Query psy17886
Match_columns 198
No_of_seqs 136 out of 1123
Neff 8.7
Searched_HMMs 46136
Date Fri Aug 16 16:39:41 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy17886.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/17886hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0501|consensus 100.0 1.4E-40 3E-45 283.8 16.0 196 2-197 180-375 (971)
2 KOG0498|consensus 100.0 1.8E-32 3.8E-37 244.3 19.2 182 17-198 55-257 (727)
3 PLN03192 Voltage-dependent pot 100.0 5.8E-31 1.3E-35 243.1 19.5 193 4-197 21-224 (823)
4 KOG0500|consensus 99.9 4.8E-22 1E-26 167.9 7.4 143 47-197 4-152 (536)
5 KOG0499|consensus 99.8 2.8E-20 6.1E-25 160.0 14.0 159 31-197 219-385 (815)
6 PF08412 Ion_trans_N: Ion tran 99.0 4.3E-10 9.3E-15 74.0 3.2 63 5-68 13-75 (77)
7 PF00520 Ion_trans: Ion transp 98.5 5.4E-07 1.2E-11 68.8 7.1 110 75-196 1-118 (200)
8 KOG3713|consensus 97.8 0.00086 1.9E-08 58.1 13.6 82 72-166 241-330 (477)
9 KOG1545|consensus 95.9 0.046 1E-06 46.1 8.0 79 72-163 254-343 (507)
10 KOG2302|consensus 95.3 0.049 1.1E-06 51.4 6.4 130 24-166 1099-1242(1956)
11 KOG2301|consensus 88.3 4.1 8.8E-05 41.3 9.8 109 41-166 841-951 (1592)
12 KOG4390|consensus 84.2 0.076 1.7E-06 45.3 -3.6 76 72-161 228-304 (632)
13 PF00520 Ion_trans: Ion transp 74.8 12 0.00027 27.7 6.2 22 72-93 32-53 (200)
14 KOG2301|consensus 68.3 79 0.0017 32.6 11.3 78 73-167 475-554 (1592)
15 KOG1420|consensus 53.4 49 0.0011 30.3 6.4 85 73-179 164-254 (1103)
16 PLN03223 Polycystin cation cha 51.4 2E+02 0.0044 29.4 10.5 57 34-90 1170-1232(1634)
17 KOG1419|consensus 36.0 53 0.0012 29.8 3.9 44 51-94 104-148 (654)
18 PF07725 LRR_3: Leucine Rich R 31.6 26 0.00057 16.7 0.8 14 31-44 5-18 (20)
19 PF08016 PKD_channel: Polycyst 22.8 2.9E+02 0.0063 23.9 6.3 28 146-173 306-333 (425)
20 PF14903 WG_beta_rep: WG conta 21.6 64 0.0014 16.7 1.3 14 95-108 2-15 (35)
21 KOG2302|consensus 20.9 4E+02 0.0087 26.7 6.9 40 56-95 1177-1216(1956)
No 1
>KOG0501|consensus
Probab=100.00 E-value=1.4e-40 Score=283.84 Aligned_cols=196 Identities=84% Similarity=1.448 Sum_probs=188.8
Q ss_pred CccchhhhhcCCCCCcchhhhhCCCCCCeEEecCChHHHHHHHHHHHHHHHHHhhhheeeeeecCCCCchhhHhHHHHHH
Q psy17886 2 SHSHWFQMMSLSADVMPQYRQEAPKTPPHILLHYCAFKAIWDWVILCLTFYTAIMVPYNVAFKNKTSEDVSLLVVDSIVD 81 (198)
Q Consensus 2 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~P~s~~~~~Wd~i~~~~~~~~~~~iP~~~~F~~~~~~~~~~~~~~~i~~ 81 (198)
.||+--++++++++++|||+|+.+|.++++|..++.|+..||.+++++++|.++++||.++|.....+..+|...|-++|
T Consensus 180 khS~la~vm~Lg~DilPQYrQEaPKTpPHIiLHYcaFKt~WDWvIL~LTFYTAimVPyNvaFKnk~~~~vs~lvvDSiVD 259 (971)
T KOG0501|consen 180 KHSNLAEVMQLGSDILPQYRQEAPKTPPHIILHYCAFKTIWDWVILILTFYTAIMVPYNVAFKNKQRNNVSWLVVDSIVD 259 (971)
T ss_pred cchhHHHHHHhccccchhhhhcCCCCCCeEEEeeehhhhHHHHHHHHHHHHHHheeeeeeeecccccCceeEEEecchhh
Confidence 47888899999999999999999999999999999999999999999999999999999999887766678899999999
Q ss_pred HHHHHHHHHhheeEEEcCCcEEEecHHHHHHHHhhhhhhhhhhhhccHHHHhcccCCCcchhhHHHHHHHHHHHHHHHHH
Q psy17886 82 VIFFIDIVLNFHTTFVGPGGEVVSDPKVIRMNYLKSWFVIDLLSCLPYDVFNAFDHDEDGIGSLFSALKVVRLLRLGRVV 161 (198)
Q Consensus 82 ~if~iDi~l~f~t~~~~~~g~~i~~~~~I~~~Ylk~~f~~Dli~~iP~~~~~~~~~~~~~~~~~~~ll~l~rl~r~~~l~ 161 (198)
++|++||+++|+|.|..+.|++|.||+.|+.||+|+||++|+++|+|++++..+...+.++++++.-+++.|++|+.|+.
T Consensus 260 VIF~vDIvLNFHTTFVGPgGEVvsdPkvIRmNYlKsWFvIDLLSCLPYDi~naF~~~degI~SLFSaLKVVRLLRLGRVa 339 (971)
T KOG0501|consen 260 VIFFVDIVLNFHTTFVGPGGEVVSDPKVIRMNYLKSWFVIDLLSCLPYDIFNAFERDDEGIGSLFSALKVVRLLRLGRVA 339 (971)
T ss_pred hhhhhhhhhhcceeeecCCCceecChhHHhHHHHHHHHHHHHHhcccHHHHHHhhcccccHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999889999999999999999999999999999999999988888999999999999999999999
Q ss_pred HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q psy17886 162 RKLDRYLEYGAAMLILLLCFYMLVAHWLACIWYSIG 197 (198)
Q Consensus 162 ~~l~~~~~~~~~~l~~ll~~~~l~~H~~aClw~~i~ 197 (198)
++++++++|+...++.+++.+.+++||.||+||.+|
T Consensus 340 RKLD~YlEYGAA~LvLLlC~y~lvAHWlACiWysIG 375 (971)
T KOG0501|consen 340 RKLDHYLEYGAAVLVLLLCVYGLVAHWLACIWYSIG 375 (971)
T ss_pred HHHHHHHHhhHHHHHHHHHHHHHHHHHHHHhheecc
Confidence 999999999999999999999999999999999997
No 2
>KOG0498|consensus
Probab=100.00 E-value=1.8e-32 Score=244.33 Aligned_cols=182 Identities=35% Similarity=0.663 Sum_probs=145.0
Q ss_pred cchhhhhCCCCCCeEEecCChHHHHHHHHHHHHHHHHHhhhheeeeeecCCC--------CchhhHhHHHHHHHHHHHHH
Q psy17886 17 MPQYRQEAPKTPPHILLHYCAFKAIWDWVILCLTFYTAIMVPYNVAFKNKTS--------EDVSLLVVDSIVDVIFFIDI 88 (198)
Q Consensus 17 ~~~~~~~~~~~~~~ii~P~s~~~~~Wd~i~~~~~~~~~~~iP~~~~F~~~~~--------~~~~~~~~~~i~~~if~iDi 88 (198)
.+++..+..+..+++++|+|+++..||.++++.++|++++.|+.++|....+ ....+.+++.++|++|++||
T Consensus 55 ~~~~~~~~~~~~~~Ii~P~s~~~~~W~~~~Ll~~iya~~v~P~~f~f~~~~~~~~~~d~~~~~~l~v~d~ivD~fflvdI 134 (727)
T KOG0498|consen 55 VPEYKERVDKSRKWILDPYSPFYRVWNKFFLLLVIYAAFVDPLFFYFLLIDDERKCIDGKLAAPLTVLDTIVDIFFLVDI 134 (727)
T ss_pred cchhhcccccccceeECCCChHHHHHHHHHHHHHHHHHHhccceeeEEecccccccccccccCceeeHHHHHHHHHHHHH
Confidence 3455666677888899999999999999999999999999999999986643 23457889999999999999
Q ss_pred HHhheeEEEcCCcE-EEecHHHHHHHHhhhhhhhhhhhhccHHHHhcccC--------CCcchhhHHHHHHHHHHHHHHH
Q psy17886 89 VLNFHTTFVGPGGE-VVSDPKVIRMNYLKSWFVIDLLSCLPYDVFNAFDH--------DEDGIGSLFSALKVVRLLRLGR 159 (198)
Q Consensus 89 ~l~f~t~~~~~~g~-~i~~~~~I~~~Ylk~~f~~Dli~~iP~~~~~~~~~--------~~~~~~~~~~ll~l~rl~r~~~ 159 (198)
+++|+|+|.++++. +|.||++|++||+|+||++|++|++|++++..+.. +......++...|++|+.|+.+
T Consensus 135 vL~Frtayv~~~s~elV~dpk~IA~rYl~twFiiDlis~lP~~~i~~~~~~~~~~~~~~~~~l~~il~~~rL~Rl~Rv~~ 214 (727)
T KOG0498|consen 135 VLNFRTAYVDPSSYELVDDPKKIAKRYLKTWFLIDLISTLPFDQIVVLVVIGSTSLALESTILVGILLLQRLPRLRRVIP 214 (727)
T ss_pred HHhheEEEECCCCceeeeCHHHHHHHHHhhhHHHHHHHhcChhhheeeeeecccchhhhHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999997775 99999999999999999999999999999987533 1111223344445555555555
Q ss_pred HHHHHHHHHhH----HHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q psy17886 160 VVRKLDRYLEY----GAAMLILLLCFYMLVAHWLACIWYSIGF 198 (198)
Q Consensus 160 l~~~l~~~~~~----~~~~l~~ll~~~~l~~H~~aClw~~i~~ 198 (198)
+++++++.... .|....++++.+++++||.||+||++|.
T Consensus 215 l~~r~~k~~~~v~~~awa~~a~ll~~~~l~sH~~gc~wYlia~ 257 (727)
T KOG0498|consen 215 LFARLEKDTGFVYETAWAGAALLLSVYLLASHWAGCIWYLIAI 257 (727)
T ss_pred HHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 55555554322 2344668999999999999999999984
No 3
>PLN03192 Voltage-dependent potassium channel; Provisional
Probab=99.97 E-value=5.8e-31 Score=243.08 Aligned_cols=193 Identities=26% Similarity=0.484 Sum_probs=157.0
Q ss_pred cchhhhhcCCCCCcchh-----hhhCCCCCCeEEecCChHHHHHHHHHHHHHHHHHhhhheeeeeecCCCCchhhHhHHH
Q psy17886 4 SHWFQMMSLSADVMPQY-----RQEAPKTPPHILLHYCAFKAIWDWVILCLTFYTAIMVPYNVAFKNKTSEDVSLLVVDS 78 (198)
Q Consensus 4 ~~~~~~~~~~~~~~~~~-----~~~~~~~~~~ii~P~s~~~~~Wd~i~~~~~~~~~~~iP~~~~F~~~~~~~~~~~~~~~ 78 (198)
|.+++.-+.++++.|+. +++..+.++++|+|++++++.||.+++++.+|+++++|++++|...... ..+.+++.
T Consensus 21 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~P~~~~~~~Wd~~~~~~~~y~~~~~p~~~~F~~~~~~-~~~~~~d~ 99 (823)
T PLN03192 21 SGSLSLRNLSKVILPPLGVPSYNQNHIGSDGWIISPMDSRYRWWETLMVVLVAYSAWVYPFEVAFLNASPK-RGLEIADN 99 (823)
T ss_pred CcceehhhcchhhccccCCCccccCccccCCeEECCCCcHHHHHHHHHHHHHHHHHHHHHHHHHeeCCCCC-CCeeeHHH
Confidence 67888999999999964 4667789999999999999999999999999999999999999654332 24678999
Q ss_pred HHHHHHHHHHHHhheeEEEcC-CcEEEecHHHHHHHHhhhhhhhhhhhhccHHHHhcccCCCcc---hhhHHHHHHHHHH
Q psy17886 79 IVDVIFFIDIVLNFHTTFVGP-GGEVVSDPKVIRMNYLKSWFVIDLLSCLPYDVFNAFDHDEDG---IGSLFSALKVVRL 154 (198)
Q Consensus 79 i~~~if~iDi~l~f~t~~~~~-~g~~i~~~~~I~~~Ylk~~f~~Dli~~iP~~~~~~~~~~~~~---~~~~~~ll~l~rl 154 (198)
++|++|++|++++|+|+|+++ +|.+|+||++|++||+|+||++|+++++|++++.....+... ...+++++|++|+
T Consensus 100 i~~~~F~iDi~l~f~~ay~d~~~~~lV~d~~~I~~~Yl~~~f~~Dlis~lP~~~i~~~~~~~~~~~~~~~~l~llrl~Rl 179 (823)
T PLN03192 100 VVDLFFAVDIVLTFFVAYIDPRTQLLVRDRKKIAVRYLSTWFLMDVASTIPFQALAYLITGTVKLNLSYSLLGLLRFWRL 179 (823)
T ss_pred HHHHHHHHHHHhheeEEEEeCCCcEEEeCHHHHHHHHHHHhHHHHHHHHhHHHHHHHHhcCCccchHHHHHHHHHHHHHH
Confidence 999999999999999999984 358999999999999999999999999999887543322212 2234455566666
Q ss_pred HHHHHHHHHHHHHHh--HHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q psy17886 155 LRLGRVVRKLDRYLE--YGAAMLILLLCFYMLVAHWLACIWYSIG 197 (198)
Q Consensus 155 ~r~~~l~~~l~~~~~--~~~~~l~~ll~~~~l~~H~~aClw~~i~ 197 (198)
.|+.++++.+++..+ +.+++++++++.+++++||+||+||++|
T Consensus 180 ~ri~~~~~~le~~~~~~~~~~~~~kli~~~l~~~H~~aC~~y~i~ 224 (823)
T PLN03192 180 RRVKQLFTRLEKDIRFSYFWIRCARLLSVTLFLVHCAGCLYYLIA 224 (823)
T ss_pred HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 666666666665443 3456788999999999999999999986
No 4
>KOG0500|consensus
Probab=99.86 E-value=4.8e-22 Score=167.88 Aligned_cols=143 Identities=27% Similarity=0.489 Sum_probs=117.0
Q ss_pred HHHHHHHHhhhheeeeeecCCCC-chhhHhHHHHHHHHHHHHHHHhheeEEEcCCcEEEecHHHHHHHHhhhh-hhhhhh
Q psy17886 47 LCLTFYTAIMVPYNVAFKNKTSE-DVSLLVVDSIVDVIFFIDIVLNFHTTFVGPGGEVVSDPKVIRMNYLKSW-FVIDLL 124 (198)
Q Consensus 47 ~~~~~~~~~~iP~~~~F~~~~~~-~~~~~~~~~i~~~if~iDi~l~f~t~~~~~~g~~i~~~~~I~~~Ylk~~-f~~Dli 124 (198)
.+..+|+.+..+.+.+|++-... ...|..+|+..|++|++|++++.+|||.+ +|.+|+|-+|.++||.++. |.+|++
T Consensus 4 s~~vLYN~~~li~r~~F~di~~~y~~~wl~ld~~~D~vyllDi~v~~R~gyle-qGllV~~~~Kl~~hY~~s~~f~lD~l 82 (536)
T KOG0500|consen 4 SLGVLYNMIVLIVRAAFDDIQSSYLENWLPLDYLFDFVYLLDIIVRSRTGYLE-QGLLVKDTSKLRKHYVHSTQFKLDVL 82 (536)
T ss_pred EEehHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHh-cCeeehhhHHHHHHHHHhhhhhhhhh
Confidence 45678999999998999765433 34688999999999999999999999998 9999999999999999985 999999
Q ss_pred hhccHHHHhcccCCCcchhhHHHHHHHHHHHHHHHHHHHHHHH---HhHH-HHHHHHHHHHHHHHHHHHHHHHHHhc
Q psy17886 125 SCLPYDVFNAFDHDEDGIGSLFSALKVVRLLRLGRVVRKLDRY---LEYG-AAMLILLLCFYMLVAHWLACIWYSIG 197 (198)
Q Consensus 125 ~~iP~~~~~~~~~~~~~~~~~~~ll~l~rl~r~~~l~~~l~~~---~~~~-~~~l~~ll~~~~l~~H~~aClw~~i~ 197 (198)
|++|++++..+.+.. . ..|++|+.|+.|+.+.+++. .+++ ..++.+++..++.+.||.||+||+++
T Consensus 83 ~liP~D~l~~~~~~~----~---~~r~nRllk~yRl~~F~~rTetrT~~Pn~fri~~lv~~~~ilfHWNaClYf~iS 152 (536)
T KOG0500|consen 83 SLIPLDLLLFKDGSA----S---LERLNRLLKIYRLFEFFDRTETRTTYPNAFRISKLVHYCLILFHWNACLYFLIS 152 (536)
T ss_pred hhcchhHHhhcCCcc----h---HHHHHHHHHHHHHHHHHHHhccccCCchHHHHHHHHHHHHHHHHHhhHHHHhhh
Confidence 999999998765432 2 33466666666666666654 4444 55688888999999999999999986
No 5
>KOG0499|consensus
Probab=99.84 E-value=2.8e-20 Score=160.01 Aligned_cols=159 Identities=23% Similarity=0.446 Sum_probs=129.5
Q ss_pred EEecCC-hHHHHHHHHHHHHHHHHHhhhheeeeeecCCCC-chhhHhHHHHHHHHHHHHHH-HhheeEEEcCCcEEEecH
Q psy17886 31 ILLHYC-AFKAIWDWVILCLTFYTAIMVPYNVAFKNKTSE-DVSLLVVDSIVDVIFFIDIV-LNFHTTFVGPGGEVVSDP 107 (198)
Q Consensus 31 ii~P~s-~~~~~Wd~i~~~~~~~~~~~iP~~~~F~~~~~~-~~~~~~~~~i~~~if~iDi~-l~f~t~~~~~~g~~i~~~ 107 (198)
.|+|+. +++..|-.++.++..+++|.+|++.+|+.+... ...|.+.|+++|+++++||. ++-+.-|.. .|..|+|.
T Consensus 219 sidp~~~r~Y~~WL~lVtlaf~~N~w~IPlR~sfPyQT~dN~~~Wli~Dy~cDiIYllDmlf~q~Rl~fvr-gG~~ik~k 297 (815)
T KOG0499|consen 219 SIDPYTDRLYLLWLLLVTLAFNWNCWFIPLRLSFPYQTADNIHYWLIADYICDIIYLLDMLFIQPRLQFVR-GGDIIKDK 297 (815)
T ss_pred ccCcccchHHHHHHHHHHHHHhhceeEEeeeccCCccccccchhhhhHHHHhhHHHHHHHhhhhhhheeee-CceEEEec
Confidence 689976 999999999999999999999999999987643 34688999999999999997 477788876 89999999
Q ss_pred HHHHHHHhhhh-hhhhhhhhccHHHHhcccCCCcchhhHHHHHHHHHHHHHHH---HHHHHHHHHhHH-HHHHHHHHHHH
Q psy17886 108 KVIRMNYLKSW-FVIDLLSCLPYDVFNAFDHDEDGIGSLFSALKVVRLLRLGR---VVRKLDRYLEYG-AAMLILLLCFY 182 (198)
Q Consensus 108 ~~I~~~Ylk~~-f~~Dli~~iP~~~~~~~~~~~~~~~~~~~ll~l~rl~r~~~---l~~~l~~~~~~~-~~~l~~ll~~~ 182 (198)
+..++||+++. |-+|++|++|+++.+.+.+.+ . ++|++|.+++.. +.+.+++.++.. ..+.++...++
T Consensus 298 ndtrk~Yl~sr~FklDllsiLPldllY~~~G~~----p---~wR~~R~lK~~sF~e~~~~Le~i~s~~y~~RV~rT~~Ym 370 (815)
T KOG0499|consen 298 NDTRKHYLTSRKFKLDLLSILPLDLLYLFFGFN----P---MWRANRMLKYTSFFEFNHHLESIMSKAYIYRVIRTTGYL 370 (815)
T ss_pred hHHHHHHHHhhhhhhhHHhhhhHHHHHHHhccc----h---hhhhhhHHHHHHHHHHHHHHHHHhcchhhhhhHHHHHHH
Confidence 99999999985 999999999999988754321 2 235555555444 444455555444 45678889999
Q ss_pred HHHHHHHHHHHHHhc
Q psy17886 183 MLVAHWLACIWYSIG 197 (198)
Q Consensus 183 ~l~~H~~aClw~~i~ 197 (198)
++++|+.||+||+.+
T Consensus 371 lyilHinacvYY~~S 385 (815)
T KOG0499|consen 371 LYILHINACVYYWAS 385 (815)
T ss_pred HHHHhhhHHHHHHHH
Confidence 999999999999864
No 6
>PF08412 Ion_trans_N: Ion transport protein N-terminal; InterPro: IPR013621 This domain is found to the N terminus of IPR005821 from INTERPRO in voltage- and cyclic nucleotide-gated K/Na ion channels.
Probab=98.97 E-value=4.3e-10 Score=73.97 Aligned_cols=63 Identities=17% Similarity=0.511 Sum_probs=48.9
Q ss_pred chhhhhcCCCCCcchhhhhCCCCCCeEEecCChHHHHHHHHHHHHHHHHHhhhheeeeeecCCC
Q psy17886 5 HWFQMMSLSADVMPQYRQEAPKTPPHILLHYCAFKAIWDWVILCLTFYTAIMVPYNVAFKNKTS 68 (198)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~~~~~~~~ii~P~s~~~~~Wd~i~~~~~~~~~~~iP~~~~F~~~~~ 68 (198)
.+++.......+..+.++. .+.+.++|+|+|++|.+||++++++.+++++++|+.++|..++.
T Consensus 13 ~sl~~f~S~~ai~~E~~R~-~~~~~~IIHP~S~fR~~WD~~m~~~~~~~~~~iP~~isF~~d~~ 75 (77)
T PF08412_consen 13 FSLRVFGSKKAIEKEKERQ-RSSGPWIIHPFSKFRFYWDLIMLILLLYNLIIIPFRISFFSDEE 75 (77)
T ss_pred HHHHHHccHHHHHHHHHHH-hcCCCeEEcCCccHHHHHHHHHHHHHHHHHHHHhhhheEecCcC
Confidence 3455555555554444444 34566899999999999999999999999999999999987653
No 7
>PF00520 Ion_trans: Ion transport protein calcium channel signature potassium channel signature sodium channel signature; InterPro: IPR005821 This group of proteins is found in sodium, potassium, and calcium ion channels proteins. The proteins have 6 transmembrane helices in which the last two helices flank a loop which determines ion selectivity. In some Na channels proteins the domain is repeated four times, whereas in others (e.g. K channels) the protein forms a tetramer in the membrane. A bacterial structure of the protein is known for the last two helices but is not included in the Pfam family due to it lacking the first four helices. ; GO: 0005216 ion channel activity, 0006811 ion transport, 0055085 transmembrane transport, 0016020 membrane; PDB: 3VMX_B 1QG9_A 1UJL_A 2LE7_A 2LCM_A 3A2A_A 3RW0_A 4EKW_A 3RVY_B 3RVZ_B ....
Probab=98.47 E-value=5.4e-07 Score=68.84 Aligned_cols=110 Identities=32% Similarity=0.532 Sum_probs=73.2
Q ss_pred hHHHHHHHHHHHHHHHhheeEEEcCCcEEEecHHHHHHHHhhhh-hhhhhhhhccHHHHhcccCCCc----chhhHHHHH
Q psy17886 75 VVDSIVDVIFFIDIVLNFHTTFVGPGGEVVSDPKVIRMNYLKSW-FVIDLLSCLPYDVFNAFDHDED----GIGSLFSAL 149 (198)
Q Consensus 75 ~~~~i~~~if~iDi~l~f~t~~~~~~g~~i~~~~~I~~~Ylk~~-f~~Dli~~iP~~~~~~~~~~~~----~~~~~~~ll 149 (198)
++|.+.++++.+|+++++.+.... +++|++++ .++|+++++|............ ...+..+++
T Consensus 1 ~~~~~~~~~f~~e~~l~~~~~~~~------------~~~y~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 68 (200)
T PF00520_consen 1 ILEIIFDVIFILEIVLRFFALGFK------------RRRYFRSWWNWFDFISVIPSIVSVILRSYGSASAQSLLRIFRLL 68 (200)
T ss_dssp HHHHHHHHHHHHHHHHHHHTCCCG-------------GCCCCSHHHHHHHHHHHHHCCHHCCHCSS--HHCHCHHHHHHH
T ss_pred CChHHHHHHHHHHHHHHHHHhccH------------HHHHhcChhhcccccccccccccccccccccccccceEEEEEee
Confidence 368899999999999999964321 67799975 7799999999866554322211 123444555
Q ss_pred HHHHHHHHHHHHHHHHHHH---hHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy17886 150 KVVRLLRLGRVVRKLDRYL---EYGAAMLILLLCFYMLVAHWLACIWYSI 196 (198)
Q Consensus 150 ~l~rl~r~~~l~~~l~~~~---~~~~~~l~~ll~~~~l~~H~~aClw~~i 196 (198)
|+.|++|+.+..+.+.+.. ......+.+.+..+..+.|.+||+++.+
T Consensus 69 ~~~R~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~a~~~~~l 118 (200)
T PF00520_consen 69 RLLRLLRLLRRFRSLRRLLRALIRSFPDLFKFILLLFIVLLFFACIGYQL 118 (200)
T ss_dssp HHHHHHHHHHTTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred ccccccccccccccccccccccccccccccccccccccccccccchhhee
Confidence 5555555555544444432 2334456677788888999999998865
No 8
>KOG3713|consensus
Probab=97.79 E-value=0.00086 Score=58.13 Aligned_cols=82 Identities=26% Similarity=0.427 Sum_probs=57.7
Q ss_pred hhHhHHHHHHHHHHHHHHHhheeEEEcCCcEEEecHHHHHHHHhhhh-hhhhhhhhccHHHHhccc--CC----C-cchh
Q psy17886 72 SLLVVDSIVDVIFFIDIVLNFHTTFVGPGGEVVSDPKVIRMNYLKSW-FVIDLLSCLPYDVFNAFD--HD----E-DGIG 143 (198)
Q Consensus 72 ~~~~~~~i~~~if~iDi~l~f~t~~~~~~g~~i~~~~~I~~~Ylk~~-f~~Dli~~iP~~~~~~~~--~~----~-~~~~ 143 (198)
.+.+++.++.+.|.++.++|+-.+= + ..+++|+- =++|++|++|+++-.... .. + .+.+
T Consensus 241 ~l~~vE~vCi~WFT~E~llR~~~~P-~------------k~~F~k~pLNIIDllAIlPFYielll~~~~~~~~~~l~~~~ 307 (477)
T KOG3713|consen 241 ILTYVETVCIAWFTFEYLLRFLVAP-N------------KLEFFKSPLNIIDLLAILPFYLELLLTLFGGESLKELENAG 307 (477)
T ss_pred chHHHHHHHHHHHHHHHHHHHHcCc-h------------HHHHHhCcchHHHHHHHHHHHHHHHHHHhccchHHHHhhhh
Confidence 4678999999999999999998641 1 25677775 889999999998754321 11 1 1223
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHH
Q psy17886 144 SLFSALKVVRLLRLGRVVRKLDR 166 (198)
Q Consensus 144 ~~~~ll~l~rl~r~~~l~~~l~~ 166 (198)
.+++++|+.|++|+.|+-+....
T Consensus 308 ~vvrvlR~lRI~RI~KLaRhS~G 330 (477)
T KOG3713|consen 308 LVVRVLRVLRILRIFKLARHSTG 330 (477)
T ss_pred hhHHHHHHHHHHHHHHHHhhhHH
Confidence 56677777777777777665543
No 9
>KOG1545|consensus
Probab=95.93 E-value=0.046 Score=46.15 Aligned_cols=79 Identities=14% Similarity=0.388 Sum_probs=50.5
Q ss_pred hhHhHHHHHHHHHHHHHHHhheeEEEcCCcEEEecHHHHHHHHhhh-hhhhhhhhhccHHHHhcc-----c-CC---C-c
Q psy17886 72 SLLVVDSIVDVIFFIDIVLNFHTTFVGPGGEVVSDPKVIRMNYLKS-WFVIDLLSCLPYDVFNAF-----D-HD---E-D 140 (198)
Q Consensus 72 ~~~~~~~i~~~if~iDi~l~f~t~~~~~~g~~i~~~~~I~~~Ylk~-~f~~Dli~~iP~~~~~~~-----~-~~---~-~ 140 (198)
.+.+++..+.+.|.++.++||...=.. ..+.++ .-++|++|++|+.+-... . .+ + .
T Consensus 254 PFFiVEt~CIiWFtfEllvRf~aCPsK-------------~~Ff~nimNiIDiVaI~PyFitlgtela~q~g~g~~gqqa 320 (507)
T KOG1545|consen 254 PFFIVETLCIIWFTFELLVRFFACPSK-------------ATFFRNIMNIIDIVAIIPYFITLGTELAEQQGGGGQGQQA 320 (507)
T ss_pred chHhHHHHHHHHHhHHHHHHHhcCccH-------------HHHHHHHHHHHHHHHHHHHHHHHhHHHHHhhcCCccchhh
Confidence 457889999999999999999864221 123344 358999999998875431 1 11 1 1
Q ss_pred chhhHHHHHHHHHHHHHHHHHHH
Q psy17886 141 GIGSLFSALKVVRLLRLGRVVRK 163 (198)
Q Consensus 141 ~~~~~~~ll~l~rl~r~~~l~~~ 163 (198)
-...++|++|+.|++|+.|+.+.
T Consensus 321 MSlAILRViRLVRVFRIFKLSRH 343 (507)
T KOG1545|consen 321 MSLAILRVIRLVRVFRIFKLSRH 343 (507)
T ss_pred hhHHHHHHHHHHHHhhheeeccc
Confidence 12345566666666666666543
No 10
>KOG2302|consensus
Probab=95.26 E-value=0.049 Score=51.44 Aligned_cols=130 Identities=22% Similarity=0.347 Sum_probs=74.6
Q ss_pred CCCCCCeEEecCChHHH---------HHHHHHHHHHHHHHhhhheeeeeecCCCCchhh-HhHHHHHHHHHHHHHHHhhe
Q psy17886 24 APKTPPHILLHYCAFKA---------IWDWVILCLTFYTAIMVPYNVAFKNKTSEDVSL-LVVDSIVDVIFFIDIVLNFH 93 (198)
Q Consensus 24 ~~~~~~~ii~P~s~~~~---------~Wd~i~~~~~~~~~~~iP~~~~F~~~~~~~~~~-~~~~~i~~~if~iDi~l~f~ 93 (198)
+..|..+++.|+++||. .+|.+++++++.+++.+-.+--=....+....+ ..-++++..+|+.++.++--
T Consensus 1099 r~~Ws~ylF~pQ~rFR~lc~~ii~hk~Fd~vVl~~IfLNcVtialerp~i~~~s~EriFltlsnyIFtaIfV~Em~lKVV 1178 (1956)
T KOG2302|consen 1099 RELWSKYLFSPQNRFRVLCQNIIQHKAFDTVVLFFIFLNCVTIALERPAIVEGSTERIFLTLSNYIFTAIFVVEMTLKVV 1178 (1956)
T ss_pred HHHHHHHhcCcccHHHHHHHHHHHHhhhhheehhhhhhhhHHHHhcccccccCcceEEEEEecchHHHHHHHHHHHHHHH
Confidence 44456678999998864 577778888888888877654222222222222 23348899999999988754
Q ss_pred -eEEEcCCcEEEecHHHHHHHHhhh-hhhhhhhhhcc--HHHHhcccCCCcchhhHHHHHHHHHHHHHHHHHHHHHH
Q psy17886 94 -TTFVGPGGEVVSDPKVIRMNYLKS-WFVIDLLSCLP--YDVFNAFDHDEDGIGSLFSALKVVRLLRLGRVVRKLDR 166 (198)
Q Consensus 94 -t~~~~~~g~~i~~~~~I~~~Ylk~-~f~~Dli~~iP--~~~~~~~~~~~~~~~~~~~ll~l~rl~r~~~l~~~l~~ 166 (198)
.|.+- |+ ..|+++ |-.+|-+-.+- +++.... .+.+-.+++..+|.+|++|-.|-.+.+.+
T Consensus 1179 ALGl~f--ge---------~aYl~ssWN~LDgflv~vsviDilvs~--asa~g~kILgVlrvLRlLRtlRpLRviSr 1242 (1956)
T KOG2302|consen 1179 ALGLYF--GE---------QAYLRSSWNVLDGFLVAVSVIDILVSQ--ASAGGAKILGVLRVLRLLRTLRPLRVISR 1242 (1956)
T ss_pred hhhhcc--ch---------HHHHHHHHHhhhHHHHHHHHHHHHHHH--hhhhhHHHHHHHHHHHHHHHhhHHHHHhh
Confidence 44332 21 568876 66777654332 2222211 12223345555555555555555555544
No 11
>KOG2301|consensus
Probab=88.27 E-value=4.1 Score=41.32 Aligned_cols=109 Identities=18% Similarity=0.297 Sum_probs=63.6
Q ss_pred HHHHHHHHHHHHHHhhhheeeeeecCCC-CchhhHhHHHHHHHHHHHHHHHhheeEEEcCCcEEEecHHHHHHHHhhh-h
Q psy17886 41 IWDWVILCLTFYTAIMVPYNVAFKNKTS-EDVSLLVVDSIVDVIFFIDIVLNFHTTFVGPGGEVVSDPKVIRMNYLKS-W 118 (198)
Q Consensus 41 ~Wd~i~~~~~~~~~~~iP~~~~F~~~~~-~~~~~~~~~~i~~~if~iDi~l~f~t~~~~~~g~~i~~~~~I~~~Ylk~-~ 118 (198)
..+.++..++..+....+.+-....+.. .+......|++...+|.+.++++.-. .|-.. |.++ |
T Consensus 841 ~f~~~I~~~illSs~ala~ed~~~~~~~~~~~~L~y~D~~Ft~iFt~Em~lK~ia-----~Gf~~---------y~rn~w 906 (1592)
T KOG2301|consen 841 WFEAFILTVILISSLALAFEDVRGENRPTINGILEYADYIFTYIFTFEMLLKWIA-----YGFFF---------YFRNAW 906 (1592)
T ss_pred HHHHHHHHHHHHhhhcccccCcchhhchhhhhHHHHHHHHHHHHHHHHHHHHHHH-----hHHHH---------HHhhHH
Confidence 3455555666666665554444433332 23345778999999999999998762 45211 8887 6
Q ss_pred hhhhhhhhccHHHHhcccCCCcchhhHHHHHHHHHHHHHHHHHHHHHH
Q psy17886 119 FVIDLLSCLPYDVFNAFDHDEDGIGSLFSALKVVRLLRLGRVVRKLDR 166 (198)
Q Consensus 119 f~~Dli~~iP~~~~~~~~~~~~~~~~~~~ll~l~rl~r~~~l~~~l~~ 166 (198)
.++|.+...-..+....... .....+.+|.+|.+|..|.++..+.
T Consensus 907 ~~lDf~Vv~vslisl~~~~~---~~~~ik~lr~lRaLRPLR~i~r~~~ 951 (1592)
T KOG2301|consen 907 NWLDFVVVIVSLISLIASLK---ILSLIKSLRILRALRPLRALSRFPG 951 (1592)
T ss_pred hhhhHHHhhhHHHHHHHhhh---hhhHHHHHHHHHHHHHHHHHHHccc
Confidence 88998876654443332222 1234455555555555555555444
No 12
>KOG4390|consensus
Probab=84.21 E-value=0.076 Score=45.28 Aligned_cols=76 Identities=26% Similarity=0.475 Sum_probs=47.8
Q ss_pred hhHhHHHHHHHHHHHHHHHhheeEEEcCCcEEEecHHHHHHHHhhh-hhhhhhhhhccHHHHhcccCCCcchhhHHHHHH
Q psy17886 72 SLLVVDSIVDVIFFIDIVLNFHTTFVGPGGEVVSDPKVIRMNYLKS-WFVIDLLSCLPYDVFNAFDHDEDGIGSLFSALK 150 (198)
Q Consensus 72 ~~~~~~~i~~~if~iDi~l~f~t~~~~~~g~~i~~~~~I~~~Ylk~-~f~~Dli~~iP~~~~~~~~~~~~~~~~~~~ll~ 150 (198)
.+..+|..+-.+|..+.++++..+=. +.+++++ .-++|+++++|+++-.....+++-.+. +--+|
T Consensus 228 aFFclDTACVmIFT~EYlLRL~aAPs-------------R~rF~RSvMSiIDVvAIlPYYigLv~t~N~DVSGa-FVTLR 293 (632)
T KOG4390|consen 228 AFFCLDTACVMIFTGEYLLRLFAAPS-------------RYRFLRSVMSIIDVVAILPYYIGLVMTDNEDVSGA-FVTLR 293 (632)
T ss_pred eeEEecceeEEEeeHHHHHHHHcCch-------------HHHHHHHHHHHHHHhhhhhhheEEEecCCccccce-eEEEE
Confidence 34567777888888888888876521 2567777 588999999998876544444432222 22334
Q ss_pred HHHHHHHHHHH
Q psy17886 151 VVRLLRLGRVV 161 (198)
Q Consensus 151 l~rl~r~~~l~ 161 (198)
++|++|+.|..
T Consensus 294 VFRVFRIFKFS 304 (632)
T KOG4390|consen 294 VFRVFRIFKFS 304 (632)
T ss_pred eeeeeeeeeec
Confidence 44444444443
No 13
>PF00520 Ion_trans: Ion transport protein calcium channel signature potassium channel signature sodium channel signature; InterPro: IPR005821 This group of proteins is found in sodium, potassium, and calcium ion channels proteins. The proteins have 6 transmembrane helices in which the last two helices flank a loop which determines ion selectivity. In some Na channels proteins the domain is repeated four times, whereas in others (e.g. K channels) the protein forms a tetramer in the membrane. A bacterial structure of the protein is known for the last two helices but is not included in the Pfam family due to it lacking the first four helices. ; GO: 0005216 ion channel activity, 0006811 ion transport, 0055085 transmembrane transport, 0016020 membrane; PDB: 3VMX_B 1QG9_A 1UJL_A 2LE7_A 2LCM_A 3A2A_A 3RW0_A 4EKW_A 3RVY_B 3RVZ_B ....
Probab=74.77 E-value=12 Score=27.67 Aligned_cols=22 Identities=14% Similarity=0.007 Sum_probs=15.3
Q ss_pred hhHhHHHHHHHHHHHHHHHhhe
Q psy17886 72 SLLVVDSIVDVIFFIDIVLNFH 93 (198)
Q Consensus 72 ~~~~~~~i~~~if~iDi~l~f~ 93 (198)
.|..+|.+..+...++......
T Consensus 32 ~~~~~d~~~~~~~~~~~~~~~~ 53 (200)
T PF00520_consen 32 WWNWFDFISVIPSIVSVILRSY 53 (200)
T ss_dssp HHHHHHHHHHHHHCCHHCCHCS
T ss_pred hhhccccccccccccccccccc
Confidence 5667887777777777766554
No 14
>KOG2301|consensus
Probab=68.29 E-value=79 Score=32.61 Aligned_cols=78 Identities=17% Similarity=0.361 Sum_probs=48.5
Q ss_pred hHhHHHHHHHHHHHHHHHhhe-eEEEcCCcEEEecHHHHHHHHhhh-hhhhhhhhhccHHHHhcccCCCcchhhHHHHHH
Q psy17886 73 LLVVDSIVDVIFFIDIVLNFH-TTFVGPGGEVVSDPKVIRMNYLKS-WFVIDLLSCLPYDVFNAFDHDEDGIGSLFSALK 150 (198)
Q Consensus 73 ~~~~~~i~~~if~iDi~l~f~-t~~~~~~g~~i~~~~~I~~~Ylk~-~f~~Dli~~iP~~~~~~~~~~~~~~~~~~~ll~ 150 (198)
....+.+.-.+|..++.++.- .+. +.|.++ +-.+|.+-+. +.+.... .....-.++++.+|
T Consensus 475 l~~~~~vF~~lF~~Em~~ki~al~~---------------~~yF~~~~n~fD~~iv~-l~~~~~~-~~~~~g~svLr~fr 537 (1592)
T KOG2301|consen 475 LYLGNVVFTGLFTVEMILKIYALGP---------------RNYFRRGWNIFDLIIVL-LSLLELL-LKNVYGLSVLRSFR 537 (1592)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcCc---------------HHHHhhhcchheEEEEe-hhhHHhc-ccchHHHHHHHHHH
Confidence 455677788888888887654 222 346665 5778887766 5444332 22212245667777
Q ss_pred HHHHHHHHHHHHHHHHH
Q psy17886 151 VVRLLRLGRVVRKLDRY 167 (198)
Q Consensus 151 l~rl~r~~~l~~~l~~~ 167 (198)
++|++|+.|....+++.
T Consensus 538 llRIfkl~k~wp~l~~l 554 (1592)
T KOG2301|consen 538 LLRIFKLIKSWPTLNDL 554 (1592)
T ss_pred HHHHHHHHHhhHHHHHH
Confidence 77777777776666654
No 15
>KOG1420|consensus
Probab=53.41 E-value=49 Score=30.33 Aligned_cols=85 Identities=16% Similarity=0.285 Sum_probs=53.2
Q ss_pred hHhHHHHHHHHHHHHHHHhheeEEEcCCcEEEecHHHHHHHHhhhhhhhh------hhhhccHHHHhcccCCCcchhhHH
Q psy17886 73 LLVVDSIVDVIFFIDIVLNFHTTFVGPGGEVVSDPKVIRMNYLKSWFVID------LLSCLPYDVFNAFDHDEDGIGSLF 146 (198)
Q Consensus 73 ~~~~~~i~~~if~iDi~l~f~t~~~~~~g~~i~~~~~I~~~Ylk~~f~~D------li~~iP~~~~~~~~~~~~~~~~~~ 146 (198)
...+|....++|.+=.++||-.+- | |-||+++ ...+=|-.+..... ..+.=+
T Consensus 164 tqqidlafnifflvyffirfiaas-d-----------------klwf~lemys~vdfftippsfvsiyl~----r~wlgl 221 (1103)
T KOG1420|consen 164 TQQIDLAFNIFFLVYFFIRFIAAS-D-----------------KLWFWLEMYSVVDFFTIPPSFVSIYLN----RSWLGL 221 (1103)
T ss_pred HHHhhhHhhHHHHHHHHHHHhhcc-c-----------------ceeeeeehhhheeeeecCchheEEEec----cchHHH
Confidence 467889999999999999987652 2 1245544 44444433322211 123336
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHH
Q psy17886 147 SALKVVRLLRLGRVVRKLDRYLEYGAAMLILLL 179 (198)
Q Consensus 147 ~ll~l~rl~r~~~l~~~l~~~~~~~~~~l~~ll 179 (198)
|++|-+|+..++.+.++++-....+.+++.+++
T Consensus 222 rflralrlmtvpdilqylnilktsssirl~qlv 254 (1103)
T KOG1420|consen 222 RFLRALRLMTVPDILQYLNILKTSSSIRLVQLV 254 (1103)
T ss_pred HHHHHHHhccHHHHHHHHHHHhccchhhHHHHH
Confidence 788888888888888887766555566665543
No 16
>PLN03223 Polycystin cation channel protein; Provisional
Probab=51.39 E-value=2e+02 Score=29.39 Aligned_cols=57 Identities=7% Similarity=-0.089 Sum_probs=33.4
Q ss_pred cCChHHHHHHHHHHHHHHHHHhhhheeeeeec------CCCCchhhHhHHHHHHHHHHHHHHH
Q psy17886 34 HYCAFKAIWDWVILCLTFYTAIMVPYNVAFKN------KTSEDVSLLVVDSIVDVIFFIDIVL 90 (198)
Q Consensus 34 P~s~~~~~Wd~i~~~~~~~~~~~iP~~~~F~~------~~~~~~~~~~~~~i~~~if~iDi~l 90 (198)
+.+.++..-+++.++.++|+++---.++.=.. -......|.++|++..++.+.-|.+
T Consensus 1170 t~DyfvLacEIIFVLFILYfIyrEIkEI~k~KK~RG~~laYFKSfWNwLEIl~IlLS~AAIvL 1232 (1634)
T PLN03223 1170 YEDWVRFAMEILLAIGAVYSVYEEAMDFGSSKKTRGSYLAYFLSGWNYVDFASIGLHLATIMM 1232 (1634)
T ss_pred cccHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccchhhHhccchHHHHHHHHHHHHHHHHH
Confidence 34568888888888888888877654432110 0001124666776666555555544
No 17
>KOG1419|consensus
Probab=36.04 E-value=53 Score=29.83 Aligned_cols=44 Identities=7% Similarity=0.229 Sum_probs=28.1
Q ss_pred HHHHhhhheeeeeecCCCC-chhhHhHHHHHHHHHHHHHHHhhee
Q psy17886 51 FYTAIMVPYNVAFKNKTSE-DVSLLVVDSIVDVIFFIDIVLNFHT 94 (198)
Q Consensus 51 ~~~~~~iP~~~~F~~~~~~-~~~~~~~~~i~~~if~iDi~l~f~t 94 (198)
++.+.+.....+.++.... ....++++++..++|.++.++|...
T Consensus 104 Vl~CLILsV~STi~e~~~~a~~~L~~LEiv~IV~Fg~EfivRlWS 148 (654)
T KOG1419|consen 104 VLSCLILSVLSTIEEYEKLASGILYILEIVMIVFFGLEFIVRLWS 148 (654)
T ss_pred HHHHHHHHHhcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3333444433444433221 2356889999999999999999764
No 18
>PF07725 LRR_3: Leucine Rich Repeat; InterPro: IPR011713 Leucine-rich repeats (LRR) consist of 2-45 motifs of 20-30 amino acids in length that generally folds into an arc or horseshoe shape []. LRRs occur in proteins ranging from viruses to eukaryotes, and appear to provide a structural framework for the formation of protein-protein interactions [, ].Proteins containing LRRs include tyrosine kinase receptors, cell-adhesion molecules, virulence factors, and extracellular matrix-binding glycoproteins, and are involved in a variety of biological processes, including signal transduction, cell adhesion, DNA repair, recombination, transcription, RNA processing, disease resistance, apoptosis, and the immune response []. Sequence analyses of LRR proteins suggested the existence of several different subfamilies of LRRs. The significance of this classification is that repeats from different subfamilies never occur simultaneously and have most probably evolved independently. It is, however, now clear that all major classes of LRR have curved horseshoe structures with a parallel beta sheet on the concave side and mostly helical elements on the convex side. At least six families of LRR proteins, characterised by different lengths and consensus sequences of the repeats, have been identified. Eleven-residue segments of the LRRs (LxxLxLxxN/CxL), corresponding to the beta-strand and adjacent loop regions, are conserved in LRR proteins, whereas the remaining parts of the repeats (herein termed variable) may be very different. Despite the differences, each of the variable parts contains two half-turns at both ends and a "linear" segment (as the chain follows a linear path overall), usually formed by a helix, in the middle. The concave face and the adjacent loops are the most common protein interaction surfaces on LRR proteins. 3D structure of some LRR proteins-ligand complexes show that the concave surface of LRR domain is ideal for interaction with alpha-helix, thus supporting earlier conclusions that the elongated and curved LRR structure provides an outstanding framework for achieving diverse protein-protein interactions []. Molecular modeling suggests that the conserved pattern LxxLxL, which is shorter than the previously proposed LxxLxLxxN/CxL is sufficient to impart the characteristic horseshoe curvature to proteins with 20- to 30-residue repeats []. This entry includes some LRRs that fail to be detected by the IPR001611 from INTERPRO model.
Probab=31.60 E-value=26 Score=16.71 Aligned_cols=14 Identities=14% Similarity=0.655 Sum_probs=11.6
Q ss_pred EEecCChHHHHHHH
Q psy17886 31 ILLHYCAFKAIWDW 44 (198)
Q Consensus 31 ii~P~s~~~~~Wd~ 44 (198)
+-.|+|+..++|+-
T Consensus 5 L~m~~S~lekLW~G 18 (20)
T PF07725_consen 5 LNMPYSKLEKLWEG 18 (20)
T ss_pred EECCCCChHHhcCc
Confidence 56789999999974
No 19
>PF08016 PKD_channel: Polycystin cation channel; InterPro: IPR013122 Polycystic kidney diseases (PKD) are disorders characterised by large numbers of cysts distributed throughout grossly-enlarged kidneys. Cyst development is associated with impairment of kidney function, and ultimately kidney failure and death []. Most cases of autosomal dominant PKD result from mutations in the PKD1 gene that cause premature protein termination. A second gene for autosomal dominant polycystic kidney disease has been identified by positional cloning []. The predicted 968-amino acid sequence of the PKD2 gene product (polycystin-2) contains 6 transmembrane domains, with intracellular N- and C-termini. Polycystin-2 shares some similarity with the family of voltage-activated calcium (and sodium) channels, and contains a potential calcium-binding domain. Polycystin-2 is strongly expressed in ovary, foetal and adult kidney, testis, and small intestine. Polycystin-1 requires the presence of this protein for stable expression and is believed to interact with it via its C terminus. All mutations between exons 1 and 11 result in a truncated polycystin-2 that lacks a calcium-binding EF-hand domain and the cytoplasmic domains required for the interaction of polycystin-2 with polycystin-1 []. PKD2, although clinically milder than PKD1, has a deleterious impact on life expectancy. This entry contains proteins belonging to the polycystin family including Mucolipin and Polycystin-1 and -2 (PKD1 and PKD2). The domain contains the cation channel region of PKD1 and PKD2 proteins. PKD1 and PKD2 may function through a common signalling pathway that is necessary for normal tubulogenesis. The PKD2 gene product has six transmembrane spans with intracellular amino- and carboxyl-termini []. Mucolipin is a cationic channel which probably plays a role in the endocytic pathway and in the control of membrane trafficking of proteins and lipids. It could play a major role in the calcium ion transport regulating lysosomal exocytosis [, , ].
Probab=22.85 E-value=2.9e+02 Score=23.90 Aligned_cols=28 Identities=32% Similarity=0.465 Sum_probs=18.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhHHHH
Q psy17886 146 FSALKVVRLLRLGRVVRKLDRYLEYGAA 173 (198)
Q Consensus 146 ~~ll~l~rl~r~~~l~~~l~~~~~~~~~ 173 (198)
+..+|++|++|..+-++.+.+.++...-
T Consensus 306 l~~lrll~~l~f~~~~~~~~~tl~~a~~ 333 (425)
T PF08016_consen 306 LLWLRLLKLLRFNRRLSLLSRTLRRAAK 333 (425)
T ss_pred HHHHHHhhheeecchHHHHHHHHHHHHH
Confidence 3456777777777777777776665443
No 20
>PF14903 WG_beta_rep: WG containing repeat
Probab=21.65 E-value=64 Score=16.70 Aligned_cols=14 Identities=29% Similarity=0.705 Sum_probs=9.9
Q ss_pred EEEcCCcEEEecHH
Q psy17886 95 TFVGPGGEVVSDPK 108 (198)
Q Consensus 95 ~~~~~~g~~i~~~~ 108 (198)
|+.|++|+.+.+++
T Consensus 2 G~id~~G~~vi~~~ 15 (35)
T PF14903_consen 2 GYIDKNGKIVIPPK 15 (35)
T ss_pred EEEeCCCCEEEEcc
Confidence 56777787777664
No 21
>KOG2302|consensus
Probab=20.86 E-value=4e+02 Score=26.69 Aligned_cols=40 Identities=20% Similarity=0.279 Sum_probs=29.4
Q ss_pred hhheeeeeecCCCCchhhHhHHHHHHHHHHHHHHHhheeE
Q psy17886 56 MVPYNVAFKNKTSEDVSLLVVDSIVDVIFFIDIVLNFHTT 95 (198)
Q Consensus 56 ~iP~~~~F~~~~~~~~~~~~~~~i~~~if~iDi~l~f~t~ 95 (198)
++.+-+.|+.+.....+|..+|.+.-++-++||++..-.+
T Consensus 1177 VVALGl~fge~aYl~ssWN~LDgflv~vsviDilvs~asa 1216 (1956)
T KOG2302|consen 1177 VVALGLYFGEQAYLRSSWNVLDGFLVAVSVIDILVSQASA 1216 (1956)
T ss_pred HHhhhhccchHHHHHHHHHhhhHHHHHHHHHHHHHHHhhh
Confidence 4455566776554445688899999999999999877643
Done!