent by the presence of two motifs containing well-conserved histidine, lysine, aspartic acid, and/or asparagine residues which may contribute to the active site. An E. coli endonuclease (nuc) and similar proteins appear to be PLD homologues but possess only one of these motifs. The profile contained here represents only the putative active site regions, since an accurate multiple alignment of the repeat units has not be
Probab=69.95 E-value=4.4 Score=29.55 Aligned_cols=24 Identities=29% Similarity=0.394 Sum_probs=19.5
Q ss_pred ccccceEEEEEeCCcEEEEEeCCCCCH
Q 002685 525 ACHHPKLFVLQREDSIRVIVTSANLGA 551 (893)
Q Consensus 525 GtHHSKMmIL~Y~D~LRVVI~TANLi~ 551 (893)
+.+|+|+|+.-. -.++|.|+||..
T Consensus 3 ~~~H~K~~v~D~---~~~~iGs~N~~~ 26 (28)
T smart00155 3 GVLHTKLMIVDD---EIAYIGSANLDG 26 (28)
T ss_pred CcEEeEEEEEcC---CEEEEeCccCCC
Confidence 479999999844 379999999964
No 23
>cd00138 PLDc Phospholipase D. Active site motifs; The PLD superfamily includes enzymes involved in signal transduction, lipid biosynthesis, endonucleases and open reading frames in pathogenic viruses and bacteria. PLD hydrolyzes the terminal phosphodiester bond of phospholipids to phosphatidic acid and a hydrophilic constituent. Phosphatidic acid is a compound that is heavily involved in signal transduction. The common features of the family members are that they can bind to a phosphodiester moiety, and that most of these enzymes are active as bi-lobed monomers or dimers.
Probab=62.02 E-value=9.9 Score=37.48 Aligned_cols=37 Identities=22% Similarity=0.228 Sum_probs=28.3
Q ss_pred ccccceEEEEEeCCcEEEEEeCCCCCHHhhc-cccCeEEee
Q 002685 525 ACHHPKLFVLQREDSIRVIVTSANLGAKQWN-AVTNTVWWQ 564 (893)
Q Consensus 525 GtHHSKMmIL~Y~D~LRVVI~TANLi~~DW~-~~TQ~VWiQ 564 (893)
+.+|+|+||+= .=.++|.|+|+....|. +.+.++.+.
T Consensus 112 ~~~H~K~~iiD---~~~~~vGS~N~~~~~~~~~~e~~~~~~ 149 (176)
T cd00138 112 GVLHTKLVIVD---DETAYIGSANLDGRSLTLNSEVGVVIY 149 (176)
T ss_pred cceeeeEEEEc---CCEEEEECCcCChhhhhhhcceEEEEe
Confidence 48999999994 34899999999999885 344455444
No 24
>PF13091 PLDc_2: PLD-like domain; PDB: 2ZE4_A 2ZE9_A 1BYS_A 1BYR_A 1V0T_A 1V0U_A 1V0V_A 1V0S_A 1V0R_A 1V0W_A ....
Probab=58.76 E-value=7.3 Score=36.16 Aligned_cols=36 Identities=25% Similarity=0.358 Sum_probs=22.5
Q ss_pred cccceEEEEEeCCcEEEEEeCCCCCHHhhccc-cCeEEee
Q 002685 526 CHHPKLFVLQREDSIRVIVTSANLGAKQWNAV-TNTVWWQ 564 (893)
Q Consensus 526 tHHSKMmIL~Y~D~LRVVI~TANLi~~DW~~~-TQ~VWiQ 564 (893)
.+|.|+++.- +. .++|.|+|++...|..- +.++.+.
T Consensus 74 ~~H~K~~i~d--~~-~~iiGS~N~t~~~~~~n~E~~~~~~ 110 (126)
T PF13091_consen 74 RLHAKFYIID--DK-VAIIGSANLTSSSFRRNYELGVIID 110 (126)
T ss_dssp -B--EEEEET--TT-EEEEES--CSCCCSCTSEEEEEEEE
T ss_pred CCCcceEEec--Cc-cEEEcCCCCCcchhcCCcceEEEEE
Confidence 6899999993 22 99999999999988644 4344444
No 25
>TIGR02868 CydC thiol reductant ABC exporter, CydC subunit. The gene pair cydCD encodes an ABC-family transporter in which each gene contains an N-terminal membrane-spanning domain (pfam00664) and a C-terminal ATP-binding domain (pfam00005). In E. coli these genes were discovered as mutants which caused the terminal heme-copper oxidase complex cytochrome bd to fail to assemble. Recent work has shown that the transporter is involved in export of redox-active thiol compounds such as cysteine and glutathione. The linkage to assembly of the cytochrome bd complex is further supported by the conserved operon structure found outside the gammaproteobacteria (cydABCD) containing both the transporter and oxidase genes components. The genes used as the seed members for this model are all either found in the gammproteobacterial context or the CydABCD context. All members of this family scoring above trusted at the time of its creation were from genomes which encode a cytochrome bd complex.
Probab=53.59 E-value=5.8 Score=46.61 Aligned_cols=67 Identities=16% Similarity=0.106 Sum_probs=47.9
Q ss_pred EEEEEEEEEeeeeCCceeeceeeeccccCCcccCCCccceeeeeecCCccCCCCCCCcccccceechhHHHHHHhhhhhc
Q 002685 191 LILGIIFKEEVVLKRPRLVGTMASSGHSQGSVSSGTRSKRVFALRENDVSNPDSVFPKLKRRDIFGRASFLLSQCRNILN 270 (893)
Q Consensus 191 ~v~~i~~~~~~v~g~k~l~~~~~f~g~s~g~~~~g~~~krvfa~~~~~~~~~~~~f~~~~~~~~~~~~~~l~~~~r~il~ 270 (893)
++++++|+ +..++.+ .+.|.|+ |||+ ++..-..||+++..|.|.-.+..+-+. ++-|.
T Consensus 350 vL~~isl~---i~~G~~v----aIvG~SG----sGKS----------TLl~lL~g~~~p~~G~I~i~g~~i~~~-~~~lr 407 (529)
T TIGR02868 350 VLDGVSLD---LPPGERV----AILGPSG----SGKS----------TLLMLLTGLLDPLQGEVTLDGVSVSSL-QDELR 407 (529)
T ss_pred eeecceEE---EcCCCEE----EEECCCC----CCHH----------HHHHHHhcCCCCCCcEEEECCEEhhhH-HHHHH
Confidence 56667666 4433332 4679999 9999 999999999999999998887666554 44443
Q ss_pred CCCchhhhhhh
Q 002685 271 SNDPVSCIQQI 281 (893)
Q Consensus 271 s~dp~s~~~~~ 281 (893)
+. |+|+.|-
T Consensus 408 ~~--i~~V~Q~ 416 (529)
T TIGR02868 408 RR--ISVFAQD 416 (529)
T ss_pred hh--eEEEccC
Confidence 22 6776553
No 26
>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=47.69 E-value=16 Score=34.12 Aligned_cols=27 Identities=26% Similarity=0.409 Sum_probs=22.0
Q ss_pred eEECCEEcc--CCCeeeCCCCCEEEEEeC
Q 002685 151 VFVNGIRLK--SGIVRELNAGDEVLFVCR 177 (893)
Q Consensus 151 TfVNG~RI~--k~~~~~L~~GD~I~~~~g 177 (893)
++|||+.+. .|....|++||+|.|...
T Consensus 62 VlvN~~di~~l~g~~t~L~dgD~v~i~P~ 90 (94)
T cd01764 62 VLINDTDWELLGEEDYILEDGDHVVFIST 90 (94)
T ss_pred EEECCccccccCCcccCCCCcCEEEEECC
Confidence 679999885 456678999999999653
No 27
>PRK13657 cyclic beta-1,2-glucan ABC transporter; Provisional
Probab=45.96 E-value=8.4 Score=46.01 Aligned_cols=67 Identities=15% Similarity=0.119 Sum_probs=47.2
Q ss_pred EEEEEEEEEeeeeCCceeeceeeeccccCCcccCCCccceeeeeecCCccCCCCCCCcccccceechhHHHHHHhhhhhc
Q 002685 191 LILGIIFKEEVVLKRPRLVGTMASSGHSQGSVSSGTRSKRVFALRENDVSNPDSVFPKLKRRDIFGRASFLLSQCRNILN 270 (893)
Q Consensus 191 ~v~~i~~~~~~v~g~k~l~~~~~f~g~s~g~~~~g~~~krvfa~~~~~~~~~~~~f~~~~~~~~~~~~~~l~~~~r~il~ 270 (893)
++++|+++ +..++.+ .+.|+|+ +||+ +++.-..|+++|..|.|.-.+..+-+.=+.-+.
T Consensus 350 iL~~inl~---i~~G~~v----~IvG~sG----sGKS----------TLl~lL~gl~~p~~G~I~i~g~~i~~~~~~~~r 408 (588)
T PRK13657 350 GVEDVSFE---AKPGQTV----AIVGPTG----AGKS----------TLINLLQRVFDPQSGRILIDGTDIRTVTRASLR 408 (588)
T ss_pred eecceeEE---ECCCCEE----EEECCCC----CCHH----------HHHHHHhcCcCCCCCEEEECCEEhhhCCHHHHH
Confidence 56677776 4444443 4679999 9999 999999999999999998888766543333333
Q ss_pred CCCchhhhhh
Q 002685 271 SNDPVSCIQQ 280 (893)
Q Consensus 271 s~dp~s~~~~ 280 (893)
+. |+|+.|
T Consensus 409 ~~--i~~v~Q 416 (588)
T PRK13657 409 RN--IAVVFQ 416 (588)
T ss_pred hh--eEEEec
Confidence 33 566644
No 28
>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=44.75 E-value=25 Score=29.74 Aligned_cols=25 Identities=32% Similarity=0.379 Sum_probs=19.9
Q ss_pred cceEECCEEccCCCeeeCCCCCEEEE
Q 002685 149 NGVFVNGIRLKSGIVRELNAGDEVLF 174 (893)
Q Consensus 149 NGTfVNG~RI~k~~~~~L~~GD~I~~ 174 (893)
+.++|||..+.+. ...|..||+|.|
T Consensus 34 G~V~VNg~~~~~~-~~~l~~Gd~v~i 58 (59)
T TIGR02988 34 NEVLVNGELENRR-GKKLYPGDVIEI 58 (59)
T ss_pred CCEEECCEEccCC-CCCCCCCCEEEe
Confidence 6799999998432 247999999986
No 29
>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=44.11 E-value=19 Score=28.88 Aligned_cols=24 Identities=29% Similarity=0.288 Sum_probs=19.4
Q ss_pred ccceEECCEEccCCCeeeCCCCCEE
Q 002685 148 LNGVFVNGIRLKSGIVRELNAGDEV 172 (893)
Q Consensus 148 ~NGTfVNG~RI~k~~~~~L~~GD~I 172 (893)
.++++|||+.+.... ..+..||+|
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 478999999999442 468999987
No 30
>PRK13912 nuclease NucT; Provisional
Probab=42.28 E-value=23 Score=36.22 Aligned_cols=93 Identities=16% Similarity=0.186 Sum_probs=52.4
Q ss_pred HHhhcccchhhhhhhcC--CCCCCcEEEEEccCccccccCcCCcCCCCCCCCCCeEEEcC-CCCccccccccccCCCccc
Q 002685 450 FIATFTSDILWFMSYCE--IPSHLPVTIACHNTERCWSTSADKRTSVPYPNFPNLVLVFP-PFPESVAFGENCKKQGIAC 526 (893)
Q Consensus 450 llfnF~~DidWLLs~f~--~~r~lpVtIVvh~~~~~wk~e~~~rl~~~~~~~pNv~li~P-pMPe~I~FG~d~~~~g~Gt 526 (893)
.+..|.+..+.+.+.+- ..|++.|-|+.+..... ............++|+.+..- +++ ...+ ...+.
T Consensus 50 ~i~~Y~~~~~~i~~aL~~Aa~RGV~VrIlld~~~~~---~~~~~~~~~l~~~~~~~~~~~~~~~--~~~~-----~~~~~ 119 (177)
T PRK13912 50 KIAIYSFTHKDIAKALKSAAKRGVKISIIYDYESNH---NNDQSTIGYLDKYPNIKVCLLKGLK--AKNG-----KYYGI 119 (177)
T ss_pred EEEEEEEchHHHHHHHHHHHHCCCEEEEEEeCcccc---CcchhHHHHHHhCCCceEEEecCcc--ccCc-----ccccc
Confidence 34567777777776653 24888888887743210 000000000124556655421 111 0001 12358
Q ss_pred ccceEEEEEeCCcEEEEEeCCCCCHHhhc
Q 002685 527 HHPKLFVLQREDSIRVIVTSANLGAKQWN 555 (893)
Q Consensus 527 HHSKMmIL~Y~D~LRVVI~TANLi~~DW~ 555 (893)
+|.|+||+ |+-.++|.|+|+...-+.
T Consensus 120 ~H~K~~vi---D~~~~~iGS~N~t~~s~~ 145 (177)
T PRK13912 120 MHQKVAII---DDKIVVLGSANWSKNAFE 145 (177)
T ss_pred cceeEEEE---cCCEEEEeCCCCChhHhc
Confidence 99999998 555699999999976544
No 31
>smart00363 S4 S4 RNA-binding domain.
Probab=41.20 E-value=36 Score=26.73 Aligned_cols=28 Identities=21% Similarity=0.226 Sum_probs=21.1
Q ss_pred cccceEECCEEccCCCeeeCCCCCEEEEE
Q 002685 147 SLNGVFVNGIRLKSGIVRELNAGDEVLFV 175 (893)
Q Consensus 147 S~NGTfVNG~RI~k~~~~~L~~GD~I~~~ 175 (893)
..++++|||+++... ...|..||.|.+.
T Consensus 24 ~~g~i~vng~~~~~~-~~~l~~gd~i~~~ 51 (60)
T smart00363 24 EQGRVKVNGKKVTKP-SYIVKPGDVISVR 51 (60)
T ss_pred HcCCEEECCEEecCC-CeEeCCCCEEEEc
Confidence 346799999999332 2568999999883
No 32
>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=40.09 E-value=31 Score=31.05 Aligned_cols=28 Identities=32% Similarity=0.390 Sum_probs=21.1
Q ss_pred cceEECCEEccCCCeeeCCCCCEEEEEe
Q 002685 149 NGVFVNGIRLKSGIVRELNAGDEVLFVC 176 (893)
Q Consensus 149 NGTfVNG~RI~k~~~~~L~~GD~I~~~~ 176 (893)
--++|||+.+.......|++||+|.|..
T Consensus 56 ~~v~vN~~~v~~~~~~~l~dgdev~i~P 83 (88)
T TIGR01687 56 VIILVNGRNVDWGLGTELKDGDVVAIFP 83 (88)
T ss_pred EEEEECCEecCccCCCCCCCCCEEEEeC
Confidence 4567888888765324799999999954
No 33
>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=38.07 E-value=33 Score=29.87 Aligned_cols=27 Identities=30% Similarity=0.361 Sum_probs=21.4
Q ss_pred ccceEECCEEccCCCeeeCCCCCEEEEEe
Q 002685 148 LNGVFVNGIRLKSGIVRELNAGDEVLFVC 176 (893)
Q Consensus 148 ~NGTfVNG~RI~k~~~~~L~~GD~I~~~~ 176 (893)
.--++|||+.+... ..|++||+|.|..
T Consensus 49 ~~~v~vNg~~v~~~--~~l~~gD~v~i~p 75 (80)
T cd00754 49 RVRIAVNGEYVRLD--TPLKDGDEVAIIP 75 (80)
T ss_pred cEEEEECCeEcCCC--cccCCCCEEEEeC
Confidence 34578899988854 5799999999964
No 34
>COG1188 Ribosome-associated heat shock protein implicated in the recycling of the 50S subunit (S4 paralog) [Translation, ribosomal structure and biogenesis]
Probab=33.54 E-value=49 Score=31.92 Aligned_cols=28 Identities=32% Similarity=0.444 Sum_probs=23.4
Q ss_pred ceEECCEEccCCCeeeCCCCCEEEEEeCCC
Q 002685 150 GVFVNGIRLKSGIVRELNAGDEVLFVCRDE 179 (893)
Q Consensus 150 GTfVNG~RI~k~~~~~L~~GD~I~~~~g~~ 179 (893)
-+.|||.+++.+ .+++.||+|.|..++.
T Consensus 35 rV~vNG~~aKpS--~~VK~GD~l~i~~~~~ 62 (100)
T COG1188 35 RVKVNGQRAKPS--KEVKVGDILTIRFGNK 62 (100)
T ss_pred eEEECCEEcccc--cccCCCCEEEEEeCCc
Confidence 477999999876 4699999999988763
No 35
>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=32.70 E-value=53 Score=26.53 Aligned_cols=28 Identities=21% Similarity=0.251 Sum_probs=21.4
Q ss_pred cccceEECCEEccCCCeeeCCCCCEEEEE
Q 002685 147 SLNGVFVNGIRLKSGIVRELNAGDEVLFV 175 (893)
Q Consensus 147 S~NGTfVNG~RI~k~~~~~L~~GD~I~~~ 175 (893)
..++++|||+++... ...+..||+|.+.
T Consensus 24 ~~g~V~vn~~~~~~~-~~~v~~~d~i~i~ 51 (70)
T cd00165 24 KHGHVLVNGKVVTKP-SYKVKPGDVIEVD 51 (70)
T ss_pred HcCCEEECCEEccCC-ccCcCCCCEEEEc
Confidence 457899999999432 2468999999884
No 36
>PRK01777 hypothetical protein; Validated
Probab=32.42 E-value=46 Score=31.53 Aligned_cols=28 Identities=25% Similarity=0.160 Sum_probs=24.0
Q ss_pred ccccceEECCEEccCCCeeeCCCCCEEEEE
Q 002685 146 VSLNGVFVNGIRLKSGIVRELNAGDEVLFV 175 (893)
Q Consensus 146 ~S~NGTfVNG~RI~k~~~~~L~~GD~I~~~ 175 (893)
.+.+-+.|||+.+.-. ..|++||+|.|.
T Consensus 47 ~~~~~vgI~Gk~v~~d--~~L~dGDRVeIy 74 (95)
T PRK01777 47 LAKNKVGIYSRPAKLT--DVLRDGDRVEIY 74 (95)
T ss_pred cccceEEEeCeECCCC--CcCCCCCEEEEe
Confidence 4668899999999876 469999999994
No 37
>TIGR02857 CydD thiol reductant ABC exporter, CydD subunit. Unfortunately, the gene symbol nomenclature adopted based on this operon in B. subtilis assigns cydC to the third gene in the operon where this gene is actually homologous to the E. coli cydD gene. We have chosen to name all homologs in this family in accordance with the precedence of publication of the E. coli name, CydD
Probab=31.87 E-value=18 Score=42.65 Aligned_cols=52 Identities=21% Similarity=0.091 Sum_probs=39.3
Q ss_pred EEEEEEEEEEeeeeCCceeeceeeeccccCCcccCCCccceeeeeecCCccCCCCCCCcccccceechhHHHH
Q 002685 190 FLILGIIFKEEVVLKRPRLVGTMASSGHSQGSVSSGTRSKRVFALRENDVSNPDSVFPKLKRRDIFGRASFLL 262 (893)
Q Consensus 190 f~v~~i~~~~~~v~g~k~l~~~~~f~g~s~g~~~~g~~~krvfa~~~~~~~~~~~~f~~~~~~~~~~~~~~l~ 262 (893)
.++++++|+ +..++.+ .+.|.|+ |||+ +++.-..||+++..|.|.-.+..+-
T Consensus 336 ~il~~i~l~---i~~G~~~----~ivG~sG----sGKS----------TL~~ll~g~~~~~~G~I~~~g~~i~ 387 (529)
T TIGR02857 336 PALRPVSFT---VPPGERV----ALVGPSG----AGKS----------TLLNLLLGFVDPTEGSIAVNGVPLA 387 (529)
T ss_pred ccccceeEE---ECCCCEE----EEECCCC----CCHH----------HHHHHHhcCCCCCCcEEEECCEehh
Confidence 356667666 4433332 4679999 9999 9999999999999999987776543
No 38
>COG2501 S4-like RNA binding protein [Replication, recombination, and repair]
Probab=28.64 E-value=56 Score=29.89 Aligned_cols=26 Identities=35% Similarity=0.415 Sum_probs=21.0
Q ss_pred cccceEECCEEc-cCCCeeeCCCCCEEEE
Q 002685 147 SLNGVFVNGIRL-KSGIVRELNAGDEVLF 174 (893)
Q Consensus 147 S~NGTfVNG~RI-~k~~~~~L~~GD~I~~ 174 (893)
+-+.++|||+.- +++ ..|++||+|.|
T Consensus 35 ~eg~V~vNGe~EtRRg--kKlr~gd~V~i 61 (73)
T COG2501 35 AEGEVKVNGEVETRRG--KKLRDGDVVEI 61 (73)
T ss_pred HCCeEEECCeeeeccC--CEeecCCEEEE
Confidence 557899999965 445 45999999999
No 39
>PRK11507 ribosome-associated protein; Provisional
Probab=27.11 E-value=69 Score=29.08 Aligned_cols=26 Identities=27% Similarity=0.308 Sum_probs=20.3
Q ss_pred cccceEECCEEc-cCCCeeeCCCCCEEEE
Q 002685 147 SLNGVFVNGIRL-KSGIVRELNAGDEVLF 174 (893)
Q Consensus 147 S~NGTfVNG~RI-~k~~~~~L~~GD~I~~ 174 (893)
..+.+.|||+-- +++ ..|.+||+|.|
T Consensus 35 ~eg~V~VNGeve~rRg--kKl~~GD~V~~ 61 (70)
T PRK11507 35 AEGQVKVDGAVETRKR--CKIVAGQTVSF 61 (70)
T ss_pred HcCceEECCEEecccC--CCCCCCCEEEE
Confidence 447799999944 455 45999999999
No 40
>cd03292 ABC_FtsE_transporter FtsE is a hydrophilic nucleotide-binding protein that binds FtsX to form a heterodimeric ATP-binding cassette (ABC)-type transporter that associates with the bacterial inner membrane. The FtsE/X transporter is thought to be involved in cell division and is important for assembly or stability of the septal ring.
Probab=26.94 E-value=34 Score=35.08 Aligned_cols=48 Identities=13% Similarity=-0.067 Sum_probs=35.0
Q ss_pred EEEEEEEEEEeeeeCCceeeceeeeccccCCcccCCCccceeeeeecCCccCCCCCCCcccccceechh
Q 002685 190 FLILGIIFKEEVVLKRPRLVGTMASSGHSQGSVSSGTRSKRVFALRENDVSNPDSVFPKLKRRDIFGRA 258 (893)
Q Consensus 190 f~v~~i~~~~~~v~g~k~l~~~~~f~g~s~g~~~~g~~~krvfa~~~~~~~~~~~~f~~~~~~~~~~~~ 258 (893)
.++..++|+ +..+..+ .+.|.|+ |||+ +++....|+.++..|.|.-.+
T Consensus 15 ~~l~~~sl~---i~~G~~~----~i~G~nG----sGKS----------TLl~~l~G~~~~~~G~i~~~g 62 (214)
T cd03292 15 AALDGINIS---ISAGEFV----FLVGPSG----AGKS----------TLLKLIYKEELPTSGTIRVNG 62 (214)
T ss_pred eeeeeeEEE---EcCCCEE----EEECCCC----CCHH----------HHHHHHhcCCCCCceEEEECC
Confidence 356777776 3332322 4669999 9999 999999999999888776554
No 41
>TIGR00958 3a01208 Conjugate Transporter-2 (CT2) Family protein.
Probab=26.30 E-value=22 Score=43.88 Aligned_cols=53 Identities=17% Similarity=0.140 Sum_probs=39.4
Q ss_pred EEEEEEEEEEeeeeCCceeeceeeeccccCCcccCCCccceeeeeecCCccCCCCCCCcccccceechhHHHHH
Q 002685 190 FLILGIIFKEEVVLKRPRLVGTMASSGHSQGSVSSGTRSKRVFALRENDVSNPDSVFPKLKRRDIFGRASFLLS 263 (893)
Q Consensus 190 f~v~~i~~~~~~v~g~k~l~~~~~f~g~s~g~~~~g~~~krvfa~~~~~~~~~~~~f~~~~~~~~~~~~~~l~~ 263 (893)
.++++++|+ +..++.+ .+.|.|+ |||+ +++.-..|++++..|.|.-.+..+-+
T Consensus 495 ~vL~~isl~---i~~Ge~v----aIvG~SG----sGKS----------TLl~lL~gl~~p~~G~I~idg~~i~~ 547 (711)
T TIGR00958 495 PVLKGLTFT---LHPGEVV----ALVGPSG----SGKS----------TVAALLQNLYQPTGGQVLLDGVPLVQ 547 (711)
T ss_pred ccccCceEE---EcCCCEE----EEECCCC----CCHH----------HHHHHHHhccCCCCCEEEECCEEHHh
Confidence 345666665 4433332 4669999 9999 99999999999999999888776543
No 42
>PF09014 Sushi_2: Beta-2-glycoprotein-1 fifth domain; InterPro: IPR015104 The fifth domain of beta-2-glycoprotein-1 (b2GP-1) is composed of four well-defined anti-parallel beta-strands and two short alpha-helices, as well as a long highly flexible loop. It plays an important role in the binding of b2GP-1 to negatively charged compounds and subsequent capture for binding of anti-b2GP-1 antibodies []. ; PDB: 1C1Z_A 3OP8_B 2KRI_A 1QUB_A 1G4G_A 1G4F_A.
Probab=25.89 E-value=1.1e+02 Score=28.80 Aligned_cols=39 Identities=23% Similarity=0.428 Sum_probs=26.0
Q ss_pred eEECCEEccC--CCeeeCCCCCEEEEEeCC-CccccccceeEEEEEEE
Q 002685 151 VFVNGIRLKS--GIVRELNAGDEVLFVCRD-ESLCRLQTRIGFLILGI 195 (893)
Q Consensus 151 TfVNG~RI~k--~~~~~L~~GD~I~~~~g~-~~~~~~~~~igf~v~~i 195 (893)
++.||+|+.- -..-.+.+||.|.|.|.+ +..| |+.+...
T Consensus 13 Vly~g~k~~i~d~~~~~v~Hge~VsffCknkekkC------sy~~~~q 54 (85)
T PF09014_consen 13 VLYNGEKVWIQDLFKNGVLHGEIVSFFCKNKEKKC------SYTVDAQ 54 (85)
T ss_dssp EEETTEEEEHHHHTTT-BETT-EEEEEEEETTTTE------EEEEEEE
T ss_pred EEECCEEechhhcccCceeeCCEEEEEEcCCcccC------CCccccE
Confidence 4467776621 111137899999999988 6677 8888877
No 43
>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=25.77 E-value=58 Score=27.90 Aligned_cols=27 Identities=26% Similarity=0.279 Sum_probs=21.5
Q ss_pred cccceEECCEEccCCCeeeCCCCCEEEEE
Q 002685 147 SLNGVFVNGIRLKSGIVRELNAGDEVLFV 175 (893)
Q Consensus 147 S~NGTfVNG~RI~k~~~~~L~~GD~I~~~ 175 (893)
..-+..|||+++.-. .+|.+||+|.|.
T Consensus 33 ~~~~A~Vng~~vdl~--~~L~~~d~v~ii 59 (60)
T PF02824_consen 33 RAVAAKVNGQLVDLD--HPLEDGDVVEII 59 (60)
T ss_dssp CEEEEEETTEEEETT--SBB-SSEEEEEE
T ss_pred heeEEEEcCEECCCC--CCcCCCCEEEEE
Confidence 446778999999986 579999999985
No 44
>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=25.33 E-value=57 Score=29.58 Aligned_cols=21 Identities=24% Similarity=0.166 Sum_probs=18.3
Q ss_pred ECCEEccCCCeeeCCCCCEEEEE
Q 002685 153 VNGIRLKSGIVRELNAGDEVLFV 175 (893)
Q Consensus 153 VNG~RI~k~~~~~L~~GD~I~~~ 175 (893)
++|+|++.. ++|++||+|.|.
T Consensus 54 ~~gq~Vgl~--~~L~d~DvVeI~ 74 (75)
T cd01666 54 HSPQRVGLD--HVLEDEDVVQIV 74 (75)
T ss_pred CCCeECCCC--CEecCCCEEEEe
Confidence 489999987 679999999985
No 45
>TIGR01193 bacteriocin_ABC ABC-type bacteriocin transporter. This model describes ABC-type bacteriocin transporter. The amino terminal domain (pfam03412) processes the N-terminal leader peptide from the bacteriocin while C-terminal domains resemble ABC transporter membrane protein and ATP-binding cassette domain. In general, bacteriocins are agents which are responsible for killing or inhibiting the closely related species or even different strains of the same species. Bacteriocins are usually encoded by bacterial plasmids. Bacteriocins are named after the species and hence in literature one encounters various names e.g., leucocin from Leuconostic geldium; pedicocin from Pedicoccus acidilactici; sakacin from Lactobacillus sake etc.
Probab=25.08 E-value=27 Score=42.84 Aligned_cols=51 Identities=16% Similarity=0.146 Sum_probs=38.5
Q ss_pred EEEEEEEEEeeeeCCceeeceeeeccccCCcccCCCccceeeeeecCCccCCCCCCCcccccceechhHHHH
Q 002685 191 LILGIIFKEEVVLKRPRLVGTMASSGHSQGSVSSGTRSKRVFALRENDVSNPDSVFPKLKRRDIFGRASFLL 262 (893)
Q Consensus 191 ~v~~i~~~~~~v~g~k~l~~~~~f~g~s~g~~~~g~~~krvfa~~~~~~~~~~~~f~~~~~~~~~~~~~~l~ 262 (893)
++++++|+ +..+..+ .+.|.|+ |||+ +++.-..|+++|..|.|.-.+..+-
T Consensus 489 iL~~isl~---i~~G~~v----aIvG~SG----sGKS----------TLlklL~gl~~p~~G~I~idg~~i~ 539 (708)
T TIGR01193 489 ILSDISLT---IKMNSKT----TIVGMSG----SGKS----------TLAKLLVGFFQARSGEILLNGFSLK 539 (708)
T ss_pred ceeceeEE---ECCCCEE----EEECCCC----CCHH----------HHHHHHhccCCCCCcEEEECCEEHH
Confidence 45566665 4433332 4669999 9999 9999999999999999988886653
No 46
>PF09565 RE_NgoFVII: NgoFVII restriction endonuclease; InterPro: IPR019065 There are four classes of restriction endonucleases: types I, II,III and IV. All types of enzymes recognise specific short DNA sequences and carry out the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. They differ in their recognition sequence, subunit composition, cleavage position, and cofactor requirements [, ], as summarised below: Type I enzymes (3.1.21.3 from EC) cleave at sites remote from recognition site; require both ATP and S-adenosyl-L-methionine to function; multifunctional protein with both restriction and methylase (2.1.1.72 from EC) activities. Type II enzymes (3.1.21.4 from EC) cleave within or at short specific distances from recognition site; most require magnesium; single function (restriction) enzymes independent of methylase. Type III enzymes (3.1.21.5 from EC) cleave at sites a short distance from recognition site; require ATP (but doesn't hydrolyse it); S-adenosyl-L-methionine stimulates reaction but is not required; exists as part of a complex with a modification methylase methylase (2.1.1.72 from EC). Type IV enzymes target methylated DNA. Type II restriction endonucleases (3.1.21.4 from EC) are components of prokaryotic DNA restriction-modification mechanisms that protect the organism against invading foreign DNA. These site-specific deoxyribonucleases catalyse the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. Of the 3000 restriction endonucleases that have been characterised, most are homodimeric or tetrameric enzymes that cleave target DNA at sequence-specific sites close to the recognition site. For homodimeric enzymes, the recognition site is usually a palindromic sequence 4-8 bp in length. Most enzymes require magnesium ions as a cofactor for catalysis. Although they can vary in their mode of recognition, many restriction endonucleases share a similar structural core comprising four beta-strands and one alpha-helix, as well as a similar mechanism of cleavage, suggesting a common ancestral origin []. However, there is still considerable diversity amongst restriction endonucleases [, ]. The target site recognition process triggers large conformational changes of the enzyme and the target DNA, leading to the activation of the catalytic centres. Like other DNA binding proteins, restriction enzymes are capable of non-specific DNA binding as well, which is the prerequisite for efficient target site location by facilitated diffusion. Non-specific binding usually does not involve interactions with the bases but only with the DNA backbone []. This domain is found in NgoFVII restriction endonuclease, which recognises GCSGC but cleavage site is unknown. It is also found as the C-terminal domain of the res subunit of some type III restriction endonucleases.
Probab=24.83 E-value=60 Score=36.58 Aligned_cols=27 Identities=26% Similarity=0.450 Sum_probs=23.3
Q ss_pred cccceEEEEEeCC-cEEEEEeCCCCCHH
Q 002685 526 CHHPKLFVLQRED-SIRVIVTSANLGAK 552 (893)
Q Consensus 526 tHHSKMmIL~Y~D-~LRVVI~TANLi~~ 552 (893)
.-|+||.+...++ -.+++|.||||...
T Consensus 80 ~~HgKlY~f~k~g~~~~a~IGSANfS~~ 107 (296)
T PF09565_consen 80 PYHGKLYIFSKNGKPFRAYIGSANFSQI 107 (296)
T ss_pred CcccEEEEEecCCCceEEEEeecccccc
Confidence 3699999997764 69999999999985
No 47
>COG1124 DppF ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]
Probab=24.63 E-value=26 Score=38.63 Aligned_cols=52 Identities=15% Similarity=0.138 Sum_probs=38.8
Q ss_pred EEEEEEEEEeeeeCCceeeceeeeccccCCcccCCCccceeeeeecCCccCCCCCCCcccccceechhHHHHH
Q 002685 191 LILGIIFKEEVVLKRPRLVGTMASSGHSQGSVSSGTRSKRVFALRENDVSNPDSVFPKLKRRDIFGRASFLLS 263 (893)
Q Consensus 191 ~v~~i~~~~~~v~g~k~l~~~~~f~g~s~g~~~~g~~~krvfa~~~~~~~~~~~~f~~~~~~~~~~~~~~l~~ 263 (893)
.+++|.|+ |.-+..+ .+.|.|+ |||+ +|-...-|+.++..|.|.-.++-+..
T Consensus 22 ~l~~VS~~---i~~Ge~l----givGeSG----sGKS----------TL~r~l~Gl~~p~~G~I~~~G~~~~~ 73 (252)
T COG1124 22 ALNNVSLE---IERGETL----GIVGESG----SGKS----------TLARLLAGLEKPSSGSILLDGKPLAP 73 (252)
T ss_pred hhcceeEE---ecCCCEE----EEEcCCC----CCHH----------HHHHHHhcccCCCCceEEECCcccCc
Confidence 56666665 3332332 3449999 9999 88888999999999999998876655
No 48
>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=23.82 E-value=57 Score=28.14 Aligned_cols=28 Identities=36% Similarity=0.440 Sum_probs=20.6
Q ss_pred cceEECCEEccC-CCeeeCCCCCEEEEEe
Q 002685 149 NGVFVNGIRLKS-GIVRELNAGDEVLFVC 176 (893)
Q Consensus 149 NGTfVNG~RI~k-~~~~~L~~GD~I~~~~ 176 (893)
--++|||+.+.+ +....|++||+|.|..
T Consensus 44 ~~v~vN~~~v~~~~~~~~l~~gD~V~i~p 72 (77)
T PF02597_consen 44 VAVAVNGEIVPDDGLDTPLKDGDEVAILP 72 (77)
T ss_dssp EEEEETTEEEGGGTTTSBEETTEEEEEEE
T ss_pred EEEEECCEEcCCccCCcCcCCCCEEEEEC
Confidence 446778888877 2225699999999964
No 49
>PRK06944 sulfur carrier protein ThiS; Provisional
Probab=23.69 E-value=86 Score=26.61 Aligned_cols=26 Identities=38% Similarity=0.394 Sum_probs=18.7
Q ss_pred eEECCEEccCC--CeeeCCCCCEEEEEe
Q 002685 151 VFVNGIRLKSG--IVRELNAGDEVLFVC 176 (893)
Q Consensus 151 TfVNG~RI~k~--~~~~L~~GD~I~~~~ 176 (893)
+.|||+-+.+. ....|++||+|.|+.
T Consensus 33 v~vN~~~v~~~~~~~~~L~~gD~vei~~ 60 (65)
T PRK06944 33 VAVNGDFVARTQHAARALAAGDRLDLVQ 60 (65)
T ss_pred EEECCEEcCchhcccccCCCCCEEEEEe
Confidence 45777777653 235699999999964
No 50
>TIGR02673 FtsE cell division ATP-binding protein FtsE. This model describes FtsE, a member of the ABC transporter ATP-binding protein family. This protein, and its permease partner FtsX, localize to the division site. In a number of species, the ftsEX gene pair is located next to FtsY, the signal recognition particle-docking protein.
Probab=23.60 E-value=47 Score=34.09 Aligned_cols=48 Identities=10% Similarity=0.000 Sum_probs=33.9
Q ss_pred EEEEEEEEEeeeeCCceeeceeeeccccCCcccCCCccceeeeeecCCccCCCCCCCcccccceechhH
Q 002685 191 LILGIIFKEEVVLKRPRLVGTMASSGHSQGSVSSGTRSKRVFALRENDVSNPDSVFPKLKRRDIFGRAS 259 (893)
Q Consensus 191 ~v~~i~~~~~~v~g~k~l~~~~~f~g~s~g~~~~g~~~krvfa~~~~~~~~~~~~f~~~~~~~~~~~~~ 259 (893)
++++++|+ +..+.. +.+.|.++ |||+ +++....|..++..|-|.-.+.
T Consensus 17 il~~is~~---i~~G~~----~~l~G~nG----sGKS----------TLl~~i~Gl~~~~~G~i~~~g~ 64 (214)
T TIGR02673 17 ALHDVSLH---IRKGEF----LFLTGPSG----AGKT----------TLLKLLYGALTPSRGQVRIAGE 64 (214)
T ss_pred eecceeEE---EcCCCE----EEEECCCC----CCHH----------HHHHHHhCCCCCCCceEEECCE
Confidence 46666666 333222 24569999 9999 8999999999888887765543
No 51
>PRK10348 ribosome-associated heat shock protein Hsp15; Provisional
Probab=23.14 E-value=1.2e+02 Score=30.50 Aligned_cols=29 Identities=17% Similarity=0.152 Sum_probs=23.0
Q ss_pred ccceEECCEEccCCCeeeCCCCCEEEEEeCC
Q 002685 148 LNGVFVNGIRLKSGIVRELNAGDEVLFVCRD 178 (893)
Q Consensus 148 ~NGTfVNG~RI~k~~~~~L~~GD~I~~~~g~ 178 (893)
..-+.|||++.+.+ .++..||+|.|..+.
T Consensus 33 ~G~V~vnG~~~Kps--~~V~~gd~l~v~~~~ 61 (133)
T PRK10348 33 GGKVHYNGQRSKPS--KIVELNATLTLRQGN 61 (133)
T ss_pred CCCEEECCEECCCC--CccCCCCEEEEEECC
Confidence 36689999996665 568999999996654
No 52
>COG1559 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]
Probab=23.04 E-value=1.6e+02 Score=33.93 Aligned_cols=94 Identities=21% Similarity=0.196 Sum_probs=69.3
Q ss_pred hhcccccCCCC--CcccceeecccchHHHHHHHhhcccceeEEEEeeccCCChhHHHhhhchhhHHH---HHHHHHHhHh
Q 002685 750 RDIAKWVSPLW--DIGFIRFSGFISRDEVLAAALEGISKKVQLILHVSQGPKFSDISKMMQIEHVVA---LSSLIASIQR 824 (893)
Q Consensus 750 ~~l~kW~s~~~--D~~~~~f~g~~~p~~~l~~a~g~~~~~~ql~~~~~~~~~f~~~~~~~~~~~~~~---~~~~~~~~~~ 824 (893)
++..|-..... ..|+|++.+-..+.|.|..-..+......+. +-||-.+.||.+.++.+.+.. .-..++.+..
T Consensus 76 ~~~~~~~~~~~~lkaG~Y~l~~~ms~~~il~~L~~Gk~~~~~~~--ipEG~t~~~i~~~l~~~~~l~~~~~~~~~~~~~~ 153 (342)
T COG1559 76 RLYLKYNPAAGSLKAGEYRLRPGMSAADILKLLESGKSAQFKVT--IPEGYTLKQIAKKLAEAPVLDGVLDGLAIAEIAA 153 (342)
T ss_pred HHHHHhcCccCCcCCceeecCCCCCHHHHHHHHhcCccccceEe--cCCCccHHHHHHHHhcchhhhhhhhhhhhHHHHH
Confidence 33444444444 6799999999999999998877765554444 999999999999888655432 2345677788
Q ss_pred hhchhhHHHHhhccCCCccccc
Q 002685 825 CRGLWRLQEVLGQYRWPELQES 846 (893)
Q Consensus 825 ~~~~~~~~~~~~~~~~~~~~~~ 846 (893)
.++.| -.+-|..|-||++-+-
T Consensus 154 ~~p~~-~~~~~EG~l~PdTY~~ 174 (342)
T COG1559 154 RLPKL-DKERLEGYLFPDTYEF 174 (342)
T ss_pred hcCCC-cCCCCceeecCceeee
Confidence 88888 5567788889998653
No 53
>PRK11174 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed
Probab=22.88 E-value=29 Score=41.46 Aligned_cols=50 Identities=20% Similarity=0.078 Sum_probs=37.2
Q ss_pred EEEEEEEEEEeeeeCCceeeceeeeccccCCcccCCCccceeeeeecCCccCCCCCCCcccccceechhHHH
Q 002685 190 FLILGIIFKEEVVLKRPRLVGTMASSGHSQGSVSSGTRSKRVFALRENDVSNPDSVFPKLKRRDIFGRASFL 261 (893)
Q Consensus 190 f~v~~i~~~~~~v~g~k~l~~~~~f~g~s~g~~~~g~~~krvfa~~~~~~~~~~~~f~~~~~~~~~~~~~~l 261 (893)
.++++++|+ +..++.+ .+.|.|+ |||+ ++..-..||+ |..|.|.-.+..+
T Consensus 364 ~vL~~i~l~---i~~G~~v----aIvG~SG----sGKS----------TL~~lL~g~~-p~~G~I~i~g~~i 413 (588)
T PRK11174 364 TLAGPLNFT---LPAGQRI----ALVGPSG----AGKT----------SLLNALLGFL-PYQGSLKINGIEL 413 (588)
T ss_pred eeeeeeEEE---EcCCCEE----EEECCCC----CCHH----------HHHHHHhcCC-CCCcEEEECCEec
Confidence 456777777 4433332 5779999 9999 9999999999 7778777766554
No 54
>PRK11176 lipid transporter ATP-binding/permease protein; Provisional
Probab=22.83 E-value=28 Score=41.40 Aligned_cols=50 Identities=24% Similarity=0.269 Sum_probs=38.0
Q ss_pred EEEEEEEEEeeeeCCceeeceeeeccccCCcccCCCccceeeeeecCCccCCCCCCCcccccceechhHHH
Q 002685 191 LILGIIFKEEVVLKRPRLVGTMASSGHSQGSVSSGTRSKRVFALRENDVSNPDSVFPKLKRRDIFGRASFL 261 (893)
Q Consensus 191 ~v~~i~~~~~~v~g~k~l~~~~~f~g~s~g~~~~g~~~krvfa~~~~~~~~~~~~f~~~~~~~~~~~~~~l 261 (893)
++++++++ +..++.+ .+.|.|+ |||+ ++..-..|+++|..|-|.-.+..+
T Consensus 358 il~~i~l~---i~~G~~~----aIvG~sG----sGKS----------TLl~ll~gl~~p~~G~I~i~g~~i 407 (582)
T PRK11176 358 ALRNINFK---IPAGKTV----ALVGRSG----SGKS----------TIANLLTRFYDIDEGEILLDGHDL 407 (582)
T ss_pred cccCceEE---eCCCCEE----EEECCCC----CCHH----------HHHHHHHhccCCCCceEEECCEEh
Confidence 45666666 4433332 4679999 9999 999999999999999998877654
No 55
>TIGR00960 3a0501s02 Type II (General) Secretory Pathway (IISP) Family protein.
Probab=22.80 E-value=48 Score=34.20 Aligned_cols=49 Identities=18% Similarity=0.071 Sum_probs=35.8
Q ss_pred EEEEEEEEEeeeeCCceeeceeeeccccCCcccCCCccceeeeeecCCccCCCCCCCcccccceechhHH
Q 002685 191 LILGIIFKEEVVLKRPRLVGTMASSGHSQGSVSSGTRSKRVFALRENDVSNPDSVFPKLKRRDIFGRASF 260 (893)
Q Consensus 191 ~v~~i~~~~~~v~g~k~l~~~~~f~g~s~g~~~~g~~~krvfa~~~~~~~~~~~~f~~~~~~~~~~~~~~ 260 (893)
+++.++|+ +..+.. +.+.|.|+ |||+ +++.-..|..++..|.|.-++..
T Consensus 18 il~~isl~---i~~Ge~----~~i~G~nG----sGKS----------TLl~~l~Gl~~~~~G~i~~~g~~ 66 (216)
T TIGR00960 18 ALDNLNFH---ITKGEM----VFLVGHSG----AGKS----------TFLKLILGIEKPTRGKIRFNGQD 66 (216)
T ss_pred EEEeeEEE---EcCCCE----EEEECCCC----CCHH----------HHHHHHhCCCCCCceEEEECCEe
Confidence 56666666 332222 24669999 9999 99999999999988888766643
No 56
>TIGR02982 heterocyst_DevA ABC exporter ATP-binding subunit, DevA family. Members of this protein family are found mostly in the Cyanobacteria, but also in the Planctomycetes. Cyanobacterial examples are involved in heterocyst formation, by which some fraction of members of the colony undergo a developmental change and become capable of nitrogen fixation. The DevBCA proteins are thought export of either heterocyst-specific glycolipids or an enzyme essential for formation of the laminated layer found in heterocysts.
Probab=22.66 E-value=37 Score=35.27 Aligned_cols=48 Identities=10% Similarity=0.090 Sum_probs=35.1
Q ss_pred EEEEEEEEEeeeeCCceeeceeeeccccCCcccCCCccceeeeeecCCccCCCCCCCcccccceechhH
Q 002685 191 LILGIIFKEEVVLKRPRLVGTMASSGHSQGSVSSGTRSKRVFALRENDVSNPDSVFPKLKRRDIFGRAS 259 (893)
Q Consensus 191 ~v~~i~~~~~~v~g~k~l~~~~~f~g~s~g~~~~g~~~krvfa~~~~~~~~~~~~f~~~~~~~~~~~~~ 259 (893)
+++.++|+ +..+.. +.+.|.++ +||+ +++.-..|+.++..|-|.-.+.
T Consensus 20 il~~vs~~---i~~G~~----~~I~G~nG----sGKS----------tLl~~l~G~~~~~~G~i~~~g~ 67 (220)
T TIGR02982 20 VLFDINLE---INPGEI----VILTGPSG----SGKT----------TLLTLIGGLRSVQEGSLKVLGQ 67 (220)
T ss_pred EEeeeEEE---EcCCCE----EEEECCCC----CCHH----------HHHHHHhCCCCCCCeEEEECCE
Confidence 56667666 333222 24669999 9999 8999999999998887876554
No 57
>PRK10790 putative multidrug transporter membrane\ATP-binding components; Provisional
Probab=22.53 E-value=38 Score=40.60 Aligned_cols=51 Identities=22% Similarity=0.169 Sum_probs=39.2
Q ss_pred EEEEEEEEEeeeeCCceeeceeeeccccCCcccCCCccceeeeeecCCccCCCCCCCcccccceechhHHHH
Q 002685 191 LILGIIFKEEVVLKRPRLVGTMASSGHSQGSVSSGTRSKRVFALRENDVSNPDSVFPKLKRRDIFGRASFLL 262 (893)
Q Consensus 191 ~v~~i~~~~~~v~g~k~l~~~~~f~g~s~g~~~~g~~~krvfa~~~~~~~~~~~~f~~~~~~~~~~~~~~l~ 262 (893)
++++++|+ +..+..+ .+.|.|+ +||. +++.-..|+++|..|.|.-.+..+-
T Consensus 356 il~~i~l~---i~~Ge~i----aIvG~SG----sGKS----------TLl~lL~gl~~p~~G~I~idg~~i~ 406 (592)
T PRK10790 356 VLQNINLS---VPSRGFV----ALVGHTG----SGKS----------TLASLLMGYYPLTEGEIRLDGRPLS 406 (592)
T ss_pred eeeceeEE---EcCCCEE----EEECCCC----CCHH----------HHHHHHhcccCCCCceEEECCEEhh
Confidence 46666666 4433332 4669999 9999 9999999999999999988876553
No 58
>PF13275 S4_2: S4 domain; PDB: 1P9K_A.
Probab=22.39 E-value=42 Score=29.88 Aligned_cols=27 Identities=33% Similarity=0.402 Sum_probs=16.5
Q ss_pred ccccceEECCEEcc-CCCeeeCCCCCEEEE
Q 002685 146 VSLNGVFVNGIRLK-SGIVRELNAGDEVLF 174 (893)
Q Consensus 146 ~S~NGTfVNG~RI~-k~~~~~L~~GD~I~~ 174 (893)
-..+.++|||+... ++ ..|.+||+|.|
T Consensus 30 I~~g~V~VNGe~e~rrg--~Kl~~GD~V~~ 57 (65)
T PF13275_consen 30 IQEGEVKVNGEVETRRG--KKLRPGDVVEI 57 (65)
T ss_dssp HHHHHHEETTB----SS------SSEEEEE
T ss_pred HHcCceEECCEEccccC--CcCCCCCEEEE
Confidence 34578999999664 44 46999999999
No 59
>PRK06437 hypothetical protein; Provisional
Probab=22.25 E-value=1.1e+02 Score=26.81 Aligned_cols=26 Identities=27% Similarity=0.364 Sum_probs=20.8
Q ss_pred cceEECCEEccCCCeeeCCCCCEEEEEe
Q 002685 149 NGVFVNGIRLKSGIVRELNAGDEVLFVC 176 (893)
Q Consensus 149 NGTfVNG~RI~k~~~~~L~~GD~I~~~~ 176 (893)
=.+.+||+.|... ..|++||+|.|+.
T Consensus 37 vaV~vNg~iv~~~--~~L~dgD~Veiv~ 62 (67)
T PRK06437 37 YVVIVNGSPVLED--HNVKKEDDVLILE 62 (67)
T ss_pred EEEEECCEECCCc--eEcCCCCEEEEEe
Confidence 3567899999854 6799999999953
No 60
>TIGR03873 F420-0_ABC_ATP proposed F420-0 ABC transporter, ATP-binding protein. This small clade of ABC-type transporter ATP-binding protein components is found as a three gene cassette along with a periplasmic substrate-binding protein (TIGR03868) and a permease (TIGR03869). The organisms containing this cassette are all Actinobacteria and all contain numerous genes requiring the coenzyme F420. This model was defined based on five such organisms, four of which are lacking all F420 biosynthetic capability save the final side-chain polyglutamate attachment step (via the gene cofE: TIGR01916). In Jonesia denitrificans DSM 20603 and marine actinobacterium PHSC20C1 this cassette is in an apparent operon with the cofE gene and, in PHSC20C1, also with a F420-dependent glucose-6-phosphate dehydrogenase (TIGR03554). Based on these observations we propose that this ATP-binding protein is a component of an F420-0 (that is, F420 lacking only the polyglutamate tail) transporter.
Probab=21.54 E-value=53 Score=34.94 Aligned_cols=33 Identities=9% Similarity=-0.101 Sum_probs=27.3
Q ss_pred eeccccCCcccCCCccceeeeeecCCccCCCCCCCcccccceechhH
Q 002685 213 ASSGHSQGSVSSGTRSKRVFALRENDVSNPDSVFPKLKRRDIFGRAS 259 (893)
Q Consensus 213 ~f~g~s~g~~~~g~~~krvfa~~~~~~~~~~~~f~~~~~~~~~~~~~ 259 (893)
.+.|.++ +||+ +++.-..|..++..|.|.-.+.
T Consensus 31 ~i~G~nG----sGKS----------TLl~~i~G~~~~~~G~i~~~g~ 63 (256)
T TIGR03873 31 GLLGPNG----SGKS----------TLLRLLAGALRPDAGTVDLAGV 63 (256)
T ss_pred EEECCCC----CCHH----------HHHHHHcCCCCCCCCEEEECCE
Confidence 3559999 9999 9999999999998887776554
No 61
>TIGR01682 moaD molybdopterin converting factor, subunit 1, non-archaeal. The C-terminal Gly-Gly of this model is critical to function.
Probab=21.46 E-value=1.1e+02 Score=27.28 Aligned_cols=24 Identities=42% Similarity=0.473 Sum_probs=18.8
Q ss_pred eEECCEEccCCCeeeCCCCCEEEEEe
Q 002685 151 VFVNGIRLKSGIVRELNAGDEVLFVC 176 (893)
Q Consensus 151 TfVNG~RI~k~~~~~L~~GD~I~~~~ 176 (893)
++|||+.+... ..|++||+|.|..
T Consensus 52 v~vn~~~v~~~--~~l~dgDevai~P 75 (80)
T TIGR01682 52 VAVNEEYVTDD--ALLNEGDEVAFIP 75 (80)
T ss_pred EEECCEEcCCC--cCcCCCCEEEEeC
Confidence 56788877754 5799999999964
No 62
>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=21.35 E-value=96 Score=26.63 Aligned_cols=27 Identities=26% Similarity=0.346 Sum_probs=20.4
Q ss_pred ceEECCEEccCC--CeeeCCCCCEEEEEe
Q 002685 150 GVFVNGIRLKSG--IVRELNAGDEVLFVC 176 (893)
Q Consensus 150 GTfVNG~RI~k~--~~~~L~~GD~I~~~~ 176 (893)
.+.|||+-|.+. ....|++||+|.|..
T Consensus 32 ~V~vNg~~v~~~~~~~~~L~~gD~V~ii~ 60 (65)
T cd00565 32 AVALNGEIVPRSEWASTPLQDGDRIEIVT 60 (65)
T ss_pred EEEECCEEcCHHHcCceecCCCCEEEEEE
Confidence 466899988774 124699999999953
No 63
>PRK10908 cell division protein FtsE; Provisional
Probab=21.18 E-value=46 Score=34.54 Aligned_cols=49 Identities=14% Similarity=0.142 Sum_probs=35.1
Q ss_pred EEEEEEEEEEeeeeCCceeeceeeeccccCCcccCCCccceeeeeecCCccCCCCCCCcccccceechhH
Q 002685 190 FLILGIIFKEEVVLKRPRLVGTMASSGHSQGSVSSGTRSKRVFALRENDVSNPDSVFPKLKRRDIFGRAS 259 (893)
Q Consensus 190 f~v~~i~~~~~~v~g~k~l~~~~~f~g~s~g~~~~g~~~krvfa~~~~~~~~~~~~f~~~~~~~~~~~~~ 259 (893)
.+++.|+|+ +..+..+ .+.|.++ +||+ +++.-..|..++..|-|.-.+.
T Consensus 16 ~~l~~vsl~---i~~Ge~~----~i~G~nG----sGKS----------TLl~~l~G~~~~~~G~i~~~g~ 64 (222)
T PRK10908 16 QALQGVTFH---MRPGEMA----FLTGHSG----AGKS----------TLLKLICGIERPSAGKIWFSGH 64 (222)
T ss_pred eEEeeeeEE---EcCCCEE----EEECCCC----CCHH----------HHHHHHhCCCCCCceEEEECCE
Confidence 356667666 3332322 4669999 9999 9999999999988887766554
No 64
>PF14451 Ub-Mut7C: Mut7-C ubiquitin
Probab=21.14 E-value=1e+02 Score=28.45 Aligned_cols=26 Identities=27% Similarity=0.310 Sum_probs=21.7
Q ss_pred cceEECCEEccCCCeeeCCCCCEEEEEe
Q 002685 149 NGVFVNGIRLKSGIVRELNAGDEVLFVC 176 (893)
Q Consensus 149 NGTfVNG~RI~k~~~~~L~~GD~I~~~~ 176 (893)
.-.+|||+.+.-. ..+++||+|.+..
T Consensus 50 ~~i~vNG~~v~~~--~~~~~Gd~v~V~P 75 (81)
T PF14451_consen 50 GLILVNGRPVDFD--YRLKDGDRVAVYP 75 (81)
T ss_pred EEEEECCEECCCc--ccCCCCCEEEEEe
Confidence 5578999999886 5699999999853
No 65
>PRK11160 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed
Probab=20.57 E-value=38 Score=40.70 Aligned_cols=51 Identities=10% Similarity=0.128 Sum_probs=38.4
Q ss_pred EEEEEEEEEeeeeCCceeeceeeeccccCCcccCCCccceeeeeecCCccCCCCCCCcccccceechhHHHH
Q 002685 191 LILGIIFKEEVVLKRPRLVGTMASSGHSQGSVSSGTRSKRVFALRENDVSNPDSVFPKLKRRDIFGRASFLL 262 (893)
Q Consensus 191 ~v~~i~~~~~~v~g~k~l~~~~~f~g~s~g~~~~g~~~krvfa~~~~~~~~~~~~f~~~~~~~~~~~~~~l~ 262 (893)
++++++|+ +..+..+ .+.|.|+ |||+ ++..-..||+++..|.|.-.+..+-
T Consensus 355 il~~i~~~---i~~G~~~----aivG~sG----sGKS----------TL~~ll~g~~~p~~G~I~i~g~~i~ 405 (574)
T PRK11160 355 VLKGLSLQ---IKAGEKV----ALLGRTG----CGKS----------TLLQLLTRAWDPQQGEILLNGQPIA 405 (574)
T ss_pred ceecceEE---ECCCCEE----EEECCCC----CCHH----------HHHHHHhcCCCCCCceEEECCEEhh
Confidence 45666666 3433332 4669999 9999 9999999999999999988876543
No 66
>TIGR03797 NHPM_micro_ABC2 NHPM bacteriocin system ABC transporter, ATP-binding protein. Members of this protein family are ABC transporter ATP-binding subunits, part of a three-gene putative bacteriocin transport operon. The other subunits include another ATP-binding subunit (TIGR03796), which has an N-terminal propeptide cleavage domain, and an HlyD homolog (TIGR03794). In a number of genomes, a conserved propeptide sequence with a classic Gly-Gly motif
Probab=20.46 E-value=34 Score=41.85 Aligned_cols=52 Identities=15% Similarity=0.119 Sum_probs=40.0
Q ss_pred EEEEEEEEEEeeeeCCceeeceeeeccccCCcccCCCccceeeeeecCCccCCCCCCCcccccceechhHHHH
Q 002685 190 FLILGIIFKEEVVLKRPRLVGTMASSGHSQGSVSSGTRSKRVFALRENDVSNPDSVFPKLKRRDIFGRASFLL 262 (893)
Q Consensus 190 f~v~~i~~~~~~v~g~k~l~~~~~f~g~s~g~~~~g~~~krvfa~~~~~~~~~~~~f~~~~~~~~~~~~~~l~ 262 (893)
.++++|+|+ +..++.+ .+.|.|+ |||+ ++..--.||+.|..|.|.-.+..+-
T Consensus 467 ~vL~~isl~---i~~Ge~v----aIvG~sG----sGKS----------TLlklL~gl~~p~~G~I~idg~~i~ 518 (686)
T TIGR03797 467 LILDDVSLQ---IEPGEFV----AIVGPSG----SGKS----------TLLRLLLGFETPESGSVFYDGQDLA 518 (686)
T ss_pred cceeeeEEE---ECCCCEE----EEECCCC----CCHH----------HHHHHHhCCCCCCCCEEEECCEEcC
Confidence 456677776 4433432 5679999 9999 9999999999999999988876553
No 67
>cd03256 ABC_PhnC_transporter ABC-type phosphate/phosphonate transport system. Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all kingdoms of wildlife, but only procaryotic microorganisms are able to cleave this bond. Certain bacteria such as E. coli can use alkylphosphonates as a phosphorus source. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=20.23 E-value=40 Score=35.18 Aligned_cols=49 Identities=8% Similarity=0.004 Sum_probs=35.7
Q ss_pred EEEEEEEEEEeeeeCCceeeceeeeccccCCcccCCCccceeeeeecCCccCCCCCCCcccccceechhH
Q 002685 190 FLILGIIFKEEVVLKRPRLVGTMASSGHSQGSVSSGTRSKRVFALRENDVSNPDSVFPKLKRRDIFGRAS 259 (893)
Q Consensus 190 f~v~~i~~~~~~v~g~k~l~~~~~f~g~s~g~~~~g~~~krvfa~~~~~~~~~~~~f~~~~~~~~~~~~~ 259 (893)
.++++++|+ +..+.. +.+.|.|+ |||+ +++....|+.++..|.|+-.+.
T Consensus 15 ~~l~~vs~~---i~~Ge~----~~i~G~nG----sGKS----------TLl~~l~Gl~~~~~G~i~~~g~ 63 (241)
T cd03256 15 KALKDVSLS---INPGEF----VALIGPSG----AGKS----------TLLRCLNGLVEPTSGSVLIDGT 63 (241)
T ss_pred EEEecceEE---EcCCCE----EEEECCCC----CCHH----------HHHHHHhCCcCCCCceEEECCE
Confidence 356777776 333222 24669999 9999 9999999999988887776554
No 68
>PRK13644 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=20.17 E-value=59 Score=35.27 Aligned_cols=48 Identities=10% Similarity=0.095 Sum_probs=35.3
Q ss_pred EEEEEEEEEeeeeCCceeeceeeeccccCCcccCCCccceeeeeecCCccCCCCCCCcccccceechhH
Q 002685 191 LILGIIFKEEVVLKRPRLVGTMASSGHSQGSVSSGTRSKRVFALRENDVSNPDSVFPKLKRRDIFGRAS 259 (893)
Q Consensus 191 ~v~~i~~~~~~v~g~k~l~~~~~f~g~s~g~~~~g~~~krvfa~~~~~~~~~~~~f~~~~~~~~~~~~~ 259 (893)
++++|+|+ +..+.- +.+.|.++ +||+ +++....|..++..|.|.-++.
T Consensus 17 ~l~~vsl~---i~~Ge~----~~i~G~nG----sGKS----------TLl~~l~Gl~~p~~G~i~~~g~ 64 (274)
T PRK13644 17 ALENINLV---IKKGEY----IGIIGKNG----SGKS----------TLALHLNGLLRPQKGKVLVSGI 64 (274)
T ss_pred eeeeeEEE---EeCCCE----EEEECCCC----CCHH----------HHHHHHhcCCCCCCceEEECCE
Confidence 46677776 333222 24669999 9999 9999999999998888876554
No 69
>PRK06488 sulfur carrier protein ThiS; Validated
Probab=20.13 E-value=82 Score=27.06 Aligned_cols=25 Identities=24% Similarity=0.282 Sum_probs=18.1
Q ss_pred EECCEEccCCC--eeeCCCCCEEEEEe
Q 002685 152 FVNGIRLKSGI--VRELNAGDEVLFVC 176 (893)
Q Consensus 152 fVNG~RI~k~~--~~~L~~GD~I~~~~ 176 (893)
-|||+-|.+.. ...|++||+|.|+.
T Consensus 34 avN~~iv~~~~~~~~~L~dgD~Ieiv~ 60 (65)
T PRK06488 34 AVNGELVHKEARAQFVLHEGDRIEILS 60 (65)
T ss_pred EECCEEcCHHHcCccccCCCCEEEEEE
Confidence 46777777632 35699999999954
Done!