Query 028704
Match_columns 205
No_of_seqs 139 out of 220
Neff 4.1
Searched_HMMs 46136
Date Fri Mar 29 15:41:35 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028704.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/028704hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF03763 Remorin_C: Remorin, C 100.0 2.1E-37 4.5E-42 243.4 15.0 108 93-200 2-109 (111)
2 PF03766 Remorin_N: Remorin, N 99.3 2.1E-12 4.5E-17 91.7 2.7 53 33-91 4-57 (57)
3 PF03763 Remorin_C: Remorin, C 96.7 0.045 9.8E-07 43.4 11.7 82 91-172 22-103 (111)
4 KOG4661 Hsp27-ERE-TATA-binding 65.7 47 0.001 34.2 9.4 74 101-174 619-705 (940)
5 PRK09174 F0F1 ATP synthase sub 60.7 1.1E+02 0.0024 26.4 12.7 64 112-176 83-146 (204)
6 PRK13454 F0F1 ATP synthase sub 53.6 1.3E+02 0.0029 25.1 10.3 27 132-158 80-106 (181)
7 cd03404 Band_7_HflK Band_7_Hfl 47.7 1.5E+02 0.0033 25.5 8.7 49 144-192 192-240 (266)
8 TIGR01933 hflK HflK protein. H 41.5 2.3E+02 0.005 24.4 9.7 49 144-192 165-213 (261)
9 KOG3654 Uncharacterized CH dom 33.9 1.3E+02 0.0027 30.7 6.5 41 126-177 398-440 (708)
10 COG5269 ZUO1 Ribosome-associat 31.3 4.1E+02 0.0088 25.2 9.0 60 110-169 233-292 (379)
11 PF10376 Mei5: Double-strand r 31.0 3.7E+02 0.0081 23.7 10.1 59 119-178 130-188 (221)
12 PRK13455 F0F1 ATP synthase sub 30.7 3.1E+02 0.0067 22.7 10.3 62 111-173 56-117 (184)
13 KOG1103 Predicted coiled-coil 29.8 5.5E+02 0.012 25.3 10.6 48 122-169 154-211 (561)
14 PF11554 DUF3232: Protein of u 28.8 3.6E+02 0.0078 23.0 7.5 58 109-169 51-108 (152)
15 PF07352 Phage_Mu_Gam: Bacteri 28.6 2.1E+02 0.0045 23.1 6.1 40 105-144 16-55 (149)
16 PRK14475 F0F1 ATP synthase sub 27.4 3.4E+02 0.0075 22.1 10.3 17 137-153 64-80 (167)
17 PRK14474 F0F1 ATP synthase sub 26.4 4.6E+02 0.0099 23.2 10.2 11 101-111 43-53 (250)
18 PRK07353 F0F1 ATP synthase sub 26.1 3.2E+02 0.0068 21.3 10.1 14 136-149 58-71 (140)
19 KOG0577 Serine/threonine prote 25.2 6.5E+02 0.014 26.7 10.0 81 100-180 815-899 (948)
20 PRK13665 hypothetical protein; 24.4 1.9E+02 0.0042 27.1 5.7 25 128-152 234-258 (316)
21 PF12127 YdfA_immunity: SigmaW 23.9 1.9E+02 0.0041 27.2 5.5 22 128-149 229-250 (316)
22 KOG4326 Mitochondrial F1F0-ATP 22.1 3.6E+02 0.0079 20.6 5.9 26 112-137 31-56 (81)
23 PRK13428 F0F1 ATP synthase sub 21.5 7.3E+02 0.016 23.8 10.2 75 122-196 26-103 (445)
24 PRK10930 FtsH protease regulat 21.1 6.1E+02 0.013 24.4 8.5 55 137-191 254-308 (419)
25 PF11875 DUF3395: Domain of un 20.9 4.6E+02 0.0099 21.5 6.8 37 144-180 11-47 (151)
26 PF12856 Apc9: Anaphase-promot 20.1 74 0.0016 25.1 1.8 22 95-116 44-65 (100)
No 1
>PF03763 Remorin_C: Remorin, C-terminal region ; InterPro: IPR005516 Remorin binds both simple and complex galaturonides. The N-terminal region of remorin is proline rich, while the C-terminal region has been predicted to form a coiled-coil, that is expected to interact with other macromolecules, most likely DNA. Functional similarities between the behavior of the proteins and viral proteins involved in intercellular communication have been noted [].
Probab=100.00 E-value=2.1e-37 Score=243.41 Aligned_cols=108 Identities=56% Similarity=0.790 Sum_probs=105.6
Q ss_pred HHHHHHhHHhHHHHHHhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028704 93 KEKRESFIKAWEESEKTKAENKAQKKLSAVAAWENSKKASLEAKLKKIEEQLERKKAEYAEKMKNKVALVHKEAEEKRAM 172 (205)
Q Consensus 93 ~ekr~S~a~AWEeaEkaK~~nR~~reeakI~aWEn~qKAKAEA~mrKiE~KLEkkRA~a~EKm~NKiA~a~kkAEekRA~ 172 (205)
.+.+++++++||+++++|+++||++++++|++|||+|+++|+++|+++|++||++|++++|||+|+|++||++|+++|++
T Consensus 2 ~~~~~a~a~aWe~ae~aK~~~r~~ree~~I~aWEn~qkaKaea~m~k~E~klEkkra~a~ek~~nkia~~~~~Aee~Ra~ 81 (111)
T PF03763_consen 2 KEEVEAKADAWEEAEKAKINNRYEREEAKIQAWENLQKAKAEAEMRKIEEKLEKKRAKALEKMKNKIARAHKKAEEKRAA 81 (111)
T ss_pred cHHHHhHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35689999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhhhhHHHHHHHHHHHhhcCCCCCC
Q 028704 173 VEARRGEDVLKAEEIAAKYRATGTTPKK 200 (205)
Q Consensus 173 aeakr~ee~~Ka~EkA~k~R~TGk~P~s 200 (205)
++++|+++++++.++|++||+||++|++
T Consensus 82 aea~r~~~~~k~~ekA~~~R~tG~~P~~ 109 (111)
T PF03763_consen 82 AEARRGEEIAKAEEKAAKIRATGKVPSK 109 (111)
T ss_pred HHHHHhhHHHhHHHHHHHHHhCCCCCcc
Confidence 9999999999999999999999999976
No 2
>PF03766 Remorin_N: Remorin, N-terminal region ; InterPro: IPR005518 Remorin binds both simple and complex galaturonides. The N-terminal region of remorin is proline rich, while the C-terminal region has been predicted to form a coiled-coil, that is expected to interact with other macromolecules, most likely DNA. Functional similarities between the behavior of the proteins and viral proteins involved in intercellular communication have been noted [].
Probab=99.27 E-value=2.1e-12 Score=91.75 Aligned_cols=53 Identities=55% Similarity=0.683 Sum_probs=45.9
Q ss_pred CCchhhhhcccCCCCCCCCCCCCCceeeccCC-CCcchhccccccCCCCCcchhhHHHHH
Q 028704 33 NNDVAEEKAVTQLHDQEKPVDDSKALAVVDQT-PDSAKKKISGEKKISGSHDRDVALAEV 91 (205)
Q Consensus 33 ~~~~~~e~~~~p~~~~~~~~~~sk~l~~v~~~-~~~~~~~~~~~~~~~gs~~rd~~l~~v 91 (205)
++|++++++++|||. ++..||||+|+||++. ++|++ .+.++||+|||+.|++|
T Consensus 4 ~~dva~ek~~~PpP~-~~k~ddSKAl~vVek~~~epa~-----eK~s~GS~dRDa~LA~v 57 (57)
T PF03766_consen 4 AKDVAEEKSVIPPPA-EEKPDDSKALVVVEKKVPEPAE-----EKPSEGSIDRDAALARV 57 (57)
T ss_pred chhhccccCCCCCCC-CCCCCccceEEEeeccCCCccc-----cccCCCcchhhhhhhcC
Confidence 589999999998886 6778999999999986 56766 77788999999999975
No 3
>PF03763 Remorin_C: Remorin, C-terminal region ; InterPro: IPR005516 Remorin binds both simple and complex galaturonides. The N-terminal region of remorin is proline rich, while the C-terminal region has been predicted to form a coiled-coil, that is expected to interact with other macromolecules, most likely DNA. Functional similarities between the behavior of the proteins and viral proteins involved in intercellular communication have been noted [].
Probab=96.71 E-value=0.045 Score=43.38 Aligned_cols=82 Identities=23% Similarity=0.320 Sum_probs=64.5
Q ss_pred HHHHHHHHhHHhHHHHHHhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028704 91 VEKEKRESFIKAWEESEKTKAENKAQKKLSAVAAWENSKKASLEAKLKKIEEQLERKKAEYAEKMKNKVALVHKEAEEKR 170 (205)
Q Consensus 91 v~~ekr~S~a~AWEeaEkaK~~nR~~reeakI~aWEn~qKAKAEA~mrKiE~KLEkkRA~a~EKm~NKiA~a~kkAEekR 170 (205)
-..++.++.|.+||..+++|+....++.+.++.-=-..---+..-.|..+..+.|.+|+.+..+-.+.+..+..+|.-.|
T Consensus 22 ~r~~ree~~I~aWEn~qkaKaea~m~k~E~klEkkra~a~ek~~nkia~~~~~Aee~Ra~aea~r~~~~~k~~ekA~~~R 101 (111)
T PF03763_consen 22 NRYEREEAKIQAWENLQKAKAEAEMRKIEEKLEKKRAKALEKMKNKIARAHKKAEEKRAAAEARRGEEIAKAEEKAAKIR 101 (111)
T ss_pred HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHhHHHHHHHHH
Confidence 34566789999999999999999999999876432222223444566677889999999999999999999999998887
Q ss_pred HH
Q 028704 171 AM 172 (205)
Q Consensus 171 A~ 172 (205)
..
T Consensus 102 ~t 103 (111)
T PF03763_consen 102 AT 103 (111)
T ss_pred hC
Confidence 53
No 4
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=65.72 E-value=47 Score=34.18 Aligned_cols=74 Identities=24% Similarity=0.374 Sum_probs=47.8
Q ss_pred HhHHHHHHhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH-------------HHHHHHHHHHHHHHHHHHHHHHHHH
Q 028704 101 KAWEESEKTKAENKAQKKLSAVAAWENSKKASLEAKLKKIEE-------------QLERKKAEYAEKMKNKVALVHKEAE 167 (205)
Q Consensus 101 ~AWEeaEkaK~~nR~~reeakI~aWEn~qKAKAEA~mrKiE~-------------KLEkkRA~a~EKm~NKiA~a~kkAE 167 (205)
..-+-.+...+..+-.+++..-.+||-..+...++++-++|. .||++|.+.++.-...-.+||+.-+
T Consensus 619 r~Re~eer~RirE~rerEqR~~a~~ERee~eRl~~erlrle~qRQrLERErmErERLEreRM~ve~eRr~eqeRihreRe 698 (940)
T KOG4661|consen 619 RRREAEERQRIREEREREQRRKAAVEREELERLKAERLRLERQRQRLERERMERERLERERMKVEEERRDEQERIHRERE 698 (940)
T ss_pred HhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcchhhhhhhhHH
Confidence 334445777888888888888999999998888877766662 2444444444444445555555555
Q ss_pred HHHHHHH
Q 028704 168 EKRAMVE 174 (205)
Q Consensus 168 ekRA~ae 174 (205)
+.|-+-+
T Consensus 699 elRrqqe 705 (940)
T KOG4661|consen 699 ELRRQQE 705 (940)
T ss_pred HHhhccc
Confidence 5554433
No 5
>PRK09174 F0F1 ATP synthase subunit B'; Validated
Probab=60.67 E-value=1.1e+02 Score=26.37 Aligned_cols=64 Identities=19% Similarity=0.229 Sum_probs=34.2
Q ss_pred HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028704 112 ENKAQKKLSAVAAWENSKKASLEAKLKKIEEQLERKKAEYAEKMKNKVALVHKEAEEKRAMVEAR 176 (205)
Q Consensus 112 ~nR~~reeakI~aWEn~qKAKAEA~mrKiE~KLEkkRA~a~EKm~NKiA~a~kkAEekRA~aeak 176 (205)
..|.++-...|..=++ .+..++..+...|.+|..-|.++.+-+.+-...++..++..+..+++.
T Consensus 83 e~R~~~I~~~L~~Ae~-~k~eAe~~~~~ye~~L~~Ar~eA~~Ii~~Ar~ea~~~~e~~~~~a~~e 146 (204)
T PRK09174 83 ETRRDRIAQDLDQAAR-LKQEADAAVAAYEQELAQARAKAHSIAQAAREAAKAKAEAERAAIEAS 146 (204)
T ss_pred HHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444444333 234555666666666666666666666555555555555555444444
No 6
>PRK13454 F0F1 ATP synthase subunit B'; Provisional
Probab=53.64 E-value=1.3e+02 Score=25.12 Aligned_cols=27 Identities=15% Similarity=0.100 Sum_probs=11.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028704 132 SLEAKLKKIEEQLERKKAEYAEKMKNK 158 (205)
Q Consensus 132 KAEA~mrKiE~KLEkkRA~a~EKm~NK 158 (205)
.++..+...|.+|.+-|.++.+-+.+-
T Consensus 80 eA~~~~~eye~~L~~Ar~EA~~ii~~A 106 (181)
T PRK13454 80 KAVEAEKAYNKALADARAEAQRIVAET 106 (181)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444444444444444444444333
No 7
>cd03404 Band_7_HflK Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma membranes lack cholesterol and are unlikely to have lipid raft domains. Individual proteins of this band 7 domain family may cluster to form membrane microdomains which may in turn recruit multiprotein complexes. Escherichia coli HflK is an integral membrane protein which may localize to the plasma membrane. HflK associates with another band 7 family member (HflC) to form an HflKC complex. HflKC interacts with FtsH in a large complex termed the FtsH holo-enzyme. FtsH is an AAA ATP-dependent protease which exerts progressive proteolysis against membrane-embedded and soluble substrate proteins. HflKC can modulate the activity of FtsH. HflKC plays a role in the decision between lysogenic and lytic cycle growth during la
Probab=47.69 E-value=1.5e+02 Score=25.47 Aligned_cols=49 Identities=24% Similarity=0.170 Sum_probs=35.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHh
Q 028704 144 LERKKAEYAEKMKNKVALVHKEAEEKRAMVEARRGEDVLKAEEIAAKYR 192 (205)
Q Consensus 144 LEkkRA~a~EKm~NKiA~a~kkAEekRA~aeakr~ee~~Ka~EkA~k~R 192 (205)
.++.++++...-...++.++..|+..+..+++.+.....+++-.|..|+
T Consensus 192 ~~~~~~eae~~a~~~~~~A~~ea~~~~~~A~a~~~~~~~~ae~~a~~~~ 240 (266)
T cd03404 192 RERLINEAEAYANEVVPKARGEAARIIQEAEAYKEEVIAEAQGEAARFE 240 (266)
T ss_pred HHHHHHHHHHHHHHHHHHhHhHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence 3445555533333456778888888999999999999988888887766
No 8
>TIGR01933 hflK HflK protein. HflK and HflC are paralogs encoded by tandem genes in Proteobacteria, spirochetes, and some other bacterial lineages. The HflKC complex is anchored in the membrane and exposed to the periplasm. The complex is not active as a protease, but rather binds to and appears to modulate the ATP-dependent protease FtsH. The overall function of HflKC is not fully described.//Regulation of FtsH by HflKC appears to be negative (PubMed:8947034,PubMed:96367)
Probab=41.55 E-value=2.3e+02 Score=24.37 Aligned_cols=49 Identities=14% Similarity=0.102 Sum_probs=31.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHh
Q 028704 144 LERKKAEYAEKMKNKVALVHKEAEEKRAMVEARRGEDVLKAEEIAAKYR 192 (205)
Q Consensus 144 LEkkRA~a~EKm~NKiA~a~kkAEekRA~aeakr~ee~~Ka~EkA~k~R 192 (205)
.++.++++...-...+..++..|+..+..+++.+..+..+++-.|..++
T Consensus 165 ~~~~~~~ae~~~~~~~~~a~~~a~~~~~~Aea~~~~~~~~a~g~a~~~~ 213 (261)
T TIGR01933 165 EERYINEAEAYANEVVPKARGDAQRIIEEARGYKERRINRAKGDVARFT 213 (261)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHH
Confidence 3566666654444556667777777777777777777777765555544
No 9
>KOG3654 consensus Uncharacterized CH domain protein [Cytoskeleton]
Probab=33.91 E-value=1.3e+02 Score=30.66 Aligned_cols=41 Identities=34% Similarity=0.488 Sum_probs=21.8
Q ss_pred HHhHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 028704 126 ENSKKASLEAKLKK--IEEQLERKKAEYAEKMKNKVALVHKEAEEKRAMVEARR 177 (205)
Q Consensus 126 En~qKAKAEA~mrK--iE~KLEkkRA~a~EKm~NKiA~a~kkAEekRA~aeakr 177 (205)
|..|+-.-|+++|| +|.+.|.+|-+ ++|+|+|-|+-.|..+
T Consensus 398 ekqqrraeear~rkqqleae~e~kree-----------arrkaeeer~~keee~ 440 (708)
T KOG3654|consen 398 EKQQRRAEEARRRKQQLEAEKEQKREE-----------ARRKAEEERAPKEEEV 440 (708)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH-----------HHHhhHhhhcchhhhh
Confidence 44444444555554 35555555544 4566666666555443
No 10
>COG5269 ZUO1 Ribosome-associated chaperone zuotin [Translation, ribosomal structure and biogenesis / Posttranslational modification, protein turnover, chaperones]
Probab=31.27 E-value=4.1e+02 Score=25.24 Aligned_cols=60 Identities=23% Similarity=0.294 Sum_probs=34.3
Q ss_pred hHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028704 110 KAENKAQKKLSAVAAWENSKKASLEAKLKKIEEQLERKKAEYAEKMKNKVALVHKEAEEK 169 (205)
Q Consensus 110 K~~nR~~reeakI~aWEn~qKAKAEA~mrKiE~KLEkkRA~a~EKm~NKiA~a~kkAEek 169 (205)
|...--.+++.+|..||-.--+.+++.+...-..-++.|+...-.-.--+..+.++|.|-
T Consensus 233 K~fkEqeK~~k~~rkWereagar~~a~aa~k~kae~k~kae~ea~a~asa~a~kkkaKE~ 292 (379)
T COG5269 233 KSFKEQEKEMKKIRKWEREAGARLKALAALKGKAEAKNKAEIEAEALASATAVKKKAKEV 292 (379)
T ss_pred hhHHHHHHHHHHHhccchhhhhhHHHHHHHhhhhHHHhHHHHHHHHhhhhHHHHHhHHHH
Confidence 444444577888999998877766655544322223455555444444455555555443
No 11
>PF10376 Mei5: Double-strand recombination repair protein ; InterPro: IPR018468 Mei5 is one of a pair of meiosis-specific proteins which facilitate the loading of Dmc1 on to Rad51 on DNA at double-strand breaks during recombination. Recombination is carried out by a large protein complex based around the two RecA homologues, Rad51 and Dmc1 []. This complex may play both a catalytic and a structural role in the interaction between homologous chromosomes during meiosis. Mei5 is seen to contain a coiled-coli region.
Probab=30.99 E-value=3.7e+02 Score=23.71 Aligned_cols=59 Identities=20% Similarity=0.161 Sum_probs=47.3
Q ss_pred HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 028704 119 LSAVAAWENSKKASLEAKLKKIEEQLERKKAEYAEKMKNKVALVHKEAEEKRAMVEARRG 178 (205)
Q Consensus 119 eakI~aWEn~qKAKAEA~mrKiE~KLEkkRA~a~EKm~NKiA~a~kkAEekRA~aeakr~ 178 (205)
+-.++.|+. .+++.+.+++..+..|.+...--+.+++|.+..++..-.+||......-.
T Consensus 130 ~~~~~el~~-ek~kL~~q~~e~~e~lr~L~~~k~~r~Kn~~~~Lq~lI~Kwr~~~q~~l~ 188 (221)
T PF10376_consen 130 ELKQQELEE-EKRKLEKQVDEKEEELRRLKLVKQYRSKNDLEQLQSLIKKWRSASQEALY 188 (221)
T ss_pred hhHHHHHHH-HHHHHHHHHHHHHHHHHHhHHHHHHHhhccHHHHHHHHHHHHHHHHHHHH
Confidence 445677766 66788888888889999988888899999999999888999877655433
No 12
>PRK13455 F0F1 ATP synthase subunit B; Provisional
Probab=30.66 E-value=3.1e+02 Score=22.67 Aligned_cols=62 Identities=11% Similarity=0.093 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028704 111 AENKAQKKLSAVAAWENSKKASLEAKLKKIEEQLERKKAEYAEKMKNKVALVHKEAEEKRAMV 173 (205)
Q Consensus 111 ~~nR~~reeakI~aWEn~qKAKAEA~mrKiE~KLEkkRA~a~EKm~NKiA~a~kkAEekRA~a 173 (205)
+.+|-++-...|..=+. .+..|+..+...+.+|..-|.++.+-+.+-...++...++.+..+
T Consensus 56 L~~R~~~I~~~l~~Ae~-~~~eA~~~l~e~e~~L~~A~~ea~~Ii~~A~~~a~~~~e~~~~~a 117 (184)
T PRK13455 56 LDKRAEGIRSELEEARA-LREEAQTLLASYERKQREVQEQADRIVAAAKDEAQAAAEQAKADL 117 (184)
T ss_pred HHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44444444444444332 233455555555555555555555554444444444444443333
No 13
>KOG1103 consensus Predicted coiled-coil protein [Function unknown]
Probab=29.77 E-value=5.5e+02 Score=25.25 Aligned_cols=48 Identities=31% Similarity=0.248 Sum_probs=37.4
Q ss_pred HHHHHHhHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHH
Q 028704 122 VAAWENSKKASLEAKLKKIEEQLERKKAEY----------AEKMKNKVALVHKEAEEK 169 (205)
Q Consensus 122 I~aWEn~qKAKAEA~mrKiE~KLEkkRA~a----------~EKm~NKiA~a~kkAEek 169 (205)
-..+|-.++-|+|-.-+|+++.|+..|.+- -.++.||++....+|++-
T Consensus 154 QiEFe~~e~kK~E~~k~Kl~~qLeeEk~RHeqis~mLilEcKka~~KaaEegqKA~ei 211 (561)
T KOG1103|consen 154 QIEFEIEEKKKAEIAKDKLEMQLEEEKKRHEQISLMLILECKKALLKAAEEGQKAEEI 211 (561)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHH
Confidence 346888999999999999999998766532 136678888888888764
No 14
>PF11554 DUF3232: Protein of unknown function (DUF3232); InterPro: IPR021618 This bacterial family of proteins has no known function. ; PDB: 2RDC_A.
Probab=28.84 E-value=3.6e+02 Score=22.96 Aligned_cols=58 Identities=10% Similarity=0.228 Sum_probs=48.6
Q ss_pred hhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028704 109 TKAENKAQKKLSAVAAWENSKKASLEAKLKKIEEQLERKKAEYAEKMKNKVALVHKEAEEK 169 (205)
Q Consensus 109 aK~~nR~~reeakI~aWEn~qKAKAEA~mrKiE~KLEkkRA~a~EKm~NKiA~a~kkAEek 169 (205)
..+-++.-+++..|+.|-+..-. .++|-+-++|++.|..+++-+-..+..++|-|+-.
T Consensus 51 ~~Y~~~V~~mE~~l~t~rfrleg---eeYRd~vE~LDr~RtnaH~a~ISd~kIlNR~aek~ 108 (152)
T PF11554_consen 51 KEYVLIVYRMEDQLQTWRFRLEG---EEYRDLVEELDRTRTNAHNAAISDCKILNRMAEKE 108 (152)
T ss_dssp HHHHHHHHHHHHHHHHHCCTS-H---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHhhcc---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 56677778899999999987654 57888899999999999999999999998887643
No 15
>PF07352 Phage_Mu_Gam: Bacteriophage Mu Gam like protein; InterPro: IPR009951 The Gam protein, originally characterised in Bacteriophage Mu, protects linear double stranded DNA from exonuclease degradation in vitro and in vivo []. This protein is also found in many bacterial species as part of a suspected prophage. Further studies have shown that Gam is a functional counterpart of the eukaryotic Ku protein, which has key roles in DNA repair and in certain transposition events. Gam displays DNA binding characteristics remarkably similar to those of human Ku []. In addition, Gam can interfere with Ty1 retrotransposition in Saccharomyces cerevisiae (Baker's yeast). These data reveal structural and functional parallels between bacteriophage Gam and eukaryotic Ku and suggest that their functions have been evolutionarily conserved [].; GO: 0003690 double-stranded DNA binding, 0042262 DNA protection; PDB: 2P2U_B.
Probab=28.64 E-value=2.1e+02 Score=23.12 Aligned_cols=40 Identities=20% Similarity=0.453 Sum_probs=26.5
Q ss_pred HHHHhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH
Q 028704 105 ESEKTKAENKAQKKLSAVAAWENSKKASLEAKLKKIEEQL 144 (205)
Q Consensus 105 eaEkaK~~nR~~reeakI~aWEn~qKAKAEA~mrKiE~KL 144 (205)
..+...+.+.++.+.+.|..|-..+.+.....+..++.-|
T Consensus 16 ~~~~~~i~~~~~~~I~~i~~~~~~~~~~l~~~i~~l~~~l 55 (149)
T PF07352_consen 16 QREIARIEAEANDEIARIKEWYEAEIAPLQNRIEYLEGLL 55 (149)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456667777777777777777777766666666555433
No 16
>PRK14475 F0F1 ATP synthase subunit B; Provisional
Probab=27.43 E-value=3.4e+02 Score=22.14 Aligned_cols=17 Identities=18% Similarity=0.276 Sum_probs=6.5
Q ss_pred HHHHHHHHHHHHHHHHH
Q 028704 137 LKKIEEQLERKKAEYAE 153 (205)
Q Consensus 137 mrKiE~KLEkkRA~a~E 153 (205)
+...+.+|..-|.++.+
T Consensus 64 ~~~~e~~L~~A~~ea~~ 80 (167)
T PRK14475 64 LADVKAEREEAERQAAA 80 (167)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 33333334433333333
No 17
>PRK14474 F0F1 ATP synthase subunit B; Provisional
Probab=26.36 E-value=4.6e+02 Score=23.19 Aligned_cols=11 Identities=18% Similarity=0.791 Sum_probs=5.2
Q ss_pred HhHHHHHHhhH
Q 028704 101 KAWEESEKTKA 111 (205)
Q Consensus 101 ~AWEeaEkaK~ 111 (205)
...++++..+.
T Consensus 43 ~~l~~Ae~~~~ 53 (250)
T PRK14474 43 NRWQDAEQRQQ 53 (250)
T ss_pred HHHHHHHHHHH
Confidence 44555554433
No 18
>PRK07353 F0F1 ATP synthase subunit B'; Validated
Probab=26.11 E-value=3.2e+02 Score=21.27 Aligned_cols=14 Identities=21% Similarity=0.221 Sum_probs=5.6
Q ss_pred HHHHHHHHHHHHHH
Q 028704 136 KLKKIEEQLERKKA 149 (205)
Q Consensus 136 ~mrKiE~KLEkkRA 149 (205)
.+...+.+|..-|.
T Consensus 58 ~~~~~e~~L~~a~~ 71 (140)
T PRK07353 58 LEAQYEQQLASARK 71 (140)
T ss_pred HHHHHHHHHHHHHH
Confidence 33333444444433
No 19
>KOG0577 consensus Serine/threonine protein kinase [Signal transduction mechanisms]
Probab=25.22 E-value=6.5e+02 Score=26.70 Aligned_cols=81 Identities=17% Similarity=0.276 Sum_probs=58.7
Q ss_pred HHhHHHHHHhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028704 100 IKAWEESEKTKAENKAQKKLSAVAAWENSKKASLEAKLKKIEEQLE----RKKAEYAEKMKNKVALVHKEAEEKRAMVEA 175 (205)
Q Consensus 100 a~AWEeaEkaK~~nR~~reeakI~aWEn~qKAKAEA~mrKiE~KLE----kkRA~a~EKm~NKiA~a~kkAEekRA~aea 175 (205)
.+.|.++|---.....+.+..-+.++.+.-|+.++.+..+.=.+|| -.|+-+-+||-..++.++..--+.--+...
T Consensus 815 lde~qe~E~q~l~~ql~qEle~l~ayq~k~k~~~e~q~~re~~ele~rvslrra~lEqkieeE~~~~~~~Rserir~l~e 894 (948)
T KOG0577|consen 815 LDEAQEAECQVLREQLEQELELLNAYQSKIKMQAEEQHERELRELEQRVSLRRALLEQKIEEELAQLQTERSERIRSLLE 894 (948)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhcccchHHHHHHhh
Confidence 3778889988999999999999999999999998887666555554 467778888877777765544333334444
Q ss_pred Hhhhh
Q 028704 176 RRGED 180 (205)
Q Consensus 176 kr~ee 180 (205)
++..+
T Consensus 895 r~~~e 899 (948)
T KOG0577|consen 895 RHARE 899 (948)
T ss_pred hhHHH
Confidence 44443
No 20
>PRK13665 hypothetical protein; Provisional
Probab=24.37 E-value=1.9e+02 Score=27.06 Aligned_cols=25 Identities=16% Similarity=0.163 Sum_probs=14.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHH
Q 028704 128 SKKASLEAKLKKIEEQLERKKAEYA 152 (205)
Q Consensus 128 ~qKAKAEA~mrKiE~KLEkkRA~a~ 152 (205)
+|--+||+.++-.+.|.|.+|+-+.
T Consensus 234 Lq~dQAEADk~iAqAkAEeRRAmAv 258 (316)
T PRK13665 234 LQTDQAEADKRIAQAKAEERRAMAV 258 (316)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4556666666665555565555443
No 21
>PF12127 YdfA_immunity: SigmaW regulon antibacterial; InterPro: IPR022853 This entry represents the uncharacterised protein family UPF0365. Its function is not known. The proteins in this family are found in bacteria. They are about 330 amino acids in length and encoded by a gene located in an operon which confers immunity for the host species to a broad range of antibacterial compounds, unlike the specific immunity proteins that are linked to and co-regulated with their antibiotic-synthesis proteins.
Probab=23.86 E-value=1.9e+02 Score=27.18 Aligned_cols=22 Identities=18% Similarity=0.247 Sum_probs=11.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHHH
Q 028704 128 SKKASLEAKLKKIEEQLERKKA 149 (205)
Q Consensus 128 ~qKAKAEA~mrKiE~KLEkkRA 149 (205)
+|--+||+.++-.+.|.|.+|+
T Consensus 229 Lq~dQAeADk~iAqAkAEeRRA 250 (316)
T PF12127_consen 229 LQTDQAEADKRIAQAKAEERRA 250 (316)
T ss_pred hhHHHHHHHHHHHHHHHHHHHH
Confidence 4455555555554444444444
No 22
>KOG4326 consensus Mitochondrial F1F0-ATP synthase, subunit e [Energy production and conversion]
Probab=22.15 E-value=3.6e+02 Score=20.57 Aligned_cols=26 Identities=12% Similarity=0.097 Sum_probs=20.6
Q ss_pred HHHHHHHHHHHHHHHHhHHHHHHHHH
Q 028704 112 ENKAQKKLSAVAAWENSKKASLEAKL 137 (205)
Q Consensus 112 ~nR~~reeakI~aWEn~qKAKAEA~m 137 (205)
.++......+|..|+.++|+.+.+++
T Consensus 31 ~~~l~~~~e~~Rei~a~eKav~da~~ 56 (81)
T KOG4326|consen 31 LRQLREYHEDIREIDAHEKAVADAEE 56 (81)
T ss_pred HHHHhHHHHHHHHHHHHHHHHHhHHH
Confidence 45556678889999999999888754
No 23
>PRK13428 F0F1 ATP synthase subunit delta; Provisional
Probab=21.51 E-value=7.3e+02 Score=23.82 Aligned_cols=75 Identities=15% Similarity=0.194 Sum_probs=0.0
Q ss_pred HHHHHHhHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHhhcCC
Q 028704 122 VAAWENSKKASLEAKLKKIE---EQLERKKAEYAEKMKNKVALVHKEAEEKRAMVEARRGEDVLKAEEIAAKYRATGT 196 (205)
Q Consensus 122 I~aWEn~qKAKAEA~mrKiE---~KLEkkRA~a~EKm~NKiA~a~kkAEekRA~aeakr~ee~~Ka~EkA~k~R~TGk 196 (205)
|...=+..+.+....|...+ .+++..+..|.+++.+--..++.+-++.+..++..+.+-...+.+.+..|...++
T Consensus 26 i~~~l~~R~~~I~~~L~eAe~a~~ea~~~~~~~e~~L~~Ak~ea~~Ii~~A~~~A~~~~~~~~~~A~~ea~~i~~~a~ 103 (445)
T PRK13428 26 VRRLMAARQDTVRQQLAESATAADRLAEADQAHTKAVEDAKAEAARVVEEAREDAERIAEQLRAQADAEAERIKVQGA 103 (445)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
No 24
>PRK10930 FtsH protease regulator HflK; Provisional
Probab=21.05 E-value=6.1e+02 Score=24.44 Aligned_cols=55 Identities=13% Similarity=0.102 Sum_probs=38.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHH
Q 028704 137 LKKIEEQLERKKAEYAEKMKNKVALVHKEAEEKRAMVEARRGEDVLKAEEIAAKY 191 (205)
Q Consensus 137 mrKiE~KLEkkRA~a~EKm~NKiA~a~kkAEekRA~aeakr~ee~~Ka~EkA~k~ 191 (205)
+..-+...++.+.++...-..-+..++..|+.....|++.+...+++++-.|..|
T Consensus 254 v~~Are~~~~~i~eAeayan~iip~A~gea~~ii~~AeAyr~~~i~~AeGda~rF 308 (419)
T PRK10930 254 AIAARENEQQYIREAEAYTNEVQPRANGQAQRILEEARAYKAQTILEAQGEVARF 308 (419)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHH
Confidence 3333444556666555555556678888888888888998888888887777554
No 25
>PF11875 DUF3395: Domain of unknown function (DUF3395); InterPro: IPR024586 Chaperone DnaJ was originally characterised from Escherichia coli as a 41 kDa heat shock protein. DnaJ has a modular structure consisting of a J-domain, a proximal G/F-domain, and a distal zinc finger domain, followed by less conserved C-terminal sequences. Since then, a large number of DnaJ-related proteins containing a J-domain have been characterised from a variety of different organisms. In the genome of Arabidopsis thaliana a total of 89 J-domain proteins have been identified []. This entry represents a C-terminal domain found in some eukaryotic DnaJ-like proteins, including member 11 from the subfamily C1 and protein DnaJ 13 from Arabidopsis. This domain is typically between 147 to 176 amino acids in length.
Probab=20.95 E-value=4.6e+02 Score=21.54 Aligned_cols=37 Identities=16% Similarity=0.276 Sum_probs=16.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 028704 144 LERKKAEYAEKMKNKVALVHKEAEEKRAMVEARRGED 180 (205)
Q Consensus 144 LEkkRA~a~EKm~NKiA~a~kkAEekRA~aeakr~ee 180 (205)
+++.|....+.|..+.+.+...-+.|+..++.++..+
T Consensus 11 ~~~~r~~~~~~~~~~r~eA~~~~~lm~~~a~r~~~~E 47 (151)
T PF11875_consen 11 IEEQREKNKEEIAEKRAEAESAIELMKETAERKQRKE 47 (151)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3334444444444444444444444555554444444
No 26
>PF12856 Apc9: Anaphase-promoting complex subunit 9; InterPro: IPR024274 The anaphase-promoting complex (APC) or cyclosome is a multi-subunit E3 protein ubiquitin ligase that regulates important events in mitosis such as the initiation of anaphase and exit from telophase. The APC, in conjunction with other enzymes, assembles multi-ubiquitin chains on a variety of regulatory proteins, thereby targeting them for proteolysis by the 26S proteasome. Anaphase is initiated when the APC triggers the destruction of securin, thereby allowing the protease, separase, to disrupt sister-chromatid cohesion. Securin ubiquitination by the APC is inhibited by cyclin-dependent kinase 1 (Cdk1)-dependent phosphorylation []. Forkhead Box M1 (FoxM1), which is a transcription factor that is over-expressed in many cancers, is degraded in late mitosis and early G1 phase by the APC/cyclosome (APC/C) E3 ubiquitin ligase []. The APC/C targets mitotic cyclins for destruction in mitosis and G1 phase and is then inactivated at S phase. It thereby generates alternating states of high and low cyclin-Cdk activity, which is required for the alternation of mitosis and DNA replication []. The APC/C is composed of at least 13 subunits that stay tightly associated throughout the cell cycle: APC1, APC2, APC4, APC5, APC9, APC11, CDC16, CDC23, CDC26, CDC27, DOC1, MND2 and SWM1[], []. In fission yeast the 13 subunits are known as: Apc1, Apc2, Nuc2, Apc4, Apc5, Cut9, Apc8, Apc10, Apc11, Hcn1, Apc13, Apc14 and Apc15 []. All APC subunits are members of the cullin family proteins, which bind to a ring-finger subunit via a conserved cullin domain [].The APC can be divided in four parts, the third of which is a tetratricopeptide repeat arm (TPR) that contains multiple subunits, including Apc9 []. This entry represents Apc9, one of the subunits of the anaphase-promoting complex.
Probab=20.09 E-value=74 Score=25.08 Aligned_cols=22 Identities=41% Similarity=0.380 Sum_probs=16.9
Q ss_pred HHHHhHHhHHHHHHhhHHHHHH
Q 028704 95 KRESFIKAWEESEKTKAENKAQ 116 (205)
Q Consensus 95 kr~S~a~AWEeaEkaK~~nR~~ 116 (205)
-++|+|.+|+.+|++-.+-=|+
T Consensus 44 l~eSkI~~~l~sEra~h~liFh 65 (100)
T PF12856_consen 44 LRESKIKAWLSSERAAHCLIFH 65 (100)
T ss_pred HHHHHHHHHHHHHHHhcceecc
Confidence 5799999999999875544344
Done!