Query psy157
Match_columns 347
No_of_seqs 131 out of 221
Neff 5.3
Searched_HMMs 46136
Date Fri Aug 16 19:14:41 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy157.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/157hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2260|consensus 100.0 5E-82 1.1E-86 610.9 28.4 327 1-332 2-361 (372)
2 PF03234 CDC37_N: Cdc37 N term 100.0 1.1E-40 2.3E-45 300.4 14.0 123 1-125 1-177 (177)
3 PF08565 CDC37_M: Cdc37 Hsp90 100.0 5.8E-33 1.2E-37 249.9 12.7 90 162-251 81-171 (173)
4 PF08564 CDC37_C: Cdc37 C term 99.9 3.2E-24 7E-29 176.9 1.2 64 261-324 1-72 (99)
5 KOG2260|consensus 98.6 6.4E-07 1.4E-11 88.6 14.7 182 81-281 126-372 (372)
6 PF12643 MazG-like: MazG-like 80.8 4.7 0.0001 33.6 5.8 74 166-241 19-97 (98)
7 PF15188 CCDC-167: Coiled-coil 75.6 15 0.00032 30.0 7.0 62 44-106 4-65 (85)
8 PF08317 Spc7: Spc7 kinetochor 69.2 54 0.0012 32.4 10.8 34 25-58 136-176 (325)
9 PF03962 Mnd1: Mnd1 family; I 65.0 39 0.00084 31.1 8.3 67 33-103 61-129 (188)
10 PF12718 Tropomyosin_1: Tropom 64.2 69 0.0015 28.2 9.4 63 40-106 75-137 (143)
11 KOG2391|consensus 55.5 93 0.002 31.7 9.5 30 78-107 254-284 (365)
12 PF07106 TBPIP: Tat binding pr 55.0 1E+02 0.0022 27.4 9.0 64 40-105 74-137 (169)
13 smart00787 Spc7 Spc7 kinetocho 53.7 1.5E+02 0.0032 29.5 10.8 8 25-32 131-138 (312)
14 KOG2635|consensus 51.6 5.8 0.00013 41.3 0.5 11 18-28 331-341 (512)
15 PF10805 DUF2730: Protein of u 50.1 1.5E+02 0.0032 24.7 8.9 55 47-103 37-91 (106)
16 PF06810 Phage_GP20: Phage min 48.1 1.5E+02 0.0032 26.5 8.9 57 48-105 23-83 (155)
17 KOG3088|consensus 45.6 27 0.00059 34.6 4.0 31 80-110 60-90 (313)
18 COG4942 Membrane-bound metallo 44.7 1.6E+02 0.0035 30.7 9.6 41 33-73 33-73 (420)
19 KOG4456|consensus 39.2 38 0.00082 29.7 3.5 40 183-233 73-112 (134)
20 cd08332 CARD_CASP2 Caspase act 39.1 47 0.001 26.9 3.9 33 206-238 50-83 (90)
21 PF09999 DUF2240: Uncharacteri 39.1 27 0.00058 31.2 2.7 26 297-322 32-57 (144)
22 COG4026 Uncharacterized protei 38.2 3E+02 0.0066 26.7 9.6 12 93-104 193-204 (290)
23 PRK11637 AmiB activator; Provi 36.2 3.1E+02 0.0066 28.0 10.2 37 33-69 165-201 (428)
24 PRK11235 bifunctional antitoxi 36.1 19 0.00042 28.9 1.2 22 196-217 18-39 (80)
25 COG1579 Zn-ribbon protein, pos 36.1 3.1E+02 0.0067 26.5 9.5 65 39-105 53-117 (239)
26 PF07889 DUF1664: Protein of u 35.4 3E+02 0.0066 24.0 8.8 28 78-105 97-124 (126)
27 PF08535 KorB: KorB domain; I 33.8 50 0.0011 26.4 3.3 43 274-316 27-74 (93)
28 PF12840 HTH_20: Helix-turn-he 33.0 55 0.0012 24.0 3.1 32 288-320 26-57 (61)
29 PRK10884 SH3 domain-containing 32.6 3.8E+02 0.0083 25.1 9.4 17 39-55 94-110 (206)
30 PF10711 DUF2513: Hypothetical 32.4 44 0.00096 27.4 2.8 33 292-324 25-57 (102)
31 PRK12704 phosphodiesterase; Pr 32.0 4.4E+02 0.0095 28.1 10.8 20 298-318 355-374 (520)
32 PF10498 IFT57: Intra-flagella 31.7 2.7E+02 0.0059 28.3 8.8 16 34-49 219-234 (359)
33 PF04221 RelB: RelB antitoxin; 30.8 25 0.00054 27.9 1.0 23 196-218 18-40 (83)
34 TIGR02384 RelB_DinJ addiction 30.7 29 0.00063 27.8 1.4 24 195-218 18-41 (83)
35 PF05278 PEARLI-4: Arabidopsis 29.8 5.5E+02 0.012 25.3 10.5 27 79-105 216-242 (269)
36 KOG4552|consensus 29.8 2.5E+02 0.0055 26.9 7.6 55 48-117 77-131 (272)
37 KOG1760|consensus 29.6 1.6E+02 0.0034 25.9 5.7 25 8-32 54-78 (131)
38 KOG0995|consensus 29.6 3.9E+02 0.0084 29.1 9.7 70 33-103 289-358 (581)
39 TIGR02763 chlamy_scaf chlamydi 28.1 43 0.00093 28.5 2.0 44 270-321 44-88 (114)
40 PF08317 Spc7: Spc7 kinetochor 27.3 2.9E+02 0.0063 27.3 8.1 11 59-69 209-219 (325)
41 PRK12704 phosphodiesterase; Pr 27.2 6.2E+02 0.013 27.0 10.9 10 162-171 190-199 (520)
42 PRK13182 racA polar chromosome 26.9 4.9E+02 0.011 23.8 9.5 59 48-108 88-146 (175)
43 PRK09039 hypothetical protein; 26.5 5.3E+02 0.012 25.8 9.8 14 302-315 291-304 (343)
44 KOG0804|consensus 26.5 4.3E+02 0.0094 28.0 9.2 17 49-65 348-364 (493)
45 PRK05431 seryl-tRNA synthetase 25.7 5.1E+02 0.011 26.7 9.8 27 79-105 68-94 (425)
46 PF10018 Med4: Vitamin-D-recep 25.5 2E+02 0.0043 26.2 6.1 33 33-65 24-56 (188)
47 cd03569 VHS_Hrs_Vps27p VHS dom 25.4 2E+02 0.0043 25.1 5.9 29 192-220 23-54 (142)
48 PRK13696 hypothetical protein; 25.1 1.1E+02 0.0024 23.6 3.6 36 275-310 24-61 (62)
49 PF10211 Ax_dynein_light: Axon 24.6 5.5E+02 0.012 23.5 10.0 39 33-71 115-153 (189)
50 TIGR03319 YmdA_YtgF conserved 24.3 7.3E+02 0.016 26.4 10.8 19 299-318 350-368 (514)
51 PF04700 Baculo_gp41: Structur 24.0 6E+02 0.013 23.7 10.7 66 94-200 8-73 (186)
52 smart00049 DEP Domain found in 23.9 78 0.0017 24.0 2.7 27 296-322 34-60 (77)
53 PF11728 DUF939_C: DUF939 C-te 23.7 1.9E+02 0.004 26.0 5.5 55 186-240 77-135 (167)
54 PF01445 SH: Viral small hydro 23.3 29 0.00062 26.1 0.1 8 25-32 45-52 (57)
55 PF12348 CLASP_N: CLASP N term 23.0 3.8E+02 0.0082 24.1 7.5 15 271-285 214-228 (228)
56 PF07146 DUF1389: Protein of u 22.8 86 0.0019 31.4 3.4 52 268-319 80-140 (314)
57 cd01709 RT_like_1 RT_like_1: A 22.4 1.7E+02 0.0036 29.8 5.3 59 184-242 194-262 (346)
58 PF10084 DUF2322: Uncharacteri 21.4 26 0.00057 29.4 -0.4 11 19-31 78-88 (100)
59 TIGR00787 dctP tripartite ATP- 21.3 92 0.002 29.1 3.1 45 270-315 213-257 (257)
60 PF02831 gpW: gpW; InterPro: 21.1 85 0.0018 24.5 2.3 34 180-213 33-68 (68)
61 PF03480 SBP_bac_7: Bacterial 20.8 48 0.001 31.4 1.2 51 270-321 213-263 (286)
62 PF02403 Seryl_tRNA_N: Seryl-t 20.5 4.6E+02 0.01 21.2 10.0 45 60-105 51-95 (108)
63 COG2433 Uncharacterized conser 20.3 8.9E+02 0.019 26.8 10.4 27 80-106 484-510 (652)
64 PF03819 MazG: MazG nucleotide 20.3 48 0.001 25.4 0.9 32 188-219 34-69 (74)
No 1
>KOG2260|consensus
Probab=100.00 E-value=5e-82 Score=610.87 Aligned_cols=327 Identities=48% Similarity=0.775 Sum_probs=300.9
Q ss_pred CCCccCCCccccCCCCC-CCCCCCCchhhhhHhhHHHHHhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHhhhhhhccccH
Q psy157 1 MVDYSKWKDIEISDDED-ETHPNIDTPSLFRWRHQARVERMEEQRLENEKFQQEKEKTLKTLEETKKKLVESEQAGANNL 79 (347)
Q Consensus 1 ~iDYSKWd~iElSDDeD-e~HPNVDk~S~~RwkHq~R~eR~~e~~~e~e~l~~~~~~~~~~l~e~~~~l~~~~~~~~e~~ 79 (347)
||||||||+|||||||| |||||||||||||||||+|.+||++.+|++++|++++.+|.+++.+++++|+.|..+ ..
T Consensus 2 ~iDySkwd~iElSDDeD~evHPNiD~~Sl~rWr~Q~r~Err~~~~q~~eei~k~~~~~~~ll~e~~e~l~~l~~~---~~ 78 (372)
T KOG2260|consen 2 AIDYSKWDKIELSDDEDVEVHPNIDKPSLIRWRQQARHERRAERKQEQEEIKKSKDMYSRLLEEVQEILSNLEVS---SL 78 (372)
T ss_pred CCCcccccccccccccccccCCCCCchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCcc---cc
Confidence 59999999999999999 999999999999999999999999999999999999999999999999999998655 23
Q ss_pred HHHHHHHHHHHH------HHHHHHHHHHHHhhhhhcCCCccccCCCCCCccccccCCCCCCC-CCCChHHHHHHHHHHHH
Q psy157 80 DELKKALAELEK------EAANIRKKEEDLKKKEKITPWNVDTISKPGFTKTVVNKKPPLQQ-GEKSDEEKEQEMKAFVK 152 (347)
Q Consensus 80 ~~l~~h~~kl~~------~~~e~~~Kl~eLek~Ek~~~insD~Ish~GF~kS~INk~~~~~~-~~~see~~~~~~~~F~~ 152 (347)
..++.++++++. ..+.|+.++++|.+.+|..|||+|+||++||++|+||+.+.+.. ...+++...+.+..|++
T Consensus 79 s~~~~E~~k~e~~~~ei~~~e~~~~~~eeL~k~ek~~~w~tdtis~d~f~Ks~in~~s~k~~~~~~~ee~~~ek~~~f~e 158 (372)
T KOG2260|consen 79 SGLKKELEKFETVDSEIREGEAWEDKLEELEKKEKKEPWLTDTISKDAFSKSRINKKSEKKEEDKKLEEERKEKMKTFVE 158 (372)
T ss_pred hhHHHHHHHhcccccccccchHHHHHHHHHHHHHhhCcccchhhhchhHHHHHhhcccccchhhhhhHHHHHHHhHHHHH
Confidence 355666666666 79999999999999999999999999999999999999764332 11256677899999999
Q ss_pred HHHHHHHHH------------------------HhHHHHHHHHHhhhcchhhHhHHHHHHHHHHHHHHHHHhCCCCCcch
Q psy157 153 ENEKLIKQY------------------------ANYLVIWCINLAMDEKFDLMDHVAHQCICMQYLLELSKSLNIDPRAC 208 (347)
Q Consensus 153 k~e~~~~~F------------------------~d~Ll~~af~lemegk~~~~~qvaHQalllQyIleLa~~l~~dpr~~ 208 (347)
+|+..+.+| +|||+||||++++..++.+|.++|||+++||||+|++++|+++||.|
T Consensus 159 ~~e~~~~~~~~L~~~~~sq~~l~ehp~~~~e~tan~lvi~~ln~~v~~ke~~m~~~a~q~iv~q~ilE~aKsl~~~~~~~ 238 (372)
T KOG2260|consen 159 EYEKLIFHFGMLRKWDDSQKFLAEHPHLVSEETANYLVIESLNLEVPKKEELMEGNAHQCIVMQFILELAKSLKVDPRAC 238 (372)
T ss_pred HhHHHHHHhhhhhcccccccccccchhHHHHHHHHHHHHHHHhcccccchhHHhcccccchHHHHHHHHhhhcCcChHHH
Confidence 999999999 99999999999999999999999999999999999999999999999
Q ss_pred hHHhHhhhcccCchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHhhcCCCCcccccccccCc-HHHHHHhhhC
Q psy157 209 IGSFFSKIQIAEPDYKASFDDELKSFKERIRNRAKEKLDEALKEVEEEERQKRLGPGGLDPVEVFESLP-DVLKKCFELQ 287 (347)
Q Consensus 209 v~~FF~ki~~~~~~~~~~F~~dv~~~~~rIk~Ra~~~~~e~~~e~e~ee~q~~l~Pggldp~evFeslP-~~mq~afet~ 287 (347)
++.||+++..+.+.|++.|.++|.+|..|++.||+.+++.++ .++.++...++||||++|+.+|++|| .+||+||+.+
T Consensus 239 ~~~fFkk~~~~e~~y~e~~~DEleaFk~r~r~raq~k~~~~m-~~~~~e~~e~lgp~gld~~~~~e~lP~eelqr~f~~~ 317 (372)
T KOG2260|consen 239 QSQFFKKAEASEEFYMEHFDDELEAFKSRLRLRAQLKIQYAM-QALYEEYAERLGPGGLDKVEFLESLPQEELKRSFEEK 317 (372)
T ss_pred HHHHHHHHHhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-hhhhhhHHHhcCCCcccHHHHHHhCcHHHHHHHHHHH
Confidence 999999999999999999999999999999999999999988 57677788899999999999999999 9999999999
Q ss_pred ChHHHHHHHhcCCHHHHHHHHHHhhhcCccccCccccCCCCCCCC
Q psy157 288 DTAMLQEAIASLSPEEATYHMKRCVDSGLWVPDAKKAAGESEDPQ 332 (347)
Q Consensus 288 dld~vn~vl~~M~veeAE~~~~r~~dsGlw~p~~~~~~~~~~~~~ 332 (347)
++.++..++.+|+++.|++||++|+++|+|+|++. ...++.||.
T Consensus 318 ~~~~l~~~~skmd~e~~k~~iqlc~~~~~~l~~~~-~~~~~~~~e 361 (372)
T KOG2260|consen 318 DVEALIGAISKMDEEDAKEQIQLCVDDPTWLPNNA-PDEGSKDPE 361 (372)
T ss_pred HHHHHHHHHhhhchhhHHHHHHHHhcCCccccCcC-ccccCCCcc
Confidence 99999999999999999999999999999999965 344444443
No 2
>PF03234 CDC37_N: Cdc37 N terminal kinase binding; InterPro: IPR013855 In Saccharomyces cerevisiae (Baker's yeast), cell division control protein Cdc37 is required for the productive formation of Cdc28-cyclin complexes. Cdc37 may be a kinase targeting subunit of Hsp90 [].
Probab=100.00 E-value=1.1e-40 Score=300.40 Aligned_cols=123 Identities=46% Similarity=0.713 Sum_probs=111.5
Q ss_pred CCCccCCCccccCCCCC-CCCCCCCchhhhhHhhHHHHHhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHhhhhhhc----
Q psy157 1 MVDYSKWKDIEISDDED-ETHPNIDTPSLFRWRHQARVERMEEQRLENEKFQQEKEKTLKTLEETKKKLVESEQAG---- 75 (347)
Q Consensus 1 ~iDYSKWd~iElSDDeD-e~HPNVDk~S~~RwkHq~R~eR~~e~~~e~e~l~~~~~~~~~~l~e~~~~l~~~~~~~---- 75 (347)
||||||||+|||||||| ||||||||+||||||||+|++||++.+++++.|++++.+|..++.+++++|..+..+.
T Consensus 1 ~idYSKWd~iElSDDeDie~HPniD~~S~~rwk~~~~~e~~~~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~ 80 (177)
T PF03234_consen 1 PIDYSKWDHIELSDDEDIEVHPNIDKRSLFRWKHQARHERREERKQEIEELKYERKINEKLLKRIQKLLSALDKEEEADK 80 (177)
T ss_pred CCCccccccccccCccccccCCCCChHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccchH
Confidence 89999999999999999 9999999999999999999999999999999999999999999999998888654310
Q ss_pred ----------c---------------------------------------ccHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy157 76 ----------A---------------------------------------NNLDELKKALAELEKEAANIRKKEEDLKKK 106 (347)
Q Consensus 76 ----------~---------------------------------------e~~~~l~~h~~kl~~~~~e~~~Kl~eLek~ 106 (347)
. ..+.+|++|+++|.+++++|..+|++|+++
T Consensus 81 ~~v~~~~~~~~~~~e~~~~~~~~~~~p~y~~Mi~~L~~qvk~~~de~~~~~~~~~l~~H~~kl~~~~ke~~~kLeeLekE 160 (177)
T PF03234_consen 81 QEVMESLNEPFDKKEKPGVENKDPEQPTYDEMIEDLLDQVKKEPDEKSGKAELEELQEHRAKLEKEQKELKKKLEELEKE 160 (177)
T ss_pred HHHHHHHhcccccccccccccCCCCCCCHHHHHHHHHHHHhcccCcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 0 012478999999999999999999999997
Q ss_pred hhcCCCccccCCCCCCccc
Q psy157 107 EKITPWNVDTISKPGFTKT 125 (347)
Q Consensus 107 Ek~~~insD~Ish~GF~kS 125 (347)
++++ ||||+| |+|||+|
T Consensus 161 e~kk-itSedi-h~GFdsS 177 (177)
T PF03234_consen 161 EKKK-ITSEDI-HTGFDSS 177 (177)
T ss_pred HhcC-CCCCcc-ccCCCCC
Confidence 7777 889999 9999997
No 3
>PF08565 CDC37_M: Cdc37 Hsp90 binding domain; InterPro: IPR013874 Cdc37 is a molecular chaperone required for the activity of numerous eukaryotic protein kinases. This entry corresponds to the Hsp90 chaperone (heat shock protein 90) binding domain of Cdc37 []. It is found between the N-terminal Cdc37 domain IPR013855 from INTERPRO, which is predominantly involved in kinase binding, and the C-terminal domain of Cdc37 IPR013873 from INTERPRO whose function is unclear. ; PDB: 1US7_B 2W0G_A 2K5B_B.
Probab=100.00 E-value=5.8e-33 Score=249.86 Aligned_cols=90 Identities=41% Similarity=0.764 Sum_probs=84.5
Q ss_pred HhHHHHHHHHHhhhcchhhHhHHHHHHHHHHHHHHHHHhCCCCCcchhHHhHhhhcc-cCchhHHHHHHHHHHHHHHHHH
Q psy157 162 ANYLVIWCINLAMDEKFDLMDHVAHQCICMQYLLELSKSLNIDPRACIGSFFSKIQI-AEPDYKASFDDELKSFKERIRN 240 (347)
Q Consensus 162 ~d~Ll~~af~lemegk~~~~~qvaHQalllQyIleLa~~l~~dpr~~v~~FF~ki~~-~~~~~~~~F~~dv~~~~~rIk~ 240 (347)
+||||||||++||+|++++|+||||||+|||||++|+++++.+||+||++||+||.+ ++|+|+++|++||++||+||+.
T Consensus 81 ~d~Ll~~af~~emegk~~~~~q~vhQsllLqyi~eLak~~~~~pr~~v~~FF~r~~~~~~~~~~~~F~~dv~~~~~rIk~ 160 (173)
T PF08565_consen 81 ADALLMWAFDLEMEGKHELARQVVHQSLLLQYIRELAKSLKRDPRDGVRLFFKRIKTPGHPEAKKVFEDDVEAFYERIKE 160 (173)
T ss_dssp HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHHHHHHTS-GGGCHHHHHHHHTT-SSHHHHHHHHHHHHHHHHHHHH
T ss_pred ccHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999999999999999999999999999999999999999 7777999999999999999999
Q ss_pred HHHHHHHHHhh
Q psy157 241 RAKEKLDEALK 251 (347)
Q Consensus 241 Ra~~~~~e~~~ 251 (347)
||+++++|+..
T Consensus 161 Ra~~~~~E~~~ 171 (173)
T PF08565_consen 161 RAKEKMEEQEE 171 (173)
T ss_dssp HHHHHHHHHHH
T ss_pred HHHHHHHHHHh
Confidence 99999877654
No 4
>PF08564 CDC37_C: Cdc37 C terminal domain; InterPro: IPR013873 Cdc37 is a protein required for the activity of numerous eukaryotic protein kinases. This entry corresponds to the C-terminal domain whose function is unclear. It is found C-terminal to the Hsp90 chaperone (heat shock protein 90) binding domain IPR013874 from INTERPRO and the N-terminal kinase binding domain of Cdc37 IPR013855 from INTERPRO []. ; PDB: 1US7_B.
Probab=99.88 E-value=3.2e-24 Score=176.93 Aligned_cols=64 Identities=47% Similarity=0.915 Sum_probs=38.7
Q ss_pred hcCCC--Ccccc------cccccCcHHHHHHhhhCChHHHHHHHhcCCHHHHHHHHHHhhhcCccccCcccc
Q psy157 261 RLGPG--GLDPV------EVFESLPDVLKKCFELQDTAMLQEAIASLSPEEATYHMKRCVDSGLWVPDAKKA 324 (347)
Q Consensus 261 ~l~Pg--gldp~------evFeslP~~mq~afet~dld~vn~vl~~M~veeAE~~~~r~~dsGlw~p~~~~~ 324 (347)
+++|| |+||. +||++||++||+||+|||||+||+||++|||++|+|||++|++||||+|++..+
T Consensus 1 ~~~Pg~~~lDp~~~~~~~evFeslP~emq~Alet~~ld~vnkVl~~M~veeAE~~v~~~~esGi~~~~~~~e 72 (99)
T PF08564_consen 1 RNGPGAEGLDPEEERKAREVFESLPPEMQKALETGDLDEVNKVLGKMPVEEAEYHVERCIESGIWSPEAGIE 72 (99)
T ss_dssp T--TT--S--HH------HHHHHS-TT------------HHHHHT--SSSHHHHHHHHHHHTTSS--TT---
T ss_pred CCCCCCCCCCcchhhhHHHHHHHCCHHHHHHHHcCCHHHHHHHHHhCCHHHHHHHHHHHHhCCccccccCcc
Confidence 35788 99997 999999999999999999999999999999999999999999999999998764
No 5
>KOG2260|consensus
Probab=98.65 E-value=6.4e-07 Score=88.58 Aligned_cols=182 Identities=20% Similarity=0.227 Sum_probs=120.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhhhcCCCccccCCCCCCccccccCCCCCCC--CCC----Ch--------------
Q psy157 81 ELKKALAELEKEAANIRKKEEDLKKKEKITPWNVDTISKPGFTKTVVNKKPPLQQ--GEK----SD-------------- 140 (347)
Q Consensus 81 ~l~~h~~kl~~~~~e~~~Kl~eLek~Ek~~~insD~Ish~GF~kS~INk~~~~~~--~~~----se-------------- 140 (347)
...+++..+........++++++++ +|.+.+-...+ |.+|..+++|+...... .+. ++
T Consensus 126 ~f~Ks~in~~s~k~~~~~~~ee~~~-ek~~~f~e~~e-~~~~~~~~L~~~~~sq~~l~ehp~~~~e~tan~lvi~~ln~~ 203 (372)
T KOG2260|consen 126 AFSKSRINKKSEKKEEDKKLEEERK-EKMKTFVEEYE-KLIFHFGMLRKWDDSQKFLAEHPHLVSEETANYLVIESLNLE 203 (372)
T ss_pred hHHHHHhhcccccchhhhhhHHHHH-HHhHHHHHHhH-HHHHHhhhhhcccccccccccchhHHHHHHHHHHHHHHHhcc
Confidence 5577777888888888899999998 89988888888 99999999998543111 000 00
Q ss_pred -HHHHHH----------------------------HHHHHHHHHH----HHHHHHhHHHHHHHHHhhhcchhhHhHHHHH
Q psy157 141 -EEKEQE----------------------------MKAFVKENEK----LIKQYANYLVIWCINLAMDEKFDLMDHVAHQ 187 (347)
Q Consensus 141 -e~~~~~----------------------------~~~F~~k~e~----~~~~F~d~Ll~~af~lemegk~~~~~qvaHQ 187 (347)
+.+.+. .+.|+++|.. ...+|.|- +.||..+++++..+..|.|||
T Consensus 204 v~~ke~~m~~~a~q~iv~q~ilE~aKsl~~~~~~~~~~fFkk~~~~e~~y~e~~~DE--leaFk~r~r~raq~k~~~~m~ 281 (372)
T KOG2260|consen 204 VPKKEELMEGNAHQCIVMQFILELAKSLKVDPRACQSQFFKKAEASEEFYMEHFDDE--LEAFKSRLRLRAQLKIQYAMQ 281 (372)
T ss_pred cccchhHHhcccccchHHHHHHHHhhhcCcChHHHHHHHHHHHHhccHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHhh
Confidence 001111 2224444443 12233555 789999999999999999999
Q ss_pred HHHHHHHHHHHHhCCCCCcchhHHhHhhhcccCchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh-hHHHHHh-hcCC-
Q psy157 188 CICMQYLLELSKSLNIDPRACIGSFFSKIQIAEPDYKASFDDELKSFKERIRNRAKEKLDEALKEV-EEEERQK-RLGP- 264 (347)
Q Consensus 188 alllQyIleLa~~l~~dpr~~v~~FF~ki~~~~~~~~~~F~~dv~~~~~rIk~Ra~~~~~e~~~e~-e~ee~q~-~l~P- 264 (347)
++.+.| |+.+| .+||..||-....+++..+..|...+- ++.......+.+. .++.+|. .++|
T Consensus 282 ~~~~e~----~e~lg---p~gld~~~~~e~lP~eelqr~f~~~~~--------~~l~~~~skmd~e~~k~~iqlc~~~~~ 346 (372)
T KOG2260|consen 282 ALYEEY----AERLG---PGGLDKVEFLESLPQEELKRSFEEKDV--------EALIGAISKMDEEDAKEQIQLCVDDPT 346 (372)
T ss_pred hhhhhH----HHhcC---CCcccHHHHHHhCcHHHHHHHHHHHHH--------HHHHHHHhhhchhhHHHHHHHHhcCCc
Confidence 999999 88888 488888888876655577777753322 2212111122211 1234555 4443
Q ss_pred ---------CCcccccccccCcHHHH
Q psy157 265 ---------GGLDPVEVFESLPDVLK 281 (347)
Q Consensus 265 ---------ggldp~evFeslP~~mq 281 (347)
|..||-+.|+.+|+.||
T Consensus 347 ~l~~~~~~~~~~~~e~~~e~~p~~~~ 372 (372)
T KOG2260|consen 347 WLPNNAPDEGSKDPEAMKEEEPTTMQ 372 (372)
T ss_pred cccCcCccccCCCcccccccCCCCCC
Confidence 67778888999998774
No 6
>PF12643 MazG-like: MazG-like family
Probab=80.85 E-value=4.7 Score=33.55 Aligned_cols=74 Identities=15% Similarity=0.202 Sum_probs=50.0
Q ss_pred HHHHHHHhhhcch---hhHhHHHHHHHHHHHHHHHHHhCCCCCcchhHHhHhhhcccCchhH--HHHHHHHHHHHHHHHH
Q psy157 166 VIWCINLAMDEKF---DLMDHVAHQCICMQYLLELSKSLNIDPRACIGSFFSKIQIAEPDYK--ASFDDELKSFKERIRN 240 (347)
Q Consensus 166 l~~af~lemegk~---~~~~qvaHQalllQyIleLa~~l~~dpr~~v~~FF~ki~~~~~~~~--~~F~~dv~~~~~rIk~ 240 (347)
+..+|..-..|.. +.+..+.=..++..| =||+.||.||+.-=...-.|+......|. +....|+...+.|++.
T Consensus 19 l~elfq~~~~~~~~~~e~i~deLAdvii~~y--lLa~rLGid~~~lD~~i~~KL~~~~~k~~~~Ek~~gdls~l~~~l~~ 96 (98)
T PF12643_consen 19 LLELFQWLTSGSEVAQEAIKDELADVIIYCY--LLADRLGIDFRELDEIIKEKLKKNIEKYPVLEKWYGDLSKLEQHLKK 96 (98)
T ss_pred HHHHHhhcccCcchHHHHHHHHHHHHHHHHH--HHHHHhCCCHHHHHHHHHHHHHhcccccchHHHHhccHHHHHHHHhc
Confidence 4556666666665 555555555555555 57999999986665556667665544443 4777889999999987
Q ss_pred H
Q psy157 241 R 241 (347)
Q Consensus 241 R 241 (347)
|
T Consensus 97 r 97 (98)
T PF12643_consen 97 R 97 (98)
T ss_pred c
Confidence 6
No 7
>PF15188 CCDC-167: Coiled-coil domain-containing protein 167
Probab=75.56 E-value=15 Score=30.01 Aligned_cols=62 Identities=23% Similarity=0.294 Sum_probs=51.3
Q ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHhhhhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy157 44 RLENEKFQQEKEKTLKTLEETKKKLVESEQAGANNLDELKKALAELEKEAANIRKKEEDLKKK 106 (347)
Q Consensus 44 ~~e~e~l~~~~~~~~~~l~e~~~~l~~~~~~~~e~~~~l~~h~~kl~~~~~e~~~Kl~eLek~ 106 (347)
..+|+.++..+..|..++..+..+|...... .+....+.++...|.+......++|..|.++
T Consensus 4 ~~eId~lEekl~~cr~~le~ve~rL~~~eLs-~e~R~~lE~E~~~l~~~l~~~E~eL~~LrkE 65 (85)
T PF15188_consen 4 AKEIDGLEEKLAQCRRRLEAVESRLRRRELS-PEARRSLEKELNELKEKLENNEKELKLLRKE 65 (85)
T ss_pred HHHHhhHHHHHHHHHHHHHHHHHHHcccCCC-hHHHHHHHHHHHHHHHHhhccHHHHHHHHHh
Confidence 4678999999999999999999999865433 2256788888899988888888999999883
No 8
>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association [].
Probab=69.22 E-value=54 Score=32.42 Aligned_cols=34 Identities=21% Similarity=0.304 Sum_probs=17.0
Q ss_pred chhhhhHhhHH-------HHHhHHHHHHHHHHHHHHHHHhH
Q psy157 25 TPSLFRWRHQA-------RVERMEEQRLENEKFQQEKEKTL 58 (347)
Q Consensus 25 k~S~~RwkHq~-------R~eR~~e~~~e~e~l~~~~~~~~ 58 (347)
|..||.||.+- =.++...++++.+.|........
T Consensus 136 K~~WYeWR~~ll~gl~~~L~~~~~~L~~D~~~L~~~~~~l~ 176 (325)
T PF08317_consen 136 KKMWYEWRMQLLEGLKEGLEENLELLQEDYAKLDKQLEQLD 176 (325)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46789999322 23333444444444544444333
No 9
>PF03962 Mnd1: Mnd1 family; InterPro: IPR005647 This family of proteins includes meiotic nuclear division protein 1 (MND1) from Saccharomyces cerevisiae (Baker's yeast). The mnd1 protein forms a complex with hop2 to promote homologous chromosome pairing and meiotic double-strand break repair [].
Probab=65.03 E-value=39 Score=31.10 Aligned_cols=67 Identities=33% Similarity=0.455 Sum_probs=39.9
Q ss_pred hHHHHHhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHhhhhhhcc--ccHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy157 33 HQARVERMEEQRLENEKFQQEKEKTLKTLEETKKKLVESEQAGA--NNLDELKKALAELEKEAANIRKKEEDL 103 (347)
Q Consensus 33 Hq~R~eR~~e~~~e~e~l~~~~~~~~~~l~e~~~~l~~~~~~~~--e~~~~l~~h~~kl~~~~~e~~~Kl~eL 103 (347)
-+++..|...+ +.|..++.....++.++...|...+.... ++...+...+.+|+...+++..+++.+
T Consensus 61 s~~~~~~~~~~----~~l~~~~~~~~~~i~~l~~~i~~~~~~r~~~~eR~~~l~~l~~l~~~~~~l~~el~~~ 129 (188)
T PF03962_consen 61 SQAKQKRQNKL----EKLQKEIEELEKKIEELEEKIEEAKKGREESEEREELLEELEELKKELKELKKELEKY 129 (188)
T ss_pred hHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 55555555443 67777777777788888877776643321 144555555555555555555555533
No 10
>PF12718 Tropomyosin_1: Tropomyosin like; InterPro: IPR000533 Tropomyosins [], are a family of closely related proteins present in muscle and non-muscle cells. In striated muscle, tropomyosin mediate the interactions between the troponin complex and actin so as to regulate muscle contraction []. The role of tropomyosin in smooth muscle and non-muscle tissues is not clear. Tropomyosin is an alpha-helical protein that forms a coiled-coil structure of 2 parallel helices containing 2 sets of 7 alternating actin binding sites []. There are multiple cell-specific isoforms, created by differential splicing of the messenger RNA from one gene, but the proportions of the isoforms vary between different cell types. Muscle isoforms of tropomyosin are characterised by having 284 amino acid residues and a highly conserved N-terminal region, whereas non-muscle forms are generally smaller and are heterogeneous in their N-terminal region. This entry represents tropomyosin (Tmp) 1, 2 and 3. Within the yeast Tmp1 and Tmp2, biochemical and sequence analyses indicate that Tpm2 spans four actin monomers along a filament, whereas Tpm1 spans five. Despite its shorter length, Tpm2 can compete with Tpm1 for binding to F-actin. Over-expression of Tpm2 in vivo alters the axial budding of haploids to a bipolar pattern, and this can be partially suppressed by co-over-expression of Tpm1. This suggests distinct functions for the two tropomyosins, and indicates that the ratio between them is important for correct morphogenesis [].
Probab=64.24 E-value=69 Score=28.17 Aligned_cols=63 Identities=27% Similarity=0.388 Sum_probs=39.6
Q ss_pred HHHHHHHHHHHHHHHHHhHHHHHHHHHHHhhhhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy157 40 MEEQRLENEKFQQEKEKTLKTLEETKKKLVESEQAGANNLDELKKALAELEKEAANIRKKEEDLKKK 106 (347)
Q Consensus 40 ~~e~~~e~e~l~~~~~~~~~~l~e~~~~l~~~~~~~~e~~~~l~~h~~kl~~~~~e~~~Kl~eLek~ 106 (347)
.+.+...+..|+.+......+|.++..+|..+.. ..+.+...+..|......|..|+++|..+
T Consensus 75 ~E~l~rriq~LEeele~ae~~L~e~~ekl~e~d~----~ae~~eRkv~~le~~~~~~E~k~eel~~k 137 (143)
T PF12718_consen 75 AEQLNRRIQLLEEELEEAEKKLKETTEKLREADV----KAEHFERKVKALEQERDQWEEKYEELEEK 137 (143)
T ss_pred HHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHH----HhHHHHHHHHHHHhhHHHHHHHHHHHHHH
Confidence 3345555556666666666666666666665421 12355666777888888888888888763
No 11
>KOG2391|consensus
Probab=55.47 E-value=93 Score=31.65 Aligned_cols=30 Identities=27% Similarity=0.405 Sum_probs=17.4
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHH-Hhhhh
Q psy157 78 NLDELKKALAELEKEAANIRKKEED-LKKKE 107 (347)
Q Consensus 78 ~~~~l~~h~~kl~~~~~e~~~Kl~e-Lek~E 107 (347)
.++.|+..+..|++...=+..|.+| |++-+
T Consensus 254 ~~etLEqq~~~L~~niDIL~~k~~eal~~~~ 284 (365)
T KOG2391|consen 254 MKETLEQQLQSLQKNIDILKSKVREALEKAE 284 (365)
T ss_pred HHHHHHHHHHHHHhhhHHHHHHHHHHHhhhc
Confidence 3456666666776666555566555 44433
No 12
>PF07106 TBPIP: Tat binding protein 1(TBP-1)-interacting protein (TBPIP); InterPro: IPR010776 This family consists of several eukaryotic TBP-1 interacting protein (TBPIP) sequences. TBP-1 has been demonstrated to interact with the human immunodeficiency virus type 1 (HIV-1) viral protein Tat, then modulate the essential replication process of HIV. In addition, TBP-1 has been shown to be a component of the 26S proteasome, a basic multiprotein complex that degrades ubiquitinated proteins in an ATP-dependent fashion. Human TBPIP interacts with human TBP-1 then modulates the inhibitory action of human TBP-1 on HIV-Tat-mediated transactivation [].
Probab=55.04 E-value=1e+02 Score=27.37 Aligned_cols=64 Identities=22% Similarity=0.351 Sum_probs=40.9
Q ss_pred HHHHHHHHHHHHHHHHHhHHHHHHHHHHHhhhhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy157 40 MEEQRLENEKFQQEKEKTLKTLEETKKKLVESEQAGANNLDELKKALAELEKEAANIRKKEEDLKK 105 (347)
Q Consensus 40 ~~e~~~e~e~l~~~~~~~~~~l~e~~~~l~~~~~~~~e~~~~l~~h~~kl~~~~~e~~~Kl~eLek 105 (347)
...+..++..|..+.......+..+...|+.+... . -.+.|...+..|...-+.+..+++.|..
T Consensus 74 l~~ld~ei~~L~~el~~l~~~~k~l~~eL~~L~~~-~-t~~el~~~i~~l~~e~~~l~~kL~~l~~ 137 (169)
T PF07106_consen 74 LAELDAEIKELREELAELKKEVKSLEAELASLSSE-P-TNEELREEIEELEEEIEELEEKLEKLRS 137 (169)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-C-CHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 33444556777777776666666777666665322 1 2356777777777777777777777765
No 13
>smart00787 Spc7 Spc7 kinetochore protein. This domain is found in cell division proteins which are required for kinetochore-spindle association.
Probab=53.73 E-value=1.5e+02 Score=29.53 Aligned_cols=8 Identities=25% Similarity=0.908 Sum_probs=6.2
Q ss_pred chhhhhHh
Q psy157 25 TPSLFRWR 32 (347)
Q Consensus 25 k~S~~Rwk 32 (347)
|..||-||
T Consensus 131 k~~WYeWR 138 (312)
T smart00787 131 KKMWYEWR 138 (312)
T ss_pred HHHHHHHH
Confidence 45788898
No 14
>KOG2635|consensus
Probab=51.60 E-value=5.8 Score=41.31 Aligned_cols=11 Identities=45% Similarity=0.881 Sum_probs=9.9
Q ss_pred CCCCCCCchhh
Q psy157 18 ETHPNIDTPSL 28 (347)
Q Consensus 18 e~HPNVDk~S~ 28 (347)
-|||||||.+|
T Consensus 331 ktHPNlDK~~f 341 (512)
T KOG2635|consen 331 KTHPNLDKKVF 341 (512)
T ss_pred eeCCCcchhhh
Confidence 48999999988
No 15
>PF10805 DUF2730: Protein of unknown function (DUF2730); InterPro: IPR020269 This entry represents a family of various hypothetical proteins. The proteins, which include HI1498 and Gp25, from phage Mu, are currently uncharacterised.
Probab=50.15 E-value=1.5e+02 Score=24.69 Aligned_cols=55 Identities=20% Similarity=0.320 Sum_probs=37.7
Q ss_pred HHHHHHHHHHhHHHHHHHHHHHhhhhhhccccHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy157 47 NEKFQQEKEKTLKTLEETKKKLVESEQAGANNLDELKKALAELEKEAANIRKKEEDL 103 (347)
Q Consensus 47 ~e~l~~~~~~~~~~l~e~~~~l~~~~~~~~e~~~~l~~h~~kl~~~~~e~~~Kl~eL 103 (347)
.+.+......+..|+..+..++..++.+ +.+..|+..+++++..-..+...+.-+
T Consensus 37 ~~~l~~~~~~~~~Rl~~lE~~l~~LPt~--~dv~~L~l~l~el~G~~~~l~~~l~~v 91 (106)
T PF10805_consen 37 IEKLEERLDEHDRRLQALETKLEHLPTR--DDVHDLQLELAELRGELKELSARLQGV 91 (106)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhCCCH--HHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence 3778888888889999999999988643 235566666666655555555555444
No 16
>PF06810 Phage_GP20: Phage minor structural protein GP20; InterPro: IPR009636 This family consists of several phage minor structural protein Gp20 sequences and prophage sequences of around 180 residues in length. The function of this family is unknown.; GO: 0005198 structural molecule activity
Probab=48.15 E-value=1.5e+02 Score=26.45 Aligned_cols=57 Identities=25% Similarity=0.437 Sum_probs=36.9
Q ss_pred HHHHHHHHHhHHHHHHHHHHHhhhhhhccccHHHHHHHHHHHHHHHH----HHHHHHHHHhh
Q psy157 48 EKFQQEKEKTLKTLEETKKKLVESEQAGANNLDELKKALAELEKEAA----NIRKKEEDLKK 105 (347)
Q Consensus 48 e~l~~~~~~~~~~l~e~~~~l~~~~~~~~e~~~~l~~h~~kl~~~~~----e~~~Kl~eLek 105 (347)
..++.++......|....+.|..|+.... ..+.|++.+..|+..-+ ++..+++.+..
T Consensus 23 ~~~~~e~~~~k~ql~~~d~~i~~Lk~~~~-d~eeLk~~i~~lq~~~~~~~~~~e~~l~~~~~ 83 (155)
T PF06810_consen 23 DKVKEERDNLKTQLKEADKQIKDLKKSAK-DNEELKKQIEELQAKNKTAKEEYEAKLAQMKK 83 (155)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhccC-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44455555666667777777777665445 57778777777766555 66666666654
No 17
>KOG3088|consensus
Probab=45.61 E-value=27 Score=34.62 Aligned_cols=31 Identities=35% Similarity=0.601 Sum_probs=25.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhhhcC
Q psy157 80 DELKKALAELEKEAANIRKKEEDLKKKEKIT 110 (347)
Q Consensus 80 ~~l~~h~~kl~~~~~e~~~Kl~eLek~Ek~~ 110 (347)
..+...-++|.+.++|+++|++||.++|+..
T Consensus 60 ~~~~~kq~eL~~rqeEL~Rke~ELdRREr~~ 90 (313)
T KOG3088|consen 60 KDLAKKQAELLKKQEELRRKEQELDRRERAL 90 (313)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhHHHHHH
Confidence 3455566799999999999999999999865
No 18
>COG4942 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]
Probab=44.72 E-value=1.6e+02 Score=30.69 Aligned_cols=41 Identities=12% Similarity=0.140 Sum_probs=30.4
Q ss_pred hHHHHHhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHhhhhh
Q psy157 33 HQARVERMEEQRLENEKFQQEKEKTLKTLEETKKKLVESEQ 73 (347)
Q Consensus 33 Hq~R~eR~~e~~~e~e~l~~~~~~~~~~l~e~~~~l~~~~~ 73 (347)
-+++.+|-.++.++++.+++.+.......+.+.+.|++++.
T Consensus 33 ~~a~~~~l~q~q~ei~~~~~~i~~~~~~~~kL~~~lk~~e~ 73 (420)
T COG4942 33 AAADDKQLKQIQKEIAALEKKIREQQDQRAKLEKQLKSLET 73 (420)
T ss_pred HHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45566777888888888888888777777777777776543
No 19
>KOG4456|consensus
Probab=39.24 E-value=38 Score=29.75 Aligned_cols=40 Identities=28% Similarity=0.404 Sum_probs=27.0
Q ss_pred HHHHHHHHHHHHHHHHHhCCCCCcchhHHhHhhhcccCchhHHHHHHHHHH
Q psy157 183 HVAHQCICMQYLLELSKSLNIDPRACIGSFFSKIQIAEPDYKASFDDELKS 233 (347)
Q Consensus 183 qvaHQalllQyIleLa~~l~~dpr~~v~~FF~ki~~~~~~~~~~F~~dv~~ 233 (347)
.++-|+|.+||+ .|.+-|.+||+-|.+ +...+-|-+-|-+
T Consensus 73 ~v~~eai~~qa~---------~pp~~v~~Ff~~~pk--pdLkeIF~~~~p~ 112 (134)
T KOG4456|consen 73 MVIVEAIEEQAK---------NPPFNVNTFFGSMPK--PDLKEIFGEMVPS 112 (134)
T ss_pred chHHHHHHHHhh---------CCchHHHHHhcccCC--cCHHHHHHhhhhh
Confidence 355567777761 255789999999976 5566766666543
No 20
>cd08332 CARD_CASP2 Caspase activation and recruitment domain of Caspase-2. Caspase activation and recruitment domain (CARD) similar to that found in caspase-2. Caspases are aspartate-specific cysteine proteases with functions in apoptosis and immune signaling. Caspase-2 (also known as ICH1, NEDD2, or CASP2) is one of the most evolutionarily conserved caspases, and plays a role in apoptosis, DNA damage response, cell cycle regulation, and tumor suppression. It is localized in the nucleus and exhibits properties of both an initiator and an effector caspase. In general, CARDs are death domains (DDs) found associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation, and host-defense mechanisms. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including PYRIN and
Probab=39.07 E-value=47 Score=26.88 Aligned_cols=33 Identities=12% Similarity=0.165 Sum_probs=26.7
Q ss_pred cchhHHhHhhhcccCchhHHHHHHHHHHH-HHHH
Q psy157 206 RACIGSFFSKIQIAEPDYKASFDDELKSF-KERI 238 (347)
Q Consensus 206 r~~v~~FF~ki~~~~~~~~~~F~~dv~~~-~~rI 238 (347)
++-...|+..+.+.+|.|...|.+-+..+ +.|+
T Consensus 50 ~~k~~~Lld~L~~RG~~AF~~F~~aL~~~~~~~L 83 (90)
T cd08332 50 FSQNVALLNLLPKRGPRAFSAFCEALRETSQEHL 83 (90)
T ss_pred HHHHHHHHHHHHHhChhHHHHHHHHHHhcChHHH
Confidence 44578899999999999999999998875 4454
No 21
>PF09999 DUF2240: Uncharacterized protein conserved in archaea (DUF2240); InterPro: IPR018716 This family of various hypothetical archaeal proteins has no known function.
Probab=39.06 E-value=27 Score=31.16 Aligned_cols=26 Identities=19% Similarity=0.406 Sum_probs=22.9
Q ss_pred hcCCHHHHHHHHHHhhhcCccccCcc
Q psy157 297 ASLSPEEATYHMKRCVDSGLWVPDAK 322 (347)
Q Consensus 297 ~~M~veeAE~~~~r~~dsGlw~p~~~ 322 (347)
.=|||++|..+++++++.||+....+
T Consensus 32 ~WmspdqAk~li~~A~~eGLl~~~~~ 57 (144)
T PF09999_consen 32 KWMSPDQAKRLIDEAIEEGLLEEEGG 57 (144)
T ss_pred CCCCHHHHHHHHHHHHHCCCeeecCC
Confidence 34999999999999999999998654
No 22
>COG4026 Uncharacterized protein containing TOPRIM domain, potential nuclease [General function prediction only]
Probab=38.15 E-value=3e+02 Score=26.68 Aligned_cols=12 Identities=17% Similarity=0.496 Sum_probs=5.1
Q ss_pred HHHHHHHHHHHh
Q psy157 93 AANIRKKEEDLK 104 (347)
Q Consensus 93 ~~e~~~Kl~eLe 104 (347)
-..++.+..+|+
T Consensus 193 v~~L~~r~~ELe 204 (290)
T COG4026 193 VYDLKKRWDELE 204 (290)
T ss_pred HHHHHHHHHHhc
Confidence 334444444444
No 23
>PRK11637 AmiB activator; Provisional
Probab=36.16 E-value=3.1e+02 Score=28.00 Aligned_cols=37 Identities=24% Similarity=0.297 Sum_probs=19.9
Q ss_pred hHHHHHhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHh
Q psy157 33 HQARVERMEEQRLENEKFQQEKEKTLKTLEETKKKLV 69 (347)
Q Consensus 33 Hq~R~eR~~e~~~e~e~l~~~~~~~~~~l~e~~~~l~ 69 (347)
.+.|..-..++...+..|..........+.++...+.
T Consensus 165 ~~~d~~~l~~l~~~~~~L~~~k~~le~~~~~l~~~~~ 201 (428)
T PRK11637 165 NQARQETIAELKQTREELAAQKAELEEKQSQQKTLLY 201 (428)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455556666666666666555555544444443333
No 24
>PRK11235 bifunctional antitoxin/transcriptional repressor RelB; Provisional
Probab=36.14 E-value=19 Score=28.92 Aligned_cols=22 Identities=9% Similarity=0.321 Sum_probs=19.7
Q ss_pred HHHHhCCCCCcchhHHhHhhhc
Q psy157 196 ELSKSLNIDPRACIGSFFSKIQ 217 (347)
Q Consensus 196 eLa~~l~~dpr~~v~~FF~ki~ 217 (347)
++|+.+|.+|..+|++|++++.
T Consensus 18 ~vl~~lGls~S~Ai~~fl~qi~ 39 (80)
T PRK11235 18 AVLEKLGVTPSEALRLLLQYVA 39 (80)
T ss_pred HHHHHhCCCHHHHHHHHHHHHH
Confidence 5689999999999999999964
No 25
>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]
Probab=36.08 E-value=3.1e+02 Score=26.48 Aligned_cols=65 Identities=11% Similarity=0.230 Sum_probs=30.9
Q ss_pred hHHHHHHHHHHHHHHHHHhHHHHHHHHHHHhhhhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy157 39 RMEEQRLENEKFQQEKEKTLKTLEETKKKLVESEQAGANNLDELKKALAELEKEAANIRKKEEDLKK 105 (347)
Q Consensus 39 R~~e~~~e~e~l~~~~~~~~~~l~e~~~~l~~~~~~~~e~~~~l~~h~~kl~~~~~e~~~Kl~eLek 105 (347)
.++.++.+...++..+.....+++++..+|+..+ +..+...|+..+..++.....+...+.+|..
T Consensus 53 e~e~le~qv~~~e~ei~~~r~r~~~~e~kl~~v~--~~~e~~aL~~E~~~ak~r~~~le~el~~l~~ 117 (239)
T COG1579 53 ELEDLENQVSQLESEIQEIRERIKRAEEKLSAVK--DERELRALNIEIQIAKERINSLEDELAELME 117 (239)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc--cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333333333333333333344444444443221 1113456666666666666666666666655
No 26
>PF07889 DUF1664: Protein of unknown function (DUF1664); InterPro: IPR012458 The members of this family are hypothetical plant proteins of unknown function. The region featured in this family is approximately 100 amino acids long.
Probab=35.39 E-value=3e+02 Score=23.97 Aligned_cols=28 Identities=4% Similarity=0.317 Sum_probs=19.5
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy157 78 NLDELKKALAELEKEAANIRKKEEDLKK 105 (347)
Q Consensus 78 ~~~~l~~h~~kl~~~~~e~~~Kl~eLek 105 (347)
+++.+...+..+...-..+.-|+.+|+.
T Consensus 97 dv~~i~~dv~~v~~~V~~Le~ki~~ie~ 124 (126)
T PF07889_consen 97 DVSQIGDDVDSVQQMVEGLEGKIDEIEE 124 (126)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 3556666677777777777777777764
No 27
>PF08535 KorB: KorB domain; InterPro: IPR013741 This entry contains several KorB transcriptional repressor proteins. The korB gene is a major regulatory element in the replication and maintenance of broad host-range plasmid RK2. It negatively controls the replication gene trfA, the host-lethal determinants kilA and kilB, and the korA-korB operon []. This domain includes the DNA-binding HTH motif []. ; PDB: 1R71_C.
Probab=33.83 E-value=50 Score=26.42 Aligned_cols=43 Identities=21% Similarity=0.347 Sum_probs=24.7
Q ss_pred ccCcHHHHHHhhhCChHHHHHH-----HhcCCHHHHHHHHHHhhhcCc
Q psy157 274 ESLPDVLKKCFELQDTAMLQEA-----IASLSPEEATYHMKRCVDSGL 316 (347)
Q Consensus 274 eslP~~mq~afet~dld~vn~v-----l~~M~veeAE~~~~r~~dsGl 316 (347)
-.||+.+++++.+|.+..+..+ +..-.+++++.++..-...|+
T Consensus 27 l~lP~~i~~~v~~g~~~~~~a~~~L~~~~~~~~~~~~~~v~~~~~~~~ 74 (93)
T PF08535_consen 27 LDLPEEIKELVRSGRISDIRALYELRKLAEKNPEEVEALVAKAKEEGL 74 (93)
T ss_dssp GS--HHHHHHHHTTS---HHHHHHHHHHHHH-HHHHHHHH-HSTTS--
T ss_pred HcCCHHHHHHHHcCCCchHHHHHHHHHHHHhCHHHHHHHHHHhccccc
Confidence 3699999999999976655543 556678888888754444443
No 28
>PF12840 HTH_20: Helix-turn-helix domain; PDB: 1ULY_A 2CWE_A 1Y0U_B 2QUF_B 2QLZ_C 2OQG_B 2ZKZ_C 3PQK_A 3PQJ_D 3F6O_B ....
Probab=32.96 E-value=55 Score=23.96 Aligned_cols=32 Identities=25% Similarity=0.489 Sum_probs=24.8
Q ss_pred ChHHHHHHHhcCCHHHHHHHHHHhhhcCccccC
Q psy157 288 DTAMLQEAIASLSPEEATYHMKRCVDSGLWVPD 320 (347)
Q Consensus 288 dld~vn~vl~~M~veeAE~~~~r~~dsGlw~p~ 320 (347)
+...|-..+ .++..-+.+||+.+.++||+...
T Consensus 26 t~~ela~~l-~~~~~t~s~hL~~L~~aGli~~~ 57 (61)
T PF12840_consen 26 TVSELAEEL-GISQSTVSYHLKKLEEAGLIEVE 57 (61)
T ss_dssp EHHHHHHHH-TS-HHHHHHHHHHHHHTTSEEEE
T ss_pred CHHHHHHHH-CCCHHHHHHHHHHHHHCCCeEEe
Confidence 455566666 49999999999999999998653
No 29
>PRK10884 SH3 domain-containing protein; Provisional
Probab=32.56 E-value=3.8e+02 Score=25.07 Aligned_cols=17 Identities=6% Similarity=0.159 Sum_probs=8.4
Q ss_pred hHHHHHHHHHHHHHHHH
Q psy157 39 RMEEQRLENEKFQQEKE 55 (347)
Q Consensus 39 R~~e~~~e~e~l~~~~~ 55 (347)
|-.+++++.++++.+..
T Consensus 94 rlp~le~el~~l~~~l~ 110 (206)
T PRK10884 94 RVPDLENQVKTLTDKLN 110 (206)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 33444555555554444
No 30
>PF10711 DUF2513: Hypothetical protein (DUF2513); InterPro: IPR019650 The function of this family is not known.
Probab=32.42 E-value=44 Score=27.43 Aligned_cols=33 Identities=27% Similarity=0.373 Sum_probs=28.3
Q ss_pred HHHHHhcCCHHHHHHHHHHhhhcCccccCcccc
Q psy157 292 LQEAIASLSPEEATYHMKRCVDSGLWVPDAKKA 324 (347)
Q Consensus 292 vn~vl~~M~veeAE~~~~r~~dsGlw~p~~~~~ 324 (347)
....+.+.+.++--||+..|.++||+.......
T Consensus 25 ~~~~~~~y~~~~i~YHl~lL~eagli~~~~~~~ 57 (102)
T PF10711_consen 25 EEDEIDGYSKEEIAYHLKLLDEAGLIEGSVSGT 57 (102)
T ss_pred chhcccCCCHHHHHHHHHHHHHCCCeeeccccc
Confidence 456788899999999999999999999876544
No 31
>PRK12704 phosphodiesterase; Provisional
Probab=31.99 E-value=4.4e+02 Score=28.12 Aligned_cols=20 Identities=20% Similarity=0.047 Sum_probs=13.0
Q ss_pred cCCHHHHHHHHHHhhhcCccc
Q psy157 298 SLSPEEATYHMKRCVDSGLWV 318 (347)
Q Consensus 298 ~M~veeAE~~~~r~~dsGlw~ 318 (347)
.++++.|. ....|-|.|...
T Consensus 355 gld~~~a~-~AgLLHDIGK~~ 374 (520)
T PRK12704 355 GLDVKLAK-RAGLLHDIGKAL 374 (520)
T ss_pred CcCHHHHH-HHHHHHccCcCc
Confidence 36777763 567777777663
No 32
>PF10498 IFT57: Intra-flagellar transport protein 57 ; InterPro: IPR019530 Eukaryotic cilia and flagella are specialised organelles found at the periphery of cells of diverse organisms. Intra-flagellar transport (IFT) is required for the assembly and maintenance of eukaryotic cilia and flagella, and consists of the bi-directional movement of large protein particles between the base and the distal tip of the organelle. IFT particles contain multiple copies of two distinct protein complexes, A and B, which contain at least 6 and 11 protein subunits. IFT57 is part of complex B but is not, however, required for the core subunits to stay associated []. This protein is known as Huntington-interacting protein-1 in humans.
Probab=31.67 E-value=2.7e+02 Score=28.28 Aligned_cols=16 Identities=19% Similarity=0.422 Sum_probs=8.6
Q ss_pred HHHHHhHHHHHHHHHH
Q psy157 34 QARVERMEEQRLENEK 49 (347)
Q Consensus 34 q~R~eR~~e~~~e~e~ 49 (347)
+.|.++|.+....++.
T Consensus 219 R~hleqm~~~~~~I~~ 234 (359)
T PF10498_consen 219 RSHLEQMKQHKKSIES 234 (359)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 4556666665444443
No 33
>PF04221 RelB: RelB antitoxin; InterPro: IPR007337 Plasmids may be maintained stably in bacterial populations through the action of addiction modules, in which a toxin and antidote are encoded in a cassette on the plasmid. In any daughter cell that lacks the plasmid, the toxin persists and is lethal after the antidote protein is depleted. Toxin/antitoxin pairs are also found on main chromosomes, and likely represent selfish DNA. Sequences in the seed for this alignment all were found adjacent to toxin genes. Several toxin/antitoxin pairs may occur in a single species. RelE and RelB form a toxin-antitoxin system; RelE represses translation, probably through binding ribosomes [, ]. RelB stably binds RelE, presumably deactivating it.; PDB: 2KC8_B 2K29_A.
Probab=30.82 E-value=25 Score=27.89 Aligned_cols=23 Identities=17% Similarity=0.302 Sum_probs=17.9
Q ss_pred HHHHhCCCCCcchhHHhHhhhcc
Q psy157 196 ELSKSLNIDPRACIGSFFSKIQI 218 (347)
Q Consensus 196 eLa~~l~~dpr~~v~~FF~ki~~ 218 (347)
.+|..+|.++..+|++|++++-.
T Consensus 18 ~il~~~Glt~s~ai~~fl~qiv~ 40 (83)
T PF04221_consen 18 AILEELGLTLSDAINMFLKQIVR 40 (83)
T ss_dssp HHHHHTT--HHHHHHHHHHHHHH
T ss_pred HHHHHcCCCHHHHHHHHHHHHHH
Confidence 46889999999999999999643
No 34
>TIGR02384 RelB_DinJ addiction module antitoxin, RelB/DinJ family. Plasmids may be maintained stably in bacterial populations through the action of addiction modules, in which a toxin and antidote are encoded in a cassette on the plasmid. In any daughter cell that lacks the plasmid, the toxin persists and is lethal after the antidote protein is depleted. Toxin/antitoxin pairs are also found on main chromosomes, and likely represent selfish DNA. Sequences in the seed for this alignment all were found adjacent to toxin genes. The resulting model appears to describe a narrower set of proteins than Pfam model pfam04221, although many in the scope of this model are not obviously paired with toxin proteins. Several toxin/antitoxin pairs may occur in a single species.
Probab=30.65 E-value=29 Score=27.80 Aligned_cols=24 Identities=17% Similarity=0.378 Sum_probs=20.3
Q ss_pred HHHHHhCCCCCcchhHHhHhhhcc
Q psy157 195 LELSKSLNIDPRACIGSFFSKIQI 218 (347)
Q Consensus 195 leLa~~l~~dpr~~v~~FF~ki~~ 218 (347)
..+|+.+|.+|...|++|++++..
T Consensus 18 ~~i~~~lGl~~s~ai~~fl~qvv~ 41 (83)
T TIGR02384 18 YAVFEELGLTPSTAIRMFLKQVIR 41 (83)
T ss_pred HHHHHHhCCCHHHHHHHHHHHHHH
Confidence 356889999999999999999643
No 35
>PF05278 PEARLI-4: Arabidopsis phospholipase-like protein (PEARLI 4); InterPro: IPR007942 This family contains several phospholipase-like proteins from Arabidopsis thaliana and other members of the Streptophyta which are homologous to PEARLI 4.
Probab=29.83 E-value=5.5e+02 Score=25.29 Aligned_cols=27 Identities=15% Similarity=0.366 Sum_probs=15.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy157 79 LDELKKALAELEKEAANIRKKEEDLKK 105 (347)
Q Consensus 79 ~~~l~~h~~kl~~~~~e~~~Kl~eLek 105 (347)
+...++.+.++.....+++.+|.+|+-
T Consensus 216 L~~~Eke~~e~~~~i~e~~~rl~~l~~ 242 (269)
T PF05278_consen 216 LKQKEKEVKEIKERITEMKGRLGELEM 242 (269)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444455555555555666666666654
No 36
>KOG4552|consensus
Probab=29.82 E-value=2.5e+02 Score=26.92 Aligned_cols=55 Identities=18% Similarity=0.270 Sum_probs=29.6
Q ss_pred HHHHHHHHHhHHHHHHHHHHHhhhhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcCCCccccC
Q psy157 48 EKFQQEKEKTLKTLEETKKKLVESEQAGANNLDELKKALAELEKEAANIRKKEEDLKKKEKITPWNVDTI 117 (347)
Q Consensus 48 e~l~~~~~~~~~~l~e~~~~l~~~~~~~~e~~~~l~~h~~kl~~~~~e~~~Kl~eLek~Ek~~~insD~I 117 (347)
..|++.....+.-|+.+++.|+..+. -|...-=+.++||+.+.+-+ +.|++|+.|
T Consensus 77 ~~Lea~VEkrD~~IQqLqk~LK~aE~--------------iLtta~fqA~qKLksi~~A~-krpvsSEel 131 (272)
T KOG4552|consen 77 RTLEAHVEKRDEVIQQLQKNLKSAEV--------------ILTTACFQANQKLKSIKEAE-KRPVSSEEL 131 (272)
T ss_pred HHHHHHHHHhHHHHHHHHHHHHHHHH--------------HHHHHHHHHHHHHHHHHHHh-cCCCCHHHH
Confidence 55666666666666666666554311 01111123456777777633 445777766
No 37
>KOG1760|consensus
Probab=29.59 E-value=1.6e+02 Score=25.94 Aligned_cols=25 Identities=24% Similarity=0.380 Sum_probs=14.1
Q ss_pred CccccCCCCCCCCCCCCchhhhhHh
Q psy157 8 KDIEISDDEDETHPNIDTPSLFRWR 32 (347)
Q Consensus 8 d~iElSDDeDe~HPNVDk~S~~Rwk 32 (347)
+-|+|=|++|+-=|--=---||-.+
T Consensus 54 ~EieL~Dedd~~Ip~~vGdvF~~~~ 78 (131)
T KOG1760|consen 54 NEIELLDEDDEDIPFKVGDVFIHVK 78 (131)
T ss_pred hhHhhcCccccccceehhhhheecc
Confidence 4588888888555532223344433
No 38
>KOG0995|consensus
Probab=29.55 E-value=3.9e+02 Score=29.10 Aligned_cols=70 Identities=21% Similarity=0.269 Sum_probs=32.1
Q ss_pred hHHHHHhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHhhhhhhccccHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy157 33 HQARVERMEEQRLENEKFQQEKEKTLKTLEETKKKLVESEQAGANNLDELKKALAELEKEAANIRKKEEDL 103 (347)
Q Consensus 33 Hq~R~eR~~e~~~e~e~l~~~~~~~~~~l~e~~~~l~~~~~~~~e~~~~l~~h~~kl~~~~~e~~~Kl~eL 103 (347)
-|.+..-++.++.+++.-+.++......+.+|+..+..-.. ++.+++++-.++.+|......+..+++.|
T Consensus 289 ~~~~~~~l~~l~~Eie~kEeE~e~lq~~~d~Lk~~Ie~Q~i-S~~dve~mn~Er~~l~r~l~~i~~~~d~l 358 (581)
T KOG0995|consen 289 KQHMEKKLEMLKSEIEEKEEEIEKLQKENDELKKQIELQGI-SGEDVERMNLERNKLKRELNKIQSELDRL 358 (581)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC-CHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455555555555555555555555555555555543211 12234444444444443333333333333
No 39
>TIGR02763 chlamy_scaf chlamydiaphage internal scaffolding protein. Members of this protein family are encoded by genes in chlamydiaphage such as Chp2, viruses with around eight genes that infect obligately intracellular bacterial pathogens of the genus Chlamydia. This protein, initially designated VP3 (as if a structural protein of mature viral particles), is displaced from procapsids as DNA is packaged, and therefore is described as a scafolding protein.
Probab=28.06 E-value=43 Score=28.51 Aligned_cols=44 Identities=27% Similarity=0.417 Sum_probs=27.3
Q ss_pred ccccccCcHHHHHHhhhCChHHHHHHHh-cCCHHHHHHHHHHhhhcCccccCc
Q psy157 270 VEVFESLPDVLKKCFELQDTAMLQEAIA-SLSPEEATYHMKRCVDSGLWVPDA 321 (347)
Q Consensus 270 ~evFeslP~~mq~afet~dld~vn~vl~-~M~veeAE~~~~r~~dsGlw~p~~ 321 (347)
+|.|.+||..++++|-.---++| ..|. .=.-++ ....||+-|..
T Consensus 44 ~eaFdsLPAkvRe~FgNdPeeml-~~L~d~~nyde-------~~algll~~e~ 88 (114)
T TIGR02763 44 EEAFDSLPAKVRENFGNDPEEML-SWLEDEANYDE-------VEALGLLDPET 88 (114)
T ss_pred HHHHHHhhHHHHHHhCCCHHHHH-HHHhChhhHHH-------HHHhccccccc
Confidence 48899999999999977333333 3332 112222 33678877753
No 40
>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association [].
Probab=27.27 E-value=2.9e+02 Score=27.28 Aligned_cols=11 Identities=27% Similarity=0.513 Sum_probs=4.3
Q ss_pred HHHHHHHHHHh
Q psy157 59 KTLEETKKKLV 69 (347)
Q Consensus 59 ~~l~e~~~~l~ 69 (347)
..|..++..|.
T Consensus 209 ~eL~~lr~eL~ 219 (325)
T PF08317_consen 209 EELEALRQELA 219 (325)
T ss_pred HHHHHHHHHHH
Confidence 33333443333
No 41
>PRK12704 phosphodiesterase; Provisional
Probab=27.25 E-value=6.2e+02 Score=27.01 Aligned_cols=10 Identities=20% Similarity=0.228 Sum_probs=5.8
Q ss_pred HhHHHHHHHH
Q psy157 162 ANYLVIWCIN 171 (347)
Q Consensus 162 ~d~Ll~~af~ 171 (347)
|..+|..|+.
T Consensus 190 a~~i~~~a~q 199 (520)
T PRK12704 190 AKEILAQAIQ 199 (520)
T ss_pred HHHHHHHHHH
Confidence 6666665553
No 42
>PRK13182 racA polar chromosome segregation protein; Reviewed
Probab=26.93 E-value=4.9e+02 Score=23.75 Aligned_cols=59 Identities=22% Similarity=0.295 Sum_probs=36.7
Q ss_pred HHHHHHHHHhHHHHHHHHHHHhhhhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q psy157 48 EKFQQEKEKTLKTLEETKKKLVESEQAGANNLDELKKALAELEKEAANIRKKEEDLKKKEK 108 (347)
Q Consensus 48 e~l~~~~~~~~~~l~e~~~~l~~~~~~~~e~~~~l~~h~~kl~~~~~e~~~Kl~eLek~Ek 108 (347)
+-|+.++.....+|++++..|+.+... . ..=.|..|+.+++.....+..-+..+.+.|.
T Consensus 88 ~lLe~~~~~l~~ri~eLe~~l~~kad~-v-vsYqll~hr~e~ee~~~~l~~le~~~~~~e~ 146 (175)
T PRK13182 88 EQLEAQLNTITRRLDELERQLQQKADD-V-VSYQLLQHRREMEEMLERLQKLEARLKKLEP 146 (175)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhh-h-hhHHHHHhHHHHHHHHHHHHHHHHHHHHHHh
Confidence 455556666667777777777655221 1 1126888988888777766666666666443
No 43
>PRK09039 hypothetical protein; Validated
Probab=26.51 E-value=5.3e+02 Score=25.85 Aligned_cols=14 Identities=21% Similarity=0.138 Sum_probs=6.2
Q ss_pred HHHHHHHHHhhhcC
Q psy157 302 EEATYHMKRCVDSG 315 (347)
Q Consensus 302 eeAE~~~~r~~dsG 315 (347)
.=|..+++-++..|
T Consensus 291 ~RA~aV~~~Li~~G 304 (343)
T PRK09039 291 ARAISVVKFLIALG 304 (343)
T ss_pred HHHHHHHHHHHHCC
Confidence 34444444444444
No 44
>KOG0804|consensus
Probab=26.49 E-value=4.3e+02 Score=28.01 Aligned_cols=17 Identities=12% Similarity=0.192 Sum_probs=6.9
Q ss_pred HHHHHHHHhHHHHHHHH
Q psy157 49 KFQQEKEKTLKTLEETK 65 (347)
Q Consensus 49 ~l~~~~~~~~~~l~e~~ 65 (347)
+|+.++.-+..++.++.
T Consensus 348 qlen~k~~~e~~~~e~~ 364 (493)
T KOG0804|consen 348 QLENQKQYYELLITEAD 364 (493)
T ss_pred HHHhHHHHHHHHHHHHH
Confidence 34444444444444333
No 45
>PRK05431 seryl-tRNA synthetase; Provisional
Probab=25.68 E-value=5.1e+02 Score=26.72 Aligned_cols=27 Identities=19% Similarity=0.346 Sum_probs=13.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy157 79 LDELKKALAELEKEAANIRKKEEDLKK 105 (347)
Q Consensus 79 ~~~l~~h~~kl~~~~~e~~~Kl~eLek 105 (347)
.+.+..+..+|.+..+++..++.+++.
T Consensus 68 ~~~l~~~~~~l~~~~~~~~~~~~~~~~ 94 (425)
T PRK05431 68 AEALIAEVKELKEEIKALEAELDELEA 94 (425)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334545555555555555555555554
No 46
>PF10018 Med4: Vitamin-D-receptor interacting Mediator subunit 4; InterPro: IPR019258 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. Members of this family represent the Med4 subunit of the Mediator (Med) complex [, ]. ; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex
Probab=25.45 E-value=2e+02 Score=26.19 Aligned_cols=33 Identities=30% Similarity=0.500 Sum_probs=14.5
Q ss_pred hHHHHHhHHHHHHHHHHHHHHHHHhHHHHHHHH
Q psy157 33 HQARVERMEEQRLENEKFQQEKEKTLKTLEETK 65 (347)
Q Consensus 33 Hq~R~eR~~e~~~e~e~l~~~~~~~~~~l~e~~ 65 (347)
||.+..|...+.++.+.|..++..+...|.++.
T Consensus 24 hq~~~~~I~~L~~e~~~ld~~i~~~~~~L~~~~ 56 (188)
T PF10018_consen 24 HQENQARIQQLRAEIEELDEQIRDILKQLKEAR 56 (188)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 555555554444444444443333333333333
No 47
>cd03569 VHS_Hrs_Vps27p VHS domain family, Hrs and Vps27p subfamily; composed of Hrs (Hepatocyte growth factor-regulated tyrosine kinase substrate) and its yeast homolog Vps27p (vacuolar protein sorting). The VHS domain, an essential part of Hrs/Vps27p, has a superhelical structure similar to the structure of ARM (Armadillo) repeats and is present at the N-termini of proteins. Hrs also contains a FYVE (Fab1p, YOTB, Vac1p, and EEA1) zinc finger domain C-terminal to VHS, as well as two coiled-coil domains. Hrs has been proposed to play a role in at least three vesicle trafficking events: exocytosis, endocytosis, and endosome to lysosome trafficking. Hrs is involved in promoting rapid recycling of endocytosed signaling receptors to the plasma membrane.
Probab=25.40 E-value=2e+02 Score=25.09 Aligned_cols=29 Identities=10% Similarity=0.285 Sum_probs=13.3
Q ss_pred HHHHHHHHhCCCC---CcchhHHhHhhhcccC
Q psy157 192 QYLLELSKSLNID---PRACIGSFFSKIQIAE 220 (347)
Q Consensus 192 QyIleLa~~l~~d---pr~~v~~FF~ki~~~~ 220 (347)
..|+++|...+.+ |+++++..=+||+.++
T Consensus 23 ~~ileicD~In~~~~~~k~a~ral~krl~~~n 54 (142)
T cd03569 23 ASILEICDMIRSKDVQPKYAMRALKKRLLSKN 54 (142)
T ss_pred HHHHHHHHHHhCCCCCHHHHHHHHHHHHcCCC
Confidence 3344444444322 3555555555554443
No 48
>PRK13696 hypothetical protein; Provisional
Probab=25.09 E-value=1.1e+02 Score=23.64 Aligned_cols=36 Identities=28% Similarity=0.310 Sum_probs=29.9
Q ss_pred cCcHHHHHHh--hhCChHHHHHHHhcCCHHHHHHHHHH
Q psy157 275 SLPDVLKKCF--ELQDTAMLQEAIASLSPEEATYHMKR 310 (347)
Q Consensus 275 slP~~mq~af--et~dld~vn~vl~~M~veeAE~~~~r 310 (347)
||+.-.++-+ ..|+++.|-+.+|-|+.++|+...+.
T Consensus 24 SFSevi~~L~~~~~~~~~~l~~~~Gil~dee~~e~~~~ 61 (62)
T PRK13696 24 SFSEVIRELIEKKKGNLDKLMKAFGILSEEEAEELKKE 61 (62)
T ss_pred CHHHHHHHHHHHhhccHHHHHHHHCCCCHHHHHHHHhh
Confidence 6777776666 37899999999999999999987654
No 49
>PF10211 Ax_dynein_light: Axonemal dynein light chain; InterPro: IPR019347 Axonemal dynein light chain proteins play a dynamic role in flagellar and cilial motility. Eukaryotic cilia and flagella are complex organelles consisting of a core structure, the axoneme, which is composed of nine microtubule doublets forming a cylinder that surrounds a pair of central singlet microtubules. This ultra-structural arrangement seems to be one of the most stable micro-tubular assemblies known and is responsible for the flagellar and ciliary movement of a large number of organisms ranging from protozoan to mammals. This light chain interacts directly with the N-terminal half of the heavy chains [].
Probab=24.58 E-value=5.5e+02 Score=23.52 Aligned_cols=39 Identities=26% Similarity=0.227 Sum_probs=24.3
Q ss_pred hHHHHHhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHhhh
Q psy157 33 HQARVERMEEQRLENEKFQQEKEKTLKTLEETKKKLVES 71 (347)
Q Consensus 33 Hq~R~eR~~e~~~e~e~l~~~~~~~~~~l~e~~~~l~~~ 71 (347)
+-++.+.+..+..++..|+.+.......+.++..++..+
T Consensus 115 ~l~~e~~~~~l~~~i~~L~~e~~~L~~~~~~l~~~~e~~ 153 (189)
T PF10211_consen 115 ALQAEQGKQELEEEIEELEEEKEELEKQVQELKNKCEQL 153 (189)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444466666777777777776666666666665544
No 50
>TIGR03319 YmdA_YtgF conserved hypothetical protein YmdA/YtgF.
Probab=24.28 E-value=7.3e+02 Score=26.43 Aligned_cols=19 Identities=21% Similarity=-0.048 Sum_probs=11.6
Q ss_pred CCHHHHHHHHHHhhhcCccc
Q psy157 299 LSPEEATYHMKRCVDSGLWV 318 (347)
Q Consensus 299 M~veeAE~~~~r~~dsGlw~ 318 (347)
++++.|. .-..+-|.|-.+
T Consensus 350 ld~~~a~-~AGLLHDIGK~~ 368 (514)
T TIGR03319 350 EDVKLAK-RAGLLHDIGKAV 368 (514)
T ss_pred cCHHHHH-HHHHHHhcCccc
Confidence 6777664 456666666554
No 51
>PF04700 Baculo_gp41: Structural glycoprotein p40/gp41 conserved region; InterPro: IPR006790 This is a family of viral structural glycoproteins [] from the baculoviridae.; GO: 0005198 structural molecule activity, 0019012 virion
Probab=23.95 E-value=6e+02 Score=23.73 Aligned_cols=66 Identities=17% Similarity=0.179 Sum_probs=40.3
Q ss_pred HHHHHHHHHHhhhhhcCCCccccCCCCCCccccccCCCCCCCCCCChHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHh
Q psy157 94 ANIRKKEEDLKKKEKITPWNVDTISKPGFTKTVVNKKPPLQQGEKSDEEKEQEMKAFVKENEKLIKQYANYLVIWCINLA 173 (347)
Q Consensus 94 ~e~~~Kl~eLek~Ek~~~insD~Ish~GF~kS~INk~~~~~~~~~see~~~~~~~~F~~k~e~~~~~F~d~Ll~~af~le 173 (347)
+++-+-.+-|+|+-....... .|.-|++|||=.+ -|++|+.|+-..
T Consensus 8 e~Li~yY~~L~K~~g~~~~~~---~~~IF~~sFv~sp---------------~mksYA~KFYn~---------------- 53 (186)
T PF04700_consen 8 EELIEYYANLEKKYGGSDVPS---AHGIFDKSFVISP---------------IMKSYADKFYNR---------------- 53 (186)
T ss_pred HHHHHHHHHHHHHhCCCCCCc---ccccCchhhhcCc---------------chHHHHHHHHHh----------------
Confidence 344455556666554443222 4788999999752 177777776551
Q ss_pred hhcchhhHhHHHHHHHHHHHHHHHHHh
Q psy157 174 MDEKFDLMDHVAHQCICMQYLLELSKS 200 (347)
Q Consensus 174 megk~~~~~qvaHQalllQyIleLa~~ 200 (347)
.+..--.|=+.++|| ++|.+
T Consensus 54 -----~l~eAA~hLs~~vkY--QiA~A 73 (186)
T PF04700_consen 54 -----RLNEAARHLSDVVKY--QIAEA 73 (186)
T ss_pred -----HHHHHHHHHHHHHHH--HHHHH
Confidence 444455677889999 44544
No 52
>smart00049 DEP Domain found in Dishevelled, Egl-10, and Pleckstrin. Domain of unknown function present in signalling proteins that contain PH, rasGEF, rhoGEF, rhoGAP, RGS, PDZ domains. DEP domain in Drosophila dishevelled is essential to rescue planar polarity defects and induce JNK signalling (Cell 94, 109-118).
Probab=23.91 E-value=78 Score=23.99 Aligned_cols=27 Identities=22% Similarity=0.142 Sum_probs=23.7
Q ss_pred HhcCCHHHHHHHHHHhhhcCccccCcc
Q psy157 296 IASLSPEEATYHMKRCVDSGLWVPDAK 322 (347)
Q Consensus 296 l~~M~veeAE~~~~r~~dsGlw~p~~~ 322 (347)
+..++.++|..+.+.+.+.|++.|-.+
T Consensus 34 ~~~~~r~eA~~l~~~ll~~g~i~~v~~ 60 (77)
T smart00049 34 LEIIDREEAVHLGQLLLDEGLIHHVNG 60 (77)
T ss_pred CCcCCHHHHHHHHHHHHHCCCEEEeCC
Confidence 335789999999999999999999765
No 53
>PF11728 DUF939_C: DUF939 C-terminal domain; InterPro: IPR021062 This entry represents a C-terminal domain found in a set of bacterial proteins. The proteins are about 160 amino acids in length and are predicted to be multi-pass membrane proteins. ; PDB: 3KMI_B.
Probab=23.70 E-value=1.9e+02 Score=26.02 Aligned_cols=55 Identities=18% Similarity=0.350 Sum_probs=38.3
Q ss_pred HHHHHHHHHHHHHHhCCCCCcch--hHHhHhhhccc--CchhHHHHHHHHHHHHHHHHH
Q psy157 186 HQCICMQYLLELSKSLNIDPRAC--IGSFFSKIQIA--EPDYKASFDDELKSFKERIRN 240 (347)
Q Consensus 186 HQalllQyIleLa~~l~~dpr~~--v~~FF~ki~~~--~~~~~~~F~~dv~~~~~rIk~ 240 (347)
.|.-+|+.+..+...+...|..+ |+.||.++... ...+...+.+++...+.+.|.
T Consensus 77 ~Q~~iL~~M~~~l~~i~~~~~q~~~ia~~~~~~a~~~~e~n~~~~ll~~L~~l~~~fr~ 135 (167)
T PF11728_consen 77 KQLEILKRMYPNLSKIYMSPKQAEIIADFLEELAESLHENNTAEELLEELEELKEEFRE 135 (167)
T ss_dssp HHHHHHHHHHHHHTT-SS--HHHHHHHHHHHHHHH----TTHHHHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHHHhc
Confidence 78999999999998888887554 99999997543 233556777777777766654
No 54
>PF01445 SH: Viral small hydrophobic protein; InterPro: IPR001477 The mumps virus SH protein is a membrane protein and not essential for virus growth []. Its function is unknown.; GO: 0016020 membrane
Probab=23.27 E-value=29 Score=26.13 Aligned_cols=8 Identities=50% Similarity=1.207 Sum_probs=6.9
Q ss_pred chhhhhHh
Q psy157 25 TPSLFRWR 32 (347)
Q Consensus 25 k~S~~Rwk 32 (347)
.+|||||.
T Consensus 45 qrs~~rWs 52 (57)
T PF01445_consen 45 QRSFFRWS 52 (57)
T ss_pred HHHHhhcc
Confidence 48999997
No 55
>PF12348 CLASP_N: CLASP N terminal; InterPro: IPR024395 This domain is found in the N-terminal region of CLIP-associated proteins (CLASPs), which are widely conserved microtubule plus-end-tracking proteins that regulate the stability of dynamic microtubules [, ]. The domain is also found in other proteins involved in microtubule binding, including STU1, MOR1 and spindle pole body component Alp14.; PDB: 2QK2_A.
Probab=22.99 E-value=3.8e+02 Score=24.10 Aligned_cols=15 Identities=20% Similarity=0.381 Sum_probs=0.0
Q ss_pred cccccCcHHHHHHhh
Q psy157 271 EVFESLPDVLKKCFE 285 (347)
Q Consensus 271 evFeslP~~mq~afe 285 (347)
.+|..||+..|+.||
T Consensus 214 ~~~~~l~~~~qk~le 228 (228)
T PF12348_consen 214 SILSMLDPNIQKYLE 228 (228)
T ss_dssp ---------------
T ss_pred cchhcchhcccccCC
Confidence 556778888888775
No 56
>PF07146 DUF1389: Protein of unknown function (DUF1389); InterPro: IPR010792 This family consists of several hypothetical bacterial proteins, which seem to be specific to Chlamydia pneumoniae (Chlamydophila pneumoniae). Members of this family are typically around 400 residues in length. The function of this family is unknown.
Probab=22.78 E-value=86 Score=31.40 Aligned_cols=52 Identities=25% Similarity=0.291 Sum_probs=41.0
Q ss_pred ccccccccCcHHHHHHhhhCChHHHHHHHhcCCHHHHH---------HHHHHhhhcCcccc
Q psy157 268 DPVEVFESLPDVLKKCFELQDTAMLQEAIASLSPEEAT---------YHMKRCVDSGLWVP 319 (347)
Q Consensus 268 dp~evFeslP~~mq~afet~dld~vn~vl~~M~veeAE---------~~~~r~~dsGlw~p 319 (347)
-.-..|+++|+.+|+++++-.++.++..+.......-+ |.|++||+.|==.+
T Consensus 80 ~~s~~l~~l~~~L~~kl~~FGi~~l~~~~~~~~Lp~Ld~iLlknCPlYwL~kFI~lg~~~~ 140 (314)
T PF07146_consen 80 SSSGSLESLPPKLKEKLEDFGIERLQSDCEGIDLPDLDDILLKNCPLYWLKKFIDLGSREV 140 (314)
T ss_pred ccccccccCCHHHHHHHHHcChHHHHHhhcccCCCCHHHHHHHcCCHHHHHHHHHhCCCcc
Confidence 44577889999999999999999998777777666666 56789999874333
No 57
>cd01709 RT_like_1 RT_like_1: A subfamily of reverse transcriptases (RTs). An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs occur in a variety of mobile elements, including retrotransposons, retroviruses, group II introns, bacterial msDNAs, hepadnaviruses, and caulimoviruses. These elements can be divided into two major groups. One group contains retroviruses and DNA viruses whose propagation involves an RNA intermediate. They are grouped together with transposable elements containing long terminal repeats (LTRs). The other group, also called poly(A)-type retrotransposons, contain fungal mitochondrial introns and transposable elements that lack LTRs.
Probab=22.40 E-value=1.7e+02 Score=29.82 Aligned_cols=59 Identities=25% Similarity=0.283 Sum_probs=39.1
Q ss_pred HHHHHHHHHHHHHHHHhCCCCC---------cchhHHhHhh-hcccCchhHHHHHHHHHHHHHHHHHHH
Q psy157 184 VAHQCICMQYLLELSKSLNIDP---------RACIGSFFSK-IQIAEPDYKASFDDELKSFKERIRNRA 242 (347)
Q Consensus 184 vaHQalllQyIleLa~~l~~dp---------r~~v~~FF~k-i~~~~~~~~~~F~~dv~~~~~rIk~Ra 242 (347)
++-|+.+=.||.||.++|+.-. -.|+..||+. +-.+-.-.-..=.+.+-+|+.||...-
T Consensus 194 ~Idq~~Vd~hi~el~~QL~~c~Sv~~wiq~WNsy~~~ff~~nFg~pa~cfGr~Hvd~~l~t~~riq~~l 262 (346)
T cd01709 194 EIDQSQVDAHIDELRKQLDACKSVLSWIQAWNSYIGRFFSNNFGKPANCFGREHVDAILATHERIQRRL 262 (346)
T ss_pred EeeHHHHHHHHHHHHHHhhcCchHHHHHHHHHHHHHHHHHHhcCCcchhcCHHHHHHHHHHHHHHHHHh
Confidence 3567778888888888876332 3478888887 322212233455788999999997654
No 58
>PF10084 DUF2322: Uncharacterized protein conserved in bacteria (DUF2322); InterPro: IPR016755 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=21.36 E-value=26 Score=29.45 Aligned_cols=11 Identities=55% Similarity=0.872 Sum_probs=7.4
Q ss_pred CCCCCCchhhhhH
Q psy157 19 THPNIDTPSLFRW 31 (347)
Q Consensus 19 ~HPNVDk~S~~Rw 31 (347)
-|||||- ||+|
T Consensus 78 kHPNID~--Ll~v 88 (100)
T PF10084_consen 78 KHPNIDR--LLAV 88 (100)
T ss_pred CCCCHHH--HHHH
Confidence 4999983 4444
No 59
>TIGR00787 dctP tripartite ATP-independent periplasmic transporter solute receptor, DctP family. TRAP-T (Tripartite ATP-independent Periplasmic Transporter) family proteins generally consist of three components, and these systems have so far been found in Gram-negative bacteria, Gram-postive bacteria and archaea. The best characterized example is the DctPQM system of Rhodobacter capsulatus, a C4 dicarboxylate (malate, fumarate, succinate) transporter. This model represents the DctP family, one of at least three major families of extracytoplasmic solute receptor for TRAP family transporters. Other are the SnoM family (see pfam03480) and TAXI (TRAP-associated extracytoplasmic immunogenic) family.
Probab=21.26 E-value=92 Score=29.12 Aligned_cols=45 Identities=20% Similarity=0.249 Sum_probs=26.9
Q ss_pred ccccccCcHHHHHHhhhCChHHHHHHHhcCCHHHHHHHHHHhhhcC
Q psy157 270 VEVFESLPDVLKKCFELQDTAMLQEAIASLSPEEATYHMKRCVDSG 315 (347)
Q Consensus 270 ~evFeslP~~mq~afet~dld~vn~vl~~M~veeAE~~~~r~~dsG 315 (347)
...|++||++.|++|..---. ..........+.-+..++.+.+.|
T Consensus 213 ~~~~~~L~~e~q~~i~~a~~~-~~~~~~~~~~~~~~~~~~~~~~~G 257 (257)
T TIGR00787 213 KAFWKSLPPDLQAVVKEAAKE-AGEYQRKLSAEDEQKLIEKFKKQG 257 (257)
T ss_pred HHHHhcCCHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHhcC
Confidence 467999999999999874333 333333333333334445565554
No 60
>PF02831 gpW: gpW; InterPro: IPR004174 GpW is a 68 residue protein known to be present in phage particles. Extracts of phage-infected cells lacking GpW contain DNA-filled heads, and active tails, but no infectious virions. GpW is required for the addition of GpFII to the head, which is, in turn, required for the attachment of tails. Since GpFII and tails are known to be attached at the connector, GpW is also likely to assemble at this site. The addition of GpW to filled heads increases the DNase resistance of the packaged DNA, suggesting that GpW either forms a plug at the connector to prevent ejection of the DNA, or binds directly to the DNA. The large number of positively charged residues in GpW (its calculated pI is 10.8) is consistent with a role in DNA interaction [].; GO: 0019067 viral assembly, maturation, egress, and release; PDB: 2L6Q_A 2L6R_A 1HYW_A.
Probab=21.10 E-value=85 Score=24.54 Aligned_cols=34 Identities=24% Similarity=0.178 Sum_probs=20.6
Q ss_pred hHhHHHHHHHHHHHHHHHHHhCCCC--CcchhHHhH
Q psy157 180 LMDHVAHQCICMQYLLELSKSLNID--PRACIGSFF 213 (347)
Q Consensus 180 ~~~qvaHQalllQyIleLa~~l~~d--pr~~v~~FF 213 (347)
-.++-+--+-|.+||.+|-..||.. +|..++..|
T Consensus 33 V~Yt~a~i~~L~~yI~~L~~~Lg~~~rrR~p~~~~~ 68 (68)
T PF02831_consen 33 VTYTQANIGDLRAYIQQLEAQLGIVGRRRRPAGVRF 68 (68)
T ss_dssp EEEEGGGHHHHHHHHHHHHHHTTST-SS--------
T ss_pred EEEecCCHHHHHHHHHHHHHHhCcCCCCCCCCceeC
Confidence 3445566678999999999999977 456565544
No 61
>PF03480 SBP_bac_7: Bacterial extracellular solute-binding protein, family 7; InterPro: IPR018389 This family of proteins are involved in binding extracellular solutes for transport across the bacterial cytoplasmic membrane. This family includes a C4-dicarboxylate-binding protein DctP [, ] and the sialic acid-binding protein SiaP. The structure of the SiaP receptor has revealed an overall topology similar to ATP binding cassette ESR (extracytoplasmic solute receptors) proteins []. Upon binding of sialic acid, SiaP undergoes domain closure about a hinge region and kinking of an alpha-helix hinge component [].; GO: 0006810 transport, 0030288 outer membrane-bounded periplasmic space; PDB: 2HZK_C 2HZL_B 2HPG_C 2XWI_A 2XWK_A 2WX9_A 2CEY_A 2WYP_A 3B50_A 2CEX_B ....
Probab=20.84 E-value=48 Score=31.44 Aligned_cols=51 Identities=16% Similarity=0.197 Sum_probs=36.6
Q ss_pred ccccccCcHHHHHHhhhCChHHHHHHHhcCCHHHHHHHHHHhhhcCccccCc
Q psy157 270 VEVFESLPDVLKKCFELQDTAMLQEAIASLSPEEATYHMKRCVDSGLWVPDA 321 (347)
Q Consensus 270 ~evFeslP~~mq~afet~dld~vn~vl~~M~veeAE~~~~r~~dsGlw~p~~ 321 (347)
.+.|++||++.|++|..- .+.+...+...-.+.-+..++.+.+.|+=+...
T Consensus 213 ~~~w~~L~~e~q~~l~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~G~~v~~~ 263 (286)
T PF03480_consen 213 KDWWDSLPDEDQEALDDA-ADEAEARAREYYEAEDEEALKELEENGVTVVEL 263 (286)
T ss_dssp HHHHHHS-HHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHTT-EEEEG
T ss_pred HHHHhcCCHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHCcCEEeCC
Confidence 466999999999999984 455555555666667777888899999877443
No 62
>PF02403 Seryl_tRNA_N: Seryl-tRNA synthetase N-terminal domain; InterPro: IPR015866 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry represents the N-terminal domain of Seryl-tRNA synthetase, which consists of two helices in a long alpha-hairpin. Seryl-tRNA synthetase (6.1.1.11 from EC) exists as monomer and belongs to class IIa [].; GO: 0000166 nucleotide binding, 0004828 serine-tRNA ligase activity, 0005524 ATP binding, 0006434 seryl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 3QO8_A 3QO5_A 3QO7_A 3QNE_A 3LSQ_A 3LSS_A 2DQ3_B 1SET_A 1SER_A 1SRY_B ....
Probab=20.53 E-value=4.6e+02 Score=21.17 Aligned_cols=45 Identities=24% Similarity=0.430 Sum_probs=20.2
Q ss_pred HHHHHHHHHhhhhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy157 60 TLEETKKKLVESEQAGANNLDELKKALAELEKEAANIRKKEEDLKK 105 (347)
Q Consensus 60 ~l~e~~~~l~~~~~~~~e~~~~l~~h~~kl~~~~~e~~~Kl~eLek 105 (347)
.-..+.+.++.+...+. +.+.+......|......+...+.+++.
T Consensus 51 ~rN~~sk~I~~~~~~~~-~~~~l~~e~~~lk~~i~~le~~~~~~e~ 95 (108)
T PF02403_consen 51 ERNELSKEIGKLKKAGE-DAEELKAEVKELKEEIKELEEQLKELEE 95 (108)
T ss_dssp HHHHHHHHHHHHCHTTC-CTHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHhHHHHHHHHHhhCcc-cHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33344444444332222 3445555555555544444444444443
No 63
>COG2433 Uncharacterized conserved protein [Function unknown]
Probab=20.34 E-value=8.9e+02 Score=26.76 Aligned_cols=27 Identities=30% Similarity=0.498 Sum_probs=18.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy157 80 DELKKALAELEKEAANIRKKEEDLKKK 106 (347)
Q Consensus 80 ~~l~~h~~kl~~~~~e~~~Kl~eLek~ 106 (347)
..|...+.+-...-++++.++++|.+-
T Consensus 484 ~~L~~~L~e~~~~ve~L~~~l~~l~k~ 510 (652)
T COG2433 484 ERLEKELEEKKKRVEELERKLAELRKM 510 (652)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456666666666677777777777763
No 64
>PF03819 MazG: MazG nucleotide pyrophosphohydrolase domain; InterPro: IPR004518 This domain is found in a group of prokaryotic proteins which includes Escherichia coli MazG. The domain is about 100 amino acid residues in length and contains four conserved negatively charged residues that probably form an active site or metal binding site.; PDB: 1VMG_A 2YXH_B 2OIE_B 2OIG_C 2Q4P_A 2A3Q_B 2Q9L_C 2Q5Z_B 2Q73_A 3CRC_B ....
Probab=20.31 E-value=48 Score=25.40 Aligned_cols=32 Identities=25% Similarity=0.362 Sum_probs=23.9
Q ss_pred HHHHHHHHHHHHh----CCCCCcchhHHhHhhhccc
Q psy157 188 CICMQYLLELSKS----LNIDPRACIGSFFSKIQIA 219 (347)
Q Consensus 188 alllQyIleLa~~----l~~dpr~~v~~FF~ki~~~ 219 (347)
+=+|.|++.||+. +|.|+.+++.....|+...
T Consensus 34 gDvl~~l~~la~~~~~~~~idle~~~~~~~~K~~~R 69 (74)
T PF03819_consen 34 GDVLFYLLQLARILEERLGIDLEEALERKMEKLERR 69 (74)
T ss_dssp HHHHHHHHHHHHHHHCHTTSHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHhHcCCCCHHHHHHHHHHHHhcc
Confidence 3467777788886 8988888888777777543
Done!