Query 025125
Match_columns 257
No_of_seqs 119 out of 211
Neff 5.5
Searched_HMMs 46136
Date Fri Mar 29 02:55:07 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/025125.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/025125hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2909 Vacuolar H+-ATPase V1 100.0 8.3E-89 1.8E-93 627.2 21.3 251 2-252 1-254 (381)
2 PF03223 V-ATPase_C: V-ATPase 100.0 1.1E-88 2.4E-93 642.7 22.4 247 5-251 1-250 (371)
3 COG5127 Vacuolar H+-ATPase V1 100.0 6.1E-64 1.3E-68 456.7 18.2 248 3-254 4-254 (383)
4 PRK05771 V-type ATP synthase s 85.6 9.1 0.0002 39.2 11.3 122 117-248 83-205 (646)
5 PF01920 Prefoldin_2: Prefoldi 47.7 1.2E+02 0.0026 22.9 9.5 85 54-154 9-96 (106)
6 cd07646 I-BAR_IMD_IRSp53 Inver 43.5 2.6E+02 0.0057 25.6 9.8 37 124-160 111-147 (232)
7 PRK15364 pathogenicity island 41.3 2.6E+02 0.0056 24.9 9.2 61 89-156 110-182 (196)
8 PRK03947 prefoldin subunit alp 38.9 1.1E+02 0.0024 24.8 6.2 49 106-154 80-128 (140)
9 TIGR03422 mito_frataxin fratax 38.9 82 0.0018 24.8 5.2 68 63-130 3-96 (97)
10 cd00890 Prefoldin Prefoldin is 36.6 1.1E+02 0.0024 23.9 5.8 36 118-153 92-127 (129)
11 KOG3973 Uncharacterized conser 36.4 1.1E+02 0.0023 30.1 6.4 128 17-169 164-294 (465)
12 PF12826 HHH_2: Helix-hairpin- 35.3 33 0.00072 24.5 2.2 36 45-80 22-58 (64)
13 PF10367 Vps39_2: Vacuolar sor 34.6 1.9E+02 0.004 21.7 6.5 77 112-191 20-99 (109)
14 PF05278 PEARLI-4: Arabidopsis 33.9 59 0.0013 30.4 4.1 129 19-154 98-234 (269)
15 cd00632 Prefoldin_beta Prefold 32.3 1.6E+02 0.0034 22.9 5.8 41 115-155 58-98 (105)
16 cd07645 I-BAR_IMD_BAIAP2L1 Inv 32.2 4E+02 0.0086 24.4 9.9 78 50-160 68-145 (226)
17 PF06657 Cep57_MT_bd: Centroso 32.1 48 0.001 25.1 2.8 42 114-155 11-52 (79)
18 cd00632 Prefoldin_beta Prefold 32.1 1.8E+02 0.004 22.5 6.2 40 116-155 66-105 (105)
19 PF05529 Bap31: B-cell recepto 30.1 3.5E+02 0.0076 23.1 8.9 38 118-155 152-189 (192)
20 TIGR02338 gimC_beta prefoldin, 29.1 2.1E+02 0.0045 22.5 6.1 43 114-156 61-103 (110)
21 PF05667 DUF812: Protein of un 28.7 45 0.00097 34.4 2.7 50 122-171 449-498 (594)
22 COG5625 Predicted transcriptio 28.6 55 0.0012 26.5 2.6 30 112-141 83-112 (113)
23 cd07605 I-BAR_IMD Inverse (I)- 28.0 4.5E+02 0.0098 23.7 9.3 44 117-160 98-145 (223)
24 PF08727 P3A: Poliovirus 3A pr 25.8 39 0.00084 24.4 1.2 16 234-249 30-45 (57)
25 cd06410 PB1_UP2 Uncharacterize 25.3 95 0.0021 24.4 3.4 47 7-58 26-72 (97)
26 PF13949 ALIX_LYPXL_bnd: ALIX 24.9 5.1E+02 0.011 23.2 10.0 87 47-153 22-110 (296)
27 PLN00064 photosystem II protei 24.6 1.3E+02 0.0027 26.3 4.3 77 58-137 82-163 (166)
28 PF01920 Prefoldin_2: Prefoldi 24.1 1.9E+02 0.0042 21.7 5.0 38 117-154 66-103 (106)
29 PF02183 HALZ: Homeobox associ 22.6 1.4E+02 0.0031 20.2 3.5 26 131-156 2-27 (45)
30 KOG1016 Predicted DNA helicase 22.3 1.5E+02 0.0033 32.3 5.1 68 160-240 296-365 (1387)
31 KOG3208 SNARE protein GS28 [In 21.2 1.3E+02 0.0028 27.5 3.8 27 123-149 8-34 (231)
32 PF06721 DUF1204: Protein of u 20.7 1.9E+02 0.004 26.0 4.6 48 115-162 79-132 (228)
33 PF01496 V_ATPase_I: V-type AT 20.7 72 0.0016 33.5 2.5 72 177-248 137-218 (759)
34 TIGR03044 PS_II_psb27 photosys 20.6 2.7E+02 0.0059 23.5 5.4 82 48-137 47-133 (135)
No 1
>KOG2909 consensus Vacuolar H+-ATPase V1 sector, subunit C [Energy production and conversion]
Probab=100.00 E-value=8.3e-89 Score=627.24 Aligned_cols=251 Identities=47% Similarity=0.764 Sum_probs=243.3
Q ss_pred CceEEEEeecCCCC-hHHHHHHHHHHhccCCCCCCceeecCCCCCCcChhhhHhhhhhhHhhhhhHHHHHHHHHHHHHHh
Q 025125 2 ASRYWVVSLPVQNS-AASVWNRLQEQISKHSFDTPLYRFNIPNLRVGTLDSLLALSDDLVKSNSFVESVSHKIRRQIEEL 80 (257)
Q Consensus 2 ~~~~wLvs~P~~~~-~~~~~~~L~~~~~~~~~~~~~~~f~iP~fKvGTLDsLv~lsDeL~K~D~~~e~~v~Ki~~~~~~l 80 (257)
|++|||||+|++++ +.++|+.+...+++.+..+.+++|+||+||+||||+||++||||+|+|++||++++||.+++.+.
T Consensus 1 Ms~fwliSlP~~~~~~~~~~d~i~~~~sk~s~~~~vs~F~IP~fkvgsLD~Lv~~se~L~Kld~~~e~~i~ki~~~~~~~ 80 (381)
T KOG2909|consen 1 MSEFWLISLPGEKTGNQQTWDRINDLTSKRSNLSTVSKFNIPDFKVGSLDVLVGLSEELGKLDTFVEGLIKKIAGYLKEV 80 (381)
T ss_pred CcceEEEeCCcCCcccccHHHHHHHHHhccccccccccccCCCcccccHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHH
Confidence 45999999999766 89999999999988887899999999999999999999999999999999999999999999888
Q ss_pred hc-cccccccceeECCcChhhhhcccccccccCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhCCC
Q 025125 81 ER-VSGIESSSLSVDGVPVDTYLTRFVWDEAKYPTMSPLREIVDGIHTLVAKIEDDLKVRVAEYNNVRSQLNAINRKQSG 159 (257)
Q Consensus 81 ~~-~~~~~~~~l~v~~~~~~~Yl~~F~Wd~aKyp~~~~l~elv~~i~~~v~~id~dlk~k~~~Yn~~K~~l~~~~RK~~G 159 (257)
++ .++++.+++.+||+|+++|+++|+||++|||.++||++++++|+++++|||+|+|+|+++||++|++|++++||++|
T Consensus 81 le~~s~~~~~~l~~n~~~~~ey~t~F~Wd~akf~~~~si~~iid~I~~e~~qie~Dlk~r~a~yn~ak~nl~nlerK~~G 160 (381)
T KOG2909|consen 81 LEDSSGKVGENLMANGVPLPEYLTRFQWDMAKFPTNQSIKEIIDLISKEIAQIENDLKTRAAAYNNAKGNLQNLERKKTG 160 (381)
T ss_pred HhhcccchhhceeeCCcCHHHHHhHheehhhhccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhhccC
Confidence 77 48888999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CcccccCCCCCCCCCcc-cCCcceEEEEEecCCChHHHHHHhccccCccccCCcccccccCCeeEEEEEEecccHHHHHH
Q 025125 160 SLAVRDLSNLVKPEDII-TSEHLVTLLAVVPKYSQKDWLASYETLTSYVVPRSSKLLYEDNEYALYTVTLFGRVADNFRI 238 (257)
Q Consensus 160 nL~~rsL~diV~~edfv-dSEyLtTllVvVPk~~~~ewl~~YEtLs~~VVPrSs~~i~eD~e~~L~~VtlFKk~~~eF~~ 238 (257)
||++|||++||+||||| |||||+|++|||||++++||+++||||++||||||+++|.||+||+||+||||||.+|+|++
T Consensus 161 sL~~rsL~~IVk~edfvl~SEyL~tllVvVPK~~~~df~~~YEtlsd~VvPrSskki~eD~Ey~Lf~V~lFkk~~edFr~ 240 (381)
T KOG2909|consen 161 SLSTRSLADIVKKEDFVLDSEYLTTLLVVVPKALVKDFLKSYETLSDMVVPRSSKKINEDAEYVLFTVTLFKKVAEDFRT 240 (381)
T ss_pred ChhhhhHHHhCCchhhccchhhheeEEEEeeccchHHHHHHHHhhccccchhhhhhcccccceEEEEEEEeehhHHHHHH
Confidence 99999999999999999 99999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHcCCeeCccee
Q 025125 239 AAREKGFQVGEKFV 252 (257)
Q Consensus 239 ~aRe~kf~vRdff~ 252 (257)
+|||+||+||||.-
T Consensus 241 ~ArE~kF~vRdF~y 254 (381)
T KOG2909|consen 241 KAREKKFIVRDFDY 254 (381)
T ss_pred HHHHcCCceeeccc
Confidence 99999999998643
No 2
>PF03223 V-ATPase_C: V-ATPase subunit C; InterPro: IPR004907 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. V-ATPases (also known as V1V0-ATPase or vacuolar ATPase) (3.6.3.14 from EC) are found in the eukaryotic endomembrane system, and in the plasma membrane of prokaryotes and certain specialised eukaryotic cells. V-ATPases hydrolyse ATP to drive a proton pump, and are involved in a variety of vital intra- and inter-cellular processes such as receptor mediated endocytosis, protein trafficking, active transport of metabolites, homeostasis and neurotransmitter release []. V-ATPases are composed of two linked complexes: the V1 complex (subunits A-H) contains the catalytic core that hydrolyses ATP, while the V0 complex (subunits a, c, c', c'', d) forms the membrane-spanning pore. V-ATPases may have an additional role in membrane fusion through binding to t-SNARE proteins []. This entry represents the C subunit that is part of the V1 complex, and is localised to the interface between the V1 and V0 complexes []. This subunit does not show any homology with F-ATPase subunits. The C subunit plays an essential role in controlling the assembly of V-ATPase, acting as a flexible stator that holds together the catalytic (V1) and membrane (V0) sectors of the enzyme []. The release of subunit C from the ATPase complex results in the dissociation of the V1 and V0 subcomplexes, which is an important mechanism in controlling V-ATPase activity in cells. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0016820 hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances, 0015991 ATP hydrolysis coupled proton transport, 0033180 proton-transporting V-type ATPase, V1 domain; PDB: 1U7L_A.
Probab=100.00 E-value=1.1e-88 Score=642.67 Aligned_cols=247 Identities=53% Similarity=0.835 Sum_probs=200.1
Q ss_pred EEEEeecCCCChHHH-HHHHHHHhccCCCCCCceeecCCCCCCcChhhhHhhhhhhHhhhhhHHHHHHHHHHHHHHhhcc
Q 025125 5 YWVVSLPVQNSAASV-WNRLQEQISKHSFDTPLYRFNIPNLRVGTLDSLLALSDDLVKSNSFVESVSHKIRRQIEELERV 83 (257)
Q Consensus 5 ~wLvs~P~~~~~~~~-~~~L~~~~~~~~~~~~~~~f~iP~fKvGTLDsLv~lsDeL~K~D~~~e~~v~Ki~~~~~~l~~~ 83 (257)
|||||+|+++++.+. |+.|+..++..+..+.+++|+||+||+||||+||+|||||+|+|++||++++||++++.+++++
T Consensus 1 ywLvs~P~~~~~~~~~~~~l~~~~~~~~~~~~~~~f~IP~lKvgTLDsLv~lsDeL~KlD~~~e~~~~Ki~~~~~~l~~~ 80 (371)
T PF03223_consen 1 YWLVSLPNEKSSQQSIWEKLQLVTSKSNNLSTVSKFNIPDLKVGTLDSLVQLSDELAKLDSFVESVVRKIERQLRDLLEG 80 (371)
T ss_dssp EEEEEEETT---TTS--HHHHHHHTGGGGTSEEEE------B-S-GGGHHHHHHHHHHHHHHHHHHHHHHHHHHHHT-TS
T ss_pred CEEEECCCCCCCcchHHHHHHHHhhccCCCCceeeecCCcCCcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 899999997666554 9999998866666788999999999999999999999999999999999999999999999864
Q ss_pred -ccccccceeECCcChhhhhcccccccccCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhCCCCcc
Q 025125 84 -SGIESSSLSVDGVPVDTYLTRFVWDEAKYPTMSPLREIVDGIHTLVAKIEDDLKVRVAEYNNVRSQLNAINRKQSGSLA 162 (257)
Q Consensus 84 -~~~~~~~l~v~~~~~~~Yl~~F~Wd~aKyp~~~~l~elv~~i~~~v~~id~dlk~k~~~Yn~~K~~l~~~~RK~~GnL~ 162 (257)
.++..+++.+||+++++||++|+||++|||.++||+||+++|++++++||+|+|+|+++||++|++|++++||++|||+
T Consensus 81 ~~~~~~~~l~v~~~~~~~yl~~F~Wd~aKy~~~~~l~el~~~i~~~v~~id~dlk~k~~~Yn~~K~~l~~~~RK~~GnL~ 160 (371)
T PF03223_consen 81 DKDKLQENLLVNGVSLEQYLTRFQWDDAKYPTRRPLKELVDIISKEVSQIDNDLKSKSSAYNNAKSNLQALERKQTGNLS 160 (371)
T ss_dssp S-SSS--S--BTTB-HHHHHHT----TTTS-TTSBHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT-S-TT
T ss_pred cccceeeEEEECCCcHHHHHHHheehhhcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccCccc
Confidence 5667899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccCCCCCCCCCcc-cCCcceEEEEEecCCChHHHHHHhccccCccccCCcccccccCCeeEEEEEEecccHHHHHHHHH
Q 025125 163 VRDLSNLVKPEDII-TSEHLVTLLAVVPKYSQKDWLASYETLTSYVVPRSSKLLYEDNEYALYTVTLFGRVADNFRIAAR 241 (257)
Q Consensus 163 ~rsL~diV~~edfv-dSEyLtTllVvVPk~~~~ewl~~YEtLs~~VVPrSs~~i~eD~e~~L~~VtlFKk~~~eF~~~aR 241 (257)
+|||++||+|+||| |||||||++|||||++++||+++||||++|||||||++|++|+||+||+||||||++++|+++||
T Consensus 161 ~rsL~~iV~~ed~v~dSEyL~Tl~VvVPk~~~~ewl~~YEtL~~~VVPrSs~~i~eD~ey~L~~VtlFkk~~~eF~~~~r 240 (371)
T PF03223_consen 161 VRSLSDIVKPEDFVLDSEYLTTLLVVVPKNSVKEWLKSYETLTDMVVPRSSKKIAEDSEYVLFSVTLFKKVVDEFKNKCR 240 (371)
T ss_dssp TS--TTT--GGGS--S-SSEEEEEEEEEGGGHHHHHHHGGGSSTTB-TT--EEEEE-SSEEEEEEEEEGGGHHHHHHHHH
T ss_pred cccHHhhCCHHhcccccccceEEEEEechhhHHHHHHHHhccCCccCCChHHhhhcCCCeEEEEEEEEeccHHHHHHHHH
Confidence 99999999999999 99999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HcCCeeCcce
Q 025125 242 EKGFQVGEKF 251 (257)
Q Consensus 242 e~kf~vRdff 251 (257)
|+||+||||.
T Consensus 241 e~kf~vRdF~ 250 (371)
T PF03223_consen 241 EKKFIVRDFK 250 (371)
T ss_dssp HTT-EEE---
T ss_pred HcCCeeeecc
Confidence 9999999863
No 3
>COG5127 Vacuolar H+-ATPase V1 sector, subunit C [Energy production and conversion]
Probab=100.00 E-value=6.1e-64 Score=456.75 Aligned_cols=248 Identities=27% Similarity=0.372 Sum_probs=223.9
Q ss_pred ceEEEEeecCC--CChHHHHHHHHHHhccCCCCCCceeecCCCCCCcChhhhHhhhhhhHhhhhhHHHHHHHHHHHHHHh
Q 025125 3 SRYWVVSLPVQ--NSAASVWNRLQEQISKHSFDTPLYRFNIPNLRVGTLDSLLALSDDLVKSNSFVESVSHKIRRQIEEL 80 (257)
Q Consensus 3 ~~~wLvs~P~~--~~~~~~~~~L~~~~~~~~~~~~~~~f~iP~fKvGTLDsLv~lsDeL~K~D~~~e~~v~Ki~~~~~~l 80 (257)
+.|||||+|.+ |+..+ ++....+-++. +.+++|.||.||+|+||.||.+|++|+|+|.+|++.+.||.++++.+
T Consensus 4 sdFilvslP~~~~Gs~~d--~d~~~~l~ggr--stvs~f~~P~Fk~~SLd~lI~qsE~L~k~d~qc~~aIsKi~~i~~g~ 79 (383)
T COG5127 4 SDFILVSLPVEEDGSRPD--EDQIWDLYGGR--STVSRFLLPSFKGVSLDGLINQSERLGKLDKQCEGAISKILKIFMGY 79 (383)
T ss_pred cceEEEeccccccCCCCc--HHHHHHHhcCc--cccccccCCCccccchHHHHHHHHHHhhHHHHHHHHHHHHHHHHHhh
Confidence 78999999984 33222 34444443333 66899999999999999999999999999999999999999999999
Q ss_pred hccccccccceeECCcChhhhhcccccccccCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhCCCC
Q 025125 81 ERVSGIESSSLSVDGVPVDTYLTRFVWDEAKYPTMSPLREIVDGIHTLVAKIEDDLKVRVAEYNNVRSQLNAINRKQSGS 160 (257)
Q Consensus 81 ~~~~~~~~~~l~v~~~~~~~Yl~~F~Wd~aKyp~~~~l~elv~~i~~~v~~id~dlk~k~~~Yn~~K~~l~~~~RK~~Gn 160 (257)
+.........+-++..+.++|+..|+||..+|..+++|++++.+|..|..+|++|+|+++++|+.||.+++++|||++||
T Consensus 80 ~~ss~gd~~~~~iv~~~~pEy~~~f~W~~~~F~~nKsI~~~i~li~~E~~~~~~d~r~~~~~f~~Ak~~~~~~qrk~~G~ 159 (383)
T COG5127 80 CRSSNGDRVGKGIVYGSTPEYGDFFEWDRQSFVTNKSIEKAILLIDGEYRRISKDYREKAEEFDGAKRECEKLQRKTRGS 159 (383)
T ss_pred hccccccccccccccCCchhhhhhhhcchhheeccccHHHHHHHhhhHHHHHHHHHHHHHHHhhHHHHHHHHHHhhccCC
Confidence 97543334444455555669999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccccCCCCCCCCCcc-cCCcceEEEEEecCCChHHHHHHhccccCccccCCcccccccCCeeEEEEEEecccHHHHHHH
Q 025125 161 LAVRDLSNLVKPEDII-TSEHLVTLLAVVPKYSQKDWLASYETLTSYVVPRSSKLLYEDNEYALYTVTLFGRVADNFRIA 239 (257)
Q Consensus 161 L~~rsL~diV~~edfv-dSEyLtTllVvVPk~~~~ewl~~YEtLs~~VVPrSs~~i~eD~e~~L~~VtlFKk~~~eF~~~ 239 (257)
|+.|||++||++|||| +|||||+++|||||+..++|+++||||++.|+|+||++|++|+||+||+|++|||-+++|.++
T Consensus 160 Ls~~sL~~IV~~eDvv~gse~Lt~v~vaVpk~l~~~F~~syeTls~~V~p~sa~kv~~D~EyvLf~V~vfkk~~~~f~t~ 239 (383)
T COG5127 160 LSDISLGIIVEREDVVEGSEFLTVVYVAVPKALVPEFNRSYETLSPHVSPDSAEKVNSDEEYVLFKVYVFKKGEEDFRTM 239 (383)
T ss_pred hhhhhHhhhcCchhhccchhhheeeEEEehhhhhHHHHhhhhhcCcccChhHHhhhcCccceEEEEEEEEecChHHHHHH
Confidence 9999999999999999 899999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHcCCeeCcceecc
Q 025125 240 AREKGFQVGEKFVMQ 254 (257)
Q Consensus 240 aRe~kf~vRdff~~~ 254 (257)
|||.||+||||-..+
T Consensus 240 are~kf~vref~~~~ 254 (383)
T COG5127 240 AREEKFMVREFDKNM 254 (383)
T ss_pred HHhcCcchhhcchhh
Confidence 999999999975444
No 4
>PRK05771 V-type ATP synthase subunit I; Validated
Probab=85.59 E-value=9.1 Score=39.23 Aligned_cols=122 Identities=15% Similarity=0.295 Sum_probs=73.8
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhCCCCcccccCCCC-CCCCCcccCCcceEEEEEecCCChHH
Q 025125 117 PLREIVDGIHTLVAKIEDDLKVRVAEYNNVRSQLNAINRKQSGSLAVRDLSNL-VKPEDIITSEHLVTLLAVVPKYSQKD 195 (257)
Q Consensus 117 ~l~elv~~i~~~v~~id~dlk~k~~~Yn~~K~~l~~~~RK~~GnL~~rsL~di-V~~edfvdSEyLtTllVvVPk~~~~e 195 (257)
+..|+.+....+..+++++++...+..++++++++.++.... ..+.+.++ +..+++-+++|+...+-.||+...+.
T Consensus 83 ~~~e~~~~~~~~~~~~~~~i~~l~~~~~~L~~~~~~l~~~~~---~l~~~~~ld~~l~~~~~~~~~~~~~G~i~~~~~~~ 159 (646)
T PRK05771 83 SLEELIKDVEEELEKIEKEIKELEEEISELENEIKELEQEIE---RLEPWGNFDLDLSLLLGFKYVSVFVGTVPEDKLEE 159 (646)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HhhhhhcCCCCHHHhCCCCcEEEEEEEecchhhhh
Confidence 455555556666666666666666666666666666654321 11122222 11122336789999999999877665
Q ss_pred HHHHhccccCccccCCcccccccCCeeEEEEEEecccHHHHHHHHHHcCCeeC
Q 025125 196 WLASYETLTSYVVPRSSKLLYEDNEYALYTVTLFGRVADNFRIAAREKGFQVG 248 (257)
Q Consensus 196 wl~~YEtLs~~VVPrSs~~i~eD~e~~L~~VtlFKk~~~eF~~~aRe~kf~vR 248 (257)
..++....++ ..+.++.++.-+-|..-+...++....|++.+|..-
T Consensus 160 --~~~~~~~~~~-----~~~~~~~~~~~~vvv~~~~~~~~~~~~l~~~~f~~~ 205 (646)
T PRK05771 160 --LKLESDVENV-----EYISTDKGYVYVVVVVLKELSDEVEEELKKLGFERL 205 (646)
T ss_pred --HHhhccCceE-----EEEEecCCcEEEEEEEEhhhHHHHHHHHHHCCCEEe
Confidence 1222211122 345677777766666677888999999999887643
No 5
>PF01920 Prefoldin_2: Prefoldin subunit; InterPro: IPR002777 Prefoldin (PFD) is a chaperone that interacts exclusively with type II chaperonins, hetero-oligomers lacking an obligate co-chaperonin that are found only in eukaryotes (chaperonin-containing T-complex polypeptide-1 (CCT)) and archaea. Eukaryotic PFD is a multi-subunit complex containing six polypeptides in the molecular mass range of 14-23 kDa. In archaea, on the other hand, PFD is composed of two types of subunits, two alpha and four beta. The six subunits associate to form two back-to-back up-and-down eight-stranded barrels, from which hang six coiled coils. Each subunit contributes one (beta subunits) or two (alpha subunits) beta hairpin turns to the barrels. The coiled coils are formed by the N and C termini of an individual subunit. Overall, this unique arrangement resembles a jellyfish. The eukaryotic PFD hexamer is composed of six different subunits; however, these can be grouped into two alpha-like (PFD3 and -5) and four beta-like (PFD1, -2, -4, and -6) subunits based on amino acid sequence similarity with their archaeal counterparts. Eukaryotic PFD has a six-legged structure similar to that seen in the archaeal homologue [, ]. This family contains the archaeal beta subunit, eukaryotic prefoldin subunits 1, 2, 4 and 6. Eukaryotic PFD has been shown to bind both actin and tubulin co-translationally. The chaperone then delivers the target protein to CCT, interacting with the chaperonin through the tips of the coiled coils. No authentic target proteins of any archaeal PFD have been identified, to date.; GO: 0051082 unfolded protein binding, 0006457 protein folding, 0016272 prefoldin complex; PDB: 2ZDI_B 3AEI_B 2ZQM_A 1FXK_A.
Probab=47.68 E-value=1.2e+02 Score=22.88 Aligned_cols=85 Identities=15% Similarity=0.300 Sum_probs=46.1
Q ss_pred hhhhhhHhhhhhHHHH---HHHHHHHHHHhhccccccccceeECCcChhhhhcccccccccCCCCCCHHHHHHHHHHHHH
Q 025125 54 ALSDDLVKSNSFVESV---SHKIRRQIEELERVSGIESSSLSVDGVPVDTYLTRFVWDEAKYPTMSPLREIVDGIHTLVA 130 (257)
Q Consensus 54 ~lsDeL~K~D~~~e~~---v~Ki~~~~~~l~~~~~~~~~~l~v~~~~~~~Yl~~F~Wd~aKyp~~~~l~elv~~i~~~v~ 130 (257)
.+..+|..+.+.+..+ ++.+...+.++..-++...-...|++. |+ ..+..++.+.|.+...
T Consensus 9 ~l~~~l~~~~~q~~~l~~~~~~~~~~~~eL~~l~~~~~~y~~vG~~----fv------------~~~~~~~~~~L~~~~~ 72 (106)
T PF01920_consen 9 ELNQQLQQLEQQIQQLERQLRELELTLEELEKLDDDRKVYKSVGKM----FV------------KQDKEEAIEELEERIE 72 (106)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTSSTT-EEEEEETTE----EE------------EEEHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHHHhHH----HH------------HhhHHHHHHHHHHHHH
Confidence 3445556665555554 445555556655433322334446664 22 3366666666666666
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhh
Q 025125 131 KIEDDLKVRVAEYNNVRSQLNAIN 154 (257)
Q Consensus 131 ~id~dlk~k~~~Yn~~K~~l~~~~ 154 (257)
.++.+++........+..++..++
T Consensus 73 ~~~~~i~~l~~~~~~l~~~l~~~~ 96 (106)
T PF01920_consen 73 KLEKEIKKLEKQLKYLEKKLKELK 96 (106)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 666666666655555555555544
No 6
>cd07646 I-BAR_IMD_IRSp53 Inverse (I)-BAR, also known as the IRSp53/MIM homology Domain (IMD), of Insulin Receptor tyrosine kinase Substrate p53. The IMD domain, also called Inverse-Bin/Amphiphysin/Rvs (I-BAR) domain, is a dimerization and lipid-binding module that bends membranes and induces membrane protrusions. IRSp53 (Insulin Receptor tyrosine kinase Substrate p53) is also known as BAIAP2 (Brain-specific Angiogenesis Inhibitor 1-Associated Protein 2). It is a scaffolding protein that takes part in many signaling pathways including Cdc42-induced filopodia formation, Rac-mediated lamellipodia extension, and spine morphogenesis. IRSp53 exists as multiple splicing variants that differ mainly at the C-termini. One variant (T-form) is expressed exclusively in human breast cancer cells. The gene encoding IRSp53 is a putative susceptibility gene for Gilles de la Tourette syndrome. IRSp53 contains an N-terminal IMD, a CRIB (Cdc42 and Rac interactive binding motif), an SH3 domain, and a WASP
Probab=43.55 E-value=2.6e+02 Score=25.62 Aligned_cols=37 Identities=14% Similarity=0.310 Sum_probs=32.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhCCCC
Q 025125 124 GIHTLVAKIEDDLKVRVAEYNNVRSQLNAINRKQSGS 160 (257)
Q Consensus 124 ~i~~~v~~id~dlk~k~~~Yn~~K~~l~~~~RK~~Gn 160 (257)
-|.....+-..+.|.|..+|....+.|-.+.||..|.
T Consensus 111 ~i~a~~Kky~~e~k~k~~sleK~qseLKKlRrKsqg~ 147 (232)
T cd07646 111 YLTAALKKYQTEHRSKGESLEKCQAELKKLRKKSQGS 147 (232)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccC
Confidence 4455777888999999999999999999999997774
No 7
>PRK15364 pathogenicity island 2 effector protein SseB; Provisional
Probab=41.26 E-value=2.6e+02 Score=24.90 Aligned_cols=61 Identities=26% Similarity=0.434 Sum_probs=38.8
Q ss_pred cceeECCcChhhhhcccccccccCCCCC-----CHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 025125 89 SSLSVDGVPVDTYLTRFVWDEAKYPTMS-----PLREIVDGIHT-------LVAKIEDDLKVRVAEYNNVRSQLNAINRK 156 (257)
Q Consensus 89 ~~l~v~~~~~~~Yl~~F~Wd~aKyp~~~-----~l~elv~~i~~-------~v~~id~dlk~k~~~Yn~~K~~l~~~~RK 156 (257)
-.++|+|+++++|| +|||... .|.-+-..|.. -+++=-=.+-...+.||.+-+.+..++-+
T Consensus 110 NgI~VdG~sid~Yl-------~k~~~~~~LdkG~LqAVKAALd~~snr~TD~vsQsQLqiQk~~QtyN~~vs~~nslqs~ 182 (196)
T PRK15364 110 NGILIDGMTIDDYM-------AKYGDHGKLDKGGLQAIKAALDNDANRNTDLMSQGQITIQKMSQELNAVLTQLTGLISK 182 (196)
T ss_pred cCceecccchHHHH-------hccCCccCCChhhHHHHHHHHHhhccccchhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34678999999999 5577433 23333233322 23333334577889999998888888754
No 8
>PRK03947 prefoldin subunit alpha; Reviewed
Probab=38.90 E-value=1.1e+02 Score=24.83 Aligned_cols=49 Identities=16% Similarity=0.195 Sum_probs=29.0
Q ss_pred ccccccCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 025125 106 VWDEAKYPTMSPLREIVDGIHTLVAKIEDDLKVRVAEYNNVRSQLNAIN 154 (257)
Q Consensus 106 ~Wd~aKyp~~~~l~elv~~i~~~v~~id~dlk~k~~~Yn~~K~~l~~~~ 154 (257)
-|=.+-|-...++.|-++.|.+.+..++..++.-......++.+++.++
T Consensus 80 v~lG~g~~vE~~~~eA~~~l~~~~~~l~~~~~~l~~~l~~~~~~~~~~~ 128 (140)
T PRK03947 80 VSLGAGYSAEKDLDEAIEILDKRKEELEKALEKLEEALQKLASRIAQLA 128 (140)
T ss_pred EEcCCCEEEEecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4555556666677777777776666665555555555555555444443
No 9
>TIGR03422 mito_frataxin frataxin. Frataxin is a mitochondrial protein, mutation of which leads to the disease Friedreich's ataxia. Its orthologs are widely distributed in the bacteria, associated with the ISC system for iron-sulfur cluster assembly, and designated CyaY. This exception-type model allows those examples of frataxin per se that score above the trusted cutoff to the CyaY equivalog-type model (TIGR03421) to be named appropriately.
Probab=38.85 E-value=82 Score=24.79 Aligned_cols=68 Identities=7% Similarity=0.161 Sum_probs=43.0
Q ss_pred hhhHHHHHHHHHHHHHHhhcccc----------cc-------ccceeECCcChhhhh---------cccccccccCCCCC
Q 025125 63 NSFVESVSHKIRRQIEELERVSG----------IE-------SSSLSVDGVPVDTYL---------TRFVWDEAKYPTMS 116 (257)
Q Consensus 63 D~~~e~~v~Ki~~~~~~l~~~~~----------~~-------~~~l~v~~~~~~~Yl---------~~F~Wd~aKyp~~~ 116 (257)
...++.++..|++.+.++.++.. .+ .....||-+++-.=| .+|.|+..++-..|
T Consensus 3 ~~~ad~~L~~ie~~le~~~d~~~d~~~D~e~~~gVLti~~~~~~~~VINkQ~p~~QIWlsSp~sGp~hfd~~~~~Wi~~r 82 (97)
T TIGR03422 3 HKVADEYLDHLLDKLEELGESRPDLDFDVEYSSGVLTLELPSVGTYVINKQPPNKQIWLSSPVSGPKRYDYVNGEWIYLR 82 (97)
T ss_pred HHHHHHHHHHHHHHHHhhcccccccccccccCCCEEEEEECCCCEEEEeCCChhhHHheecCCCCCcceeecCCEEEECC
Confidence 34566666677777665432110 00 123445655554444 48999999999888
Q ss_pred CHHHHHHHHHHHHH
Q 025125 117 PLREIVDGIHTLVA 130 (257)
Q Consensus 117 ~l~elv~~i~~~v~ 130 (257)
+=.+|.+.|+++++
T Consensus 83 ~g~~L~~~L~~e~~ 96 (97)
T TIGR03422 83 DGSSLTELLEEELS 96 (97)
T ss_pred CCChHHHHHHHHHc
Confidence 88888888888875
No 10
>cd00890 Prefoldin Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The complex contains two alpha and four beta subunits, the two subunits being evolutionarily related. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the structure of the hexamer. The structure of the complex consists of a double beta barrel assembly with six protruding coiled-coils.
Probab=36.58 E-value=1.1e+02 Score=23.93 Aligned_cols=36 Identities=14% Similarity=0.363 Sum_probs=21.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 025125 118 LREIVDGIHTLVAKIEDDLKVRVAEYNNVRSQLNAI 153 (257)
Q Consensus 118 l~elv~~i~~~v~~id~dlk~k~~~Yn~~K~~l~~~ 153 (257)
+.+=++.|.+.+.++++.++.+...++.++.+++.+
T Consensus 92 l~~r~~~l~~~~~~l~~~~~~~~~~~~~l~~~l~~~ 127 (129)
T cd00890 92 LKKRLETLEKQIEKLEKQLEKLQDQITELQEELQQL 127 (129)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 344445555566666666666777777776666554
No 11
>KOG3973 consensus Uncharacterized conserved glycine-rich protein [Function unknown]
Probab=36.36 E-value=1.1e+02 Score=30.07 Aligned_cols=128 Identities=18% Similarity=0.179 Sum_probs=71.8
Q ss_pred HHHHHHHHHHhccCCCCCCc--eeecCCCCCCcChhhhHhhhhhhHhhhhhHHHHHHHHHHHHHHhhccccccccceeEC
Q 025125 17 ASVWNRLQEQISKHSFDTPL--YRFNIPNLRVGTLDSLLALSDDLVKSNSFVESVSHKIRRQIEELERVSGIESSSLSVD 94 (257)
Q Consensus 17 ~~~~~~L~~~~~~~~~~~~~--~~f~iP~fKvGTLDsLv~lsDeL~K~D~~~e~~v~Ki~~~~~~l~~~~~~~~~~l~v~ 94 (257)
-..|+.|++.+-.. +..+ ....-|=|| .+||. -.+.+++++|++.-+...--..=+.
T Consensus 164 ~~lfe~i~~kl~~a--i~kv~p~~~~~PLlK-kpl~~-----a~w~~iE~~~~~~~~ey~~Rr~ll~------------- 222 (465)
T KOG3973|consen 164 WKLFETIRQKLDGA--IKKVSPSQRSHPLLK-KPLDE-----ATWPEIEKQCESFSREYYNRRLLLN------------- 222 (465)
T ss_pred HHHHHHHHHHHHhH--HhcCCHhhcCCchhc-CcCCh-----hhHHHHHHHHHHHHHHHHHHHHHHH-------------
Confidence 45556666554211 1112 234456677 67764 3577888888887776543322221
Q ss_pred CcChhhhhcccccccccCCCCCCHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHhhhhCCCCcccccCCCC
Q 025125 95 GVPVDTYLTRFVWDEAKYPTMSPLREIVDGIHTLVAKIEDD-LKVRVAEYNNVRSQLNAINRKQSGSLAVRDLSNL 169 (257)
Q Consensus 95 ~~~~~~Yl~~F~Wd~aKyp~~~~l~elv~~i~~~v~~id~d-lk~k~~~Yn~~K~~l~~~~RK~~GnL~~rsL~di 169 (257)
..++--+++|.|++.-= .--.|+.++++..+..|+.- ...-.+..=.|++.|..++|..++|.--|.-+-|
T Consensus 223 -sRL~vTVqSF~Wsdr~k---~~~~ei~~~~~~~~rei~~~K~~~dvahLLaArsdL~~I~ktSS~~~Re~Taski 294 (465)
T KOG3973|consen 223 -SRLKVTVQSFLWSDRLK---MHREEIQSILSARVREIGRVKANSDVAHLLAARSDLLYIQKTSSMDRRERTASKI 294 (465)
T ss_pred -HHHHHHHHhhcccHHHH---HHHHHHHHHHHHHHHHhccccchhHHHHHHHhhhhHHHHHhhcccchhhhhhhhh
Confidence 22344468899987522 12236666676666655421 1122344556788888888888877655544433
No 12
>PF12826 HHH_2: Helix-hairpin-helix motif; PDB: 1X2I_B 1DGS_A 1V9P_B.
Probab=35.32 E-value=33 Score=24.54 Aligned_cols=36 Identities=17% Similarity=0.332 Sum_probs=23.8
Q ss_pred CCcChhhhHhhh-hhhHhhhhhHHHHHHHHHHHHHHh
Q 025125 45 RVGTLDSLLALS-DDLVKSNSFVESVSHKIRRQIEEL 80 (257)
Q Consensus 45 KvGTLDsLv~ls-DeL~K~D~~~e~~v~Ki~~~~~~l 80 (257)
++||+|.|+..+ |||.+++..=+.+.+.|.+.+.+-
T Consensus 22 ~f~sl~~l~~a~~e~L~~i~gIG~~~A~si~~ff~~~ 58 (64)
T PF12826_consen 22 HFGSLEALMNASVEELSAIPGIGPKIAQSIYEFFQDP 58 (64)
T ss_dssp CCSCHHHHCC--HHHHCTSTT--HHHHHHHHHHHH-H
T ss_pred HcCCHHHHHHcCHHHHhccCCcCHHHHHHHHHHHCCH
Confidence 467888888765 678888888777777777777653
No 13
>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].
Probab=34.64 E-value=1.9e+02 Score=21.69 Aligned_cols=77 Identities=16% Similarity=0.144 Sum_probs=49.3
Q ss_pred CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhCCCCcccccCCCCCCCCCc--c-cCCcceEEEEEe
Q 025125 112 YPTMSPLREIVDGIHTLVAKIEDDLKVRVAEYNNVRSQLNAINRKQSGSLAVRDLSNLVKPEDI--I-TSEHLVTLLAVV 188 (257)
Q Consensus 112 yp~~~~l~elv~~i~~~v~~id~dlk~k~~~Yn~~K~~l~~~~RK~~GnL~~rsL~diV~~edf--v-dSEyLtTllVvV 188 (257)
.|.+-||.++.+-|.+.+....+..+...-..+-++....+++++-. ..++-.-+|+++.. | .-......|++-
T Consensus 20 LP~~~~l~~l~~fl~~~l~~~~~~~~~~~i~~~l~~~~~~~~~~~l~---~~~~~~v~i~~~~~C~vC~k~l~~~~f~~~ 96 (109)
T PF10367_consen 20 LPDDWPLSDLSDFLCKSLRKYSNRKRESQIEKNLLKSENLQLKYELV---KLRSRSVVITESTKCSVCGKPLGNSVFVVF 96 (109)
T ss_pred CcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHH---hhcCceEEECCCCCccCcCCcCCCceEEEe
Confidence 48888999999999999999988888777777777766666554422 11222223444321 2 333444567777
Q ss_pred cCC
Q 025125 189 PKY 191 (257)
Q Consensus 189 Pk~ 191 (257)
|.+
T Consensus 97 p~~ 99 (109)
T PF10367_consen 97 PCG 99 (109)
T ss_pred CCC
Confidence 765
No 14
>PF05278 PEARLI-4: Arabidopsis phospholipase-like protein (PEARLI 4); InterPro: IPR007942 This family contains several phospholipase-like proteins from Arabidopsis thaliana and other members of the Streptophyta which are homologous to PEARLI 4.
Probab=33.89 E-value=59 Score=30.38 Aligned_cols=129 Identities=14% Similarity=0.193 Sum_probs=83.4
Q ss_pred HHHHHHHHhccCCCCCCceeecCCCCCCcChhhhHhhhhhhHh--hhhhHHHHHHHHHHHHHHhhccccccccceeEC--
Q 025125 19 VWNRLQEQISKHSFDTPLYRFNIPNLRVGTLDSLLALSDDLVK--SNSFVESVSHKIRRQIEELERVSGIESSSLSVD-- 94 (257)
Q Consensus 19 ~~~~L~~~~~~~~~~~~~~~f~iP~fKvGTLDsLv~lsDeL~K--~D~~~e~~v~Ki~~~~~~l~~~~~~~~~~l~v~-- 94 (257)
.-.-|++-+.+.+..+.++.+.=|.||--=|+.|..+..+|.+ +-..-+.-++++...+.|+... .+.|+
T Consensus 98 ~~silq~If~KHGDIAsNc~lkS~~~RS~yLe~Lc~IIqeLq~t~~~~LS~~dl~e~~~~l~DLesa------~vkV~WL 171 (269)
T PF05278_consen 98 QVSILQKIFEKHGDIASNCKLKSQQFRSYYLECLCDIIQELQSTPLKELSESDLKEMIATLKDLESA------KVKVDWL 171 (269)
T ss_pred HHHHHHHHHHhCccHhhccccCcHHHHHHHHHHHHHHHHHHhcCcHhhhhHHHHHHHHHHHHHHHHc------CcchHHH
Confidence 3445555566677677788888899999999999999999987 4678888899999999998632 12221
Q ss_pred CcChhh---hhcccc-cccccCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 025125 95 GVPVDT---YLTRFV-WDEAKYPTMSPLREIVDGIHTLVAKIEDDLKVRVAEYNNVRSQLNAIN 154 (257)
Q Consensus 95 ~~~~~~---Yl~~F~-Wd~aKyp~~~~l~elv~~i~~~v~~id~dlk~k~~~Yn~~K~~l~~~~ 154 (257)
...+.+ +...+. |.++.=-. .-..-.+.....++....++++.+-..+.+++.++..+.
T Consensus 172 R~~L~Ei~Ea~e~~~~~~~~e~ek-e~~~r~l~~~~~ELe~~~EeL~~~Eke~~e~~~~i~e~~ 234 (269)
T PF05278_consen 172 RSKLEEILEAKEIYDQHETREEEK-EEKDRKLELKKEELEELEEELKQKEKEVKEIKERITEMK 234 (269)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 011222 222221 22222111 122223555667777788888888888888877776653
No 15
>cd00632 Prefoldin_beta Prefoldin beta; Prefoldin is a hexameric molecular chaperone complex, composed of two evolutionarily related subunits (alpha and beta), which are found in both eukaryotes and archaea. Prefoldin binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The hexameric structure consists of a double beta barrel assembly with six protruding coiled-coils. The alpha prefoldin subunits have two beta hairpin structures while the beta prefoldin subunits (this CD) have only one hairpin that is most similar to the second hairpin of the alpha subunit. The prefoldin hexamer consists of two alpha and four beta subunits and is assembled from the beta hairpins of all six subunits. The alpha subunits initially dimerize providing a structural nucleus for the assembly of the beta subunits. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the st
Probab=32.27 E-value=1.6e+02 Score=22.92 Aligned_cols=41 Identities=12% Similarity=0.148 Sum_probs=28.7
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 025125 115 MSPLREIVDGIHTLVAKIEDDLKVRVAEYNNVRSQLNAINR 155 (257)
Q Consensus 115 ~~~l~elv~~i~~~v~~id~dlk~k~~~Yn~~K~~l~~~~R 155 (257)
.++..++...|.+.+..|+..++.-...+..+..++..++.
T Consensus 58 ~~~~~ea~~~Le~~~e~le~~i~~l~~~~~~l~~~~~elk~ 98 (105)
T cd00632 58 KQEKEEARTELKERLETIELRIKRLERQEEDLQEKLKELQE 98 (105)
T ss_pred hccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56778888887777777777777666666666666665543
No 16
>cd07645 I-BAR_IMD_BAIAP2L1 Inverse (I)-BAR, also known as the IRSp53/MIM homology Domain (IMD), of Brain-specific Angiogenesis Inhibitor 1-Associated Protein 2-Like 1. The IMD domain, also called Inverse-Bin/Amphiphysin/Rvs (I-BAR) domain, is a dimerization and lipid-binding module that bends membranes and induces membrane protrusions. BAIAP2L1 (Brain-specific Angiogenesis Inhibitor 1-Associated Protein 2-Like 1) is also known as IRTKS (Insulin Receptor Tyrosine Kinase Substrate). It is widely expressed, serves as a substrate for the insulin receptor, and binds the small GTPase Rac. It plays a role in regulating the actin cytoskeleton and colocalizes with F-actin, cortactin, VASP, and vinculin. BAIAP2L1 expression leads to the formation of short actin bundles, distinct from filopodia-like protrusions induced by the expression of the related protein IRSp53. It contains an N-terminal IMD, an SH3 domain, and a WASP homology 2 (WH2) actin-binding motif at the C-terminus. The IMD domain of
Probab=32.17 E-value=4e+02 Score=24.37 Aligned_cols=78 Identities=21% Similarity=0.223 Sum_probs=52.0
Q ss_pred hhhHhhhhhhHhhhhhHHHHHHHHHHHHHHhhccccccccceeECCcChhhhhcccccccccCCCCCCHHHHHHHHHHHH
Q 025125 50 DSLLALSDDLVKSNSFVESVSHKIRRQIEELERVSGIESSSLSVDGVPVDTYLTRFVWDEAKYPTMSPLREIVDGIHTLV 129 (257)
Q Consensus 50 DsLv~lsDeL~K~D~~~e~~v~Ki~~~~~~l~~~~~~~~~~l~v~~~~~~~Yl~~F~Wd~aKyp~~~~l~elv~~i~~~v 129 (257)
|.||+.||---++....|.+++..-.-+..=++ +.+.-=+.-|....
T Consensus 68 ~~L~qi~ev~r~i~~~le~~lK~Fh~Ell~~LE---------------------------------~k~elD~kyi~a~~ 114 (226)
T cd07645 68 HVLMEISDVHKKLNDSLEENFKKFHREIIAELE---------------------------------RKTDLDVKYMTATL 114 (226)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---------------------------------HHHHHHHHHHHHHH
Confidence 567777777777777777776665432222111 11111123344556
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhhCCCC
Q 025125 130 AKIEDDLKVRVAEYNNVRSQLNAINRKQSGS 160 (257)
Q Consensus 130 ~~id~dlk~k~~~Yn~~K~~l~~~~RK~~Gn 160 (257)
..-..+.|.|..++....+.|..+.||..|+
T Consensus 115 Kkyq~E~k~k~dsLeK~~seLKK~RRKsqg~ 145 (226)
T cd07645 115 KRYQTEHKNKLDSLEKSQADLKKIRRKSQGR 145 (226)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcccCC
Confidence 6677889999999999999999999998883
No 17
>PF06657 Cep57_MT_bd: Centrosome microtubule-binding domain of Cep57; InterPro: IPR010597 This entry is thought to represent a centrosomal protein of 57 kDa (Cep57-related protein). It is required for spindle microtubule attachment to both kinetochores and centrosomes and functions to tether minus-ends of spindle microtubules to centrosomes. It may act by forming ring-like structures around microtubules, or by serving as a cross-linker or scaffold at the attachment site [].
Probab=32.14 E-value=48 Score=25.09 Aligned_cols=42 Identities=14% Similarity=0.252 Sum_probs=25.3
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 025125 114 TMSPLREIVDGIHTLVAKIEDDLKVRVAEYNNVRSQLNAINR 155 (257)
Q Consensus 114 ~~~~l~elv~~i~~~v~~id~dlk~k~~~Yn~~K~~l~~~~R 155 (257)
+...|.+++..++.++.++--++......|+........-.|
T Consensus 11 p~~~Ls~vl~~LqDE~~hm~~e~~~L~~~~~~~d~s~~~~~R 52 (79)
T PF06657_consen 11 PGEALSEVLKALQDEFGHMKMEHQELQDEYKQMDPSLGRRKR 52 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccChHHH
Confidence 344566677777777776666666666666665544433333
No 18
>cd00632 Prefoldin_beta Prefoldin beta; Prefoldin is a hexameric molecular chaperone complex, composed of two evolutionarily related subunits (alpha and beta), which are found in both eukaryotes and archaea. Prefoldin binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The hexameric structure consists of a double beta barrel assembly with six protruding coiled-coils. The alpha prefoldin subunits have two beta hairpin structures while the beta prefoldin subunits (this CD) have only one hairpin that is most similar to the second hairpin of the alpha subunit. The prefoldin hexamer consists of two alpha and four beta subunits and is assembled from the beta hairpins of all six subunits. The alpha subunits initially dimerize providing a structural nucleus for the assembly of the beta subunits. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the st
Probab=32.10 E-value=1.8e+02 Score=22.54 Aligned_cols=40 Identities=10% Similarity=0.262 Sum_probs=35.6
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 025125 116 SPLREIVDGIHTLVAKIEDDLKVRVAEYNNVRSQLNAINR 155 (257)
Q Consensus 116 ~~l~elv~~i~~~v~~id~dlk~k~~~Yn~~K~~l~~~~R 155 (257)
..|.+-++.|...+.+++..++......+++|.++..+++
T Consensus 66 ~~Le~~~e~le~~i~~l~~~~~~l~~~~~elk~~l~~~~~ 105 (105)
T cd00632 66 TELKERLETIELRIKRLERQEEDLQEKLKELQEKIQQAQK 105 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 3677788899999999999999999999999999988753
No 19
>PF05529 Bap31: B-cell receptor-associated protein 31-like ; InterPro: IPR008417 Bap31 is a polytopic integral protein of the endoplasmic reticulum membrane and a substrate of caspase-8. Bap31 is cleaved within its cytosolic domain, generating pro-apoptotic p20 Bap31 [].; GO: 0006886 intracellular protein transport, 0005783 endoplasmic reticulum, 0016021 integral to membrane
Probab=30.08 E-value=3.5e+02 Score=23.10 Aligned_cols=38 Identities=16% Similarity=0.337 Sum_probs=33.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 025125 118 LREIVDGIHTLVAKIEDDLKVRVAEYNNVRSQLNAINR 155 (257)
Q Consensus 118 l~elv~~i~~~v~~id~dlk~k~~~Yn~~K~~l~~~~R 155 (257)
..+-.+..++++.++.++++.+-.++..+|.|..++++
T Consensus 152 ~~~~~~~~~~ei~~lk~el~~~~~~~~~LkkQ~~~l~~ 189 (192)
T PF05529_consen 152 LKEENKKLSEEIEKLKKELEKKEKEIEALKKQSEGLQK 189 (192)
T ss_pred hhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 66677788899999999999999999999999888765
No 20
>TIGR02338 gimC_beta prefoldin, beta subunit, archaeal. Chaperonins are cytosolic, ATP-dependent molecular chaperones, with a conserved toroidal architecture, that assist in the folding of nascent and/or denatured polypeptide chains. The group I chaperonin system consists of GroEL and GroES, and is found (usually) in bacteria and organelles of bacterial origin. The group II chaperonin system, called the thermosome in Archaea and TRiC or CCT in the Eukaryota, is structurally similar but only distantly related. Prefoldin, also called GimC, is a complex in Archaea and Eukaryota, that works with group II chaperonins. Members of this protein family are the archaeal clade of the beta class of prefoldin subunit. Closely related, but outside the scope of this family are the eukaryotic beta-class prefoldin subunits, Gim-1,3,4 and 6. The alpha class prefoldin subunits are more distantly related.
Probab=29.14 E-value=2.1e+02 Score=22.48 Aligned_cols=43 Identities=16% Similarity=0.216 Sum_probs=36.9
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 025125 114 TMSPLREIVDGIHTLVAKIEDDLKVRVAEYNNVRSQLNAINRK 156 (257)
Q Consensus 114 ~~~~l~elv~~i~~~v~~id~dlk~k~~~Yn~~K~~l~~~~RK 156 (257)
..++..+++..+.+.+..||..++.-......+..++..+++.
T Consensus 61 v~~~~~e~~~~l~~r~e~ie~~i~~lek~~~~l~~~l~e~q~~ 103 (110)
T TIGR02338 61 VKTDKEEAIQELKEKKETLELRVKTLQRQEERLREQLKELQEK 103 (110)
T ss_pred heecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4678999999999999999999998888888888888887754
No 21
>PF05667 DUF812: Protein of unknown function (DUF812); InterPro: IPR008530 This family consists of several eukaryotic proteins of unknown function.
Probab=28.67 E-value=45 Score=34.42 Aligned_cols=50 Identities=16% Similarity=0.370 Sum_probs=41.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhCCCCcccccCCCCCC
Q 025125 122 VDGIHTLVAKIEDDLKVRVAEYNNVRSQLNAINRKQSGSLAVRDLSNLVK 171 (257)
Q Consensus 122 v~~i~~~v~~id~dlk~k~~~Yn~~K~~l~~~~RK~~GnL~~rsL~diV~ 171 (257)
+..+..++..+..+++.|-..|++++..+..+.+...-+-=|+-+.+||+
T Consensus 449 ik~~r~~~k~~~~e~~~Kee~~~qL~~e~e~~~k~~~Rs~Yt~RIlEIv~ 498 (594)
T PF05667_consen 449 IKELREEIKEIEEEIRQKEELYKQLVKELEKLPKDVNRSAYTRRILEIVK 498 (594)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHH
Confidence 45778889999999999999999999999999877665666666666665
No 22
>COG5625 Predicted transcription regulator containing HTH domain [Transcription]
Probab=28.56 E-value=55 Score=26.51 Aligned_cols=30 Identities=27% Similarity=0.437 Sum_probs=25.4
Q ss_pred CCCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q 025125 112 YPTMSPLREIVDGIHTLVAKIEDDLKVRVA 141 (257)
Q Consensus 112 yp~~~~l~elv~~i~~~v~~id~dlk~k~~ 141 (257)
=|+-++|+|+-+-|.+++..||.++|..++
T Consensus 83 ~~P~k~leei~~~i~keiEelEk~~k~es~ 112 (113)
T COG5625 83 TPPPKPLEEIEEEIMKEIEELEKEFKNESQ 112 (113)
T ss_pred CCCchHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 356678999999999999999999987553
No 23
>cd07605 I-BAR_IMD Inverse (I)-BAR, also known as the IRSp53/MIM homology Domain (IMD), a dimerization module that binds and bends membranes. Inverse (I)-BAR (or IMD) is a member of the Bin/Amphiphysin/Rvs (BAR) domain family. It is a dimerization and lipid-binding module that bends membranes and induces membrane protrusions in the opposite direction compared to classical BAR and F-BAR domains, which produce membrane invaginations. IMD domains are found in Insulin Receptor tyrosine kinase Substrate p53 (IRSp53), Missing in Metastasis (MIM), and Brain-specific Angiogenesis Inhibitor 1-Associated Protein 2-like (BAIAP2L) proteins. These are multi-domain proteins that act as scaffolding proteins and transducers of a variety of signaling pathways that link membrane dynamics and the underlying actin cytoskeleton. Most members contain an N-terminal IMD, an SH3 domain, and a WASP homology 2 (WH2) actin-binding motif at the C-terminus, exccept for MIM which does not carry an SH3 domain. Some me
Probab=27.97 E-value=4.5e+02 Score=23.69 Aligned_cols=44 Identities=23% Similarity=0.428 Sum_probs=30.3
Q ss_pred CHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHhhhhCCCC
Q 025125 117 PLREIVDGIHTLVAKIE----DDLKVRVAEYNNVRSQLNAINRKQSGS 160 (257)
Q Consensus 117 ~l~elv~~i~~~v~~id----~dlk~k~~~Yn~~K~~l~~~~RK~~Gn 160 (257)
||..-++.=.+.+++++ .+.|.+.+++..+.+.+..++||..|.
T Consensus 98 pLe~k~e~d~k~i~~~~K~y~~E~K~~~~~l~K~~sel~Kl~KKs~~~ 145 (223)
T cd07605 98 PLEKKLELDQKVINKFEKDYKKEYKQKREDLDKARSELKKLQKKSQKS 145 (223)
T ss_pred HhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc
Confidence 34444444445555555 456888889999999999999987663
No 24
>PF08727 P3A: Poliovirus 3A protein like; InterPro: IPR014838 The 3A protein is found in positive-strand RNA viruses. It is a critical component of the poliovirus replication complex, and is also an inhibitor of host cell ER to Golgi transport. ; GO: 0003968 RNA-directed RNA polymerase activity, 0004197 cysteine-type endopeptidase activity, 0017111 nucleoside-triphosphatase activity; PDB: 1NG7_A.
Probab=25.77 E-value=39 Score=24.42 Aligned_cols=16 Identities=19% Similarity=0.333 Sum_probs=11.5
Q ss_pred HHHHHHHHHcCCeeCc
Q 025125 234 DNFRIAAREKGFQVGE 249 (257)
Q Consensus 234 ~eF~~~aRe~kf~vRd 249 (257)
++.+.-|+++||++.+
T Consensus 30 ~eV~~YC~~~GWIip~ 45 (57)
T PF08727_consen 30 PEVREYCEEQGWIIPA 45 (57)
T ss_dssp HHHHHHHHHHT--TT-
T ss_pred HHHHHHHHHCCccccC
Confidence 5689999999999875
No 25
>cd06410 PB1_UP2 Uncharacterized protein 2. The PB1 domain is a modular domain mediating specific protein-protein interaction which play a role in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions.
Probab=25.28 E-value=95 Score=24.41 Aligned_cols=47 Identities=23% Similarity=0.415 Sum_probs=28.3
Q ss_pred EEeecCCCChHHHHHHHHHHhccCCCCCCceeecCCCCCCcChhhhHhhhhh
Q 025125 7 VVSLPVQNSAASVWNRLQEQISKHSFDTPLYRFNIPNLRVGTLDSLLALSDD 58 (257)
Q Consensus 7 Lvs~P~~~~~~~~~~~L~~~~~~~~~~~~~~~f~iP~fKvGTLDsLv~lsDe 58 (257)
+|++|.+-+=.+...+|........ ....++.+|. ..||+|+.+++|
T Consensus 26 ~i~V~r~~s~~el~~kl~~~~~~~~--~~~lky~Lp~---edld~Lisv~~D 72 (97)
T cd06410 26 IVSVDRSISFKELVSKLSELFGAGV--VVTLKYQLPD---EDLDALISVSND 72 (97)
T ss_pred EEEEcCCCCHHHHHHHHHHHhCCCC--ceEEEEEcCC---CCcceeEEecCc
Confidence 5667765443444444444433221 1256788886 778899999876
No 26
>PF13949 ALIX_LYPXL_bnd: ALIX V-shaped domain binding to HIV ; PDB: 2XS1_A 2XS8_A 2R03_A 2R02_A 2OEX_B 2OEV_A 2OJQ_A 2R05_A.
Probab=24.90 E-value=5.1e+02 Score=23.25 Aligned_cols=87 Identities=21% Similarity=0.360 Sum_probs=60.0
Q ss_pred cChhhhHhhhhhhHhhhhhHHHHHHHHHHHHHHhhccccccccceeECCcChhhhhccc--ccccccCCCCCCHHHHHHH
Q 025125 47 GTLDSLLALSDDLVKSNSFVESVSHKIRRQIEELERVSGIESSSLSVDGVPVDTYLTRF--VWDEAKYPTMSPLREIVDG 124 (257)
Q Consensus 47 GTLDsLv~lsDeL~K~D~~~e~~v~Ki~~~~~~l~~~~~~~~~~l~v~~~~~~~Yl~~F--~Wd~aKyp~~~~l~elv~~ 124 (257)
|.++.|...-.+|..+-.-+++.+..+.+.+.+-.... ..+-.+| .|... |-.++...
T Consensus 22 ~g~~~l~~~l~~l~~~~~~~~~~L~e~~~~L~~E~~ed--------------~~~r~~~g~~W~r~------~S~~~~~~ 81 (296)
T PF13949_consen 22 GGIEKLEESLQELPELSQEVRSILDEIEEMLDEEERED--------------EQLRAKYGERWTRP------PSSELNAS 81 (296)
T ss_dssp TTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------------HHHHHHSTTTCGSS-------HHHHCHH
T ss_pred CChhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------------HHHHHHhcCCCcCC------CcHhhHHH
Confidence 33889999999999999999999999998887754321 1122222 45433 66666777
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 025125 125 IHTLVAKIEDDLKVRVAEYNNVRSQLNAI 153 (257)
Q Consensus 125 i~~~v~~id~dlk~k~~~Yn~~K~~l~~~ 153 (257)
+.+++.++..-|..-.+.-..++..+...
T Consensus 82 l~~~l~~~~~~L~~A~~sD~~~~~~~~~~ 110 (296)
T PF13949_consen 82 LRKELQKYREYLEQASESDSQLRSKLESI 110 (296)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence 77777777777777666666666666554
No 27
>PLN00064 photosystem II protein Psb27; Provisional
Probab=24.60 E-value=1.3e+02 Score=26.26 Aligned_cols=77 Identities=12% Similarity=0.082 Sum_probs=50.3
Q ss_pred hhHhhhhhHHHHHHHHHHHHHHhhccccccccceeECC----cChhhhhcccccccccCCCCCCHHH-HHHHHHHHHHHH
Q 025125 58 DLVKSNSFVESVSHKIRRQIEELERVSGIESSSLSVDG----VPVDTYLTRFVWDEAKYPTMSPLRE-IVDGIHTLVAKI 132 (257)
Q Consensus 58 eL~K~D~~~e~~v~Ki~~~~~~l~~~~~~~~~~l~v~~----~~~~~Yl~~F~Wd~aKyp~~~~l~e-lv~~i~~~v~~i 132 (257)
+|.|-|.-.+..+....+.+.+....= ...-.++| .++.+-|..-.=.-..|+..+||+| +-+.|.+|+.+.
T Consensus 82 ~L~~ddp~~a~a~aeaR~~iNdyvSrY---Rr~~~v~Gl~SFttMyTALNaLAGHY~SfgpnrPlPeKlK~RL~qE~~~A 158 (166)
T PLN00064 82 NMDKTDPNVADAVAELRETSNSWVAKY---RREKALLGRPSFRDMYSALNAVSGHYISFGPTAPIPAKRKARILEEMDTA 158 (166)
T ss_pred cCCCCCccHHHHHHHHHHHHHHHHHHh---cCCCcccCcccHHHHHHHHHHHHHHhhccCCCCCCcHHHHHHHHHHHHHH
Confidence 455666666677777777777765420 11223555 3566666666666678887888876 667889999988
Q ss_pred HHHHH
Q 025125 133 EDDLK 137 (257)
Q Consensus 133 d~dlk 137 (257)
|.-++
T Consensus 159 Ekal~ 163 (166)
T PLN00064 159 EKALL 163 (166)
T ss_pred HHHHH
Confidence 87664
No 28
>PF01920 Prefoldin_2: Prefoldin subunit; InterPro: IPR002777 Prefoldin (PFD) is a chaperone that interacts exclusively with type II chaperonins, hetero-oligomers lacking an obligate co-chaperonin that are found only in eukaryotes (chaperonin-containing T-complex polypeptide-1 (CCT)) and archaea. Eukaryotic PFD is a multi-subunit complex containing six polypeptides in the molecular mass range of 14-23 kDa. In archaea, on the other hand, PFD is composed of two types of subunits, two alpha and four beta. The six subunits associate to form two back-to-back up-and-down eight-stranded barrels, from which hang six coiled coils. Each subunit contributes one (beta subunits) or two (alpha subunits) beta hairpin turns to the barrels. The coiled coils are formed by the N and C termini of an individual subunit. Overall, this unique arrangement resembles a jellyfish. The eukaryotic PFD hexamer is composed of six different subunits; however, these can be grouped into two alpha-like (PFD3 and -5) and four beta-like (PFD1, -2, -4, and -6) subunits based on amino acid sequence similarity with their archaeal counterparts. Eukaryotic PFD has a six-legged structure similar to that seen in the archaeal homologue [, ]. This family contains the archaeal beta subunit, eukaryotic prefoldin subunits 1, 2, 4 and 6. Eukaryotic PFD has been shown to bind both actin and tubulin co-translationally. The chaperone then delivers the target protein to CCT, interacting with the chaperonin through the tips of the coiled coils. No authentic target proteins of any archaeal PFD have been identified, to date.; GO: 0051082 unfolded protein binding, 0006457 protein folding, 0016272 prefoldin complex; PDB: 2ZDI_B 3AEI_B 2ZQM_A 1FXK_A.
Probab=24.09 E-value=1.9e+02 Score=21.71 Aligned_cols=38 Identities=18% Similarity=0.325 Sum_probs=34.4
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 025125 117 PLREIVDGIHTLVAKIEDDLKVRVAEYNNVRSQLNAIN 154 (257)
Q Consensus 117 ~l~elv~~i~~~v~~id~dlk~k~~~Yn~~K~~l~~~~ 154 (257)
.|.+-.+.+..++.+++..++.....+++++.+|.++-
T Consensus 66 ~L~~~~~~~~~~i~~l~~~~~~l~~~l~~~~~~l~~~~ 103 (106)
T PF01920_consen 66 ELEERIEKLEKEIKKLEKQLKYLEKKLKELKKKLYELF 103 (106)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 57888999999999999999999999999999997654
No 29
>PF02183 HALZ: Homeobox associated leucine zipper; InterPro: IPR003106 This region is a plant specific leucine zipper that is always found associated with a homeobox []. ; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=22.57 E-value=1.4e+02 Score=20.20 Aligned_cols=26 Identities=15% Similarity=0.521 Sum_probs=18.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhh
Q 025125 131 KIEDDLKVRVAEYNNVRSQLNAINRK 156 (257)
Q Consensus 131 ~id~dlk~k~~~Yn~~K~~l~~~~RK 156 (257)
|+|.|....-+.|..+|.+..++.+-
T Consensus 2 QlE~Dy~~LK~~yd~Lk~~~~~L~~E 27 (45)
T PF02183_consen 2 QLERDYDALKASYDSLKAEYDSLKKE 27 (45)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56777777777787777777777653
No 30
>KOG1016 consensus Predicted DNA helicase, DEAD-box superfamily [General function prediction only]
Probab=22.27 E-value=1.5e+02 Score=32.29 Aligned_cols=68 Identities=22% Similarity=0.469 Sum_probs=39.8
Q ss_pred CcccccCCCCCCCCCcccCCcceEEEEEecCCChHHHHHHhccccCccccCCcccccccCC--eeEEEEEEecccHHHHH
Q 025125 160 SLAVRDLSNLVKPEDIITSEHLVTLLAVVPKYSQKDWLASYETLTSYVVPRSSKLLYEDNE--YALYTVTLFGRVADNFR 237 (257)
Q Consensus 160 nL~~rsL~diV~~edfvdSEyLtTllVvVPk~~~~ewl~~YEtLs~~VVPrSs~~i~eD~e--~~L~~VtlFKk~~~eF~ 237 (257)
+|+|.|..||. .-.---.|++|+||-|-...|++.|- |-+|+ ...|+. ---|.|.|+-.-+.-|-
T Consensus 296 TlQVisF~dif-----lRhT~AKtVL~ivPiNTlQNWlsEfn----mWiP~----y~sD~~vrpR~F~vf~LnD~~KT~~ 362 (1387)
T KOG1016|consen 296 TLQVISFSDIF-----LRHTKAKTVLVIVPINTLQNWLSEFN----MWIPK----YFSDTGVRPRSFEVFLLNDGVKTFD 362 (1387)
T ss_pred eeEEeehhHHH-----hhcCccceEEEEEehHHHHHHHHHhh----hhcCC----CcccCCCccceeEEEEecCchhhHH
Confidence 45555555552 11223468999999999999999985 45555 223332 23355555555444444
Q ss_pred HHH
Q 025125 238 IAA 240 (257)
Q Consensus 238 ~~a 240 (257)
+.|
T Consensus 363 ~Ra 365 (1387)
T KOG1016|consen 363 QRA 365 (1387)
T ss_pred HHH
Confidence 444
No 31
>KOG3208 consensus SNARE protein GS28 [Intracellular trafficking, secretion, and vesicular transport]
Probab=21.18 E-value=1.3e+02 Score=27.53 Aligned_cols=27 Identities=11% Similarity=0.422 Sum_probs=24.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025125 123 DGIHTLVAKIEDDLKVRVAEYNNVRSQ 149 (257)
Q Consensus 123 ~~i~~~v~~id~dlk~k~~~Yn~~K~~ 149 (257)
+.|.++..+||+++..|...|+.+++.
T Consensus 8 e~LRkqArslE~~ld~kL~syskl~as 34 (231)
T KOG3208|consen 8 EALRKQARSLENQLDSKLVSYSKLGAS 34 (231)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 678999999999999999999998855
No 32
>PF06721 DUF1204: Protein of unknown function (DUF1204); InterPro: IPR009596 This family represents the C terminus of a number of Arabidopsis thaliana hypothetical proteins of unknown function. Family members contain a conserved DFD motif.
Probab=20.74 E-value=1.9e+02 Score=26.03 Aligned_cols=48 Identities=15% Similarity=0.312 Sum_probs=38.1
Q ss_pred CCCHHHHHHHHHHHHHH----HHHHHHH--HHHHHHHHHHHHHHhhhhCCCCcc
Q 025125 115 MSPLREIVDGIHTLVAK----IEDDLKV--RVAEYNNVRSQLNAINRKQSGSLA 162 (257)
Q Consensus 115 ~~~l~elv~~i~~~v~~----id~dlk~--k~~~Yn~~K~~l~~~~RK~~GnL~ 162 (257)
+..|...+++++..+.. ||+-+.. |...||+++++..-+..+-+|++.
T Consensus 79 rs~L~kv~~l~QARidRvK~HiDdkia~ePkFle~nQV~GniKlLd~lIe~G~~ 132 (228)
T PF06721_consen 79 RSALEKVASLYQARIDRVKAHIDDKIADEPKFLEFNQVKGNIKLLDNLIENGEM 132 (228)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhhhcchHHHHHHHhhchHHHHHHHhhcCce
Confidence 55677888888888765 4666666 888999999999999988777654
No 33
>PF01496 V_ATPase_I: V-type ATPase 116kDa subunit family ; InterPro: IPR002490 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. The V-ATPases (or V1V0-ATPase) and A-ATPases (or A1A0-ATPase) are each composed of two linked complexes: the V1 or A1 complex contains the catalytic core that hydrolyses/synthesizes ATP, and the V0 or A0 complex that forms the membrane-spanning pore. The V- and A-ATPases both contain rotary motors, one that drives proton translocation across the membrane and one that drives ATP synthesis/hydrolysis [, , ]. The V- and A-ATPases more closely resemble one another in subunit structure than they do the F-ATPases, although the function of A-ATPases is closer to that of F-ATPases. This entry represents the 116kDa subunit (or subunit a) and subunit I found in the V0 or A0 complex of V- or A-ATPases, respectively. The 116kDa subunit is a transmembrane glycoprotein required for the assembly and proton transport activity of the ATPase complex. Several isoforms of the 116kDa subunit exist, providing a potential role in the differential targeting and regulation of the V-ATPase for specific organelles []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0015078 hydrogen ion transmembrane transporter activity, 0015991 ATP hydrolysis coupled proton transport, 0033177 proton-transporting two-sector ATPase complex, proton-transporting domain; PDB: 2RPW_X 2NVJ_A 2JTW_A 3RRK_A.
Probab=20.67 E-value=72 Score=33.46 Aligned_cols=72 Identities=18% Similarity=0.186 Sum_probs=33.7
Q ss_pred cCCcceE--EEEEecCCChHHHHHHhccccCc-cccCCc--ccccccCC----eeEEEE-EEecccHHHHHHHHHHcCCe
Q 025125 177 TSEHLVT--LLAVVPKYSQKDWLASYETLTSY-VVPRSS--KLLYEDNE----YALYTV-TLFGRVADNFRIAAREKGFQ 246 (257)
Q Consensus 177 dSEyLtT--llVvVPk~~~~ewl~~YEtLs~~-VVPrSs--~~i~eD~e----~~L~~V-tlFKk~~~eF~~~aRe~kf~ 246 (257)
+++++.. ++=+||+.....|.+..++.+.- +.-+.+ ..+..|.. -..|-| ..=++..++....|+..+|.
T Consensus 137 ~~~~~~~~f~~G~I~~~~~~~f~~~l~r~~~~N~fi~~~~Ie~~~~d~~e~~~k~v~vv~~~~~~~~~kv~~il~~~~f~ 216 (759)
T PF01496_consen 137 SSKFLNLGFIAGVIPREKIESFERILWRATRGNIFIRFSEIEEILEDPKEEVEKEVFVVFFSGKELEEKVKKILRSFGFE 216 (759)
T ss_dssp ---------------HHHHHHHHHHHHHHHTT-----S------EEEE-EE-SSSEEEEEEEEGGGHHHHHHHHHTTT--
T ss_pred cccceeeeEEEEEEehhhHHHHHHHHHHhccCCeEEEEEeeecccccccceeeeeeEEEEEEchhhHHHHHHHhhccCce
Confidence 4555544 67789999999999998886654 111111 22333332 233333 33477889999999999986
Q ss_pred eC
Q 025125 247 VG 248 (257)
Q Consensus 247 vR 248 (257)
.=
T Consensus 217 ~~ 218 (759)
T PF01496_consen 217 RY 218 (759)
T ss_dssp B-
T ss_pred ec
Confidence 54
No 34
>TIGR03044 PS_II_psb27 photosystem II protein Psb27. Members of this family are the Psb27 protein of the cyanobacterial photosynthetic supracomplex, photosystem II. Although most protein components of both cyanobacterial and chloroplast versions of photosystem II are closely related and described together by single model families, this family is strictly bacterial. Some uncharacterized proteins with highly divergent sequences, from Arabidopsis, score between trusted and noise cutoffs for this model but are not at this time assigned as functionally equivalent photosystem II proteins.
Probab=20.64 E-value=2.7e+02 Score=23.45 Aligned_cols=82 Identities=23% Similarity=0.279 Sum_probs=47.5
Q ss_pred ChhhhHhhhhhhHhhhhhHHHHHHHHHHHHHHhhccccccccceeECC----cChhhhhcccccccccCCCCCCHHH-HH
Q 025125 48 TLDSLLALSDDLVKSNSFVESVSHKIRRQIEELERVSGIESSSLSVDG----VPVDTYLTRFVWDEAKYPTMSPLRE-IV 122 (257)
Q Consensus 48 TLDsLv~lsDeL~K~D~~~e~~v~Ki~~~~~~l~~~~~~~~~~l~v~~----~~~~~Yl~~F~Wd~aKyp~~~~l~e-lv 122 (257)
||-.-+.+.+|-..........-..|.+++.-+-.. -.++| .++.+=|..-.=.-..|| ++||+| +-
T Consensus 47 tlr~~i~lpkd~p~~~~a~~~ar~~indyvsrYRr~-------~~v~g~~SFttm~TALNsLAGHY~sy~-~rPlPeklk 118 (135)
T TIGR03044 47 TLREAIDLPDDDPNKSEAQAEARQLINDYISRYRRR-------PRVNGLSSFTTMQTALNSLAGHYKSYA-NRPLPEKLK 118 (135)
T ss_pred HHHHHHcCCCCCccHHHHHHHHHHHHHHHHHHhcCC-------CCcCCcccHHHHHHHHHHHHHHhccCC-CCCCCHHHH
Confidence 444445555555555555555555555555554322 12455 345555555555567787 567764 67
Q ss_pred HHHHHHHHHHHHHHH
Q 025125 123 DGIHTLVAKIEDDLK 137 (257)
Q Consensus 123 ~~i~~~v~~id~dlk 137 (257)
+.|.+|+.+.|..++
T Consensus 119 ~Rl~~El~~AE~al~ 133 (135)
T TIGR03044 119 ERLEKELKKAEKALL 133 (135)
T ss_pred HHHHHHHHHHHHHHh
Confidence 789999988887664
Done!