Query 021622
Match_columns 310
No_of_seqs 70 out of 72
Neff 3.4
Searched_HMMs 46136
Date Fri Mar 29 04:24:57 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/021622.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/021622hhsearch_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 1.1E-48 2.4E-53 381.3 13.4 247 26-295 41-296 (459)
2 TIGR00984 3a0801s03tim44 mitoc 100.0 1.6E-37 3.4E-42 300.7 7.5 202 54-296 1-223 (378)
3 KOG2580 Mitochondrial import i 96.7 0.0024 5.1E-08 64.6 5.3 45 185-229 165-220 (459)
4 PF07464 ApoLp-III: Apolipopho 93.3 0.097 2.1E-06 46.4 3.8 68 49-119 43-118 (155)
5 COG1510 Predicted transcriptio 74.4 12 0.00025 34.5 6.8 67 50-132 96-162 (177)
6 PLN03229 acetyl-coenzyme A car 58.2 44 0.00095 36.8 8.3 81 48-135 508-617 (762)
7 PF05957 DUF883: Bacterial pro 57.2 87 0.0019 24.7 8.0 65 65-132 2-66 (94)
8 COG4980 GvpP Gas vesicle prote 53.9 35 0.00077 29.4 5.5 43 93-142 46-88 (115)
9 KOG2391 Vacuolar sorting prote 53.5 56 0.0012 33.2 7.5 68 47-133 210-285 (365)
10 PRK01919 tatB sec-independent 53.1 44 0.00095 30.7 6.3 15 47-61 37-51 (169)
11 TIGR01069 mutS2 MutS2 family p 48.8 1.2E+02 0.0026 33.1 9.8 14 256-269 740-753 (771)
12 COG0711 AtpF F0F1-type ATP syn 46.0 1.9E+02 0.0041 25.3 9.0 88 45-135 31-122 (161)
13 PF12732 YtxH: YtxH-like prote 44.9 1.1E+02 0.0023 23.4 6.4 11 117-127 61-71 (74)
14 PRK00409 recombination and DNA 39.9 2.1E+02 0.0046 31.3 10.0 14 256-269 751-764 (782)
15 PF10146 zf-C4H2: Zinc finger- 37.6 2.9E+02 0.0062 26.2 9.3 67 50-121 14-84 (230)
16 TIGR00984 3a0801s03tim44 mitoc 36.2 2.3E+02 0.0049 29.0 8.9 53 53-106 17-73 (378)
17 PF00957 Synaptobrevin: Synapt 32.7 1.7E+02 0.0036 22.7 6.0 30 54-83 6-36 (89)
18 PTZ00370 STEVOR; Provisional 32.2 24 0.00053 34.8 1.4 17 61-77 54-70 (296)
19 TIGR01478 STEVOR variant surfa 30.7 30 0.00064 34.2 1.7 17 61-77 55-71 (295)
20 PF12732 YtxH: YtxH-like prote 30.3 1.4E+02 0.003 22.8 5.0 16 120-135 53-68 (74)
21 PF15358 TSKS: Testis-specific 29.9 2.6E+02 0.0057 29.6 8.2 77 45-132 133-212 (558)
22 PF01442 Apolipoprotein: Apoli 29.9 3.2E+02 0.0069 22.5 9.3 17 92-108 66-82 (202)
23 KOG1853 LIS1-interacting prote 29.2 66 0.0014 31.9 3.7 39 56-97 152-190 (333)
24 PF04343 DUF488: Protein of un 28.3 73 0.0016 26.1 3.4 30 49-78 69-98 (122)
25 PHA01794 hypothetical protein 26.5 2.6E+02 0.0055 25.0 6.5 44 46-92 70-113 (134)
26 PLN03229 acetyl-coenzyme A car 24.9 2.6E+02 0.0057 31.2 7.6 15 48-62 459-473 (762)
27 PF01442 Apolipoprotein: Apoli 24.7 4E+02 0.0086 21.9 9.1 51 85-135 81-131 (202)
28 PRK06569 F0F1 ATP synthase sub 22.3 4.7E+02 0.01 23.5 7.6 73 47-126 37-110 (155)
29 TIGR01477 RIFIN variant surfac 21.6 1.2E+02 0.0025 30.8 4.0 53 61-126 55-108 (353)
30 KOG0963 Transcription factor/C 21.5 5.5E+02 0.012 28.2 9.0 77 55-134 132-208 (629)
31 CHL00118 atpG ATP synthase CF0 21.4 5.3E+02 0.011 22.2 9.3 24 54-77 56-79 (156)
32 PTZ00046 rifin; Provisional 20.3 1.4E+02 0.0031 30.2 4.3 53 61-126 52-105 (358)
33 PF03908 Sec20: Sec20; InterP 20.2 4.4E+02 0.0095 20.8 6.3 35 63-102 14-48 (92)
34 cd06571 Bac_DnaA_C C-terminal 20.2 1.8E+02 0.0038 22.9 4.0 34 42-75 55-88 (90)
No 1
>KOG2580 consensus Mitochondrial import inner membrane translocase, subunit TIM44 [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=1.1e-48 Score=381.26 Aligned_cols=247 Identities=23% Similarity=0.337 Sum_probs=208.0
Q ss_pred cCcccccccccccCCCC-CCCcchHHHHHHHHHHHhhhChhhHHHHHHHHHHHHHhhhhHHHHhhhhHHHHHHHHhhhhh
Q 021622 26 QGSSTRLRLVSANGYSS-NRQFSVFKEFSKKIKGEAESNPEFKHSVKELKKKAEEIKGVKEELKERTKQTTEQLYKQVDG 104 (310)
Q Consensus 26 ~~~~~~~~~~~~r~ys~-~rr~gffsef~dnIK~E~~KNkEmKesiKkFrEeAekLe~skEaLK~rtkqtArqkyk~Vd~ 104 (310)
+++..++.+.+.++||+ +||+|||++|+||||+||+||||||+|||+|+++|++|++| |+|| .||++|+++
T Consensus 41 ~~~~ar~~~~q~~~yss~~~r~s~ls~f~dn~r~E~~knkElqe~iK~lkd~a~~L~es-da~k-----kaR~k~~~~-- 112 (459)
T KOG2580|consen 41 TRLGARLPFSQTRGYSSPGRRRSFLSEFSDNVRAELDKNKELQESIKKLKDRAGELEES-DALK-----KARTKYETA-- 112 (459)
T ss_pred hcccccccccccccccCCCCCCchHHHHHHHHHHHHhhCHHHHHHHHHHHHHHhhhccc-hHHH-----HHHHHHHHH--
Confidence 46889999999999995 89999999999999999999999999999999999999997 9995 999999999
Q ss_pred hhhhhhhhHHHHHHHHHHHHHHHHHhhhhccccccccCCcCCCCcccccCccCchhhhhhhcccccchhhhhcccccccC
Q 021622 105 VWMEAESTVKKVSASMKEKISAATEEVKGTFRTGSTDTSAKHDDDVRDGFKASSGEEKQKQTVSSDTAETFYGKLKSSIS 184 (310)
Q Consensus 105 ~~~EaEsea~KvS~~vKeKlsa~te~VkEs~~~gKee~S~s~~~~~k~~~k~~~~Ee~~~a~~s~~~aet~~~k~kst~s 184 (310)
|+++.++|..+|+++++++|+|+.+. +|+++|+ ++ + +.++..+|.+++|+++++.-+++|++|++|.+
T Consensus 113 -----e~~t~~~s~~~kk~~~e~~e~~k~~~----~ea~eS~-~~-k-~t~~~~~e~~kqA~~sae~vd~~~~kv~~T~~ 180 (459)
T KOG2580|consen 113 -----ESETQASSEVLKKKLGELKETVKLGA----EEAWESA-LG-K-KTKEAVEEAQKQASGSAEEVDTFFEKVGQTAA 180 (459)
T ss_pred -----HhhhhhhhHHHHHHHHHHHHHHHHHH----HHHHhhh-hh-c-cchhhHHHHHHHhhcchhhhhHhhhhhhhhhh
Confidence 99999999999999999988888877 9999998 43 2 55555577778999998877777777777777
Q ss_pred ChhhhHHHHHHHHhHHHHHHhhhhhhhhhcccCCCCcccccccCCCCCCCCCCccceeeeEeeecCchhHH-HHhhhcCC
Q 021622 185 SPKFTLAFQKLKEAKVVDLAKKGYDIVKDELSGSPSKRKHLEYTPSPSWTGEKSTRTDLVVTPSKKSMWSK-LKEKMQGY 263 (310)
Q Consensus 185 s~~~S~afqkL~~t~~~~~isqg~e~VK~El~~~~~lRKR~e~~~~~~~~~~~strt~i~vvlhKdSkWyq-wK~fk~nn 263 (310)
.+.+|.+|..++ +-++.++.|..+||+++..+++.+++.+.++++++.++.++++ .+||+|+||+||+ |+||+++|
T Consensus 181 yk~vSe~~~~vk--k~~d~s~~g~~i~k~~~r~lr~r~~~~~~~~~~~~~~E~n~~a-~~vv~h~~skw~~kwe~fkek~ 257 (459)
T KOG2580|consen 181 YKAVSEVMETVK--KEIDSSRYGLDIVKERPRKLRKRTEFLGDTFPSEKVGEPNEEA-EGVVLHKDSKWYQKWEDFKEKN 257 (459)
T ss_pred HHHHHHHHHhhc--ccchhhhhhhhchhhhhhhchhhhhhhccCCCcccccCCCcce-eeEEeccchHHHHHHHHHHhcc
Confidence 777777777666 5666677777777777765444444555666777766655544 2349999999999 99999999
Q ss_pred cceecc-------ccCcchhhhhchhhhhhhheeccccc
Q 021622 264 PVFKRI-------TGISEPVVTKGQEVCSNRLLLTSSCF 295 (310)
Q Consensus 264 p~fnR~-------desdnpVVrasr~vtDk~~~~~~~~~ 295 (310)
.||++| |||+||+|+++|.|||+|--+-+..|
T Consensus 258 ~~~~k~~~lk~~ydeseN~~i~~~rdvtdki~~~~~g~f 296 (459)
T KOG2580|consen 258 VVVRKFQELKKKYDESENPSIRASRDVTDKITDVDGGLF 296 (459)
T ss_pred cchHHHHHHHhhccccccHHHHHHHHHHHhhhhcccccc
Confidence 999999 99999999999999999987777655
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=1.6e-37 Score=300.66 Aligned_cols=202 Identities=14% Similarity=0.179 Sum_probs=170.1
Q ss_pred HHHHHHhhhChhhHHHHHHHHHHHHHhhhhHHHHhhhhHHHHHHHHhhhhhhhhhhhhhHHHHHHHHHHHHHHHHHhhhh
Q 021622 54 KKIKGEAESNPEFKHSVKELKKKAEEIKGVKEELKERTKQTTEQLYKQVDGVWMEAESTVKKVSASMKEKISAATEEVKG 133 (310)
Q Consensus 54 dnIK~E~~KNkEmKesiKkFrEeAekLe~skEaLK~rtkqtArqkyk~Vd~~~~EaEsea~KvS~~vKeKlsa~te~VkE 133 (310)
||||+|+.||+|||+|||+|+++|.+|++| |+|| .||++|+.+ |++|.++|+++++.|..+.+.|++
T Consensus 1 d~~k~E~~kskE~~enik~l~~~~~~~~es-ea~k-----~ar~~y~~~-------~~~~~~~s~~~~~~l~~~~~~v~~ 67 (378)
T TIGR00984 1 DTFRDELQKSQELQESIKQLQDRSGKLNES-DALK-----KARKAYEKA-------ESGTLKSSEVVGKTLGKLGDTMKK 67 (378)
T ss_pred CchHHHHHhhHHHHHHHHHHHHHHhhhhhh-HHHH-----HHHHHHHHH-------hcccchhhHHHHHHHHHHHHHHHH
Confidence 589999999999999999999999999996 9995 999999999 999999999999999999999999
Q ss_pred ccccccccCCcCCCCcccccCccCchhhhhhhcccccchhhhhcccccccCChhhhHHHHHHHHhHHHHHHhhhhhhhhh
Q 021622 134 TFRTGSTDTSAKHDDDVRDGFKASSGEEKQKQTVSSDTAETFYGKLKSSISSPKFTLAFQKLKEAKVVDLAKKGYDIVKD 213 (310)
Q Consensus 134 s~~~gKee~S~s~~~~~k~~~k~~~~Ee~~~a~~s~~~aet~~~k~kst~ss~~~S~afqkL~~t~~~~~isqg~e~VK~ 213 (310)
.+ .++.+|+ .+ ++ .......+|+++++ .++.+|+.||+|++|+.+|++++.+|+
T Consensus 68 ~~----~~~~~s~-~~----k~-~~~~~~~ta~~~~~----------------~~~~~~~~v~~T~~yk~vs~~~~~~k~ 121 (378)
T TIGR00984 68 MA----HKAWESE-LG----KK-MKKAGAETAKTAAE----------------HVDKSAEPVRDTAVYKHVSQSMKDGKD 121 (378)
T ss_pred HH----HHHhhcH-HH----HH-HHHHHHHHhhhhhh----------------hHHHhcccccccHHHHHHHHHHHhhhc
Confidence 99 6676665 33 21 22344446666633 899999999999999999999999999
Q ss_pred cccCCC-----------CcccccccCCCC--CCCCCCccceeeeEeeecCchhHH-HHhhhcCCcceecc-------ccC
Q 021622 214 ELSGSP-----------SKRKHLEYTPSP--SWTGEKSTRTDLVVTPSKKSMWSK-LKEKMQGYPVFKRI-------TGI 272 (310)
Q Consensus 214 El~~~~-----------~lRKR~e~~~~~--~~~~~~strt~i~vvlhKdSkWyq-wK~fk~nnp~fnR~-------des 272 (310)
|++..+ .||+|++..+.+ ....+|++.|++ +|||||+||+ |++|++|||||+|| ++|
T Consensus 122 ~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~n~~a~~v--~~~k~s~~~~~w~~fk~~~~~~~~~~~lk~~~~eS 199 (378)
T TIGR00984 122 SSRYGFIADKEQRRRPRELTKRTDGRDFAKSRVVEANESVTDV--VLHSDSSWYSKVEDFKESNVVYRKIQELKKKYDES 199 (378)
T ss_pred ccccccccchhhhhhHHHhhhhhcccccccccccccCCcccce--EEecccHHHHHHHHHHhhCHHHHHHHHHHHHhhcc
Confidence 999843 256665544221 114455555555 9999999999 99999999999999 899
Q ss_pred cchhhhhchhhhhhhheeccccce
Q 021622 273 SEPVVTKGQEVCSNRLLLTSSCFI 296 (310)
Q Consensus 273 dnpVVrasr~vtDk~~~~~~~~~~ 296 (310)
|||+|+..|.|||+|--+-++.|-
T Consensus 200 eNp~i~~~r~itdkv~~~~~~lF~ 223 (378)
T TIGR00984 200 ENPLVRMMRGVTDKIGGVFSGMFS 223 (378)
T ss_pred cChhhhHhHHhhhhhhhhhhcccC
Confidence 999999999999999887777776
No 3
>KOG2580 consensus Mitochondrial import inner membrane translocase, subunit TIM44 [Intracellular trafficking, secretion, and vesicular transport]
Probab=96.69 E-value=0.0024 Score=64.62 Aligned_cols=45 Identities=20% Similarity=0.282 Sum_probs=39.2
Q ss_pred ChhhhHHHHHHHHhHHHHHHhhhhhhhhhcccCCC-----------CcccccccCC
Q 021622 185 SPKFTLAFQKLKEAKVVDLAKKGYDIVKDELSGSP-----------SKRKHLEYTP 229 (310)
Q Consensus 185 s~~~S~afqkL~~t~~~~~isqg~e~VK~El~~~~-----------~lRKR~e~~~ 229 (310)
...++.+|.++|+|.+|..+|++++.||+|+|+.. .||+|.++..
T Consensus 165 ae~vd~~~~kv~~T~~yk~vSe~~~~vkk~~d~s~~g~~i~k~~~r~lr~r~~~~~ 220 (459)
T KOG2580|consen 165 AEEVDTFFEKVGQTAAYKAVSEVMETVKKEIDSSRYGLDIVKERPRKLRKRTEFLG 220 (459)
T ss_pred hhhhhHhhhhhhhhhhHHHHHHHHHhhcccchhhhhhhhchhhhhhhchhhhhhhc
Confidence 34699999999999999999999999999999864 3888888733
No 4
>PF07464 ApoLp-III: Apolipophorin-III precursor (apoLp-III); InterPro: IPR010009 This family consists of several insect apolipoprotein-III sequences. Exchangeable apolipoproteins constitute a functionally important family of proteins that play critical roles in lipid transport and lipoprotein metabolism. Apolipophorin III (apoLp-III) is a prototypical exchangeable apolipoprotein found in many insect species that functions in transport of diacylglycerol (DAG) from the fat body lipid storage depot to flight muscles in the adult life stage [].; GO: 0008289 lipid binding, 0006869 lipid transport, 0005576 extracellular region; PDB: 1EQ1_A.
Probab=93.28 E-value=0.097 Score=46.42 Aligned_cols=68 Identities=26% Similarity=0.445 Sum_probs=43.1
Q ss_pred HHHHHHHHHHHhhh-ChhhHHHHHHHHHHHHHhhhhHHHHhhh-------hHHHHHHHHhhhhhhhhhhhhhHHHHHHH
Q 021622 49 FKEFSKKIKGEAES-NPEFKHSVKELKKKAEEIKGVKEELKER-------TKQTTEQLYKQVDGVWMEAESTVKKVSAS 119 (310)
Q Consensus 49 fsef~dnIK~E~~K-NkEmKesiKkFrEeAekLe~skEaLK~r-------tkqtArqkyk~Vd~~~~EaEsea~KvS~~ 119 (310)
++.++.+|.+|+.. ||++.+.++.|+.+ |++..+.|+.. ..+-.+++-..|+..-+|++..+..++.+
T Consensus 43 l~~~~~~l~eeik~~n~~~~e~l~~~~~k---l~et~~~L~k~~Pev~~qa~~l~e~lQ~~vq~l~~E~qk~~k~v~~~ 118 (155)
T PF07464_consen 43 LQNVSSSLQEEIKDANPEAEEALKQLKTK---LEETAEKLRKANPEVEKQANELQEKLQSAVQSLVQESQKLAKEVSEN 118 (155)
T ss_dssp HHHHHHHHHHHHTT-SSTHHHHHHHHHHH---HHHHHHGGGG-SHHHHHT-SSSHHHHHHHHHHHHHHHHHHHHHHHS-
T ss_pred HHHHHHHHHHHHHhcChhHHHHHHHHHHH---HHHHHHHHHhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56789999999999 99999999999988 66666666511 11222334444444455555444443333
No 5
>COG1510 Predicted transcriptional regulators [Transcription]
Probab=74.41 E-value=12 Score=34.54 Aligned_cols=67 Identities=25% Similarity=0.300 Sum_probs=48.9
Q ss_pred HHHHHHHHHHhhhChhhHHHHHHHHHHHHHhhhhHHHHhhhhHHHHHHHHhhhhhhhhhhhhhHHHHHHHHHHHHHHHHH
Q 021622 50 KEFSKKIKGEAESNPEFKHSVKELKKKAEEIKGVKEELKERTKQTTEQLYKQVDGVWMEAESTVKKVSASMKEKISAATE 129 (310)
Q Consensus 50 sef~dnIK~E~~KNkEmKesiKkFrEeAekLe~skEaLK~rtkqtArqkyk~Vd~~~~EaEsea~KvS~~vKeKlsa~te 129 (310)
+-|-++++.|++.|+| .++++-++..++++ +++|..|.|+.+.+++... +.+..+.+-+..+.+
T Consensus 96 t~f~ek~~ReId~t~e---~l~k~~~e~~~~~~-~~~~~~~~ke~~~~l~~~l------------~~~~~~~~ll~~l~e 159 (177)
T COG1510 96 TLFEEKWKREIDPTKE---ALKKLLEELNEDLD-DRDLTERIKEIKSKLERLL------------KWSEDYYELLTRLLE 159 (177)
T ss_pred HHHHHHHHHHhhhHHH---HHHHHHHHcccccc-chhhhHHHHHHHHHHHHHH------------HHHHHHHHHHHHHHH
Confidence 4466899999999976 58888889888888 4788877777776666554 566667766666655
Q ss_pred hhh
Q 021622 130 EVK 132 (310)
Q Consensus 130 ~Vk 132 (310)
-+.
T Consensus 160 ~~~ 162 (177)
T COG1510 160 FLE 162 (177)
T ss_pred HHH
Confidence 443
No 6
>PLN03229 acetyl-coenzyme A carboxylase carboxyl transferase subunit alpha; Provisional
Probab=58.25 E-value=44 Score=36.84 Aligned_cols=81 Identities=19% Similarity=0.305 Sum_probs=47.6
Q ss_pred hHHHHHHHHHHHhhhC-------hhhHHHHHHHHHHHH---------HhhhhHHHHhhhhHH-----HHHHHHhhhhhhh
Q 021622 48 VFKEFSKKIKGEAESN-------PEFKHSVKELKKKAE---------EIKGVKEELKERTKQ-----TTEQLYKQVDGVW 106 (310)
Q Consensus 48 ffsef~dnIK~E~~KN-------kEmKesiKkFrEeAe---------kLe~skEaLK~rtkq-----tArqkyk~Vd~~~ 106 (310)
++++=+++||+|++++ |++|+-+..++++-+ +-...++.|+.|.+. ..+.+++.+
T Consensus 508 ~L~eK~~kLk~Efnkkl~ea~n~p~lk~Kle~Lk~~~~~~~~s~g~~~a~~Lk~ei~kki~e~~~~~~~kek~ea~---- 583 (762)
T PLN03229 508 VLMEKIEKLKDEFNKRLSRAPNYLSLKYKLDMLNEFSRAKALSEKKSKAEKLKAEINKKFKEVMDRPEIKEKMEAL---- 583 (762)
T ss_pred HHHHHHHHHHHHHHHhhhcccccHHHHHHHHHHHHHHHhhhhcccchhhhhhhHHHHHHHHHhcccHHHHHHHHHH----
Confidence 4566677888888875 688888888887754 122223445544444 233333333
Q ss_pred hhhhhhHH--------HHHHHHHHHHHHHHHhhhhcc
Q 021622 107 MEAESTVK--------KVSASMKEKISAATEEVKGTF 135 (310)
Q Consensus 107 ~EaEsea~--------KvS~~vKeKlsa~te~VkEs~ 135 (310)
-++.. -....+|+||..+.++|..-|
T Consensus 584 ---~aev~~~g~s~~~~~~~~lkeki~~~~~Ei~~ei 617 (762)
T PLN03229 584 ---KAEVASSGASSGDELDDDLKEKVEKMKKEIELEL 617 (762)
T ss_pred ---HHHHHhcCccccCCCCHHHHHHHHHHHHHHHHHH
Confidence 11111 223578888888888776444
No 7
>PF05957 DUF883: Bacterial protein of unknown function (DUF883); InterPro: IPR010279 This family consists of several bacterial proteins of unknown function that include the Escherichia coli genes for ElaB, YgaM and YqjD.
Probab=57.24 E-value=87 Score=24.75 Aligned_cols=65 Identities=11% Similarity=0.264 Sum_probs=30.3
Q ss_pred hhHHHHHHHHHHHHHhhhhHHHHhhhhHHHHHHHHhhhhhhhhhhhhhHHHHHHHHHHHHHHHHHhhh
Q 021622 65 EFKHSVKELKKKAEEIKGVKEELKERTKQTTEQLYKQVDGVWMEAESTVKKVSASMKEKISAATEEVK 132 (310)
Q Consensus 65 EmKesiKkFrEeAekLe~skEaLK~rtkqtArqkyk~Vd~~~~EaEsea~KvS~~vKeKlsa~te~Vk 132 (310)
++++.|..+++.++.|-.. +...+...++++-..+......+..........++++...+.+.+.
T Consensus 2 ~l~~~l~~l~~d~~~l~~~---~~~~~~~~~~~~r~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~ 66 (94)
T PF05957_consen 2 DLKAELEQLRADLEDLARS---AADLAGEKADEARDRAEEALDDARDRAEDAADQAREQAREAAEQTE 66 (94)
T ss_pred hHHHHHHHHHHHHHHHHHH---HHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566666676665555432 3333444444444444333333344444444444444444444433
No 8
>COG4980 GvpP Gas vesicle protein [General function prediction only]
Probab=53.88 E-value=35 Score=29.40 Aligned_cols=43 Identities=16% Similarity=0.175 Sum_probs=24.0
Q ss_pred HHHHHHHhhhhhhhhhhhhhHHHHHHHHHHHHHHHHHhhhhccccccccC
Q 021622 93 QTTEQLYKQVDGVWMEAESTVKKVSASMKEKISAATEEVKGTFRTGSTDT 142 (310)
Q Consensus 93 qtArqkyk~Vd~~~~EaEsea~KvS~~vKeKlsa~te~VkEs~~~gKee~ 142 (310)
.+|+++|..+ ...+.+.|.+.-+.++...++++++++-.++|.
T Consensus 46 ~~ae~~~~~~-------~~~a~~~s~~~a~~~~~~~~~ik~~v~~~~e~~ 88 (115)
T COG4980 46 ELAEDKGTDI-------LMIADKLSKESAETLKDQGGEIKESVKKWKEDI 88 (115)
T ss_pred HHHHHHHHHH-------HHHHHHHhHHHHHHHHHhhHHHHHHHHHhHhhc
Confidence 4566677766 555555555555555555555555554444555
No 9
>KOG2391 consensus Vacuolar sorting protein/ubiquitin receptor VPS23 [Posttranslational modification, protein turnover, chaperones; Intracellular trafficking, secretion, and vesicular transport]
Probab=53.45 E-value=56 Score=33.20 Aligned_cols=68 Identities=25% Similarity=0.352 Sum_probs=44.7
Q ss_pred chHHHHHHHH----HHHhhhChhhHHHHHHHHHHHH----HhhhhHHHHhhhhHHHHHHHHhhhhhhhhhhhhhHHHHHH
Q 021622 47 SVFKEFSKKI----KGEAESNPEFKHSVKELKKKAE----EIKGVKEELKERTKQTTEQLYKQVDGVWMEAESTVKKVSA 118 (310)
Q Consensus 47 gffsef~dnI----K~E~~KNkEmKesiKkFrEeAe----kLe~skEaLK~rtkqtArqkyk~Vd~~~~EaEsea~KvS~ 118 (310)
++.+-..++| +.||..+.-+|++||.+.|+.. ||+...|.| +|+.-.+-+.+ +
T Consensus 210 svisa~~eklR~r~eeeme~~~aeq~slkRt~EeL~~G~~kL~~~~etL----Eqq~~~L~~ni---------------D 270 (365)
T KOG2391|consen 210 SVISAVREKLRRRREEEMERLQAEQESLKRTEEELNIGKQKLVAMKETL----EQQLQSLQKNI---------------D 270 (365)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHhhHHHHHHHHHHH----HHHHHHHHhhh---------------H
Confidence 5677777766 4799999999999999988853 343333333 34444444444 4
Q ss_pred HHHHHHHHHHHhhhh
Q 021622 119 SMKEKISAATEEVKG 133 (310)
Q Consensus 119 ~vKeKlsa~te~VkE 133 (310)
+++.|..++-|..+.
T Consensus 271 IL~~k~~eal~~~~n 285 (365)
T KOG2391|consen 271 ILKSKVREALEKAEN 285 (365)
T ss_pred HHHHHHHHHHhhhcc
Confidence 677777666666665
No 10
>PRK01919 tatB sec-independent translocase; Provisional
Probab=53.08 E-value=44 Score=30.66 Aligned_cols=15 Identities=13% Similarity=0.297 Sum_probs=8.5
Q ss_pred chHHHHHHHHHHHhh
Q 021622 47 SVFKEFSKKIKGEAE 61 (310)
Q Consensus 47 gffsef~dnIK~E~~ 61 (310)
|=|..+++++|+|++
T Consensus 37 ~k~Rr~~~d~K~ev~ 51 (169)
T PRK01919 37 GRAQRYINDVKAEVS 51 (169)
T ss_pred HHHHHHHHHHHHHHH
Confidence 445555666666654
No 11
>TIGR01069 mutS2 MutS2 family protein. Function of MutS2 is unknown. It should not be considered a DNA mismatch repair protein. It is likely a DNA mismatch binding protein of unknown cellular function.
Probab=48.81 E-value=1.2e+02 Score=33.11 Aligned_cols=14 Identities=21% Similarity=0.413 Sum_probs=11.5
Q ss_pred HHhhhcCCcceecc
Q 021622 256 LKEKMQGYPVFKRI 269 (310)
Q Consensus 256 wK~fk~nnp~fnR~ 269 (310)
..+|...||++..|
T Consensus 740 v~~~L~~~~~V~~f 753 (771)
T TIGR01069 740 VQELLKNHPKVKSF 753 (771)
T ss_pred HHHHhcCCcceeee
Confidence 77888888888887
No 12
>COG0711 AtpF F0F1-type ATP synthase, subunit b [Energy production and conversion]
Probab=45.97 E-value=1.9e+02 Score=25.32 Aligned_cols=88 Identities=20% Similarity=0.316 Sum_probs=48.3
Q ss_pred CcchHHHHHHHHHHHhhhChhhHHHHHHHHHHHH-Hhhh---hHHHHhhhhHHHHHHHHhhhhhhhhhhhhhHHHHHHHH
Q 021622 45 QFSVFKEFSKKIKGEAESNPEFKHSVKELKKKAE-EIKG---VKEELKERTKQTTEQLYKQVDGVWMEAESTVKKVSASM 120 (310)
Q Consensus 45 r~gffsef~dnIK~E~~KNkEmKesiKkFrEeAe-kLe~---skEaLK~rtkqtArqkyk~Vd~~~~EaEsea~KvS~~v 120 (310)
=.++|.+--++|.++++.-...++-.....++++ +|++ -...+..-.++.|++....+ -.++|.+...--+.-
T Consensus 31 i~~~l~~R~~~I~~~l~~A~~~~~ea~~~~~~~~~~l~~Ar~~a~~Ii~~A~~~a~~~~~e~---~~~a~~e~~r~~~~a 107 (161)
T COG0711 31 ILKALDERQAKIADDLAEAERLKEEAQALLAEYEQELEEAREQASEIIEQAKKEAEQIAEEI---KAEAEEELERIKEAA 107 (161)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHH
Confidence 3678888899999998876666333222211111 1111 01223333335555555544 555566666666666
Q ss_pred HHHHHHHHHhhhhcc
Q 021622 121 KEKISAATEEVKGTF 135 (310)
Q Consensus 121 KeKlsa~te~VkEs~ 135 (310)
+..|....+.+.+.+
T Consensus 108 ~~~I~~e~~~a~~~l 122 (161)
T COG0711 108 EAEIEAEKERALEEL 122 (161)
T ss_pred HHHHHHHHHHHHHHH
Confidence 666666666666544
No 13
>PF12732 YtxH: YtxH-like protein; InterPro: IPR024623 This family of uncharacterised proteins is found in bacteria. Proteins in this family are typically between 100 and 143 amino acids in length. The N-terminal region is the most conserved.
Probab=44.90 E-value=1.1e+02 Score=23.37 Aligned_cols=11 Identities=27% Similarity=0.256 Sum_probs=4.7
Q ss_pred HHHHHHHHHHH
Q 021622 117 SASMKEKISAA 127 (310)
Q Consensus 117 S~~vKeKlsa~ 127 (310)
+..+++++.++
T Consensus 61 ~~~~~e~~~e~ 71 (74)
T PF12732_consen 61 ADEAKEKAKEL 71 (74)
T ss_pred HHHHHHHHHHh
Confidence 33344444443
No 14
>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed
Probab=39.89 E-value=2.1e+02 Score=31.30 Aligned_cols=14 Identities=21% Similarity=0.365 Sum_probs=9.8
Q ss_pred HHhhhcCCcceecc
Q 021622 256 LKEKMQGYPVFKRI 269 (310)
Q Consensus 256 wK~fk~nnp~fnR~ 269 (310)
..+|...||++..|
T Consensus 751 v~~~L~~~~~V~~f 764 (782)
T PRK00409 751 VQEFLKKHPSVKSF 764 (782)
T ss_pred HHHHHcCCCceeee
Confidence 66667777777766
No 15
>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.
Probab=37.59 E-value=2.9e+02 Score=26.16 Aligned_cols=67 Identities=24% Similarity=0.318 Sum_probs=45.9
Q ss_pred HHHHHHHHHHhhhChhhHHHHHHHHHHHHHhhhhH----HHHhhhhHHHHHHHHhhhhhhhhhhhhhHHHHHHHHH
Q 021622 50 KEFSKKIKGEAESNPEFKHSVKELKKKAEEIKGVK----EELKERTKQTTEQLYKQVDGVWMEAESTVKKVSASMK 121 (310)
Q Consensus 50 sef~dnIK~E~~KNkEmKesiKkFrEeAekLe~sk----EaLK~rtkqtArqkyk~Vd~~~~EaEsea~KvS~~vK 121 (310)
...-..|.+|+..=..--..|.+++.|.+.|.+=+ |.| +..-+=++++++++..++++-.+.-..+.
T Consensus 14 ek~k~~i~~e~~~~e~ee~~L~e~~kE~~~L~~Er~~h~eeL-----rqI~~DIn~lE~iIkqa~~er~~~~~~i~ 84 (230)
T PF10146_consen 14 EKLKNEILQEVESLENEEKCLEEYRKEMEELLQERMAHVEEL-----RQINQDINTLENIIKQAESERNKRQEKIQ 84 (230)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455666666665555677888888887776522 456 36777789999999988887665544443
No 16
>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=36.21 E-value=2.3e+02 Score=28.98 Aligned_cols=53 Identities=17% Similarity=0.303 Sum_probs=30.7
Q ss_pred HHHHHHHhhhChhhHHHHHHHHHHHHHhh-h---hHHHHhhhhHHHHHHHHhhhhhhh
Q 021622 53 SKKIKGEAESNPEFKHSVKELKKKAEEIK-G---VKEELKERTKQTTEQLYKQVDGVW 106 (310)
Q Consensus 53 ~dnIK~E~~KNkEmKesiKkFrEeAekLe-~---skEaLK~rtkqtArqkyk~Vd~~~ 106 (310)
++.+++|+.+=-| =+.+|+-|+.-++.+ + ++..++.-.++++...=+.++.+|
T Consensus 17 ik~l~~~~~~~~e-sea~k~ar~~y~~~~~~~~~~s~~~~~~l~~~~~~v~~~~~~~~ 73 (378)
T TIGR00984 17 IKQLQDRSGKLNE-SDALKKARKAYEKAESGTLKSSEVVGKTLGKLGDTMKKMAHKAW 73 (378)
T ss_pred HHHHHHHHhhhhh-hHHHHHHHHHHHHHhcccchhhHHHHHHHHHHHHHHHHHHHHHh
Confidence 3344445443222 234666666655553 2 124455555688888889999999
No 17
>PF00957 Synaptobrevin: Synaptobrevin; InterPro: IPR001388 Synaptobrevin is an intrinsic membrane protein of small synaptic vesicles [], specialised secretory organelles of neurons that actively accumulate neurotransmitters and participate in their calcium-dependent release by exocytosis. Vesicle function is mediated by proteins in their membranes, although the precise nature of the protein-protein interactions underlying this are still uncertain []. Synaptobrevin may play a role in the molecular events underlying neurotransmitter release and vesicle recycling and may be involved in the regulation of membrane flow in the nerve terminal, a process mediated by interaction with low molecular weight GTP-binding proteins []. Synaptic vesicle-associated membrane proteins (VAMPs) from Torpedo californica (Pacific electric ray) and SNC1 from yeast are related to synaptobrevin.; GO: 0016192 vesicle-mediated transport, 0016021 integral to membrane; PDB: 3EGX_C 2NUP_C 3EGD_C 2NUT_C 1IOU_A 1H8M_A 3B5N_A 3ZYM_A 2NPS_A 1SFC_E ....
Probab=32.65 E-value=1.7e+02 Score=22.70 Aligned_cols=30 Identities=13% Similarity=0.376 Sum_probs=18.3
Q ss_pred HHHHHHhhhC-hhhHHHHHHHHHHHHHhhhh
Q 021622 54 KKIKGEAESN-PEFKHSVKELKKKAEEIKGV 83 (310)
Q Consensus 54 dnIK~E~~KN-kEmKesiKkFrEeAekLe~s 83 (310)
.+|++|++.- -.|.+||.++-+.-++|+..
T Consensus 6 ~~i~~~v~~v~~im~~Ni~~ll~Rge~L~~L 36 (89)
T PF00957_consen 6 EQIQEQVEEVKNIMRENIDKLLERGEKLEEL 36 (89)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHcCchHHHH
Confidence 4555555543 24777777777776666553
No 18
>PTZ00370 STEVOR; Provisional
Probab=32.21 E-value=24 Score=34.81 Aligned_cols=17 Identities=24% Similarity=0.622 Sum_probs=14.6
Q ss_pred hhChhhHHHHHHHHHHH
Q 021622 61 ESNPEFKHSVKELKKKA 77 (310)
Q Consensus 61 ~KNkEmKesiKkFrEeA 77 (310)
+..||||+-|.+|.+||
T Consensus 54 dNDpemK~i~d~~n~ea 70 (296)
T PTZ00370 54 HNDPELKEIIDKMNEEA 70 (296)
T ss_pred CCcHHHHHHHHHHhHHH
Confidence 45899999999999875
No 19
>TIGR01478 STEVOR variant surface antigen, stevor family. This model represents the stevor branch of the rifin/stevor family (pfam02009) of predicted variant surface antigens as found in Plasmodium falciparum. This model is based on a set of stevor sequences kindly provided by Matt Berriman from the Sanger Center. This is a global model and assesses a penalty for incomplete sequence. Additional fragmentary sequences may be found with the fragment model and a cutoff of 8 bits.
Probab=30.71 E-value=30 Score=34.22 Aligned_cols=17 Identities=29% Similarity=0.645 Sum_probs=14.6
Q ss_pred hhChhhHHHHHHHHHHH
Q 021622 61 ESNPEFKHSVKELKKKA 77 (310)
Q Consensus 61 ~KNkEmKesiKkFrEeA 77 (310)
+..||||+-|.+|.+||
T Consensus 55 ~nDpEmK~iid~~n~ea 71 (295)
T TIGR01478 55 HNDPELKEIIDKLNEEA 71 (295)
T ss_pred CCcHHHHHHHHHHhHHH
Confidence 45799999999999875
No 20
>PF12732 YtxH: YtxH-like protein; InterPro: IPR024623 This family of uncharacterised proteins is found in bacteria. Proteins in this family are typically between 100 and 143 amino acids in length. The N-terminal region is the most conserved.
Probab=30.29 E-value=1.4e+02 Score=22.77 Aligned_cols=16 Identities=31% Similarity=0.393 Sum_probs=9.4
Q ss_pred HHHHHHHHHHhhhhcc
Q 021622 120 MKEKISAATEEVKGTF 135 (310)
Q Consensus 120 vKeKlsa~te~VkEs~ 135 (310)
+++++..+.++++|..
T Consensus 53 ~k~~~~~~~~~~~e~~ 68 (74)
T PF12732_consen 53 VKEKAEETADEAKEKA 68 (74)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 6666666555555543
No 21
>PF15358 TSKS: Testis-specific serine kinase substrate
Probab=29.86 E-value=2.6e+02 Score=29.55 Aligned_cols=77 Identities=21% Similarity=0.368 Sum_probs=58.7
Q ss_pred CcchHHHHHHHHHHHhhhChhhHHHHHHHHHHHHHhhhhHHHHhhhhHHHHHHHHhhhhhhhhhhhhhH---HHHHHHHH
Q 021622 45 QFSVFKEFSKKIKGEAESNPEFKHSVKELKKKAEEIKGVKEELKERTKQTTEQLYKQVDGVWMEAESTV---KKVSASMK 121 (310)
Q Consensus 45 r~gffsef~dnIK~E~~KNkEmKesiKkFrEeAekLe~skEaLK~rtkqtArqkyk~Vd~~~~EaEsea---~KvS~~vK 121 (310)
+-+-||+-+.++..|-.- +.||+.-=|.||++||+-=-.| |...|..-++||+ ||.-| ++.|+.+.
T Consensus 133 kt~~vnQHVq~LQseCsv---lsEnLErrrQEaeELEgyCsqL----k~nCrkVt~SVed----aEiKtnvLkqnS~~LE 201 (558)
T PF15358_consen 133 KTSRVNQHVQTLQSECSV---LSENLERRRQEAEELEGYCSQL----KENCRKVTRSVED----AEIKTNVLKQNSALLE 201 (558)
T ss_pred hhHHHHHHHHHHHHHhHH---HHHHHHhhhhHHHHHHHHHHHH----HHHHHHHhhhHHH----HHHHhcccccchHHHH
Confidence 456688999999988764 7889999999999999954444 5788888888843 34332 56788899
Q ss_pred HHHHHHHHhhh
Q 021622 122 EKISAATEEVK 132 (310)
Q Consensus 122 eKlsa~te~Vk 132 (310)
+||-=+..+++
T Consensus 202 ekLr~lq~qLq 212 (558)
T PF15358_consen 202 EKLRYLQQQLQ 212 (558)
T ss_pred HHHHHHHHHhc
Confidence 99887776665
No 22
>PF01442 Apolipoprotein: Apolipoprotein A1/A4/E domain; InterPro: IPR000074 Exchangeable apolipoproteins (apoA, apoC and apoE) have the same genomic structure and are members of a multi-gene family that probably evolved from a common ancestral gene. This entry includes the ApoA1, ApoA4 and ApoE proteins. ApoA1 and ApoA4 are part of the APOA1/C3/A4/A5 gene cluster on chromosome 11 []. Apolipoproteins function in lipid transport as structural components of lipoprotein particles, cofactors for enzymes and ligands for cell-surface receptors. In particular, apoA1 is the major protein component of high-density lipoproteins; apoA4 is thought to act primarily in intestinal lipid absorption; and apoE is a blood plasma protein that mediates the transport and uptake of cholesterol and lipid by way of its high affinity interaction with different cellular receptors, including the low-density lipoprotein (LDL) receptor. Recent findings with apoA1 and apoE suggest that the tertiary structures of these two members of the human exchangeable apolipoprotein gene family are related []. The three-dimensional structure of the LDL receptor-binding domain of apoE indicates that the protein forms an unusually elongated four-helix bundle that may be stabilised by a tightly packed hydrophobic core that includes leucine zipper-type interactions and by numerous salt bridges on the mostly charged surface. Basic amino acids important for LDL receptor binding are clustered into a surface patch on one long helix [].; GO: 0008289 lipid binding, 0006869 lipid transport, 0042157 lipoprotein metabolic process, 0005576 extracellular region; PDB: 1YA9_A 3S84_A 1NFN_A 1LE2_A 1B68_A 1BZ4_A 1OEG_A 2L7B_A 1LE4_A 1EA8_A ....
Probab=29.86 E-value=3.2e+02 Score=22.52 Aligned_cols=17 Identities=24% Similarity=0.294 Sum_probs=6.9
Q ss_pred HHHHHHHHhhhhhhhhh
Q 021622 92 KQTTEQLYKQVDGVWME 108 (310)
Q Consensus 92 kqtArqkyk~Vd~~~~E 108 (310)
-..++.+-..++....+
T Consensus 66 ~~~~~~~~~~l~~~~~~ 82 (202)
T PF01442_consen 66 EERIEELKNSLDSSTSE 82 (202)
T ss_dssp HHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 34444444444333333
No 23
>KOG1853 consensus LIS1-interacting protein NUDE [Cytoskeleton]
Probab=29.18 E-value=66 Score=31.85 Aligned_cols=39 Identities=33% Similarity=0.478 Sum_probs=31.5
Q ss_pred HHHHhhhChhhHHHHHHHHHHHHHhhhhHHHHhhhhHHHHHH
Q 021622 56 IKGEAESNPEFKHSVKELKKKAEEIKGVKEELKERTKQTTEQ 97 (310)
Q Consensus 56 IK~E~~KNkEmKesiKkFrEeAekLe~skEaLK~rtkqtArq 97 (310)
+-.|++--.-+-++|..+|+||.-|-| | |.+||||+-+-
T Consensus 152 LESELdEke~llesvqRLkdEardlrq--e-lavr~kq~E~p 190 (333)
T KOG1853|consen 152 LESELDEKEVLLESVQRLKDEARDLRQ--E-LAVRTKQTERP 190 (333)
T ss_pred HHHHhhHHHHHHHHHHHHHHHHHHHHH--H-HHHHHhhccCC
Confidence 346677667788999999999999998 3 99999987543
No 24
>PF04343 DUF488: Protein of unknown function, DUF488; InterPro: IPR007438 This family includes several proteins of uncharacterised function.
Probab=28.31 E-value=73 Score=26.12 Aligned_cols=30 Identities=37% Similarity=0.664 Sum_probs=27.3
Q ss_pred HHHHHHHHHHHhhhChhhHHHHHHHHHHHH
Q 021622 49 FKEFSKKIKGEAESNPEFKHSVKELKKKAE 78 (310)
Q Consensus 49 fsef~dnIK~E~~KNkEmKesiKkFrEeAe 78 (310)
+.+|.++-.+|+..|+++++-|.++.+.+.
T Consensus 69 ~~~f~~~Y~~~l~~~~~~~~~l~~L~~~~~ 98 (122)
T PF04343_consen 69 WDEFFERYRAELESNPEFQEGLERLAELAR 98 (122)
T ss_pred HHHHHHHHHHHHcccHhHHHHHHHHHHHHc
Confidence 899999999999999999999999987753
No 25
>PHA01794 hypothetical protein
Probab=26.52 E-value=2.6e+02 Score=25.02 Aligned_cols=44 Identities=11% Similarity=0.155 Sum_probs=35.1
Q ss_pred cchHHHHHHHHHHHhhhChhhHHHHHHHHHHHHHhhhhHHHHhhhhH
Q 021622 46 FSVFKEFSKKIKGEAESNPEFKHSVKELKKKAEEIKGVKEELKERTK 92 (310)
Q Consensus 46 ~gffsef~dnIK~E~~KNkEmKesiKkFrEeAekLe~skEaLK~rtk 92 (310)
-|=++++++-|++||...-=|+.-|++.=|- +|-+-+.|+.|+.
T Consensus 70 e~~~e~lF~eleqEm~~SGFF~~ki~kyien---~EK~~~yl~~k~~ 113 (134)
T PHA01794 70 EGTTEGLFAELEKEMVDSGFFRAKIKKYIEN---MEKSARYLKAKDD 113 (134)
T ss_pred cchHHHHHHHHHHHHHHhhHHHHHHHHHHHH---HHHHHHHhhccCc
Confidence 4668899999999999999999999999777 5555566864443
No 26
>PLN03229 acetyl-coenzyme A carboxylase carboxyl transferase subunit alpha; Provisional
Probab=24.93 E-value=2.6e+02 Score=31.15 Aligned_cols=15 Identities=27% Similarity=0.423 Sum_probs=8.2
Q ss_pred hHHHHHHHHHHHhhh
Q 021622 48 VFKEFSKKIKGEAES 62 (310)
Q Consensus 48 ffsef~dnIK~E~~K 62 (310)
++++-|++||+|++.
T Consensus 459 ~L~e~IeKLk~E~d~ 473 (762)
T PLN03229 459 ALNEMIEKLKKEIDL 473 (762)
T ss_pred HHHHHHHHHHHHHHH
Confidence 455555555555543
No 27
>PF01442 Apolipoprotein: Apolipoprotein A1/A4/E domain; InterPro: IPR000074 Exchangeable apolipoproteins (apoA, apoC and apoE) have the same genomic structure and are members of a multi-gene family that probably evolved from a common ancestral gene. This entry includes the ApoA1, ApoA4 and ApoE proteins. ApoA1 and ApoA4 are part of the APOA1/C3/A4/A5 gene cluster on chromosome 11 []. Apolipoproteins function in lipid transport as structural components of lipoprotein particles, cofactors for enzymes and ligands for cell-surface receptors. In particular, apoA1 is the major protein component of high-density lipoproteins; apoA4 is thought to act primarily in intestinal lipid absorption; and apoE is a blood plasma protein that mediates the transport and uptake of cholesterol and lipid by way of its high affinity interaction with different cellular receptors, including the low-density lipoprotein (LDL) receptor. Recent findings with apoA1 and apoE suggest that the tertiary structures of these two members of the human exchangeable apolipoprotein gene family are related []. The three-dimensional structure of the LDL receptor-binding domain of apoE indicates that the protein forms an unusually elongated four-helix bundle that may be stabilised by a tightly packed hydrophobic core that includes leucine zipper-type interactions and by numerous salt bridges on the mostly charged surface. Basic amino acids important for LDL receptor binding are clustered into a surface patch on one long helix [].; GO: 0008289 lipid binding, 0006869 lipid transport, 0042157 lipoprotein metabolic process, 0005576 extracellular region; PDB: 1YA9_A 3S84_A 1NFN_A 1LE2_A 1B68_A 1BZ4_A 1OEG_A 2L7B_A 1LE4_A 1EA8_A ....
Probab=24.74 E-value=4e+02 Score=21.94 Aligned_cols=51 Identities=24% Similarity=0.356 Sum_probs=26.8
Q ss_pred HHHhhhhHHHHHHHHhhhhhhhhhhhhhHHHHHHHHHHHHHHHHHhhhhcc
Q 021622 85 EELKERTKQTTEQLYKQVDGVWMEAESTVKKVSASMKEKISAATEEVKGTF 135 (310)
Q Consensus 85 EaLK~rtkqtArqkyk~Vd~~~~EaEsea~KvS~~vKeKlsa~te~VkEs~ 135 (310)
+.|..+....+..+-..++....+.+.........+.+.|....+.+.+.|
T Consensus 81 ~~~~~~l~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~i 131 (202)
T PF01442_consen 81 SELDESLSERAEELKERLEARAEELESRLEEEVDELEESLESRSEELKEKI 131 (202)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHH
T ss_pred HHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Confidence 334444445555555555555555555555555555555555555555444
No 28
>PRK06569 F0F1 ATP synthase subunit B'; Validated
Probab=22.34 E-value=4.7e+02 Score=23.53 Aligned_cols=73 Identities=16% Similarity=0.257 Sum_probs=38.4
Q ss_pred chHHHHHHHHHHHhhhChhhHHHHHHHHHHHHHhhhhHHHHhhhhHHHHHHHHhh-hhhhhhhhhhhHHHHHHHHHHHHH
Q 021622 47 SVFKEFSKKIKGEAESNPEFKHSVKELKKKAEEIKGVKEELKERTKQTTEQLYKQ-VDGVWMEAESTVKKVSASMKEKIS 125 (310)
Q Consensus 47 gffsef~dnIK~E~~KNkEmKesiKkFrEeAekLe~skEaLK~rtkqtArqkyk~-Vd~~~~EaEsea~KvS~~vKeKls 125 (310)
+++.+=-+.|.+.++.-.++ +++|++++..-++.-...++.|.++-.. .|.+-.|++++-+.+-+.+++-|.
T Consensus 37 ~iLe~R~~~I~~~L~~Ae~~-------k~eAe~l~a~ye~~L~~Ar~eA~~I~~e~~~~~~a~~~~~~~~~ea~L~~~~~ 109 (155)
T PRK06569 37 EIFNNRQTNIQDNITQADTL-------TIEVEKLNKYYNEEIDKTNTEIDRLKKEKIDSLESEFLIKKKNLEQDLKNSIN 109 (155)
T ss_pred HHHHHHHHHHHhHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444445555555544444 4444444333333332333444444433 666777777777777777777664
Q ss_pred H
Q 021622 126 A 126 (310)
Q Consensus 126 a 126 (310)
.
T Consensus 110 ~ 110 (155)
T PRK06569 110 Q 110 (155)
T ss_pred H
Confidence 3
No 29
>TIGR01477 RIFIN variant surface antigen, rifin family. This model represents the rifin branch of the rifin/stevor family (pfam02009) of predicted variant surface antigens as found in Plasmodium falciparum. This model is based on a set of rifin sequences kindly provided by Matt Berriman from the Sanger Center. This is a global model and assesses a penalty for incomplete sequence. Additional fragmentary sequences may be found with the fragment model and a cutoff of 20 bits.
Probab=21.64 E-value=1.2e+02 Score=30.82 Aligned_cols=53 Identities=19% Similarity=0.479 Sum_probs=39.0
Q ss_pred hhChhhHHHHHHHHHH-HHHhhhhHHHHhhhhHHHHHHHHhhhhhhhhhhhhhHHHHHHHHHHHHHH
Q 021622 61 ESNPEFKHSVKELKKK-AEEIKGVKEELKERTKQTTEQLYKQVDGVWMEAESTVKKVSASMKEKISA 126 (310)
Q Consensus 61 ~KNkEmKesiKkFrEe-AekLe~skEaLK~rtkqtArqkyk~Vd~~~~EaEsea~KvS~~vKeKlsa 126 (310)
+..||||+-|..|... .|++++-.|-+ |+.||++|-= =+.+-+|. .+|+||+.
T Consensus 55 DNDPeMK~Vm~nF~rqTsQRF~EYdERM-----~~kRqKcKeq------CDKeIQKI--ILKDKiEK 108 (353)
T TIGR01477 55 DNDPEMKSVMEQFDRQTSQRFEEYDERM-----QEKRQKCKEQ------CDKEIQKI--ILKDKLEK 108 (353)
T ss_pred CCcHHHHHHHHHHhHHHHHHHHhHHHHH-----HHhhhhhHHh------hchHHHHH--HHHHHHHH
Confidence 5689999999999654 57888876666 5889999742 13334544 78999875
No 30
>KOG0963 consensus Transcription factor/CCAAT displacement protein CDP1 [Transcription]
Probab=21.50 E-value=5.5e+02 Score=28.17 Aligned_cols=77 Identities=13% Similarity=0.311 Sum_probs=54.1
Q ss_pred HHHHHhhhChhhHHHHHHHHHHHHHhhhhHHHHhhhhHHHHHHHHhhhhhhhhhhhhhHHHHHHHHHHHHHHHHHhhhhc
Q 021622 55 KIKGEAESNPEFKHSVKELKKKAEEIKGVKEELKERTKQTTEQLYKQVDGVWMEAESTVKKVSASMKEKISAATEEVKGT 134 (310)
Q Consensus 55 nIK~E~~KNkEmKesiKkFrEeAekLe~skEaLK~rtkqtArqkyk~Vd~~~~EaEsea~KvS~~vKeKlsa~te~VkEs 134 (310)
.+..|+.--+..+-.|..++++..++++- +..+.++.|--+-.-...-|.|-|+.=...-.++.++++.+..+|...
T Consensus 132 e~~~el~~~k~qq~~v~~l~e~l~k~~~~---~~~~ie~~a~~~e~~~~q~~~e~e~~L~~~~~~~~~q~~~le~ki~~l 208 (629)
T KOG0963|consen 132 EVNNELADLKTQQVTVRNLKERLRKLEQL---LEIFIENAANETEEKLEQEWAEREAGLKDEEQNLQEQLEELEKKISSL 208 (629)
T ss_pred HHHHHHhhhhhhHHHHHhHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444555555566666666666666653 445555555566666667788888888999999999999999999865
No 31
>CHL00118 atpG ATP synthase CF0 B' subunit; Validated
Probab=21.43 E-value=5.3e+02 Score=22.19 Aligned_cols=24 Identities=21% Similarity=0.243 Sum_probs=12.1
Q ss_pred HHHHHHhhhChhhHHHHHHHHHHH
Q 021622 54 KKIKGEAESNPEFKHSVKELKKKA 77 (310)
Q Consensus 54 dnIK~E~~KNkEmKesiKkFrEeA 77 (310)
+.|.+.++.-.+.++...+..+++
T Consensus 56 ~~I~~~l~~Ae~~~~ea~~~~~e~ 79 (156)
T CHL00118 56 EYIRKNLTKASEILAKANELTKQY 79 (156)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445555555555555554444443
No 32
>PTZ00046 rifin; Provisional
Probab=20.30 E-value=1.4e+02 Score=30.24 Aligned_cols=53 Identities=17% Similarity=0.466 Sum_probs=38.8
Q ss_pred hhChhhHHHHHHHHHH-HHHhhhhHHHHhhhhHHHHHHHHhhhhhhhhhhhhhHHHHHHHHHHHHHH
Q 021622 61 ESNPEFKHSVKELKKK-AEEIKGVKEELKERTKQTTEQLYKQVDGVWMEAESTVKKVSASMKEKISA 126 (310)
Q Consensus 61 ~KNkEmKesiKkFrEe-AekLe~skEaLK~rtkqtArqkyk~Vd~~~~EaEsea~KvS~~vKeKlsa 126 (310)
+..||||+-|..|... .+++++-.|-+ |+.||++|-= =..+-+|. .+|+||+.
T Consensus 52 DNDPeMK~Vme~F~rqTsQRF~EYdERM-----~~kRqkcKeq------CDKeIQKI--ILKDKlEK 105 (358)
T PTZ00046 52 DNDPEMKSVMENFDRQTSQRFEEYDERM-----KEKRQKCKEQ------CDKEIQKI--ILKDKLEK 105 (358)
T ss_pred CCcHHHHHHHHHHhHHHHHHHHHHHHHH-----HHHHHHHHHh------hchHHHHH--HHHHHHHH
Confidence 4689999999999654 57888877777 5889998732 13334444 78999876
No 33
>PF03908 Sec20: Sec20; InterPro: IPR005606 Sec20 is a membrane glycoprotein associated with secretory pathway.
Probab=20.22 E-value=4.4e+02 Score=20.83 Aligned_cols=35 Identities=11% Similarity=0.190 Sum_probs=29.4
Q ss_pred ChhhHHHHHHHHHHHHHhhhhHHHHhhhhHHHHHHHHhhh
Q 021622 63 NPEFKHSVKELKKKAEEIKGVKEELKERTKQTTEQLYKQV 102 (310)
Q Consensus 63 NkEmKesiKkFrEeAekLe~skEaLK~rtkqtArqkyk~V 102 (310)
+.=|.+.+..-..-++.|.++++.| +.+...|..+
T Consensus 14 ~~~m~~ev~~s~~t~~~L~~Ss~~L-----~~~~~e~~~~ 48 (92)
T PF03908_consen 14 RQMMAQEVERSELTLQTLEESSATL-----RSTNDEYDGQ 48 (92)
T ss_pred HHHHHHHHHHHHHHHHHHHHhHHHH-----HHHHHHHHHH
Confidence 3457777888888889999999999 4999999999
No 34
>cd06571 Bac_DnaA_C C-terminal domain of bacterial DnaA proteins. The DNA-binding C-terminal domain of DnaA contains a helix-turn-helix motif that specifically interacts with the DnaA box, a 9-mer motif that occurs repetitively in the replication origin oriC. Multiple copies of DnaA, which is an ATPase, bind to 9-mers at the origin and form an initial complex in which the DNA strands are being separated in an ATP-dependent step.
Probab=20.19 E-value=1.8e+02 Score=22.89 Aligned_cols=34 Identities=35% Similarity=0.489 Sum_probs=29.8
Q ss_pred CCCCcchHHHHHHHHHHHhhhChhhHHHHHHHHH
Q 021622 42 SNRQFSVFKEFSKKIKGEAESNPEFKHSVKELKK 75 (310)
Q Consensus 42 ~~rr~gffsef~dnIK~E~~KNkEmKesiKkFrE 75 (310)
++|..+-.+.=++.|...+..||+|+.-|..+..
T Consensus 55 g~r~hStV~~a~~ri~~~~~~d~~~~~~v~~i~~ 88 (90)
T cd06571 55 GGRDHSTVLHAVRKIEELLEEDPELKEDVEELEK 88 (90)
T ss_pred CCCCHhHHHHHHHHHHHHHHhCHHHHHHHHHHHH
Confidence 5588899999999999999999999988877754
Done!