Query 044429
Match_columns 295
No_of_seqs 122 out of 317
Neff 6.2
Searched_HMMs 46136
Date Fri Mar 29 03:13:24 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/044429.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/044429hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF03087 DUF241: Arabidopsis p 100.0 3.1E-68 6.7E-73 483.9 26.0 230 50-290 1-231 (231)
2 PF05633 DUF793: Protein of un 99.9 1.7E-21 3.8E-26 187.5 23.3 258 19-291 38-389 (389)
3 PF05055 DUF677: Protein of un 95.0 3.7 8E-05 39.9 19.4 43 83-125 65-107 (336)
4 cd07665 BAR_SNX1 The Bin/Amphi 78.1 26 0.00056 32.3 10.3 71 46-125 76-146 (234)
5 cd07664 BAR_SNX2 The Bin/Amphi 75.6 32 0.0007 31.6 10.2 68 46-125 76-146 (234)
6 cd07597 BAR_SNX8 The Bin/Amphi 67.5 37 0.0008 31.2 8.7 55 45-111 86-140 (246)
7 KOG2911 Uncharacterized conser 57.4 1.5E+02 0.0033 29.9 11.3 46 110-160 256-301 (439)
8 cd07662 BAR_SNX6 The Bin/Amphi 57.3 1.6E+02 0.0034 27.0 11.6 97 45-156 75-174 (218)
9 PF05600 DUF773: Protein of un 56.2 2E+02 0.0044 29.5 12.4 95 51-153 398-495 (507)
10 PF14389 Lzipper-MIP1: Leucine 53.9 25 0.00053 27.4 4.3 34 251-284 55-88 (88)
11 TIGR02338 gimC_beta prefoldin, 51.0 73 0.0016 25.5 6.8 40 252-291 69-108 (110)
12 PF10018 Med4: Vitamin-D-recep 48.5 55 0.0012 28.8 6.2 56 236-291 6-63 (188)
13 TIGR01834 PHA_synth_III_E poly 46.1 2.1E+02 0.0044 27.8 10.0 37 240-276 276-315 (320)
14 PRK09343 prefoldin subunit bet 46.0 87 0.0019 25.7 6.6 41 252-292 73-113 (121)
15 cd07626 BAR_SNX9_like The Bin/ 40.9 2E+02 0.0043 25.9 8.6 53 44-108 63-115 (199)
16 cd07596 BAR_SNX The Bin/Amphip 38.5 2.4E+02 0.0051 24.2 8.7 34 86-119 88-121 (218)
17 KOG0994 Extracellular matrix g 34.7 7.8E+02 0.017 28.5 18.5 34 255-289 1722-1755(1758)
18 PF03866 HAP: Hydrophobic abun 34.6 1.6E+02 0.0035 25.0 6.5 59 43-108 92-150 (164)
19 PF10805 DUF2730: Protein of u 34.3 1.1E+02 0.0025 24.4 5.5 42 237-278 51-93 (106)
20 cd07623 BAR_SNX1_2 The Bin/Amp 33.3 3.6E+02 0.0078 24.2 10.7 63 46-120 66-128 (224)
21 PF02609 Exonuc_VII_S: Exonucl 32.2 1.7E+02 0.0038 20.2 5.7 46 104-159 2-47 (53)
22 PF12325 TMF_TATA_bd: TATA ele 28.8 65 0.0014 26.7 3.2 39 113-151 17-56 (120)
23 PF03670 UPF0184: Uncharacteri 25.6 1.4E+02 0.0031 23.2 4.3 28 254-281 30-57 (83)
24 cd07663 BAR_SNX5 The Bin/Amphi 25.1 5.3E+02 0.012 23.5 11.7 66 47-124 77-145 (218)
25 KOG3681 Alpha-catenin [Extrace 24.3 9.7E+02 0.021 26.3 11.7 70 83-152 290-369 (835)
26 PF00429 TLV_coat: ENV polypro 24.2 1.4E+02 0.0029 31.1 5.3 34 254-287 432-465 (561)
27 cd00823 TopoIIB_Trans TopoIIB_ 23.7 64 0.0014 27.9 2.3 42 101-148 108-149 (151)
28 TIGR01280 xseB exodeoxyribonuc 23.1 3.1E+02 0.0067 20.2 5.6 35 102-142 2-36 (67)
29 PF09577 Spore_YpjB: Sporulati 22.7 6.1E+02 0.013 23.4 8.8 56 12-73 88-149 (232)
30 cd00179 SynN Syntaxin N-termin 22.5 4.3E+02 0.0093 21.5 7.6 63 96-158 4-70 (151)
31 cd07630 BAR_SNX_like The Bin/A 21.5 5.8E+02 0.013 22.7 11.8 93 47-156 61-156 (198)
32 PF10393 Matrilin_ccoil: Trime 21.3 1.4E+02 0.0031 20.7 3.3 31 235-273 15-46 (47)
33 PF05377 FlaC_arch: Flagella a 21.3 2.5E+02 0.0053 20.2 4.5 32 235-274 7-38 (55)
34 PF06657 Cep57_MT_bd: Centroso 21.2 3.8E+02 0.0081 20.4 7.4 56 95-161 14-69 (79)
35 PRK07248 hypothetical protein; 20.6 1.8E+02 0.0039 22.1 4.2 34 249-283 45-78 (87)
36 PRK14063 exodeoxyribonuclease 20.5 3.5E+02 0.0077 20.4 5.6 35 102-142 6-40 (76)
37 KOG3229 Vacuolar sorting prote 20.5 1.6E+02 0.0034 26.9 4.2 41 110-152 12-52 (227)
38 KOG2391 Vacuolar sorting prote 20.4 5.5E+02 0.012 25.2 8.1 107 22-144 222-343 (365)
39 PF03087 DUF241: Arabidopsis p 20.2 6.6E+02 0.014 22.8 15.7 31 47-77 36-71 (231)
No 1
>PF03087 DUF241: Arabidopsis protein of unknown function; InterPro: IPR004320 This family represents plant proteins of unknown function.
Probab=100.00 E-value=3.1e-68 Score=483.85 Aligned_cols=230 Identities=54% Similarity=0.814 Sum_probs=210.6
Q ss_pred hHHhhhHHHHHhHHHHHcCchhHHHHhhhhhhhHHHHHHhhhhhHHHHHHhhhHHHHHHHHHHHHHHHHHHHhccCCCcc
Q 044429 50 KSLSGLEDLYICIDDLLNMASTQQVLSQNQNQHQKCIDELLDVSVKLLDICGITRDSMLQIKERVQGLHSMARRRKGDSS 129 (295)
Q Consensus 50 ~~L~~L~~l~~~~~~Ll~lP~~q~aL~~~~~~~~k~vee~LD~sl~LLD~C~~~rd~ll~lKe~v~eLqsalRRr~g~~~ 129 (295)
+||++|.|||+|++|||++|++||+|++++ +||||++|||||+|||+||+|||+|++||||++|||++||||| +..
T Consensus 1 dgL~~L~~Ly~~~~ell~lp~tq~al~~~~---~k~ve~lLd~sL~LLD~c~~~rd~ll~lKe~v~eLqsalRRr~-~~~ 76 (231)
T PF03087_consen 1 DGLSGLKDLYECLEELLQLPSTQQALSHHQ---EKWVEELLDGSLRLLDACGTFRDALLQLKEHVQELQSALRRRD-DGS 76 (231)
T ss_pred CchhHHHHHHHHHHHHHcCCHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc-chh
Confidence 599999999999999999999999999866 6999999999999999999999999999999999999999998 333
Q ss_pred chhhhHHHHHHHHhhhHHHHHHHHHHHhhcccccCCCCCcccc-hhhHHHHHHHHHHHHHHHHHHHHHHHHhcccCCCCC
Q 044429 130 IENTVASYTCFRKKMNKDAKKFIATLKQMDNKLLGVSPLVDQN-HHLSAVIRVLREVNAVTSSIFQSLLLFLSASGSKPK 208 (295)
Q Consensus 130 ~~~~v~~y~~~rKk~kK~i~k~l~~Lk~~~~k~~~~~~~~~~d-~~~~~vv~~l~ea~~it~sv~~sll~~~s~~~~~~~ 208 (295)
++++|++|+++|||++|+|+|+++++|+++++ .++. +.| ++.+.++++++||+++|+++|+++++|+|+|..+++
T Consensus 77 ~~~~i~sy~~~rKk~kK~i~K~~~~lk~~~~~---~~~~-~~~~~~~~~vv~~l~ea~~~t~si~~sll~~ls~~~~~~~ 152 (231)
T PF03087_consen 77 IESEIASYIRSRKKAKKEIAKLLRSLKRMSNK---SSSS-NDDDEHLSAVVRVLREAREITVSIFESLLSFLSSPSKKSK 152 (231)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcc---cCCC-ccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccc
Confidence 99999999999999999999999999999886 2222 334 368999999999999999999999999999999999
Q ss_pred CCchhHHHHhhhcCcccchhhhhhhhhhHHHHHHHhhccCchhhHHHHHHHHHHHhhHHHHhhhHHHHHHHHHHHHHHHh
Q 044429 209 QSRWSLVSKLMHKGSVSCEEKKQEIVNELESVDVALRSHDMGKMQHVQTSLKELEGSIEGLEKNLENLFRRLIRTRASLL 288 (295)
Q Consensus 209 ~s~Ws~vskl~~~~~v~~~~~~~~~~nE~~~vDaal~~l~~~~~~~~~~~le~LE~~I~~lE~gle~lFR~LI~tRVSLL 288 (295)
+++||+|+++|++++. |...+.+. ||++++|+++.. +.++++.++++||+||.||++||+|+|+|||+|||||||||
T Consensus 153 ~~~wslvsk~~~~~~~-~~~~~~~~-~e~~~~d~~~~~-~~e~~~~~~~~Le~LE~~Ie~lE~glE~vFR~LIktRVSLL 229 (231)
T PF03087_consen 153 SSKWSLVSKLMQKKRS-CDSSEENR-NEFEKVDAALKS-DEEEVQNAQKRLEELEECIEELEEGLECVFRRLIKTRVSLL 229 (231)
T ss_pred ccchhHHHHHHhcccc-cchhHHHH-HHHHHHHHHhhh-hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 9999999999998864 55444455 999999998865 56889999999999999999999999999999999999999
Q ss_pred hh
Q 044429 289 NI 290 (295)
Q Consensus 289 NI 290 (295)
||
T Consensus 230 NI 231 (231)
T PF03087_consen 230 NI 231 (231)
T ss_pred cC
Confidence 98
No 2
>PF05633 DUF793: Protein of unknown function (DUF793); InterPro: IPR008511 This entry includes Protein BYPASS 1 which is required for normal root and shoot development. Prevents constitutive production of a root mobile carotenoid-derived signaling compound that is capable of arresting shoot and leaf development [, ].
Probab=99.89 E-value=1.7e-21 Score=187.48 Aligned_cols=258 Identities=20% Similarity=0.308 Sum_probs=189.8
Q ss_pred ChhhHHHHHH-hhhhhhhccc-cccccchHHHHhHHhhhHHHHHhHHHHHcCchhHH-HHhhhhhhhHHHHHHhhhhhHH
Q 044429 19 STIKTEEELS-KLKIWEEQEE-SSRLASAESICKSLSGLEDLYICIDDLLNMASTQQ-VLSQNQNQHQKCIDELLDVSVK 95 (295)
Q Consensus 19 ~~~~~e~~L~-~Lr~~~~~s~-~~~~~ss~~i~~~L~~L~~l~~~~~~Ll~lP~~q~-aL~~~~~~~~k~vee~LD~sl~ 95 (295)
.+..||.++. +|....+.++ ++++.|.+||...|..+...|+.+..|| |..+. .++.... +|||++|||++++
T Consensus 38 ~L~~Fq~~va~rl~~L~~~~~~~~~~LSL~W~~~~ld~~l~~~~efr~li--~~~~~~~~s~~~~--dk~v~eylD~sVK 113 (389)
T PF05633_consen 38 ELEAFQRHVAERLSDLSPSSKDSDDFLSLSWMRKALDSFLCCHEEFRALI--TNLRDLPLSKPPD--DKWVDEYLDRSVK 113 (389)
T ss_pred hHHHHHHHHHHHHHHhccCcCcccccccHHHHHHHHHHHHHHHHHHHHHH--hcccccccCCchH--HHHHHHHHHHHHH
Confidence 5677888887 6777765432 2467899999999999999999999998 22222 3444446 8999999999999
Q ss_pred HHHHhhhHHHHHHHHHHHHHHHHHHHhccCCCccchhhhHHHHHHHHhhhHHHHHHHHHHHh------------------
Q 044429 96 LLDICGITRDSMLQIKERVQGLHSMARRRKGDSSIENTVASYTCFRKKMNKDAKKFIATLKQ------------------ 157 (295)
Q Consensus 96 LLD~C~~~rd~ll~lKe~v~eLqsalRRr~g~~~~~~~v~~y~~~rKk~kK~i~k~l~~Lk~------------------ 157 (295)
+|||||+++|.|.++++...-+|.|++--+....+ .-..|.|+|| .+..+...++.
T Consensus 114 lLDvCNA~~~gi~~lr~~~~ll~~al~~L~~~~~~--~~~~~rRAr~----aL~dl~~~~~~~~~~~~~~~~~rnrs~~r 187 (389)
T PF05633_consen 114 LLDVCNAIRDGISQLRQWQLLLQIALHALDSSRPL--GEGQLRRARK----ALSDLKIAMLDDKDSGSSGGSHRNRSFGR 187 (389)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCC--cHHHHHHHHH----HHHHHHHHHhcccccCccccccccccccc
Confidence 99999999999999999999999999988722111 1235666666 55555443322
Q ss_pred ---------------------------------------hcccccCCCCCcccc-hhhHHHHHHHHHHHHHHHHHHHHHH
Q 044429 158 ---------------------------------------MDNKLLGVSPLVDQN-HHLSAVIRVLREVNAVTSSIFQSLL 197 (295)
Q Consensus 158 ---------------------------------------~~~k~~~~~~~~~~d-~~~~~vv~~l~ea~~it~sv~~sll 197 (295)
|.++ +..|. ..+ ..+..++..+|.+..+|++|.-.+.
T Consensus 188 ~~~~~~~~~~s~~~~~~~~~rsls~~vsr~wsa~~~Lq~m~~n-L~~Pk--~~esak~~gL~~A~Y~m~~vtvFV~~vlV 264 (389)
T PF05633_consen 188 SNSSGRRSSSSSGSRSAGHFRSLSWSVSRNWSAARQLQAMGEN-LVLPK--GKESAKGRGLLRAMYGMKSVTVFVCWVLV 264 (389)
T ss_pred ccCCCCCCCCccccCCcccchhhhhhhhhhhhhHHHHHHHHhc-CCCCC--CccccccchHHHHHHHHHHHHHHHHHHHH
Confidence 2222 11111 112 2345799999999999999988888
Q ss_pred HHhccc-C------C-CCCCCchhHHHHhhhcCcccchhhh-------hhhhhhHHHHHHHhhcc-----------C---
Q 044429 198 LFLSAS-G------S-KPKQSRWSLVSKLMHKGSVSCEEKK-------QEIVNELESVDVALRSH-----------D--- 248 (295)
Q Consensus 198 ~~~s~~-~------~-~~~~s~Ws~vskl~~~~~v~~~~~~-------~~~~nE~~~vDaal~~l-----------~--- 248 (295)
..++.+ . . .|+...|+.-...+|.+ |. +|.. ..+++|++.||++.+.| +
T Consensus 265 AA~pc~~rgL~~~l~~vP~~~~WA~s~~~LQ~r-I~-eEikkk~~kgs~gLLkEl~~ve~~vr~L~el~d~~~~p~~~e~ 342 (389)
T PF05633_consen 265 AAFPCQDRGLQVHLSAVPRQFSWAPSFISLQER-IN-EEIKKKERKGSCGLLKELQQVEASVRELHELIDSFQFPLEEEK 342 (389)
T ss_pred HeeecCCccccCCCCCCccccccchHHHHHHHH-HH-HHHhhccccCcchHHHHHHHHHHHHHHHHHHHHhccCCcchhH
Confidence 866553 2 2 46788999877778865 21 1111 13469999999988776 1
Q ss_pred ----chhhHHHHHHHHHHHhhHHHHhhhHHHHHHHHHHHHHHHhhhc
Q 044429 249 ----MGKMQHVQTSLKELEGSIEGLEKNLENLFRRLIRTRASLLNII 291 (295)
Q Consensus 249 ----~~~~~~~~~~le~LE~~I~~lE~gle~lFR~LI~tRVSLLNIl 291 (295)
.+.++++.+-.+.|++++++||.+++.+|+++|.+|..+|+.|
T Consensus 343 ~~ev~~~V~EL~~~~~~L~~GLdpLerqVre~Fh~IV~sR~elLd~l 389 (389)
T PF05633_consen 343 EEEVREAVEELARVCEALSQGLDPLERQVREVFHRIVRSRTELLDSL 389 (389)
T ss_pred HHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHhhHHHHhcC
Confidence 2335888899999999999999999999999999999999875
No 3
>PF05055 DUF677: Protein of unknown function (DUF677); InterPro: IPR007749 This entry contains proteins belonging to the UPF0496 family, found in plants. This family includes AT14A like proteins from Arabidopsis thaliana. At14a contains a small domain that has sequence similarities to integrins from fungi, insects and humans. Transcripts of At14a are found in all Arabidopsis tissues and the protein localises partly to the plasma membrane [].
Probab=95.03 E-value=3.7 Score=39.85 Aligned_cols=43 Identities=9% Similarity=0.245 Sum_probs=40.2
Q ss_pred HHHHHHhhhhhHHHHHHhhhHHHHHHHHHHHHHHHHHHHhccC
Q 044429 83 QKCIDELLDVSVKLLDICGITRDSMLQIKERVQGLHSMARRRK 125 (295)
Q Consensus 83 ~k~vee~LD~sl~LLD~C~~~rd~ll~lKe~v~eLqsalRRr~ 125 (295)
...|++|.|.|+.=+|+|++...++-+.+.+.+-++.+|.+-+
T Consensus 65 ~~Lv~~YFd~S~~a~~~C~~L~k~I~~aR~~~~~I~~al~~~~ 107 (336)
T PF05055_consen 65 FRLVSDYFDSSLEASDFCEALLKCIHRARDNYLPIRRALKQFE 107 (336)
T ss_pred HHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhh
Confidence 4689999999999999999999999999999999999998865
No 4
>cd07665 BAR_SNX1 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 1. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. SNX1 is a component of the retromer complex, a membrane coat multimeric complex required for endosomal retrieval of lysosomal hydrolase receptors to the Golgi. The retromer consists of a cargo-recognition subcomplex and a subcomplex formed by a dimer of sorting nexins (SNX1 and/or SNX2), which ensures effcient cargo sorting by facilitating proper membrane localization
Probab=78.09 E-value=26 Score=32.31 Aligned_cols=71 Identities=20% Similarity=0.262 Sum_probs=47.2
Q ss_pred HHHHhHHhhhHHHHHhHHHHHcCchhHHHHhhhhhhhHHHHHHhhhhhHHHHHHhhhHHHHHHHHHHHHHHHHHHHhccC
Q 044429 46 ESICKSLSGLEDLYICIDDLLNMASTQQVLSQNQNQHQKCIDELLDVSVKLLDICGITRDSMLQIKERVQGLHSMARRRK 125 (295)
Q Consensus 46 ~~i~~~L~~L~~l~~~~~~Ll~lP~~q~aL~~~~~~~~k~vee~LD~sl~LLD~C~~~rd~ll~lKe~v~eLqsalRRr~ 125 (295)
.+++..|+.|.+++..+.++.+--.-|. ---+.+.||+.++++..+-.+=+.=..+-++.+.++.-|.+++
T Consensus 76 ~~Ls~als~laev~~~i~~~~~~qa~qd---------~~~f~e~l~eYiRli~SVK~~f~~R~k~~~~~~~~~~~l~kKr 146 (234)
T cd07665 76 TALSRALSQLAEVEEKIEQLHQEQANND---------FFLLAELLADYIRLLSAVRGAFDQRMKTWQRWQDAQAMLQKKR 146 (234)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHH---------HHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4577889999999999999885422222 3357899999999876653333333344455566666666653
No 5
>cd07664 BAR_SNX2 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 2. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. SNX2 is a component of the retromer complex, a membrane coat multimeric complex required for endosomal retrieval of lysosomal hydrolase receptors to the Golgi. The retromer consists of a cargo-recognition subcomplex and a subcomplex formed by a dimer of sorting nexins (SNX1 and/or SNX2), which ensures effcient cargo sorting by facilitating proper membrane localization
Probab=75.61 E-value=32 Score=31.60 Aligned_cols=68 Identities=18% Similarity=0.202 Sum_probs=45.2
Q ss_pred HHHHhHHhhhHHHHHhHHHHHcCchhHHHHhhhhhhhHHHHHHhhhhhHHHHHHhhhHHHHHHHHHHHHH---HHHHHHh
Q 044429 46 ESICKSLSGLEDLYICIDDLLNMASTQQVLSQNQNQHQKCIDELLDVSVKLLDICGITRDSMLQIKERVQ---GLHSMAR 122 (295)
Q Consensus 46 ~~i~~~L~~L~~l~~~~~~Ll~lP~~q~aL~~~~~~~~k~vee~LD~sl~LLD~C~~~rd~ll~lKe~v~---eLqsalR 122 (295)
..++..|+.|.+++..+.++.+--..|. ---+.+.||+.++++ |+.|++|.+-....+ .++..|.
T Consensus 76 ~~ls~~l~~laev~~ki~~~~~~qa~~d---------~~~l~e~L~eYiR~i---~svK~~f~~R~k~~~~~~~a~~~L~ 143 (234)
T cd07664 76 TALSRALSQLAEVEEKIDQLHQDQAFAD---------FYLFSELLGDYIRLI---AAVKGVFDQRMKCWQKWQDAQVTLQ 143 (234)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHh---------HHHHHhhHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4578899999999999999864433333 234678999999986 555666655554444 4444466
Q ss_pred ccC
Q 044429 123 RRK 125 (295)
Q Consensus 123 Rr~ 125 (295)
+++
T Consensus 144 kkr 146 (234)
T cd07664 144 KKR 146 (234)
T ss_pred HHH
Confidence 554
No 6
>cd07597 BAR_SNX8 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 8. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. SNX8 and the yeast counterpart Mvp1p are involved in sorting and delivery of late-Golgi proteins, such as carboxypeptidase Y, to vacuoles. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=67.46 E-value=37 Score=31.22 Aligned_cols=55 Identities=22% Similarity=0.197 Sum_probs=40.2
Q ss_pred hHHHHhHHhhhHHHHHhHHHHHcCchhHHHHhhhhhhhHHHHHHhhhhhHHHHHHhhhHHHHHHHHH
Q 044429 45 AESICKSLSGLEDLYICIDDLLNMASTQQVLSQNQNQHQKCIDELLDVSVKLLDICGITRDSMLQIK 111 (295)
Q Consensus 45 s~~i~~~L~~L~~l~~~~~~Ll~lP~~q~aL~~~~~~~~k~vee~LD~sl~LLD~C~~~rd~ll~lK 111 (295)
...+..||..+..-+..+.++. . ++ . ..|-+..+|..=.++|+|.++||.|-.-+
T Consensus 86 ~~~l~~~l~~~s~~~~~~s~~~---~-~~------a--~~~~~~vlE~Lk~~~d~l~S~r~lf~R~~ 140 (246)
T cd07597 86 WGDINEGLSSLSKHFQLLSDLS---E-DE------A--RAEEDGVLEKLKLQLDLLVSLRDLFERHE 140 (246)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH---H-HH------H--HHHHhhhhHHHHHHHHHHHHHHHHHHHHH
Confidence 4557777777777666666654 2 22 2 56789999999999999999999876443
No 7
>KOG2911 consensus Uncharacterized conserved protein [Function unknown]
Probab=57.42 E-value=1.5e+02 Score=29.86 Aligned_cols=46 Identities=20% Similarity=0.357 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHHhccCCCccchhhhHHHHHHHHhhhHHHHHHHHHHHhhcc
Q 044429 110 IKERVQGLHSMARRRKGDSSIENTVASYTCFRKKMNKDAKKFIATLKQMDN 160 (295)
Q Consensus 110 lKe~v~eLqsalRRr~g~~~~~~~v~~y~~~rKk~kK~i~k~l~~Lk~~~~ 160 (295)
++++=..+..++|-++. .--..|+|.||.+.|.+.++...+-..+.
T Consensus 256 ie~~~~~~r~~~k~g~K-----~iA~~ylr~rk~~eK~~er~~~~l~~l~~ 301 (439)
T KOG2911|consen 256 IEKSKEKLRQALKEGKK-----QIAITYLRARKLLEKDLERKVSSLNNLET 301 (439)
T ss_pred HHHHHHHHHHHHHhcch-----HHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence 34444555566666541 12356999999999999999877766543
No 8
>cd07662 BAR_SNX6 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 6. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. SNX6 forms a stable complex with SNX1 and may be a component of the retromer complex, a membrane coat multimeric complex required for endosomal retrieval of lysosomal hydrolase receptors to the Golgi, acting as a mammalian equivalent of yeast Vsp17p. It interacts with the receptor serine/threonine kinases from the transforming growth factor-beta family. It also plays
Probab=57.26 E-value=1.6e+02 Score=27.03 Aligned_cols=97 Identities=10% Similarity=0.167 Sum_probs=59.8
Q ss_pred hHHHHhHHhhhHHHHHhHHHHHcCchhHHHHhhhhhhhHHHHHHhhhhhHHHHHHhhhHHHHHHHHHHHHH---HHHHHH
Q 044429 45 AESICKSLSGLEDLYICIDDLLNMASTQQVLSQNQNQHQKCIDELLDVSVKLLDICGITRDSMLQIKERVQ---GLHSMA 121 (295)
Q Consensus 45 s~~i~~~L~~L~~l~~~~~~Ll~lP~~q~aL~~~~~~~~k~vee~LD~sl~LLD~C~~~rd~ll~lKe~v~---eLqsal 121 (295)
++.+...|.+|.|+++.+..+-..-.... .--..+.|+..+++++ +.+|.|-+-=.+.+ ..+.+|
T Consensus 75 ~t~L~~~l~~laev~eki~~l~~~~A~~e---------~l~L~e~L~~Y~r~~~---A~Kdll~rR~r~l~~~enA~k~L 142 (218)
T cd07662 75 STDICKFFLKVSELFDKTRKIEARVAADE---------DLKLSDLLKYYLRESQ---AAKDLLYRRSRSLVDYENANKAL 142 (218)
T ss_pred chhHHHHHHHHHHHHHHHHHHHHHHhhhh---------hhhHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHH
Confidence 45688899999999999999885432222 2235778888888765 56676665444444 455566
Q ss_pred hccCCCccchhhhHHHHHHHHhhhHHHHHHHHHHH
Q 044429 122 RRRKGDSSIENTVASYTCFRKKMNKDAKKFIATLK 156 (295)
Q Consensus 122 RRr~g~~~~~~~v~~y~~~rKk~kK~i~k~l~~Lk 156 (295)
.+.+ +.+ ..|...-...+.+.+++.++-...|
T Consensus 143 ~KaR-~~~--kev~~aE~~~~~a~~~Fe~IS~~aK 174 (218)
T cd07662 143 DKAR-AKN--KDVLQAETTQQLCCQKFEKISESAK 174 (218)
T ss_pred HHHH-HcC--ChHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6665 111 4555555556666666655544443
No 9
>PF05600 DUF773: Protein of unknown function (DUF773); InterPro: IPR008491 This family contains several eukaryotic sequences which are thought to be CDK5 activator-binding proteins, however, the function of this family is unknown.
Probab=56.23 E-value=2e+02 Score=29.52 Aligned_cols=95 Identities=13% Similarity=0.218 Sum_probs=74.9
Q ss_pred HHhhhHHHHHhHHHHH---cCchhHHHHhhhhhhhHHHHHHhhhhhHHHHHHhhhHHHHHHHHHHHHHHHHHHHhccCCC
Q 044429 51 SLSGLEDLYICIDDLL---NMASTQQVLSQNQNQHQKCIDELLDVSVKLLDICGITRDSMLQIKERVQGLHSMARRRKGD 127 (295)
Q Consensus 51 ~L~~L~~l~~~~~~Ll---~lP~~q~aL~~~~~~~~k~vee~LD~sl~LLD~C~~~rd~ll~lKe~v~eLqsalRRr~g~ 127 (295)
.-..+.+....|++++ .-|.+|+-+.=... .+.||.+-+..-.-+..+..++.....+.+..++++..+..-
T Consensus 398 t~~~i~~ml~~V~~ii~~Lt~~~~~~L~~Ik~S--prYvdrl~~~L~qk~~~~~k~~~~~~~l~~kr~e~~~e~~~l--- 472 (507)
T PF05600_consen 398 TAESIEEMLSAVEEIISQLTNPRTQHLFMIKSS--PRYVDRLVESLQQKLKQEEKLRRKREDLEEKRQEAQEEQQEL--- 472 (507)
T ss_pred CHHHHHHHHHHHHHHHHHhcCHHHHHHHHHhcC--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh---
Confidence 3444555665666655 45777776554455 789999999999999999999999999999999999988776
Q ss_pred ccchhhhHHHHHHHHhhhHHHHHHHH
Q 044429 128 SSIENTVASYTCFRKKMNKDAKKFIA 153 (295)
Q Consensus 128 ~~~~~~v~~y~~~rKk~kK~i~k~l~ 153 (295)
+.++...+...|.++|.|.+-+.
T Consensus 473 ---~pkL~~l~~~Tr~Lq~~iE~~IS 495 (507)
T PF05600_consen 473 ---EPKLDALVERTRELQKQIEADIS 495 (507)
T ss_pred ---HHHHHHHHHHHHHHHHHHHHHHH
Confidence 36888899899999999987653
No 10
>PF14389 Lzipper-MIP1: Leucine-zipper of ternary complex factor MIP1
Probab=53.94 E-value=25 Score=27.43 Aligned_cols=34 Identities=26% Similarity=0.500 Sum_probs=28.0
Q ss_pred hhHHHHHHHHHHHhhHHHHhhhHHHHHHHHHHHH
Q 044429 251 KMQHVQTSLKELEGSIEGLEKNLENLFRRLIRTR 284 (295)
Q Consensus 251 ~~~~~~~~le~LE~~I~~lE~gle~lFR~LI~tR 284 (295)
.++.+...+..||..|--||..+..|||.|.+-|
T Consensus 55 ~~keLL~EIA~lE~eV~~LE~~v~~L~~~l~~q~ 88 (88)
T PF14389_consen 55 KAKELLEEIALLEAEVAKLEQKVLSLYRQLFQQR 88 (88)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 4455666778999999999999999999997643
No 11
>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=50.95 E-value=73 Score=25.48 Aligned_cols=40 Identities=18% Similarity=0.282 Sum_probs=31.3
Q ss_pred hHHHHHHHHHHHhhHHHHhhhHHHHHHHHHHHHHHHhhhc
Q 044429 252 MQHVQTSLKELEGSIEGLEKNLENLFRRLIRTRASLLNII 291 (295)
Q Consensus 252 ~~~~~~~le~LE~~I~~lE~gle~lFR~LI~tRVSLLNIl 291 (295)
..++.++.+.+|..|..+|...+.+-..+-..+-.|=-++
T Consensus 69 ~~~l~~r~e~ie~~i~~lek~~~~l~~~l~e~q~~l~~~~ 108 (110)
T TIGR02338 69 IQELKEKKETLELRVKTLQRQEERLREQLKELQEKIQEAL 108 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4788889999999999999888888888777766654433
No 12
>PF10018 Med4: Vitamin-D-receptor interacting Mediator subunit 4; InterPro: IPR019258 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. Members of this family represent the Med4 subunit of the Mediator (Med) complex [, ]. ; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex
Probab=48.46 E-value=55 Score=28.80 Aligned_cols=56 Identities=23% Similarity=0.421 Sum_probs=44.0
Q ss_pred hHHHHHHHhhcc--CchhhHHHHHHHHHHHhhHHHHhhhHHHHHHHHHHHHHHHhhhc
Q 044429 236 ELESVDVALRSH--DMGKMQHVQTSLKELEGSIEGLEKNLENLFRRLIRTRASLLNII 291 (295)
Q Consensus 236 E~~~vDaal~~l--~~~~~~~~~~~le~LE~~I~~lE~gle~lFR~LI~tRVSLLNIl 291 (295)
+|-..|..|... ....-|..+.+++.|+..+..++..+..+-+.|..+|..|-+++
T Consensus 6 ~L~~~d~~L~~~L~~l~~hq~~~~~I~~L~~e~~~ld~~i~~~~~~L~~~~~~L~~~~ 63 (188)
T PF10018_consen 6 DLIEADDELSSALEELQEHQENQARIQQLRAEIEELDEQIRDILKQLKEARKELRTLP 63 (188)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444444332 22455788999999999999999999999999999999998886
No 13
>TIGR01834 PHA_synth_III_E poly(R)-hydroxyalkanoic acid synthase, class III, PhaE subunit. This model represents the PhaE subunit of the heterodimeric class (class III) of polymerase for poly(R)-hydroxyalkanoic acids (PHAs), carbon and energy storage polymers of many bacteria. The most common PHA is polyhydroxybutyrate but about 150 different constituent hydroxyalkanoic acids (HAs) have been identified in various species. This model must be designated subfamily to indicate the heterogeneity of PHAs.
Probab=46.12 E-value=2.1e+02 Score=27.81 Aligned_cols=37 Identities=19% Similarity=0.415 Sum_probs=31.0
Q ss_pred HHHHhhcc---CchhhHHHHHHHHHHHhhHHHHhhhHHHH
Q 044429 240 VDVALRSH---DMGKMQHVQTSLKELEGSIEGLEKNLENL 276 (295)
Q Consensus 240 vDaal~~l---~~~~~~~~~~~le~LE~~I~~lE~gle~l 276 (295)
+|..|..| ...++++++++|.+||..+..|+.+++.+
T Consensus 276 ~e~~L~~LnlPTRsElDe~~krL~ELrR~vr~L~k~l~~l 315 (320)
T TIGR01834 276 VEALLKMLNLPTRSELDEAHQRIQQLRREVKSLKKRLGDL 315 (320)
T ss_pred HHHHHHhCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 45555655 57889999999999999999999998865
No 14
>PRK09343 prefoldin subunit beta; Provisional
Probab=46.02 E-value=87 Score=25.68 Aligned_cols=41 Identities=22% Similarity=0.225 Sum_probs=33.2
Q ss_pred hHHHHHHHHHHHhhHHHHhhhHHHHHHHHHHHHHHHhhhcc
Q 044429 252 MQHVQTSLKELEGSIEGLEKNLENLFRRLIRTRASLLNIIS 292 (295)
Q Consensus 252 ~~~~~~~le~LE~~I~~lE~gle~lFR~LI~tRVSLLNIls 292 (295)
..++.+++|.++..|..+|...+.+=..+...+-.|=.++.
T Consensus 73 ~~~l~~r~E~ie~~ik~lekq~~~l~~~l~e~q~~l~~ll~ 113 (121)
T PRK09343 73 EKELKERKELLELRSRTLEKQEKKLREKLKELQAKINEMLS 113 (121)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 48888899999999999999888888888887777655553
No 15
>cd07626 BAR_SNX9_like The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 9 and Similar Proteins. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. This subfamily consists of SNX9, SNX18, SNX33, and similar proteins. SNX9 is localized to plasma membrane endocytic sites and acts primarily in clathrin-mediated endocytosis, while SNX18 is localized to peripheral endosomal structures, and acts in a trafficking pathway that is clathrin-independent but relies on AP-1 and PACS1. BAR domains for
Probab=40.94 E-value=2e+02 Score=25.86 Aligned_cols=53 Identities=11% Similarity=0.063 Sum_probs=33.7
Q ss_pred chHHHHhHHhhhHHHHHhHHHHHcCchhHHHHhhhhhhhHHHHHHhhhhhHHHHHHhhhHHHHHH
Q 044429 44 SAESICKSLSGLEDLYICIDDLLNMASTQQVLSQNQNQHQKCIDELLDVSVKLLDICGITRDSML 108 (295)
Q Consensus 44 ss~~i~~~L~~L~~l~~~~~~Ll~lP~~q~aL~~~~~~~~k~vee~LD~sl~LLD~C~~~rd~ll 108 (295)
.+..+...|..++++|+.|++|..--.-+ + ---+-|.|....+| |++++|+|.
T Consensus 63 ~~t~Ls~Al~~~g~~~e~Ig~l~~eQa~~-------D--~~~l~E~L~eY~gl---l~~~pdi~~ 115 (199)
T cd07626 63 TSVPLTQAIKHTGQAYEEIGELFAEQPKH-------D--LIPLLDGLHEYKGL---LSTFPDIIG 115 (199)
T ss_pred cchHHHHHHHHHHHHHHHHHHHHHHhhHh-------h--HHHHHHHHHHHHhH---HHhhhHHHH
Confidence 45679999999999999999998331111 1 01234455555554 466677663
No 16
>cd07596 BAR_SNX The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexins. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=38.52 E-value=2.4e+02 Score=24.18 Aligned_cols=34 Identities=18% Similarity=0.320 Sum_probs=15.6
Q ss_pred HHHhhhhhHHHHHHhhhHHHHHHHHHHHHHHHHH
Q 044429 86 IDELLDVSVKLLDICGITRDSMLQIKERVQGLHS 119 (295)
Q Consensus 86 vee~LD~sl~LLD~C~~~rd~ll~lKe~v~eLqs 119 (295)
...++|.-=.+++.|.+++++|..-.....+++.
T Consensus 88 ~~~~~e~L~~y~~~~~s~k~~l~~R~~~~~~~~~ 121 (218)
T cd07596 88 LVKLLEPLKEYLRYCQAVKETLDDRADALLTLQS 121 (218)
T ss_pred HHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444444445555555555444444444433
No 17
>KOG0994 consensus Extracellular matrix glycoprotein Laminin subunit beta [Extracellular structures]
Probab=34.68 E-value=7.8e+02 Score=28.52 Aligned_cols=34 Identities=24% Similarity=0.438 Sum_probs=26.0
Q ss_pred HHHHHHHHHhhHHHHhhhHHHHHHHHHHHHHHHhh
Q 044429 255 VQTSLKELEGSIEGLEKNLENLFRRLIRTRASLLN 289 (295)
Q Consensus 255 ~~~~le~LE~~I~~lE~gle~lFR~LI~tRVSLLN 289 (295)
-..+|+..+.-|.+||..+|.+-+. |+-||+.-+
T Consensus 1722 ~~~~L~~~~aeL~~Le~r~~~vl~~-I~~rv~~y~ 1755 (1758)
T KOG0994|consen 1722 NEQALEDKAAELAGLEKRVESVLDH-INERVLYYA 1755 (1758)
T ss_pred hhHHHHHHHHHhhhHHHHHHHHHHH-Hhhhhhhhh
Confidence 3457777788899999999998765 777887654
No 18
>PF03866 HAP: Hydrophobic abundant protein (HAP) ; InterPro: IPR005566 Expression of Hydrophobic Abundant protein is thought to be developmentally regulated and possibly involved in spherule cell wall formation [].
Probab=34.62 E-value=1.6e+02 Score=25.05 Aligned_cols=59 Identities=17% Similarity=0.352 Sum_probs=49.2
Q ss_pred cchHHHHhHHhhhHHHHHhHHHHHcCchhHHHHhhhhhhhHHHHHHhhhhhHHHHHHhhhHHHHHH
Q 044429 43 ASAESICKSLSGLEDLYICIDDLLNMASTQQVLSQNQNQHQKCIDELLDVSVKLLDICGITRDSML 108 (295)
Q Consensus 43 ~ss~~i~~~L~~L~~l~~~~~~Ll~lP~~q~aL~~~~~~~~k~vee~LD~sl~LLD~C~~~rd~ll 108 (295)
+|...|+..|-++....+.+||.++...+|.-| ...|+.++--.+.+|=+-.+.-|++.
T Consensus 92 ~TVtgIln~ll~fd~~~~~vee~l~~~~aq~ll-------aglv~ai~alplavlval~~lt~ala 150 (164)
T PF03866_consen 92 STVTGILNSLLGFDAILELVEEVLHVLLAQSLL-------AGLVNAILALPLAVLVALSTLTDALA 150 (164)
T ss_pred chHHHHHHHHhcccHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHhHHHHHHHHHHHHHHHH
Confidence 346779999999999999999999998887644 45788899889988888888887764
No 19
>PF10805 DUF2730: Protein of unknown function (DUF2730); InterPro: IPR020269 This entry represents a family of various hypothetical proteins. The proteins, which include HI1498 and Gp25, from phage Mu, are currently uncharacterised.
Probab=34.30 E-value=1.1e+02 Score=24.38 Aligned_cols=42 Identities=21% Similarity=0.399 Sum_probs=32.0
Q ss_pred HHHHHHHhhcc-CchhhHHHHHHHHHHHhhHHHHhhhHHHHHH
Q 044429 237 LESVDVALRSH-DMGKMQHVQTSLKELEGSIEGLEKNLENLFR 278 (295)
Q Consensus 237 ~~~vDaal~~l-~~~~~~~~~~~le~LE~~I~~lE~gle~lFR 278 (295)
+..++..+..+ +..++..++..+.+++..+..++..++.+=|
T Consensus 51 l~~lE~~l~~LPt~~dv~~L~l~l~el~G~~~~l~~~l~~v~~ 93 (106)
T PF10805_consen 51 LQALETKLEHLPTRDDVHDLQLELAELRGELKELSARLQGVSH 93 (106)
T ss_pred HHHHHHHHHhCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Confidence 34555555556 6788999999999999999999987776643
No 20
>cd07623 BAR_SNX1_2 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexins 1 and 2. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. This subfamily consists of SNX1, SNX2, and similar proteins. SNX1 and SNX2 are components of the retromer complex, a membrane coat multimeric complex required for endosomal retrieval of lysosomal hydrolase receptors to the Golgi. The retromer consists of a cargo-recognition subcomplex and a subcomplex formed by a dimer of sorting nexins (SNX1 and/or SNX2), wh
Probab=33.30 E-value=3.6e+02 Score=24.22 Aligned_cols=63 Identities=21% Similarity=0.226 Sum_probs=42.9
Q ss_pred HHHHhHHhhhHHHHHhHHHHHcCchhHHHHhhhhhhhHHHHHHhhhhhHHHHHHhhhHHHHHHHHHHHHHHHHHH
Q 044429 46 ESICKSLSGLEDLYICIDDLLNMASTQQVLSQNQNQHQKCIDELLDVSVKLLDICGITRDSMLQIKERVQGLHSM 120 (295)
Q Consensus 46 ~~i~~~L~~L~~l~~~~~~Ll~lP~~q~aL~~~~~~~~k~vee~LD~sl~LLD~C~~~rd~ll~lKe~v~eLqsa 120 (295)
..+...|+.++++|..+.++..=-..|. ---+.+.|+..+++ |++++++|.+-....+..|.+
T Consensus 66 ~~Ls~al~~la~~~~ki~~~~~~qa~~d---------~~~l~e~L~eY~r~---i~svk~~f~~R~~a~~~~q~a 128 (224)
T cd07623 66 TSLSRALSQLAEVEEKIEQLHGEQADTD---------FYILAELLKDYIGL---IGAIKDVFHERVKVWQNWQNA 128 (224)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHH
Confidence 4577888889999999888874322222 12356667777665 578888888877777666654
No 21
>PF02609 Exonuc_VII_S: Exonuclease VII small subunit; InterPro: IPR003761 Exonuclease VII is composed of two non-identical subunits; one large subunit and 4 small ones []. This enzyme catalyses exonucleolytic cleavage in either 5'-3' or 3'-5' direction to yield nucleoside 5'-phosphates.; GO: 0008855 exodeoxyribonuclease VII activity, 0006308 DNA catabolic process, 0009318 exodeoxyribonuclease VII complex; PDB: 1VP7_F.
Probab=32.19 E-value=1.7e+02 Score=20.21 Aligned_cols=46 Identities=24% Similarity=0.336 Sum_probs=27.1
Q ss_pred HHHHHHHHHHHHHHHHHHhccCCCccchhhhHHHHHHHHhhhHHHHHHHHHHHhhc
Q 044429 104 RDSMLQIKERVQGLHSMARRRKGDSSIENTVASYTCFRKKMNKDAKKFIATLKQMD 159 (295)
Q Consensus 104 rd~ll~lKe~v~eLqsalRRr~g~~~~~~~v~~y~~~rKk~kK~i~k~l~~Lk~~~ 159 (295)
.+++..+.+-+..|++ |+.+++..+..|-+..+ -+++|-..|...+
T Consensus 2 Ee~~~~Le~Iv~~Le~------~~~sLdes~~lyeeg~~----l~~~c~~~L~~~e 47 (53)
T PF02609_consen 2 EEAMERLEEIVEKLES------GELSLDESLKLYEEGME----LIKKCQERLEEAE 47 (53)
T ss_dssp HHHHHHHHHHHHHHHT------T-S-HHHHHHHHHHHHH----HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHc------CCCCHHHHHHHHHHHHH----HHHHHHHHHHHHH
Confidence 4555566666665543 77888888888776665 5555555555443
No 22
>PF12325 TMF_TATA_bd: TATA element modulatory factor 1 TATA binding; InterPro: IPR022091 This is the C-terminal conserved coiled coil region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes []. The proteins bind to the TATA element of some RNA polymerase II promoters and repress their activity. by competing with the binding of TATA binding protein. TMF1_TATA_bd is the most conserved part of the TMFs []. TMFs are evolutionarily conserved golgins that bind Rab6, a ubiquitous ras-like GTP-binding Golgi protein, and contribute to Golgi organisation in animal [] and plant cells. The Rab6-binding domain appears to be the same region as this C-terminal family [].
Probab=28.81 E-value=65 Score=26.66 Aligned_cols=39 Identities=26% Similarity=0.428 Sum_probs=26.7
Q ss_pred HHHHHHHHHhccCCC-ccchhhhHHHHHHHHhhhHHHHHH
Q 044429 113 RVQGLHSMARRRKGD-SSIENTVASYTCFRKKMNKDAKKF 151 (295)
Q Consensus 113 ~v~eLqsalRRr~g~-~~~~~~v~~y~~~rKk~kK~i~k~ 151 (295)
-+.-|++.|||++|+ ..+...++..-..|+.+..+|-++
T Consensus 17 ~ve~L~s~lr~~E~E~~~l~~el~~l~~~r~~l~~Eiv~l 56 (120)
T PF12325_consen 17 LVERLQSQLRRLEGELASLQEELARLEAERDELREEIVKL 56 (120)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 466789999999853 344566666666666666666655
No 23
>PF03670 UPF0184: Uncharacterised protein family (UPF0184); InterPro: IPR022788 This family of proteins has no known function.
Probab=25.61 E-value=1.4e+02 Score=23.23 Aligned_cols=28 Identities=21% Similarity=0.430 Sum_probs=21.5
Q ss_pred HHHHHHHHHHhhHHHHhhhHHHHHHHHH
Q 044429 254 HVQTSLKELEGSIEGLEKNLENLFRRLI 281 (295)
Q Consensus 254 ~~~~~le~LE~~I~~lE~gle~lFR~LI 281 (295)
.+-..|..|..|++.||...+.|+-+|.
T Consensus 30 ~ins~LD~Lns~LD~LE~rnD~l~~~L~ 57 (83)
T PF03670_consen 30 AINSMLDQLNSCLDHLEQRNDHLHAQLQ 57 (83)
T ss_pred HHHHHHHHHHHHHHHHHHhhhHHHHHHH
Confidence 3445888888888888888888876664
No 24
>cd07663 BAR_SNX5 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 5. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. SNX5, abundantly expressed in macrophages, regulates macropinocytosis, a process that enables cells to internalize large amounts of external solutes. It may also be a component of the retromer complex, a membrane coat multimeric complex required for endosomal retrieval of lysosomal hydrolase receptors to the Golgi, acting as a mammalian equivalent of yeast Vsp17p. It
Probab=25.08 E-value=5.3e+02 Score=23.54 Aligned_cols=66 Identities=14% Similarity=0.179 Sum_probs=42.5
Q ss_pred HHHhHHhhhHHHHHhHHHHHcCchhHHHHhhhhhhhHHHHHHhhhhhHHHHHHhhhHHHHHHHHHH---HHHHHHHHHhc
Q 044429 47 SICKSLSGLEDLYICIDDLLNMASTQQVLSQNQNQHQKCIDELLDVSVKLLDICGITRDSMLQIKE---RVQGLHSMARR 123 (295)
Q Consensus 47 ~i~~~L~~L~~l~~~~~~Ll~lP~~q~aL~~~~~~~~k~vee~LD~sl~LLD~C~~~rd~ll~lKe---~v~eLqsalRR 123 (295)
.+...|+.|.++++.+..+..--..+. .--..+.|+..+++..+ .+|.|-+-=. .-++++.+|.+
T Consensus 77 ~L~kals~lae~~Ek~~~l~~r~A~~d---------~~~L~e~L~~Y~r~~~A---~K~ll~rR~ral~~~e~A~~~L~K 144 (218)
T cd07663 77 VIKKYLLKVAELFEKLRKVEDRVASDQ---------DLKLTELLRYYMLNIEA---AKDLLYRRARALADYENSNKALDK 144 (218)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHhH---------HhhHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 477889999999999999874433222 33468899999988755 5555544332 23344455544
Q ss_pred c
Q 044429 124 R 124 (295)
Q Consensus 124 r 124 (295)
.
T Consensus 145 a 145 (218)
T cd07663 145 A 145 (218)
T ss_pred H
Confidence 4
No 25
>KOG3681 consensus Alpha-catenin [Extracellular structures]
Probab=24.31 E-value=9.7e+02 Score=26.29 Aligned_cols=70 Identities=14% Similarity=0.292 Sum_probs=46.4
Q ss_pred HHHHHHhhhhhHHHHHHhh--hHHHHH--------HHHHHHHHHHHHHHhccCCCccchhhhHHHHHHHHhhhHHHHHHH
Q 044429 83 QKCIDELLDVSVKLLDICG--ITRDSM--------LQIKERVQGLHSMARRRKGDSSIENTVASYTCFRKKMNKDAKKFI 152 (295)
Q Consensus 83 ~k~vee~LD~sl~LLD~C~--~~rd~l--------l~lKe~v~eLqsalRRr~g~~~~~~~v~~y~~~rKk~kK~i~k~l 152 (295)
++..+.++|+...+.|.|. -.|+.+ -++.....|+++.-+++++.+.+...+..--+.-|.++|++.+.+
T Consensus 290 e~~le~Iis~aa~~aDs~~~d~rreri~a~~~al~q~l~d~l~E~~~~~~~k~~~~~l~~ai~~l~kkl~dLrrqLr~a~ 369 (835)
T KOG3681|consen 290 EVRLEQIISGAALMADSCCRDLRRERIVAECNALRQALQDLLSEYQSNAGRKGRSPALELAIDQLTKKLKDLKRQLRKAA 369 (835)
T ss_pred HHHHHHHHHHHHHHHHHHhHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhccccChhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 7889999999999999985 122222 235556667777645554456666666666666666677766653
No 26
>PF00429 TLV_coat: ENV polyprotein (coat polyprotein); InterPro: IPR018154 Enveloped viruses such as Human immunodeficiency virus 1, influenza virus, and Ebola virus sp. express a surface glycoprotein that mediates both cell attachment and fusion of viral and cellular membranes. The ENV polyprotein (coat polyprotein) usually contains two coat proteins which differ depending on the source. The structure of a number of the ENV polyprotein domains have been determined: The crystal structure of an extraviral segment of the Moloney murine leukemia virus (MoMuLV) transmembrane (TM) subunit has been determined to 1.7-A resolution. This segment contains a trimeric coiled coil, with a hydrophobic cluster at its base and a strand that packs in an antiparallel orientation against the coiled coil. This structure serves as a model for a wide range of viral fusion proteins; key residues in this structure are conserved among C- and D-type retroviruses and the filovirus ebola []. An essential step in retrovirus infection is the binding of the virus to its receptor on a target cell. The structure of the receptor-binding domain of the envelope glycoprotein from Friend murine leukemia virus (F-MuLV) has been determined determined to 2.0-A resolution. The core of the domain is an antiparallel beta sandwich, with two interstrand loops forming a helical subdomain atop the sandwich. The residues in the helical region, but not in the beta sandwich, are highly variable among mammalian C-type retroviruses with distinct tropisms, indicating that the helical subdomain determines the receptor specificity of the virus []. ; PDB: 1LCS_B 1MOF_A 1XNL_A 2XZ3_A 1AOL_A 1Y4M_C.
Probab=24.17 E-value=1.4e+02 Score=31.14 Aligned_cols=34 Identities=29% Similarity=0.506 Sum_probs=30.5
Q ss_pred HHHHHHHHHHhhHHHHhhhHHHHHHHHHHHHHHH
Q 044429 254 HVQTSLKELEGSIEGLEKNLENLFRRLIRTRASL 287 (295)
Q Consensus 254 ~~~~~le~LE~~I~~lE~gle~lFR~LI~tRVSL 287 (295)
.+.+-+++++.+|..|++.+..+--..+|+|.+|
T Consensus 432 ~~~~d~~~~~~~i~~l~~~~~sl~~~v~qnr~~l 465 (561)
T PF00429_consen 432 ALEEDLQALEDSISALQEQLTSLAEVVLQNRRAL 465 (561)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhcCchhh
Confidence 4456788999999999999999999999999985
No 27
>cd00823 TopoIIB_Trans TopoIIB_Trans: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIB family of DNA topoisomerases similar to Sulfolobus shibatae topoisomerase VI (topoVI). The sole representative of the Type IIB family is topo VI. Topo VI enzymes are heterotetramers found in archaea and plants. S. shibatae topoVI relaxes both positive and negative supercoils, and in addition has a strong decatenase activity. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is known to be important in nucleotide hydrolysis and the transduction of structural signals from ATP-binding site to the DNA breakage/reunion regions of the enzymes.
Probab=23.67 E-value=64 Score=27.88 Aligned_cols=42 Identities=10% Similarity=0.134 Sum_probs=30.5
Q ss_pred hhHHHHHHHHHHHHHHHHHHHhccCCCccchhhhHHHHHHHHhhhHHH
Q 044429 101 GITRDSMLQIKERVQGLHSMARRRKGDSSIENTVASYTCFRKKMNKDA 148 (295)
Q Consensus 101 ~~~rd~ll~lKe~v~eLqsalRRr~g~~~~~~~v~~y~~~rKk~kK~i 148 (295)
++-+|++...-|...|++.||+--- -+++.|++-++++++.-
T Consensus 108 s~~KeaIadvpEI~~EIrlAl~~~~------R~L~~~l~kk~~~~e~~ 149 (151)
T cd00823 108 SEGKEAIADIPEIEEEIKLALQEVA------RKLKRYLSKKRKERELQ 149 (151)
T ss_pred CcchhhhcCCHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHh
Confidence 4567888888888888888887652 46788888777776543
No 28
>TIGR01280 xseB exodeoxyribonuclease VII, small subunit. This protein is the small subunit for exodeoxyribonuclease VII. Exodeoxyribonuclease VII is made of a complex of four small subunits to one large subunit. The complex degrades single-stranded DNA into large acid-insoluble oligonucleotides. These nucleotides are then degraded further into acid-soluble oligonucleotides.
Probab=23.05 E-value=3.1e+02 Score=20.16 Aligned_cols=35 Identities=20% Similarity=0.293 Sum_probs=25.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHhccCCCccchhhhHHHHHHHH
Q 044429 102 ITRDSMLQIKERVQGLHSMARRRKGDSSIENTVASYTCFRK 142 (295)
Q Consensus 102 ~~rd~ll~lKe~v~eLqsalRRr~g~~~~~~~v~~y~~~rK 142 (295)
+|-+++..+.+.|..|+. |+.+++..+..|-+..+
T Consensus 2 sfEe~l~~Le~Iv~~LE~------~~l~Leesl~lyeeG~~ 36 (67)
T TIGR01280 2 SFEEALSELEQIVQKLES------GDLALEEALNLFERGMA 36 (67)
T ss_pred CHHHHHHHHHHHHHHHHC------CCCCHHHHHHHHHHHHH
Confidence 356777777777777754 78888888888876555
No 29
>PF09577 Spore_YpjB: Sporulation protein YpjB (SpoYpjB); InterPro: IPR014231 Proteins in thie entry, typified by YpjB, are restricted to a subset of the endospore-forming bacteria which includes Bacillus species, but not species. In Bacillus subtilis, ypjB was found to be part of the sigma-E regulon []. Sigma-E is a sporulation sigma factor that regulates expression in the mother cell compartment. Null mutants of ypjB show a sporulation defect, but this gene is not, however, a part of the endospore formation minimal gene set.
Probab=22.67 E-value=6.1e+02 Score=23.37 Aligned_cols=56 Identities=20% Similarity=0.291 Sum_probs=39.6
Q ss_pred CCCCCCCChhhHH----HHHHhhhhhhhccccccccchHHHHhHHhhhHHHHHhHHH--HHcCchhHH
Q 044429 12 LPSRSHPSTIKTE----EELSKLKIWEEQEESSRLASAESICKSLSGLEDLYICIDD--LLNMASTQQ 73 (295)
Q Consensus 12 LPsr~HP~~~~~e----~~L~~Lr~~~~~s~~~~~~ss~~i~~~L~~L~~l~~~~~~--Ll~lP~~q~ 73 (295)
|-+..+|+..+.+ +.+++++..... ........++..+.+.|+-|.- .|+.|..+.
T Consensus 88 l~~~~qPLW~~~e~~i~~~~~~mk~a~~~------~~~~~f~~~~n~f~~~y~~I~Psl~I~~~~~~v 149 (232)
T PF09577_consen 88 LTHKHQPLWLQYEKPIMEDFQRMKQAAQK------GDKEAFRASLNEFLSHYELIRPSLTIDRPPEQV 149 (232)
T ss_pred hcCCCCCcHHHHHHHHHHHHHHHHHHHHh------CCHHHHHHHHHHHHHHHHHhcchhhccCCHHHH
Confidence 4456789999988 455566654432 3457789999999999999887 346666554
No 30
>cd00179 SynN Syntaxin N-terminus domain; syntaxins are nervous system-specific proteins implicated in the docking of synaptic vesicles with the presynaptic plasma membrane; they are a family of receptors for intracellular transport vesicles; each target membrane may be identified by a specific member of the syntaxin family; syntaxins contain a moderately well conserved amino-terminal domain, called Habc, whose structure is an antiparallel three-helix bundle; a linker of about 30 amino acids connects this to the carboxy-terminal region, designated H3 (t_SNARE), of the syntaxin cytoplasmic domain; the highly conserved H3 region forms a single, long alpha-helix when it is part of the core SNARE complex and anchors the protein on the cytoplasmic surface of cellular membranes; H3 is not included in defining this domain
Probab=22.52 E-value=4.3e+02 Score=21.53 Aligned_cols=63 Identities=19% Similarity=0.247 Sum_probs=43.0
Q ss_pred HHHHhhhHHHHHHHHHHHHHHHHHHHhccCC----CccchhhhHHHHHHHHhhhHHHHHHHHHHHhh
Q 044429 96 LLDICGITRDSMLQIKERVQGLHSMARRRKG----DSSIENTVASYTCFRKKMNKDAKKFIATLKQM 158 (295)
Q Consensus 96 LLD~C~~~rd~ll~lKe~v~eLqsalRRr~g----~~~~~~~v~~y~~~rKk~kK~i~k~l~~Lk~~ 158 (295)
+++.|...+..|-.++..+..++.....-.. +..+...+...+..-++.-+.+++.++.|+..
T Consensus 4 F~~~v~~I~~~i~~i~~~v~~l~~l~~~~~t~~~~~~~~~~~l~~~~~~~~~~~~~ik~~lk~l~~~ 70 (151)
T cd00179 4 FFEEVEEIRGNIDKISEDVEELQKLHSQLLTAPDADPELKQELESLVQEIKKLAKEIKGKLKELEES 70 (151)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5678888999999999999888877765531 22345555666666666666666666666554
No 31
>cd07630 BAR_SNX_like The Bin/Amphiphysin/Rvs (BAR) domain of uncharacterized Sorting Nexins. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. This subfamily is composed of uncharacterized proteins with similarity to sorting nexins (SNXs), which are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=21.47 E-value=5.8e+02 Score=22.69 Aligned_cols=93 Identities=10% Similarity=0.142 Sum_probs=52.8
Q ss_pred HHHhHHhhhHHHHHhHHHHHcCchhHHHHhhhhhhhHHHHHHhhhhhHHHHHHhhhHHHHHHHHHHHHHHHHH---HHhc
Q 044429 47 SICKSLSGLEDLYICIDDLLNMASTQQVLSQNQNQHQKCIDELLDVSVKLLDICGITRDSMLQIKERVQGLHS---MARR 123 (295)
Q Consensus 47 ~i~~~L~~L~~l~~~~~~Ll~lP~~q~aL~~~~~~~~k~vee~LD~sl~LLD~C~~~rd~ll~lKe~v~eLqs---alRR 123 (295)
.+...|+.|.+++..+.++..--..+ + .--+.+.|+..+++ |++.++.|-+--...++.+. .|.+
T Consensus 61 ~l~~~l~~lse~~e~i~~~~~~~a~~-------d--~~~Lg~~L~~Y~r~---i~a~K~~l~~R~~~~~~~~~a~k~l~K 128 (198)
T cd07630 61 ALNRLCTKLSEALEEAKENIEVVAGN-------N--ENTLGLTLDLYSRY---SESEKDMLFRRTCKLIEFENASKALEK 128 (198)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHH-------H--HhhHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56778888888888888887432221 1 23467778877776 46677777766666555544 4444
Q ss_pred cCCCccchhhhHHHHHHHHhhhHHHHHHHHHHH
Q 044429 124 RKGDSSIENTVASYTCFRKKMNKDAKKFIATLK 156 (295)
Q Consensus 124 r~g~~~~~~~v~~y~~~rKk~kK~i~k~l~~Lk 156 (295)
.+ .. +....-..++.+++.+.++-..+|
T Consensus 129 ar-~~----k~~~ae~~~~~a~~~fe~iS~~~k 156 (198)
T cd07630 129 AK-PQ----KKEQAEEAKKKAETEFEEISSLAK 156 (198)
T ss_pred hH-Hh----hHHHHHHHHHHHHHHHHHHHHHHH
Confidence 43 11 112222344445555555544443
No 32
>PF10393 Matrilin_ccoil: Trimeric coiled-coil oligomerisation domain of matrilin; InterPro: IPR019466 This entry represents a short domain found the matrilin (cartilage matrix) proteins. It forms a coiled coil structure and contains a single cysteine residue at its start which is likely to form a di-sulphide bridge with a corresponding cysteine in an upstream EGF domain (IPR006209 from INTERPRO), thereby spanning the VWA domain of the protein (IPR002035 from INTERPRO).This domain is likely to be responsible for protein trimerisation []. ; PDB: 1AQ5_C.
Probab=21.32 E-value=1.4e+02 Score=20.69 Aligned_cols=31 Identities=29% Similarity=0.427 Sum_probs=18.6
Q ss_pred hhHH-HHHHHhhccCchhhHHHHHHHHHHHhhHHHHhhhH
Q 044429 235 NELE-SVDVALRSHDMGKMQHVQTSLKELEGSIEGLEKNL 273 (295)
Q Consensus 235 nE~~-~vDaal~~l~~~~~~~~~~~le~LE~~I~~lE~gl 273 (295)
-+|+ +|..+| |.+..+|+++...++.||+++
T Consensus 15 v~FQ~~v~~~l--------q~Lt~kL~~vs~RLe~LEn~~ 46 (47)
T PF10393_consen 15 VAFQNKVTSAL--------QSLTQKLDAVSKRLEALENRL 46 (47)
T ss_dssp HHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHhcc
Confidence 4565 555444 455566666766777776653
No 33
>PF05377 FlaC_arch: Flagella accessory protein C (FlaC); InterPro: IPR008039 Although archaeal flagella appear superficially similar to those of bacteria, they are quite distinct []. In several archaea, the flagellin genes are followed immediately by the flagellar accessory genes flaCDEFGHIJ. The gene products may have a role in translocation, secretion, or assembly of the flagellum. FlaC is a protein whose exact role is unknown but it has been shown to be membrane-associated (by immuno-blotting fractionated cells) [].
Probab=21.30 E-value=2.5e+02 Score=20.23 Aligned_cols=32 Identities=28% Similarity=0.521 Sum_probs=21.0
Q ss_pred hhHHHHHHHhhccCchhhHHHHHHHHHHHhhHHHHhhhHH
Q 044429 235 NELESVDVALRSHDMGKMQHVQTSLKELEGSIEGLEKNLE 274 (295)
Q Consensus 235 nE~~~vDaal~~l~~~~~~~~~~~le~LE~~I~~lE~gle 274 (295)
||+.+++. .+..++++.+.+-..|++++.-+.
T Consensus 7 n~~~~~~~--------~i~tvk~en~~i~~~ve~i~envk 38 (55)
T PF05377_consen 7 NELPRIES--------SINTVKKENEEISESVEKIEENVK 38 (55)
T ss_pred HHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56666664 345667777777777777776653
No 34
>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=21.21 E-value=3.8e+02 Score=20.38 Aligned_cols=56 Identities=16% Similarity=0.264 Sum_probs=42.1
Q ss_pred HHHHHhhhHHHHHHHHHHHHHHHHHHHhccCCCccchhhhHHHHHHHHhhhHHHHHHHHHHHhhccc
Q 044429 95 KLLDICGITRDSMLQIKERVQGLHSMARRRKGDSSIENTVASYTCFRKKMNKDAKKFIATLKQMDNK 161 (295)
Q Consensus 95 ~LLD~C~~~rd~ll~lKe~v~eLqsalRRr~g~~~~~~~v~~y~~~rKk~kK~i~k~l~~Lk~~~~k 161 (295)
.|.++--+.+|-|.+|+-..++|+..++.-+...+ .+-|+.+..++.+++ +.|+.|
T Consensus 14 ~Ls~vl~~LqDE~~hm~~e~~~L~~~~~~~d~s~~--------~~~R~~L~~~l~~lv---~~mE~K 69 (79)
T PF06657_consen 14 ALSEVLKALQDEFGHMKMEHQELQDEYKQMDPSLG--------RRKRRDLEQELEELV---KRMEAK 69 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccC--------hHHHHHHHHHHHHHH---HHHHHH
Confidence 45777889999999999999999999998862111 244887888887774 455555
No 35
>PRK07248 hypothetical protein; Provisional
Probab=20.65 E-value=1.8e+02 Score=22.06 Aligned_cols=34 Identities=9% Similarity=0.268 Sum_probs=21.1
Q ss_pred chhhHHHHHHHHHHHhhHHHHhhhHHHHHHHHHHH
Q 044429 249 MGKMQHVQTSLKELEGSIEGLEKNLENLFRRLIRT 283 (295)
Q Consensus 249 ~~~~~~~~~~le~LE~~I~~lE~gle~lFR~LI~t 283 (295)
++.-+.+.+++...-.. ...+..++.+||.++..
T Consensus 45 ~~RE~~vl~~~~~~~~~-~~~~~~i~~if~~I~~~ 78 (87)
T PRK07248 45 TKREQVILDKVSSLVEN-KAYQETIVATFKDIMKR 78 (87)
T ss_pred hHHHHHHHHHHHHHccc-CCCHHHHHHHHHHHHHH
Confidence 33344555555555433 34466899999999875
No 36
>PRK14063 exodeoxyribonuclease VII small subunit; Provisional
Probab=20.48 E-value=3.5e+02 Score=20.41 Aligned_cols=35 Identities=17% Similarity=0.287 Sum_probs=25.4
Q ss_pred hHHHHHHHHHHHHHHHHHHHhccCCCccchhhhHHHHHHHH
Q 044429 102 ITRDSMLQIKERVQGLHSMARRRKGDSSIENTVASYTCFRK 142 (295)
Q Consensus 102 ~~rd~ll~lKe~v~eLqsalRRr~g~~~~~~~v~~y~~~rK 142 (295)
+|-+++..+.+.|..|+. |+..++..++.|-+--+
T Consensus 6 sfEeal~~LE~Iv~~LE~------~~l~Leesl~lyeeG~~ 40 (76)
T PRK14063 6 SFEEAISQLEHLVSKLEQ------GDVPLEEAISYFKEGME 40 (76)
T ss_pred CHHHHHHHHHHHHHHHHC------CCCCHHHHHHHHHHHHH
Confidence 466777777777777753 78888888888875544
No 37
>KOG3229 consensus Vacuolar sorting protein VPS24 [Intracellular trafficking, secretion, and vesicular transport]
Probab=20.46 E-value=1.6e+02 Score=26.93 Aligned_cols=41 Identities=20% Similarity=0.250 Sum_probs=29.5
Q ss_pred HHHHHHHHHHHHhccCCCccchhhhHHHHHHHHhhhHHHHHHH
Q 044429 110 IKERVQGLHSMARRRKGDSSIENTVASYTCFRKKMNKDAKKFI 152 (295)
Q Consensus 110 lKe~v~eLqsalRRr~g~~~~~~~v~~y~~~rKk~kK~i~k~l 152 (295)
=||.+++.|+.||.-. -.+...|...-+-++|++|.|++.+
T Consensus 12 PKEq~r~wq~kiRke~--r~ldrqir~iqree~kv~~~iK~aA 52 (227)
T KOG3229|consen 12 PKEQVREWQSKIRKEG--RQLDRQIRDIQREEEKVQKSIKQAA 52 (227)
T ss_pred hHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3788999999998652 2345666666677888888887653
No 38
>KOG2391 consensus Vacuolar sorting protein/ubiquitin receptor VPS23 [Posttranslational modification, protein turnover, chaperones; Intracellular trafficking, secretion, and vesicular transport]
Probab=20.41 E-value=5.5e+02 Score=25.24 Aligned_cols=107 Identities=16% Similarity=0.167 Sum_probs=62.2
Q ss_pred hHHHHHHhhhhhhhccccccccchHHHHhHHhhhHHHHHhHHHHHcCchhHHHHhhhhhhhHHHHHHhhhh--hHHHHHH
Q 044429 22 KTEEELSKLKIWEEQEESSRLASAESICKSLSGLEDLYICIDDLLNMASTQQVLSQNQNQHQKCIDELLDV--SVKLLDI 99 (295)
Q Consensus 22 ~~e~~L~~Lr~~~~~s~~~~~~ss~~i~~~L~~L~~l~~~~~~Ll~lP~~q~aL~~~~~~~~k~vee~LD~--sl~LLD~ 99 (295)
+.|+++.++-+..++-. .+.+.+..|...|.+.-..+|.=++.=..+- ++..+|++|.|++ ++..+|+
T Consensus 222 r~eeeme~~~aeq~slk----Rt~EeL~~G~~kL~~~~etLEqq~~~L~~ni------DIL~~k~~eal~~~~n~~~~~~ 291 (365)
T KOG2391|consen 222 RREEEMERLQAEQESLK----RTEEELNIGKQKLVAMKETLEQQLQSLQKNI------DILKSKVREALEKAENLEALDI 291 (365)
T ss_pred HHHHHHHHHHHHHHHHH----hhHHHHHhhHHHHHHHHHHHHHHHHHHHhhh------HHHHHHHHHHHhhhccCcCCCc
Confidence 34566665555554422 4577788888888888887776443222222 2225788886653 4777777
Q ss_pred hhhHHHHHHHHHHHHH-------------HHHHHHhccCCCccchhhhHHHHHHHHhh
Q 044429 100 CGITRDSMLQIKERVQ-------------GLHSMARRRKGDSSIENTVASYTCFRKKM 144 (295)
Q Consensus 100 C~~~rd~ll~lKe~v~-------------eLqsalRRr~g~~~~~~~v~~y~~~rKk~ 144 (295)
=.++-...-..|+-+. -|.-++||+- -.++.|++--|-+
T Consensus 292 D~~~~~~~~l~kq~l~~~A~d~aieD~i~~L~~~~r~G~------i~l~~yLr~VR~l 343 (365)
T KOG2391|consen 292 DEAIECTAPLYKQILECYALDLAIEDAIYSLGKSLRDGV------IDLDQYLRHVRLL 343 (365)
T ss_pred hhhhhccchHHHHHHHhhhhhhHHHHHHHHHHHHHhcCe------eeHHHHHHHHHHH
Confidence 6666555554444332 3444555542 4567788766644
No 39
>PF03087 DUF241: Arabidopsis protein of unknown function; InterPro: IPR004320 This family represents plant proteins of unknown function.
Probab=20.21 E-value=6.6e+02 Score=22.79 Aligned_cols=31 Identities=19% Similarity=0.157 Sum_probs=22.4
Q ss_pred HHHhHHhhhHHHHHhHHHHH-----cCchhHHHHhh
Q 044429 47 SICKSLSGLEDLYICIDDLL-----NMASTQQVLSQ 77 (295)
Q Consensus 47 ~i~~~L~~L~~l~~~~~~Ll-----~lP~~q~aL~~ 77 (295)
-+.+|.-+|.|+|+.+.|.+ +.-..|-+|++
T Consensus 36 ~lLd~sL~LLD~c~~~rd~ll~lKe~v~eLqsalRR 71 (231)
T PF03087_consen 36 ELLDGSLRLLDACGTFRDALLQLKEHVQELQSALRR 71 (231)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 35788889999999999976 33444556654
Done!