Query 047750
Match_columns 282
No_of_seqs 112 out of 314
Neff 6.2
Searched_HMMs 46136
Date Fri Mar 29 02:47:01 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/047750.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/047750hhsearch_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 4.2E-68 9.2E-73 479.4 25.7 226 43-279 1-231 (231)
2 PF05633 DUF793: Protein of un 99.9 6E-22 1.3E-26 189.3 23.2 254 18-280 37-389 (389)
3 PF05055 DUF677: Protein of un 94.5 4.8 0.00011 38.7 20.3 42 75-116 66-107 (336)
4 cd07665 BAR_SNX1 The Bin/Amphi 77.8 39 0.00085 30.9 11.3 72 38-116 75-146 (234)
5 cd07664 BAR_SNX2 The Bin/Amphi 72.4 56 0.0012 29.8 10.9 69 38-116 75-146 (234)
6 PF05600 DUF773: Protein of un 66.1 83 0.0018 32.0 11.6 95 44-145 398-495 (507)
7 PF10393 Matrilin_ccoil: Trime 59.1 25 0.00054 24.3 4.5 32 216-261 13-45 (47)
8 cd07597 BAR_SNX8 The Bin/Amphi 54.8 1.1E+02 0.0023 28.0 9.3 54 39-102 87-140 (246)
9 PF10018 Med4: Vitamin-D-recep 54.1 50 0.0011 28.8 6.8 60 217-280 4-63 (188)
10 PF14389 Lzipper-MIP1: Leucine 52.0 32 0.00069 26.6 4.6 36 238-273 53-88 (88)
11 TIGR02338 gimC_beta prefoldin, 48.9 57 0.0012 25.9 5.8 35 242-276 70-104 (110)
12 KOG2911 Uncharacterized conser 47.2 2.3E+02 0.005 28.4 10.6 26 127-152 276-301 (439)
13 PRK09343 prefoldin subunit bet 46.6 55 0.0012 26.6 5.5 33 242-274 74-106 (121)
14 PF12325 TMF_TATA_bd: TATA ele 39.5 53 0.0012 27.0 4.3 40 104-143 17-56 (120)
15 PF02609 Exonuc_VII_S: Exonucl 39.3 71 0.0015 22.0 4.4 44 104-151 4-47 (53)
16 COG1382 GimC Prefoldin, chaper 37.6 1E+02 0.0023 25.3 5.7 34 238-271 69-102 (119)
17 KOG0994 Extracellular matrix g 35.1 7.5E+02 0.016 28.4 17.1 34 244-278 1722-1755(1758)
18 KOG3229 Vacuolar sorting prote 34.9 3.5E+02 0.0076 24.6 9.9 40 101-143 12-51 (227)
19 COG5124 Protein predicted to b 32.5 3.2E+02 0.007 24.3 8.2 66 86-151 79-150 (209)
20 PF03670 UPF0184: Uncharacteri 32.1 1.1E+02 0.0024 23.6 4.7 33 238-270 25-57 (83)
21 PF05377 FlaC_arch: Flagella a 29.5 1.3E+02 0.0029 21.4 4.4 20 243-262 18-37 (55)
22 cd07626 BAR_SNX9_like The Bin/ 28.6 3.8E+02 0.0083 23.8 8.3 51 38-98 64-114 (199)
23 COG3352 FlaC Putative archaeal 25.7 90 0.002 26.8 3.6 34 239-272 72-105 (157)
24 KOG3681 Alpha-catenin [Extrace 25.6 7.5E+02 0.016 26.9 10.9 84 57-144 276-369 (835)
25 PF00429 TLV_coat: ENV polypro 24.8 1.4E+02 0.0029 30.9 5.3 35 242-276 431-465 (561)
26 PF03866 HAP: Hydrophobic abun 24.4 2.7E+02 0.006 23.5 6.1 57 38-99 94-150 (164)
27 PF06785 UPF0242: Uncharacteri 24.4 5.8E+02 0.013 25.0 9.0 59 91-149 115-173 (401)
28 PF10805 DUF2730: Protein of u 24.2 2.5E+02 0.0054 22.2 5.7 31 237-267 63-93 (106)
29 cd00823 TopoIIB_Trans TopoIIB_ 20.5 1.4E+02 0.0031 25.6 3.8 41 93-140 109-149 (151)
No 1
>PF03087 DUF241: Arabidopsis protein of unknown function; InterPro: IPR004320 This family represents plant proteins of unknown function.
Probab=100.00 E-value=4.2e-68 Score=479.39 Aligned_cols=226 Identities=48% Similarity=0.754 Sum_probs=209.1
Q ss_pred HHHHhhHHHHHhHHHHHcCchhHHHHhhhhhhhHHHHhhhhhHHHHHHhhHHHHHHHHhHHHHHHHHHHHhhcCCCchhH
Q 047750 43 HELNGLQDLHDSVEKILQLPLVQQALARGHQKKWVDELLNGSFKILDVCSTAQNALLQMKESALGLQSVLRRRRGDETEL 122 (282)
Q Consensus 43 ~~L~~L~~l~~~v~~Ll~lP~~Q~aL~~~~~~k~vde~LD~Sl~LLDvC~~~~d~l~~lke~v~eLqsaLRRr~g~~~~~ 122 (282)
+||++|.|||+|++|||++|++||+|+|++ +||||++|||||+|||+||+|||+|++||||++|||++|||||+|+ +
T Consensus 1 dgL~~L~~Ly~~~~ell~lp~tq~al~~~~-~k~ve~lLd~sL~LLD~c~~~rd~ll~lKe~v~eLqsalRRr~~~~--~ 77 (231)
T PF03087_consen 1 DGLSGLKDLYECLEELLQLPSTQQALSHHQ-EKWVEELLDGSLRLLDACGTFRDALLQLKEHVQELQSALRRRDDGS--I 77 (231)
T ss_pred CchhHHHHHHHHHHHHHcCCHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccchh--H
Confidence 599999999999999999999999999999 9999999999999999999999999999999999999999998544 8
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhhhhhccccCC-CCCchh----HHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCCCchh
Q 047750 123 TSEIKKYLASRKAMRKAINKTLGNLKGVENECS-PSINEE----HVSVLKEVEAVTLATFEYLLSFISGSRTPSKLSRFA 197 (282)
Q Consensus 123 ~~~v~~y~~~rkk~kK~i~K~l~~LK~~~~~~~-~~~~~d----~v~~l~ev~~itisv~~sll~~~s~~~~~~~~s~Ws 197 (282)
+++|++|+++|||++|+|.|++++||.++++.. +..+.+ .+++++||+++|+++|+++++|+|+|..++++++|+
T Consensus 78 ~~~i~sy~~~rKk~kK~i~K~~~~lk~~~~~~~~~~~~~~~~~~vv~~l~ea~~~t~si~~sll~~ls~~~~~~~~~~ws 157 (231)
T PF03087_consen 78 ESEIASYIRSRKKAKKEIAKLLRSLKRMSNKSSSSNDDDEHLSAVVRVLREAREITVSIFESLLSFLSSPSKKSKSSKWS 157 (231)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccCCCccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccchh
Confidence 999999999999999999999999999999842 222222 499999999999999999999999999999999999
Q ss_pred HHHHhhccCcccccchhhhhhhhHHHHHHHhhhhccCCCCchhHHHHHHHHHHHHHhHHHHHhhHHHHHHHHHhhhHHhh
Q 047750 198 LVTKLIRPKRIACQEDQTEMNEFEKVDAALSTVVGHKTIKSDNIIYMQNQLKEMESSIQDLEEGLESLSRRLIKARVPLL 277 (282)
Q Consensus 198 ~vskl~~~~~v~~~~~~~~~nEle~vDaal~~l~~~~~~~~e~~~~~~~~le~LE~~I~~lE~gle~lFR~LI~tRVsLL 277 (282)
+|+++++++. .|...+...||++++|+++.. +.+++++++++||+||.||++||+|+|+|||+|||||||||
T Consensus 158 lvsk~~~~~~-~~~~~~~~~~e~~~~d~~~~~-------~~e~~~~~~~~Le~LE~~Ie~lE~glE~vFR~LIktRVSLL 229 (231)
T PF03087_consen 158 LVSKLMQKKR-SCDSSEENRNEFEKVDAALKS-------DEEEVQNAQKRLEELEECIEELEEGLECVFRRLIKTRVSLL 229 (231)
T ss_pred HHHHHHhccc-ccchhHHHHHHHHHHHHHhhh-------hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 9999999885 566666689999999999852 57889999999999999999999999999999999999999
Q ss_pred hh
Q 047750 278 NI 279 (282)
Q Consensus 278 Ni 279 (282)
||
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=99.90 E-value=6e-22 Score=189.28 Aligned_cols=254 Identities=18% Similarity=0.274 Sum_probs=187.2
Q ss_pred CChHhHHHHHH-hHhhc-c--c--C---ChhhHHHHHHhhHHHHHhHHHHHcCchhHH-HHhhhhhhhHHHHhhhhhHHH
Q 047750 18 PQILEVEEHLR-RLRSS-Q--A--A---STSSLGHELNGLQDLHDSVEKILQLPLVQQ-ALARGHQKKWVDELLNGSFKI 87 (282)
Q Consensus 18 P~~~~~e~~L~-~Lr~~-~--~--~---ss~s~~~~L~~L~~l~~~v~~Ll~lP~~Q~-aL~~~~~~k~vde~LD~Sl~L 87 (282)
|.+..||.++. +|... . . + |.+||...|..+...|+.+..|| |..+. .++..+.+|||++|||++|++
T Consensus 37 ~~L~~Fq~~va~rl~~L~~~~~~~~~~LSL~W~~~~ld~~l~~~~efr~li--~~~~~~~~s~~~~dk~v~eylD~sVKl 114 (389)
T PF05633_consen 37 AELEAFQRHVAERLSDLSPSSKDSDDFLSLSWMRKALDSFLCCHEEFRALI--TNLRDLPLSKPPDDKWVDEYLDRSVKL 114 (389)
T ss_pred hhHHHHHHHHHHHHHHhccCcCcccccccHHHHHHHHHHHHHHHHHHHHHH--hcccccccCCchHHHHHHHHHHHHHHH
Confidence 35778888887 67766 2 1 1 48999999999999999999998 33322 455668899999999999999
Q ss_pred HHHhhHHHHHHHHhHHHHHHHHHHHhhcCCCchhHhHHHHHHHHHHHHHHHHHHHHHhhhhhccc----------cC---
Q 047750 88 LDVCSTAQNALLQMKESALGLQSVLRRRRGDETELTSEIKKYLASRKAMRKAINKTLGNLKGVEN----------EC--- 154 (282)
Q Consensus 88 LDvC~~~~d~l~~lke~v~eLqsaLRRr~g~~~~~~~~v~~y~~~rkk~kK~i~K~l~~LK~~~~----------~~--- 154 (282)
|||||+++|.|.++++...-+|.|++-.+..++. .-..|.|+||. +..+...++.-.. +.
T Consensus 115 LDvCNA~~~gi~~lr~~~~ll~~al~~L~~~~~~---~~~~~rRAr~a----L~dl~~~~~~~~~~~~~~~~~rnrs~~r 187 (389)
T PF05633_consen 115 LDVCNAIRDGISQLRQWQLLLQIALHALDSSRPL---GEGQLRRARKA----LSDLKIAMLDDKDSGSSGGSHRNRSFGR 187 (389)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCC---cHHHHHHHHHH----HHHHHHHHhcccccCccccccccccccc
Confidence 9999999999999999999999999998754221 12346566554 5555433322110 00
Q ss_pred ---C---CCC--------c------------------------------------hhHHHHHHHHHHHHHHHHHHHHHhh
Q 047750 155 ---S---PSI--------N------------------------------------EEHVSVLKEVEAVTLATFEYLLSFI 184 (282)
Q Consensus 155 ---~---~~~--------~------------------------------------~d~v~~l~ev~~itisv~~sll~~~ 184 (282)
+ .+. . ...++.+|.+..+|++|+-.+...+
T Consensus 188 ~~~~~~~~~~s~~~~~~~~~rsls~~vsr~wsa~~~Lq~m~~nL~~Pk~~esak~~gL~~A~Y~m~~vtvFV~~vlVAA~ 267 (389)
T PF05633_consen 188 SNSSGRRSSSSSGSRSAGHFRSLSWSVSRNWSAARQLQAMGENLVLPKGKESAKGRGLLRAMYGMKSVTVFVCWVLVAAF 267 (389)
T ss_pred ccCCCCCCCCccccCCcccchhhhhhhhhhhhhHHHHHHHHhcCCCCCCccccccchHHHHHHHHHHHHHHHHHHHHHee
Confidence 0 000 0 0127789999999999988888766
Q ss_pred hcC-C------C-CCCCCchhHHHHhhccCcc------cccchhhhhhhhHHHHHHHhhhhcc--C---CCCc-------
Q 047750 185 SGS-R------T-PSKLSRFALVTKLIRPKRI------ACQEDQTEMNEFEKVDAALSTVVGH--K---TIKS------- 238 (282)
Q Consensus 185 s~~-~------~-~~~~s~Ws~vskl~~~~~v------~~~~~~~~~nEle~vDaal~~l~~~--~---~~~~------- 238 (282)
+.+ + . .|+...|+.-...+|.+.. ...+....++|++.||++.+.|+.- . ....
T Consensus 268 pc~~rgL~~~l~~vP~~~~WA~s~~~LQ~rI~eEikkk~~kgs~gLLkEl~~ve~~vr~L~el~d~~~~p~~~e~~~ev~ 347 (389)
T PF05633_consen 268 PCQDRGLQVHLSAVPRQFSWAPSFISLQERINEEIKKKERKGSCGLLKELQQVEASVRELHELIDSFQFPLEEEKEEEVR 347 (389)
T ss_pred ecCCccccCCCCCCccccccchHHHHHHHHHHHHHhhccccCcchHHHHHHHHHHHHHHHHHHHHhccCCcchhHHHHHH
Confidence 653 2 2 4678899988888886531 1111235689999999999888752 1 1111
Q ss_pred hhHHHHHHHHHHHHHhHHHHHhhHHHHHHHHHhhhHHhhhhc
Q 047750 239 DNIIYMQNQLKEMESSIQDLEEGLESLSRRLIKARVPLLNIL 280 (282)
Q Consensus 239 e~~~~~~~~le~LE~~I~~lE~gle~lFR~LI~tRVsLLNil 280 (282)
+.|+++.+..+.|++++++||.+++.||+++|.+|..+|+.|
T Consensus 348 ~~V~EL~~~~~~L~~GLdpLerqVre~Fh~IV~sR~elLd~l 389 (389)
T PF05633_consen 348 EAVEELARVCEALSQGLDPLERQVREVFHRIVRSRTELLDSL 389 (389)
T ss_pred HHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHhhHHHHhcC
Confidence 337999999999999999999999999999999999999875
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=94.49 E-value=4.8 Score=38.73 Aligned_cols=42 Identities=14% Similarity=0.391 Sum_probs=39.4
Q ss_pred hHHHHhhhhhHHHHHHhhHHHHHHHHhHHHHHHHHHHHhhcC
Q 047750 75 KWVDELLNGSFKILDVCSTAQNALLQMKESALGLQSVLRRRR 116 (282)
Q Consensus 75 k~vde~LD~Sl~LLDvC~~~~d~l~~lke~v~eLqsaLRRr~ 116 (282)
..|++|.|.|..=+|+|++....+-+.+.+.+-++.+|.+-+
T Consensus 66 ~Lv~~YFd~S~~a~~~C~~L~k~I~~aR~~~~~I~~al~~~~ 107 (336)
T PF05055_consen 66 RLVSDYFDSSLEASDFCEALLKCIHRARDNYLPIRRALKQFE 107 (336)
T ss_pred HHHHHHHHhhHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhh
Confidence 489999999999999999999999999999999999998854
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=77.79 E-value=39 Score=30.88 Aligned_cols=72 Identities=18% Similarity=0.295 Sum_probs=49.5
Q ss_pred hhhHHHHHHhhHHHHHhHHHHHcCchhHHHHhhhhhhhHHHHhhhhhHHHHHHhhHHHHHHHHhHHHHHHHHHHHhhcC
Q 047750 38 TSSLGHELNGLQDLHDSVEKILQLPLVQQALARGHQKKWVDELLNGSFKILDVCSTAQNALLQMKESALGLQSVLRRRR 116 (282)
Q Consensus 38 s~s~~~~L~~L~~l~~~v~~Ll~lP~~Q~aL~~~~~~k~vde~LD~Sl~LLDvC~~~~d~l~~lke~v~eLqsaLRRr~ 116 (282)
+.+++..|+.|.+++..+.++.+- +++ ++---..+.||+-++++..+-.+=+.=..+-++.+.++.-|.+++
T Consensus 75 ~~~Ls~als~laev~~~i~~~~~~-qa~------qd~~~f~e~l~eYiRli~SVK~~f~~R~k~~~~~~~~~~~l~kKr 146 (234)
T cd07665 75 NTALSRALSQLAEVEEKIEQLHQE-QAN------NDFFLLAELLADYIRLLSAVRGAFDQRMKTWQRWQDAQAMLQKKR 146 (234)
T ss_pred chhHHHHHHHHHHHHHHHHHHHHH-HHH------HHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455778999999999999998853 222 333467899999999887664443333445556666666666654
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=72.40 E-value=56 Score=29.81 Aligned_cols=69 Identities=16% Similarity=0.266 Sum_probs=44.4
Q ss_pred hhhHHHHHHhhHHHHHhHHHHHcCchhHHHHhhhhhhhHHHHhhhhhHHHHHHhhHHHHHHHHhHH---HHHHHHHHHhh
Q 047750 38 TSSLGHELNGLQDLHDSVEKILQLPLVQQALARGHQKKWVDELLNGSFKILDVCSTAQNALLQMKE---SALGLQSVLRR 114 (282)
Q Consensus 38 s~s~~~~L~~L~~l~~~v~~Ll~lP~~Q~aL~~~~~~k~vde~LD~Sl~LLDvC~~~~d~l~~lke---~v~eLqsaLRR 114 (282)
+.+++..|+.|.+++..+.++.+--..| +---..+.|++-++++.. .|++|.+-.. +.+.++..|.+
T Consensus 75 ~~~ls~~l~~laev~~ki~~~~~~qa~~-------d~~~l~e~L~eYiR~i~s---vK~~f~~R~k~~~~~~~a~~~L~k 144 (234)
T cd07664 75 HTALSRALSQLAEVEEKIDQLHQDQAFA-------DFYLFSELLGDYIRLIAA---VKGVFDQRMKCWQKWQDAQVTLQK 144 (234)
T ss_pred cchHHHHHHHHHHHHHHHHHHHHHHHHH-------hHHHHHhhHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4567889999999999999987432222 223567889998887654 4555544433 34445555665
Q ss_pred cC
Q 047750 115 RR 116 (282)
Q Consensus 115 r~ 116 (282)
++
T Consensus 145 kr 146 (234)
T cd07664 145 KR 146 (234)
T ss_pred HH
Confidence 54
No 6
>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=66.05 E-value=83 Score=32.03 Aligned_cols=95 Identities=14% Similarity=0.235 Sum_probs=76.2
Q ss_pred HHHhhHHHHHhHHHHH---cCchhHHHHhhhhhhhHHHHhhhhhHHHHHHhhHHHHHHHHhHHHHHHHHHHHhhcCCCch
Q 047750 44 ELNGLQDLHDSVEKIL---QLPLVQQALARGHQKKWVDELLNGSFKILDVCSTAQNALLQMKESALGLQSVLRRRRGDET 120 (282)
Q Consensus 44 ~L~~L~~l~~~v~~Ll---~lP~~Q~aL~~~~~~k~vde~LD~Sl~LLDvC~~~~d~l~~lke~v~eLqsaLRRr~g~~~ 120 (282)
.-..+.+.-..|++++ .-|.+|+-+.=....+.||.+-+..-.-+..+..++.....+.+-.++++..+..-
T Consensus 398 t~~~i~~ml~~V~~ii~~Lt~~~~~~L~~Ik~SprYvdrl~~~L~qk~~~~~k~~~~~~~l~~kr~e~~~e~~~l----- 472 (507)
T PF05600_consen 398 TAESIEEMLSAVEEIISQLTNPRTQHLFMIKSSPRYVDRLVESLQQKLKQEEKLRRKREDLEEKRQEAQEEQQEL----- 472 (507)
T ss_pred CHHHHHHHHHHHHHHHHHhcCHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-----
Confidence 3445566666666665 45777877655566889999999999999999999999999999999999988764
Q ss_pred hHhHHHHHHHHHHHHHHHHHHHHHh
Q 047750 121 ELTSEIKKYLASRKAMRKAINKTLG 145 (282)
Q Consensus 121 ~~~~~v~~y~~~rkk~kK~i~K~l~ 145 (282)
+..+...+...|.+||.|.+.+.
T Consensus 473 --~pkL~~l~~~Tr~Lq~~iE~~IS 495 (507)
T PF05600_consen 473 --EPKLDALVERTRELQKQIEADIS 495 (507)
T ss_pred --HHHHHHHHHHHHHHHHHHHHHHH
Confidence 34788889999999999988764
No 7
>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=59.08 E-value=25 Score=24.26 Aligned_cols=32 Identities=25% Similarity=0.493 Sum_probs=18.3
Q ss_pred hhhhhH-HHHHHHhhhhccCCCCchhHHHHHHHHHHHHHhHHHHHhh
Q 047750 216 EMNEFE-KVDAALSTVVGHKTIKSDNIIYMQNQLKEMESSIQDLEEG 261 (282)
Q Consensus 216 ~~nEle-~vDaal~~l~~~~~~~~e~~~~~~~~le~LE~~I~~lE~g 261 (282)
.+-+|+ +|..+++.| ..+|+++...++.||++
T Consensus 13 slv~FQ~~v~~~lq~L--------------t~kL~~vs~RLe~LEn~ 45 (47)
T PF10393_consen 13 SLVAFQNKVTSALQSL--------------TQKLDAVSKRLEALENR 45 (47)
T ss_dssp HHHHHHHHHHHHHHHH--------------HHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHH--------------HHHHHHHHHHHHHHHhc
Confidence 455666 566666544 34555566666666554
No 8
>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=54.78 E-value=1.1e+02 Score=27.96 Aligned_cols=54 Identities=11% Similarity=0.151 Sum_probs=38.7
Q ss_pred hhHHHHHHhhHHHHHhHHHHHcCchhHHHHhhhhhhhHHHHhhhhhHHHHHHhhHHHHHHHHhH
Q 047750 39 SSLGHELNGLQDLHDSVEKILQLPLVQQALARGHQKKWVDELLNGSFKILDVCSTAQNALLQMK 102 (282)
Q Consensus 39 ~s~~~~L~~L~~l~~~v~~Ll~lP~~Q~aL~~~~~~k~vde~LD~Sl~LLDvC~~~~d~l~~lk 102 (282)
..+..||..+..-+..+.++.. + +...|-+.++|..=.++|+|.++||.+-.-+
T Consensus 87 ~~l~~~l~~~s~~~~~~s~~~~----~------~a~~~~~~vlE~Lk~~~d~l~S~r~lf~R~~ 140 (246)
T cd07597 87 GDINEGLSSLSKHFQLLSDLSE----D------EARAEEDGVLEKLKLQLDLLVSLRDLFERHE 140 (246)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH----H------HHHHHHhhhhHHHHHHHHHHHHHHHHHHHHH
Confidence 4456666666666665555541 2 3345889999999999999999999887544
No 9
>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=54.08 E-value=50 Score=28.85 Aligned_cols=60 Identities=18% Similarity=0.335 Sum_probs=48.4
Q ss_pred hhhhHHHHHHHhhhhccCCCCchhHHHHHHHHHHHHHhHHHHHhhHHHHHHHHHhhhHHhhhhc
Q 047750 217 MNEFEKVDAALSTVVGHKTIKSDNIIYMQNQLKEMESSIQDLEEGLESLSRRLIKARVPLLNIL 280 (282)
Q Consensus 217 ~nEle~vDaal~~l~~~~~~~~e~~~~~~~~le~LE~~I~~lE~gle~lFR~LI~tRVsLLNil 280 (282)
+.+|-..|..|...+. ...+-++.+.++..|...+..++..+..+-+.|..+|..|-+++
T Consensus 4 ~~~L~~~d~~L~~~L~----~l~~hq~~~~~I~~L~~e~~~ld~~i~~~~~~L~~~~~~L~~~~ 63 (188)
T PF10018_consen 4 AEDLIEADDELSSALE----ELQEHQENQARIQQLRAEIEELDEQIRDILKQLKEARKELRTLP 63 (188)
T ss_pred HHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4556666777765553 23456888999999999999999999999999999999998775
No 10
>PF14389 Lzipper-MIP1: Leucine-zipper of ternary complex factor MIP1
Probab=51.96 E-value=32 Score=26.60 Aligned_cols=36 Identities=22% Similarity=0.365 Sum_probs=30.7
Q ss_pred chhHHHHHHHHHHHHHhHHHHHhhHHHHHHHHHhhh
Q 047750 238 SDNIIYMQNQLKEMESSIQDLEEGLESLSRRLIKAR 273 (282)
Q Consensus 238 ~e~~~~~~~~le~LE~~I~~lE~gle~lFR~LI~tR 273 (282)
+..++.+...+..||..|--||..+..|||.|.+-|
T Consensus 53 p~~~keLL~EIA~lE~eV~~LE~~v~~L~~~l~~q~ 88 (88)
T PF14389_consen 53 PKKAKELLEEIALLEAEVAKLEQKVLSLYRQLFQQR 88 (88)
T ss_pred ChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 456677788889999999999999999999997643
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=48.93 E-value=57 Score=25.91 Aligned_cols=35 Identities=14% Similarity=0.239 Sum_probs=20.1
Q ss_pred HHHHHHHHHHHHhHHHHHhhHHHHHHHHHhhhHHh
Q 047750 242 IYMQNQLKEMESSIQDLEEGLESLSRRLIKARVPL 276 (282)
Q Consensus 242 ~~~~~~le~LE~~I~~lE~gle~lFR~LI~tRVsL 276 (282)
.++.++.+.+|..|..+|...+.+-..+-..+-.|
T Consensus 70 ~~l~~r~e~ie~~i~~lek~~~~l~~~l~e~q~~l 104 (110)
T TIGR02338 70 QELKEKKETLELRVKTLQRQEERLREQLKELQEKI 104 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45555666666666666666666555555544443
No 12
>KOG2911 consensus Uncharacterized conserved protein [Function unknown]
Probab=47.22 E-value=2.3e+02 Score=28.40 Aligned_cols=26 Identities=27% Similarity=0.562 Sum_probs=21.1
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhhccc
Q 047750 127 KKYLASRKAMRKAINKTLGNLKGVEN 152 (282)
Q Consensus 127 ~~y~~~rkk~kK~i~K~l~~LK~~~~ 152 (282)
..|+|.||.+.|.+.++...+-..+.
T Consensus 276 ~~ylr~rk~~eK~~er~~~~l~~l~~ 301 (439)
T KOG2911|consen 276 ITYLRARKLLEKDLERKVSSLNNLET 301 (439)
T ss_pred HHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence 45999999999999999776666543
No 13
>PRK09343 prefoldin subunit beta; Provisional
Probab=46.56 E-value=55 Score=26.62 Aligned_cols=33 Identities=15% Similarity=0.191 Sum_probs=15.8
Q ss_pred HHHHHHHHHHHHhHHHHHhhHHHHHHHHHhhhH
Q 047750 242 IYMQNQLKEMESSIQDLEEGLESLSRRLIKARV 274 (282)
Q Consensus 242 ~~~~~~le~LE~~I~~lE~gle~lFR~LI~tRV 274 (282)
.++.+++|.++..|..+|...+.+=..+...+-
T Consensus 74 ~~l~~r~E~ie~~ik~lekq~~~l~~~l~e~q~ 106 (121)
T PRK09343 74 KELKERKELLELRSRTLEKQEKKLREKLKELQA 106 (121)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344445555555555555555444444444433
No 14
>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=39.45 E-value=53 Score=26.96 Aligned_cols=40 Identities=35% Similarity=0.425 Sum_probs=30.8
Q ss_pred HHHHHHHHHhhcCCCchhHhHHHHHHHHHHHHHHHHHHHH
Q 047750 104 SALGLQSVLRRRRGDETELTSEIKKYLASRKAMRKAINKT 143 (282)
Q Consensus 104 ~v~eLqsaLRRr~g~~~~~~~~v~~y~~~rkk~kK~i~K~ 143 (282)
-+.-|++.|||++|--..+...+...-..|+.+..+|-+.
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 4667899999998755667777887877888777777665
No 15
>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=39.31 E-value=71 Score=22.03 Aligned_cols=44 Identities=20% Similarity=0.284 Sum_probs=26.4
Q ss_pred HHHHHHHHHhhcCCCchhHhHHHHHHHHHHHHHHHHHHHHHhhhhhcc
Q 047750 104 SALGLQSVLRRRRGDETELTSEIKKYLASRKAMRKAINKTLGNLKGVE 151 (282)
Q Consensus 104 ~v~eLqsaLRRr~g~~~~~~~~v~~y~~~rkk~kK~i~K~l~~LK~~~ 151 (282)
.+..|+.++++-..|+.+++..+..| ++.-+-+++|-..|...+
T Consensus 4 ~~~~Le~Iv~~Le~~~~sLdes~~ly----eeg~~l~~~c~~~L~~~e 47 (53)
T PF02609_consen 4 AMERLEEIVEKLESGELSLDESLKLY----EEGMELIKKCQERLEEAE 47 (53)
T ss_dssp HHHHHHHHHHHHHTT-S-HHHHHHHH----HHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHcCCCCHHHHHHHH----HHHHHHHHHHHHHHHHHH
Confidence 44555556666556788899889888 444445666665555543
No 16
>COG1382 GimC Prefoldin, chaperonin cofactor [Posttranslational modification, protein turnover, chaperones]
Probab=37.55 E-value=1e+02 Score=25.34 Aligned_cols=34 Identities=24% Similarity=0.347 Sum_probs=20.5
Q ss_pred chhHHHHHHHHHHHHHhHHHHHhhHHHHHHHHHh
Q 047750 238 SDNIIYMQNQLKEMESSIQDLEEGLESLSRRLIK 271 (282)
Q Consensus 238 ~e~~~~~~~~le~LE~~I~~lE~gle~lFR~LI~ 271 (282)
++-+.++.++.|.||..|.-||..-+.+=-++=.
T Consensus 69 ~~~~~eL~er~E~Le~ri~tLekQe~~l~e~l~e 102 (119)
T COG1382 69 EEAVDELEERKETLELRIKTLEKQEEKLQERLEE 102 (119)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445666777777777776666665555444433
No 17
>KOG0994 consensus Extracellular matrix glycoprotein Laminin subunit beta [Extracellular structures]
Probab=35.12 E-value=7.5e+02 Score=28.45 Aligned_cols=34 Identities=24% Similarity=0.356 Sum_probs=26.1
Q ss_pred HHHHHHHHHHhHHHHHhhHHHHHHHHHhhhHHhhh
Q 047750 244 MQNQLKEMESSIQDLEEGLESLSRRLIKARVPLLN 278 (282)
Q Consensus 244 ~~~~le~LE~~I~~lE~gle~lFR~LI~tRVsLLN 278 (282)
-..+|+..+.-|.+||..++.+-+. |+-||+.-+
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 3457788888899999999998754 777887654
No 18
>KOG3229 consensus Vacuolar sorting protein VPS24 [Intracellular trafficking, secretion, and vesicular transport]
Probab=34.87 E-value=3.5e+02 Score=24.56 Aligned_cols=40 Identities=23% Similarity=0.341 Sum_probs=29.7
Q ss_pred hHHHHHHHHHHHhhcCCCchhHhHHHHHHHHHHHHHHHHHHHH
Q 047750 101 MKESALGLQSVLRRRRGDETELTSEIKKYLASRKAMRKAINKT 143 (282)
Q Consensus 101 lke~v~eLqsaLRRr~g~~~~~~~~v~~y~~~rkk~kK~i~K~ 143 (282)
-||.+++.|+.||.-. -.+...|...-+-++|++|.|++.
T Consensus 12 PKEq~r~wq~kiRke~---r~ldrqir~iqree~kv~~~iK~a 51 (227)
T KOG3229|consen 12 PKEQVREWQSKIRKEG---RQLDRQIRDIQREEEKVQKSIKQA 51 (227)
T ss_pred hHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3789999999998642 246667777777788888777665
No 19
>COG5124 Protein predicted to be involved in meiotic recombination [Cell division and chromosome partitioning / General function prediction only]
Probab=32.48 E-value=3.2e+02 Score=24.28 Aligned_cols=66 Identities=21% Similarity=0.316 Sum_probs=44.4
Q ss_pred HHHHHhhHHHHHHHHhHHHHHHHH------HHHhhcCCCchhHhHHHHHHHHHHHHHHHHHHHHHhhhhhcc
Q 047750 86 KILDVCSTAQNALLQMKESALGLQ------SVLRRRRGDETELTSEIKKYLASRKAMRKAINKTLGNLKGVE 151 (282)
Q Consensus 86 ~LLDvC~~~~d~l~~lke~v~eLq------saLRRr~g~~~~~~~~v~~y~~~rkk~kK~i~K~l~~LK~~~ 151 (282)
.+=|.|+..+.-+-.||+.+.... -+-||+.+.+..-.-.-.+.+..||+-.+++++-+.+|...+
T Consensus 79 k~~~~~~~l~~~~~~~kqdi~t~~e~i~~ek~~r~k~~Te~~~n~~~~~Ll~~~k~eqd~~k~~l~~l~~~~ 150 (209)
T COG5124 79 KLYDSSELLKKKIQEVKQDIATYKEEIDKEKATRRKKFTEGQKNYNREALLEKRKKEQDEIKKKLNSLQKIE 150 (209)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHhhhcccccchhhHHHHHHHHHHHHHHHHHHHHhccccccC
Confidence 466788888888888777765543 233777764422222345677888988899988887776665
No 20
>PF03670 UPF0184: Uncharacterised protein family (UPF0184); InterPro: IPR022788 This family of proteins has no known function.
Probab=32.13 E-value=1.1e+02 Score=23.61 Aligned_cols=33 Identities=18% Similarity=0.346 Sum_probs=24.6
Q ss_pred chhHHHHHHHHHHHHHhHHHHHhhHHHHHHHHH
Q 047750 238 SDNIIYMQNQLKEMESSIQDLEEGLESLSRRLI 270 (282)
Q Consensus 238 ~e~~~~~~~~le~LE~~I~~lE~gle~lFR~LI 270 (282)
.+++..+-..|..|..|++.||...+.|+-+|.
T Consensus 25 ~~E~~~ins~LD~Lns~LD~LE~rnD~l~~~L~ 57 (83)
T PF03670_consen 25 EEEYAAINSMLDQLNSCLDHLEQRNDHLHAQLQ 57 (83)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHH
Confidence 344555666888888888888888888876664
No 21
>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=29.55 E-value=1.3e+02 Score=21.41 Aligned_cols=20 Identities=20% Similarity=0.469 Sum_probs=10.3
Q ss_pred HHHHHHHHHHHhHHHHHhhH
Q 047750 243 YMQNQLKEMESSIQDLEEGL 262 (282)
Q Consensus 243 ~~~~~le~LE~~I~~lE~gl 262 (282)
.+++..+.+-..|++++.-+
T Consensus 18 tvk~en~~i~~~ve~i~env 37 (55)
T PF05377_consen 18 TVKKENEEISESVEKIEENV 37 (55)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 44445555555555555444
No 22
>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=28.63 E-value=3.8e+02 Score=23.83 Aligned_cols=51 Identities=10% Similarity=0.059 Sum_probs=32.6
Q ss_pred hhhHHHHHHhhHHHHHhHHHHHcCchhHHHHhhhhhhhHHHHhhhhhHHHHHHhhHHHHHH
Q 047750 38 TSSLGHELNGLQDLHDSVEKILQLPLVQQALARGHQKKWVDELLNGSFKILDVCSTAQNAL 98 (282)
Q Consensus 38 s~s~~~~L~~L~~l~~~v~~Ll~lP~~Q~aL~~~~~~k~vde~LD~Sl~LLDvC~~~~d~l 98 (282)
+..+...|+.++++|+.|++|..-- +. .+---+-|.|..-.+ +|++++|+|
T Consensus 64 ~t~Ls~Al~~~g~~~e~Ig~l~~eQ-a~------~D~~~l~E~L~eY~g---ll~~~pdi~ 114 (199)
T cd07626 64 SVPLTQAIKHTGQAYEEIGELFAEQ-PK------HDLIPLLDGLHEYKG---LLSTFPDII 114 (199)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHh-hH------hhHHHHHHHHHHHHh---HHHhhhHHH
Confidence 6778999999999999999998431 11 111123344444444 455666666
No 23
>COG3352 FlaC Putative archaeal flagellar protein C [Cell motility and secretion]
Probab=25.69 E-value=90 Score=26.85 Aligned_cols=34 Identities=24% Similarity=0.328 Sum_probs=27.9
Q ss_pred hhHHHHHHHHHHHHHhHHHHHhhHHHHHHHHHhh
Q 047750 239 DNIIYMQNQLKEMESSIQDLEEGLESLSRRLIKA 272 (282)
Q Consensus 239 e~~~~~~~~le~LE~~I~~lE~gle~lFR~LI~t 272 (282)
...+.+.+.+|.||..|.+|+.-+|-|-|-++--
T Consensus 72 k~~~~~~eelerLe~~iKdl~~lye~Vs~d~Npf 105 (157)
T COG3352 72 KQLQDIKEELERLEENIKDLVSLYELVSRDFNPF 105 (157)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhH
Confidence 3478888899999999999999999888876543
No 24
>KOG3681 consensus Alpha-catenin [Extracellular structures]
Probab=25.59 E-value=7.5e+02 Score=26.90 Aligned_cols=84 Identities=17% Similarity=0.299 Sum_probs=52.2
Q ss_pred HHHcCchhHHHHhhhhhhhHHHHhhhhhHHHHHHhh--HHHHHH--------HHhHHHHHHHHHHHhhcCCCchhHhHHH
Q 047750 57 KILQLPLVQQALARGHQKKWVDELLNGSFKILDVCS--TAQNAL--------LQMKESALGLQSVLRRRRGDETELTSEI 126 (282)
Q Consensus 57 ~Ll~lP~~Q~aL~~~~~~k~vde~LD~Sl~LLDvC~--~~~d~l--------~~lke~v~eLqsaLRRr~g~~~~~~~~v 126 (282)
+.+..|..+ ....-++..+.++|+...+.|.|. -.|+.+ -++.+...++++.-. ++|+...+...+
T Consensus 276 ~~l~~~~~~---~r~~le~~le~Iis~aa~~aDs~~~d~rreri~a~~~al~q~l~d~l~E~~~~~~-~k~~~~~l~~ai 351 (835)
T KOG3681|consen 276 DPLTNPEAR---SRPSLEVRLEQIISGAALMADSCCRDLRRERIVAECNALRQALQDLLSEYQSNAG-RKGRSPALELAI 351 (835)
T ss_pred hhhhchhhc---cCchHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhh-ccccChhHHHHH
Confidence 344444443 344457889999999999999985 122222 234555666667633 445556677777
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 047750 127 KKYLASRKAMRKAINKTL 144 (282)
Q Consensus 127 ~~y~~~rkk~kK~i~K~l 144 (282)
..--..-|.++|++.+.+
T Consensus 352 ~~l~kkl~dLrrqLr~a~ 369 (835)
T KOG3681|consen 352 DQLTKKLKDLKRQLRKAA 369 (835)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 766666666667776653
No 25
>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=24.75 E-value=1.4e+02 Score=30.91 Aligned_cols=35 Identities=31% Similarity=0.482 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHHhHHHHHhhHHHHHHHHHhhhHHh
Q 047750 242 IYMQNQLKEMESSIQDLEEGLESLSRRLIKARVPL 276 (282)
Q Consensus 242 ~~~~~~le~LE~~I~~lE~gle~lFR~LI~tRVsL 276 (282)
..+.+-+++++.+|..|++.+..+--..+|+|.+|
T Consensus 431 ~~~~~d~~~~~~~i~~l~~~~~sl~~~v~qnr~~l 465 (561)
T PF00429_consen 431 NALEEDLQALEDSISALQEQLTSLAEVVLQNRRAL 465 (561)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCchhh
Confidence 35566788999999999999999999999999986
No 26
>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=24.45 E-value=2.7e+02 Score=23.52 Aligned_cols=57 Identities=28% Similarity=0.371 Sum_probs=47.5
Q ss_pred hhhHHHHHHhhHHHHHhHHHHHcCchhHHHHhhhhhhhHHHHhhhhhHHHHHHhhHHHHHHH
Q 047750 38 TSSLGHELNGLQDLHDSVEKILQLPLVQQALARGHQKKWVDELLNGSFKILDVCSTAQNALL 99 (282)
Q Consensus 38 s~s~~~~L~~L~~l~~~v~~Ll~lP~~Q~aL~~~~~~k~vde~LD~Sl~LLDvC~~~~d~l~ 99 (282)
-.+|++.|-++....+.+||-++..++|.-|. ..|+.++--.+-+|=+-.+.-|++.
T Consensus 94 VtgIln~ll~fd~~~~~vee~l~~~~aq~lla-----glv~ai~alplavlval~~lt~ala 150 (164)
T PF03866_consen 94 VTGILNSLLGFDAILELVEEVLHVLLAQSLLA-----GLVNAILALPLAVLVALSTLTDALA 150 (164)
T ss_pred HHHHHHHHhcccHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHhHHHHHHHHHHHHHHHH
Confidence 56789999999999999999999888876554 5888888888888888777777664
No 27
>PF06785 UPF0242: Uncharacterised protein family (UPF0242); InterPro: IPR009623 This is a group of proteins of unknown function.
Probab=24.36 E-value=5.8e+02 Score=24.96 Aligned_cols=59 Identities=10% Similarity=0.117 Sum_probs=43.9
Q ss_pred hhHHHHHHHHhHHHHHHHHHHHhhcCCCchhHhHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 047750 91 CSTAQNALLQMKESALGLQSVLRRRRGDETELTSEIKKYLASRKAMRKAINKTLGNLKG 149 (282)
Q Consensus 91 C~~~~d~l~~lke~v~eLqsaLRRr~g~~~~~~~~v~~y~~~rkk~kK~i~K~l~~LK~ 149 (282)
-.-.+|+|..+|.+.+-|.-.+|+.+-....++-.+++|.+-++-+.-+...+.+-|+.
T Consensus 115 L~~~~~vf~k~k~~~q~LE~li~~~~EEn~~lqlqL~~l~~e~~Ekeeesq~LnrELaE 173 (401)
T PF06785_consen 115 LFHVREVFMKTKGDIQHLEGLIRHLREENQCLQLQLDALQQECGEKEEESQTLNRELAE 173 (401)
T ss_pred HHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhHhHHHHHHHHHHHHH
Confidence 34568899999999999999999987555678888999998886655444444343433
No 28
>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=24.17 E-value=2.5e+02 Score=22.23 Aligned_cols=31 Identities=23% Similarity=0.442 Sum_probs=24.8
Q ss_pred CchhHHHHHHHHHHHHHhHHHHHhhHHHHHH
Q 047750 237 KSDNIIYMQNQLKEMESSIQDLEEGLESLSR 267 (282)
Q Consensus 237 ~~e~~~~~~~~le~LE~~I~~lE~gle~lFR 267 (282)
+..++..++..+.+++..+..++..++.+=|
T Consensus 63 t~~dv~~L~l~l~el~G~~~~l~~~l~~v~~ 93 (106)
T PF10805_consen 63 TRDDVHDLQLELAELRGELKELSARLQGVSH 93 (106)
T ss_pred CHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Confidence 4677888888999999888888887776644
No 29
>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=20.54 E-value=1.4e+02 Score=25.57 Aligned_cols=41 Identities=17% Similarity=0.352 Sum_probs=29.9
Q ss_pred HHHHHHHHhHHHHHHHHHHHhhcCCCchhHhHHHHHHHHHHHHHHHHH
Q 047750 93 TAQNALLQMKESALGLQSVLRRRRGDETELTSEIKKYLASRKAMRKAI 140 (282)
Q Consensus 93 ~~~d~l~~lke~v~eLqsaLRRr~g~~~~~~~~v~~y~~~rkk~kK~i 140 (282)
+.+|++...-|-..|++.||+-- ..+++.|+.-+++.+..-
T Consensus 109 ~~KeaIadvpEI~~EIrlAl~~~-------~R~L~~~l~kk~~~~e~~ 149 (151)
T cd00823 109 EGKEAIADIPEIEEEIKLALQEV-------ARKLKRYLSKKRKERELQ 149 (151)
T ss_pred cchhhhcCCHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHh
Confidence 46888888888888888888753 236777888877766543
Done!