Query 018467
Match_columns 355
No_of_seqs 234 out of 659
Neff 5.4
Searched_HMMs 46136
Date Fri Mar 29 09:16:08 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/018467.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/018467hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2580 Mitochondrial import i 100.0 6.8E-73 1.5E-77 557.0 14.3 324 9-355 127-459 (459)
2 TIGR00984 3a0801s03tim44 mitoc 100.0 1.7E-63 3.7E-68 492.6 24.9 262 66-345 93-378 (378)
3 PF04280 Tim44: Tim44-like dom 100.0 4.3E-35 9.2E-40 253.9 19.1 147 196-348 1-147 (147)
4 COG4395 Uncharacterized protei 99.9 3.2E-26 6.9E-31 218.5 12.9 149 195-349 132-280 (281)
5 PF07961 MBA1: MBA1-like prote 98.5 6.4E-06 1.4E-10 78.3 15.7 126 210-347 67-199 (235)
6 PF13355 DUF4101: Protein of u 96.0 0.15 3.2E-06 43.5 11.9 96 233-345 20-117 (117)
7 KOG4599 Putative mitochondrial 94.9 0.0018 3.9E-08 64.5 -4.1 137 197-344 150-311 (379)
8 PF12870 Lumazine_bd: Lumazine 91.0 1.5 3.3E-05 34.9 7.9 29 220-248 10-38 (111)
9 KOG2580 Mitochondrial import i 90.5 0.28 6.1E-06 50.4 3.9 96 128-223 244-352 (459)
10 PF12893 Lumazine_bd_2: Putati 88.7 6.2 0.00013 32.6 10.2 92 218-346 5-113 (116)
11 PF13474 SnoaL_3: SnoaL-like d 87.9 12 0.00026 29.8 11.7 102 220-348 2-116 (121)
12 PF08332 CaMKII_AD: Calcium/ca 84.8 20 0.00043 31.2 11.4 109 218-351 4-127 (128)
13 PF14534 DUF4440: Domain of un 81.3 12 0.00025 28.9 8.0 69 221-294 3-79 (107)
14 PF12883 DUF3828: Protein of u 77.2 15 0.00032 31.2 7.9 84 236-347 28-117 (120)
15 TIGR02246 conserved hypothetic 53.4 1.2E+02 0.0025 24.4 10.5 29 218-246 5-33 (128)
16 PRK09635 sigI RNA polymerase s 48.6 34 0.00074 33.3 5.3 50 196-247 155-204 (290)
17 PRK10533 putative lipoprotein; 41.1 1E+02 0.0022 28.3 6.6 63 219-283 45-112 (171)
18 TIGR02957 SigX4 RNA polymerase 39.5 53 0.0011 31.6 5.0 49 196-246 145-193 (281)
19 PF13577 SnoaL_4: SnoaL-like d 39.2 53 0.0012 26.4 4.4 104 219-346 9-126 (127)
20 COG4319 Ketosteroid isomerase 37.7 3E+02 0.0064 24.5 12.8 100 219-345 12-126 (137)
21 PF08898 DUF1843: Domain of un 33.7 90 0.002 23.4 4.3 21 224-244 5-25 (53)
22 PF05223 MecA_N: NTF2-like N-t 33.6 2.8E+02 0.006 23.0 10.1 28 219-246 3-30 (118)
23 TIGR01567 S_layer_rel_Mac S-la 32.2 2.7E+02 0.0058 27.3 8.4 80 259-350 131-216 (256)
24 PRK08241 RNA polymerase factor 31.5 56 0.0012 31.9 3.9 52 195-246 189-243 (339)
25 PF13026 DUF3887: Protein of u 29.4 2.7E+02 0.0058 23.4 7.0 38 210-251 2-39 (101)
26 cd00781 ketosteroid_isomerase 29.1 56 0.0012 26.4 2.9 29 219-247 5-33 (122)
27 PRK09636 RNA polymerase sigma 27.7 91 0.002 30.0 4.5 49 196-246 152-200 (293)
28 PF12642 TpcC: Conjugative tra 22.4 6.1E+02 0.013 23.2 9.5 30 217-246 140-169 (232)
29 PF11454 DUF3016: Protein of u 22.3 3.2E+02 0.007 24.3 6.6 75 244-324 29-118 (141)
30 PF08447 PAS_3: PAS fold; Int 21.4 3.5E+02 0.0075 20.0 6.6 64 232-308 21-85 (91)
31 KOG2542 Uncharacterized conser 20.4 1.9E+02 0.0041 30.3 5.2 64 177-242 390-457 (500)
No 1
>KOG2580 consensus Mitochondrial import inner membrane translocase, subunit TIM44 [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=6.8e-73 Score=557.03 Aligned_cols=324 Identities=31% Similarity=0.576 Sum_probs=302.9
Q ss_pred HHhhhhhccCCCCcCCCCCCCccccCCcCCCchhhhhcccCcchhhHHhhhhcccccchhhhHHHHHhhhhHHHHHHhhh
Q 018467 9 TEEVKGTFRTGSTDTSAKHDDDVRDGFKASSGEEKQKQTVSSDTAETFYGKLKSSISSPKFTLAFQKLKEAKVVDLAKKG 88 (355)
Q Consensus 9 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~ 88 (355)
..++||+|++|++|.++|+.++ +.++.-+|.+++++++++.-.+||+||++|.+.|.||+.+..++ +-++.++.|
T Consensus 127 ~~e~~e~~k~~~~ea~eS~~~k---~t~~~~~e~~kqA~~sae~vd~~~~kv~~T~~yk~vSe~~~~vk--k~~d~s~~g 201 (459)
T KOG2580|consen 127 LGELKETVKLGAEEAWESALGK---KTKEAVEEAQKQASGSAEEVDTFFEKVGQTAAYKAVSEVMETVK--KEIDSSRYG 201 (459)
T ss_pred HHHHHHHHHHHHHHHHhhhhhc---cchhhHHHHHHHhhcchhhhhHhhhhhhhhhhHHHHHHHHHhhc--ccchhhhhh
Confidence 3589999999999999999988 88777788888999999999999999999999999999999998 678999999
Q ss_pred hhhhhhhhcCCCCcccccCCCCCCCCCCCCCccceeEEecccchhhHH-HHHhhcCCCcccccccccCccccccccchHH
Q 018467 89 YDIVKDELSGSPSKRKHLEYTPSPSWTGEKSTRTDLVVTPSKKSMWSK-LKEKMQGYPVFKRITGISEPVVTKGQEIAED 167 (355)
Q Consensus 89 ~~~vk~e~~~~~~~rk~~~~~~~~~~~~e~~~~t~~~~~~~k~s~w~~-~k~~~~~~p~~~~~~~~~~p~~~k~~~~~~d 167 (355)
..+||+++...++++++..+++++++++|+++. +.+|++|++|+||+ |++|+++|.++++|. +
T Consensus 202 ~~i~k~~~r~lr~r~~~~~~~~~~~~~~E~n~~-a~~vv~h~~skw~~kwe~fkek~~~~~k~~---------------~ 265 (459)
T KOG2580|consen 202 LDIVKERPRKLRKRTEFLGDTFPSEKVGEPNEE-AEGVVLHKDSKWYQKWEDFKEKNVVVRKFQ---------------E 265 (459)
T ss_pred hhchhhhhhhchhhhhhhccCCCcccccCCCcc-eeeEEeccchHHHHHHHHHHhcccchHHHH---------------H
Confidence 999999999877777777778888899999876 66778899999999 999999999999999 8
Q ss_pred hhhhhcccccchhhhhhcc-------cccccccChHHHHHHHHHhcCCCCChhhHHHHHHHHHHH-HHHHHHcCCHHHHH
Q 018467 168 VRERWETSDNPIVHKIQDM-------NETIFQETDAAASIKEIRRRDPSFSLPDFVSEVQEAIRP-VLSAYMKGDVETLK 239 (355)
Q Consensus 168 ~r~~~eeSdnP~v~~~~di-------~d~lf~ete~a~al~eIk~~DP~Fd~~~Fl~~ar~~y~p-IleAy~~GDle~Lk 239 (355)
|+..||+|+||+|+-+||+ .+++|.+|+.++++++|+++||+||.++||+.|+++|+| ||+||.+||+++||
T Consensus 266 lk~~ydeseN~~i~~~rdvtdki~~~~~g~fsktE~Sev~tei~~iDPsF~~~~Flr~~ee~IiPnVLeAyvkGD~evLK 345 (459)
T KOG2580|consen 266 LKKKYDESENPSIRASRDVTDKITDVDGGLFSKTEMSEVLTEIKKIDPSFDKEDFLRECEEYIIPNVLEAYVKGDLEVLK 345 (459)
T ss_pred HHhhccccccHHHHHHHHHHHhhhhcccccchhhHHHHHHHHHHhcCCCCCcHHHHHHHHHhhhHHHHHHHHhccHHHHH
Confidence 9999999999999755554 447999999999999999999999999999999999999 99999999999999
Q ss_pred hhcCHHHHHHHHHHHHHHHhCCCcccceEEEecceeEEEEEEeCCeeEEEEEEEEeEEEEEEcCCCCeecCCCCceeeEE
Q 018467 240 KYCSPEVIERCKAEHTAYQSHGIFFDNRILHVSEVEVRETKMMGSSPIIIVAFQTQQIYCVRDKHGTITEGGKDTIQTVY 319 (355)
Q Consensus 240 ~~cse~~y~~~~a~I~~r~~~G~~~d~kIL~I~~veIv~ak~~~~~pvitVrF~aQqI~~vRDk~GeVVeGd~d~I~~v~ 319 (355)
+||++++|++|++++++++++|+.+|++||||++|+|.+++||+++|+|+|+|++|+|||+||.+|+|||||||+|++++
T Consensus 346 ~wcsea~~~~~aa~~keykk~gv~~d~kILdI~~Vdia~~KmM~d~PVlIitFqaQeI~~vRd~~GevveGd~d~i~~v~ 425 (459)
T KOG2580|consen 346 KWCSEAPFSQLAAPIKEYKKHGVYFDSKILDIRGVDIASGKMMEDGPVLIITFQAQEIMCVRDAKGEVVEGDPDKILRVY 425 (459)
T ss_pred HHHhhhHHHHHHHHHHHHHhcCeeecceeeeeccchhHHhhhhccCCEEEEEEeeEEEEEEEcCCCceecCCCCceeeEE
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEEEEEecccccCCCCCCCCeEEeeeeccccccCC
Q 018467 320 YAWAMQQVDAEELGEDVLYPIWKLREMQQLGVQALI 355 (355)
Q Consensus 320 yvW~f~r~~~eel~~~~~~~~WrL~eiqq~g~~a~~ 355 (355)
|+|+|+| |++||||+. +++|||++|.++|.+++|
T Consensus 426 y~wvl~r-d~~El~~d~-~~~WRLlE~~r~~~~~~~ 459 (459)
T KOG2580|consen 426 YAWVLCR-DQDELNPDE-YAAWRLLEFSRAGTEQFL 459 (459)
T ss_pred eeeeeec-cHhhcCcch-hhhHHHHHHHhccchhcC
Confidence 9999955 999998655 899999999999999876
No 2
>TIGR00984 3a0801s03tim44 mitochondrial import inner membrane, translocase subunit. translocase (Tom) import receptor, five proteins of the Tom channel complex, five proteins of the inner membrane translocase (Tim) and three "motor" proteins. This family is specific for the Tim proteins.
Probab=100.00 E-value=1.7e-63 Score=492.58 Aligned_cols=262 Identities=25% Similarity=0.455 Sum_probs=232.9
Q ss_pred chhhhHHHHHhhhhHHHHHHhhhhhhhhhhhcCCC-----------CcccccCCCCC-CCCCCCCCccceeEEecccchh
Q 018467 66 SPKFTLAFQKLKEAKVVDLAKKGYDIVKDELSGSP-----------SKRKHLEYTPS-PSWTGEKSTRTDLVVTPSKKSM 133 (355)
Q Consensus 66 ~~~~~~~~~~l~~~~~~~~~~~~~~~vk~e~~~~~-----------~~rk~~~~~~~-~~~~~e~~~~t~~~~~~~k~s~ 133 (355)
++.++++++.||+|++|+++|++++.+|+|++..+ .||+|.+..+. .....+.++. +.+|++||+|+
T Consensus 93 ~~~~~~~~~~v~~T~~yk~vs~~~~~~k~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~n~~-a~~v~~~k~s~ 171 (378)
T TIGR00984 93 AEHVDKSAEPVRDTAVYKHVSQSMKDGKDSSRYGFIADKEQRRRPRELTKRTDGRDFAKSRVVEANES-VTDVVLHSDSS 171 (378)
T ss_pred hhhHHHhcccccccHHHHHHHHHHHhhhcccccccccchhhhhhHHHhhhhhcccccccccccccCCc-ccceEEecccH
Confidence 46899999999999999999999999999999733 24454443322 2334444432 34447799999
Q ss_pred hHH-HHHhhcCCCcccccccccCccccccccchHHhhhhhcccccchhhhhhcccc-------cccccChHHHHHHHHHh
Q 018467 134 WSK-LKEKMQGYPVFKRITGISEPVVTKGQEIAEDVRERWETSDNPIVHKIQDMNE-------TIFQETDAAASIKEIRR 205 (355)
Q Consensus 134 w~~-~k~~~~~~p~~~~~~~~~~p~~~k~~~~~~d~r~~~eeSdnP~v~~~~di~d-------~lf~ete~a~al~eIk~ 205 (355)
|++ |.+|+++||++++|+ +||++||+||||+|+.+|+|+| +||++|+++.+|++|++
T Consensus 172 ~~~~w~~fk~~~~~~~~~~---------------~lk~~~~eSeNp~i~~~r~itdkv~~~~~~lF~ete~a~~l~eIk~ 236 (378)
T TIGR00984 172 WYSKVEDFKESNVVYRKIQ---------------ELKKKYDESENPLVRMMRGVTDKIGGVFSGMFSETEVSEVLTEFKK 236 (378)
T ss_pred HHHHHHHHHhhCHHHHHHH---------------HHHHHhhcccChhhhHhHHhhhhhhhhhhcccCCCHHHHHHHHHHH
Confidence 999 999999999999999 8999999999999998777666 59999999999999999
Q ss_pred cCCCCChhhHHHHHHHHH-HHHHHHHHcCCHHHHHhhcCHHHHHHHHHHHHHHHhCCCcccceEEEecceeEEEEEEeC-
Q 018467 206 RDPSFSLPDFVSEVQEAI-RPVLSAYMKGDVETLKKYCSPEVIERCKAEHTAYQSHGIFFDNRILHVSEVEVRETKMMG- 283 (355)
Q Consensus 206 ~DP~Fd~~~Fl~~ar~~y-~pIleAy~~GDle~Lk~~cse~~y~~~~a~I~~r~~~G~~~d~kIL~I~~veIv~ak~~~- 283 (355)
+||+||+.+|+.+|+.+| .+||+||++||++.||+||++++|++|+++|++|.++|++++++||+|++++|+++++++
T Consensus 237 ~DPsFd~~~Fl~gar~aI~p~ILeAf~kGD~e~LK~~lse~vy~~f~a~I~qr~~~G~~~d~~iL~I~~veI~~ak~~e~ 316 (378)
T TIGR00984 237 IDPTFDKEHFLRFLREYIVPEILEAYVKGDLEVLKSWCSEAPFSVYATVVKEYKKMGVSTKGRILDIRGVEIASGKLLEP 316 (378)
T ss_pred hCCCCCHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHhhCHHHHHHHHHHHHHHHHCCCeeeeEEeeecCeEEEEEEecCC
Confidence 999999999999999995 459999999999999999999999999999999999999999999999999999999986
Q ss_pred -CeeEEEEEEEEeEEEEEEcCC-CCeecCCCCceeeEEEEEEEEEecccccCCCCCCCCeEEee
Q 018467 284 -SSPIIIVAFQTQQIYCVRDKH-GTITEGGKDTIQTVYYAWAMQQVDAEELGEDVLYPIWKLRE 345 (355)
Q Consensus 284 -~~pvitVrF~aQqI~~vRDk~-GeVVeGd~d~I~~v~yvW~f~r~~~eel~~~~~~~~WrL~e 345 (355)
+.|+|+|+|++|||+|+||++ |+||+|+|++|+.++|+|+|+| ++++++ +.++++|||++
T Consensus 317 ~~~pviiV~F~aQqI~~vRd~~tGeVVeGd~d~I~~v~yvWtF~R-d~~~~~-~~~~~~Wrl~e 378 (378)
T TIGR00984 317 GDIPVLIVTFRAQEINVTKNAKSGEVVAGDPDNIQRINYAWVFTR-DVEELD-NPETLGWKILE 378 (378)
T ss_pred CCeEEEEEEEEEEEEEEEEcCCCCceeeCCCCceeEEEEEEEEEE-cccccC-CCCCCceeecC
Confidence 469999999999999999987 9999999999999999999976 788887 56799999985
No 3
>PF04280 Tim44: Tim44-like domain; InterPro: IPR007379 Tim44 is an essential component of the machinery that mediates the translocation of nuclear-encoded proteins across the mitochondrial inner membrane []. Tim44 is thought to bind phospholipids of the mitochondrial inner membrane both by electrostatic interactions and by penetrating the polar head group region [].; GO: 0015450 P-P-bond-hydrolysis-driven protein transmembrane transporter activity, 0006886 intracellular protein transport, 0005744 mitochondrial inner membrane presequence translocase complex; PDB: 2CW9_A 2FXT_A 3QK9_A.
Probab=100.00 E-value=4.3e-35 Score=253.85 Aligned_cols=147 Identities=37% Similarity=0.581 Sum_probs=132.4
Q ss_pred HHHHHHHHHhcCCCCChhhHHHHHHHHHHHHHHHHHcCCHHHHHhhcCHHHHHHHHHHHHHHHhCCCcccceEEEeccee
Q 018467 196 AAASIKEIRRRDPSFSLPDFVSEVQEAIRPVLSAYMKGDVETLKKYCSPEVIERCKAEHTAYQSHGIFFDNRILHVSEVE 275 (355)
Q Consensus 196 ~a~al~eIk~~DP~Fd~~~Fl~~ar~~y~pIleAy~~GDle~Lk~~cse~~y~~~~a~I~~r~~~G~~~d~kIL~I~~ve 275 (355)
.+.+++.|+++||+||...|+.+|+++|.+|++||.+||++.|++|||+++|+.|..+|+++...|...+.++++|.+++
T Consensus 1 ~a~a~~~i~~~dp~Fd~~~F~~~ak~~f~~i~~A~~~~D~~~l~~~~t~~~~~~~~~~i~~~~~~g~~~~~~~v~i~~~~ 80 (147)
T PF04280_consen 1 LASAIKQIKQRDPGFDPAAFLEEAKEAFLPIQEAWAKGDLEALRPLLTEELYERLQAEIKARRSRGEVNDPEIVRIDNAE 80 (147)
T ss_dssp -HHHHCCHHHH-TT--HHHHHHHHHHTHHHHHHHHHHT-HHHHHHHB-HHHHHHHHHHHHHHHHTTEEEEEEEEEEEEEE
T ss_pred CchHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHhCHHHHHHHHHHHHHHHHcCCcccceEEEEEEEE
Confidence 37899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEEEEeCCeeEEEEEEEEeEEEEEEcCCCCeecCCCCceeeEEEEEEEEEecccccCCCCCCCCeEEeeeec
Q 018467 276 VRETKMMGSSPIIIVAFQTQQIYCVRDKHGTITEGGKDTIQTVYYAWAMQQVDAEELGEDVLYPIWKLREMQQ 348 (355)
Q Consensus 276 Iv~ak~~~~~pvitVrF~aQqI~~vRDk~GeVVeGd~d~I~~v~yvW~f~r~~~eel~~~~~~~~WrL~eiqq 348 (355)
|+++...++.++|+|+|.++|++|++|++|+|++|+++++..+.|+|+|+|+ + +..+++|+|++|+|
T Consensus 81 i~~~~~~~~~~~vtv~f~~~~~~~~~d~~G~ii~G~~~~~~~~~e~W~f~r~----~--~~~~~~W~L~~i~q 147 (147)
T PF04280_consen 81 IVEAEQEGNFDQVTVRFRSQQIDYVDDKDGEIIEGDPDKIQEFTEYWTFERD----L--GSPNPNWRLAGIQQ 147 (147)
T ss_dssp EEEEEEETTEEEEEEEEEEEEEEEEETTTCTCCCCSTTS-EEEEEEEEEEE--------TTCCCTEEEEEEE-
T ss_pred eeeceeeCCEEEEEEEEEEEEEEEEECCCCcEeeCCCCCceEEEEEEEEEEe----C--CCCCCCEEEEEEeC
Confidence 9999999999999999999999999999999999999999999999999885 2 22368999999987
No 4
>COG4395 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=99.93 E-value=3.2e-26 Score=218.46 Aligned_cols=149 Identities=26% Similarity=0.423 Sum_probs=142.8
Q ss_pred hHHHHHHHHHhcCCCCChhhHHHHHHHHHHHHHHHHHcCCHHHHHhhcCHHHHHHHHHHHHHHHhCCCcccceEEEecce
Q 018467 195 DAAASIKEIRRRDPSFSLPDFVSEVQEAIRPVLSAYMKGDVETLKKYCSPEVIERCKAEHTAYQSHGIFFDNRILHVSEV 274 (355)
Q Consensus 195 e~a~al~eIk~~DP~Fd~~~Fl~~ar~~y~pIleAy~~GDle~Lk~~cse~~y~~~~a~I~~r~~~G~~~d~kIL~I~~v 274 (355)
..+.+++.+...||+|++..||.+++.+|.+||+||..||+++|+.|+++++|..|.+++.+|...|.+++.+.|+|..+
T Consensus 132 ~~~ag~~~v~~~~~~f~p~~fl~~a~~a~~~Iq~a~~~~D~~tL~~L~tpev~~~~~~e~~e~~~~G~~~~ssfv~~~~~ 211 (281)
T COG4395 132 PLAAGARAVHNADPSFDPARFLNGARAAYEMIQQAYGAGDRKTLRELLTPEVMEYLEAEIAERESKGETNQSSFVTILQA 211 (281)
T ss_pred ccccchhhhhcCCcccchhHHHHHHHHHHHHHHHHhhhccHHHHHHhcCHHHHHHHHHHHhhhhhcCccccceecchhhh
Confidence 67889999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eEEEEEEeCCeeEEEEEEEEeEEEEEEcCCCCeecCCCCceeeEEEEEEEEEecccccCCCCCCCCeEEeeeecc
Q 018467 275 EVRETKMMGSSPIIIVAFQTQQIYCVRDKHGTITEGGKDTIQTVYYAWAMQQVDAEELGEDVLYPIWKLREMQQL 349 (355)
Q Consensus 275 eIv~ak~~~~~pvitVrF~aQqI~~vRDk~GeVVeGd~d~I~~v~yvW~f~r~~~eel~~~~~~~~WrL~eiqq~ 349 (355)
+|.++++.++..++||+|..|.|..+||++|+||+|||+.+.++.|+|+|+|.. +..+|||+|+.||+.
T Consensus 212 di~~a~~~~~~~~atv~~~~~~i~~~~dr~G~vVdGd~~~~~e~~ElWTFtR~~------~s~~p~W~LaaIq~~ 280 (281)
T COG4395 212 DIARADVEGDEDYATVAIRYQGIDVTRDRSGKVVDGDPDKPEEFAELWTFTRDT------GSRDPNWKLAAIQQA 280 (281)
T ss_pred hhhhccccCCceEEEEEEEeeeeeeeccccCceecCCCCcchhhhhheeeeccC------CCCCCCceEEeeecc
Confidence 999999999999999999999999999999999999999999999999999852 344789999999984
No 5
>PF07961 MBA1: MBA1-like protein; InterPro: IPR024621 Mba1 is an inner membrane protein that is part of the mitochondrial protein export machinery [, ]. It binds to the large subunit of mitochondrial ribosomes and cooperates with the C-terminal ribosome-binding domain of Oxa1, which is a central component of the insertion machinery of the inner membrane. In the absence of both Mba1 and the C terminus of Oxa1, mitochondrial translation products fail to be properly inserted into the inner membrane and serve as substrates of the matrix chaperone Hsp70 []. It is proposed that Mba1 functions as a ribosome receptor that cooperates with Oxa1 in the positioning of the ribosome exit site to the insertion machinery of the inner membrane [].
Probab=98.46 E-value=6.4e-06 Score=78.25 Aligned_cols=126 Identities=19% Similarity=0.175 Sum_probs=100.9
Q ss_pred CChhhHHHHHHHHHHHHHHHHHcCCHHHHHhhcCHHHHHHHHHHHHHHHhCCCcccceEEEe-cceeEEEEEEe--C---
Q 018467 210 FSLPDFVSEVQEAIRPVLSAYMKGDVETLKKYCSPEVIERCKAEHTAYQSHGIFFDNRILHV-SEVEVRETKMM--G--- 283 (355)
Q Consensus 210 Fd~~~Fl~~ar~~y~pIleAy~~GDle~Lk~~cse~~y~~~~a~I~~r~~~G~~~d~kIL~I-~~veIv~ak~~--~--- 283 (355)
+....|...|.+.|+.+..||++||++.|+..|+..+|+.|.+-+++|-. +..++++++.+ +.-.|+....+ .
T Consensus 67 ~~f~~wk~~AiE~yv~~NkaFA~~~~~~L~~~c~~~v~~sL~~R~~~~P~-~~kl~W~L~k~~~~PKvvs~~~~~~p~~~ 145 (235)
T PF07961_consen 67 PRFNEWKNKAIELYVQMNKAFAAGDLDKLRKICSSWVYESLAARIKQRPK-NSKLDWKLVKYNKNPKVVSFQAIPIPGGP 145 (235)
T ss_pred CchhHHHHHHHHHHHHHHHHHHhccHHHHHHHhhHHHHHHHHHHHHhCCC-CCeeeEEEEEecCCCeEEEEeeeecCCCC
Confidence 34568999999999999999999999999999999999999999999885 46788888876 34566665543 2
Q ss_pred -CeeEEEEEEEEeEEEEEEcCCCCeecCCCCceeeEEEEEEEEEecccccCCCCCCCCeEEeeee
Q 018467 284 -SSPIIIVAFQTQQIYCVRDKHGTITEGGKDTIQTVYYAWAMQQVDAEELGEDVLYPIWKLREMQ 347 (355)
Q Consensus 284 -~~pvitVrF~aQqI~~vRDk~GeVVeGd~d~I~~v~yvW~f~r~~~eel~~~~~~~~WrL~eiq 347 (355)
..-+++|+|.+.|-....|+.++.+++.+ +.+.|+.+|+|. +- +..|+|.|-.
T Consensus 146 ~~~vQ~Vvk~~TkQ~li~~~k~~~~~~~~e---~dvveyiV~~~d-~~-------t~e~~l~Gsv 199 (235)
T PF07961_consen 146 LEIVQFVVKFDTKQRLIKVDKGSEKVEKKE---RDVVEYIVFQCD-PW-------TNEWVLWGSV 199 (235)
T ss_pred CeEEEEEEEEeeeEEEEEeccccccCCccc---cceeeeEEEEEe-CC-------CCcEEEEEEe
Confidence 26899999999999877887776665543 478999999883 21 3479999854
No 6
>PF13355 DUF4101: Protein of unknown function (DUF4101)
Probab=96.01 E-value=0.15 Score=43.46 Aligned_cols=96 Identities=17% Similarity=0.291 Sum_probs=66.3
Q ss_pred CCHHHHHhhcCHHHHHHHHHHHHHHHhCCCcccce-EEEecceeEEEEEEeCCeeEEEEEEEEeEEEEEEcCCCCeecC-
Q 018467 233 GDVETLKKYCSPEVIERCKAEHTAYQSHGIFFDNR-ILHVSEVEVRETKMMGSSPIIIVAFQTQQIYCVRDKHGTITEG- 310 (355)
Q Consensus 233 GDle~Lk~~cse~~y~~~~a~I~~r~~~G~~~d~k-IL~I~~veIv~ak~~~~~pvitVrF~aQqI~~vRDk~GeVVeG- 310 (355)
.+.+.|...+++.++..+......-+++|....-. -+.|..|++..-. ++.+. |.-.-.+...+++ .|++..+
T Consensus 20 ~~~~~L~~vl~g~ll~~w~~~a~~~~~~g~y~~y~~~~~I~sv~~~~~~--~~ra~--v~a~v~E~~~l~~-~g~~~~~~ 94 (117)
T PF13355_consen 20 HDIDSLSEVLTGPLLSQWQDRAQWLKANGWYWEYDHKLKIDSVEVFSDS--PNRAT--VEATVTESAQLYD-NGQPDNNP 94 (117)
T ss_pred cchhHHHHHhhHHHHHHHHHHHHHHHHcCCeEEEeeeeEEEEEEEcCCC--CCeEE--EEEEEEEEEEEEe-CCccccCC
Confidence 46778999999999999999999999999875444 4445444444211 33444 4444455566888 8998886
Q ss_pred CCCceeeEEEEEEEEEecccccCCCCCCCCeEEee
Q 018467 311 GKDTIQTVYYAWAMQQVDAEELGEDVLYPIWKLRE 345 (355)
Q Consensus 311 d~d~I~~v~yvW~f~r~~~eel~~~~~~~~WrL~e 345 (355)
+.....++.|..... +..|||.+
T Consensus 95 s~~~~~~vrY~L~r~------------~~~WkI~d 117 (117)
T PF13355_consen 95 SYDSTLRVRYELVRQ------------NGQWKITD 117 (117)
T ss_pred CCCCcEEEEEEEEEc------------CCEEEecC
Confidence 666667888865551 25699975
No 7
>KOG4599 consensus Putative mitochondrial/chloroplast ribosomal protein L45 [Translation, ribosomal structure and biogenesis]
Probab=94.93 E-value=0.0018 Score=64.49 Aligned_cols=137 Identities=18% Similarity=0.247 Sum_probs=103.8
Q ss_pred HHHHHHHHhcC--CCCChhhHHHHHHHHHHHHHHHHHcCCHHHHHhhcCH---------------HHHHHHHHHHHHHHh
Q 018467 197 AASIKEIRRRD--PSFSLPDFVSEVQEAIRPVLSAYMKGDVETLKKYCSP---------------EVIERCKAEHTAYQS 259 (355)
Q Consensus 197 a~al~eIk~~D--P~Fd~~~Fl~~ar~~y~pIleAy~~GDle~Lk~~cse---------------~~y~~~~a~I~~r~~ 259 (355)
-..++.|+..| -+|+.++|-..|+..|+.+.-+...-|...+..|+++ .+|...... .+
T Consensus 150 q~sir~i~~k~~~~~F~ik~f~~kakDifIqaH~~l~~~de~kays~l~e~~fvhl~~~~~t~~~~flp~m~~k----~K 225 (379)
T KOG4599|consen 150 QMSIRRIRDKDEIENFEIKDFGAKAKDIFIQAHLCLNNSDEMKAYSFLTESEFVHLKCPSITNLLHFLPVMQEK----VK 225 (379)
T ss_pred HhhhhhhccCCcccceeccccchHhHHHHHHHHHHHhcChHHHHHHHhhccccccccCCCccchhhhccccchh----hc
Confidence 46889999999 8999999999999999999999999999988888888 555444433 22
Q ss_pred CCCcccceEEE-ecceeEEEEEEeC------C-eeEEEEEEEEeEEEEEEcCCCCeecCCCCceeeEEEEEEEEEecccc
Q 018467 260 HGIFFDNRILH-VSEVEVRETKMMG------S-SPIIIVAFQTQQIYCVRDKHGTITEGGKDTIQTVYYAWAMQQVDAEE 331 (355)
Q Consensus 260 ~G~~~d~kIL~-I~~veIv~ak~~~------~-~pvitVrF~aQqI~~vRDk~GeVVeGd~d~I~~v~yvW~f~r~~~ee 331 (355)
.| .++..+|. +.-..++-++-.+ + .++|+||++++|...++|..|+...|+++.-..|.++-+|..+....
T Consensus 226 ~~-~vR~~~vs~leP~~vv~~rc~d~~~~s~n~~aqitvRkh~~q~Lavydrfg~lm~g~E~i~KDv~eyvvfe~hi~~~ 304 (379)
T KOG4599|consen 226 KG-TVRWSFVSVLEPSRVVYVRCDDDNDKSGNFIAQITVRKHTRQCLAVYDRFGRLMFGSEDIKKDVLEYVVFENHIQNA 304 (379)
T ss_pred cC-ceeEEEEeecccceeEEEEecCCcccccccceeeehHHHHHHHHHHHHHHHHHhccCcccccchhHHHHHHHhhhhh
Confidence 33 33445554 2233344444332 2 68999999999999999999999999998888899989997664332
Q ss_pred cCCCCCCCCeEEe
Q 018467 332 LGEDVLYPIWKLR 344 (355)
Q Consensus 332 l~~~~~~~~WrL~ 344 (355)
++.|||-
T Consensus 305 ------~g~wr~h 311 (379)
T KOG4599|consen 305 ------YGRWRLH 311 (379)
T ss_pred ------hhhhhhc
Confidence 5778854
No 8
>PF12870 Lumazine_bd: Lumazine-binding domain; InterPro: IPR024267 This entry represents a lumazine-binding domain found in a family of putative lipoproteins from bacteria. Lumazine is a fluorescent accessory protein having 6,7-dimethyl-8-(1'-D-ribityl) lumazine (DMRL) as its authentic chromophore; it modulates the emission of bacterial luciferase to shorter wavelengths with increasing luminous strength.; PDB: 3K7C_C.
Probab=90.95 E-value=1.5 Score=34.85 Aligned_cols=29 Identities=34% Similarity=0.516 Sum_probs=19.8
Q ss_pred HHHHHHHHHHHHcCCHHHHHhhcCHHHHH
Q 018467 220 QEAIRPVLSAYMKGDVETLKKYCSPEVIE 248 (355)
Q Consensus 220 r~~y~pIleAy~~GDle~Lk~~cse~~y~ 248 (355)
+++..-.+.|+.+||.+....+|+++...
T Consensus 10 ~~~v~~f~~al~~gd~~~a~~~~~~~~~~ 38 (111)
T PF12870_consen 10 EEVVKNFFDALKNGDYEKAYAYLSPESRE 38 (111)
T ss_dssp HHHHHHHHHHHCTT-HHHHHHTB--TT--
T ss_pred HHHHHHHHHHHHcCCHHHHHHhhCccccc
Confidence 44555578899999999999999998884
No 9
>KOG2580 consensus Mitochondrial import inner membrane translocase, subunit TIM44 [Intracellular trafficking, secretion, and vesicular transport]
Probab=90.49 E-value=0.28 Score=50.40 Aligned_cols=96 Identities=15% Similarity=0.116 Sum_probs=65.5
Q ss_pred cccchhhHHHHHhhcCCCcccccccccCccccccccchHHhhhhhcccccchhhhhhcc--------cccccccChHHHH
Q 018467 128 PSKKSMWSKLKEKMQGYPVFKRITGISEPVVTKGQEIAEDVRERWETSDNPIVHKIQDM--------NETIFQETDAAAS 199 (355)
Q Consensus 128 ~~k~s~w~~~k~~~~~~p~~~~~~~~~~p~~~k~~~~~~d~r~~~eeSdnP~v~~~~di--------~d~lf~ete~a~a 199 (355)
.....+|+.||++..--|.++++-+...|...+..++.+|++++|..++||+++++..- +|--|...+..+-
T Consensus 244 skw~~kwe~fkek~~~~~k~~~lk~~ydeseN~~i~~~rdvtdki~~~~~g~fsktE~Sev~tei~~iDPsF~~~~Flr~ 323 (459)
T KOG2580|consen 244 SKWYQKWEDFKEKNVVVRKFQELKKKYDESENPSIRASRDVTDKITDVDGGLFSKTEMSEVLTEIKKIDPSFDKEDFLRE 323 (459)
T ss_pred hHHHHHHHHHHhcccchHHHHHHHhhccccccHHHHHHHHHHHhhhhcccccchhhHHHHHHHHHHhcCCCCCcHHHHHH
Confidence 45788899999999999999999888888888888888899999999999988765532 1222433333221
Q ss_pred HH-----HHHhcCCCCChhhHHHHHHHHH
Q 018467 200 IK-----EIRRRDPSFSLPDFVSEVQEAI 223 (355)
Q Consensus 200 l~-----eIk~~DP~Fd~~~Fl~~ar~~y 223 (355)
++ .|...--.+|++-....|-++-
T Consensus 324 ~ee~IiPnVLeAyvkGD~evLK~wcsea~ 352 (459)
T KOG2580|consen 324 CEEYIIPNVLEAYVKGDLEVLKKWCSEAP 352 (459)
T ss_pred HHHhhhHHHHHHHHhccHHHHHHHHhhhH
Confidence 11 1333334667777777774443
No 10
>PF12893 Lumazine_bd_2: Putative lumazine-binding; PDB: 3BLZ_C 3DUK_F 3FKA_C.
Probab=88.74 E-value=6.2 Score=32.59 Aligned_cols=92 Identities=16% Similarity=0.237 Sum_probs=58.8
Q ss_pred HHHHHHHHHHHHHHcCCHHHHHhhcCHHH--------------HHHHHHHHHHH---HhCCCcccceEEEecceeEEEEE
Q 018467 218 EVQEAIRPVLSAYMKGDVETLKKYCSPEV--------------IERCKAEHTAY---QSHGIFFDNRILHVSEVEVRETK 280 (355)
Q Consensus 218 ~ar~~y~pIleAy~~GDle~Lk~~cse~~--------------y~~~~a~I~~r---~~~G~~~d~kIL~I~~veIv~ak 280 (355)
..+..+..-.+++..||.+.|+..++|++ ...|.+-++.+ ...+.....+|+ .+.
T Consensus 5 ~I~~~v~~Y~dg~~~gD~~~l~~~f~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~i~--------~i~ 76 (116)
T PF12893_consen 5 AIEATVQDYFDGLYNGDSEKLRSAFHPDARLQGVRKGKLRTMPIEEFIARVKSRVSPKPPGQERKESIL--------SID 76 (116)
T ss_dssp HHHHHHHHHHHHHHHT-HHHHGGGEEEEEEEEEEETTEEEEEETHHHHHHHHHC---H-SSTT-EEEEE--------EEE
T ss_pred HHHHHHHHHHHHHHhcCHHHHHHhhCCCcEEEEEcCCceEEeCHHHHHHHHHhhccccCCCCCceeEEE--------EEE
Confidence 34455555678888999999999998876 46677777766 333433333333 334
Q ss_pred EeCCeeEEEEEEEEeEEEEEEcCCCCeecCCCCceeeEEEEEEEEEecccccCCCCCCCCeEEeee
Q 018467 281 MMGSSPIIIVAFQTQQIYCVRDKHGTITEGGKDTIQTVYYAWAMQQVDAEELGEDVLYPIWKLREM 346 (355)
Q Consensus 281 ~~~~~pvitVrF~aQqI~~vRDk~GeVVeGd~d~I~~v~yvW~f~r~~~eel~~~~~~~~WrL~ei 346 (355)
+.++.+.+.|.+.-- + ....++++|-+. +..|+|+.-
T Consensus 77 i~g~~A~a~v~~~~~------~-------------~~~~d~~~L~K~----------dg~WkIv~k 113 (116)
T PF12893_consen 77 IDGDVASAKVEYEFP------G-------------FWFVDYFTLVKT----------DGGWKIVSK 113 (116)
T ss_dssp EETTEEEEEEEEEEE------T-------------EEEEEEEEEEEE----------TTEEEEEEE
T ss_pred EECCEEEEEEEEEEC------C-------------CceEEEEEEEEE----------CCEEEEEEE
Confidence 457777777776542 1 156788999664 368999863
No 11
>PF13474 SnoaL_3: SnoaL-like domain; PDB: 2GXF_A 3KSP_A 3KE7_A 3BB9_E 3CNX_A 3F7S_A 3GWR_B.
Probab=87.91 E-value=12 Score=29.77 Aligned_cols=102 Identities=15% Similarity=0.225 Sum_probs=57.2
Q ss_pred HHHHHHHHHHHHcCCHHHHHhhcCHHH-------------HHHHHHHHHHHHhCCCcccceEEEecceeEEEEEEeCCee
Q 018467 220 QEAIRPVLSAYMKGDVETLKKYCSPEV-------------IERCKAEHTAYQSHGIFFDNRILHVSEVEVRETKMMGSSP 286 (355)
Q Consensus 220 r~~y~pIleAy~~GDle~Lk~~cse~~-------------y~~~~a~I~~r~~~G~~~d~kIL~I~~veIv~ak~~~~~p 286 (355)
+..+....+||.+||.+.|..++++++ ++.+.+-.+..-... ..--+.+.++.+ ...++..
T Consensus 2 ~~~~~~~~~a~~~~D~~~~~~~~~~d~~~~~~~~~~~~~g~~~~~~~~~~~~~~~---~~~~~~~~~~~v---~~~~~~a 75 (121)
T PF13474_consen 2 EALLEEWIEAFERGDIDALLSLFSDDFVFFGTGPGEIWRGREAIRAYFERDFESF---RPISIEFEDVQV---SVSGDVA 75 (121)
T ss_dssp HHHHHHHHHHHHCT-HHHHHHHEEEEEEEEETTSSSEEESHHHHHHHHHHHHHTH---SEEEEEEEEEEE---EEETTEE
T ss_pred HHHHHHHHHHHHhCCHHHHHHhhCCCEEEEcCCCCceECCHHHHHHHHHHHhhhC---ceEEEEEEEEEE---EECCCEE
Confidence 345666889999999999998887542 344444444433322 112222333344 2345666
Q ss_pred EEEEEEEEeEEEEEEcCCCCeecCCCCceeeEEEEEEEEEecccccCCCCCCCCeEEeeeec
Q 018467 287 IIIVAFQTQQIYCVRDKHGTITEGGKDTIQTVYYAWAMQQVDAEELGEDVLYPIWKLREMQQ 348 (355)
Q Consensus 287 vitVrF~aQqI~~vRDk~GeVVeGd~d~I~~v~yvW~f~r~~~eel~~~~~~~~WrL~eiqq 348 (355)
+++..+..+ .+ .+|+-. .....-.++|++. +..|+++-++.
T Consensus 76 ~~~~~~~~~----~~-~~~~~~------~~~~r~t~v~~k~----------~~~Wki~h~H~ 116 (121)
T PF13474_consen 76 VVTGEFRLR----FR-NDGEEI------EMRGRATFVFRKE----------DGGWKIVHIHW 116 (121)
T ss_dssp EEEEEEEEE----EE-CTTCEE------EEEEEEEEEEEEE----------TTEEEEEEEEE
T ss_pred EEEEEEEEE----Ee-cCCccc------eeeEEEEEEEEEE----------CCEEEEEEEEe
Confidence 666655443 23 333322 3455666777654 35899998765
No 12
>PF08332 CaMKII_AD: Calcium/calmodulin dependent protein kinase II Association; InterPro: IPR013543 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases. Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. This domain is found at the C terminus of the Calcium/calmodulin dependent protein kinases II (CaMKII). These proteins also have a Ser/Thr protein kinase domain (IPR000719 from INTERPRO) at their N terminus []. The function of the CaMKII association domain is the assembly of the single proteins into large (8 to 14 subunits) multimers [] and is a prominent kinase in the central nervous system that may function in long-term potentiation and neurotransmitter release. ; GO: 0004683 calmodulin-dependent protein kinase activity, 0005516 calmodulin binding, 0006468 protein phosphorylation; PDB: 2W2C_F 3H51_B 3SOA_A 2UX0_A 1HKX_M 2F86_B.
Probab=84.76 E-value=20 Score=31.23 Aligned_cols=109 Identities=20% Similarity=0.205 Sum_probs=59.6
Q ss_pred HHHHHHHHHHHHHHcCCHHHHHhhcCHHH------H-HHH---HHHHHHHHh-----CCCcccceEEEecceeEEEEEEe
Q 018467 218 EVQEAIRPVLSAYMKGDVETLKKYCSPEV------I-ERC---KAEHTAYQS-----HGIFFDNRILHVSEVEVRETKMM 282 (355)
Q Consensus 218 ~ar~~y~pIleAy~~GDle~Lk~~cse~~------y-~~~---~a~I~~r~~-----~G~~~d~kIL~I~~veIv~ak~~ 282 (355)
+.-..+...++|...||.+....+|++++ . +.+ ...++-+=. .+....+.|+. +.|.++ -
T Consensus 4 eI~~l~~~w~~ai~tgD~~~~~~ly~~d~av~~Pt~s~~~~~g~~~~~~YF~~~l~~~~~~~~~tI~~-p~V~~l----g 78 (128)
T PF08332_consen 4 EIAALFDRWNDAIQTGDPETYAKLYAPDVAVFEPTVSNQLREGLEFHKFYFDHFLAKKPQGVNTTILN-PHVRLL----G 78 (128)
T ss_dssp HHHHHHHHHHHHHHHT-HHHHHHHEEEEEEEEEGGGTTSEEESCHHHHHHHHHTGTTTSSCEEEEEEE-EEEEEE----S
T ss_pred HHHHHHHHHHHHHHcCCHHHHhhhcCCCeeEeccccCCceecChHHHHHHHhcccccCCCceeeEecC-CeEEEc----C
Confidence 45567788999999999999999999981 1 111 011221212 11111222332 233332 1
Q ss_pred CCeeEEEEEEEEeEEEEEEcCCCCeecCCCCceeeEEEEEEEEEecccccCCCCCCCCeEEeeeecccc
Q 018467 283 GSSPIIIVAFQTQQIYCVRDKHGTITEGGKDTIQTVYYAWAMQQVDAEELGEDVLYPIWKLREMQQLGV 351 (355)
Q Consensus 283 ~~~pvitVrF~aQqI~~vRDk~GeVVeGd~d~I~~v~yvW~f~r~~~eel~~~~~~~~WrL~eiqq~g~ 351 (355)
++.++++=....| +-|++|.... .+..|..+.++. +..|+++...+.+|
T Consensus 79 ~~~Ai~~gvy~f~----~~d~~G~~~~------~~areT~v~~~~----------~g~W~ivhhHsS~m 127 (128)
T PF08332_consen 79 DNAAIDAGVYTFQ----FVDKDGVPRT------VQARETRVWQKR----------DGKWKIVHHHSSAM 127 (128)
T ss_dssp TTEEEEEEEEEEE----EESTTSSEEE------EEEEEEEEEEEE----------TTEEEEEEEEEEES
T ss_pred CCEEEEeeEEEEE----eecCCCCeee------EEEeEEEEEEEe----------CCeEEEEEEecCCC
Confidence 3477777666666 5666663211 233444444443 25799999988765
No 13
>PF14534 DUF4440: Domain of unknown function (DUF4440); PDB: 3HX8_A 3SOY_A 3ROB_B 3GZR_A 3B7C_A 3CU3_A 3FSD_A 2R4I_C 1TP6_A.
Probab=81.30 E-value=12 Score=28.93 Aligned_cols=69 Identities=14% Similarity=0.186 Sum_probs=41.4
Q ss_pred HHHHHHHHHHHcCCHHHHHhhcCHHHH--------HHHHHHHHHHHhCCCcccceEEEecceeEEEEEEeCCeeEEEEEE
Q 018467 221 EAIRPVLSAYMKGDVETLKKYCSPEVI--------ERCKAEHTAYQSHGIFFDNRILHVSEVEVRETKMMGSSPIIIVAF 292 (355)
Q Consensus 221 ~~y~pIleAy~~GDle~Lk~~cse~~y--------~~~~a~I~~r~~~G~~~d~kIL~I~~veIv~ak~~~~~pvitVrF 292 (355)
..+....+||.++|.+.|..+++|++. -...+.++.+.... ....-+.+ +...+...++.++++.++
T Consensus 3 a~~~~~~~A~~~~D~~~~~~~~~~d~~~~~~~g~~~~~~~~l~~~~~~~--~~~~~~~~---~~~~v~~~gd~a~~~~~~ 77 (107)
T PF14534_consen 3 ALEEQYEDAFNAGDIDALASLYADDFVFVGPGGTILGKEAILAAFKSGF--ARFSSIKF---EDVEVRVLGDTAVVRGRW 77 (107)
T ss_dssp HHHHHHHHHHHTTHHHHHHTTEEEEEEEEETTSEEEEHHHHHHHHHHHC--EEEEEEEE---EEEEEEEETTEEEEEEEE
T ss_pred HHHHHHHHHHHhCCHHHHHhhhCCCEEEECCCCCEeCHHHHHHHHhhcc--CCCceEEE---EEEEEEEECCEEEEEEEE
Confidence 455668899999999999998887641 12344455554422 12222333 334455667877776665
Q ss_pred EE
Q 018467 293 QT 294 (355)
Q Consensus 293 ~a 294 (355)
..
T Consensus 78 ~~ 79 (107)
T PF14534_consen 78 TF 79 (107)
T ss_dssp EE
T ss_pred EE
Confidence 44
No 14
>PF12883 DUF3828: Protein of unknown function (DUF3828); InterPro: IPR024289 This domain currently has no known function.; PDB: 3KZT_A.
Probab=77.25 E-value=15 Score=31.17 Aligned_cols=84 Identities=21% Similarity=0.344 Sum_probs=51.8
Q ss_pred HHHHhhcCHHHHHHHHHHHHH-HHhCCC--cccceEE---EecceeEEEEEEeCCeeEEEEEEEEeEEEEEEcCCCCeec
Q 018467 236 ETLKKYCSPEVIERCKAEHTA-YQSHGI--FFDNRIL---HVSEVEVRETKMMGSSPIIIVAFQTQQIYCVRDKHGTITE 309 (355)
Q Consensus 236 e~Lk~~cse~~y~~~~a~I~~-r~~~G~--~~d~kIL---~I~~veIv~ak~~~~~pvitVrF~aQqI~~vRDk~GeVVe 309 (355)
+.+++||++++.+.+....+. ..-.+. ++...-. -+.++.|..+.+.++.+.+.|+|
T Consensus 28 ~~~~~yvsk~~~~~l~~~~~~~~~~~D~D~f~~aQD~~~~w~~~i~v~~~~~~~~~a~v~v~~----------------- 90 (120)
T PF12883_consen 28 ELMERYVSKETIAKLKKIYQLEQGILDFDYFIKAQDYDPDWVSNIKVGPAKMDGDCAVVYVTF----------------- 90 (120)
T ss_dssp HHHHHHB-HHHHHHHHHHH----HHSSSBTTTTBSS--TTSGGG-EEEEEETTEEEEEEEETT-----------------
T ss_pred HHHHHHHHHHHHHHHHhhhhcccCCcCCCCceecccCChhhHhhEEEeeccccCCeEEEEEEE-----------------
Confidence 368999999999999987763 222221 1122221 15788888888878888888888
Q ss_pred CCCCceeeEEEEEEEEEecccccCCCCCCCCeEEeeee
Q 018467 310 GGKDTIQTVYYAWAMQQVDAEELGEDVLYPIWKLREMQ 347 (355)
Q Consensus 310 Gd~d~I~~v~yvW~f~r~~~eel~~~~~~~~WrL~eiq 347 (355)
|. ..-......+.|.+. ++.|+|..|.
T Consensus 91 G~-~~~~~~~~~~~l~ke----------~g~WkI~~V~ 117 (120)
T PF12883_consen 91 GK-NNEKKQTVIVCLVKE----------NGRWKIDDVR 117 (120)
T ss_dssp TS-TT-EEEEEEEEEEEE----------TTEEEEEEES
T ss_pred ec-CCCCCEEEEEEEEEE----------CCEEEEEEee
Confidence 22 112355666677553 4789999875
No 15
>TIGR02246 conserved hypothetical protein. This family consists of uncharacterized proteins found in a number of genera and species, including Streptomyces, Xanthomonas, Oceanobacillus iheyensis, Caulobacter crescentus CB15, and Xylella fastidiosa. The function is unknown.
Probab=53.43 E-value=1.2e+02 Score=24.37 Aligned_cols=29 Identities=17% Similarity=0.355 Sum_probs=22.2
Q ss_pred HHHHHHHHHHHHHHcCCHHHHHhhcCHHH
Q 018467 218 EVQEAIRPVLSAYMKGDVETLKKYCSPEV 246 (355)
Q Consensus 218 ~ar~~y~pIleAy~~GDle~Lk~~cse~~ 246 (355)
..++.+....+||.+||.+.|..++++++
T Consensus 5 ~i~~l~~~~~~a~~~~D~~~~~~~~~~Da 33 (128)
T TIGR02246 5 AIRALVATWEAAWAAGDAEGFADLFTPDG 33 (128)
T ss_pred HHHHHHHHHHHHHHcCCHHHHHHhhCCCc
Confidence 34555666789999999999988777663
No 16
>PRK09635 sigI RNA polymerase sigma factor SigI; Provisional
Probab=48.63 E-value=34 Score=33.33 Aligned_cols=50 Identities=22% Similarity=0.293 Sum_probs=38.2
Q ss_pred HHHHHHHHHhcCCCCChhhHHHHHHHHHHHHHHHHHcCCHHHHHhhcCHHHH
Q 018467 196 AAASIKEIRRRDPSFSLPDFVSEVQEAIRPVLSAYMKGDVETLKKYCSPEVI 247 (355)
Q Consensus 196 ~a~al~eIk~~DP~Fd~~~Fl~~ar~~y~pIleAy~~GDle~Lk~~cse~~y 247 (355)
..++.+.++...|.|... -..-++.....+.|+..||++.|..++++++-
T Consensus 155 l~RAr~~Lr~~~~~~~~~--~~~~~~~~~~f~~a~~~gd~~~l~~ll~~d~~ 204 (290)
T PRK09635 155 AHRARRKINESRIAASVE--PAQHRVVTRAFIEACSNGDLDTLLEVLDPGVA 204 (290)
T ss_pred HHHHHHHHHhhCCCCCCC--hHHHHHHHHHHHHHHHhCCHHHHHHHhhhhhc
Confidence 457888888888877643 22334455559999999999999999999883
No 17
>PRK10533 putative lipoprotein; Provisional
Probab=41.15 E-value=1e+02 Score=28.31 Aligned_cols=63 Identities=14% Similarity=0.151 Sum_probs=43.0
Q ss_pred HHHHHHH-HHHHHHcCCHHHHHhhcCHHHHHHHHHHHHHHHh----CCCcccceEEEecceeEEEEEEeC
Q 018467 219 VQEAIRP-VLSAYMKGDVETLKKYCSPEVIERCKAEHTAYQS----HGIFFDNRILHVSEVEVRETKMMG 283 (355)
Q Consensus 219 ar~~y~p-IleAy~~GDle~Lk~~cse~~y~~~~a~I~~r~~----~G~~~d~kIL~I~~veIv~ak~~~ 283 (355)
|++.|-. |+. ...++..||+|++..+|..|....+.... .|-.+.+..-+-..++|..+....
T Consensus 45 aqqfyd~riq~--d~~~la~lRPyLSd~Ly~~L~~A~r~~~~~~~~~GDiFSS~~eG~TsA~VasastIP 112 (171)
T PRK10533 45 AQQFYDYRIQH--RSNDIAALRPYLSDKLATLLSDASRDNSHRQLLSGDPFSSRTTLPDSAHVASASTIP 112 (171)
T ss_pred HHHHHHHHhcc--chhhHHHhcccccHHHHHHHHHHhhccccCCcccCCcccccccCCccceecccccCC
Confidence 4445544 666 77889999999999999999988876533 233334444555667777775443
No 18
>TIGR02957 SigX4 RNA polymerase sigma-70 factor, TIGR02957 family. This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building and bidirectional best hits, to represent a conserved family. This family is found in a limited number of bacterial lineages. This family includes apparent paralogous expansion in Streptomyces coelicolor A3(2), and multiple copies in Mycobacterium smegmatis MC2, Streptomyces avermitilis MA-4680 and Nocardia farcinica IFM10152.
Probab=39.45 E-value=53 Score=31.55 Aligned_cols=49 Identities=18% Similarity=0.375 Sum_probs=37.1
Q ss_pred HHHHHHHHHhcCCCCChhhHHHHHHHHHHHHHHHHHcCCHHHHHhhcCHHH
Q 018467 196 AAASIKEIRRRDPSFSLPDFVSEVQEAIRPVLSAYMKGDVETLKKYCSPEV 246 (355)
Q Consensus 196 ~a~al~eIk~~DP~Fd~~~Fl~~ar~~y~pIleAy~~GDle~Lk~~cse~~ 246 (355)
..++.+.|+..-|.|... -...+......+.|+..||++.|..++++++
T Consensus 145 l~RAr~~Lr~~~~~~~~~--~~~~~~~~~~f~~a~~~gD~~~l~~lL~~dv 193 (281)
T TIGR02957 145 VSRARRHLDARRPRFEVS--REESRQLLERFVEAAQTGDLDGLLELLAEDV 193 (281)
T ss_pred HHHHHHHHHhhCCCCCCC--hHHHHHHHHHHHHHHHhCCHHHHHHHHhhce
Confidence 467888888877766543 2334455556999999999999999999987
No 19
>PF13577 SnoaL_4: SnoaL-like domain; PDB: 3S5C_B 3EJV_A 2RFR_A 3B8L_F 2CHC_A 3A76_A 3EF8_B.
Probab=39.16 E-value=53 Score=26.37 Aligned_cols=104 Identities=13% Similarity=0.073 Sum_probs=52.7
Q ss_pred HHHHHHHHHHHHHcCCHHHHHhhcCHHH--------------HHHHHHHHHHHHhCCCcccceEEEecceeEEEEEEeCC
Q 018467 219 VQEAIRPVLSAYMKGDVETLKKYCSPEV--------------IERCKAEHTAYQSHGIFFDNRILHVSEVEVRETKMMGS 284 (355)
Q Consensus 219 ar~~y~pIleAy~~GDle~Lk~~cse~~--------------y~~~~a~I~~r~~~G~~~d~kIL~I~~veIv~ak~~~~ 284 (355)
+++.+-....++..+|.+.+..+++++. ...+...+..+.... . ...+.-..-++. +.++
T Consensus 9 I~~l~~~~~~~~D~~~~~~~~~lft~d~~~~~~~~~~~~~~G~~~i~~~~~~~~~~~---~-~~~H~~~~~~v~--~dgd 82 (127)
T PF13577_consen 9 IRDLIARYARALDTGDWEEWADLFTEDAVFDFPGFGFGRYRGRDAIRAFLRARFDGF---A-ATRHMVTNPVVD--VDGD 82 (127)
T ss_dssp HHHHHHHHHHHHHTT-HHHHHTTEEEEEEEEETTTCEEEEESHHHHHHHHHHHHHHE---E-EEEEEEEEEEEE--EETT
T ss_pred HHHHHHHHHHHhhCCCHHHHHhccCCcEEEEEeCccccccCCHHHHHHHHHHhcccc---c-ceeEEccceEEE--EcCC
Confidence 4445555678889999999988775432 223333333332211 1 222222222333 2555
Q ss_pred eeEEEEEEEEeEEEEEEcCCCCeecCCCCceeeEEEEEEEEEecccccCCCCCCCCeEEeee
Q 018467 285 SPIIIVAFQTQQIYCVRDKHGTITEGGKDTIQTVYYAWAMQQVDAEELGEDVLYPIWKLREM 346 (355)
Q Consensus 285 ~pvitVrF~aQqI~~vRDk~GeVVeGd~d~I~~v~yvW~f~r~~~eel~~~~~~~~WrL~ei 346 (355)
.+.++..+ ........ .| .+.-..-..|.+.|.|. +..|++..+
T Consensus 83 ~A~~~~~~--~~~~~~~~-~g-----~~~~~~~g~y~~~~~r~----------~g~W~i~~~ 126 (127)
T PF13577_consen 83 TATVRSYV--LATHRDPD-DG-----EPALWSGGRYTDELVRE----------DGGWRISSR 126 (127)
T ss_dssp EEEEEEEE--EEEEEEET-TT-----EEEEEEEEEEEEEEEEE----------TTEEEEEEE
T ss_pred EEEEEEEE--EEEEEEcC-CC-----ceEEEEEEEEEEEEEEE----------CCEEEEEEE
Confidence 54444443 33333333 22 23333457888888764 356999875
No 20
>COG4319 Ketosteroid isomerase homolog [Function unknown]
Probab=37.68 E-value=3e+02 Score=24.52 Aligned_cols=100 Identities=15% Similarity=0.132 Sum_probs=57.4
Q ss_pred HHHHHHHHHHHHHcCCHHHHHh---------------hcCHHHHHHHHHHHHHHHhCCCcccceEEEecceeEEEEEEeC
Q 018467 219 VQEAIRPVLSAYMKGDVETLKK---------------YCSPEVIERCKAEHTAYQSHGIFFDNRILHVSEVEVRETKMMG 283 (355)
Q Consensus 219 ar~~y~pIleAy~~GDle~Lk~---------------~cse~~y~~~~a~I~~r~~~G~~~d~kIL~I~~veIv~ak~~~ 283 (355)
.+.+|.+-..|+..+|.+.+-. .|+.+.|...-..+...-..++.+... ++.|. ..+
T Consensus 12 I~a~i~dw~~Av~a~D~~av~~~YtdDav~f~~~~~~~~Gk~~i~k~~~~~~~~~~~~~~f~~~-----el~v~---~~G 83 (137)
T COG4319 12 IRAAIADWAAAVRAKDADAVADFYTDDAVVFPPPGLQRKGKAAIRKAFEGIFAMGIGPLKFTLE-----ELQVH---ESG 83 (137)
T ss_pred HHHHHHHHHHHHhcccHHHHHHhcCCceEEecCCCCcccCHHHHHHHHHHHHHhccCCCcceee-----eeeee---ccC
Confidence 4455555567999999999873 456667777777666655544433222 22222 235
Q ss_pred CeeEEEEEEEEeEEEEEEcCCCCeecCCCCceeeEEEEEEEEEecccccCCCCCCCCeEEee
Q 018467 284 SSPIIIVAFQTQQIYCVRDKHGTITEGGKDTIQTVYYAWAMQQVDAEELGEDVLYPIWKLRE 345 (355)
Q Consensus 284 ~~pvitVrF~aQqI~~vRDk~GeVVeGd~d~I~~v~yvW~f~r~~~eel~~~~~~~~WrL~e 345 (355)
+.+.++=.+... .+.+ |++..-..-...|+|++.. +.+|+|+-
T Consensus 84 D~a~~~~~~~~~----~~~~------dg~~~~~~~Rat~v~rK~~---------dg~Wk~~~ 126 (137)
T COG4319 84 DVAFVTALLLLT----GTKK------DGPPADLAGRATYVFRKEA---------DGGWKLAH 126 (137)
T ss_pred CEEEEEEeeeee----ccCC------CCcchhheeeeEEEEEEcC---------CCCEEEEE
Confidence 555555444332 1112 3344446678888997631 46899963
No 21
>PF08898 DUF1843: Domain of unknown function (DUF1843); InterPro: IPR014994 This domain is found in functionally uncharacterised proteins. It can be found independently or at the C terminus of the protein.
Probab=33.68 E-value=90 Score=23.43 Aligned_cols=21 Identities=19% Similarity=0.338 Sum_probs=17.9
Q ss_pred HHHHHHHHcCCHHHHHhhcCH
Q 018467 224 RPVLSAYMKGDVETLKKYCSP 244 (355)
Q Consensus 224 ~pIleAy~~GDle~Lk~~cse 244 (355)
++|+.|...||+..+|.+...
T Consensus 5 vaiq~AiasGDLa~MK~l~~~ 25 (53)
T PF08898_consen 5 VAIQQAIASGDLAQMKALAAQ 25 (53)
T ss_pred HHHHHHHHcCcHHHHHHHHHH
Confidence 459999999999999987654
No 22
>PF05223 MecA_N: NTF2-like N-terminal transpeptidase domain; InterPro: IPR007887 The multiple antibiotic resistance of methicillin-resistant strains of Staphylococcus aureus (MRSA) has become a major clinical problem worldwide. Methicillin resistance in MRSA strains is due to the acquisition of the mecA gene via horizontal transfer from an unidentified species which encodes penicillin-binding protein 2a (PBP2a). The structure of the N-terminal domain from MecA is known [] Q53707 from SWISSPROT and is found to be similar to that found in NTF2 IPR002075 from INTERPRO. The length of the PBP2A N-terminal domain (which positions the transpeptidase active site more than 100A from the expected C terminus of the transmembrane anchor) suggests a possible structural role and potentially gives the transpeptidase domain substantial reach from the cell membrane. This domain seems unlikely to have an enzymatic function.; GO: 0046677 response to antibiotic; PDB: 1MWS_B 1MWT_B 1MWR_A 1MWU_A 1VQQ_A.
Probab=33.56 E-value=2.8e+02 Score=23.00 Aligned_cols=28 Identities=25% Similarity=0.337 Sum_probs=21.3
Q ss_pred HHHHHHHHHHHHHcCCHHHHHhhcCHHH
Q 018467 219 VQEAIRPVLSAYMKGDVETLKKYCSPEV 246 (355)
Q Consensus 219 ar~~y~pIleAy~~GDle~Lk~~cse~~ 246 (355)
.+..+...+.||.+||.+..-.+++...
T Consensus 3 p~~~~~~f~~aw~~~dy~~m~~~~~~~~ 30 (118)
T PF05223_consen 3 PEETAEAFLEAWEKGDYAAMYELTSDPS 30 (118)
T ss_dssp --HHHHHHHHHHHTT-HHHHHHTB-HHH
T ss_pred HHHHHHHHHHHHHcCCHHHHHHhhchhh
Confidence 4566677899999999999999999888
No 23
>TIGR01567 S_layer_rel_Mac S-layer-related duplication domain. Members of the family show regions of local similarity to known archaeal S-layer proteins as in the family described by model TIGR01564.
Probab=32.22 E-value=2.7e+02 Score=27.31 Aligned_cols=80 Identities=19% Similarity=0.201 Sum_probs=50.4
Q ss_pred hCCCcccceEEEecc----eeEEEEEEe--CCeeEEEEEEEEeEEEEEEcCCCCeecCCCCceeeEEEEEEEEEeccccc
Q 018467 259 SHGIFFDNRILHVSE----VEVRETKMM--GSSPIIIVAFQTQQIYCVRDKHGTITEGGKDTIQTVYYAWAMQQVDAEEL 332 (355)
Q Consensus 259 ~~G~~~d~kIL~I~~----veIv~ak~~--~~~pvitVrF~aQqI~~vRDk~GeVVeGd~d~I~~v~yvW~f~r~~~eel 332 (355)
+.|..++..||.... .-.-.+.+. ++.|++.|.+ ++|-.|..+.+..+.++|.+....+-++
T Consensus 131 KdG~~Vdd~ivs~~~~~~~~~~~~~~~~~~~dv~i~~vhv------------~~vf~g~~~s~v~i~gi~~is~d~~~~I 198 (256)
T TIGR01567 131 KDGEEVDSEIISVSTVDDDDFTYTADLGDEEDVPIFIVYV------------DSVFEGEEDSAVFLKGLLLIDKDEPLEI 198 (256)
T ss_pred eCCcEeeeeEEccCcccCCceEEEeecCCCCCEEEEEEEE------------eeeeccCccceEEEEEEEEEcCCCceEe
Confidence 357777777777733 222232222 3466666665 2477888899999999999965555555
Q ss_pred CCCCCCCCeEEeeeeccc
Q 018467 333 GEDVLYPIWKLREMQQLG 350 (355)
Q Consensus 333 ~~~~~~~~WrL~eiqq~g 350 (355)
+.+.....-.+.++.-.+
T Consensus 199 ~~GDefG~~ev~~is~~~ 216 (256)
T TIGR01567 199 ENGDEFGEMEVVETSESG 216 (256)
T ss_pred ecCCCcCcEEEEEecCCc
Confidence 444445667777665543
No 24
>PRK08241 RNA polymerase factor sigma-70; Validated
Probab=31.48 E-value=56 Score=31.92 Aligned_cols=52 Identities=15% Similarity=0.151 Sum_probs=38.7
Q ss_pred hHHHHHHHHHhcCCCCC---hhhHHHHHHHHHHHHHHHHHcCCHHHHHhhcCHHH
Q 018467 195 DAAASIKEIRRRDPSFS---LPDFVSEVQEAIRPVLSAYMKGDVETLKKYCSPEV 246 (355)
Q Consensus 195 e~a~al~eIk~~DP~Fd---~~~Fl~~ar~~y~pIleAy~~GDle~Lk~~cse~~ 246 (355)
-..++.+.|++..|.+. ...+...-++......+||.+||++.|..+++|++
T Consensus 189 ~l~RAr~~Lr~~~~~~~~~~~~~~~~~~~~~v~~~~~A~~~gD~~~l~~lla~Dv 243 (339)
T PRK08241 189 ALQRARATLAERGPSAADTLREPDDPEERALLARYVAAFEAYDVDALVALLTEDA 243 (339)
T ss_pred HHHHHHHHHhhcCCCcccccCCCCChHHHHHHHHHHHHHhcCCHHHHHHHhcCCE
Confidence 35678889998666421 12355566666677899999999999999999876
No 25
>PF13026 DUF3887: Protein of unknown function (DUF3887)
Probab=29.40 E-value=2.7e+02 Score=23.38 Aligned_cols=38 Identities=11% Similarity=0.154 Sum_probs=29.5
Q ss_pred CChhhHHHHHHHHHHHHHHHHHcCCHHHHHhhcCHHHHHHHH
Q 018467 210 FSLPDFVSEVQEAIRPVLSAYMKGDVETLKKYCSPEVIERCK 251 (355)
Q Consensus 210 Fd~~~Fl~~ar~~y~pIleAy~~GDle~Lk~~cse~~y~~~~ 251 (355)
|+.+.....|++.+..+. .+|.+.+..-|++.|=+.|.
T Consensus 2 f~~Ekv~~~Aeevi~~~N----~~dy~~v~~~~d~~mk~aL~ 39 (101)
T PF13026_consen 2 FDEEKVKQKAEEVIDLLN----EKDYDKVHEKYDEKMKNALT 39 (101)
T ss_pred CcHHHHHHHHHHHHHHHh----HhhHHHHHHHHhHHHHHhcC
Confidence 788888888887665554 48888888888888777776
No 26
>cd00781 ketosteroid_isomerase ketosteroid isomerase: Many biological reactions proceed by enzymatic cleavage of a C-H bond adjacent to carbonyl or a carboxyl group, leading to an enol or a enolate intermediate that is subsequently re-protonated at the same or an adjacent carbon. Ketosteroid isomerases are important members of this class of enzymes which are the most proficient of all enzymes known and have served as a paradigm for enzymatic enolizations since its discovery in 1954. This CD includes members of this class that calalyze the isomerization of various beta,gamma-unsaturated isomers at nearly a diffusion-controlled rate. These enzymes are widely distributed in bacteria.
Probab=29.15 E-value=56 Score=26.35 Aligned_cols=29 Identities=17% Similarity=0.269 Sum_probs=23.7
Q ss_pred HHHHHHHHHHHHHcCCHHHHHhhcCHHHH
Q 018467 219 VQEAIRPVLSAYMKGDVETLKKYCSPEVI 247 (355)
Q Consensus 219 ar~~y~pIleAy~~GDle~Lk~~cse~~y 247 (355)
.+..+....+||.+||++.|..++++++.
T Consensus 5 ~~~~v~~~~~a~~~~D~~~~~~l~aed~~ 33 (122)
T cd00781 5 MKAAVQRYVEAVNAGDPEGIVALFADDAT 33 (122)
T ss_pred HHHHHHHHHHHHHCCCHHHHHHHcCCCeE
Confidence 45555568899999999999998888765
No 27
>PRK09636 RNA polymerase sigma factor SigJ; Provisional
Probab=27.73 E-value=91 Score=29.98 Aligned_cols=49 Identities=27% Similarity=0.447 Sum_probs=36.4
Q ss_pred HHHHHHHHHhcCCCCChhhHHHHHHHHHHHHHHHHHcCCHHHHHhhcCHHH
Q 018467 196 AAASIKEIRRRDPSFSLPDFVSEVQEAIRPVLSAYMKGDVETLKKYCSPEV 246 (355)
Q Consensus 196 ~a~al~eIk~~DP~Fd~~~Fl~~ar~~y~pIleAy~~GDle~Lk~~cse~~ 246 (355)
..++.+.+++.-|.+.. .....++.....+.||.+||.+.|..+++|++
T Consensus 152 l~RAr~~Lr~~~~~~~~--~~~~~~~~v~~f~~A~~~gD~~~l~~Lla~Dv 200 (293)
T PRK09636 152 ASRARKHVRAARPRFPV--SDEEGAELVEAFFAALASGDLDALVALLAPDV 200 (293)
T ss_pred HHHHHHHHHhhCCCCCC--CchHHHHHHHHHHHHHHhCCHHHHHHHHhhCe
Confidence 46788888887776532 22334555556999999999999999888876
No 28
>PF12642 TpcC: Conjugative transposon protein TcpC; InterPro: IPR024735 This family of bacterial proteins are annotated as conjugative transposon protein TcpC. The transfer clostridial plasmid (tcp) locus is part of some conjugative antibiotic resistance and virulence plasmids. TcpC was one of five genes whose products had low-level sequence identity to Tn916 proteins, having similarity to ORF13 homologues from Tn916, Tn5397, and CW459tet [].; PDB: 3UB1_A.
Probab=22.37 E-value=6.1e+02 Score=23.24 Aligned_cols=30 Identities=23% Similarity=0.516 Sum_probs=20.9
Q ss_pred HHHHHHHHHHHHHHHcCCHHHHHhhcCHHH
Q 018467 217 SEVQEAIRPVLSAYMKGDVETLKKYCSPEV 246 (355)
Q Consensus 217 ~~ar~~y~pIleAy~~GDle~Lk~~cse~~ 246 (355)
..+.......+.||..|+.+.|.-|+.+..
T Consensus 140 ~~i~~fl~~Ff~aY~t~~~~~L~~y~~~~~ 169 (232)
T PF12642_consen 140 KPIEEFLEQFFKAYLTGNQGDLSYYMKPGA 169 (232)
T ss_dssp HHHHHHHHHHHHHHHHS-HHHHHTTB-TT-
T ss_pred HHHHHHHHHHHHHHHcCCHHHHHHHhcCCc
Confidence 344444445899999999999999999765
No 29
>PF11454 DUF3016: Protein of unknown function (DUF3016); InterPro: IPR021557 This is a bacterial family of uncharacterised proteins.
Probab=22.33 E-value=3.2e+02 Score=24.29 Aligned_cols=75 Identities=12% Similarity=0.288 Sum_probs=41.8
Q ss_pred HHHHHHHHHHHHHHHh----CCCcccceEEEecce---eE------EEEEEeCC--eeEEEEEEEEeEEEEEEcCCCCee
Q 018467 244 PEVIERCKAEHTAYQS----HGIFFDNRILHVSEV---EV------RETKMMGS--SPIIIVAFQTQQIYCVRDKHGTIT 308 (355)
Q Consensus 244 e~~y~~~~a~I~~r~~----~G~~~d~kIL~I~~v---eI------v~ak~~~~--~pvitVrF~aQqI~~vRDk~GeVV 308 (355)
+.+++.|...+....+ .|.+++..|.||+=+ += -+++++-+ -|-|.++| .++|.+|.||
T Consensus 29 ~~~~~~L~~~~~~la~~~Lp~gq~L~v~VtDvDLAG~~~P~~~~~~~dvRvvkdi~pPRI~l~Y------~L~d~~G~vi 102 (141)
T PF11454_consen 29 ERVFAQLTKHFQKLAAKYLPPGQTLEVTVTDVDLAGDVEPFWGSGANDVRVVKDIYPPRIELSY------TLTDADGKVI 102 (141)
T ss_pred HHHHHHHHHHHHHHHHhhCCCCCEEEEEEEecccCcccccCcCCCCCcEEEEccCCCCcEEEEE------EEECCCCcEE
Confidence 3445555555544444 477777666665321 10 12233323 36676666 3778999988
Q ss_pred cCCCCceeeEEEEEEE
Q 018467 309 EGGKDTIQTVYYAWAM 324 (355)
Q Consensus 309 eGd~d~I~~v~yvW~f 324 (355)
.-...++....|....
T Consensus 103 ~~g~e~L~Dm~fl~~~ 118 (141)
T PF11454_consen 103 KQGEEKLKDMGFLMRP 118 (141)
T ss_pred EecceEEecchhhcCC
Confidence 7666666666664443
No 30
>PF08447 PAS_3: PAS fold; InterPro: IPR013655 The PAS fold corresponds to the structural domain that has previously been defined as PAS and PAC motifs []. The PAS fold appears in archaea, eubacteria and eukarya. The PAS domain contains a sensory box, or S-box domain that occupies the central portion of the PAS domain but is more widely distributed. It is often tandemly repeated. Known prosthetic groups bound in the S-box domain include haem in the oxygen sensor FixL [], FAD in the redox potential sensor NifL [], and a 4-hydroxycinnamyl chromophore in photoactive yellow protein []. Proteins containing the domain often contain other regulatory domains such as response regulator or sensor histidine kinase domains. Other S-box proteins include phytochromes and the aryl hydrocarbon receptor nuclear translocator. This domain has been found in the gene product of the madA gene of the filamentous zygomycete fungus Phycomyces blakesleeanus. It has been shown that MadA encodes a blue-light photoreceptor for phototropism and other light responses. The gene is involved in the phototropic responses associated with sporangiophore growth; they exhibit phototropism by bending toward near-UV and blue wavelengths and away from far-UV wavelengths in a manner that is physiologically similar to plant phototropic responses [].; GO: 0005515 protein binding; PDB: 3NJA_D 3H9W_A 3GDI_B 3ICY_A 3EEH_A 3MR0_B.
Probab=21.41 E-value=3.5e+02 Score=20.03 Aligned_cols=64 Identities=17% Similarity=0.198 Sum_probs=39.3
Q ss_pred cCCHHHHHhhcCHHHHHHHHHHHHH-HHhCCCcccceEEEecceeEEEEEEeCCeeEEEEEEEEeEEEEEEcCCCCee
Q 018467 232 KGDVETLKKYCSPEVIERCKAEHTA-YQSHGIFFDNRILHVSEVEVRETKMMGSSPIIIVAFQTQQIYCVRDKHGTIT 308 (355)
Q Consensus 232 ~GDle~Lk~~cse~~y~~~~a~I~~-r~~~G~~~d~kIL~I~~veIv~ak~~~~~pvitVrF~aQqI~~vRDk~GeVV 308 (355)
..+...+..+++|+=...+...+.. ....+.. ..+ ...+. ..++-++-|+.+++ +++|.+|+++
T Consensus 21 ~~~~~~~~~~ihpdD~~~~~~~~~~~~~~~~~~-----~~~-e~R~~----~~~G~~~wi~~~~~---~~~d~~g~~~ 85 (91)
T PF08447_consen 21 KPDFEEWLERIHPDDRERVRQAIQQAALQNGEP-----FEI-EYRIR----RKDGEYRWIEVRGR---PIFDENGKPI 85 (91)
T ss_dssp CBEHHHHHHHB-TTTHHHHHHHHHHHHHHTT-E-----EEE-EEEEE----GTTSTEEEEEEEEE---EEETTTS-EE
T ss_pred cCCHHHHHhhcCHHHHHHHHHHHHHHhhccCcc-----eEE-EEEEE----CCCCCEEEEEEEEE---EEECCCCCEE
Confidence 5778889999999999999999998 4544422 222 22222 23444555555555 4678888654
No 31
>KOG2542 consensus Uncharacterized conserved protein (YdiU family) [Function unknown]
Probab=20.35 E-value=1.9e+02 Score=30.29 Aligned_cols=64 Identities=19% Similarity=0.295 Sum_probs=49.4
Q ss_pred cchhhhhhcc---cccccccChHHHHHHHHHhcCCCCChhhHHHHHHHHHHH-HHHHHHcCCHHHHHhhc
Q 018467 177 NPIVHKIQDM---NETIFQETDAAASIKEIRRRDPSFSLPDFVSEVQEAIRP-VLSAYMKGDVETLKKYC 242 (355)
Q Consensus 177 nP~v~~~~di---~d~lf~ete~a~al~eIk~~DP~Fd~~~Fl~~ar~~y~p-IleAy~~GDle~Lk~~c 242 (355)
|-++.-+|.- .+....+++.+......++..|.|....++ .++++-. ..+|..+||...+|..|
T Consensus 390 new~kw~rny~~ry~~~~~~~g~aar~~~ekkanm~fvnpkyV--Lrnyi~q~ai~aaeegDfSevkkv~ 457 (500)
T KOG2542|consen 390 NEWAKWLRNYRARYDKDLEGAGDAARWQAEKKANMHFVNPKYV--LRNYIAQNAIEAAEEGDFSEVKKVL 457 (500)
T ss_pred hHHHHHHHHHHHHHhhhccCccchHHHHHHhhccccccChHHH--HHHHHHHHHHHHHhccCHHHHHHHH
Confidence 4555444443 224577888999999999999999999987 4677766 78999999999998754
Done!