Query psy6499
Match_columns 101
No_of_seqs 118 out of 1052
Neff 9.5
Searched_HMMs 46136
Date Fri Aug 16 19:40:15 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy6499.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/6499hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2301|consensus 99.8 5.7E-20 1.2E-24 141.5 10.3 100 1-100 1095-1223(1592)
2 KOG2302|consensus 99.8 1.9E-19 4.1E-24 132.8 1.4 100 1-100 1379-1507(1956)
3 KOG2301|consensus 99.5 3.6E-14 7.8E-19 110.1 5.7 82 19-100 428-509 (1592)
4 KOG2302|consensus 99.4 5.8E-13 1.3E-17 99.3 6.6 82 20-101 607-688 (1956)
5 KOG1419|consensus 97.0 0.014 3.1E-07 42.6 9.3 72 20-91 74-152 (654)
6 PF00520 Ion_trans: Ion transp 96.7 0.0011 2.4E-08 41.1 2.2 32 68-99 1-34 (200)
7 KOG3713|consensus 96.1 0.035 7.6E-07 39.9 6.8 79 21-99 172-276 (477)
8 PF06512 Na_trans_assoc: Sodiu 96.1 0.001 2.2E-08 43.6 -0.8 27 18-44 213-239 (239)
9 PF08016 PKD_channel: Polycyst 71.2 12 0.00025 26.7 4.7 33 67-100 214-246 (425)
10 PF11241 DUF3043: Protein of u 63.0 36 0.00078 21.5 6.8 61 21-83 61-121 (170)
11 PLN03192 Voltage-dependent pot 60.1 8.6 0.00019 29.9 2.5 52 35-86 63-114 (823)
12 KOG3599|consensus 55.8 20 0.00044 28.1 3.8 37 64-100 466-502 (798)
13 TIGR01592 holin_SPP1 holin, SP 55.7 32 0.0007 18.7 6.4 43 37-79 8-50 (75)
14 PLN03223 Polycystin cation cha 55.4 26 0.00056 29.4 4.3 37 64-100 1176-1217(1634)
15 KOG1545|consensus 52.2 20 0.00043 25.8 3.0 35 65-99 254-289 (507)
16 KOG3533|consensus 38.0 5.7 0.00012 33.1 -1.4 23 2-24 2561-2584(2706)
17 PF11204 DUF2985: Protein of u 37.7 14 0.00031 20.4 0.4 39 39-80 24-62 (81)
18 TIGR00870 trp transient-recept 33.3 42 0.00091 25.8 2.5 30 71-100 396-425 (743)
19 PF15240 Pro-rich: Proline-ric 26.7 41 0.00089 21.5 1.2 15 41-55 1-15 (179)
20 PF08412 Ion_trans_N: Ion tran 25.3 1.3E+02 0.0027 16.4 2.8 20 35-54 48-67 (77)
21 PF06367 Drf_FH3: Diaphanous F 23.1 54 0.0012 20.6 1.3 35 19-53 19-55 (197)
22 PF03508 Connexin43: Gap junct 20.8 22 0.00047 13.9 -0.5 10 8-17 7-16 (20)
No 1
>KOG2301|consensus
Probab=99.82 E-value=5.7e-20 Score=141.47 Aligned_cols=100 Identities=35% Similarity=0.596 Sum_probs=92.7
Q ss_pred CEEEEEccccccchH---------HHHH--------------------HHHHHHHHHHHhcCchHHHHHHHHHHHHHHHH
Q psy6499 1 MFVGVVVENFHRCRE---------EQEK--------------------EERWRLLIHSVVTSKYFDLAIAAVIGLNVITM 51 (101)
Q Consensus 1 lFigvii~~f~~~~~---------~~~~--------------------~~~~~~~~~~iv~~~~f~~~i~~~i~ln~i~l 51 (101)
+|+||||+||+|+++ +|++ .++++.++++++.++.|++.++.++++|++.|
T Consensus 1095 lFvgvII~nf~~q~~~~~~~~~~~eq~~~~~~~~~l~sk~~~r~ipr~~~~~q~~~~~~v~~~~F~~~i~~li~ln~i~l 1174 (1592)
T KOG2301|consen 1095 LFVGVIIDNFNQQKGKAGGTFMTEEQKKRLNAAKKLGSKPPQRPIPRPRNKLQGLVFDLVTSQAFDYLIMLLIFLNTIIM 1174 (1592)
T ss_pred eeEEEEEechhhhchhhhhhhhhHHHHHHHHHHHHhcCCCCCCCCCCCcchhhhHHHHHHhhhHHHHHHHHHHHHHHHHH
Confidence 699999999999993 2222 25689999999999999999999999999999
Q ss_pred hhhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCcccccccCCCC
Q psy6499 52 AMEFYMMPMALTYALKIFNYFFTAVFILECFMKLLALGLHIYLKDSYTN 100 (101)
Q Consensus 52 ~~~~~~~~~~~~~~l~~~~~~f~~if~~E~~lk~~a~g~~~y~~~~wN~ 100 (101)
++++++++..+...+..+|.+|+.+|++|+++|++|++++.||+++||+
T Consensus 1175 ~~~~~~qs~~~~~~l~~in~vft~~Ft~E~vLKiiA~~~~~yf~~~WN~ 1223 (1592)
T KOG2301|consen 1175 MVETYDQSDTYTAILTILNAVFIVLFTIECILKVIALRFRGYFTSAWNV 1223 (1592)
T ss_pred HHhhccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhccccchh
Confidence 9999999999999999999999999999999999999999999999996
No 2
>KOG2302|consensus
Probab=99.75 E-value=1.9e-19 Score=132.83 Aligned_cols=100 Identities=53% Similarity=0.794 Sum_probs=92.6
Q ss_pred CEEEEEccccccchHHHHH-----------------------------HHHHHHHHHHHhcCchHHHHHHHHHHHHHHHH
Q psy6499 1 MFVGVVVENFHRCREEQEK-----------------------------EERWRLLIHSVVTSKYFDLAIAAVIGLNVITM 51 (101)
Q Consensus 1 lFigvii~~f~~~~~~~~~-----------------------------~~~~~~~~~~iv~~~~f~~~i~~~i~ln~i~l 51 (101)
||+||+++||.|.++.|+. ..+.|+.++....+++.+.+++++|++|.+.|
T Consensus 1379 mfVgvvvenfhKcrqhqe~EeArRreEKrLrrlekkrR~Aq~kpyyseyt~~rrlIh~~ctShyld~fit~ii~LnvVtm 1458 (1956)
T KOG2302|consen 1379 MFVGVVVENFHKCRQHQEAEEARRREEKRLRRLEKKRRAAQRKPYYSEYTMTRRLIHSKCTSHYLDQFITFIICLNVVTM 1458 (1956)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCcccccccHHHHHHHHHhhhHHHHHHHHHHHHHHHHHH
Confidence 5899999999999965432 13568899999999999999999999999999
Q ss_pred hhhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCcccccccCCCC
Q psy6499 52 AMEFYMMPMALTYALKIFNYFFTAVFILECFMKLLALGLHIYLKDSYTN 100 (101)
Q Consensus 52 ~~~~~~~~~~~~~~l~~~~~~f~~if~~E~~lk~~a~g~~~y~~~~wN~ 100 (101)
++++|.+|..++..+.++|+.|+.+|+.|+++|++|+|.++||+|.|||
T Consensus 1459 s~ehyqqp~sldealkycny~ft~vfV~EaV~klvafG~rrFfkdrwnq 1507 (1956)
T KOG2302|consen 1459 SEEHYQQPTSLDEALKYCNYRFTAVFVLEAVLKLVAFGERRFFKDRWNQ 1507 (1956)
T ss_pred HHHHHhCcccHHHHhhhcceeeeehhHHHHHHHHHHHhHHHHHhhhhhh
Confidence 9999999999999999999999999999999999999999999999997
No 3
>KOG2301|consensus
Probab=99.49 E-value=3.6e-14 Score=110.10 Aligned_cols=82 Identities=30% Similarity=0.455 Sum_probs=79.3
Q ss_pred HHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCcccccccCC
Q psy6499 19 KEERWRLLIHSVVTSKYFDLAIAAVIGLNVITMAMEFYMMPMALTYALKIFNYFFTAVFILECFMKLLALGLHIYLKDSY 98 (101)
Q Consensus 19 ~~~~~~~~~~~iv~~~~f~~~i~~~i~ln~i~l~~~~~~~~~~~~~~l~~~~~~f~~if~~E~~lk~~a~g~~~y~~~~w 98 (101)
.|.+++++++.++.++.+..++.+++++|++.++++|++++......+++++.+|+++|+.|+.+|++|+||+.||+.+|
T Consensus 428 ~~~~~~~~~~~~v~~~~~~~~i~i~i~lnt~~~a~eh~~~~~~~~~~l~~~~~vF~~lF~~Em~~ki~al~~~~yF~~~~ 507 (1592)
T KOG2301|consen 428 IWLKFKQWLRKMVFDPFVILFITICIALNTLFMAMEHYEMTKARNYLLYLGNVVFTGLFTVEMILKIYALGPRNYFRRGW 507 (1592)
T ss_pred HHHHHHHHHHHhhhcceehhhhHHHHhhcccEEEEEEeCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCcHHHHhhhc
Confidence 36788999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CC
Q psy6499 99 TN 100 (101)
Q Consensus 99 N~ 100 (101)
|+
T Consensus 508 n~ 509 (1592)
T KOG2301|consen 508 NI 509 (1592)
T ss_pred ch
Confidence 96
No 4
>KOG2302|consensus
Probab=99.41 E-value=5.8e-13 Score=99.32 Aligned_cols=82 Identities=35% Similarity=0.480 Sum_probs=77.9
Q ss_pred HHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCcccccccCCC
Q psy6499 20 EERWRLLIHSVVTSKYFDLAIAAVIGLNVITMAMEFYMMPMALTYALKIFNYFFTAVFILECFMKLLALGLHIYLKDSYT 99 (101)
Q Consensus 20 ~~~~~~~~~~iv~~~~f~~~i~~~i~ln~i~l~~~~~~~~~~~~~~l~~~~~~f~~if~~E~~lk~~a~g~~~y~~~~wN 99 (101)
|.-.+.+.+.|+.|++|+..|+..|++|++.|++|++.+|+.+.+.+++.|.+|+..|..|+.+|..+.|+.+|.++++|
T Consensus 607 wr~~~~klr~ivdskyf~rgimmailvntlsmgieyheqpeeltnalei~n~vftsmfalEm~lkla~~g~f~y~rnPyn 686 (1956)
T KOG2302|consen 607 WRETRAKLRGIVDSKYFNRGIMMAILVNTLSMGIEYHEQPEELTNALEIDNNVFTSMFALEMDLKLAARGFFRYHRNPYN 686 (1956)
T ss_pred HHHHHHHHHhhhhhhhcccchhhHHHhhhhhhccccccChHHHhhHHHhhhhhhHHHHHHHHHHhhhhccchhccCCCcc
Confidence 45567889999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CC
Q psy6499 100 NR 101 (101)
Q Consensus 100 ~~ 101 (101)
.+
T Consensus 687 if 688 (1956)
T KOG2302|consen 687 IF 688 (1956)
T ss_pred cC
Confidence 74
No 5
>KOG1419|consensus
Probab=96.97 E-value=0.014 Score=42.62 Aligned_cols=72 Identities=14% Similarity=0.107 Sum_probs=49.9
Q ss_pred HHHHHHHHHHHhcCc----hHH-HHHHHHHHHHHHHHhh-hcCCCCH-HHHHHHHHHHHHHHHHHHHHHHHHHHHhCcc
Q psy6499 20 EERWRLLIHSVVTSK----YFD-LAIAAVIGLNVITMAM-EFYMMPM-ALTYALKIFNYFFTAVFILECFMKLLALGLH 91 (101)
Q Consensus 20 ~~~~~~~~~~iv~~~----~f~-~~i~~~i~ln~i~l~~-~~~~~~~-~~~~~l~~~~~~f~~if~~E~~lk~~a~g~~ 91 (101)
..+.+.++|+..+.| .|- ++..+++++-++.++. .+.++.+ .....+.+.+++...+|..|.++++++.|-+
T Consensus 74 ~Rr~q~~vYN~LERPrGWkaf~YH~~VFllVl~CLILsV~STi~e~~~~a~~~L~~LEiv~IV~Fg~EfivRlWSAGC~ 152 (654)
T KOG1419|consen 74 YRRIQNKVYNFLERPRGWKAFLYHFFVFLLVLSCLILSVLSTIEEYEKLASGILYILEIVMIVFFGLEFIVRLWSAGCC 152 (654)
T ss_pred HHHHHHHHHHHHhCCCcchHHHHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence 567778899888776 222 2333444445555544 4444433 4457899999999999999999999999864
No 6
>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=96.74 E-value=0.0011 Score=41.09 Aligned_cols=32 Identities=31% Similarity=0.750 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHhCc--ccccccCCC
Q psy6499 68 IFNYFFTAVFILECFMKLLALGL--HIYLKDSYT 99 (101)
Q Consensus 68 ~~~~~f~~if~~E~~lk~~a~g~--~~y~~~~wN 99 (101)
+.+.++..+|++|.++|+.+.|+ +.|+++.||
T Consensus 1 ~~~~~~~~~f~~e~~l~~~~~~~~~~~y~~~~~~ 34 (200)
T PF00520_consen 1 ILEIIFDVIFILEIVLRFFALGFKRRRYFRSWWN 34 (200)
T ss_dssp HHHHHHHHHHHHHHHHHHHTCCCG-GCCCCSHHH
T ss_pred CChHHHHHHHHHHHHHHHHHhccHHHHHhcChhh
Confidence 46788999999999999999998 799999998
No 7
>KOG3713|consensus
Probab=96.11 E-value=0.035 Score=39.91 Aligned_cols=79 Identities=11% Similarity=0.131 Sum_probs=58.2
Q ss_pred HHHHHHHHHHhcCch-------HHHHHHHHHHHHHHHHhhhcCCCC--HH----------------HHHHHHHHHHHHHH
Q psy6499 21 ERWRLLIHSVVTSKY-------FDLAIAAVIGLNVITMAMEFYMMP--MA----------------LTYALKIFNYFFTA 75 (101)
Q Consensus 21 ~~~~~~~~~iv~~~~-------f~~~i~~~i~ln~i~l~~~~~~~~--~~----------------~~~~l~~~~~~f~~ 75 (101)
+++|+.++++++.|. |.....+.+++.++.|++.+.|.- .. -+..+.+.+.++.+
T Consensus 172 ~~~r~rlW~~~E~P~SS~~Ak~fa~~Sv~FVlvSiv~lcL~T~pe~q~~~~~~~~~~~~~~~~~~~~~p~l~~vE~vCi~ 251 (477)
T KOG3713|consen 172 GRLRRRLWALLENPGSSLAAKVFAVLSVLFVLVSIVGLCLGTLPEFQVPDKQGEGLLVNVEKIESEPHPILTYVETVCIA 251 (477)
T ss_pred hhHHHHHHHHhcCCCcchHHHHHHHHHHHHHHHHHHHHHHcCCHhhhchhhccccccccccccCCCCCCchHHHHHHHHH
Confidence 568889999987764 555566778888899988876541 11 12358999999999
Q ss_pred HHHHHHHHHHHHhCc-ccccccCCC
Q psy6499 76 VFILECFMKLLALGL-HIYLKDSYT 99 (101)
Q Consensus 76 if~~E~~lk~~a~g~-~~y~~~~wN 99 (101)
.|++|.+++++...- ..|+++.-|
T Consensus 252 WFT~E~llR~~~~P~k~~F~k~pLN 276 (477)
T KOG3713|consen 252 WFTFEYLLRFLVAPNKLEFFKSPLN 276 (477)
T ss_pred HHHHHHHHHHHcCchHHHHHhCcch
Confidence 999999999986532 357776655
No 8
>PF06512 Na_trans_assoc: Sodium ion transport-associated; InterPro: IPR010526 Members of this entry contain a region found exclusively in eukaryotic sodium channels or their subunits, many of which are voltage-gated. Members very often also contain between one and four copies of IPR005821 from INTERPRO and, less often, one copy of IPR000048 from INTERPRO.; GO: 0005248 voltage-gated sodium channel activity, 0006814 sodium ion transport, 0001518 voltage-gated sodium channel complex
Probab=96.09 E-value=0.001 Score=43.57 Aligned_cols=27 Identities=22% Similarity=0.175 Sum_probs=24.2
Q ss_pred HHHHHHHHHHHHHhcCchHHHHHHHHH
Q psy6499 18 EKEERWRLLIHSVVTSKYFDLAIAAVI 44 (101)
Q Consensus 18 ~~~~~~~~~~~~iv~~~~f~~~i~~~i 44 (101)
+.|..+|+.|++||.|+||+.+|+++|
T Consensus 213 ~~W~~~R~~c~~iVeh~~FEtfIifmI 239 (239)
T PF06512_consen 213 KIWWNLRKTCYRIVEHKWFETFIIFMI 239 (239)
T ss_pred hhHHHHHhhheeeecccchhheeeeeC
Confidence 458899999999999999999998765
No 9
>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=71.21 E-value=12 Score=26.74 Aligned_cols=33 Identities=21% Similarity=0.355 Sum_probs=26.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhCcccccccCCCC
Q psy6499 67 KIFNYFFTAVFILECFMKLLALGLHIYLKDSYTN 100 (101)
Q Consensus 67 ~~~~~~f~~if~~E~~lk~~a~g~~~y~~~~wN~ 100 (101)
+++-.++...|+..-+.|+...| +.|+++.||.
T Consensus 214 ~i~f~~~~l~~~~~ei~~i~~~g-~~y~~~~WN~ 246 (425)
T PF08016_consen 214 EILFVLFVLYFLYREIKKIRREG-RAYFKSFWNW 246 (425)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhh-hHHhhhcCcH
Confidence 45556667888888888888888 6799999983
No 10
>PF11241 DUF3043: Protein of unknown function (DUF3043); InterPro: IPR021403 Some members in this family of proteins with unknown function are annotated as membrane proteins. This cannot be confirmed.
Probab=63.03 E-value=36 Score=21.53 Aligned_cols=61 Identities=10% Similarity=0.125 Sum_probs=29.4
Q ss_pred HHHHHHHHHHhcCchHHHHHHHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q psy6499 21 ERWRLLIHSVVTSKYFDLAIAAVIGLNVITMAMEFYMMPMALTYALKIFNYFFTAVFILECFM 83 (101)
Q Consensus 21 ~~~~~~~~~iv~~~~f~~~i~~~i~ln~i~l~~~~~~~~~~~~~~l~~~~~~f~~if~~E~~l 83 (101)
++.|+.+.+.|.+.+.-.-....+.+=.+++++- ..+..........-+++.++.++|.++
T Consensus 61 GP~Rr~vRD~VDsR~~i~e~fmP~alv~lv~~~v--~~~~~~~~~~~~~~~~~~~~~iid~~~ 121 (170)
T PF11241_consen 61 GPVRRYVRDYVDSRRNIGEFFMPVALVLLVLSFV--VPSPQVQLYVTLAMYVLLLLVIIDGVI 121 (170)
T ss_pred cchhhhhhhhhhcccchHHHHHHHHHHHHHHHHH--cccHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5779999999988743211111111111111111 222334444444445555666666654
No 11
>PLN03192 Voltage-dependent potassium channel; Provisional
Probab=60.07 E-value=8.6 Score=29.88 Aligned_cols=52 Identities=8% Similarity=0.272 Sum_probs=35.6
Q ss_pred hHHHHHHHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy6499 35 YFDLAIAAVIGLNVITMAMEFYMMPMALTYALKIFNYFFTAVFILECFMKLL 86 (101)
Q Consensus 35 ~f~~~i~~~i~ln~i~l~~~~~~~~~~~~~~l~~~~~~f~~if~~E~~lk~~ 86 (101)
.++.++.++++.+++....+-.-.+......+.+++.+..++|.+++++++.
T Consensus 63 ~Wd~~~~~~~~y~~~~~p~~~~F~~~~~~~~~~~~d~i~~~~F~iDi~l~f~ 114 (823)
T PLN03192 63 WWETLMVVLVAYSAWVYPFEVAFLNASPKRGLEIADNVVDLFFAVDIVLTFF 114 (823)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHeeCCCCCCCeeeHHHHHHHHHHHHHHhhee
Confidence 5677888888888888766532222111123567788889999999999864
No 12
>KOG3599|consensus
Probab=55.79 E-value=20 Score=28.12 Aligned_cols=37 Identities=14% Similarity=0.213 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhCcccccccCCCC
Q psy6499 64 YALKIFNYFFTAVFILECFMKLLALGLHIYLKDSYTN 100 (101)
Q Consensus 64 ~~l~~~~~~f~~if~~E~~lk~~a~g~~~y~~~~wN~ 100 (101)
-..+++-+++...|+++-.+++.-.++..|+++.||.
T Consensus 466 ~l~~vvf~l~~~yf~~~e~~~i~~~~~~~y~~s~wN~ 502 (798)
T KOG3599|consen 466 MLCEVVFLLFVLYFAVAEGLKIWIHRLGRYVRSKWNW 502 (798)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHhhhHHH
Confidence 3445555667788888888888877776788888884
No 13
>TIGR01592 holin_SPP1 holin, SPP1 family. This model represents one of more than 30 families of phage proteins, all lacking detectable homology with each other, known or believed to act as holins. Holins act in cell lysis by bacteriophage. Members of this family are found in phage PBSX and phage SPP1, among others.
Probab=55.68 E-value=32 Score=18.68 Aligned_cols=43 Identities=12% Similarity=0.048 Sum_probs=29.5
Q ss_pred HHHHHHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHHHHHHHHH
Q psy6499 37 DLAIAAVIGLNVITMAMEFYMMPMALTYALKIFNYFFTAVFIL 79 (101)
Q Consensus 37 ~~~i~~~i~ln~i~l~~~~~~~~~~~~~~l~~~~~~f~~if~~ 79 (101)
+..++++-++|.++.+....+.|-+-+.+-...+.+|++..++
T Consensus 8 Rti~l~lAlvNq~L~~~G~~pipide~~i~~~v~~v~t~~~~l 50 (75)
T TIGR01592 8 RTILLIIALVNQFLAMKGISPIPVDEEGISTVVDAVFTIGVSL 50 (75)
T ss_pred HHHHHHHHHHHHHHHHCCCCCCCccHHHHHHHHHHHHHHHHHH
Confidence 4566778889999988888887766555555555555555543
No 14
>PLN03223 Polycystin cation channel protein; Provisional
Probab=55.39 E-value=26 Score=29.43 Aligned_cols=37 Identities=14% Similarity=0.143 Sum_probs=25.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhC-----cccccccCCCC
Q psy6499 64 YALKIFNYFFTAVFILECFMKLLALG-----LHIYLKDSYTN 100 (101)
Q Consensus 64 ~~l~~~~~~f~~if~~E~~lk~~a~g-----~~~y~~~~wN~ 100 (101)
-.++++-.+|...|+.+=+.++...+ ++.||++.||.
T Consensus 1176 LacEIIFVLFILYfIyrEIkEI~k~KK~RG~~laYFKSfWNw 1217 (1634)
T PLN03223 1176 FAMEILLAIGAVYSVYEEAMDFGSSKKTRGSYLAYFLSGWNY 1217 (1634)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhcccchhhHhccchHH
Confidence 34556666667777777777776543 46799999984
No 15
>KOG1545|consensus
Probab=52.24 E-value=20 Score=25.76 Aligned_cols=35 Identities=11% Similarity=0.266 Sum_probs=25.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhCcc-cccccCCC
Q psy6499 65 ALKIFNYFFTAVFILECFMKLLALGLH-IYLKDSYT 99 (101)
Q Consensus 65 ~l~~~~~~f~~if~~E~~lk~~a~g~~-~y~~~~wN 99 (101)
-+-+.+..+...|++|.++++.|..-+ .++++--|
T Consensus 254 PFFiVEt~CIiWFtfEllvRf~aCPsK~~Ff~nimN 289 (507)
T KOG1545|consen 254 PFFIVETLCIIWFTFELLVRFFACPSKATFFRNIMN 289 (507)
T ss_pred chHhHHHHHHHHHhHHHHHHHhcCccHHHHHHHHHH
Confidence 356778888999999999999987533 35554433
No 16
>KOG3533|consensus
Probab=37.97 E-value=5.7 Score=33.15 Aligned_cols=23 Identities=35% Similarity=0.651 Sum_probs=16.5
Q ss_pred EEEEEccccccchH-HHHHHHHHH
Q psy6499 2 FVGVVVENFHRCRE-EQEKEERWR 24 (101)
Q Consensus 2 Figvii~~f~~~~~-~~~~~~~~~ 24 (101)
..|||||+|.-.+. +|+|+.-++
T Consensus 2561 IFGVIIDTFaDLRsEKqkKEeILK 2584 (2706)
T KOG3533|consen 2561 IFGVIIDTFADLRSEKQKKEEILK 2584 (2706)
T ss_pred HHHhhhhhHHHHHhhhhHHHHHHh
Confidence 46999999999984 466654433
No 17
>PF11204 DUF2985: Protein of unknown function (DUF2985); InterPro: IPR021369 This eukaryotic family of proteins has no known function.
Probab=37.66 E-value=14 Score=20.39 Aligned_cols=39 Identities=10% Similarity=0.077 Sum_probs=23.0
Q ss_pred HHHHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHHHHHHHHHH
Q psy6499 39 AIAAVIGLNVITMAMEFYMMPMALTYALKIFNYFFTAVFILE 80 (101)
Q Consensus 39 ~i~~~i~ln~i~l~~~~~~~~~~~~~~l~~~~~~f~~if~~E 80 (101)
.+.+++++|.+.-+++. .++.....++.|++..++|++-
T Consensus 24 a~lfllL~g~~~~~~~~---~s~r~~WiEi~sQILnALF~v~ 62 (81)
T PF11204_consen 24 AMLFLLLCGMLNAMCHN---KSPRDIWIEIDSQILNALFTVM 62 (81)
T ss_pred HHHHHHHHccchhccCC---CccceEEEEehhHHHHHHHHHH
Confidence 34455555555544442 2233446778888888888863
No 18
>TIGR00870 trp transient-receptor-potential calcium channel protein. after chronic exposure to capsaicin. (McCleskey and Gold, 1999).
Probab=33.27 E-value=42 Score=25.76 Aligned_cols=30 Identities=10% Similarity=0.047 Sum_probs=19.4
Q ss_pred HHHHHHHHHHHHHHHHHhCcccccccCCCC
Q psy6499 71 YFFTAVFILECFMKLLALGLHIYLKDSYTN 100 (101)
Q Consensus 71 ~~f~~if~~E~~lk~~a~g~~~y~~~~wN~ 100 (101)
..+...+..+-...++..|...|+++.||.
T Consensus 396 ~~~~~~~~~~e~~~~~~~g~~~y~~~~wn~ 425 (743)
T TIGR00870 396 VTWVDGLRLGEEKLIWLGGIFEYIHQLWNI 425 (743)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444445555566777777899999984
No 19
>PF15240 Pro-rich: Proline-rich
Probab=26.67 E-value=41 Score=21.47 Aligned_cols=15 Identities=20% Similarity=0.228 Sum_probs=11.8
Q ss_pred HHHHHHHHHHHhhhc
Q psy6499 41 AAVIGLNVITMAMEF 55 (101)
Q Consensus 41 ~~~i~ln~i~l~~~~ 55 (101)
|++|+|.+.+||+..
T Consensus 1 MLlVLLSvALLALSS 15 (179)
T PF15240_consen 1 MLLVLLSVALLALSS 15 (179)
T ss_pred ChhHHHHHHHHHhhh
Confidence 467888899998854
No 20
>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=25.27 E-value=1.3e+02 Score=16.41 Aligned_cols=20 Identities=25% Similarity=0.564 Sum_probs=15.4
Q ss_pred hHHHHHHHHHHHHHHHHhhh
Q psy6499 35 YFDLAIAAVIGLNVITMAME 54 (101)
Q Consensus 35 ~f~~~i~~~i~ln~i~l~~~ 54 (101)
+++..+++++++|.+.+...
T Consensus 48 ~WD~~m~~~~~~~~~~iP~~ 67 (77)
T PF08412_consen 48 YWDLIMLILLLYNLIIIPFR 67 (77)
T ss_pred HHHHHHHHHHHHHHHHHhhh
Confidence 66778888888888887553
No 21
>PF06367 Drf_FH3: Diaphanous FH3 Domain; InterPro: IPR010472 Formin homology (FH) proteins play a crucial role in the reorganisation of the actin cytoskeleton, which mediates various functions of the cell cortex including motility, adhesion, and cytokinesis []. Formins are multidomain proteins that interact with diverse signalling molecules and cytoskeletal proteins, although some formins have been assigned functions within the nucleus. Formins are characterised by the presence of three FH domains (FH1, FH2 and FH3), although members of the formin family do not necessarily contain all three domains []. The proline-rich FH1 domain mediates interactions with a variety of proteins, including the actin-binding protein profilin, SH3 (Src homology 3) domain proteins, and WW domain proteins. The FH2 domain (IPR003104 from INTERPRO) is required to inhibit actin polymerisation. The FH3 domain is less well conserved and is required for directing formins to the correct intracellular location, such the mitotic spindle [], or the projection tip during conjugation []. In addition, some formins can contain a GTPase-binding domain (GBD) (IPR010473 from INTERPRO) required for binding to Rho small GTPases, and a C-terminal conserved Dia-autoregulatory domain (DAD). This entry represents the FH3 domain.; GO: 0003779 actin binding, 0016043 cellular component organization; PDB: 3OBV_A 2BNX_A 3EG5_D 2BAP_B 3O4X_B 1Z2C_B 2F31_A.
Probab=23.11 E-value=54 Score=20.58 Aligned_cols=35 Identities=14% Similarity=0.186 Sum_probs=24.7
Q ss_pred HHHHHHHHHHHHh--cCchHHHHHHHHHHHHHHHHhh
Q psy6499 19 KEERWRLLIHSVV--TSKYFDLAIAAVIGLNVITMAM 53 (101)
Q Consensus 19 ~~~~~~~~~~~iv--~~~~f~~~i~~~i~ln~i~l~~ 53 (101)
.+.|++..+..+- .+..-++....+.++|+++-+.
T Consensus 19 e~~RF~~lv~~l~~~~~~~~e~~~~~l~~IN~li~~~ 55 (197)
T PF06367_consen 19 ERGRFQSLVGALESVDSSDIEYKTACLQFINSLINSP 55 (197)
T ss_dssp -S-TTHHHHHHCS--TTS-HHHHHHHHHHHHHHHTT-
T ss_pred CcccHHHHHHHHHccccCcHHHHHHHHHHHHHHHcCC
Confidence 3567777777666 5778888899999999998765
No 22
>PF03508 Connexin43: Gap junction alpha-1 protein (Cx43); InterPro: IPR013124 The connexins are a family of integral membrane proteins that oligomerise to form intercellular channels that are clustered at gap junctions. These channels are specialised sites of cell-cell contact that allow the passage of ions, intracellular metabolites and messenger molecules (with molecular weight less than 1-2kDa) from the cytoplasm of one cell to its opposing neighbours. They are found in almost all vertebrate cell types, and somewhat similar proteins have been cloned from plant species. Invertebrates utilise a different family of molecules, innexins, that share a similar predicted secondary structure to the vertebrate connexins, but have no sequence identity to them []. Vertebrate gap junction channels are thought to participate in diverse biological functions. For instance, in the heart they permit the rapid cell-cell transfer of action potentials, ensuring coordinated contraction of the cardiomyocytes. They are also responsible for neurotransmission at specialised 'electrical' synapses. In non-excitable tissues, such as the liver, they may allow metabolic cooperation between cells. In the brain, glial cells are extensively-coupled by gap junctions; this allows waves of intracellular Ca2+ to propagate through nervous tissue, and may contribute to their ability to spatially-buffer local changes in extracellular K+ concentration []. The connexin protein family is encoded by at least 13 genes in rodents, with many homologues cloned from other species. They show overlapping tissue expression patterns, most tissues expressing more than one connexin type. Their conductances, permeability to different molecules, phosphorylation and voltage-dependence of their gating, have been found to vary. Possible communication diversity is increased further by the fact that gap junctions may be formed by the association of different connexin isoforms from apposing cells. However, in vitro studies have shown that not all possible combinations of connexins produce active channels [, ]. Hydropathy analysis predicts that all cloned connexins share a common transmembrane (TM) topology. Each connexin is thought to contain 4 TM domains, with two extracellular and three cytoplasmic regions. This model has been validated for several of the family members by in vitro biochemical analysis. Both N- and C-termini are thought to face the cytoplasm, and the third TM domain has an amphipathic character, suggesting that it contributes to the lining of the formed-channel. Amino acid sequence identity between the isoforms is ~50-80%, with the TM domains being well conserved. Both extracellular loops contain characteristically conserved cysteine residues, which likely form intramolecular disulphide bonds. By contrast, the single putative intracellular loop (between TM domains 2 and 3) and the cytoplasmic C terminus are highly variable among the family members. Six connexins are thought to associate to form a hemi-channel, or connexon. Two connexons then interact (likely via the extracellular loops of their connexins) to form the complete gap junction channel. NH2-*** *** *************-COOH ** ** ** ** ** ** ** ** Cytoplasmic ---**----**-----**----**---------------- ** ** ** ** Membrane ** ** ** ** ---**----**-----**----**---------------- ** ** ** ** Extracellular ** ** ** ** ** ** Two sets of nomenclature have been used to identify the connexins. The first, and most commonly used, classifies the connexin molecules according to molecular weight, such as connexin43 (abbreviated to Cx43), indicating a connexin of molecular weight close to 43kDa. However, studies have revealed cases where clear functional homologues exist across species that have quite different molecular masses; therefore, an alternative nomenclature was proposed based on evolutionary considerations, which divides the family into two major subclasses, alpha and beta, each with a number of members []. Due to their ubiquity and overlapping tissue distributions, it has proved difficult to elucidate the functions of individual connexin isoforms. To circumvent this problem, particular connexin-encoding genes have been subjected to targeted-disruption in mice, and the phenotype of the resulting animals investigated. Around half the connexin isoforms have been investigated in this manner []. Further insight into the functional roles of connexins has come from the discovery that a number of human diseases are caused by mutations in connexin genes. For instance, mutations in Cx32 give rise to a form of inherited peripheral neuropathy called X-linked dominant Charcot-Marie-Tooth disease []. Similarly, mutations in Cx26 are responsible for both autosomal recessive and dominant forms of nonsyndromic deafness, a disorder characterised by hearing loss, with no apparent effects on other organ systems. Gap junction alpha-1 protein (also called connexin43, or Cx43) is a connexin of 381 amino acid residues (human isoform) that is widely expressed in several organs and cell types, and is the principal gap junction protein of the heart. Characterisation of genetically-engineered mice that lack Cx43, and also of human patients that have spontaneously-occurring mutations in the gene encoding it (GJA1), suggest Cx43 is essential for the development of normal cardiac architecture and ventricular conduction. Mice lacking Cx43 survive to term but die shortly after birth. They have cardiac malformations that lead to the obstruction of the pulmonary artery, leading to neonatal cyanosis, and subsequent death. This phenotype is reminiscent of some forms of stenosis of the pulmonary artery. Human subjects with visceroatrial heterotaxia (a heart disorder characterised by arterial defects), have been found to have points mutations in the Cx43-encoding gene, as a result of which a potential phosphorylation site within the C terminus is disrupted. Consequently, although these mutant Cx43 molecules still form functional gap junction channels, their response to protein kinase activation is impaired. This domain is found in the C-terminal region of these proteins.; PDB: 1R5S_A.
Probab=20.84 E-value=22 Score=13.93 Aligned_cols=10 Identities=30% Similarity=0.557 Sum_probs=2.3
Q ss_pred cccccchHHH
Q psy6499 8 ENFHRCREEQ 17 (101)
Q Consensus 8 ~~f~~~~~~~ 17 (101)
.||+|+..||
T Consensus 7 rnynkqa~eq 16 (20)
T PF03508_consen 7 RNYNKQASEQ 16 (20)
T ss_dssp SS----S-S-
T ss_pred hhhhhhhhhh
Confidence 5777776544
Done!