Query 027702
Match_columns 220
No_of_seqs 111 out of 219
Neff 5.5
Searched_HMMs 46136
Date Fri Mar 29 13:54:12 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/027702.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/027702hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF08569 Mo25: Mo25-like; Int 100.0 4.3E-76 9.4E-81 537.7 20.8 214 1-219 1-216 (335)
2 KOG1566 Conserved protein Mo25 100.0 1.6E-75 3.5E-80 524.6 21.5 216 1-218 1-217 (342)
3 PF08569 Mo25: Mo25-like; Int 94.2 0.49 1.1E-05 44.0 10.4 118 73-193 156-280 (335)
4 PTZ00446 vacuolar sorting prot 88.1 1.1 2.5E-05 38.6 5.4 30 1-30 1-41 (191)
5 KOG1566 Conserved protein Mo25 84.4 9.2 0.0002 35.8 9.6 109 94-207 179-310 (342)
6 cd00020 ARM Armadillo/beta-cat 84.1 10 0.00022 27.5 8.2 114 76-194 2-118 (120)
7 PF05952 ComX: Bacillus compet 76.3 1.8 4E-05 30.5 1.7 18 119-136 5-22 (57)
8 KOG1655 Protein involved in va 75.6 12 0.00026 32.8 6.9 132 1-141 1-157 (218)
9 KOG0166 Karyopherin (importin) 75.1 25 0.00054 34.8 9.7 133 41-191 337-481 (514)
10 PF08767 CRM1_C: CRM1 C termin 69.5 39 0.00085 30.9 9.2 115 93-215 83-217 (319)
11 PF10508 Proteasom_PSMB: Prote 59.1 1.6E+02 0.0035 28.5 11.8 56 128-183 202-259 (503)
12 PF00514 Arm: Armadillo/beta-c 57.4 32 0.00069 21.3 4.5 37 73-109 4-40 (41)
13 KOG0946 ER-Golgi vesicle-tethe 56.6 1.3E+02 0.0027 31.9 10.7 131 67-200 107-245 (970)
14 PF07304 SRA1: Steroid recepto 53.8 28 0.00061 28.8 4.9 43 40-82 64-106 (157)
15 PF06757 Ins_allergen_rp: Inse 48.4 28 0.00061 29.0 4.1 26 157-182 22-47 (179)
16 PF15087 DUF4551: Protein of u 41.7 2.5E+02 0.0053 28.6 10.0 196 4-215 363-583 (617)
17 PF14680 FANCI_HD2: FANCI heli 41.7 25 0.00054 31.0 2.9 47 146-215 35-84 (234)
18 PTZ00464 SNF-7-like protein; P 40.6 1E+02 0.0022 26.9 6.5 48 1-55 1-50 (211)
19 PF10508 Proteasom_PSMB: Prote 40.4 2.4E+02 0.0052 27.4 9.7 113 86-207 43-158 (503)
20 KOG4438 Centromere-associated 38.9 1E+02 0.0022 29.9 6.7 108 97-213 10-125 (446)
21 PLN03200 cellulose synthase-in 35.7 7.1E+02 0.015 29.3 13.3 122 74-199 644-767 (2102)
22 cd01019 ZnuA Zinc binding prot 34.1 1.9E+02 0.004 25.8 7.3 72 10-81 126-228 (286)
23 smart00273 ENTH Epsin N-termin 32.6 1.6E+02 0.0034 22.9 5.9 46 63-109 16-62 (127)
24 cd01017 AdcA Metal binding pro 32.3 2.3E+02 0.0049 25.0 7.5 49 10-58 118-167 (282)
25 PRK15201 fimbriae regulatory p 32.3 31 0.00066 30.0 1.9 86 52-147 69-159 (198)
26 PF01417 ENTH: ENTH domain; I 31.2 1.6E+02 0.0034 22.8 5.7 88 60-154 14-112 (125)
27 PF01297 TroA: Periplasmic sol 31.2 2.2E+02 0.0047 24.5 7.1 73 10-82 97-200 (256)
28 cd01018 ZntC Metal binding pro 31.1 2.6E+02 0.0057 24.4 7.7 49 10-58 117-166 (266)
29 PF09090 MIF4G_like_2: MIF4G l 29.8 3.8E+02 0.0083 23.5 11.3 72 12-112 8-79 (253)
30 PRK09545 znuA high-affinity zi 28.9 2.6E+02 0.0056 25.3 7.5 49 10-58 150-199 (311)
31 cd07978 TAF13 The TATA Binding 28.6 46 0.00099 25.3 2.1 22 50-71 5-27 (92)
32 PF14678 FANCI_S4: FANCI solen 28.3 2.7E+02 0.0058 24.9 7.3 119 39-179 50-179 (256)
33 KOG4553 Uncharacterized conser 28.2 7.4E+02 0.016 27.4 11.2 140 40-216 483-647 (1398)
34 KOG3230 Vacuolar assembly/sort 28.1 1.6E+02 0.0035 25.9 5.6 67 1-79 1-67 (224)
35 KOG1086 Cytosolic sorting prot 27.7 3.7E+02 0.0081 26.7 8.5 140 37-182 212-383 (594)
36 PF12717 Cnd1: non-SMC mitotic 26.9 2.7E+02 0.0058 22.8 6.6 40 167-206 63-103 (178)
37 TIGR03772 anch_rpt_subst ancho 26.1 2.7E+02 0.0059 27.3 7.4 72 10-81 316-420 (479)
38 cd03571 ENTH_epsin ENTH domain 25.7 1.5E+02 0.0033 23.6 4.7 96 63-162 15-115 (123)
39 COG5064 SRP1 Karyopherin (impo 25.5 3.6E+02 0.0078 26.1 7.8 123 71-195 359-495 (526)
40 PF12616 DUF3775: Protein of u 25.1 49 0.0011 24.4 1.7 23 116-138 49-71 (75)
41 cd01137 PsaA Metal binding pro 24.9 3.5E+02 0.0077 24.0 7.5 73 10-82 122-227 (287)
42 KOG2180 Late Golgi protein sor 23.9 4.4E+02 0.0095 27.6 8.5 53 38-110 76-128 (793)
43 PF08006 DUF1700: Protein of u 23.7 2.1E+02 0.0046 23.6 5.5 61 13-81 2-64 (181)
44 cd01020 TroA_b Metal binding p 22.3 4.5E+02 0.0098 22.9 7.6 23 10-32 100-122 (264)
45 PF00196 GerE: Bacterial regul 22.2 45 0.00098 22.2 1.0 25 127-151 9-33 (58)
46 PF07319 DnaI_N: Primosomal pr 22.0 1.7E+02 0.0037 21.9 4.2 40 154-215 19-59 (94)
47 cd01016 TroA Metal binding pro 22.0 4.1E+02 0.0089 23.4 7.3 23 10-32 106-128 (276)
48 PF14887 HMG_box_5: HMG (high 21.7 1.8E+02 0.004 21.9 4.1 21 10-30 6-28 (85)
49 COG0219 CspR Predicted rRNA me 21.3 49 0.0011 27.8 1.1 17 139-155 9-25 (155)
50 PHA02800 hypothetical protein; 21.3 4.8E+02 0.01 22.0 6.9 35 134-169 44-78 (161)
51 COG0421 SpeE Spermidine syntha 21.1 26 0.00056 31.8 -0.6 23 142-164 83-105 (282)
52 KOG1077 Vesicle coat complex A 20.7 4.5E+02 0.0098 27.7 7.9 137 13-160 276-436 (938)
53 COG0803 LraI ABC-type metal io 20.5 4.2E+02 0.0091 23.8 7.1 52 10-61 138-190 (303)
54 PF05924 SAMP: SAMP Motif; In 20.3 57 0.0012 18.3 0.9 8 148-155 4-11 (20)
55 KOG2056 Equilibrative nucleosi 20.1 1.8E+02 0.0039 27.4 4.7 45 64-108 36-80 (336)
No 1
>PF08569 Mo25: Mo25-like; InterPro: IPR013878 Mo25-like proteins are involved in both polarised growth and cytokinesis. In fission yeast Mo25 is localised alternately to the spindle pole body and to the site of cell division in a cell cycle dependent manner [, ]. ; PDB: 2WTK_A 1UPK_A 3GNI_A 1UPL_A.
Probab=100.00 E-value=4.3e-76 Score=537.68 Aligned_cols=214 Identities=49% Similarity=0.776 Sum_probs=186.7
Q ss_pred CCccCCCCCCCCChHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHHHHHhhhhhcCCCCCCCChHHHHHHHHHHHhh
Q 027702 1 MSFSFFKPSRPKTPLEVVKATKVSLMALDIKTVVEVKALEKAMEEIEKNFVTMRCMLSGDGEVEPNADQVLQLATEVCKE 80 (220)
Q Consensus 1 M~flf~~k~~~ktP~elVr~~~e~l~~L~~~~~~~~~~~~k~~eeisK~L~~mK~iL~G~~e~ep~~e~~~qL~~ei~~~ 80 (220)
|+|||| ++||||+|+||+++|+|.+|+. . .+++++|++|||+|+|++||.||+|++|.+|++|+|+||++|+|++
T Consensus 1 M~FlF~--k~~KtP~ElVr~l~e~L~~L~~--~-~~~~~~k~~eeisK~L~~mK~IL~G~~e~ep~~e~v~qLa~Ei~~~ 75 (335)
T PF08569_consen 1 MSFLFK--KKPKTPAELVRSLREALEKLDS--K-SDKKREKAQEEISKYLQQMKEILYGDGEPEPNPEQVAQLAQEIYRS 75 (335)
T ss_dssp -------------HHHHHHHHHHHHHHHHS--S--HHHHHHHHHHHHHHHHHHHHHHHS-SS----HHHHHHHHHHHHHH
T ss_pred CCCCcC--CCCCCHHHHHHHHHHHHHHhcc--c-cCcchhhHHHHHHHHHHHHHHHhcCCCCCCCCHHHHHHHHHHHHHh
Confidence 999995 4999999999999999999971 1 3456799999999999999999999999999999999999999999
Q ss_pred cHHHHHHhcCCCCCchhhhcHHHHHHHhhhcccCCcc-chhHHhhcc-HHHHHHHHHhccCcchhhhhhHHHHHHhhhHH
Q 027702 81 DVLILLVHKLPILGWEARKDLVHCWSILLKQKVDSTY-CCVQFIENH-FELLDFLVVCYDNKEVALHCGIMLRECIKFPS 158 (220)
Q Consensus 81 dll~~Li~~L~~L~FE~RKdv~~If~~llR~~~~~~~-p~v~Yl~~~-peil~~L~~gY~~~diAl~~G~mLREcik~e~ 158 (220)
|+|..||.+|++||||+|||+++||++++|+++++++ |+|+||++| ||||++|+.||++||+|++||.|||||+|||+
T Consensus 76 dll~~Li~~L~~L~fEsrKdv~~if~~llr~~~~~~~~p~v~yl~~~~peil~~L~~gy~~~dial~~g~mlRec~k~e~ 155 (335)
T PF08569_consen 76 DLLYLLIRNLPKLDFESRKDVAQIFSNLLRRQIGSRSPPTVDYLERHRPEILDILLRGYENPDIALNCGDMLRECIKHES 155 (335)
T ss_dssp THHHHHHHTGGGS-HHHHHHHHHHHHHHHT--BTTB--HHHHHHHT--THHHHHHHHGGGSTTTHHHHHHHHHHHTTSHH
T ss_pred CHHHHHHHHhhhCCCcccccHHHHHHHHHhhccCCCCCchHHHHHhCCHHHHHHHHHHhcCccccchHHHHHHHHHhhHH
Confidence 9999999999999999999999999999999999998 999999999 99999999999999999999999999999999
Q ss_pred HHHHHcCchhHHHHhhhhcCCChhhhhhhHHHHHHHHhcChhHHHHHHHhcHHHHHHhhhc
Q 027702 159 LARYILESASFELFFKFVELPTFDVASDAFSTFKDLLTKHLTVVSEYLTAHYDEVYTHLIS 219 (220)
Q Consensus 159 la~~iL~~~~f~~fF~yv~~~~FeiasDAf~tfkelLtrHk~lvaefL~~Nyd~Ff~~y~~ 219 (220)
+|++||+++.||+||+|++.++||||||||+||+|+||+||++||+||..|||+||.+|+.
T Consensus 156 l~~~iL~~~~f~~ff~~~~~~~Fdiasdaf~t~~~llt~hk~~~a~fl~~n~d~ff~~~~~ 216 (335)
T PF08569_consen 156 LAKIILYSECFWKFFKYVQLPNFDIASDAFSTFKELLTRHKKLVAEFLSNNYDRFFQKYNK 216 (335)
T ss_dssp HHHHHHTSGGGGGHHHHTTSSSHHHHHHHHHHHHHHHHSSHHHHHHHHHHTHHHHHHHHHH
T ss_pred HHHHHhCcHHHHHHHHHhcCCccHhHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHHHH
Confidence 9999999999999999999999999999999999999999999999999999999998863
No 2
>KOG1566 consensus Conserved protein Mo25 [Function unknown]
Probab=100.00 E-value=1.6e-75 Score=524.63 Aligned_cols=216 Identities=46% Similarity=0.733 Sum_probs=210.7
Q ss_pred CCccCCCCCCCCChHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHHHHHhhhhhcCCCCCCCChHHHHHHHHHHHhh
Q 027702 1 MSFSFFKPSRPKTPLEVVKATKVSLMALDIKTVVEVKALEKAMEEIEKNFVTMRCMLSGDGEVEPNADQVLQLATEVCKE 80 (220)
Q Consensus 1 M~flf~~k~~~ktP~elVr~~~e~l~~L~~~~~~~~~~~~k~~eeisK~L~~mK~iL~G~~e~ep~~e~~~qL~~ei~~~ 80 (220)
|+||||+ +||||+|+||.+||+|..++..++..+.+++|++|||+|++..+|.|+||++|.||.+|+|+||++|+|+.
T Consensus 1 M~~~f~k--~~ktP~d~Vr~~rd~l~~~~~~~~l~~~~~~k~~eevsk~l~~~k~il~Gn~e~eP~~e~~~qLtqef~~~ 78 (342)
T KOG1566|consen 1 MFFLFKK--SPKTPADVVRRTRDKLKFLDKVRDLLDHKREKAVEEVSKNLDMLKSILYGNDEAEPFAEAVAQLTQEFYNA 78 (342)
T ss_pred CCCccCC--CCCCHHHHHHHHHHHHhcccccchhHHHHHHHHHHHHHHHHhhhHHheeCCCCCCCChHHHHHHHHHHHhC
Confidence 8999954 99999999999999999999987667789999999999999999999999999999999999999999999
Q ss_pred cHHHHHHhcCCCCCchhhhcHHHHHHHhhhcccCCccchhHHhhccHHHHHHHHHhccC-cchhhhhhHHHHHHhhhHHH
Q 027702 81 DVLILLVHKLPILGWEARKDLVHCWSILLKQKVDSTYCCVQFIENHFELLDFLVVCYDN-KEVALHCGIMLRECIKFPSL 159 (220)
Q Consensus 81 dll~~Li~~L~~L~FE~RKdv~~If~~llR~~~~~~~p~v~Yl~~~peil~~L~~gY~~-~diAl~~G~mLREcik~e~l 159 (220)
|++.+||+++|+|+||+|||+++|||+++|||+|+|+|||+|+++||||++.|+.||++ +|+||+||+|||||+|||.|
T Consensus 79 ~~l~~lI~~l~~l~fE~rkD~~~ifnnllr~qvgtr~~tv~Yl~t~~e~~~~lv~~~~~~~~iaL~cg~mlrEcirhe~L 158 (342)
T KOG1566|consen 79 DVLSLLIQHLPKLEFESRKDVLQIFNNLLRRQVGTRSPTVEYLETNPEILDNLVKGYENTPEIALTCGNMLRECIRHEFL 158 (342)
T ss_pred CchHHHHHhhhcccchhhhHHHHHHHHHHHhhcCCcchHHHHHHhCHHHHHHHHhhhccchHHHHHHHHHHHHHHhhHHH
Confidence 99999999999999999999999999999999999999999999999999999999996 99999999999999999999
Q ss_pred HHHHcCchhHHHHhhhhcCCChhhhhhhHHHHHHHHhcChhHHHHHHHhcHHHHHHhhh
Q 027702 160 ARYILESASFELFFKFVELPTFDVASDAFSTFKDLLTKHLTVVSEYLTAHYDEVYTHLI 218 (220)
Q Consensus 160 a~~iL~~~~f~~fF~yv~~~~FeiasDAf~tfkelLtrHk~lvaefL~~Nyd~Ff~~y~ 218 (220)
|++||+|++||+||.||+.|+||||||||+|||++|||||.+|||||..|||+||.+|.
T Consensus 159 akiiL~s~~~~~FF~~vq~p~FdiasdA~~tfK~llt~Hk~~vaEfl~~n~d~ff~e~~ 217 (342)
T KOG1566|consen 159 AKIILESTNFEKFFLYVQLPNFDIASDAFSTFKELLTRHKSVVAEFLIRNYDNFFAEVY 217 (342)
T ss_pred HHHHHcchhHHHHHHHHhccchHHHHHHHHHHHHHHHHhHHHHHHHHHhChhhhHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999854
No 3
>PF08569 Mo25: Mo25-like; InterPro: IPR013878 Mo25-like proteins are involved in both polarised growth and cytokinesis. In fission yeast Mo25 is localised alternately to the spindle pole body and to the site of cell division in a cell cycle dependent manner [, ]. ; PDB: 2WTK_A 1UPK_A 3GNI_A 1UPL_A.
Probab=94.22 E-value=0.49 Score=43.97 Aligned_cols=118 Identities=15% Similarity=0.240 Sum_probs=89.5
Q ss_pred HHHHHHhhcHHHHHHhcCCCCCchhhhcHHHHHHHhhhcccCCccchhHHhhccHHHHHHHHHhccCcc-------hhhh
Q 027702 73 LATEVCKEDVLILLVHKLPILGWEARKDLVHCWSILLKQKVDSTYCCVQFIENHFELLDFLVVCYDNKE-------VALH 145 (220)
Q Consensus 73 L~~ei~~~dll~~Li~~L~~L~FE~RKdv~~If~~llR~~~~~~~p~v~Yl~~~peil~~L~~gY~~~d-------iAl~ 145 (220)
++.-+..++.+..+...+..=.||--=|+-..|..+|-+. +..+.+|+..|-+-.+....+-=..+ .-=.
T Consensus 156 l~~~iL~~~~f~~ff~~~~~~~Fdiasdaf~t~~~llt~h---k~~~a~fl~~n~d~ff~~~~~Ll~s~NYvtkrqslkL 232 (335)
T PF08569_consen 156 LAKIILYSECFWKFFKYVQLPNFDIASDAFSTFKELLTRH---KKLVAEFLSNNYDRFFQKYNKLLESSNYVTKRQSLKL 232 (335)
T ss_dssp HHHHHHTSGGGGGHHHHTTSSSHHHHHHHHHHHHHHHHSS---HHHHHHHHHHTHHHHHHHHHHHCT-SSHHHHHHHHHH
T ss_pred HHHHHhCcHHHHHHHHHhcCCccHhHHHHHHHHHHHHhcc---HHHHHHHHHHHHHHHHHHHHHHccCCCeEeehhhHHH
Confidence 4555555566667778888889999999999999999764 34678999998766555544422222 2223
Q ss_pred hhHHHHHHhhhHHHHHHHcCchhHHHHhhhhcCCChhhhhhhHHHHHH
Q 027702 146 CGIMLRECIKFPSLARYILESASFELFFKFVELPTFDVASDAFSTFKD 193 (220)
Q Consensus 146 ~G~mLREcik~e~la~~iL~~~~f~~fF~yv~~~~FeiasDAf~tfke 193 (220)
.|.+|.+-.-++.+.+||=..+.+..+...+..++=-|..+||..||-
T Consensus 233 L~ellldr~n~~vm~~yi~~~~nLkl~M~lL~d~sk~Iq~eAFhvFKv 280 (335)
T PF08569_consen 233 LGELLLDRSNFNVMTRYISSPENLKLMMNLLRDKSKNIQFEAFHVFKV 280 (335)
T ss_dssp HHHHHHSGGGHHHHHHHTT-HHHHHHHHHHTT-S-HHHHHHHHHHHHH
T ss_pred HHHHHHchhHHHHHHHHHCCHHHHHHHHHHhcCcchhhhHHHHHHHHH
Confidence 789998888999999999999999999999999999999999999994
No 4
>PTZ00446 vacuolar sorting protein SNF7-like; Provisional
Probab=88.09 E-value=1.1 Score=38.57 Aligned_cols=30 Identities=20% Similarity=0.240 Sum_probs=21.5
Q ss_pred CCccCCCCCCCC-----------ChHHHHHHHHHHHHhccc
Q 027702 1 MSFSFFKPSRPK-----------TPLEVVKATKVSLMALDI 30 (220)
Q Consensus 1 M~flf~~k~~~k-----------tP~elVr~~~e~l~~L~~ 30 (220)
|-|||||+++.- +|.+-+-.+++++..|..
T Consensus 1 m~~~fgk~~~~~~~~~~~~~~~~~~~~AIl~Lk~~~~~L~k 41 (191)
T PTZ00446 1 MRFWFGKKKNSSECSDNKKKNNDEIYKAILKNREAIDALEK 41 (191)
T ss_pred CccccCCCCCCCcchhhhhccCCCHHHHHHHHHHHHHHHHH
Confidence 889999755322 477777788888877754
No 5
>KOG1566 consensus Conserved protein Mo25 [Function unknown]
Probab=84.45 E-value=9.2 Score=35.75 Aligned_cols=109 Identities=17% Similarity=0.327 Sum_probs=80.9
Q ss_pred CchhhhcHHHHHHHhhhcccCCccchhHHhhccHHHHHHHHHhcc---Ccc-------hhhhhhHHHHHHhhhHHHHHHH
Q 027702 94 GWEARKDLVHCWSILLKQKVDSTYCCVQFIENHFELLDFLVVCYD---NKE-------VALHCGIMLRECIKFPSLARYI 163 (220)
Q Consensus 94 ~FE~RKdv~~If~~llR~~~~~~~p~v~Yl~~~peil~~L~~gY~---~~d-------iAl~~G~mLREcik~e~la~~i 163 (220)
.|+---|+.++|..++++. .....||+..|++..+.= .|+ +.+ .----|.+|.+--..-.+++||
T Consensus 179 ~FdiasdA~~tfK~llt~H---k~~vaEfl~~n~d~ff~e--~~~~Ll~s~Nyvtkrqs~kllg~llldr~N~~~M~kYi 253 (342)
T KOG1566|consen 179 NFDIASDAFSTFKELLTRH---KSVVAEFLIRNYDNFFAE--VYEKLLRSENYVTKRQSLKLLGELLLDRSNSAVMTKYI 253 (342)
T ss_pred chHHHHHHHHHHHHHHHHh---HHHHHHHHHhChhhhHHH--HHHHHhcccceehHHHHHHhHHHHHhCCCcHHHHHHHh
Confidence 4566679999999999977 456789999999887322 121 111 1123688888888888899999
Q ss_pred cCchhHHHHhhhhcCCChhhhhhhHHHHH-------------HHHhcChhHHHHHHH
Q 027702 164 LESASFELFFKFVELPTFDVASDAFSTFK-------------DLLTKHLTVVSEYLT 207 (220)
Q Consensus 164 L~~~~f~~fF~yv~~~~FeiasDAf~tfk-------------elLtrHk~lvaefL~ 207 (220)
...+.+.-+...++-++=.|.=.||..|| ++|.++++-.-+||.
T Consensus 254 ss~enLKlmM~llrdkskniQ~eAFhvFKvfvAnpnK~q~V~~IL~~Nr~KLl~~l~ 310 (342)
T KOG1566|consen 254 SSPENLKLMMNLLRDKSKNIQLEAFHVFKVFVANPNKPQPVRDILVRNRPKLLELLH 310 (342)
T ss_pred cCHHHHHHHHHHhhCccccchHHHHHHHHHHhcCCCCCchHHHHHHhCcHHHHHHHH
Confidence 98888988888999999999999999999 455555555555553
No 6
>cd00020 ARM Armadillo/beta-catenin-like repeats. An approximately 40 amino acid long tandemly repeated sequence motif first identified in the Drosophila segment polarity gene armadillo; these repeats were also found in the mammalian armadillo homolog beta-catenin, the junctional plaque protein plakoglobin, the adenomatous polyposis coli (APC) tumor suppressor protein, and a number of other proteins. ARM has been implicated in mediating protein-protein interactions, but no common features among the target proteins recognized by the ARM repeats have been identified; related to the HEAT domain; three consecutive copies of the repeat are represented by this alignment model.
Probab=84.06 E-value=10 Score=27.52 Aligned_cols=114 Identities=18% Similarity=0.133 Sum_probs=77.1
Q ss_pred HHHhhcHHHHHHhcCCCCCchhhhcHHHHHHHhhhcccCCccchhHHhhccHHHHHHHHHh--ccCcchhhhhhHHHHHH
Q 027702 76 EVCKEDVLILLVHKLPILGWEARKDLVHCWSILLKQKVDSTYCCVQFIENHFELLDFLVVC--YDNKEVALHCGIMLREC 153 (220)
Q Consensus 76 ei~~~dll~~Li~~L~~L~FE~RKdv~~If~~llR~~~~~~~p~v~Yl~~~peil~~L~~g--Y~~~diAl~~G~mLREc 153 (220)
++++.+.+..|+..|..=+.+.|..+.....++-... .+....+.+ .+++..|+.- .+++++.-.+-..|...
T Consensus 2 ~~~~~~~i~~l~~~l~~~~~~~~~~a~~~l~~l~~~~----~~~~~~~~~-~~~i~~l~~~l~~~~~~v~~~a~~~L~~l 76 (120)
T cd00020 2 AVIQAGGLPALVSLLSSSDENVQREAAWALSNLSAGN----NDNIQAVVE-AGGLPALVQLLKSEDEEVVKAALWALRNL 76 (120)
T ss_pred hHHHcCChHHHHHHHHcCCHHHHHHHHHHHHHHhcCC----HHHHHHHHH-CCChHHHHHHHhCCCHHHHHHHHHHHHHH
Confidence 4667788888888888888899999999988887643 223444443 2333333322 24678888888888888
Q ss_pred hhhHH-HHHHHcCchhHHHHhhhhcCCChhhhhhhHHHHHHH
Q 027702 154 IKFPS-LARYILESASFELFFKFVELPTFDVASDAFSTFKDL 194 (220)
Q Consensus 154 ik~e~-la~~iL~~~~f~~fF~yv~~~~FeiasDAf~tfkel 194 (220)
..+.. ....+........+.+.++.++-++..-|..++..+
T Consensus 77 ~~~~~~~~~~~~~~g~l~~l~~~l~~~~~~~~~~a~~~l~~l 118 (120)
T cd00020 77 AAGPEDNKLIVLEAGGVPKLVNLLDSSNEDIQKNATGALSNL 118 (120)
T ss_pred ccCcHHHHHHHHHCCChHHHHHHHhcCCHHHHHHHHHHHHHh
Confidence 77664 444455555677777888887777777777766543
No 7
>PF05952 ComX: Bacillus competence pheromone ComX; InterPro: IPR009233 Competence is the ability of a cell to take up exogenous DNA from its environment, resulting in transformation. It is widespread among bacteria and is probably an important mechanism for the horizontal transfer of genes. Cells that take up DNA inevitably acquire the nucleotides the DNA consists of, and, because nucleotides are needed for DNA and RNA synthesis and are expensive to synthesise, these may make a significant contribution to the cell's energy budget []. The lateral gene transfer caused by competence also contributes to the genetic diversity that makes evolution possible. DNA usually becomes available by the death and lysis of other cells. Competent bacteria use components of extracellular filaments called type 4 pili to create pores in their membranes and pull DNA through the pores into the cytoplasm. This process, including the development of competence and the expression of the uptake machinery, is regulated in response to cell-cell signalling and/or nutritional conditions []. Natural genetic competence in Bacillus subtilis is controlled by quorum-sensing (QS). The ComP- ComA two-component system detects the signalling molecule ComX, and this signal is transduced by a conserved phosphotransfer mechanism. ComX is synthesised as an inactive precursor and is then cleaved and modified by ComQ before export to the extracellular environment [].
Probab=76.34 E-value=1.8 Score=30.45 Aligned_cols=18 Identities=22% Similarity=0.266 Sum_probs=16.4
Q ss_pred hhHHhhccHHHHHHHHHh
Q 027702 119 CVQFIENHFELLDFLVVC 136 (220)
Q Consensus 119 ~v~Yl~~~peil~~L~~g 136 (220)
.|.||+.||+++..|..|
T Consensus 5 iV~YLv~nPevl~kl~~g 22 (57)
T PF05952_consen 5 IVNYLVQNPEVLEKLKEG 22 (57)
T ss_pred HHHHHHHChHHHHHHHcC
Confidence 589999999999999877
No 8
>KOG1655 consensus Protein involved in vacuolar protein sorting [Intracellular trafficking, secretion, and vesicular transport]
Probab=75.62 E-value=12 Score=32.76 Aligned_cols=132 Identities=17% Similarity=0.178 Sum_probs=75.8
Q ss_pred CCccCCCCCCCCChHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHHHHHhhhhhcCCCCCCCChHHHHHHHHHHHhh
Q 027702 1 MSFSFFKPSRPKTPLEVVKATKVSLMALDIKTVVEVKALEKAMEEIEKNFVTMRCMLSGDGEVEPNADQVLQLATEVCKE 80 (220)
Q Consensus 1 M~flf~~k~~~ktP~elVr~~~e~l~~L~~~~~~~~~~~~k~~eeisK~L~~mK~iL~G~~e~ep~~e~~~qL~~ei~~~ 80 (220)
|.=+|| +++||.|.-...-..+.+ +..+.+-+++-.|.-.|++|+=.+|+.+=-| |..+.+.|=|-.+.+.
T Consensus 1 MnRiFG-~~k~k~p~psL~dai~~v---~~r~dSve~KIskLDaeL~k~~~Qi~k~R~g-----paq~~~KqrAlrVLkQ 71 (218)
T KOG1655|consen 1 MNRIFG-RGKPKEPPPSLQDAIDSV---NKRSDSVEKKISKLDAELCKYKDQIKKTRPG-----PAQNALKQRALRVLKQ 71 (218)
T ss_pred Cccccc-CCCCCCCChhHHHHHHHH---HHhhhhHHHHHHHHHHHHHHHHHHHHhcCCC-----cchhHHHHHHHHHHHH
Confidence 556898 677888876555444444 4433335566677888999999999997333 5556676666655543
Q ss_pred c--------HHHHHHhcCCCCCc--hhhhcHHHHHHHhhh--ccc--CCccc-----------hhHHhhccHHHHHHHHH
Q 027702 81 D--------VLILLVHKLPILGW--EARKDLVHCWSILLK--QKV--DSTYC-----------CVQFIENHFELLDFLVV 135 (220)
Q Consensus 81 d--------ll~~Li~~L~~L~F--E~RKdv~~If~~llR--~~~--~~~~p-----------~v~Yl~~~peil~~L~~ 135 (220)
. -|..=-.||..-.| |+=||..+-.+++-- ++. ...-. ..+++...-||=..|=+
T Consensus 72 KK~yE~q~d~L~~QsfNMeQa~~t~e~LKdtq~Tv~AmK~~~k~mK~~ykkvnId~IedlQDem~Dlmd~a~EiQE~Lgr 151 (218)
T KOG1655|consen 72 KKMYENQKDSLDQQSFNMEQANFTAESLKDTQATVAAMKDTNKEMKKQYKKVNIDKIEDLQDEMEDLMDQADEIQEVLGR 151 (218)
T ss_pred HHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 2 22222233332222 456777666655422 000 00111 23455555666666677
Q ss_pred hccCcc
Q 027702 136 CYDNKE 141 (220)
Q Consensus 136 gY~~~d 141 (220)
-|..||
T Consensus 152 ~y~~pe 157 (218)
T KOG1655|consen 152 NYNTPD 157 (218)
T ss_pred ccCCCC
Confidence 788887
No 9
>KOG0166 consensus Karyopherin (importin) alpha [Intracellular trafficking, secretion, and vesicular transport]
Probab=75.11 E-value=25 Score=34.78 Aligned_cols=133 Identities=14% Similarity=0.171 Sum_probs=79.8
Q ss_pred HHHHHHHHHHHHhhhhhcCCCCCCCChHHHHHHHHHHHhhcHHHHHHhcCCCCCchhhhcHHHHHHHhhhcccCCccchh
Q 027702 41 KAMEEIEKNFVTMRCMLSGDGEVEPNADQVLQLATEVCKEDVLILLVHKLPILGWEARKDLVHCWSILLKQKVDSTYCCV 120 (220)
Q Consensus 41 k~~eeisK~L~~mK~iL~G~~e~ep~~e~~~qL~~ei~~~dll~~Li~~L~~L~FE~RKdv~~If~~llR~~~~~~~p~v 120 (220)
+.-.|.+-.++.|-. |+ ++ =++.++..++++.|+..|..=||..||.++=..+|+.- ++..--+
T Consensus 337 ~ikkEAcW~iSNItA---G~------~~----qiqaVida~l~p~Li~~l~~~ef~~rKEAawaIsN~ts---~g~~~qi 400 (514)
T KOG0166|consen 337 SIKKEACWTISNITA---GN------QE----QIQAVIDANLIPVLINLLQTAEFDIRKEAAWAISNLTS---SGTPEQI 400 (514)
T ss_pred hHHHHHHHHHHHhhc---CC------HH----HHHHHHHcccHHHHHHHHhccchHHHHHHHHHHHhhcc---cCCHHHH
Confidence 344566666666544 32 22 34667788999999999999999999999999999984 4444456
Q ss_pred HHhhccHHHHHHHHHhcc--Ccch----------hhhhhHHHHHHhhhHHHHHHHcCchhHHHHhhhhcCCChhhhhhhH
Q 027702 121 QFIENHFELLDFLVVCYD--NKEV----------ALHCGIMLRECIKFPSLARYILESASFELFFKFVELPTFDVASDAF 188 (220)
Q Consensus 121 ~Yl~~~peil~~L~~gY~--~~di----------Al~~G~mLREcik~e~la~~iL~~~~f~~fF~yv~~~~FeiasDAf 188 (220)
.||+++. |+.-||.-.. +.++ .+-.|.+..+-=. +.++.+|=+.....+.-..=...|=||..-|+
T Consensus 401 ~yLv~~g-iI~plcdlL~~~D~~ii~v~Ld~l~nil~~~e~~~~~~~-n~~~~~IEe~ggldkiE~LQ~hen~~Iy~~A~ 478 (514)
T KOG0166|consen 401 KYLVEQG-IIKPLCDLLTCPDVKIILVALDGLENILKVGEAEKNRGT-NPLAIMIEEAGGLDKIENLQSHENEEIYKKAY 478 (514)
T ss_pred HHHHHcC-CchhhhhcccCCChHHHHHHHHHHHHHHHHHHHhccccc-cHHHHHHHHccChhHHHHhhccccHHHHHHHH
Confidence 7777764 4444433322 2222 1222333222111 55666666666666665444555556666555
Q ss_pred HHH
Q 027702 189 STF 191 (220)
Q Consensus 189 ~tf 191 (220)
...
T Consensus 479 ~II 481 (514)
T KOG0166|consen 479 KII 481 (514)
T ss_pred HHH
Confidence 443
No 10
>PF08767 CRM1_C: CRM1 C terminal; InterPro: IPR014877 CRM1 (also known as Exportin1) mediates the nuclear export of proteins bearing a leucine-rich nuclear export signal (NES). CRM1 forms a complex with the NES containing protein and the small GTPase Ran. This region forms an alpha helical structure formed by six helical hairpin motifs that are structurally similar to the HEAT repeat, but share little sequence similarity to the HEAT repeat []. ; PDB: 3M1I_C 3GB8_A 1W9C_A 3NC1_A 3NBY_D 3NBZ_D 3NC0_A 3GJX_D.
Probab=69.47 E-value=39 Score=30.88 Aligned_cols=115 Identities=13% Similarity=0.215 Sum_probs=73.1
Q ss_pred CCchhhh-cHHHHHHHhhhcccCCccchhHHhhccHHHHHHHH--------Hhc-cCcchhhhhhHHHHHHhhh--HHHH
Q 027702 93 LGWEARK-DLVHCWSILLKQKVDSTYCCVQFIENHFELLDFLV--------VCY-DNKEVALHCGIMLRECIKF--PSLA 160 (220)
Q Consensus 93 L~FE~RK-dv~~If~~llR~~~~~~~p~v~Yl~~~peil~~L~--------~gY-~~~diAl~~G~mLREcik~--e~la 160 (220)
-..++|- .|-.+++++.++-.+.-.|.+ |.|++.+. ..+ +.||.....=.+||-++++ +.+.
T Consensus 83 ~~p~~r~~evL~l~~~ii~kl~~~~~~~v------~~I~~~vf~~Tl~MI~~d~~~yPe~r~~ff~LL~~i~~~~f~~l~ 156 (319)
T PF08767_consen 83 SVPDAREPEVLSLMATIINKLGELIQPQV------PQILEAVFECTLPMINKDFEEYPEHRVNFFKLLRAINEHCFPALL 156 (319)
T ss_dssp S-GGGS-HHHHHHHHHHHHHHGGGCCCCH------HHHHHHHHHHHHHHHSSTSSSSHHHHHHHHHHHHHHHHHHTHHHH
T ss_pred CCccccChhHHHHHHHHHHHHHHhhhhhH------HHHHHHHHHHHHHHHHhhhhhChHHHHHHHHHHHHHHHHhHHHHH
Confidence 3445555 555666666664322112222 44444443 333 4689999998999988887 5554
Q ss_pred HHHcCchhHHHHhhh----hcCCChhhhhhhHHHHHHHHhcCh----hHHHHHHHhcHHHHHH
Q 027702 161 RYILESASFELFFKF----VELPTFDVASDAFSTFKDLLTKHL----TVVSEYLTAHYDEVYT 215 (220)
Q Consensus 161 ~~iL~~~~f~~fF~y----v~~~~FeiasDAf~tfkelLtrHk----~lvaefL~~Nyd~Ff~ 215 (220)
. |.++.|..+++. ++.++-||+..++.+..++++... ...-+|..+.|-.+..
T Consensus 157 ~--lp~~~f~~~idsi~wg~kh~~~~I~~~~L~~l~~ll~~~~~~~~~~~~~F~~~y~~~il~ 217 (319)
T PF08767_consen 157 Q--LPPEQFKLVIDSIVWGFKHTNREISETGLNILLELLNNVSKTNPEFANQFYQQYYLDILQ 217 (319)
T ss_dssp H--S-HHHHHHHHHHHHHHHTSSSHHHHHHHHHHHHHHHHHHHH-SHHHHHHHHHHHHHHHHH
T ss_pred c--CCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHH
Confidence 4 677788877764 588999999999999999998543 3444676666644443
No 11
>PF10508 Proteasom_PSMB: Proteasome non-ATPase 26S subunit; InterPro: IPR019538 The 26S proteasome is an enzymatic complex that degrades ubiquitinated proteins in eukaryotic cells. 26S proteasome non-ATPase regulatory subunit 5 is one of a number of chaperones that are involved in the assembly of the proteasome. The chaperones dissociate before 26S proteasome formation is complete [].; GO: 0044183 protein binding involved in protein folding
Probab=59.05 E-value=1.6e+02 Score=28.53 Aligned_cols=56 Identities=23% Similarity=0.314 Sum_probs=46.7
Q ss_pred HHHHHHHHhccCcc--hhhhhhHHHHHHhhhHHHHHHHcCchhHHHHhhhhcCCChhh
Q 027702 128 ELLDFLVVCYDNKE--VALHCGIMLRECIKFPSLARYILESASFELFFKFVELPTFDV 183 (220)
Q Consensus 128 eil~~L~~gY~~~d--iAl~~G~mLREcik~e~la~~iL~~~~f~~fF~yv~~~~Fei 183 (220)
.+++.++..+++.| +-++|-.+|-+....+.-+++|.....|.++.+.++.+.-|-
T Consensus 202 gll~~ll~eL~~dDiLvqlnalell~~La~~~~g~~yL~~~gi~~~L~~~l~~~~~dp 259 (503)
T PF10508_consen 202 GLLDLLLKELDSDDILVQLNALELLSELAETPHGLQYLEQQGIFDKLSNLLQDSEEDP 259 (503)
T ss_pred cHHHHHHHHhcCccHHHHHHHHHHHHHHHcChhHHHHHHhCCHHHHHHHHHhccccCC
Confidence 47777777788877 578999999999999999999999988988888887765554
No 12
>PF00514 Arm: Armadillo/beta-catenin-like repeat; InterPro: IPR000225 The armadillo (Arm) repeat is an approximately 40 amino acid long tandemly repeated sequence motif first identified in the Drosophila melanogaster segment polarity gene armadillo involved in signal transduction through wingless. Animal Arm-repeat proteins function in various processes, including intracellular signalling and cytoskeletal regulation, and include such proteins as beta-catenin, the junctional plaque protein plakoglobin, the adenomatous polyposis coli (APC) tumour suppressor protein, and the nuclear transport factor importin-alpha, amongst others []. A subset of these proteins is conserved across eukaryotic kingdoms. In higher plants, some Arm-repeat proteins function in intracellular signalling like their mammalian counterparts, while others have novel functions []. The 3-dimensional fold of an armadillo repeat is known from the crystal structure of beta-catenin, where the 12 repeats form a superhelix of alpha helices with three helices per unit []. The cylindrical structure features a positively charged grove, which presumably interacts with the acidic surfaces of the known interaction partners of beta-catenin.; GO: 0005515 protein binding; PDB: 2Z6G_A 1IQ1_C 3RZX_A 2C1M_A 3BTR_C 3OQS_A 3TPO_A 1IAL_A 1Q1S_C 1PJM_B ....
Probab=57.35 E-value=32 Score=21.30 Aligned_cols=37 Identities=14% Similarity=0.038 Sum_probs=32.3
Q ss_pred HHHHHHhhcHHHHHHhcCCCCCchhhhcHHHHHHHhh
Q 027702 73 LATEVCKEDVLILLVHKLPILGWEARKDLVHCWSILL 109 (220)
Q Consensus 73 L~~ei~~~dll~~Li~~L~~L~FE~RKdv~~If~~ll 109 (220)
-.+.+.+.+.+..|+..|..-+.+.++.++...+|+-
T Consensus 4 ~~~~i~~~g~i~~Lv~ll~~~~~~v~~~a~~al~nl~ 40 (41)
T PF00514_consen 4 NKQAIVEAGGIPPLVQLLKSPDPEVQEEAAWALGNLA 40 (41)
T ss_dssp HHHHHHHTTHHHHHHHHTTSSSHHHHHHHHHHHHHHH
T ss_pred HHHHHHHcccHHHHHHHHcCCCHHHHHHHHHHHHHHh
Confidence 3456778899999999999999999999998888874
No 13
>KOG0946 consensus ER-Golgi vesicle-tethering protein p115 [Intracellular trafficking, secretion, and vesicular transport]
Probab=56.59 E-value=1.3e+02 Score=31.85 Aligned_cols=131 Identities=21% Similarity=0.250 Sum_probs=85.7
Q ss_pred hHHHHHHHHHHHh-hcHHHHHHhcCCCCCchhhhcHHHHHHHhhhcccCCccchhHHhhccHHHHHHHHHhccC-cchhh
Q 027702 67 ADQVLQLATEVCK-EDVLILLVHKLPILGWEARKDLVHCWSILLKQKVDSTYCCVQFIENHFELLDFLVVCYDN-KEVAL 144 (220)
Q Consensus 67 ~e~~~qL~~ei~~-~dll~~Li~~L~~L~FE~RKdv~~If~~llR~~~~~~~p~v~Yl~~~peil~~L~~gY~~-~diAl 144 (220)
.+.-.++|..+++ .|.+..|+..+...||-.|--..+.++++++.++.. .=+-|..+|-=+..|+.=-.+ .|+-=
T Consensus 107 dd~g~~iae~fik~qd~I~lll~~~e~~DF~VR~~aIqLlsalls~r~~e---~q~~ll~~P~gIS~lmdlL~DsrE~IR 183 (970)
T KOG0946|consen 107 DDLGLWIAEQFIKNQDNITLLLQSLEEFDFHVRLYAIQLLSALLSCRPTE---LQDALLVSPMGISKLMDLLRDSREPIR 183 (970)
T ss_pred hHHHHHHHHHHHcCchhHHHHHHHHHhhchhhhhHHHHHHHHHHhcCCHH---HHHHHHHCchhHHHHHHHHhhhhhhhc
Confidence 3455677777554 479999999999999999999999999999865321 124566678777777654432 22222
Q ss_pred hhhH-HHHHHhh-hHHHHHHHcCchhHHHHhhhhcC-CCh---hhhhhhHHHHHHHHhcChh
Q 027702 145 HCGI-MLRECIK-FPSLARYILESASFELFFKFVEL-PTF---DVASDAFSTFKDLLTKHLT 200 (220)
Q Consensus 145 ~~G~-mLREcik-~e~la~~iL~~~~f~~fF~yv~~-~~F---eiasDAf~tfkelLtrHk~ 200 (220)
+-|. ||-|..| .-.+-+++-+...|.++|+-|+. +.- =|.=|++.-+.-||..|-+
T Consensus 184 Ne~iLlL~eL~k~n~~IQKlVAFENaFerLfsIIeeEGg~dGgIVveDCL~ll~NLLK~N~S 245 (970)
T KOG0946|consen 184 NEAILLLSELVKDNSSIQKLVAFENAFERLFSIIEEEGGLDGGIVVEDCLILLNNLLKNNIS 245 (970)
T ss_pred hhHHHHHHHHHccCchHHHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhhCcc
Confidence 2221 1222222 23444555556678999988743 222 3778999998888887643
No 14
>PF07304 SRA1: Steroid receptor RNA activator (SRA1); InterPro: IPR009917 This entry consists of several hypothetical mammalian steroid receptor RNA activator proteins. The SRA-RNAs encode stable proteins that are widely expressed and upregulated in breast cancer cell lines. SRA-RNA is a steroid receptor co-activator which acts as a functional RNA. This domain is also found at the C terminus of Sec31, a component of the coat protein complex II (COPII, which promotes the formation of transport vesicles from the endoplasmic reticulum (ER). COPII has two main functions, the physical deformation of the endoplasmic reticulum membrane into vesicles and the selection of cargo molecules. ; PDB: 2YRU_A.
Probab=53.82 E-value=28 Score=28.84 Aligned_cols=43 Identities=23% Similarity=0.325 Sum_probs=32.1
Q ss_pred HHHHHHHHHHHHHhhhhhcCCCCCCCChHHHHHHHHHHHhhcH
Q 027702 40 EKAMEEIEKNFVTMRCMLSGDGEVEPNADQVLQLATEVCKEDV 82 (220)
Q Consensus 40 ~k~~eeisK~L~~mK~iL~G~~e~ep~~e~~~qL~~ei~~~dl 82 (220)
++..+|+.|.|+-|-.-|-.+.=..|..+...+|++++-+.|+
T Consensus 64 kr~~~D~~KRL~iLfd~ln~g~Ls~~v~~~L~~L~~aL~~~d~ 106 (157)
T PF07304_consen 64 KRVVDDIEKRLNILFDHLNNGKLSKPVVDKLHQLAQALQARDY 106 (157)
T ss_dssp HHHHHHHHHHHHHHHHHHHHT-S-HHHHHHHHHHHHHHHHT-H
T ss_pred hhHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHcCCH
Confidence 4567999999999988887655556677888888888877765
No 15
>PF06757 Ins_allergen_rp: Insect allergen related repeat, nitrile-specifier detoxification; InterPro: IPR010629 This entry represents several insect specific allergen repeats. These repeats are commonly found in various proteins from cockroaches, fruit flies and mosquitos. It has been suggested that the repeat sequences have evolved by duplication of an ancestral amino acid domain, which may have arisen from the mitochondrial energy transfer proteins []. This family exemplifies a case of novel gene evolution. The case in point is the arms-race between plants and their infective insective herbivores in the area of the glucosinolate-myrosinase system. Brassicas have developed the glucosinolate-myrosinase system as chemical defence mechanism against the insects, and consequently the insects have adapted to produce a detoxifying molecule, nitrile-specifier protein (NSP). NSP is present in the Pieris rapae (Cabbage white butterfly). NSP is structurally different from and has no amino acid homology to any known detoxifying enzymes, and it appears to have arisen by a process of domain and gene duplication of a sequence of unknown function that is widespread in insect species and referred to as insect-allergen-repeat protein. Thus this family is found either as a single domain or as a multiple repeat-domain [].
Probab=48.39 E-value=28 Score=29.04 Aligned_cols=26 Identities=27% Similarity=0.553 Sum_probs=18.4
Q ss_pred HHHHHHHcCchhHHHHhhhhcCCChh
Q 027702 157 PSLARYILESASFELFFKFVELPTFD 182 (220)
Q Consensus 157 e~la~~iL~~~~f~~fF~yv~~~~Fe 182 (220)
+.+.+|+.+|+.|.++++|++.+.|.
T Consensus 22 ~i~~~Y~~~D~efq~~~~yl~s~~f~ 47 (179)
T PF06757_consen 22 DIVQRYYLEDAEFQAAVRYLNSSEFK 47 (179)
T ss_pred HHHHHHHHcCHHHHHHHHHHcChHHH
Confidence 34455777778888888888777664
No 16
>PF15087 DUF4551: Protein of unknown function (DUF4551)
Probab=41.72 E-value=2.5e+02 Score=28.63 Aligned_cols=196 Identities=16% Similarity=0.143 Sum_probs=96.0
Q ss_pred cCCCCCCCCChHHHHHHHHHHHHhccccchhhHHHHHHHHH-HHHHHHHHhhhhhcCCCCCCCChHHHHHHHHHHHhhcH
Q 027702 4 SFFKPSRPKTPLEVVKATKVSLMALDIKTVVEVKALEKAME-EIEKNFVTMRCMLSGDGEVEPNADQVLQLATEVCKEDV 82 (220)
Q Consensus 4 lf~~k~~~ktP~elVr~~~e~l~~L~~~~~~~~~~~~k~~e-eisK~L~~mK~iL~G~~e~ep~~e~~~qL~~ei~~~dl 82 (220)
|||| .+-=-.=+|.++.|.|..=.+..+ ...+...|-| +++=.+.|+=.+|+.+.|.||.-=.+-.--+...-.|+
T Consensus 363 LFWK--s~DLf~Flv~~L~eyLp~s~~~~~-~q~~~qrADeL~~~i~i~qtL~lMFReTE~e~sRln~L~A~kg~l~~~L 439 (617)
T PF15087_consen 363 LFWK--SSDLFYFLVQTLHEYLPESRSKNG-LQNKSQRADELELCILIIQTLGLMFRETEVEPSRLNTLAAKKGALFSNL 439 (617)
T ss_pred HhcC--ChhHHHHHHHHHHHhcccCcCccc-cccccchHHHHHHHHHHHHHHHHHHhccccchhhHHHHHhhhhhhHHHH
Confidence 5663 222234468888887754332111 0011122322 56666778888888889888874333332334444455
Q ss_pred HHHHHhcCCCCCchhhh-cHHHHHHHhhhcccCCcc--chhHHhhccHHHHHHHHH-h-----ccCcchhhhhhHHHHHH
Q 027702 83 LILLVHKLPILGWEARK-DLVHCWSILLKQKVDSTY--CCVQFIENHFELLDFLVV-C-----YDNKEVALHCGIMLREC 153 (220)
Q Consensus 83 l~~Li~~L~~L~FE~RK-dv~~If~~llR~~~~~~~--p~v~Yl~~~peil~~L~~-g-----Y~~~diAl~~G~mLREc 153 (220)
|..|| +-|.++=-..- |+. .-.. -.-..+... -..+|.-+-..+|+.++- | ....+-.|+.|-|+|.-
T Consensus 440 L~~Li-~~P~~p~~~~~~~~~-~~~~-~~~~~d~elq~L~~EYtdaAtalLfEillv~~q~s~~~~~~~fl~i~Wi~~~L 516 (617)
T PF15087_consen 440 LVILI-CEPQIPKSCPPFDIQ-LVAD-SSMSFDAELQKLLLEYTDAATALLFEILLVFQQGSLGLGSDKFLAISWIMRVL 516 (617)
T ss_pred HHHHh-cCccccccCCccccc-cccc-cCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCcCCchhHHHHHHHH
Confidence 55443 34544310000 100 0000 000001000 024566555555555532 1 23455667788888733
Q ss_pred hhhHHHHHHHcCchhHHHHhhhhcCCChhh----------hhhhHHHHHH---HH--hcChhHHHHHHHhcHHHHHH
Q 027702 154 IKFPSLARYILESASFELFFKFVELPTFDV----------ASDAFSTFKD---LL--TKHLTVVSEYLTAHYDEVYT 215 (220)
Q Consensus 154 ik~e~la~~iL~~~~f~~fF~yv~~~~Fei----------asDAf~tfke---lL--trHk~lvaefL~~Nyd~Ff~ 215 (220)
=-| |..-.|..|+-.....+ .+||--.|+- |+ -.|.+-.|+|+..||-+=|.
T Consensus 517 q~~----------p~~~~Fv~~~v~q~v~~LS~s~~~~LSp~qaVLlyQq~~iL~~cLq~s~~la~~ir~~yrEEFR 583 (617)
T PF15087_consen 517 QSH----------PPLLSFVGRIVKQVVKVLSASQHEPLSPSQAVLLYQQFYILLSCLQYSKQLAEHIRNNYREEFR 583 (617)
T ss_pred hcC----------CcHHHHHHHHHHHHHHHhcccccccCChhHHHHHHHHHHHHHHHHhccHHHHHHHhhhhhhhee
Confidence 222 44455555543333333 3455444443 22 37888999999999987553
No 17
>PF14680 FANCI_HD2: FANCI helical domain 2; PDB: 3S51_A 3S4Z_A 3S4W_A.
Probab=41.66 E-value=25 Score=31.03 Aligned_cols=47 Identities=21% Similarity=0.424 Sum_probs=32.8
Q ss_pred hhHHHHHHhhhHHHHHHHcCchhHHHHhhhhcCCChhhhhhhHHHHHHHHhcChhHHH---HHHHhcHHHHHH
Q 027702 146 CGIMLRECIKFPSLARYILESASFELFFKFVELPTFDVASDAFSTFKDLLTKHLTVVS---EYLTAHYDEVYT 215 (220)
Q Consensus 146 ~G~mLREcik~e~la~~iL~~~~f~~fF~yv~~~~FeiasDAf~tfkelLtrHk~lva---efL~~Nyd~Ff~ 215 (220)
.=.+||-|+-+++-.|.+||. .|+ +++++.+.++. ++|..|+..||.
T Consensus 35 Ilg~LRRCL~QQa~VR~~LY~-gl~----------------------~~v~~n~~l~~~iLd~L~~hf~~y~~ 84 (234)
T PF14680_consen 35 ILGILRRCLTQQADVRLMLYE-GLY----------------------DVVTRNPQLAPHILDMLLSHFKQYYE 84 (234)
T ss_dssp HHHHHHGGGGS-HHHHHHHHH-HHH----------------------HHHHHSGGGHHHHHHHHHHHHHHHB-
T ss_pred HHHHHHHHhcChHHHHHHHHH-HHH----------------------HHHHcCcccHHHHHHHHHHHHHHHhC
Confidence 345789999999999999995 333 66777777766 555667766664
No 18
>PTZ00464 SNF-7-like protein; Provisional
Probab=40.61 E-value=1e+02 Score=26.94 Aligned_cols=48 Identities=19% Similarity=0.063 Sum_probs=29.8
Q ss_pred CCccCCCCCC--CCChHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHHHHHhhh
Q 027702 1 MSFSFFKPSR--PKTPLEVVKATKVSLMALDIKTVVEVKALEKAMEEIEKNFVTMRC 55 (220)
Q Consensus 1 M~flf~~k~~--~ktP~elVr~~~e~l~~L~~~~~~~~~~~~k~~eeisK~L~~mK~ 55 (220)
|.-|||++++ +-|+.|-++.+++.+..|+. +-++..+|++++-..+|.
T Consensus 1 M~rlFG~~k~~p~~t~~d~~~~l~~r~~~l~k-------Ki~~ld~E~~~ak~~~k~ 50 (211)
T PTZ00464 1 MNRLFGKKNKTPKPTLEDASKRIGGRSEVVDA-------RINKIDAELMKLKEQIQR 50 (211)
T ss_pred CccccCCCCCCCCCCHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHH
Confidence 7778986442 34678888888887766543 224455566666555554
No 19
>PF10508 Proteasom_PSMB: Proteasome non-ATPase 26S subunit; InterPro: IPR019538 The 26S proteasome is an enzymatic complex that degrades ubiquitinated proteins in eukaryotic cells. 26S proteasome non-ATPase regulatory subunit 5 is one of a number of chaperones that are involved in the assembly of the proteasome. The chaperones dissociate before 26S proteasome formation is complete [].; GO: 0044183 protein binding involved in protein folding
Probab=40.43 E-value=2.4e+02 Score=27.38 Aligned_cols=113 Identities=15% Similarity=0.125 Sum_probs=70.4
Q ss_pred HHhcCCCCCchhhhcHHHHHHHhhhcccCCccchhHHhhccHHHHHHHHHhccCcchh--hhhhHHHHHHhhhHHH-HHH
Q 027702 86 LVHKLPILGWEARKDLVHCWSILLKQKVDSTYCCVQFIENHFELLDFLVVCYDNKEVA--LHCGIMLRECIKFPSL-ARY 162 (220)
Q Consensus 86 Li~~L~~L~FE~RKdv~~If~~llR~~~~~~~p~v~Yl~~~peil~~L~~gY~~~diA--l~~G~mLREcik~e~l-a~~ 162 (220)
+..+|..=+-|.-..++.|...++. ...| +.+ .|++...|..|..+|+-. ..+=..|+-|+++... +..
T Consensus 43 lf~~L~~~~~e~v~~~~~iL~~~l~----~~~~--~~l--~~~~~~~L~~gL~h~~~~Vr~l~l~~l~~~~~~~~~~~~~ 114 (503)
T PF10508_consen 43 LFDCLNTSNREQVELICDILKRLLS----ALSP--DSL--LPQYQPFLQRGLTHPSPKVRRLALKQLGRIARHSEGAAQL 114 (503)
T ss_pred HHHHHhhcChHHHHHHHHHHHHHHh----ccCH--HHH--HHHHHHHHHHHhcCCCHHHHHHHHHHHHHHhcCCHHHHHH
Confidence 3344443344444444444555543 3333 222 688888888888776532 2223337777776544 556
Q ss_pred HcCchhHHHHhhhhcCCChhhhhhhHHHHHHHHhcChhHHHHHHH
Q 027702 163 ILESASFELFFKFVELPTFDVASDAFSTFKDLLTKHLTVVSEYLT 207 (220)
Q Consensus 163 iL~~~~f~~fF~yv~~~~FeiasDAf~tfkelLtrHk~lvaefL~ 207 (220)
+...+.+-.....+..++-+||..|...++.+.. |+.-....+.
T Consensus 115 ~~~~~l~~~i~~~L~~~d~~Va~~A~~~L~~l~~-~~~~~~~l~~ 158 (503)
T PF10508_consen 115 LVDNELLPLIIQCLRDPDLSVAKAAIKALKKLAS-HPEGLEQLFD 158 (503)
T ss_pred hcCccHHHHHHHHHcCCcHHHHHHHHHHHHHHhC-CchhHHHHhC
Confidence 6666666677788999999999999999999986 4544444433
No 20
>KOG4438 consensus Centromere-associated protein NUF2 [Cell cycle control, cell division, chromosome partitioning]
Probab=38.92 E-value=1e+02 Score=29.94 Aligned_cols=108 Identities=18% Similarity=0.236 Sum_probs=61.5
Q ss_pred hhhcHHHHHHHhhhcccC--CccchhHHhhccHHHHHHHHHhccCcchhhhhhH--HHHH--HhhhHHHHHHHcCchhHH
Q 027702 97 ARKDLVHCWSILLKQKVD--STYCCVQFIENHFELLDFLVVCYDNKEVALHCGI--MLRE--CIKFPSLARYILESASFE 170 (220)
Q Consensus 97 ~RKdv~~If~~llR~~~~--~~~p~v~Yl~~~peil~~L~~gY~~~diAl~~G~--mLRE--cik~e~la~~iL~~~~f~ 170 (220)
.|+++++.+.++---... ...||.+|...-|+.+-...-|-...+..--... +--| =+-||+|- ..+......
T Consensus 10 ~~aEIv~~l~~~~i~~at~ei~~PTs~~~~~lYe~il~~~mgl~~~~l~~r~n~~~~~~EN~ei~~~sL~-~~~l~ki~~ 88 (446)
T KOG4438|consen 10 SVAEIVICLKDAQIASATEEILTPTSDYVSPLYEVILEYYMGLDEEELLQRDNEALEQLENPEIHAESLQ-FKLLCKILD 88 (446)
T ss_pred CHHHHHHHHHhcCcccchhhccCCCcccchhHHHHHHHHHHhhhHHHHhhhhHHHHhcccCHHHHHHHHH-HHHHHHHHH
Confidence 455666555554332211 3368999999988777776666432221111110 0000 02234444 344445667
Q ss_pred HHhhhhcCCChhhhhhhHHHHHHHHhcChhHHHHHHHh--cHHHH
Q 027702 171 LFFKFVELPTFDVASDAFSTFKDLLTKHLTVVSEYLTA--HYDEV 213 (220)
Q Consensus 171 ~fF~yv~~~~FeiasDAf~tfkelLtrHk~lvaefL~~--Nyd~F 213 (220)
.|+.-+-..+|. |+|||..-..=..-||+. ||..|
T Consensus 89 ~Fl~~i~v~dF~--------~~DLlkPes~Rtq~~LSavvNfa~f 125 (446)
T KOG4438|consen 89 MFLMNIGVLDFS--------FKDLLKPESSRTQRFLSAVVNFALF 125 (446)
T ss_pred HHHHhcCcCCCc--------hhhhcCccHHHHHHHHHHHHHHHHH
Confidence 888888888885 579997766667777775 76655
No 21
>PLN03200 cellulose synthase-interactive protein; Provisional
Probab=35.71 E-value=7.1e+02 Score=29.27 Aligned_cols=122 Identities=12% Similarity=0.045 Sum_probs=89.5
Q ss_pred HHHHHhhcHHHHHHhcCCCCCchhhhcHHHHHHHhhhcccCCccchhHHhhc-c-HHHHHHHHHhccCcchhhhhhHHHH
Q 027702 74 ATEVCKEDVLILLVHKLPILGWEARKDLVHCWSILLKQKVDSTYCCVQFIEN-H-FELLDFLVVCYDNKEVALHCGIMLR 151 (220)
Q Consensus 74 ~~ei~~~dll~~Li~~L~~L~FE~RKdv~~If~~llR~~~~~~~p~v~Yl~~-~-peil~~L~~gY~~~diAl~~G~mLR 151 (220)
.+.+...+.+..|+..|..=+|+.||+++.-..++.+ +.+..-..++.+ . ...|-.|+.. .+.++.-.+-..|-
T Consensus 644 ~~avv~agaIpPLV~LLss~~~~v~keAA~AL~nL~~---~~~~~q~~~~v~~GaV~pL~~LL~~-~d~~v~e~Al~ALa 719 (2102)
T PLN03200 644 CESLATDEIINPCIKLLTNNTEAVATQSARALAALSR---SIKENRKVSYAAEDAIKPLIKLAKS-SSIEVAEQAVCALA 719 (2102)
T ss_pred HHHHHHcCCHHHHHHHHhcCChHHHHHHHHHHHHHHh---CCCHHHHHHHHHcCCHHHHHHHHhC-CChHHHHHHHHHHH
Confidence 3556677889999999999999999999999999997 222233334333 2 2223333433 45677777777777
Q ss_pred HHhhhHHHHHHHcCchhHHHHhhhhcCCChhhhhhhHHHHHHHHhcCh
Q 027702 152 ECIKFPSLARYILESASFELFFKFVELPTFDVASDAFSTFKDLLTKHL 199 (220)
Q Consensus 152 Ecik~e~la~~iL~~~~f~~fF~yv~~~~FeiasDAf~tfkelLtrHk 199 (220)
-++++...+.-+.....+-.+.++++.++.+.--.|-..+..|..++.
T Consensus 720 nLl~~~e~~~ei~~~~~I~~Lv~lLr~G~~~~k~~Aa~AL~~L~~~~~ 767 (2102)
T PLN03200 720 NLLSDPEVAAEALAEDIILPLTRVLREGTLEGKRNAARALAQLLKHFP 767 (2102)
T ss_pred HHHcCchHHHHHHhcCcHHHHHHHHHhCChHHHHHHHHHHHHHHhCCC
Confidence 777776666667777779999999999999999999998888776554
No 22
>cd01019 ZnuA Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism. They are comprised of two globular subdomains connected by a single helix and bind their specific ligands in the cleft between these domains. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind the metal ion in the cleft between these domains. In addition, these proteins sometimes have a low complexity region containing a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=34.09 E-value=1.9e+02 Score=25.79 Aligned_cols=72 Identities=24% Similarity=0.315 Sum_probs=44.4
Q ss_pred CCCChHHHHHHHHHHHHhccccch-hhHHHHHHHHHHHHHHHHHhhhhhcC-----------------------------
Q 027702 10 RPKTPLEVVKATKVSLMALDIKTV-VEVKALEKAMEEIEKNFVTMRCMLSG----------------------------- 59 (220)
Q Consensus 10 ~~ktP~elVr~~~e~l~~L~~~~~-~~~~~~~k~~eeisK~L~~mK~iL~G----------------------------- 59 (220)
.|+.-..+|+.+.+.|.+++.... .=.++.++..+++...-..++..+-.
T Consensus 126 dp~n~~~~a~~I~~~L~~~dP~~~~~y~~N~~~~~~~L~~l~~~~~~~~~~~~~~~~v~~H~af~Yl~~~~gl~~~~~~~ 205 (286)
T cd01019 126 SPENAAEVAQAVAEKLSALDPDNAATYAANLEAFNARLAELDATIKERLAPVKTKPFFVFHDAYGYFEKRYGLTQAGVFT 205 (286)
T ss_pred CHHHHHHHHHHHHHHHHHHCchhHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCeEEEecccHHHHHHHcCCceeeeec
Confidence 567778899999999998875432 11234455555555444444443322
Q ss_pred -CCCCCCChHHHHHHHHHHHhhc
Q 027702 60 -DGEVEPNADQVLQLATEVCKED 81 (220)
Q Consensus 60 -~~e~ep~~e~~~qL~~ei~~~d 81 (220)
.++.+|++..+.++.+.+-+.+
T Consensus 206 ~~~~~eps~~~l~~l~~~ik~~~ 228 (286)
T cd01019 206 IDPEIDPGAKRLAKIRKEIKEKG 228 (286)
T ss_pred CCCCCCCCHHHHHHHHHHHHHcC
Confidence 2356677777777777765555
No 23
>smart00273 ENTH Epsin N-terminal homology (ENTH) domain.
Probab=32.56 E-value=1.6e+02 Score=22.85 Aligned_cols=46 Identities=11% Similarity=0.138 Sum_probs=22.9
Q ss_pred CCCChHHHHHHHHHHHhh-cHHHHHHhcCCCCCchhhhcHHHHHHHhh
Q 027702 63 VEPNADQVLQLATEVCKE-DVLILLVHKLPILGWEARKDLVHCWSILL 109 (220)
Q Consensus 63 ~ep~~e~~~qL~~ei~~~-dll~~Li~~L~~L~FE~RKdv~~If~~ll 109 (220)
..|.+..+.+++...++. .-+..++..|.+ .+...++-.+++.+|+
T Consensus 16 ~~p~~k~~~~I~~~t~~~~~~~~~i~~~l~~-Rl~~~~~w~~v~KsL~ 62 (127)
T smart00273 16 WGPKGKHLREIIQGTHNEKSSFAEIMAVLWR-RLNDTKNWRVVYKALI 62 (127)
T ss_pred CCcCHHHHHHHHHHHccCHhhHHHHHHHHHH-HHhCcccHHHHHHHHH
Confidence 556666777777766666 333333333322 2222225555555553
No 24
>cd01017 AdcA Metal binding protein AcdA. These proteins have been shown to function in the ABC uptake of Zn2+ and Mn2+ and in competence for genetic transformation and adhesion. The AcdA proteins belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding mechanism. They are comprised of two globular subdomains connected by a long alpha helix and they bind their ligand in the cleft between these domains. In addition, many of these proteins have a low complexity region containing metal binding histidine-rich motif (repetitive HDH sequence).
Probab=32.28 E-value=2.3e+02 Score=25.01 Aligned_cols=49 Identities=20% Similarity=0.172 Sum_probs=31.4
Q ss_pred CCCChHHHHHHHHHHHHhccccch-hhHHHHHHHHHHHHHHHHHhhhhhc
Q 027702 10 RPKTPLEVVKATKVSLMALDIKTV-VEVKALEKAMEEIEKNFVTMRCMLS 58 (220)
Q Consensus 10 ~~ktP~elVr~~~e~l~~L~~~~~-~~~~~~~k~~eeisK~L~~mK~iL~ 58 (220)
.|..-..+++.+.+.|.+++.... .=.++.++..+++...-..++..+.
T Consensus 118 dp~~~~~~a~~Ia~~L~~~dP~~~~~y~~N~~~~~~~L~~l~~~~~~~~~ 167 (282)
T cd01017 118 SPVLAIQQVENIKDALIKLDPDNKEYYEKNAAAYAKKLEALDQEYRAKLA 167 (282)
T ss_pred CHHHHHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 566678889999999999885432 1123455666666655555555444
No 25
>PRK15201 fimbriae regulatory protein FimW; Provisional
Probab=32.27 E-value=31 Score=30.00 Aligned_cols=86 Identities=20% Similarity=0.275 Sum_probs=55.5
Q ss_pred HhhhhhcCCCCCCCChH-HHHHHHHHHHhhcHHHHHHhcCCCCCchhhhcHHHHHHHhhhcccCC---ccchhHHhhc-c
Q 027702 52 TMRCMLSGDGEVEPNAD-QVLQLATEVCKEDVLILLVHKLPILGWEARKDLVHCWSILLKQKVDS---TYCCVQFIEN-H 126 (220)
Q Consensus 52 ~mK~iL~G~~e~ep~~e-~~~qL~~ei~~~dll~~Li~~L~~L~FE~RKdv~~If~~llR~~~~~---~~p~v~Yl~~-~ 126 (220)
|.+.|++...|.|.-.= -|.-+.--||++|=+..+ ++|.+-.+|--.||+++.. ...+.+-|.. .
T Consensus 69 ~~~~~~~~~~~~~~~~~~~~~~~~~~iyr~d~v~~i----------~~k~~~il~~~al~~~~~~~~~~~~~~~~LSpRE 138 (198)
T PRK15201 69 QLRVIICNKCDKEKLMFRPCLYMLPHIYREDDVEEI----------TRKMILILHKRALRHSVPSGICHYCTTRHFSVTE 138 (198)
T ss_pred eeEEEEeccccchhhhhchhHhhcchhhccccHHHH----------HHHHHHHHHHHHHHhhCCchhccccCCCCCCHHH
Confidence 45667777666653321 133334456666655544 5778888888899987654 2222233433 3
Q ss_pred HHHHHHHHHhccCcchhhhhh
Q 027702 127 FELLDFLVVCYDNKEVALHCG 147 (220)
Q Consensus 127 peil~~L~~gY~~~diAl~~G 147 (220)
-+|+..+..|+.+.|||-..|
T Consensus 139 rEVLrLLAqGkTnKEIAe~L~ 159 (198)
T PRK15201 139 RHLLKLIASGYHLSETAALLS 159 (198)
T ss_pred HHHHHHHHCCCCHHHHHHHhC
Confidence 799999999999999987654
No 26
>PF01417 ENTH: ENTH domain; InterPro: IPR001026 The ENTH (Epsin N-terminal homology) domain is approximately 150 amino acids in length and is always found located at the N-termini of proteins. The domain forms a compact globular structure, composed of 9 alpha-helices connected by loops of varying length. The general topology is determined by three helical hairpins that are stacked consecutively with a right hand twist []. An N-terminal helix folds back, forming a deep basic groove that forms the binding pocket for the Ins(1,4,5)P3 ligand []. The ligand is coordinated by residues from surrounding alpha-helices and all three phosphates are multiply coordinated. The coordination of Ins(1,4,5)P3 suggests that ENTH is specific for particular head groups. Proteins containing this domain have been found to bind PtdIns(4,5)P2 and PtdIns(1,4,5)P3 suggesting that the domain may be a membrane interacting module. The main function of proteins containing this domain appears to be to act as accessory clathrin adaptors in endocytosis, Epsin is able to recruit and promote clathrin polymerisation on a lipid monolayer, but may have additional roles in signalling and actin regulation []. Epsin causes a strong degree of membrane curvature and tubulation, even fragmentation of membranes with a high PtdIns(4,5)P2 content. Epsin binding to membranes facilitates their deformation by insertion of the N-terminal helix into the outer leaflet of the bilayer, pushing the head groups apart. This would reduce the energy needed to curve the membrane into a vesicle, making it easier for the clathrin cage to fix and stabilise the curved membrane. This points to a pioneering role for epsin in vesicle budding as it provides both a driving force and a link between membrane invagination and clathrin polymerisation. ; PDB: 1H0A_A 1EYH_A 1EDU_A 2QY7_B 1XGW_A 2V8S_E 1VDY_A 2DCP_A 1INZ_A 3ONL_B ....
Probab=31.21 E-value=1.6e+02 Score=22.82 Aligned_cols=88 Identities=17% Similarity=0.250 Sum_probs=40.9
Q ss_pred CCCCCCChHHHHHHHHHHHhhc----HHHHHHhcCCCCCchhhhcHHHHHH------HhhhcccCCccchhHHhhccHHH
Q 027702 60 DGEVEPNADQVLQLATEVCKED----VLILLVHKLPILGWEARKDLVHCWS------ILLKQKVDSTYCCVQFIENHFEL 129 (220)
Q Consensus 60 ~~e~ep~~e~~~qL~~ei~~~d----ll~~Li~~L~~L~FE~RKdv~~If~------~llR~~~~~~~p~v~Yl~~~pei 129 (220)
+++..|.+....+|++..++.+ .+..|...|.. ...|.-.+++. .|++. | ..-+++.+..+-++
T Consensus 14 ~d~~gp~~~~l~eIa~~t~~~~~~~~I~~~l~kRL~~---~~~k~wr~~~KaL~ll~yLl~n--G-~~~~~~~~~~~~~~ 87 (125)
T PF01417_consen 14 NDPWGPPGKLLAEIAQLTYNSKDCQEIMDVLWKRLSK---SDGKNWRHVYKALTLLEYLLKN--G-SERFVDELRDHIDI 87 (125)
T ss_dssp SSSSS--HHHHHHHHHHTTSCHHHHHHHHHHHHHHHS---STSSGHHHHHHHHHHHHHHHHH--S--HHHHHHHHHTHHH
T ss_pred CCCCCcCHHHHHHHHHHHhccccHHHHHHHHHHHHHh---cCCcchhHHHHHHHHHHHHHHH--C-CHHHHHHHHHHHHH
Confidence 3445677888899999888843 33344444411 23444444444 33331 1 11234455455555
Q ss_pred HHHHHHhccCcc-hhhhhhHHHHHHh
Q 027702 130 LDFLVVCYDNKE-VALHCGIMLRECI 154 (220)
Q Consensus 130 l~~L~~gY~~~d-iAl~~G~mLREci 154 (220)
|..| ..|...| -.-..|.-+|+-.
T Consensus 88 I~~l-~~f~~~d~~g~d~~~~VR~~A 112 (125)
T PF01417_consen 88 IREL-QDFQYVDPKGKDQGQNVREKA 112 (125)
T ss_dssp HHGG-GG---BBTTSTBHHHHHHHHH
T ss_pred Hhhc-ceeeccCCCCccHHHHHHHHH
Confidence 5555 2332222 2334555577654
No 27
>PF01297 TroA: Periplasmic solute binding protein family; InterPro: IPR006127 This is a family of ABC transporter metal-binding lipoproteins. An example is the periplasmic zinc-binding protein TroA P96116 from SWISSPROT that interacts with an ATP-binding cassette transport system in Treponema pallidum and plays a role in the transport of zinc across the cytoplasmic membrane. Related proteins are found in both Gram-positive and Gram-negative bacteria. ; GO: 0046872 metal ion binding, 0030001 metal ion transport; PDB: 2PS9_A 2PS0_A 2OSV_A 2OGW_A 2PS3_A 2PRS_B 3MFQ_C 3GI1_B 2OV3_A 1PQ4_A ....
Probab=31.20 E-value=2.2e+02 Score=24.48 Aligned_cols=73 Identities=19% Similarity=0.219 Sum_probs=48.4
Q ss_pred CCCChHHHHHHHHHHHHhccccchh-hHHHHHHHHHHHHHHHHHhhhhhcC-----------------------------
Q 027702 10 RPKTPLEVVKATKVSLMALDIKTVV-EVKALEKAMEEIEKNFVTMRCMLSG----------------------------- 59 (220)
Q Consensus 10 ~~ktP~elVr~~~e~l~~L~~~~~~-~~~~~~k~~eeisK~L~~mK~iL~G----------------------------- 59 (220)
.|..-..+++.+.+.|.+++..... =+++.++..+++.+.-.+++..+.+
T Consensus 97 dp~~~~~~~~~Ia~~L~~~~P~~~~~y~~N~~~~~~~L~~l~~~~~~~~~~~~~~~~v~~h~~~~Y~~~~~gl~~~~~~~ 176 (256)
T PF01297_consen 97 DPENAKKMAEAIADALSELDPANKDYYEKNAEKYLKELDELDAEIKEKLAKLPGRPVVVYHDAFQYFAKRYGLKVIGVIE 176 (256)
T ss_dssp SHHHHHHHHHHHHHHHHHHTGGGHHHHHHHHHHHHHHHHHHHHHHHHHHTTSSGGEEEEEESTTHHHHHHTT-EEEEEES
T ss_pred HHHHHHHHHHHHHHHHHHhCccchHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCeEEEEChHHHHHHHhcCCceeeeec
Confidence 4566677888999999998754421 1234556666666666665555442
Q ss_pred -CCCCCCChHHHHHHHHHHHhhcH
Q 027702 60 -DGEVEPNADQVLQLATEVCKEDV 82 (220)
Q Consensus 60 -~~e~ep~~e~~~qL~~ei~~~dl 82 (220)
.++.+|++..+.+|.+.+-+.+.
T Consensus 177 ~~~~~~ps~~~l~~l~~~ik~~~v 200 (256)
T PF01297_consen 177 ISPGEEPSPKDLAELIKLIKENKV 200 (256)
T ss_dssp SSSSSSS-HHHHHHHHHHHHHTT-
T ss_pred cccccCCCHHHHHHHHHHhhhcCC
Confidence 34778999999999988877663
No 28
>cd01018 ZntC Metal binding protein ZntC. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding mechanism. They are comprised of two globular subdomains connected by a long alpha helix and bind their specific ligands in the cleft between these domains. In addition, many of these proteins possess a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=31.15 E-value=2.6e+02 Score=24.40 Aligned_cols=49 Identities=18% Similarity=0.213 Sum_probs=31.6
Q ss_pred CCCChHHHHHHHHHHHHhccccch-hhHHHHHHHHHHHHHHHHHhhhhhc
Q 027702 10 RPKTPLEVVKATKVSLMALDIKTV-VEVKALEKAMEEIEKNFVTMRCMLS 58 (220)
Q Consensus 10 ~~ktP~elVr~~~e~l~~L~~~~~-~~~~~~~k~~eeisK~L~~mK~iL~ 58 (220)
.|..-..+++.+.+.|.+++.... .=.++.++..+++...-..++..+-
T Consensus 117 dp~~~~~~a~~I~~~L~~~dP~~~~~y~~N~~~~~~~L~~l~~~~~~~~~ 166 (266)
T cd01018 117 SPANAKIMAENIYEALAELDPQNATYYQANLDALLAELDALDSEIRTILS 166 (266)
T ss_pred CHHHHHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 566778899999999999886432 1123445566666555555555544
No 29
>PF09090 MIF4G_like_2: MIF4G like; InterPro: IPR015174 This entry represents an MIF4G-like domain. MIF4G domains share a common structure but can differ in sequence. This entry is designated "type 2", and is found in nuclear cap-binding proteins and eIF4G. The MIF4G domain is a structural motif with an ARM (Armadillo) repeat-type fold, consisting of a 2-layer alpha/alpha right-handed superhelix. Proteins usually contain two or more structurally similar MIF4G domains connected by unstructured linkers. MIF4G domains are found in several proteins involved in RNA metabolism, including eIF4G (eukaryotic initiation factor 4-gamma), eIF-2b (translation initiation factor), UPF2 (regulator of nonsense transcripts 2), and nuclear cap-binding proteins (CBP80, CBC1, NCBP1), although the sequence identity between them may be low []. The nuclear cap-binding complex (CBC) is a heterodimer. Human CBC consists of a large CBP80 subunit and a small CBP20 subunit, the latter being critical for cap binding. CBP80 contains three MIF4G domains connected with long linkers, while CBP20 has an RNP (ribonucleoprotein)-type domain that associates with domains 2 and 3 of CBP80 []. The complex binds to 5'-cap of eukaryotic RNA polymerase II transcripts, such as mRNA and U snRNA. The binding is important for several mRNA nuclear maturation steps and for nonsense-mediated decay. It is also essential for nuclear export of U snRNAs in metazoans []. Eukaryotic translation initiation factor 4 gamma (eIF4G) plays a critical role in protein expression, and is at the centre of a complex regulatory network. Together with the cap-binding protein eIF4E, it recruits the small ribosomal subunit to the 5'-end of mRNA and promotes the assembly of a functional translation initiation complex, which scans along the mRNA to the translation start codon. The activity of eIF4G in translation initiation could be regulated through intra- and inter-protein interactions involving the ARM repeats []. In eIF4G, the MIF4G domain binds eIF4A, eIF3, RNA and DNA.; GO: 0016070 RNA metabolic process; PDB: 3FEY_A 3FEX_A 1H6K_C 1H2V_C 1H2U_A 1H2T_C 1N54_A 1N52_A.
Probab=29.77 E-value=3.8e+02 Score=23.45 Aligned_cols=72 Identities=13% Similarity=0.028 Sum_probs=37.6
Q ss_pred CChHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHHHHHhhhhhcCCCCCCCChHHHHHHHHHHHhhcHHHHHHhcCC
Q 027702 12 KTPLEVVKATKVSLMALDIKTVVEVKALEKAMEEIEKNFVTMRCMLSGDGEVEPNADQVLQLATEVCKEDVLILLVHKLP 91 (220)
Q Consensus 12 ktP~elVr~~~e~l~~L~~~~~~~~~~~~k~~eeisK~L~~mK~iL~G~~e~ep~~e~~~qL~~ei~~~dll~~Li~~L~ 91 (220)
-+-.+.++.+.+.+.. ++..+|+...+..++....|.+. +|+.-.+.-+.+.++..
T Consensus 8 ~P~~~~a~~l~~~ir~------------k~~~eei~~~l~~i~~~~~~~~~-~~~~~~i~v~~q~ll~~----------- 63 (253)
T PF09090_consen 8 LPFHALAQKLLDLIRK------------KAPPEEISELLEEIEEPAEEHGS-DFDKFVIDVFVQCLLHI----------- 63 (253)
T ss_dssp STTHHHHHHHHHHHHT------------T--HHHHHHHHTTS-------------HHHHHHHHHHHHHH-----------
T ss_pred CccHHHHHHHHHHHHc------------CCCHHHHHHHHHhcccccccccc-chhhHHHHHHHHHHHHh-----------
Confidence 3346778888888842 34468999999999998888776 56655555555555432
Q ss_pred CCCchhhhcHHHHHHHhhhcc
Q 027702 92 ILGWEARKDLVHCWSILLKQK 112 (220)
Q Consensus 92 ~L~FE~RKdv~~If~~llR~~ 112 (220)
..|..++.++.+=|+.
T Consensus 64 -----GSkS~SH~~~~lery~ 79 (253)
T PF09090_consen 64 -----GSKSFSHVLSALERYK 79 (253)
T ss_dssp -----TTTSHHHHHHHHHHTH
T ss_pred -----cCchHHHHHHHHHHHH
Confidence 4566666666555533
No 30
>PRK09545 znuA high-affinity zinc transporter periplasmic component; Reviewed
Probab=28.87 E-value=2.6e+02 Score=25.34 Aligned_cols=49 Identities=12% Similarity=0.061 Sum_probs=30.2
Q ss_pred CCCChHHHHHHHHHHHHhccccchh-hHHHHHHHHHHHHHHHHHhhhhhc
Q 027702 10 RPKTPLEVVKATKVSLMALDIKTVV-EVKALEKAMEEIEKNFVTMRCMLS 58 (220)
Q Consensus 10 ~~ktP~elVr~~~e~l~~L~~~~~~-~~~~~~k~~eeisK~L~~mK~iL~ 58 (220)
.|..-..+++.+.+.|.+++..... =.++.+++.+++...-.+++..+-
T Consensus 150 dp~~~~~~a~~I~~~L~~~dP~~~~~y~~N~~~~~~~L~~l~~~~~~~l~ 199 (311)
T PRK09545 150 SPEIARATAVAIHDKLVELMPQSKAKLDANLKDFEAQLAQTDKQIGNQLA 199 (311)
T ss_pred CHHHHHHHHHHHHHHHHHhChhhHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 5677788999999999998864321 113445555555554445554433
No 31
>cd07978 TAF13 The TATA Binding Protein (TBP) Associated Factor 13 (TAF13) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex. The TATA Binding Protein (TBP) Associated Factor 13 (TAF13) is one of several TAFs that bind TBP and is involved in forming the Transcription Factor IID (TFIID) complex. TFIID is one of seven General Transcription Factors (GTF) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. TFIID complex is composed of the TBP and at least 13 TAFs. TAFs from various species were originally named by their predicted molecular weight or their electrophoretic mobility in polyacrylamide gels. A new, unified nomenclature for the pol II TAFs has been suggested to show the relationship between TAFs orthologs and paralogs. Several hy
Probab=28.57 E-value=46 Score=25.30 Aligned_cols=22 Identities=32% Similarity=0.436 Sum_probs=16.7
Q ss_pred HHHhhhhhcCCCCC-CCChHHHH
Q 027702 50 FVTMRCMLSGDGEV-EPNADQVL 71 (220)
Q Consensus 50 L~~mK~iL~G~~e~-ep~~e~~~ 71 (220)
-..++++|||-||. +|.||.+.
T Consensus 5 ~~ei~~mmy~~GD~~~P~~eTv~ 27 (92)
T cd07978 5 TKEIRQMMYGFGDVQNPLPETVD 27 (92)
T ss_pred HHHHHHHHHHcCCCCCCCHHHHH
Confidence 35688899998886 77777654
No 32
>PF14678 FANCI_S4: FANCI solenoid 4; PDB: 3S51_A 3S4Z_A 3S4W_A.
Probab=28.32 E-value=2.7e+02 Score=24.90 Aligned_cols=119 Identities=18% Similarity=0.279 Sum_probs=56.6
Q ss_pred HHHHHHHHHHHHHHhhhhhcCCCCC-----CCChHHHHHHHHHHHhhcHHHHHHhcCCCCCchhhhcHHHHHHHhhhccc
Q 027702 39 LEKAMEEIEKNFVTMRCMLSGDGEV-----EPNADQVLQLATEVCKEDVLILLVHKLPILGWEARKDLVHCWSILLKQKV 113 (220)
Q Consensus 39 ~~k~~eeisK~L~~mK~iL~G~~e~-----ep~~e~~~qL~~ei~~~dll~~Li~~L~~L~FE~RKdv~~If~~llR~~~ 113 (220)
.++..+|+.=.+..+|..+.+.... +........+-..+|.. |. -+++++..|..-.+
T Consensus 50 ~~~~L~dvdwli~klk~~~~~~~~~~~~~~~~~~~~~~~~E~~lc~q-----L~------------~l~~~l~~L~~~~l 112 (256)
T PF14678_consen 50 VESVLDDVDWLISKLKSLLNSDKLSSESDSDEWRGNLKSLEESLCSQ-----LG------------HLVTVLSELVQTAL 112 (256)
T ss_dssp HHHHHHHHHHHHHHHHTT------------------HHHHHHHHHHH-----HH------------HHHHHHHHHHHS--
T ss_pred HHHHHHHHHHHHHHHHHHhcccccCcccchhhhhhhhhHHHHHHHHH-----HH------------HHHHHHHHHHHhhC
Confidence 3678899999999999988876433 11111222222233322 11 23445555555333
Q ss_pred CCccchhHHhhcc----HHHHHHHHHhccCcchhhhhhHHHHHHhhhHHHHHHHc--CchhHHHHhhhhcCC
Q 027702 114 DSTYCCVQFIENH----FELLDFLVVCYDNKEVALHCGIMLRECIKFPSLARYIL--ESASFELFFKFVELP 179 (220)
Q Consensus 114 ~~~~p~v~Yl~~~----peil~~L~~gY~~~diAl~~G~mLREcik~e~la~~iL--~~~~f~~fF~yv~~~ 179 (220)
.. .|++|-+... =.+|..|.+.| ++........-+-++|.|++..= -+|.+|.|+.||+..
T Consensus 113 p~-G~~~d~lLK~l~klY~~Lt~l~K~~----~~~~~~~~~~~~~~FekLvklsg~~Lt~~~Y~fItyvq~~ 179 (256)
T PF14678_consen 113 PP-GSCSDKLLKLLTKLYTLLTNLVKYY----IQVCSSKQGAPSPKFEKLVKLSGKHLTPNVYSFITYVQEN 179 (256)
T ss_dssp -T-TTHHHHHHHHHHHHHHHHHHHHHHH----HHHTSTT-----HHHHHHHTTHHHHTHHHHHHHHHHHHHH
T ss_pred CC-cchHHHHHHHHHHHHHHHHHHHHHH----HHHhccccCCccHHHHHHHHHhcccccHHHHHHHHHHHHh
Confidence 22 1345554442 34444445444 33222222366888899888443 247899999999743
No 33
>KOG4553 consensus Uncharacterized conserved protein [Function unknown]
Probab=28.18 E-value=7.4e+02 Score=27.39 Aligned_cols=140 Identities=20% Similarity=0.256 Sum_probs=80.7
Q ss_pred HHHHHHHHHHHHHhhhhhcCCCCCCCChHHHHHHHHHHH---hh-----c-HHHHHHhcCCCCCchhhhcHHHHHHHhhh
Q 027702 40 EKAMEEIEKNFVTMRCMLSGDGEVEPNADQVLQLATEVC---KE-----D-VLILLVHKLPILGWEARKDLVHCWSILLK 110 (220)
Q Consensus 40 ~k~~eeisK~L~~mK~iL~G~~e~ep~~e~~~qL~~ei~---~~-----d-ll~~Li~~L~~L~FE~RKdv~~If~~llR 110 (220)
-+...|+=+|++.|+- +...-|...+. +. | ++..|=.-|-. .-.+|+.++..|-.+|+
T Consensus 483 s~~v~Elfdy~~fm~g------------~is~rLi~aviPLiK~S~~lRDalIlVLrKAMf~-~edtvrsAv~gvl~lLk 549 (1398)
T KOG4553|consen 483 SKLVDELFDYVCFMRG------------DISVRLIRAVIPLIKTSPQLRDALILVLRKAMFC-GEDTVRSAVPGVLILLK 549 (1398)
T ss_pred hHHHHHHHHHHHhccc------------hHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHhc-chhhhhhhHHHHHHHHH
Confidence 3667899999999875 23333333321 11 1 22222233333 45689999999999998
Q ss_pred c-----ccCCcc----chhHHhhc--cHHHHHHHHHhccC--cchhhhhhHHHHHHhhhHHHHHHHcCchhHHHHhhhhc
Q 027702 111 Q-----KVDSTY----CCVQFIEN--HFELLDFLVVCYDN--KEVALHCGIMLRECIKFPSLARYILESASFELFFKFVE 177 (220)
Q Consensus 111 ~-----~~~~~~----p~v~Yl~~--~peil~~L~~gY~~--~diAl~~G~mLREcik~e~la~~iL~~~~f~~fF~yv~ 177 (220)
. ..|+.. -+.++=.. +...... +..-.| .-..+-.-.|||-|+-.+.=.|.+||+. +
T Consensus 550 ~~~kl~~~~~~~~~sSfcsQ~S~Sq~S~~tqn~-mgs~~n~~~tl~lEl~G~LrrCL~QQadvk~~LYdg-l-------- 619 (1398)
T KOG4553|consen 550 SVSKLREDGGGGQFSSFCSQHSFSQFSTQTQNS-MGSKKNVDQTLGLELVGILRRCLWQQADVKIALYDG-L-------- 619 (1398)
T ss_pred HHHHHhhhcCCCCcchhhhhhhhhhhhhhhhhh-cccccCccchhhHHHHHHHHHHHhhhhhHHHHHHHH-H--------
Confidence 2 221111 11111111 1111111 122234 4456667789999999999999999963 2
Q ss_pred CCChhhhhhhHHHHHHHHhcChhHHHHH---HHhcHHHHHHh
Q 027702 178 LPTFDVASDAFSTFKDLLTKHLTVVSEY---LTAHYDEVYTH 216 (220)
Q Consensus 178 ~~~FeiasDAf~tfkelLtrHk~lvaef---L~~Nyd~Ff~~ 216 (220)
-+++++..+++-.+ |..|+-.||+.
T Consensus 620 --------------~~lv~~ns~l~nhVLd~ilsHfr~Ffe~ 647 (1398)
T KOG4553|consen 620 --------------CELVTQNSTLLNHVLDMILSHFRMFFEW 647 (1398)
T ss_pred --------------HHHHHhcchhhHHHHHHHHHHHHHccCC
Confidence 27778878877744 45688888864
No 34
>KOG3230 consensus Vacuolar assembly/sorting protein DID4 [Intracellular trafficking, secretion, and vesicular transport]
Probab=28.09 E-value=1.6e+02 Score=25.93 Aligned_cols=67 Identities=19% Similarity=0.200 Sum_probs=36.6
Q ss_pred CCccCCCCCCCCChHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHHHHHhhhhhcCCCCCCCChHHHHHHHHHHHh
Q 027702 1 MSFSFFKPSRPKTPLEVVKATKVSLMALDIKTVVEVKALEKAMEEIEKNFVTMRCMLSGDGEVEPNADQVLQLATEVCK 79 (220)
Q Consensus 1 M~flf~~k~~~ktP~elVr~~~e~l~~L~~~~~~~~~~~~k~~eeisK~L~~mK~iL~G~~e~ep~~e~~~qL~~ei~~ 79 (220)
|- +||+ .+||.|+.|.-+-.|.+--.. -++.+.+.+-+=-|.+..||..- ..-+.+++.-+|..+.+
T Consensus 1 m~-lFgk---~~tp~e~Lr~nqRal~~a~Re---leRer~~le~qeKklvaeIKk~A-----K~gq~~A~KimAkdLvR 67 (224)
T KOG3230|consen 1 MD-LFGK---KKTPAELLRENQRALNKATRE---LERERQKLELQEKKLVAEIKKTA-----KQGQMDAVKIMAKDLVR 67 (224)
T ss_pred CC-cccC---CCCHHHHHHHhHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHH-----HcccHHHHHHHHHHHHH
Confidence 45 6873 589999999887777653221 12233344334445555666531 12334555555555544
No 35
>KOG1086 consensus Cytosolic sorting protein/ADP-ribosylation factor effector GGA [Intracellular trafficking, secretion, and vesicular transport]
Probab=27.74 E-value=3.7e+02 Score=26.66 Aligned_cols=140 Identities=16% Similarity=0.100 Sum_probs=71.4
Q ss_pred HHHHHHHHHHHHHH---HHhhhhhcCCCCCCCChH-HHHHHHHHHHhhc-HHHHHHhcCCCCCchhhhcHHHHHHHhhh-
Q 027702 37 KALEKAMEEIEKNF---VTMRCMLSGDGEVEPNAD-QVLQLATEVCKED-VLILLVHKLPILGWEARKDLVHCWSILLK- 110 (220)
Q Consensus 37 ~~~~k~~eeisK~L---~~mK~iL~G~~e~ep~~e-~~~qL~~ei~~~d-ll~~Li~~L~~L~FE~RKdv~~If~~llR- 110 (220)
.+|.++.||+.-+- ..|..--...|...|+.| ....++++..+-. +|+.|+.-...= =++=-++.|+=.++-|
T Consensus 212 skR~~aleev~n~vk~l~em~l~~s~eg~a~pd~E~~lq~v~~~ce~lr~tlfrlaset~dn-D~aL~eILqanD~ltrv 290 (594)
T KOG1086|consen 212 SKRVKALEEVNNNVKLLEEMLLDYSQEGNASPDNELLLQEVYNRCEQLRPTLFRLASETEDN-DPALAEILQANDNLTRV 290 (594)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhccCCCCCCcHHHHHHHHHHHHHHHHHHHHHhhcccccC-cHHHHHHHhhhhhHHhh
Confidence 36677888886554 455444445567778887 6777777766553 666665544332 1233444454444444
Q ss_pred ---cc-c--CCccchhHHhhccHHHHHHHHHh------------cc--CcchhhhhhHHHHHHhhhHHHHHHHcCch---
Q 027702 111 ---QK-V--DSTYCCVQFIENHFELLDFLVVC------------YD--NKEVALHCGIMLRECIKFPSLARYILESA--- 167 (220)
Q Consensus 111 ---~~-~--~~~~p~v~Yl~~~peil~~L~~g------------Y~--~~diAl~~G~mLREcik~e~la~~iL~~~--- 167 (220)
++ + |++-+.-.--..-||+-..|+.- +. -+++--..|+.|- +.|...-+.++
T Consensus 291 i~~ykt~~~G~~~~g~a~t~slpd~q~~l~~n~Pa~~~p~P~~~~~~gp~~~~s~~~SlL~-----~~l~slglsdp~~s 365 (594)
T KOG1086|consen 291 INLYKTPKEGNVANGSARTQSLPDSQSLLVDNTPAGTVPCPKNPFCPGPPQMRSLEGSLLD-----NELESLGLSDPKPS 365 (594)
T ss_pred hhhcccccccccccccceeccCCcchhheeecCCCCCCCCCCCCCCCCCcccccchhhHHH-----HHHHhcccCCCCCC
Confidence 11 0 11111000001124443333221 11 2455667788874 44555555554
Q ss_pred ---hHHHHhhhhcCCChh
Q 027702 168 ---SFELFFKFVELPTFD 182 (220)
Q Consensus 168 ---~f~~fF~yv~~~~Fe 182 (220)
.-|..++=+++++=.
T Consensus 366 ~~~s~q~~~~~~~np~ss 383 (594)
T KOG1086|consen 366 PMVSGQNMTQPVQNPSSS 383 (594)
T ss_pred CCcchhhcCccccCCCCC
Confidence 368888766665543
No 36
>PF12717 Cnd1: non-SMC mitotic condensation complex subunit 1
Probab=26.91 E-value=2.7e+02 Score=22.83 Aligned_cols=40 Identities=23% Similarity=0.267 Sum_probs=33.1
Q ss_pred hhHHHHhhhhcCCChhhhhhhHHHHHHHHhc-ChhHHHHHH
Q 027702 167 ASFELFFKFVELPTFDVASDAFSTFKDLLTK-HLTVVSEYL 206 (220)
Q Consensus 167 ~~f~~fF~yv~~~~FeiasDAf~tfkelLtr-Hk~lvaefL 206 (220)
..|+.+..-+..++=+|++-|-.-|.+++.+ ++..+...|
T Consensus 63 ~l~~~~l~~l~D~~~~Ir~~A~~~~~e~~~~~~~~~i~~~~ 103 (178)
T PF12717_consen 63 QLFSRILKLLVDENPEIRSLARSFFSELLKKRNPNIIYNNF 103 (178)
T ss_pred hhhHHHHHHHcCCCHHHHHHHHHHHHHHHHhccchHHHHHH
Confidence 3458999999999999999999999999988 666665443
No 37
>TIGR03772 anch_rpt_subst anchored repeat ABC transporter, substrate-binding protein. Members of this protein family are ABC transporter permease subunits as identified by pfam00950, but additionally contain the Actinobacterial insert domain described by TIGR03769. Some homologs (lacking the insert) have been described as transporters of manganese or of chelated iron. Members of this family typically are found along with an ATP-binding cassette protein, a permease, and an LPXTG-anchored protein with two or three copies of the TIGR03769 insert that occurs just once in this protein family.
Probab=26.12 E-value=2.7e+02 Score=27.28 Aligned_cols=72 Identities=15% Similarity=0.201 Sum_probs=43.7
Q ss_pred CCCChHHHHHHHHHHHHhccccchh-hHHHHHHHHHHHHHHHHHhhhhhc-----------------------C------
Q 027702 10 RPKTPLEVVKATKVSLMALDIKTVV-EVKALEKAMEEIEKNFVTMRCMLS-----------------------G------ 59 (220)
Q Consensus 10 ~~ktP~elVr~~~e~l~~L~~~~~~-~~~~~~k~~eeisK~L~~mK~iL~-----------------------G------ 59 (220)
.|+.-..+++.+.+.|.+++..... =.++.++..+++.+.=..++..+- |
T Consensus 316 DP~na~~~a~~Ia~~LselDP~na~~Y~~Na~ay~~eL~~Ld~~~~~~la~ip~k~r~vvt~H~af~YLa~~YGL~~~~~ 395 (479)
T TIGR03772 316 NVKNAIAYVEVIRDKLIEVDPRGAQAYRSNASAYIHRLERLDTYVRRTIATIPPSRRHLITTHDAYSYLGQAYGLNIAGF 395 (479)
T ss_pred CHHHHHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHHHHHHHHHHHhhhccccCCEEEEECCcHHHHHHHCCCeEEee
Confidence 6778889999999999999864421 112334444433333332222221 1
Q ss_pred ---CCCCCCChHHHHHHHHHHHhhc
Q 027702 60 ---DGEVEPNADQVLQLATEVCKED 81 (220)
Q Consensus 60 ---~~e~ep~~e~~~qL~~ei~~~d 81 (220)
.++.||++..+.+|.+.+-+.+
T Consensus 396 ~~~~~~~ePS~~~L~~Li~~IK~~~ 420 (479)
T TIGR03772 396 VTPNPAVEPSLADRRRLTRTIENLK 420 (479)
T ss_pred eccCCCCCCCHHHHHHHHHHHHHcC
Confidence 3467788888888888776655
No 38
>cd03571 ENTH_epsin ENTH domain, Epsin family; The epsin (Eps15 interactor) N-terminal homology (ENTH) domain is an evolutionarily conserved protein module found primarily in proteins that participate in clathrin-mediated endocytosis. A set of proteins previously designated as harboring an ENTH domain in fact contains a highly similar, yet unique module referred to as an AP180 N-terminal homology (ANTH) domain. ENTH and ANTH (E/ANTH) domains are structurally similar to the VHS domain and are composed of a superhelix of eight alpha helices. E/ANTH domains bind both inositol phospholipids and proteins and contribute to the nucleation and formation of clathrin coats on membranes. ENTH domains also function in the development of membrane curvature through lipid remodeling during the formation of clathrin-coated vesicles. E/ANTH-bearing proteins have recently been shown to function with adaptor protein-1 and GGA adaptors at the trans-Golgi network, which suggests that E/ANTH domains are univ
Probab=25.75 E-value=1.5e+02 Score=23.55 Aligned_cols=96 Identities=14% Similarity=0.054 Sum_probs=52.4
Q ss_pred CCCChHHHHHHHHHHHhhcHHHHHHhcCCCCCchhhhcHHHHHHHhhh--cc--cCCccchhHHhhccHHHHHHHHHhcc
Q 027702 63 VEPNADQVLQLATEVCKEDVLILLVHKLPILGWEARKDLVHCWSILLK--QK--VDSTYCCVQFIENHFELLDFLVVCYD 138 (220)
Q Consensus 63 ~ep~~e~~~qL~~ei~~~dll~~Li~~L~~L~FE~RKdv~~If~~llR--~~--~~~~~p~v~Yl~~~peil~~L~~gY~ 138 (220)
--|++.+..++++..|+.+-+..+...|.+===+..|.--+||.+|.= += .|+ .-+|+.+..|-.+|..| ..|.
T Consensus 15 wGp~~~~m~eIa~~t~~~~~~~~Im~~l~kRL~~~~k~WR~vyKaL~lleyLl~nGs-e~vv~~~r~~~~~i~~L-~~F~ 92 (123)
T cd03571 15 WGPSGTLMAEIARATYNYVEFQEIMSMLWKRLNDKGKNWRHVYKALTLLEYLLKNGS-ERVVDDARENLYIIRTL-KDFQ 92 (123)
T ss_pred CCCCHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHhCC-HHHHHHHHHhHHHHHhh-ccce
Confidence 558888889999888887655443333322111126666666666542 00 121 22455555666666666 3343
Q ss_pred Ccc-hhhhhhHHHHHHhhhHHHHHH
Q 027702 139 NKE-VALHCGIMLRECIKFPSLARY 162 (220)
Q Consensus 139 ~~d-iAl~~G~mLREcik~e~la~~ 162 (220)
..| -.--.|.-+|+-. +.++..
T Consensus 93 ~~d~~g~d~G~~VR~ka--~~i~~L 115 (123)
T cd03571 93 YIDENGKDQGINVREKA--KEILEL 115 (123)
T ss_pred eeCCCCCchhHHHHHHH--HHHHHH
Confidence 322 2336788888755 555553
No 39
>COG5064 SRP1 Karyopherin (importin) alpha [Intracellular trafficking and secretion]
Probab=25.50 E-value=3.6e+02 Score=26.14 Aligned_cols=123 Identities=16% Similarity=0.184 Sum_probs=72.1
Q ss_pred HHHHHHHHhhcHHHHHHhcCCCCCchhhhcHHHHHHHhhhcccCCccc-hhHHhhcc--HHHHHHHHHhccC--cchh--
Q 027702 71 LQLATEVCKEDVLILLVHKLPILGWEARKDLVHCWSILLKQKVDSTYC-CVQFIENH--FELLDFLVVCYDN--KEVA-- 143 (220)
Q Consensus 71 ~qL~~ei~~~dll~~Li~~L~~L~FE~RKdv~~If~~llR~~~~~~~p-~v~Yl~~~--peil~~L~~gY~~--~diA-- 143 (220)
.+-+|.++..|+.+.||+.|..-+|-.||.++=-.+|+.- -|.+.| .+.||+.+ -+-|--|+.+-+| ++++
T Consensus 359 teqiqavid~nliPpLi~lls~ae~k~kKEACWAisNats--gg~~~PD~iryLv~qG~IkpLc~~L~~~dNkiiev~LD 436 (526)
T COG5064 359 TEQIQAVIDANLIPPLIHLLSSAEYKIKKEACWAISNATS--GGLNRPDIIRYLVSQGFIKPLCDLLDVVDNKIIEVALD 436 (526)
T ss_pred HHHHHHHHhcccchHHHHHHHHHHHHHHHHHHHHHHhhhc--cccCCchHHHHHHHccchhHHHHHHhccCccchhhhHH
Confidence 4557889999999999999999999999999887777753 222222 35566554 2333334444444 3444
Q ss_pred -----hhhhHHHHHHh--hhHHHHHHHcCchhHHHHhhhhcCCChhhhhhhHHHHHHHH
Q 027702 144 -----LHCGIMLRECI--KFPSLARYILESASFELFFKFVELPTFDVASDAFSTFKDLL 195 (220)
Q Consensus 144 -----l~~G~mLREci--k~e~la~~iL~~~~f~~fF~yv~~~~FeiasDAf~tfkelL 195 (220)
|..|.+=|..- +--.-|.++=.-......++.=+..|=+|.--|+....+.+
T Consensus 437 ~~eniLk~Ge~d~~~~~~nin~ya~~vE~Aggmd~I~~~Q~s~n~~iy~KAYsIIe~fF 495 (526)
T COG5064 437 AIENILKVGEQDRLRYGKNINIYAVYVEKAGGMDAIHGLQDSVNRTIYDKAYSIIEKFF 495 (526)
T ss_pred HHHHHHhhhhHHHHhccCCccHHHHHHHhcccHHHHHHhhhccccHHHHHHHHHHHHHc
Confidence 34455544331 01122333333344555555555666666666666554443
No 40
>PF12616 DUF3775: Protein of unknown function (DUF3775); InterPro: IPR022254 This domain family is found in bacteria, and is approximately 80 amino acids in length. There is a single completely conserved residue G that may be functionally important.
Probab=25.12 E-value=49 Score=24.37 Aligned_cols=23 Identities=13% Similarity=0.154 Sum_probs=20.1
Q ss_pred ccchhHHhhccHHHHHHHHHhcc
Q 027702 116 TYCCVQFIENHFELLDFLVVCYD 138 (220)
Q Consensus 116 ~~p~v~Yl~~~peil~~L~~gY~ 138 (220)
..|+++||..+|.+-+.|-.|-+
T Consensus 49 ~~~ta~YLl~~p~ladyLe~GL~ 71 (75)
T PF12616_consen 49 SARTADYLLGTPMLADYLEEGLE 71 (75)
T ss_pred cchHHHHHHcCCcHHHHHHHHHH
Confidence 46899999999999999988853
No 41
>cd01137 PsaA Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind the metal ion in the cleft between these domains. In addition, these proteins sometimes have a low complexity region containing a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=24.94 E-value=3.5e+02 Score=24.04 Aligned_cols=73 Identities=23% Similarity=0.186 Sum_probs=43.7
Q ss_pred CCCChHHHHHHHHHHHHhccccchh-hHHHHHHHHHHHHHHHHHhhhhhc-----------------------C------
Q 027702 10 RPKTPLEVVKATKVSLMALDIKTVV-EVKALEKAMEEIEKNFVTMRCMLS-----------------------G------ 59 (220)
Q Consensus 10 ~~ktP~elVr~~~e~l~~L~~~~~~-~~~~~~k~~eeisK~L~~mK~iL~-----------------------G------ 59 (220)
.|..-..+++.+.+.|.+++..... =.++.++..+++...-..++..+. |
T Consensus 122 dp~~~~~~a~~Ia~~L~~~dP~~~~~y~~N~~~~~~~L~~l~~~~~~~l~~~~~~~~~~v~~H~af~Y~~~~yGl~~~~~ 201 (287)
T cd01137 122 SPKNAIIYVKNIAKALSEADPANAETYQKNAAAYKAKLKALDEWAKAKFATIPAEKRKLVTSEGAFSYFAKAYGLKEAYL 201 (287)
T ss_pred CHHHHHHHHHHHHHHHHHHCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCcccCEEEEecccHHHHHHHcCCeEeec
Confidence 5777788999999999998864321 112333443333332222222221 1
Q ss_pred ---CCCCCCChHHHHHHHHHHHhhcH
Q 027702 60 ---DGEVEPNADQVLQLATEVCKEDV 82 (220)
Q Consensus 60 ---~~e~ep~~e~~~qL~~ei~~~dl 82 (220)
.++.||++..+.++.+.+-+.+.
T Consensus 202 ~~~~~~~eps~~~l~~l~~~ik~~~v 227 (287)
T cd01137 202 WPINTEEEGTPKQVATLIEQVKKEKV 227 (287)
T ss_pred ccCCCCCCCCHHHHHHHHHHHHHhCC
Confidence 24678888888888888876653
No 42
>KOG2180 consensus Late Golgi protein sorting complex, subunit Vps53 [Intracellular trafficking, secretion, and vesicular transport]
Probab=23.95 E-value=4.4e+02 Score=27.56 Aligned_cols=53 Identities=19% Similarity=0.354 Sum_probs=29.3
Q ss_pred HHHHHHHHHHHHHHHhhhhhcCCCCCCCChHHHHHHHHHHHhhcHHHHHHhcCCCCCchhhhcHHHHHHHhhh
Q 027702 38 ALEKAMEEIEKNFVTMRCMLSGDGEVEPNADQVLQLATEVCKEDVLILLVHKLPILGWEARKDLVHCWSILLK 110 (220)
Q Consensus 38 ~~~k~~eeisK~L~~mK~iL~G~~e~ep~~e~~~qL~~ei~~~dll~~Li~~L~~L~FE~RKdv~~If~~llR 110 (220)
...++.+|+.+.++.+|.. +|.+.+.|.+++. .+.+||| |+|..++=.+.|-|
T Consensus 76 da~~ai~eL~~~i~eiks~------ae~Te~~V~eiTr-------------dIKqLD~-AKkNLTtSiT~L~~ 128 (793)
T KOG2180|consen 76 DAQAAIEELFQKIQEIKSV------AESTEAMVQEITR-------------DIKQLDF-AKKNLTTSITTLHR 128 (793)
T ss_pred HHHHHHHHHHHHHHHHHHH------HHhHHHHHHHHHH-------------HHHhhhH-HHhhHHHHHHHHHH
Confidence 3445666777777777662 2233333444443 3456677 67776666665544
No 43
>PF08006 DUF1700: Protein of unknown function (DUF1700); InterPro: IPR012963 This family contains many hypothetical bacterial proteins and two putative membrane proteins (Q6GFD0 from SWISSPROT and Q6G806 from SWISSPROT).
Probab=23.66 E-value=2.1e+02 Score=23.56 Aligned_cols=61 Identities=23% Similarity=0.179 Sum_probs=36.8
Q ss_pred ChHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHHHHHhhhhhcCCCCCCCChH--HHHHHHHHHHhhc
Q 027702 13 TPLEVVKATKVSLMALDIKTVVEVKALEKAMEEIEKNFVTMRCMLSGDGEVEPNAD--QVLQLATEVCKED 81 (220)
Q Consensus 13 tP~elVr~~~e~l~~L~~~~~~~~~~~~k~~eeisK~L~~mK~iL~G~~e~ep~~e--~~~qL~~ei~~~d 81 (220)
|-+|..+.++..|..|+.. .++.+.++...++..-.. -|.+|.|-..| ...++|+++..+.
T Consensus 2 ~k~efL~~L~~~L~~lp~~------e~~e~l~~Y~e~f~d~~~--~G~sEeeii~~LG~P~~iA~~i~~~~ 64 (181)
T PF08006_consen 2 NKNEFLNELEKYLKKLPEE------EREEILEYYEEYFDDAGE--EGKSEEEIIAELGSPKEIAREILAEY 64 (181)
T ss_pred CHHHHHHHHHHHHHcCCHH------HHHHHHHHHHHHHHHhhh--CCCCHHHHHHHcCCHHHHHHHHHHhh
Confidence 3468888888888766432 346777888888775432 34444332222 2456777776554
No 44
>cd01020 TroA_b Metal binding protein TroA_b. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding mechanism. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind the metal ion in the cleft between these domains. In addition, these proteins sometimes have a low complexity region containing a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=22.25 E-value=4.5e+02 Score=22.93 Aligned_cols=23 Identities=26% Similarity=0.263 Sum_probs=19.4
Q ss_pred CCCChHHHHHHHHHHHHhccccc
Q 027702 10 RPKTPLEVVKATKVSLMALDIKT 32 (220)
Q Consensus 10 ~~ktP~elVr~~~e~l~~L~~~~ 32 (220)
.|+.-..+++.+.+.|.+++...
T Consensus 100 dp~n~~~~a~~I~~~L~~~dP~~ 122 (264)
T cd01020 100 DPETMSKVANALADALVKADPDN 122 (264)
T ss_pred CHhHHHHHHHHHHHHHHHhCccc
Confidence 67888899999999999988643
No 45
>PF00196 GerE: Bacterial regulatory proteins, luxR family; InterPro: IPR000792 This domain is a DNA-binding, helix-turn-helix (HTH) domain of about 65 amino acids, present in transcription regulators of the LuxR/FixJ family of response regulators. The domain is named after Vibrio fischeri luxR, a transcriptional activator for quorum-sensing control of luminescence. LuxR-type HTH domain proteins occur in a variety of organisms. The DNA-binding HTH domain is usually located in the C-terminal region; the N-terminal region often containing an autoinducer-binding domain or a response regulatory domain. Most luxR-type regulators act as transcription activators, but some can be repressors or have a dual role for different sites. LuxR-type HTH regulators control a wide variety of activities in various biological processes. The luxR-type, DNA-binding HTH domain forms a four-helical bundle structure. The HTH motif comprises the second and third helices, known as the scaffold and recognition helix, respectively. The HTH binds DNA in the major groove, where the N-terminal part of the recognition helix makes most of the DNA contacts. The fourth helix is involved in dimerisation of gerE and traR. Signalling events by one of the four activation mechanisms described below lead to multimerisation of the regulator. The regulators bind DNA as multimers [, , ]. LuxR-type HTH proteins can be activated by one of four different mechanisms: 1) Regulators which belong to a two-component sensory transduction system where the protein is activated by its phosphorylation, generally on an aspartate residue, by a transmembrane kinase [, ]. Some proteins that belong to this category are: Rhizobiaceae fixJ (global regulator inducing expression of nitrogen-fixation genes in microaerobiosis) Escherichia coli and Salmonella typhimurium uhpA (activates hexose phosphate transport gene uhpT) E. coli narL and narP (activate nitrate reductase operon) Enterobacteria rcsB (regulation of exopolysaccharide biosynthesis in enteric and plant pathogenesis) Bordetella pertussis bvgA (virulence factor) Bacillus subtilis coma (involved in expression of late-expressing competence genes) 2) Regulators which are activated, or in very rare cases repressed, when bound to N-acyl homoserine lactones, which are used as quorum sensing molecules in a variety of Gram-negative bacteria []: V. fischeri luxR (activates bioluminescence operon) Agrobacterium tumefaciens traR (regulation of Ti plasmid transfer) Erwinia carotovora carR (control of carbapenem antibiotics biosynthesis) E. carotovora expR (virulence factor for soft rot disease; activates plant tissue macerating enzyme genes) Pseudomonas aeruginosa lasR (activates elastase gene lasB) Erwinia chrysanthemi echR and Erwinia stewartii esaR Pseudomonas chlororaphis phzR (positive regulator of phenazine antibiotic production) Pseudomonas aeruginosa rhlR (activates rhlAB operon and lasB gene) 3) Autonomous effector domain regulators, without a regulatory domain, represented by gerE []. B. subtilis gerE (transcription activator and repressor for the regulation of spore formation) 4) Multiple ligand-binding regulators, exemplified by malT []. E. coli malT (activates maltose operon; MalT binds ATP and maltotriose); GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 3SZT_A 3CLO_A 1H0M_A 1L3L_A 3C57_B 1ZLK_B 1ZLJ_H 3C3W_B 1RNL_A 1ZG1_A ....
Probab=22.22 E-value=45 Score=22.25 Aligned_cols=25 Identities=36% Similarity=0.472 Sum_probs=19.9
Q ss_pred HHHHHHHHHhccCcchhhhhhHHHH
Q 027702 127 FELLDFLVVCYDNKEVALHCGIMLR 151 (220)
Q Consensus 127 peil~~L~~gY~~~diAl~~G~mLR 151 (220)
-+|+..++.|+...+||-..|.=.+
T Consensus 9 ~~vl~~l~~G~~~~eIA~~l~is~~ 33 (58)
T PF00196_consen 9 LEVLRLLAQGMSNKEIAEELGISEK 33 (58)
T ss_dssp HHHHHHHHTTS-HHHHHHHHTSHHH
T ss_pred HHHHHHHHhcCCcchhHHhcCcchh
Confidence 5899999999999999988775443
No 46
>PF07319 DnaI_N: Primosomal protein DnaI N-terminus; InterPro: IPR009928 This entry represents the N terminus (approximately 120 residues) of bacterial primosomal DnaI proteins, although one family member appears to be of viral origin. DnaI is one of the components of the Bacillus subtilis replication restart primosome, and is required for the DnaB75-dependent loading of the DnaC helicase [].; PDB: 2K7R_A.
Probab=21.99 E-value=1.7e+02 Score=21.87 Aligned_cols=40 Identities=18% Similarity=0.421 Sum_probs=26.9
Q ss_pred hhhHHHHHHHcCchhHHHHhhhhcCCChhhhhhhHHHHHHHHhcC-hhHHHHHHHhcHHHHHH
Q 027702 154 IKFPSLARYILESASFELFFKFVELPTFDVASDAFSTFKDLLTKH-LTVVSEYLTAHYDEVYT 215 (220)
Q Consensus 154 ik~e~la~~iL~~~~f~~fF~yv~~~~FeiasDAf~tfkelLtrH-k~lvaefL~~Nyd~Ff~ 215 (220)
-+++.+.+-||.+|....| |..| ..+..+-+..++.++++
T Consensus 19 ~~~~~l~~~vl~dp~V~~F----------------------l~~h~~eLt~~~i~rsl~kLyE 59 (94)
T PF07319_consen 19 ERYEQLKQEVLSDPEVQAF----------------------LQEHQPELTQEMIERSLSKLYE 59 (94)
T ss_dssp HHHHHHHHHHTT-HHHHHH----------------------HHHSTTT--HHHHHHTHHHHHH
T ss_pred HHHHHHHHHHHcCHHHHHH----------------------HHHhHHhcCHHHHHHHHHHHHH
Confidence 3688888999999988766 5666 55666777777766653
No 47
>cd01016 TroA Metal binding protein TroA. These proteins have been shown to function as initial receptors in ABC transport of Zn2+ and possibly Fe3+ in many eubacterial species. The TroA proteins belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind the metal ion in the cleft between these domains. In addition, these proteins sometimes have a low complexity region containing a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=21.96 E-value=4.1e+02 Score=23.43 Aligned_cols=23 Identities=22% Similarity=-0.133 Sum_probs=18.9
Q ss_pred CCCChHHHHHHHHHHHHhccccc
Q 027702 10 RPKTPLEVVKATKVSLMALDIKT 32 (220)
Q Consensus 10 ~~ktP~elVr~~~e~l~~L~~~~ 32 (220)
.|..-..+++.+.+.|.+++...
T Consensus 106 dp~~~~~~a~~I~~~L~~~dP~~ 128 (276)
T cd01016 106 DVKLWKYAVKAVAEVLSEKLPEH 128 (276)
T ss_pred CHHHHHHHHHHHHHHHHHHCccc
Confidence 56777889999999999988644
No 48
>PF14887 HMG_box_5: HMG (high mobility group) box 5; PDB: 1L8Y_A 1L8Z_A 2HDZ_A.
Probab=21.70 E-value=1.8e+02 Score=21.92 Aligned_cols=21 Identities=24% Similarity=0.205 Sum_probs=12.7
Q ss_pred CCCChHHHHH--HHHHHHHhccc
Q 027702 10 RPKTPLEVVK--ATKVSLMALDI 30 (220)
Q Consensus 10 ~~ktP~elVr--~~~e~l~~L~~ 30 (220)
+||||+|+-. -+.+-|.+...
T Consensus 6 ~PKt~qe~Wqq~vi~dYla~~~~ 28 (85)
T PF14887_consen 6 TPKTAQEIWQQSVIGDYLAKFRN 28 (85)
T ss_dssp ---THHHHHHHHHHHHHHHHTTS
T ss_pred CCCCHHHHHHHHHHHHHHHHhhH
Confidence 6999999965 35666766654
No 49
>COG0219 CspR Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]
Probab=21.28 E-value=49 Score=27.78 Aligned_cols=17 Identities=24% Similarity=0.579 Sum_probs=15.4
Q ss_pred CcchhhhhhHHHHHHhh
Q 027702 139 NKEVALHCGIMLRECIK 155 (220)
Q Consensus 139 ~~diAl~~G~mLREcik 155 (220)
+|||.-|+|+|+|-|.-
T Consensus 9 ~PeIP~NTGNI~R~ca~ 25 (155)
T COG0219 9 QPEIPPNTGNIIRTCAA 25 (155)
T ss_pred CCCCCCchhHHHHHHHh
Confidence 78999999999999964
No 50
>PHA02800 hypothetical protein; Provisional
Probab=21.27 E-value=4.8e+02 Score=22.00 Aligned_cols=35 Identities=23% Similarity=0.406 Sum_probs=26.2
Q ss_pred HHhccCcchhhhhhHHHHHHhhhHHHHHHHcCchhH
Q 027702 134 VVCYDNKEVALHCGIMLRECIKFPSLARYILESASF 169 (220)
Q Consensus 134 ~~gY~~~diAl~~G~mLREcik~e~la~~iL~~~~f 169 (220)
-+|+.++ +-=.||.+..|..+|+.+|+.......+
T Consensus 44 WR~ng~~-~~~~cGKIFKELmKyD~lAkk~~~~~d~ 78 (161)
T PHA02800 44 WRFNGGK-VDENTGKIFKEFFKYDTLAKWRFSKRDF 78 (161)
T ss_pred hhcCCCh-hhHHHHHHHHHHHHHHHHHHHhcChhHH
Confidence 4555444 5558999999999999999977544444
No 51
>COG0421 SpeE Spermidine synthase [Amino acid transport and metabolism]
Probab=21.12 E-value=26 Score=31.85 Aligned_cols=23 Identities=26% Similarity=0.297 Sum_probs=18.2
Q ss_pred hhhhhhHHHHHHhhhHHHHHHHc
Q 027702 142 VALHCGIMLRECIKFPSLARYIL 164 (220)
Q Consensus 142 iAl~~G~mLREcik~e~la~~iL 164 (220)
|..=-|.++|||+||..+.+++.
T Consensus 83 iGgGdG~tlRevlkh~~ve~i~~ 105 (282)
T COG0421 83 IGGGDGGTLREVLKHLPVERITM 105 (282)
T ss_pred ECCCccHHHHHHHhcCCcceEEE
Confidence 34457899999999998777665
No 52
>KOG1077 consensus Vesicle coat complex AP-2, alpha subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=20.75 E-value=4.5e+02 Score=27.72 Aligned_cols=137 Identities=17% Similarity=0.147 Sum_probs=80.7
Q ss_pred ChHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHH---HHHhhhhhcCCCCCCCChHHHHHHHHHHHhhcHHHHHHhc
Q 027702 13 TPLEVVKATKVSLMALDIKTVVEVKALEKAMEEIEKN---FVTMRCMLSGDGEVEPNADQVLQLATEVCKEDVLILLVHK 89 (220)
Q Consensus 13 tP~elVr~~~e~l~~L~~~~~~~~~~~~k~~eeisK~---L~~mK~iL~G~~e~ep~~e~~~qL~~ei~~~dll~~Li~~ 89 (220)
|-+.+.+.+-..|.+....... +|.++-.+|+ +..|+.++.-|.|++--...|.||.+=+-.-. .|
T Consensus 276 ~r~~l~evl~~iLnk~~~~~~~-----k~vq~~na~naVLFeaI~l~~h~D~e~~ll~~~~~~Lg~fls~rE------~N 344 (938)
T KOG1077|consen 276 TRARLNEVLERILNKAQEPPKS-----KKVQHSNAKNAVLFEAISLAIHLDSEPELLSRAVNQLGQFLSHRE------TN 344 (938)
T ss_pred HHHHHHHHHHHHHhccccCccc-----cchHhhhhHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHhhccc------cc
Confidence 3445566666667666544332 6777777765 55788888877776655566777776443221 23
Q ss_pred CCCCCch--------------hhhcHHHHHHHhh-hcccCCccchhHHhh-----cc-HHHHHHHHHhccCcchhhhhhH
Q 027702 90 LPILGWE--------------ARKDLVHCWSILL-KQKVDSTYCCVQFIE-----NH-FELLDFLVVCYDNKEVALHCGI 148 (220)
Q Consensus 90 L~~L~FE--------------~RKdv~~If~~ll-R~~~~~~~p~v~Yl~-----~~-peil~~L~~gY~~~diAl~~G~ 148 (220)
+..|-+| -||.--+|++.|= -|.++-|.-+||-|= .| .+|+.-|+.+-+..|-++---.
T Consensus 345 iRYLaLEsm~~L~ss~~s~davK~h~d~Ii~sLkterDvSirrravDLLY~mcD~~Nak~IV~elLqYL~tAd~sireei 424 (938)
T KOG1077|consen 345 IRYLALESMCKLASSEFSIDAVKKHQDTIINSLKTERDVSIRRRAVDLLYAMCDVSNAKQIVAELLQYLETADYSIREEI 424 (938)
T ss_pred chhhhHHHHHHHHhccchHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHhchhhHHHHHHHHHHHHhhcchHHHHHH
Confidence 3333333 3556566666543 144444455667552 23 7888899888877766655555
Q ss_pred HHHHHhhhHHHH
Q 027702 149 MLRECIKFPSLA 160 (220)
Q Consensus 149 mLREcik~e~la 160 (220)
.|.-.|=-|..|
T Consensus 425 vlKvAILaEKyA 436 (938)
T KOG1077|consen 425 VLKVAILAEKYA 436 (938)
T ss_pred HHHHHHHHHHhc
Confidence 555555444443
No 53
>COG0803 LraI ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]
Probab=20.52 E-value=4.2e+02 Score=23.84 Aligned_cols=52 Identities=19% Similarity=0.098 Sum_probs=32.7
Q ss_pred CCCChHHHHHHHHHHHHhccccchh-hHHHHHHHHHHHHHHHHHhhhhhcCCC
Q 027702 10 RPKTPLEVVKATKVSLMALDIKTVV-EVKALEKAMEEIEKNFVTMRCMLSGDG 61 (220)
Q Consensus 10 ~~ktP~elVr~~~e~l~~L~~~~~~-~~~~~~k~~eeisK~L~~mK~iL~G~~ 61 (220)
.|+.-..+|+.+++.|.+++..... =.++.+++.+++.+.-...+..+.+-.
T Consensus 138 dp~na~~~v~~I~~~L~~~dP~~~~~y~~N~~~y~~kL~~l~~~~~~~~~~~~ 190 (303)
T COG0803 138 DPKNAKIYAENIADALVELDPENKETYEKNAEAYLKKLNKLDEEAKAKLSKIP 190 (303)
T ss_pred CHHHHHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence 5677788999999999998864421 123445555555555555555554444
No 54
>PF05924 SAMP: SAMP Motif; InterPro: IPR009224 This short region is found repeated in the mid region of the adenomatous polyposis proteins (APCs). This motif binds axin [].; GO: 0008013 beta-catenin binding, 0016055 Wnt receptor signaling pathway; PDB: 1EMU_B 2RQU_B.
Probab=20.28 E-value=57 Score=18.34 Aligned_cols=8 Identities=50% Similarity=0.970 Sum_probs=6.5
Q ss_pred HHHHHHhh
Q 027702 148 IMLRECIK 155 (220)
Q Consensus 148 ~mLREcik 155 (220)
.||+|||-
T Consensus 4 eiL~~CI~ 11 (20)
T PF05924_consen 4 EILQECIG 11 (20)
T ss_dssp HHHHHHHH
T ss_pred HHHHHHHH
Confidence 58999984
No 55
>KOG2056 consensus Equilibrative nucleoside transporter protein [Nucleotide transport and metabolism]
Probab=20.07 E-value=1.8e+02 Score=27.36 Aligned_cols=45 Identities=13% Similarity=0.073 Sum_probs=31.9
Q ss_pred CCChHHHHHHHHHHHhhcHHHHHHhcCCCCCchhhhcHHHHHHHh
Q 027702 64 EPNADQVLQLATEVCKEDVLILLVHKLPILGWEARKDLVHCWSIL 108 (220)
Q Consensus 64 ep~~e~~~qL~~ei~~~dll~~Li~~L~~L~FE~RKdv~~If~~l 108 (220)
-|+....++||+..|+..-+..++..|.+===.+.|.--+|+.+|
T Consensus 36 GPs~~lm~eIA~~ty~~~e~~eIm~vi~kRl~d~gknWR~VyKaL 80 (336)
T KOG2056|consen 36 GPSGTLMAEIAQATYNFVEYQEIMDVLWKRLNDSGKNWRHVYKAL 80 (336)
T ss_pred CCchHHHHHHHHHhcCHHHHHHHHHHHHHHHhhccchHHHHHHHH
Confidence 488999999999999998777777777664223455555555544
Done!