Query 028106
Match_columns 213
No_of_seqs 168 out of 727
Neff 7.4
Searched_HMMs 46136
Date Fri Mar 29 06:20:15 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028106.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/028106hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03160 uncharacterized prote 100.0 2E-40 4.4E-45 276.5 26.3 159 54-213 55-216 (219)
2 PF03168 LEA_2: Late embryogen 99.5 7.3E-14 1.6E-18 101.7 9.8 97 95-195 1-100 (101)
3 PF07092 DUF1356: Protein of u 99.5 2.8E-12 6.1E-17 107.1 18.8 125 18-146 56-181 (238)
4 smart00769 WHy Water Stress an 99.0 4.3E-09 9.3E-14 77.4 11.2 76 87-166 12-88 (100)
5 COG5608 LEA14-like dessication 98.4 7.9E-05 1.7E-09 58.4 16.5 109 63-182 30-139 (161)
6 PF12751 Vac7: Vacuolar segreg 97.6 0.00016 3.4E-09 64.6 6.4 80 40-124 302-382 (387)
7 PLN03160 uncharacterized prote 90.5 8.9 0.00019 32.0 12.3 42 37-80 33-76 (219)
8 PF11837 DUF3357: Domain of un 90.2 0.086 1.9E-06 39.2 0.0 13 8-20 3-15 (106)
9 PRK05529 cell division protein 81.2 1.7 3.6E-05 37.2 3.3 46 65-110 58-128 (255)
10 PF14155 DUF4307: Domain of un 81.1 14 0.00031 27.5 7.9 74 42-127 7-82 (112)
11 PF11906 DUF3426: Protein of u 80.4 13 0.00029 28.5 8.0 76 68-145 48-135 (149)
12 PRK10893 lipopolysaccharide ex 75.8 33 0.00072 28.0 9.3 50 63-116 38-87 (192)
13 PF07705 CARDB: CARDB; InterP 63.9 45 0.00098 22.9 8.9 54 89-146 18-71 (101)
14 PF09865 DUF2092: Predicted pe 58.4 77 0.0017 26.4 8.2 38 86-123 35-74 (214)
15 PF07423 DUF1510: Protein of u 55.5 6.9 0.00015 32.8 1.5 22 42-63 16-37 (217)
16 PF11797 DUF3324: Protein of u 54.2 97 0.0021 23.7 12.3 89 63-174 25-115 (140)
17 PF04790 Sarcoglycan_1: Sarcog 49.7 1.7E+02 0.0037 25.2 9.3 17 86-102 82-98 (264)
18 PF00927 Transglut_C: Transglu 46.9 57 0.0012 23.4 5.1 58 87-144 12-74 (107)
19 PF14874 PapD-like: Flagellar- 46.6 1E+02 0.0022 21.7 8.3 55 88-145 18-72 (102)
20 TIGR02588 conserved hypothetic 44.2 46 0.00099 25.4 4.2 36 58-102 26-61 (122)
21 PF06919 Phage_T4_Gp30_7: Phag 43.2 58 0.0013 24.2 4.5 38 100-137 40-78 (121)
22 KOG3950 Gamma/delta sarcoglyca 41.8 9.1 0.0002 32.7 0.1 20 85-104 103-123 (292)
23 PF11322 DUF3124: Protein of u 39.2 1.1E+02 0.0025 23.3 5.7 53 87-142 20-75 (125)
24 PF09307 MHC2-interact: CLIP, 38.9 10 0.00022 28.6 0.0 16 47-62 39-57 (114)
25 PF06072 Herpes_US9: Alphaherp 38.8 7.3 0.00016 25.8 -0.7 14 37-50 29-42 (60)
26 PF12505 DUF3712: Protein of u 38.7 83 0.0018 23.4 5.1 26 89-114 99-124 (125)
27 PF12734 CYSTM: Cysteine-rich 38.5 34 0.00074 20.3 2.2 9 38-46 17-25 (37)
28 PF13598 DUF4139: Domain of un 37.1 1.8E+02 0.004 25.0 7.7 41 87-129 163-203 (317)
29 PF10814 DUF2562: Protein of u 35.3 20 0.00043 27.4 1.0 7 56-62 107-113 (133)
30 PRK06531 yajC preprotein trans 30.4 28 0.0006 26.2 1.2 18 48-65 7-24 (113)
31 COG3121 FimC P pilus assembly 28.1 1.1E+02 0.0024 25.7 4.6 42 95-141 166-207 (235)
32 COG4736 CcoQ Cbb3-type cytochr 28.0 22 0.00047 23.7 0.2 19 47-65 16-34 (60)
33 TIGR02231 conserved hypothetic 26.3 3.1E+02 0.0066 25.7 7.7 57 68-128 344-401 (525)
34 PF05545 FixQ: Cbb3-type cytoc 24.4 27 0.00058 21.8 0.1 19 47-65 16-34 (49)
35 COG4698 Uncharacterized protei 24.1 34 0.00074 27.9 0.7 22 54-75 27-48 (197)
36 COG5473 Predicted integral mem 23.8 51 0.0011 28.6 1.7 19 2-20 22-40 (290)
37 PF06835 LptC: Lipopolysacchar 22.6 3.5E+02 0.0075 20.5 6.5 43 88-130 51-93 (176)
38 PF07787 DUF1625: Protein of u 22.1 52 0.0011 27.8 1.5 16 48-63 233-248 (248)
39 PF15018 InaF-motif: TRP-inter 20.9 1.1E+02 0.0023 18.5 2.2 15 51-65 21-36 (38)
40 cd01324 cbb3_Oxidase_CcoQ Cyto 20.5 41 0.0009 21.1 0.4 16 50-65 20-35 (48)
No 1
>PLN03160 uncharacterized protein; Provisional
Probab=100.00 E-value=2e-40 Score=276.51 Aligned_cols=159 Identities=21% Similarity=0.421 Sum_probs=146.2
Q ss_pred HhheeeEEecCCCeEEEEEEEEcceeecCC--CCceeeEEEEEEEEEEcCCceEEEEcceEEEEEECCEEEeeeEeCCCc
Q 028106 54 LAVLVFIFYPSDPYLQLARIHLNHIRVNSS--PQPTLDLSFSLVVKVHNRDFFSLNYDSLDVSIGYRGRELGSVRSHGGR 131 (213)
Q Consensus 54 l~~~~~v~~P~~P~~~V~~~~l~~f~~~~~--p~~~l~~~l~~~v~v~NPN~~~i~y~~~~~~v~Y~g~~lg~~~~p~f~ 131 (213)
++++|++||||+|+|+|+++++++|+++.. +...+|++++++++++|||+++|+|+++++.++|+|+.+|++.+|+|+
T Consensus 55 ~~l~~~vfrPk~P~~~v~~v~l~~~~~~~~~~~~~~~n~tl~~~v~v~NPN~~~~~Y~~~~~~v~Y~g~~vG~a~~p~g~ 134 (219)
T PLN03160 55 LVLVFTVFRVKDPVIKMNGVTVTKLELINNTTLRPGTNITLIADVSVKNPNVASFKYSNTTTTIYYGGTVVGEARTPPGK 134 (219)
T ss_pred HheeeEEEEccCCeEEEEEEEEeeeeeccCCCCceeEEEEEEEEEEEECCCceeEEEcCeEEEEEECCEEEEEEEcCCcc
Confidence 346899999999999999999999998652 246789999999999999999999999999999999999999999999
Q ss_pred cCCCCeEEEEEEEEEcceeeccchHHHHhhhhcCeEeEEEEEEEEEEEEEE-EEeeceEEEEEEEEEEeCCcceeecCcC
Q 028106 132 VRARGSSYVNASLKLNGLEVIHDVIYLIEDLIKGVIPFDTVTMVKGELGVL-FFEIPLKAKVSCEVYVNTSNQTIVRQDC 210 (213)
Q Consensus 132 ~~~r~tt~v~~~v~~~~~~l~~~~~~l~~D~~~G~v~l~~~~~v~grv~v~-~~~~~~~~~v~C~v~v~~~~~~i~~~~C 210 (213)
|++++++.+++++.+.+.++.++ .+|.+|+++|.++|+++++++||++++ +++++++++++|++.|+..++++++++|
T Consensus 135 ~~ar~T~~l~~tv~~~~~~~~~~-~~L~~D~~~G~v~l~~~~~v~gkVkv~~i~k~~v~~~v~C~v~V~~~~~~i~~~~C 213 (219)
T PLN03160 135 AKARRTMRMNVTVDIIPDKILSV-PGLLTDISSGLLNMNSYTRIGGKVKILKIIKKHVVVKMNCTMTVNITSQAIQGQKC 213 (219)
T ss_pred cCCCCeEEEEEEEEEEeceeccc-hhHHHHhhCCeEEEEEEEEEEEEEEEEEEEEEEEEEEEEeEEEEECCCCEEeccEe
Confidence 99999999999998888776654 579999999999999999999999999 6688999999999999999999999999
Q ss_pred ccC
Q 028106 211 YPE 213 (213)
Q Consensus 211 ~~~ 213 (213)
+.+
T Consensus 214 ~~~ 216 (219)
T PLN03160 214 KRH 216 (219)
T ss_pred ccc
Confidence 875
No 2
>PF03168 LEA_2: Late embryogenesis abundant protein; InterPro: IPR004864 Different types of LEA proteins are expressed at different stages of late embryogenesis in higher plant seed embryos and under conditions of dehydration stress [, ]. The function of these proteins is unknown. ; PDB: 3BUT_A 1XO8_A 1YYC_A.
Probab=99.53 E-value=7.3e-14 Score=101.73 Aligned_cols=97 Identities=26% Similarity=0.405 Sum_probs=75.5
Q ss_pred EEEEEcCCceEEEEcceEEEEEECCEEEe-eeEeCCCccCCCCeEEEEEEEEEcceeeccchHHHHhhhhcCeEeEEEEE
Q 028106 95 VVKVHNRDFFSLNYDSLDVSIGYRGRELG-SVRSHGGRVRARGSSYVNASLKLNGLEVIHDVIYLIEDLIKGVIPFDTVT 173 (213)
Q Consensus 95 ~v~v~NPN~~~i~y~~~~~~v~Y~g~~lg-~~~~p~f~~~~r~tt~v~~~v~~~~~~l~~~~~~l~~D~~~G~v~l~~~~ 173 (213)
+|+++|||.++++|++.+++++|+|..+| ....++|+|++++++.+.+.+.++...+ ...+.++. +|..++++.+
T Consensus 1 ~l~v~NPN~~~i~~~~~~~~v~~~g~~v~~~~~~~~~~i~~~~~~~v~~~v~~~~~~l---~~~l~~~~-~~~~~~~v~~ 76 (101)
T PF03168_consen 1 TLSVRNPNSFGIRYDSIEYDVYYNGQRVGTGGSLPPFTIPARSSTTVPVPVSVDYSDL---PRLLKDLL-AGRVPFDVTY 76 (101)
T ss_dssp EEEEEESSSS-EEEEEEEEEEEESSSEEEEEEECE-EEESSSCEEEEEEEEEEEHHHH---HHHHHHHH-HTTSCEEEEE
T ss_pred CEEEECCCceeEEEeCEEEEEEECCEEEECccccCCeEECCCCcEEEEEEEEEcHHHH---HHHHHhhh-ccccceEEEE
Confidence 58999999999999999999999999999 6778999999999999998887776553 33455555 7778889999
Q ss_pred EEEEEEEE-E-EEeeceEEEEEEE
Q 028106 174 MVKGELGV-L-FFEIPLKAKVSCE 195 (213)
Q Consensus 174 ~v~grv~v-~-~~~~~~~~~v~C~ 195 (213)
+++|++++ + .+..+..+.++|+
T Consensus 77 ~~~g~~~v~~~~~~~~~~v~~~~~ 100 (101)
T PF03168_consen 77 RIRGTFKVLGTPIFGSVRVPVSCE 100 (101)
T ss_dssp EEEEEEE-EE-TTTSCEEEEEEEE
T ss_pred EEEEEEEEcccceeeeEEEeEEeE
Confidence 99999995 3 2234555555554
No 3
>PF07092 DUF1356: Protein of unknown function (DUF1356); InterPro: IPR009790 This family consists of several hypothetical mammalian proteins of around 250 residues in length. The function of this family is unknown.
Probab=99.51 E-value=2.8e-12 Score=107.09 Aligned_cols=125 Identities=17% Similarity=0.322 Sum_probs=102.7
Q ss_pred CceeeccCCCCCchhhhhcccCcceehhHHHHHHHHHhheeeEEecCCCeEEEEEEEEcceeecCCCCceeeEEEEEEEE
Q 028106 18 ENVIVLPVYYQPDLRRWRRRRNLSRCLCTAAAIASLLAVLVFIFYPSDPYLQLARIHLNHIRVNSSPQPTLDLSFSLVVK 97 (213)
Q Consensus 18 ~~~~~~~p~~~~~~~~~~~~~~~~~c~~~~~~~l~ll~~~~~v~~P~~P~~~V~~~~l~~f~~~~~p~~~l~~~l~~~v~ 97 (213)
++.+||+|+.++|.|+| |.++ ..++.++++|++.+++.|.|-||.-.++-.++......++.. ...+..+++-.++
T Consensus 56 ~qLVALIPy~DqRLKPr--RTkl-yV~~sV~~CLl~~~L~iFFLfPRsV~v~~~gv~s~~V~f~~~-~~~v~l~itn~lN 131 (238)
T PF07092_consen 56 NQLVALIPYSDQRLKPR--RTKL-YVFLSVLLCLLLSGLVIFFLFPRSVTVSPVGVKSVTVSFNPD-KSTVQLNITNTLN 131 (238)
T ss_pred hcEEEEEeccccccCCc--eeEE-EeeHHHHHHHHHHHheEEEEeCcEEEEecCcEEEEEEEEeCC-CCEEEEEEEEEEE
Confidence 45589999999999886 5556 778888889999998888888988777666655555555432 2468889999999
Q ss_pred EEcCCceEEEEcceEEEEEECCEEEeeeEeCCC-ccCCCCeEEEEEEEEE
Q 028106 98 VHNRDFFSLNYDSLDVSIGYRGRELGSVRSHGG-RVRARGSSYVNASLKL 146 (213)
Q Consensus 98 v~NPN~~~i~y~~~~~~v~Y~g~~lg~~~~p~f-~~~~r~tt~v~~~v~~ 146 (213)
+.|||++++...+.++++.|....+|.+..... .+++++.+.+..++..
T Consensus 132 IsN~NFy~V~Vt~~s~qv~~~~~VVG~~~~~~~~~I~Prs~~q~~~tV~t 181 (238)
T PF07092_consen 132 ISNPNFYPVTVTNLSIQVLYMKTVVGKGKNSNITVIGPRSSKQVNYTVKT 181 (238)
T ss_pred ccCCCEEEEEEEeEEEEEEEEEeEEeeeEecceEEecccCCceEEEEeeE
Confidence 999999999999999999999999999988766 7899998888876654
No 4
>smart00769 WHy Water Stress and Hypersensitive response.
Probab=99.04 E-value=4.3e-09 Score=77.41 Aligned_cols=76 Identities=25% Similarity=0.344 Sum_probs=65.3
Q ss_pred eeeEEEEEEEEEEcCCceEEEEcceEEEEEECCEEEeeeEeC-CCccCCCCeEEEEEEEEEcceeeccchHHHHhhhhcC
Q 028106 87 TLDLSFSLVVKVHNRDFFSLNYDSLDVSIGYRGRELGSVRSH-GGRVRARGSSYVNASLKLNGLEVIHDVIYLIEDLIKG 165 (213)
Q Consensus 87 ~l~~~l~~~v~v~NPN~~~i~y~~~~~~v~Y~g~~lg~~~~p-~f~~~~r~tt~v~~~v~~~~~~l~~~~~~l~~D~~~G 165 (213)
.++.++.+.+++.|||.+++.+++.+.+++|+|..+|++..+ .+.+++++++.+.+++.+.. .+...+..++.+|
T Consensus 12 ~~~~~~~l~l~v~NPN~~~l~~~~~~y~l~~~g~~v~~g~~~~~~~ipa~~~~~v~v~~~~~~----~~~~~~~~~l~~~ 87 (100)
T smart00769 12 GLEIEIVLKVKVQNPNPFPIPVNGLSYDLYLNGVELGSGEIPDSGTLPGNGRTVLDVPVTVNL----FLAEALIWHIANG 87 (100)
T ss_pred ceEEEEEEEEEEECCCCCccccccEEEEEEECCEEEEEEEcCCCcEECCCCcEEEEEEEEeeh----hHhHHHHHhhccC
Confidence 678899999999999999999999999999999999999985 79999999999999988732 2234567777766
Q ss_pred e
Q 028106 166 V 166 (213)
Q Consensus 166 ~ 166 (213)
.
T Consensus 88 ~ 88 (100)
T smart00769 88 E 88 (100)
T ss_pred C
Confidence 4
No 5
>COG5608 LEA14-like dessication related protein [Defense mechanisms]
Probab=98.35 E-value=7.9e-05 Score=58.39 Aligned_cols=109 Identities=14% Similarity=0.206 Sum_probs=82.1
Q ss_pred cCCCeEEEEEEEEcceeecCCCCceeeEEEEEEEEEEcCCceEEEEcceEEEEEECCEEEeeeEe-CCCccCCCCeEEEE
Q 028106 63 PSDPYLQLARIHLNHIRVNSSPQPTLDLSFSLVVKVHNRDFFSLNYDSLDVSIGYRGRELGSVRS-HGGRVRARGSSYVN 141 (213)
Q Consensus 63 P~~P~~~V~~~~l~~f~~~~~p~~~l~~~l~~~v~v~NPN~~~i~y~~~~~~v~Y~g~~lg~~~~-p~f~~~~r~tt~v~ 141 (213)
-++|.+.--.++.-...- ....+-.+++++|||-+++-..+.+.+++-+|..+|++.. .++.+++++..+++
T Consensus 30 ~~~p~ve~~ka~wGkvt~-------s~~EiV~t~KiyNPN~fPipVtgl~y~vymN~Iki~eG~~~k~~~v~p~S~~tvd 102 (161)
T COG5608 30 VKKPGVESMKAKWGKVTN-------SETEIVGTLKIYNPNPFPIPVTGLQYAVYMNDIKIGEGEILKGTTVPPNSRETVD 102 (161)
T ss_pred cCCCCceEEEEEEEEEec-------cceEEEEEEEecCCCCcceeeeceEEEEEEcceEeeccccccceEECCCCeEEEE
Confidence 467888777777766542 4456788999999999999999999999999999999985 56899999999999
Q ss_pred EEEEEcceeeccchHHHHhhhhcCeEeEEEEEEEEEEEEEE
Q 028106 142 ASLKLNGLEVIHDVIYLIEDLIKGVIPFDTVTMVKGELGVL 182 (213)
Q Consensus 142 ~~v~~~~~~l~~~~~~l~~D~~~G~v~l~~~~~v~grv~v~ 182 (213)
+++.++...+ ......++.+|+=. .+++++.+.++++
T Consensus 103 v~l~~d~~~~---ke~w~~hi~ngErs-~Ir~~i~~~v~vg 139 (161)
T COG5608 103 VPLRLDNSKI---KEWWVTHIENGERS-TIRVRIKGVVKVG 139 (161)
T ss_pred EEEEEehHHH---HHHHHHHhhccCcc-cEEEEEEEEEEEc
Confidence 9988876443 22345577777521 2344455555554
No 6
>PF12751 Vac7: Vacuolar segregation subunit 7; InterPro: IPR024260 Vac7 is localised at the vacuole membrane, a location which is consistent with its involvement in vacuole morphology and inheritance []. Vac7 has been shown to function as an upstream regulator of the Fab1 lipid kinase pathway []. The Fab1 lipid pathway is important for correct regulation of membrane trafficking events.
Probab=97.58 E-value=0.00016 Score=64.58 Aligned_cols=80 Identities=19% Similarity=0.489 Sum_probs=51.6
Q ss_pred cceehhHHHHHHHHHh-heeeEEecCCCeEEEEEEEEcceeecCCCCceeeEEEEEEEEEEcCCceEEEEcceEEEEEEC
Q 028106 40 LSRCLCTAAAIASLLA-VLVFIFYPSDPYLQLARIHLNHIRVNSSPQPTLDLSFSLVVKVHNRDFFSLNYDSLDVSIGYR 118 (213)
Q Consensus 40 ~~~c~~~~~~~l~ll~-~~~~v~~P~~P~~~V~~~~l~~f~~~~~p~~~l~~~l~~~v~v~NPN~~~i~y~~~~~~v~Y~ 118 (213)
.++|+++.+++||+++ ++.|+|--..|--.|+=+.+++.-.+ .-.+=|+++|++.|||.+.|..++.++.++-+
T Consensus 302 ~~~c~~~~i~~lL~ig~~~gFv~AttKpL~~v~v~~I~NVlaS-----~qELmfdl~V~A~NPn~~~V~I~d~dldIFAK 376 (387)
T PF12751_consen 302 FASCIYLSILLLLVIGFAIGFVFATTKPLTDVQVVSIQNVLAS-----EQELMFDLTVEAFNPNWFTVTIDDMDLDIFAK 376 (387)
T ss_pred hhHHHHHHHHHHHHHHHHHHhhhhcCcccccceEEEeeeeeec-----cceEEEeeEEEEECCCeEEEEeccceeeeEec
Confidence 3455544444444333 45666655555444444455554332 33445788999999999999999999999876
Q ss_pred CEEEee
Q 028106 119 GRELGS 124 (213)
Q Consensus 119 g~~lg~ 124 (213)
-..+|.
T Consensus 377 S~yvg~ 382 (387)
T PF12751_consen 377 SRYVGT 382 (387)
T ss_pred CCccCc
Confidence 655554
No 7
>PLN03160 uncharacterized protein; Provisional
Probab=90.46 E-value=8.9 Score=32.02 Aligned_cols=42 Identities=24% Similarity=0.362 Sum_probs=19.4
Q ss_pred ccCcceehhHHHHHHHHHh-heeeEEe-cCCCeEEEEEEEEcceee
Q 028106 37 RRNLSRCLCTAAAIASLLA-VLVFIFY-PSDPYLQLARIHLNHIRV 80 (213)
Q Consensus 37 ~~~~~~c~~~~~~~l~ll~-~~~~v~~-P~~P~~~V~~~~l~~f~~ 80 (213)
+|+|++||+++++++++++ ++..++| -=.| +--.++++++++
T Consensus 33 r~~~~~c~~~~~a~~l~l~~v~~~l~~~vfrP--k~P~~~v~~v~l 76 (219)
T PLN03160 33 RRNCIKCCGCITATLLILATTILVLVFTVFRV--KDPVIKMNGVTV 76 (219)
T ss_pred cccceEEHHHHHHHHHHHHHHHHheeeEEEEc--cCCeEEEEEEEE
Confidence 3455566666655555444 3333334 2222 223445555554
No 8
>PF11837 DUF3357: Domain of unknown function (DUF3357); InterPro: IPR021792 This entry represents the N-terminal domain of beta-fructofuranosidase, whcih is involved in the hydrolysis of terminal non-reducing beta-D-fructofuranoside residues in beta-D-fructofuranosides. ; GO: 0004564 beta-fructofuranosidase activity, 0004575 sucrose alpha-glucosidase activity; PDB: 3UGG_A 3UGH_B 3UGF_B.
Probab=90.18 E-value=0.086 Score=39.15 Aligned_cols=13 Identities=31% Similarity=0.557 Sum_probs=0.0
Q ss_pred CCccccCCCCCce
Q 028106 8 DHVAYAPLPTENV 20 (213)
Q Consensus 8 ~~~~~~~~p~~~~ 20 (213)
.+..|+|+|++..
T Consensus 3 ~p~sY~PLP~~~~ 15 (106)
T PF11837_consen 3 LPYSYTPLPDSSE 15 (106)
T ss_dssp -------------
T ss_pred CCCccCCCCCCCc
Confidence 3456999998765
No 9
>PRK05529 cell division protein FtsQ; Provisional
Probab=81.17 E-value=1.7 Score=37.22 Aligned_cols=46 Identities=15% Similarity=0.036 Sum_probs=28.7
Q ss_pred CCeEEEEEEEEcceeecC-----------CCCceeeE--------------EEEEEEEEEcCCceEEEEcc
Q 028106 65 DPYLQLARIHLNHIRVNS-----------SPQPTLDL--------------SFSLVVKVHNRDFFSLNYDS 110 (213)
Q Consensus 65 ~P~~~V~~~~l~~f~~~~-----------~p~~~l~~--------------~l~~~v~v~NPN~~~i~y~~ 110 (213)
.|-|.|.++++++-...+ .....+.. ==+++++-+.||.+.|+..+
T Consensus 58 Sp~~~v~~I~V~Gn~~vs~~eI~~~~~~~~g~~l~~vd~~~~~~~l~~~P~V~sa~V~r~~P~tl~I~V~E 128 (255)
T PRK05529 58 SPLLALRSIEVAGNMRVKPQDIVAALRDQFGKPLPLVDPETVRKKLAAFPLIRSYSVESKPPGTIVVRVVE 128 (255)
T ss_pred CCceEEEEEEEECCccCCHHHHHHHhcccCCCcceeECHHHHHHHHhcCCCEeEEEEEEeCCCEEEEEEEE
Confidence 589999999998654321 00011111 12567888899988777765
No 10
>PF14155 DUF4307: Domain of unknown function (DUF4307)
Probab=81.05 E-value=14 Score=27.51 Aligned_cols=74 Identities=14% Similarity=0.146 Sum_probs=34.4
Q ss_pred eehhHHHHHHHHHhheeeEEe-cCCCeEEEEEEEEcceeecCCCCceeeEEEEEEEEEEcCCc-eEEEEcceEEEEEECC
Q 028106 42 RCLCTAAAIASLLAVLVFIFY-PSDPYLQLARIHLNHIRVNSSPQPTLDLSFSLVVKVHNRDF-FSLNYDSLDVSIGYRG 119 (213)
Q Consensus 42 ~c~~~~~~~l~ll~~~~~v~~-P~~P~~~V~~~~l~~f~~~~~p~~~l~~~l~~~v~v~NPN~-~~i~y~~~~~~v~Y~g 119 (213)
..++.++++++++.++|+.+. ...|.++- +..+|.+.++ ..++.+|++ +-. |.. ..=.. -..-|++
T Consensus 7 ~~~~~v~~vv~~~~~~w~~~~~~~~~~v~~---~~~gf~vv~d--~~v~v~f~V--tr~-~~~~a~C~V----rA~~~d~ 74 (112)
T PF14155_consen 7 VIAGAVLVVVAGAVVAWFGYSQFGSPPVSA---EVIGFEVVDD--STVEVTFDV--TRD-PGRPAVCIV----RALDYDG 74 (112)
T ss_pred EehHHHHHHHHHHHHhHhhhhhccCCCceE---EEEEEEECCC--CEEEEEEEE--EEC-CCCCEEEEE----EEEeCCC
Confidence 344444444445555676665 56666643 4444444332 244443333 322 542 11111 1123677
Q ss_pred EEEeeeEe
Q 028106 120 RELGSVRS 127 (213)
Q Consensus 120 ~~lg~~~~ 127 (213)
..+|.-.+
T Consensus 75 aeVGrreV 82 (112)
T PF14155_consen 75 AEVGRREV 82 (112)
T ss_pred CEEEEEEE
Confidence 78886543
No 11
>PF11906 DUF3426: Protein of unknown function (DUF3426); InterPro: IPR021834 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 262 to 463 amino acids in length.
Probab=80.39 E-value=13 Score=28.52 Aligned_cols=76 Identities=13% Similarity=0.127 Sum_probs=50.7
Q ss_pred EEEEEEEEcceeecCCCCceeeEEEEEEEEEEcCCceEEEEcceEEEEE-ECCEEEeeeEe-C----------CCccCCC
Q 028106 68 LQLARIHLNHIRVNSSPQPTLDLSFSLVVKVHNRDFFSLNYDSLDVSIG-YRGRELGSVRS-H----------GGRVRAR 135 (213)
Q Consensus 68 ~~V~~~~l~~f~~~~~p~~~l~~~l~~~v~v~NPN~~~i~y~~~~~~v~-Y~g~~lg~~~~-p----------~f~~~~r 135 (213)
..++.+++.+..+...+ .-+-.+.++.+++|-......|-.+.++++ -+|+.+++-.+ | .-.++++
T Consensus 48 ~~~~~l~i~~~~~~~~~--~~~~~l~v~g~i~N~~~~~~~~P~l~l~L~D~~g~~l~~r~~~P~~yl~~~~~~~~~l~pg 125 (149)
T PF11906_consen 48 RDIDALKIESSDLRPVP--DGPGVLVVSGTIRNRADFPQALPALELSLLDAQGQPLARRVFTPADYLPPGLAAQAGLPPG 125 (149)
T ss_pred cCcceEEEeeeeEEeec--CCCCEEEEEEEEEeCCCCcccCceEEEEEECCCCCEEEEEEEChHHhcccccccccccCCC
Confidence 45556666554443322 233456788999999999999999999988 67888887765 4 2345666
Q ss_pred CeEEEEEEEE
Q 028106 136 GSSYVNASLK 145 (213)
Q Consensus 136 ~tt~v~~~v~ 145 (213)
.+..+..++.
T Consensus 126 ~~~~~~~~~~ 135 (149)
T PF11906_consen 126 ESVPFRLRLE 135 (149)
T ss_pred CeEEEEEEee
Confidence 6666655443
No 12
>PRK10893 lipopolysaccharide exporter periplasmic protein; Provisional
Probab=75.79 E-value=33 Score=28.00 Aligned_cols=50 Identities=10% Similarity=-0.067 Sum_probs=29.5
Q ss_pred cCCCeEEEEEEEEcceeecCCCCceeeEEEEEEEEEEcCCceEEEEcceEEEEE
Q 028106 63 PSDPYLQLARIHLNHIRVNSSPQPTLDLSFSLVVKVHNRDFFSLNYDSLDVSIG 116 (213)
Q Consensus 63 P~~P~~~V~~~~l~~f~~~~~p~~~l~~~l~~~v~v~NPN~~~i~y~~~~~~v~ 116 (213)
++.|+|..++++...|+.++ .+.+.++..=.-+=|+.-...++.-.+.++
T Consensus 38 ~~~Pdy~~~~~~~~~yd~~G----~l~y~l~a~~~~Hy~~~~~t~f~~P~l~~y 87 (192)
T PRK10893 38 NNDPTYQSQHTDTVVYNPEG----ALSYKLVAQHVEYYSDQAVSWFTQPVLTTF 87 (192)
T ss_pred CCCCCEEEeccEEEEECCCC----CEEEEEEecceEEcCCCCCEEEeCCeEEEE
Confidence 67899999999999988654 455544443322224443444444444433
No 13
>PF07705 CARDB: CARDB; InterPro: IPR011635 The APHP (acidic peptide-dependent hydrolases/peptidase) domain is found in a variety of different proteins.; PDB: 2KUT_A 2L0D_A 3IDU_A 2KL6_A.
Probab=63.87 E-value=45 Score=22.94 Aligned_cols=54 Identities=15% Similarity=0.163 Sum_probs=33.6
Q ss_pred eEEEEEEEEEEcCCceEEEEcceEEEEEECCEEEeeeEeCCCccCCCCeEEEEEEEEE
Q 028106 89 DLSFSLVVKVHNRDFFSLNYDSLDVSIGYRGRELGSVRSHGGRVRARGSSYVNASLKL 146 (213)
Q Consensus 89 ~~~l~~~v~v~NPN~~~i~y~~~~~~v~Y~g~~lg~~~~p~f~~~~r~tt~v~~~v~~ 146 (213)
.-.+.++++++|--... -++..+.++.+|..++...++ .+++..+..+.+++..
T Consensus 18 g~~~~i~~~V~N~G~~~--~~~~~v~~~~~~~~~~~~~i~--~L~~g~~~~v~~~~~~ 71 (101)
T PF07705_consen 18 GEPVTITVTVKNNGTAD--AENVTVRLYLDGNSVSTVTIP--SLAPGESETVTFTWTP 71 (101)
T ss_dssp TSEEEEEEEEEE-SSS---BEEEEEEEEETTEEEEEEEES--EB-TTEEEEEEEEEE-
T ss_pred CCEEEEEEEEEECCCCC--CCCEEEEEEECCceeccEEEC--CcCCCcEEEEEEEEEe
Confidence 34567788899976433 334567777788888777773 4556666666666554
No 14
>PF09865 DUF2092: Predicted periplasmic protein (DUF2092); InterPro: IPR019207 This entry represents various hypothetical prokaryotic proteins of unknown function.
Probab=58.42 E-value=77 Score=26.39 Aligned_cols=38 Identities=24% Similarity=0.302 Sum_probs=31.2
Q ss_pred ceeeEEEEEEEEEEcCCceEEEEcc--eEEEEEECCEEEe
Q 028106 86 PTLDLSFSLVVKVHNRDFFSLNYDS--LDVSIGYRGRELG 123 (213)
Q Consensus 86 ~~l~~~l~~~v~v~NPN~~~i~y~~--~~~~v~Y~g~~lg 123 (213)
..+...-+.+|.++=||++.+.+.+ .+..++|+|..+-
T Consensus 35 qklq~~~~~~v~v~RPdklr~~~~gd~~~~~~~yDGkt~T 74 (214)
T PF09865_consen 35 QKLQFSSSGTVTVQRPDKLRIDRRGDGADREFYYDGKTFT 74 (214)
T ss_pred ceEEEEEEEEEEEeCCCeEEEEEEcCCcceEEEECCCEEE
Confidence 3677777899999999998888854 5789999998765
No 15
>PF07423 DUF1510: Protein of unknown function (DUF1510); InterPro: IPR009988 This family consists of several hypothetical bacterial proteins of around 200 residues in length. The function of this family is unknown.
Probab=55.47 E-value=6.9 Score=32.80 Aligned_cols=22 Identities=9% Similarity=0.153 Sum_probs=11.2
Q ss_pred eehhHHHHHHHHHhheeeEEec
Q 028106 42 RCLCTAAAIASLLAVLVFIFYP 63 (213)
Q Consensus 42 ~c~~~~~~~l~ll~~~~~v~~P 63 (213)
.=+++++.+|||+++++.+|-+
T Consensus 16 LNiaI~IV~lLIiiva~~lf~~ 37 (217)
T PF07423_consen 16 LNIAIGIVSLLIIIVAYQLFFG 37 (217)
T ss_pred HHHHHHHHHHHHHHHhhhheec
Confidence 3344444445555556666653
No 16
>PF11797 DUF3324: Protein of unknown function C-terminal (DUF3324); InterPro: IPR021759 This family consists of several hypothetical bacterial proteins of unknown function.
Probab=54.25 E-value=97 Score=23.73 Aligned_cols=89 Identities=15% Similarity=0.206 Sum_probs=56.9
Q ss_pred cCCCeEEEEEEEEcceeecCCCCceeeEEEEEEEEEEcCCceEEEEcceEEEEEECC--EEEeeeEeCCCccCCCCeEEE
Q 028106 63 PSDPYLQLARIHLNHIRVNSSPQPTLDLSFSLVVKVHNRDFFSLNYDSLDVSIGYRG--RELGSVRSHGGRVRARGSSYV 140 (213)
Q Consensus 63 P~~P~~~V~~~~l~~f~~~~~p~~~l~~~l~~~v~v~NPN~~~i~y~~~~~~v~Y~g--~~lg~~~~p~f~~~~r~tt~v 140 (213)
+-.|.+.+.++.+...+. .-.+.+.++||.-.-+.=-.+++.|+..| ..+.+.....+...|.+.-.+
T Consensus 25 ~~~p~L~l~~v~~~~~n~----------~~~i~~~l~N~~~~~l~~~~v~a~V~~~~~~k~~~~~~~~~~~mAPNS~f~~ 94 (140)
T PF11797_consen 25 EVPPKLKLGKVKPGQING----------RNVIQANLQNPQPAILKKLTVDAKVTKKGSKKVLYTFKKENMQMAPNSNFNF 94 (140)
T ss_pred ccCcccEEeeeeeeEECC----------eeEEEEEEECCCchhhcCcEEEEEEEECCCCeEEEEeeccCCEECCCCeEEe
Confidence 456777777777665443 34678889999854444445667777766 478888888899999886444
Q ss_pred EEEEEEcceeeccchHHHHhhhhcCeEeEEEEEE
Q 028106 141 NASLKLNGLEVIHDVIYLIEDLIKGVIPFDTVTM 174 (213)
Q Consensus 141 ~~~v~~~~~~l~~~~~~l~~D~~~G~v~l~~~~~ 174 (213)
.+...+. .+..|...+.+.++
T Consensus 95 --~i~~~~~-----------~lk~G~Y~l~~~~~ 115 (140)
T PF11797_consen 95 --PIPLGGK-----------KLKPGKYTLKITAK 115 (140)
T ss_pred --EecCCCc-----------CccCCEEEEEEEEE
Confidence 3333332 24567665555443
No 17
>PF04790 Sarcoglycan_1: Sarcoglycan complex subunit protein; InterPro: IPR006875 The dystrophin glycoprotein complex (DGC) is a membrane-spanning complex that links the interior cytoskeleton to the extracellular matrix in muscle. The sarcoglycan complex is a subcomplex within the DGC and is composed of several muscle-specific, transmembrane proteins (alpha-, beta-, gamma-, delta- and zeta-sarcoglycan). The sarcoglycans are asparagine-linked glycosylated proteins with single transmembrane domains. This family contains beta, gamma and delta members [, ].; GO: 0007010 cytoskeleton organization, 0016012 sarcoglycan complex, 0016021 integral to membrane
Probab=49.65 E-value=1.7e+02 Score=25.20 Aligned_cols=17 Identities=12% Similarity=0.212 Sum_probs=11.5
Q ss_pred ceeeEEEEEEEEEEcCC
Q 028106 86 PTLDLSFSLVVKVHNRD 102 (213)
Q Consensus 86 ~~l~~~l~~~v~v~NPN 102 (213)
..+..+=+++++++|.|
T Consensus 82 l~i~s~~~v~~~~r~~~ 98 (264)
T PF04790_consen 82 LVIQSSRNVTLNARNEN 98 (264)
T ss_pred EEEEecCceEEEEecCC
Confidence 45555556778888887
No 18
>PF00927 Transglut_C: Transglutaminase family, C-terminal ig like domain; InterPro: IPR008958 Synonym(s): Protein-glutamine gamma-glutamyltransferase, Fibrinoligase, TGase Transglutaminases catalyse the post-translational modification of proteins at glutamine residues, with formation of isopeptide bonds. Members of the transglutaminase family usually have three domains: N-terminal (IPR001102 from INTERPRO), middle (IPR013808 from INTERPRO) and C-terminal. The middle domain is usually well conserved, but family members can display major differences in their N- and C-terminal domains, although their overall structure is conserved []. This entry represents the C-terminal domain found in transglutaminases, which consists of an immunoglobulin-like beta-sandwich consisting of seven strands in two sheets with a Greek key topology. The best known transglutaminase is blood coagulation factor XIII, a plasma tetrameric protein composed of two catalytic A subunits and two non-catalytic B subunits. Factor XIII is responsible for cross-linking fibrin chains, thus stabilising the fibrin clot. Protein-glutamine gamma-glutamyltransferases (2.3.2.13 from EC) are calcium-dependent enzymes that catalyse the cross-linking of proteins by promoting the formation of isopeptide bonds between the gamma-carboxyl group of a glutamine in one polypeptide chain and the epsilon-amino group of a lysine in a second polypeptide chain. TGases also catalyse the conjugation of polyamines to proteins [, ].; GO: 0003810 protein-glutamine gamma-glutamyltransferase activity, 0018149 peptide cross-linking; PDB: 2XZZ_A 1GGY_B 1FIE_B 1GGU_B 1GGT_B 1F13_A 1QRK_B 1EVU_A 1EX0_B 1L9N_B ....
Probab=46.89 E-value=57 Score=23.39 Aligned_cols=58 Identities=10% Similarity=0.194 Sum_probs=37.6
Q ss_pred eeeEEEEEEEEEEcCCce---EEEEcceEEEEEECCEEEeee--EeCCCccCCCCeEEEEEEE
Q 028106 87 TLDLSFSLVVKVHNRDFF---SLNYDSLDVSIGYRGRELGSV--RSHGGRVRARGSSYVNASL 144 (213)
Q Consensus 87 ~l~~~l~~~v~v~NPN~~---~i~y~~~~~~v~Y~g~~lg~~--~~p~f~~~~r~tt~v~~~v 144 (213)
.+.-.+++.+++.||... .+...=....++|.|...... ......++++++..+..++
T Consensus 12 ~vG~d~~v~v~~~N~~~~~l~~v~~~l~~~~v~ytG~~~~~~~~~~~~~~l~p~~~~~~~~~i 74 (107)
T PF00927_consen 12 VVGQDFTVSVSFTNPSSEPLRNVSLNLCAFTVEYTGLTRDQFKKEKFEVTLKPGETKSVEVTI 74 (107)
T ss_dssp BTTSEEEEEEEEEE-SSS-EECEEEEEEEEEEECTTTEEEEEEEEEEEEEE-TTEEEEEEEEE
T ss_pred cCCCCEEEEEEEEeCCcCccccceeEEEEEEEEECCcccccEeEEEcceeeCCCCEEEEEEEE
Confidence 466678999999999843 333333556778999865333 3455678888888776554
No 19
>PF14874 PapD-like: Flagellar-associated PapD-like
Probab=46.64 E-value=1e+02 Score=21.67 Aligned_cols=55 Identities=13% Similarity=0.138 Sum_probs=30.6
Q ss_pred eeEEEEEEEEEEcCCceEEEEcceEEEEEECCEEEeeeEeCCCccCCCCeEEEEEEEE
Q 028106 88 LDLSFSLVVKVHNRDFFSLNYDSLDVSIGYRGRELGSVRSHGGRVRARGSSYVNASLK 145 (213)
Q Consensus 88 l~~~l~~~v~v~NPN~~~i~y~~~~~~v~Y~g~~lg~~~~p~f~~~~r~tt~v~~~v~ 145 (213)
+.......++++|-.....+|.=..-. ..+..+ +..-+.+.+.++.+..+.+++.
T Consensus 18 ~g~~~~~~v~l~N~s~~p~~f~v~~~~--~~~~~~-~v~~~~g~l~PG~~~~~~V~~~ 72 (102)
T PF14874_consen 18 VGQTYSRTVTLTNTSSIPARFRVRQPE--SLSSFF-SVEPPSGFLAPGESVELEVTFS 72 (102)
T ss_pred cCCEEEEEEEEEECCCCCEEEEEEeCC--cCCCCE-EEECCCCEECCCCEEEEEEEEE
Confidence 344557789999987655444311100 011111 2334566788888887776655
No 20
>TIGR02588 conserved hypothetical protein TIGR02588. The function of this protein is unknown. It is always found as part of a two-gene operon with TIGR02587, a protein that appears to span the membrane seven times. It is found in Nostoc sp. PCC 7120, Agrobacterium tumefaciens, Sinorhizobium meliloti, and Gloeobacter violaceus, so far, all of which are bacterial.
Probab=44.19 E-value=46 Score=25.36 Aligned_cols=36 Identities=11% Similarity=0.164 Sum_probs=22.7
Q ss_pred eeEEecCCCeEEEEEEEEcceeecCCCCceeeEEEEEEEEEEcCC
Q 028106 58 VFIFYPSDPYLQLARIHLNHIRVNSSPQPTLDLSFSLVVKVHNRD 102 (213)
Q Consensus 58 ~~v~~P~~P~~~V~~~~l~~f~~~~~p~~~l~~~l~~~v~v~NPN 102 (213)
|+.=+++.|.+.+......+ .....+-+-++++|--
T Consensus 26 ~l~~~~~pp~l~v~~~~~~r---------~~~gqyyVpF~V~N~g 61 (122)
T TIGR02588 26 WLRYSNKAAVLEVAPAEVER---------MQTGQYYVPFAIHNLG 61 (122)
T ss_pred hhccCCCCCeEEEeehheeE---------EeCCEEEEEEEEEeCC
Confidence 33335789999877666544 2333456677888855
No 21
>PF06919 Phage_T4_Gp30_7: Phage Gp30.7 protein; InterPro: IPR009690 This family consists of several phage Gp30.7 proteins of 121 residues in length. Family members seem to be exclusively from the T4-like viruses. The function of this family is unknown.
Probab=43.15 E-value=58 Score=24.17 Aligned_cols=38 Identities=18% Similarity=0.392 Sum_probs=28.9
Q ss_pred cCCceEEEEcc-eEEEEEECCEEEeeeEeCCCccCCCCe
Q 028106 100 NRDFFSLNYDS-LDVSIGYRGRELGSVRSHGGRVRARGS 137 (213)
Q Consensus 100 NPN~~~i~y~~-~~~~v~Y~g~~lg~~~~p~f~~~~r~t 137 (213)
|||.+-+.|++ .++++.|.|..+--+.-..+++.--+|
T Consensus 40 ~pNYvf~~FEnG~tvsv~~~gs~~kI~~~Dd~r~RDLgT 78 (121)
T PF06919_consen 40 TPNYVFMRFENGITVSVTYNGSIFKIGLDDDHRERDLGT 78 (121)
T ss_pred CCCEEEEEecCCCEEEEEecCcEEEEEecCchhhcccCC
Confidence 99999999987 589999999877666556665554444
No 22
>KOG3950 consensus Gamma/delta sarcoglycan [Cytoskeleton]
Probab=41.80 E-value=9.1 Score=32.67 Aligned_cols=20 Identities=15% Similarity=0.099 Sum_probs=16.2
Q ss_pred CceeeEEEEEEEEEEcCC-ce
Q 028106 85 QPTLDLSFSLVVKVHNRD-FF 104 (213)
Q Consensus 85 ~~~l~~~l~~~v~v~NPN-~~ 104 (213)
+.++...=+++++++||| .+
T Consensus 103 ~l~~~S~rnvtvnarn~~g~v 123 (292)
T KOG3950|consen 103 PLYLQSARNVTVNARNPNGKV 123 (292)
T ss_pred ceEEEeccCeeEEccCCCCce
Confidence 456777888999999999 44
No 23
>PF11322 DUF3124: Protein of unknown function (DUF3124); InterPro: IPR021471 This bacterial family of proteins has no known function.
Probab=39.18 E-value=1.1e+02 Score=23.33 Aligned_cols=53 Identities=13% Similarity=0.148 Sum_probs=33.7
Q ss_pred eeeEEEEEEEEEEcCC-ceEEEEcceEEEEEE--CCEEEeeeEeCCCccCCCCeEEEEE
Q 028106 87 TLDLSFSLVVKVHNRD-FFSLNYDSLDVSIGY--RGRELGSVRSHGGRVRARGSSYVNA 142 (213)
Q Consensus 87 ~l~~~l~~~v~v~NPN-~~~i~y~~~~~~v~Y--~g~~lg~~~~p~f~~~~r~tt~v~~ 142 (213)
....+|+++|.+||-+ +-+++-...+ || +|..+-+---.+.++++-++..+-+
T Consensus 20 ~~~~~Lt~tLSiRNtd~~~~i~i~~v~---Yydt~G~lvr~yl~~Pi~L~Pl~t~~~vV 75 (125)
T PF11322_consen 20 HRPFNLTATLSIRNTDPTDPIYITSVD---YYDTDGKLVRSYLDKPIYLKPLATTEFVV 75 (125)
T ss_pred CceEeEEEEEEEEcCCCCCCEEEEEEE---EECCCCeEhHHhcCCCeEcCCCceEEEEE
Confidence 3456778899999977 3344433321 23 4566665555677888888876643
No 24
>PF09307 MHC2-interact: CLIP, MHC2 interacting; InterPro: IPR015386 This domain is found in MHC class II-associated invariant chain (Ii), and in class II invariant chain-associated peptide (CLIP), and is required for association with class II major histocompatibility complex (MHC II) in the MHC II processing pathway []. Ii plays a critical role in the assembly of the MHC, as well as in MHC II antigen processing by stabilising peptide-free class II alpha/beta heterodimers in a complex soon after their synthesis and directing transport of the complex from the endoplasmic reticulum to compartments where peptide loading of class II takes place []. In antigen-presenting cells (APCs), loading of MHC II molecules with peptides is regulated by Ii, which blocks MHC II antigen-binding sites in pre-endosomal compartments []. Several factors modulate the surface expression of MHC II molecules via post-Golgi mechanisms, including CLIP. The Invariant chain contains a single transmembrane domain. Ii first assembles into a trimer and then associates with three class II alpha/beta MHC heterodimers. Although the membrane-proximal region of the Ii luminal domain is structurally disordered, the C-terminal segment of the luminal domain is largely alpha-helical and contains a major interaction site for the Ii trimer []. More information about these proteins can be found at Protein of the Month: MHC [].; GO: 0042289 MHC class II protein binding, 0006886 intracellular protein transport, 0006955 immune response, 0019882 antigen processing and presentation, 0016020 membrane; PDB: 1A6A_C 3QXD_F 3QXA_F 3PDO_C 1MUJ_C 3PGD_F 3PGC_F.
Probab=38.93 E-value=10 Score=28.56 Aligned_cols=16 Identities=19% Similarity=0.254 Sum_probs=0.0
Q ss_pred HHHHHHHHh---heeeEEe
Q 028106 47 AAAIASLLA---VLVFIFY 62 (213)
Q Consensus 47 ~~~~l~ll~---~~~~v~~ 62 (213)
++++|+|.| .+||+|.
T Consensus 39 vLa~LLiAGQa~TaYfv~~ 57 (114)
T PF09307_consen 39 VLACLLIAGQAVTAYFVFQ 57 (114)
T ss_dssp -------------------
T ss_pred HHHHHHHHhHHHHHHHHHH
Confidence 344555554 3677775
No 25
>PF06072 Herpes_US9: Alphaherpesvirus tegument protein US9; InterPro: IPR009278 This family consists of several US9 and related proteins from the Alphaherpesviruses. The function of the US9 protein is unknown although in Bovine herpesvirus 5 Us9 is essential for the anterograde spread of the virus from the olfactory mucosa to the bulb [].; GO: 0019033 viral tegument
Probab=38.85 E-value=7.3 Score=25.79 Aligned_cols=14 Identities=21% Similarity=0.271 Sum_probs=6.4
Q ss_pred ccCcceehhHHHHH
Q 028106 37 RRNLSRCLCTAAAI 50 (213)
Q Consensus 37 ~~~~~~c~~~~~~~ 50 (213)
+|+|..|++.++++
T Consensus 29 rRrc~~~v~~v~~~ 42 (60)
T PF06072_consen 29 RRRCRLAVAIVFAV 42 (60)
T ss_pred HHHHHHHHHHHHHH
Confidence 34453355554444
No 26
>PF12505 DUF3712: Protein of unknown function (DUF3712); InterPro: IPR022185 This domain family is found in eukaryotes, and is approximately 130 amino acids in length.
Probab=38.73 E-value=83 Score=23.44 Aligned_cols=26 Identities=8% Similarity=0.300 Sum_probs=20.0
Q ss_pred eEEEEEEEEEEcCCceEEEEcceEEE
Q 028106 89 DLSFSLVVKVHNRDFFSLNYDSLDVS 114 (213)
Q Consensus 89 ~~~l~~~v~v~NPN~~~i~y~~~~~~ 114 (213)
..++..++.+.||..+++..++.+++
T Consensus 99 g~~~~~~~~l~NPS~~ti~lG~v~~~ 124 (125)
T PF12505_consen 99 GINLNATVTLPNPSPLTIDLGNVTLN 124 (125)
T ss_pred cEEEEEEEEEcCCCeEEEEeccEEEe
Confidence 34567788899999888888777654
No 27
>PF12734 CYSTM: Cysteine-rich TM module stress tolerance
Probab=38.50 E-value=34 Score=20.32 Aligned_cols=9 Identities=0% Similarity=-0.311 Sum_probs=3.4
Q ss_pred cCcceehhH
Q 028106 38 RNLSRCLCT 46 (213)
Q Consensus 38 ~~~~~c~~~ 46 (213)
.+++..++.
T Consensus 17 ~g~l~gCla 25 (37)
T PF12734_consen 17 DGCLAGCLA 25 (37)
T ss_pred CChHHHHHH
Confidence 344333333
No 28
>PF13598 DUF4139: Domain of unknown function (DUF4139)
Probab=37.05 E-value=1.8e+02 Score=24.98 Aligned_cols=41 Identities=27% Similarity=0.212 Sum_probs=29.9
Q ss_pred eeeEEEEEEEEEEcCCceEEEEcceEEEEEECCEEEeeeEeCC
Q 028106 87 TLDLSFSLVVKVHNRDFFSLNYDSLDVSIGYRGRELGSVRSHG 129 (213)
Q Consensus 87 ~l~~~l~~~v~v~NPN~~~i~y~~~~~~v~Y~g~~lg~~~~p~ 129 (213)
.++.+.-+..++.|+. ++..-.+.++++.+|..+|++.++.
T Consensus 163 ~~~~~a~l~a~~~n~~--~~~L~~G~~~v~~dg~~vG~~~l~~ 203 (317)
T PF13598_consen 163 KLDPNAYLVARFKNTS--GLPLLPGPVSVYRDGTFVGESRLPH 203 (317)
T ss_pred ccCCCeEEEEEEECCC--CCcccCCcEEEEECCEEEEeeecCC
Confidence 3444455666777775 4444478999999999999998875
No 29
>PF10814 DUF2562: Protein of unknown function (DUF2562); InterPro: IPR024245 This protein of unknown function appears to be found predominantly in Mycobacterium spp.
Probab=35.30 E-value=20 Score=27.43 Aligned_cols=7 Identities=29% Similarity=0.088 Sum_probs=4.4
Q ss_pred heeeEEe
Q 028106 56 VLVFIFY 62 (213)
Q Consensus 56 ~~~~v~~ 62 (213)
++|.+++
T Consensus 107 vAfsivR 113 (133)
T PF10814_consen 107 VAFSIVR 113 (133)
T ss_pred eEEEEee
Confidence 4666765
No 30
>PRK06531 yajC preprotein translocase subunit YajC; Validated
Probab=30.36 E-value=28 Score=26.15 Aligned_cols=18 Identities=11% Similarity=0.301 Sum_probs=11.5
Q ss_pred HHHHHHHhheeeEEecCC
Q 028106 48 AAIASLLAVLVFIFYPSD 65 (213)
Q Consensus 48 ~~~l~ll~~~~~v~~P~~ 65 (213)
+.+++++++.||++||..
T Consensus 7 l~~vv~~~i~yf~iRPQk 24 (113)
T PRK06531 7 IMFVVMLGLIFFMQRQQK 24 (113)
T ss_pred HHHHHHHHHHHheechHH
Confidence 334555666778888854
No 31
>COG3121 FimC P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=28.05 E-value=1.1e+02 Score=25.66 Aligned_cols=42 Identities=21% Similarity=0.385 Sum_probs=28.4
Q ss_pred EEEEEcCCceEEEEcceEEEEEECCEEEeeeEeCCCccCCCCeEEEE
Q 028106 95 VVKVHNRDFFSLNYDSLDVSIGYRGRELGSVRSHGGRVRARGSSYVN 141 (213)
Q Consensus 95 ~v~v~NPN~~~i~y~~~~~~v~Y~g~~lg~~~~p~f~~~~r~tt~v~ 141 (213)
.++++||--+-+.+.+.++.. +|..++ ....+++++++..+.
T Consensus 166 ~l~v~Nptpy~vtl~~~~l~~--~~~~~~---~~~~mv~P~s~~~~~ 207 (235)
T COG3121 166 LLTVKNPTPYYVTLANLTLNV--GGRKLG---LNSGMVAPFSTRQFP 207 (235)
T ss_pred EEEEECCCCcEEEEEEEEEee--CceecC---CCcceECCCccceee
Confidence 689999998777777776666 676665 344555555555443
No 32
>COG4736 CcoQ Cbb3-type cytochrome oxidase, subunit 3 [Posttranslational modification, protein turnover, chaperones]
Probab=28.04 E-value=22 Score=23.66 Aligned_cols=19 Identities=26% Similarity=0.439 Sum_probs=13.5
Q ss_pred HHHHHHHHhheeeEEecCC
Q 028106 47 AAAIASLLAVLVFIFYPSD 65 (213)
Q Consensus 47 ~~~~l~ll~~~~~v~~P~~ 65 (213)
+.+.+++++++|++|||+.
T Consensus 16 ~~~~l~fiavi~~ayr~~~ 34 (60)
T COG4736 16 IAFTLFFIAVIYFAYRPGK 34 (60)
T ss_pred HHHHHHHHHHHHHHhcccc
Confidence 3445666777899999864
No 33
>TIGR02231 conserved hypothetical protein. This family consists of proteins over 500 amino acids long in Caenorhabditis elegans and several bacteria (Pseudomonas aeruginosa, Nostoc sp. PCC 7120, Leptospira interrogans, etc.). The function is unknown.
Probab=26.30 E-value=3.1e+02 Score=25.74 Aligned_cols=57 Identities=16% Similarity=0.170 Sum_probs=37.5
Q ss_pred EEEEEEEEc-ceeecCCCCceeeEEEEEEEEEEcCCceEEEEcceEEEEEECCEEEeeeEeC
Q 028106 68 LQLARIHLN-HIRVNSSPQPTLDLSFSLVVKVHNRDFFSLNYDSLDVSIGYRGRELGSVRSH 128 (213)
Q Consensus 68 ~~V~~~~l~-~f~~~~~p~~~l~~~l~~~v~v~NPN~~~i~y~~~~~~v~Y~g~~lg~~~~p 128 (213)
+.+...++. .|.....| .++...-+..++.|+. +...-.+.+.++.+|..+|...++
T Consensus 344 v~i~~~~~~a~~~~~~vP--~~~~~a~l~A~~~N~s--~~~Ll~G~~~v~~dg~fvG~~~l~ 401 (525)
T TIGR02231 344 ITIASFELPAALNYRAVP--SLNSTAFLEASFKNTS--DFPLLPGEVNIFRGNGFVGRSHLE 401 (525)
T ss_pred EEEEEEecccceEEEEcc--cCCchheEEEEEEcCC--CCcccCCceEEEECCEeEEeeecC
Confidence 444444444 23332233 4555556778888986 344556789999999999999986
No 34
>PF05545 FixQ: Cbb3-type cytochrome oxidase component FixQ; InterPro: IPR008621 This family consists of several Cbb3-type cytochrome oxidase components (FixQ/CcoQ). FixQ is found in nitrogen fixing bacteria. Since nitrogen fixation is an energy-consuming process, effective symbioses depend on operation of a respiratory chain with a high affinity for O2, closely coupled to ATP production. This requirement is fulfilled by a special three-subunit terminal oxidase (cytochrome terminal oxidase cbb3), which was first identified in Bradyrhizobium japonicum as the product of the fixNOQP operon [].
Probab=24.35 E-value=27 Score=21.80 Aligned_cols=19 Identities=5% Similarity=0.420 Sum_probs=12.9
Q ss_pred HHHHHHHHhheeeEEecCC
Q 028106 47 AAAIASLLAVLVFIFYPSD 65 (213)
Q Consensus 47 ~~~~l~ll~~~~~v~~P~~ 65 (213)
++++++++++++.+++|+.
T Consensus 16 v~~~~~F~gi~~w~~~~~~ 34 (49)
T PF05545_consen 16 VLFFVFFIGIVIWAYRPRN 34 (49)
T ss_pred HHHHHHHHHHHHHHHcccc
Confidence 4445556677788888874
No 35
>COG4698 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=24.08 E-value=34 Score=27.88 Aligned_cols=22 Identities=14% Similarity=0.316 Sum_probs=15.9
Q ss_pred HhheeeEEecCCCeEEEEEEEE
Q 028106 54 LAVLVFIFYPSDPYLQLARIHL 75 (213)
Q Consensus 54 l~~~~~v~~P~~P~~~V~~~~l 75 (213)
+.++.+++-|+.|..++.+.+=
T Consensus 27 ~~i~~~vlsp~ee~t~~~~a~~ 48 (197)
T COG4698 27 VLIALFVLSPREEPTHLEDASE 48 (197)
T ss_pred HHhheeeccCCCCCchhhccCc
Confidence 4457788889998777766554
No 36
>COG5473 Predicted integral membrane protein [Function unknown]
Probab=23.80 E-value=51 Score=28.63 Aligned_cols=19 Identities=26% Similarity=0.604 Sum_probs=16.7
Q ss_pred CCCCCCCCccccCCCCCce
Q 028106 2 GSGSTHDHVAYAPLPTENV 20 (213)
Q Consensus 2 ~~~~~~~~~~~~~~p~~~~ 20 (213)
|+|.|+++|.|+++|.|+.
T Consensus 22 g~~~~~~~p~~r~~p~~~~ 40 (290)
T COG5473 22 GAGETPPPPGYRKIPGQDL 40 (290)
T ss_pred CCCCCCCCCCcCCCCcccc
Confidence 7788999999999997765
No 37
>PF06835 LptC: Lipopolysaccharide-assembly, LptC-related; InterPro: IPR010664 This family consists of several related groups of proteins one of which is the LptC family. LptC is involved in lipopolysaccharide-assembly on the outer membrane of Gram-negative organisms. The cell envelope of Gram-negative bacteria consists of an inner (IM) and an outer membrane (OM) separated by an aqueous compartment, the periplasm, which contains the peptidoglycan layer. The OM is an asymmetric bilayer, with phospholipids in the inner leaflet and lipopolysaccharides (LPS) facing outward [, ]. The OM is an effective permeability barrier that protects the cells from toxic compounds, such as antibiotics and detergents, thus allowing bacteria to inhabit several different and often hostile environments. LPS is responsible for the permeability properties of the OM. LPS consists of the lipid A moiety (a glucosamine-based phospholipid) linked to the short core oligosaccharide and the distal O-antigen polysaccharide chain. The core oligosaccharide can be further divided into an inner core, composed of 3-deoxy-D-mannooctulosanate (KDO) and heptose, and an outer core, which has a somewhat variable structure. LPS is essential in most Gram-negative bacteria, with the notable exception of Neisseria meningitidis. The biogenesis of the OM implies that the individual components are transported from the site of synthesis to their final destination outside the IM by crossing both hydrophilic and hydrophobic compartments. The machinery and the energy source that drive this process are not yet fully understood. The lipid A-core moiety and the O-antigen repeat units are synthesized at the cytoplasmic face of the IM and are separately exported via two independent transport systems, namely, the O-antigen transporter Wzx (RfbX) [, ] and the ATP binding cassette (ABC) transporter MsbA that flips the lipid A-core moiety from the inner leaflet to the outer leaflet of the IM [, , ]. O-antigen repeat units are then polymerised in the periplasm by the Wzy polymerase and ligated to the lipid A-core moiety by the WaaL ligase [see, , ]. The LPS transport machinery is composed of LptA, LptB, LptC, LptD, LptE. This supported by the fact, that depletion of any of one of these proteins blocks the LPS assembly pathway and results in very similar OM biogenesis defects. Moreover, the location of at least one of these five proteins in every cellular compartment suggests a model for how the LPS assembly pathway is organised and ordered in space []. Required for the translocation of lipopolysaccharide (LPS) from the inner membrane to the outer membrane [].; PDB: 3MY2_A.
Probab=22.61 E-value=3.5e+02 Score=20.49 Aligned_cols=43 Identities=9% Similarity=0.040 Sum_probs=17.9
Q ss_pred eeEEEEEEEEEEcCCceEEEEcceEEEEEECCEEEeeeEeCCC
Q 028106 88 LDLSFSLVVKVHNRDFFSLNYDSLDVSIGYRGRELGSVRSHGG 130 (213)
Q Consensus 88 l~~~l~~~v~v~NPN~~~i~y~~~~~~v~Y~g~~lg~~~~p~f 130 (213)
+...+...=..+++|.=.++.++..+.++-.+..--......+
T Consensus 51 ~~~~l~A~~~~~~~~~~~~~l~~p~~~~~~~~~~~~~i~A~~g 93 (176)
T PF06835_consen 51 LQWKLTAERAEHYPNSDTVELEDPSLIIYDDDGPEWTITADRG 93 (176)
T ss_dssp --EEEE-SSEEEETTTTEEEEES-EEEEE-TT-EEEEEE-SEE
T ss_pred EEEEEEEeEEEEecCCCcEEEeccEEEEEeCCCceEEEEeCEE
Confidence 4455554444556654345556666666555543333333333
No 38
>PF07787 DUF1625: Protein of unknown function (DUF1625); InterPro: IPR012430 Sequences making up this family are derived from hypothetical proteins expressed by both prokaryotic and eukaryotic species. The region in question is approximately 250 residues long.
Probab=22.11 E-value=52 Score=27.76 Aligned_cols=16 Identities=13% Similarity=0.223 Sum_probs=11.2
Q ss_pred HHHHHHHhheeeEEec
Q 028106 48 AAIASLLAVLVFIFYP 63 (213)
Q Consensus 48 ~~~l~ll~~~~~v~~P 63 (213)
.+.++++|++|+.+||
T Consensus 233 ~lsl~~Ia~aW~~yRP 248 (248)
T PF07787_consen 233 SLSLLTIALAWLFYRP 248 (248)
T ss_pred HHHHHHHHHhheeeCc
Confidence 3345556678999887
No 39
>PF15018 InaF-motif: TRP-interacting helix
Probab=20.85 E-value=1.1e+02 Score=18.47 Aligned_cols=15 Identities=27% Similarity=0.616 Sum_probs=8.6
Q ss_pred HHHHhheeeEEe-cCC
Q 028106 51 ASLLAVLVFIFY-PSD 65 (213)
Q Consensus 51 l~ll~~~~~v~~-P~~ 65 (213)
.++|++.+..|| |+.
T Consensus 21 Ai~LsiYY~f~W~p~~ 36 (38)
T PF15018_consen 21 AIVLSIYYIFFWDPDM 36 (38)
T ss_pred HHHHHHHHheeeCCCC
Confidence 334556677777 543
No 40
>cd01324 cbb3_Oxidase_CcoQ Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. Found exclusively in proteobacteria, cbb3 is believed to be a modern enzyme that has evolved independently to perform a specialized function in microaerobic energy metabolism. The cbb3 operon contains four genes (ccoNOQP or fixNOQP), with ccoN coding for subunit I. Instead of a CuA-containing subunit II analogous to other cytochrome oxidases, cbb3 utilizes subunits ccoO and ccoP, which contain one and two hemes, respectively, to transfer electrons to the binuclear center. ccoQ, the fourth subunit, is a single transmembrane helix protein. It has been shown to protect the core complex from proteolytic degradation by serine proteases. See cd00919, cd01322
Probab=20.47 E-value=41 Score=21.13 Aligned_cols=16 Identities=31% Similarity=0.542 Sum_probs=11.5
Q ss_pred HHHHHhheeeEEecCC
Q 028106 50 IASLLAVLVFIFYPSD 65 (213)
Q Consensus 50 ~l~ll~~~~~v~~P~~ 65 (213)
+++.+++++.+|||+.
T Consensus 20 ~~~Figiv~wa~~p~~ 35 (48)
T cd01324 20 ALFFLGVVVWAFRPGR 35 (48)
T ss_pred HHHHHHHHHHHhCCCc
Confidence 3556677888899864
Done!