Query 028742
Match_columns 204
No_of_seqs 112 out of 391
Neff 5.8
Searched_HMMs 46136
Date Fri Mar 29 16:16:22 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028742.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/028742hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1730 Thioredoxin-like prote 100.0 1.8E-64 3.9E-69 414.4 14.4 192 1-195 1-198 (206)
2 PF06201 PITH: PITH domain; I 100.0 8.7E-56 1.9E-60 358.8 11.5 147 19-168 1-152 (152)
3 KOG0908 Thioredoxin-like prote 100.0 9E-40 2E-44 281.4 10.6 165 14-198 119-285 (288)
4 PF07738 Sad1_UNC: Sad1 / UNC- 97.6 0.0015 3.3E-08 51.2 11.4 92 64-167 29-134 (135)
5 cd08366 APC10 APC10 subunit of 97.1 0.016 3.4E-07 46.6 11.9 106 52-166 27-139 (139)
6 cd08667 APC10-ZZEF1 APC10/DOC1 96.8 0.03 6.6E-07 44.7 11.3 104 53-166 24-131 (131)
7 cd08159 APC10-like APC10-like 96.4 0.072 1.6E-06 42.4 11.1 103 53-165 24-129 (129)
8 cd08666 APC10-HECTD3 APC10-lik 96.1 0.22 4.7E-06 40.0 12.2 102 53-165 29-134 (134)
9 PF03256 APC10: Anaphase-promo 95.6 0.057 1.2E-06 45.7 7.6 110 52-170 55-170 (193)
10 cd08665 APC10-CUL7 APC10-like 95.1 0.58 1.2E-05 37.4 11.5 103 53-166 24-131 (131)
11 cd08365 APC10-like1 APC10-like 94.3 0.9 2E-05 36.3 10.7 102 53-164 25-130 (131)
12 KOG3437 Anaphase-promoting com 94.0 1 2.2E-05 37.9 10.6 108 54-170 48-161 (184)
13 PF14652 DUF4457: Domain of un 93.0 1.9 4E-05 39.2 11.8 139 52-195 69-239 (329)
14 cd08664 APC10-HERC2 APC10-like 92.0 3.5 7.7E-05 33.8 11.0 102 53-164 47-151 (152)
15 COG5156 DOC1 Anaphase-promotin 91.8 1.4 3E-05 36.6 8.4 135 20-170 20-166 (189)
16 KOG2687 Spindle pole body prot 91.5 2.6 5.7E-05 39.6 11.0 90 64-167 301-409 (414)
17 cd00057 FA58C Substituted upda 73.2 37 0.0008 25.5 10.1 48 64-112 44-94 (143)
18 PF00754 F5_F8_type_C: F5/8 ty 67.3 42 0.00091 24.2 7.5 51 63-113 34-86 (129)
19 PF06165 Glyco_transf_36: Glyc 29.3 1.2E+02 0.0026 22.8 4.6 37 62-100 49-85 (110)
20 PF01834 XRCC1_N: XRCC1 N term 27.1 54 0.0012 27.0 2.4 52 29-86 10-62 (153)
21 cd06494 p23_NUDCD2_like p23-li 25.7 1.2E+02 0.0026 22.4 3.9 37 60-102 11-47 (93)
No 1
>KOG1730 consensus Thioredoxin-like protein [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=1.8e-64 Score=414.42 Aligned_cols=192 Identities=54% Similarity=0.843 Sum_probs=182.3
Q ss_pred CCCCCCCCCCCCC------CCCccccccccccccceEEcCCCCCcccccccccccccCCCCcceecCCCCCceEEEeecC
Q 028742 1 MACLHDHSCEDHD------CSSDWSLYKHIDLSKVSALNEAVPGSVKSVFKAWEQRLNSSGEHLESNDGDPELLVYIPFT 74 (204)
Q Consensus 1 ~~~~h~~~c~~~~------~~~~~~L~~~ID~~~v~cLNe~~~~~~~~v~k~~~~r~d~~~~~l~S~D~DeQLii~IpF~ 74 (204)
|+|+|+|+|++.. .+..++||++||+.+|+||||+.++++|.|||||+.|.|...| ||| |+|+|||++|||+
T Consensus 1 mshghsH~c~a~~~e~p~e~g~~ysLys~Idle~v~~LNEsv~gsgK~VFKpwe~R~d~se~-vES-DaD~eLLfniPFt 78 (206)
T KOG1730|consen 1 MSHGHSHNCAAEREEHPEERGLAYSLYSRIDLEKVQTLNESVDGSGKSVFKPWEKRTDRSEY-VES-DADEELLFNIPFT 78 (206)
T ss_pred CCCCCCCCcchhcccCchhcCccccceeEecHhHheecccccCCccccccchhhhhcchhhh-hhc-cCCceeEEecccc
Confidence 7899999998874 4889999999999999999999999999999999999999988 999 9999999999999
Q ss_pred CceeEEEEEEEcCCCCCCCceEEEeecCCCCCccccccCCcceEEEeeccccceEEEeccccCcccccEEEEEEcCCCCC
Q 028742 75 TDVKIKSISIVGGADGTSPSKMRVFINREGIDFSDAQDMQAIQEWDLVENLQGVLEYQTRYSKFQSVANITLHFPDNFGG 154 (204)
Q Consensus 75 ~~Vkl~sI~I~~~~~~~~Pk~iKlf~N~p~ldFd~~~~~~p~Q~~~L~~~~~g~~e~~Lk~~KFqnV~sLtif~~~N~g~ 154 (204)
+.|||++|+|.+.+++++|.+||||+||+.|||||++. +|+|++.|..+..|.++||+|.+|||||.+|+|||+.|+|+
T Consensus 79 g~vkLkgI~I~g~~d~shP~~~rlFkNR~~m~FdD~~~-~~dqef~lt~d~~g~iey~~K~s~f~nv~nLsi~f~~nfG~ 157 (206)
T KOG1730|consen 79 GNVKLKGISIMGEPDGSHPSKMRLFKNREQMDFDDAEA-EPDQEFSLTRDLTGEIEYPTKISKFQNVHNLSIHFPKNFGE 157 (206)
T ss_pred CceeEEEEEEEeCCCCCCchheEeecCCccCCcchhhc-CcceecceecccCceEEeccceeeeccceeEEEEeccccCC
Confidence 99999999999999999999999999999999999998 58999999999899999999999999999999999999999
Q ss_pred CeeEEEEEEEEeEEcCccccceEEeeeecCCCCCCCccccc
Q 028742 155 DTTQIHYIGLKGEATQLKRDVVATIVYELRPNPSDHKTKSE 195 (204)
Q Consensus 155 e~t~I~~Igl~G~~~~~~r~~v~t~vYE~~~np~Dhk~~~~ 195 (204)
|.|+|+||||||+++.+.|..+..|.||++|||+||++..-
T Consensus 158 D~TqI~YIGlRGeft~~~~h~~~i~~yea~a~~~dh~~~~~ 198 (206)
T KOG1730|consen 158 DTTQIYYIGLRGEFTELFRHEVAICNYEARANPADHKVHQV 198 (206)
T ss_pred CcceEEEEEecceeeehhcCCceEEEEeccCChhhCccccc
Confidence 99999999999999998887666559999999999997643
No 2
>PF06201 PITH: PITH domain; InterPro: IPR010400 The full-length, Txnl1, protein which is a probable component of the 32 kDa 26S proteasome, uses its C-terminal, PITH, domain to associate specifically with the 26S proteasome. PITH derives from proteasome-interacting thioredoxin domain which this entry represents [].; PDB: 1XOY_A 1WWY_A.
Probab=100.00 E-value=8.7e-56 Score=358.80 Aligned_cols=147 Identities=47% Similarity=0.806 Sum_probs=114.7
Q ss_pred ccccccccccceEEcCCCCCccc-ccccccccccCCCCcceecCCCCCceEEEeecCCceeEEEEEEEcC-CCCCCCceE
Q 028742 19 SLYKHIDLSKVSALNEAVPGSVK-SVFKAWEQRLNSSGEHLESNDGDPELLVYIPFTTDVKIKSISIVGG-ADGTSPSKM 96 (204)
Q Consensus 19 ~L~~~ID~~~v~cLNe~~~~~~~-~v~k~~~~r~d~~~~~l~S~D~DeQLii~IpF~~~Vkl~sI~I~~~-~~~~~Pk~i 96 (204)
||+++||+++++|||++..++++ .++|+|++|++. .| |+| |+|+||||||||+++||||||+|+++ +++++|++|
T Consensus 1 sL~~~Id~~~~~cLN~~~~~~~~~~l~k~~~~r~d~-~~-l~S-D~D~QLii~IpF~~~Vkl~si~i~~~~~~~~~P~~i 77 (152)
T PF06201_consen 1 SLYSYIDLDKVECLNEDDPHSARNNLFKPWDDRLDP-PF-LES-DADEQLIIHIPFTQPVKLHSIIIKGPPDDDSAPKTI 77 (152)
T ss_dssp ESCCCB-TTT-EECSS-TTS-SCCCCSTTS--TTS-----EE--SS-SSEEEEEEEEEEEEEEEEEEE---STTTSEEEE
T ss_pred ChHHhCcccccEEEeCCCCCCccceeEcccccccCc-cc-ccc-CCCceeEEEEccCCceEEEEEEEEeccCCCCCCeEE
Confidence 69999999999999999999999 899999999987 77 999 99999999999999999999999999 899999999
Q ss_pred EEeec-CCCCCccccccCCcceEEEeec-cccceEEEeccccCcccccEEEEEEcCCCC-CCeeEEEEEEEEeEE
Q 028742 97 RVFIN-REGIDFSDAQDMQAIQEWDLVE-NLQGVLEYQTRYSKFQSVANITLHFPDNFG-GDTTQIHYIGLKGEA 168 (204)
Q Consensus 97 Klf~N-~p~ldFd~~~~~~p~Q~~~L~~-~~~g~~e~~Lk~~KFqnV~sLtif~~~N~g-~e~t~I~~Igl~G~~ 168 (204)
|||+| +++|||+++++.+|+|+++|++ +..+.++||||++|||||++|||||++|+| ++.|+|+||||+|++
T Consensus 78 Klf~N~~~~ldF~~~~~~~p~q~~~l~~~~~~~~~~~~Lk~~KFqnV~sLtif~~~n~g~~~~T~I~~i~l~G~~ 152 (152)
T PF06201_consen 78 KLFINQRPNLDFDDAESIKPTQELELTEEDSDGGVEYPLKFVKFQNVNSLTIFFEDNQGGDDVTRIYYIGLRGEF 152 (152)
T ss_dssp EEEES-SS---CCHHCCS--SCEEE--TTTCCCT--EE--TTT-TTEEEEEEEEEEETT--SS-EESEEEEEEE-
T ss_pred EEEECCCCCcCccccccCCCCceEEcCccccCCceEeeeeeeccCCccEEEEEEeCCcCCCccEEEEEEEEEeeC
Confidence 99999 7899999999999999999976 667889999999999999999999999999 679999999999985
No 3
>KOG0908 consensus Thioredoxin-like protein [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=9e-40 Score=281.41 Aligned_cols=165 Identities=33% Similarity=0.481 Sum_probs=148.4
Q ss_pred CCCccccccccccccceEEcCCCCCcccccccccccccCCCCcceecCCCCCceEEEeecCCceeEEEEEEEcCCCCCCC
Q 028742 14 CSSDWSLYKHIDLSKVSALNEAVPGSVKSVFKAWEQRLNSSGEHLESNDGDPELLVYIPFTTDVKIKSISIVGGADGTSP 93 (204)
Q Consensus 14 ~~~~~~L~~~ID~~~v~cLNe~~~~~~~~v~k~~~~r~d~~~~~l~S~D~DeQLii~IpF~~~Vkl~sI~I~~~~~~~~P 93 (204)
..++++|..+||..+++|||+.++|..++.+|.+ -..+ |+| |+||||||+|||+|+||+|||.|+++..+.+|
T Consensus 119 ~Kgq~dL~~~I~~~gleclNqsddH~l~nalkk~-----~ss~-les-D~DeQl~isi~fnq~vk~hS~a~k~p~~~~~P 191 (288)
T KOG0908|consen 119 VKGQMDLKPFIDKVGLECLNQSDDHFLKNALKKN-----FSSN-LES-DCDEQLIISIPFNQAVKVHSIAIKGPANPLGP 191 (288)
T ss_pred ccceehhhhhhhhhcceeeccccccchHHHHhhc-----cccc-eec-ccccceEEEeeccCccceeeeecCCCCCCCCC
Confidence 4579999999999999999999999999999863 2355 999 99999999999999999999999999888999
Q ss_pred ceEEEeecCC-CCCccccccCCcceEEEeeccccceEEEeccccCcccccEEEEEEcCCCCC-CeeEEEEEEEEeEEcCc
Q 028742 94 SKMRVFINRE-GIDFSDAQDMQAIQEWDLVENLQGVLEYQTRYSKFQSVANITLHFPDNFGG-DTTQIHYIGLKGEATQL 171 (204)
Q Consensus 94 k~iKlf~N~p-~ldFd~~~~~~p~Q~~~L~~~~~g~~e~~Lk~~KFqnV~sLtif~~~N~g~-e~t~I~~Igl~G~~~~~ 171 (204)
|.||||+|+| +|||+++++.+|+|.++|.+.......++||++|||||++|+||+++|+|+ |.|||.|||++|+
T Consensus 192 k~vkifin~pr~~~F~~a~~f~ptQ~lel~e~~~~~~~V~lryvkfqnV~sv~iFiq~n~gg~evtri~~~~~~Gs---- 267 (288)
T KOG0908|consen 192 KTVKIFINQPRTMDFENAESFEPTQLLELTELDLQGLPVPLRYVKFQNVNSVQIFIQSNQGGEEVTRISKLGLFGS---- 267 (288)
T ss_pred eeEEEEecCccccCcccccccCcccccchhhhhccCceEEeeeeeEEEeeEEEEEEecCCCCcccceeeeeeeccc----
Confidence 9999999998 799999999999999999664333567999999999999999999999987 4999999999997
Q ss_pred cccceEEeeeecCCCCCCCcccccCCC
Q 028742 172 KRDVVATIVYELRPNPSDHKTKSESGG 198 (204)
Q Consensus 172 ~r~~v~t~vYE~~~np~Dhk~~~~~~~ 198 (204)
|+.+ +|+.|.|..++..+
T Consensus 268 ---Pv~~------t~m~~~krv~~k~g 285 (288)
T KOG0908|consen 268 ---PVPT------TNMNDFKRVEGKKG 285 (288)
T ss_pred ---cCCC------CCCCcceecccccC
Confidence 7777 78999998766544
No 4
>PF07738 Sad1_UNC: Sad1 / UNC-like C-terminal ; InterPro: IPR012919 The Caenorhabditis elegans UNC-84 protein is a nuclear envelope protein that is involved in nuclear anchoring and migration during development. The S. pombe Sad1 protein localises at the spindle pole body. UNC-84 and Sad1 share a common C-terminal region that is often termed the SUN (Sad1 and UNC) domain [, ]. In mammals, the SUN domain is present in two proteins, Sun1 and Sun2 []. The SUN domain of Sun2 has been demonstrated to be in the periplasm []. ; PDB: 4DXT_A 3UNP_A 4DXR_A 4DXS_A.
Probab=97.58 E-value=0.0015 Score=51.22 Aligned_cols=92 Identities=21% Similarity=0.256 Sum_probs=56.5
Q ss_pred CCceEEEeecCCceeEEEEEEEcCC-----CCCCCceEEEeecCCCC--------CccccccCCcceEEEeeccccceEE
Q 028742 64 DPELLVYIPFTTDVKIKSISIVGGA-----DGTSPSKMRVFINREGI--------DFSDAQDMQAIQEWDLVENLQGVLE 130 (204)
Q Consensus 64 DeQLii~IpF~~~Vkl~sI~I~~~~-----~~~~Pk~iKlf~N~p~l--------dFd~~~~~~p~Q~~~L~~~~~g~~e 130 (204)
...--+-|-|.++|.+.+|.|.-.. -.+|||.++||.=.... .|.=..+..+.|+|.|+..
T Consensus 29 g~~~~~~I~L~~~I~v~~v~i~h~~~~~~~~sSapk~f~V~g~~~~~~~~~~~LG~f~y~~~~~~~QtF~l~~~------ 102 (135)
T PF07738_consen 29 GSKGWLTIELSEPIYVTSVTIEHVEKSIAPFSSAPKDFEVWGSVDYPDEEWVLLGEFEYDSDGNSIQTFPLPRP------ 102 (135)
T ss_dssp TT-EEEEEEEEEEEEEEEEEEE---GGGSG-TTSB-EEEEEEESSSSTS--EEEEEEE--TTS-SEEEEE-SS-------
T ss_pred CCceEEEEEcCCcEEEEEEEEEEeccccCCcCCCCcEEEEEEEecccccceeeeceEEEcCCcCccEeeeeccC------
Confidence 5555677788999999999998542 46899999999765432 2221122345666666443
Q ss_pred EeccccCcccccEEEEEEcCCCCCC-eeEEEEEEEEeE
Q 028742 131 YQTRYSKFQSVANITLHFPDNFGGD-TTQIHYIGLKGE 167 (204)
Q Consensus 131 ~~Lk~~KFqnV~sLtif~~~N~g~e-~t~I~~Igl~G~ 167 (204)
.=+-+..|.|-|.+|+|++ .|-||++.+.|+
T Consensus 103 ------~~~~~~~i~l~i~sN~G~~~ytclyr~rVhG~ 134 (135)
T PF07738_consen 103 ------PRQPVRYIKLRILSNHGNEEYTCLYRFRVHGE 134 (135)
T ss_dssp -------S--EEEEEEEE--BSS-SSEEEE-EEEEEEE
T ss_pred ------chhcCcEEEEEEEcCCCCCceEEEEEEEEEee
Confidence 2115667888899999987 899999999997
No 5
>cd08366 APC10 APC10 subunit of the anaphase-promoting complex (APC) that mediates substrate ubiquitination. This model represents the single domain protein APC10, a subunit of the anaphase-promoting complex (APC), which is a multi-subunit E3 ubiquitin ligase. E3 ubiquitin ligases mediate substrate ubiquitination (or ubiquitylation), a vital component of the ubiquitin-26S proteasome pathway for selective proteolytic degradation. The APC (also known as the cyclosome), is a cell cycle-regulated E3 ubiquitin ligase that controls important transitions in mitosis and the G1 phase by ubiquitinating regulatory proteins, thereby targeting them for degradation. In mitosis, the APC initiates sister chromatid separation by ubiquitinating the anaphase inhibitor securin and triggers exit from mitosis by ubiquitinating cyclin B. The C-terminus of APC10 binds to CDC27/APC3, an APC subunit that contains multiple tetratrico peptide repeats. APC10 domains are homologous to the DOC1 domains present in the
Probab=97.05 E-value=0.016 Score=46.62 Aligned_cols=106 Identities=20% Similarity=0.275 Sum_probs=81.6
Q ss_pred CCCCcceecCCCCCceEEEeecCCceeEEEEEEEcC---CCCCCCceEEEeecCCCCCccccccCCcceEEEeeccccce
Q 028742 52 NSSGEHLESNDGDPELLVYIPFTTDVKIKSISIVGG---ADGTSPSKMRVFINREGIDFSDAQDMQAIQEWDLVENLQGV 128 (204)
Q Consensus 52 d~~~~~l~S~D~DeQLii~IpF~~~Vkl~sI~I~~~---~~~~~Pk~iKlf~N~p~ldFd~~~~~~p~Q~~~L~~~~~g~ 128 (204)
+.+.| =|| |.-..=.|.|-|...|.|+.|.|-.. ++...|++|.+++=... .+.....+++|.+. .|+
T Consensus 27 ~~~Ty-WQS-Dg~qPH~I~i~f~k~~~i~~l~i~vd~~~DeSYtP~~I~v~~G~~~------~dl~e~~~v~l~~p-~Gw 97 (139)
T cd08366 27 SLDTY-WQS-DGPQPHLINIQFSKKTDISAVALYLDYKLDESYTPSKISIRAGTSP------HDLQEVRTVELEEP-NGW 97 (139)
T ss_pred CCCcc-CCC-CCCCCEEEEEEecCCcEEEEEEEEEccCCCCCCCCEEEEEEEECCc------CchhheEEEEcCCC-CEE
Confidence 34556 899 66556688899999999999988753 45679999999986542 23345667777655 789
Q ss_pred EEEecccc---CcccccEEEEEEcCCCCC-CeeEEEEEEEEe
Q 028742 129 LEYQTRYS---KFQSVANITLHFPDNFGG-DTTQIHYIGLKG 166 (204)
Q Consensus 129 ~e~~Lk~~---KFqnV~sLtif~~~N~g~-e~t~I~~Igl~G 166 (204)
+-++|.-. +...+.-|.|-|..|+.+ --|+|.-|.++|
T Consensus 98 v~i~l~~~~~~~~~~~~~iqi~I~~nh~nG~DthiR~iki~g 139 (139)
T cd08366 98 VHIPLEDNRDGKPLRTFFLQIAILSNHQNGRDTHIRQIKVYG 139 (139)
T ss_pred EEEEccCCCCCCeeEEEEEEEEEecccCCCCCcceeeeEecC
Confidence 88988764 677778999999999854 479999998886
No 6
>cd08667 APC10-ZZEF1 APC10/DOC1-like domain of uncharacterized Zinc finger ZZ-type and EF-hand domain-containing protein 1 (ZZEF1) and homologs. This model represents the APC10/DOC1-like domain present in the uncharacterized Zinc finger ZZ-type and EF-hand domain-containing protein 1 (ZZEF1) of Mus musculus. Members of this family contain EF-hand, APC10, CUB, and zinc finger ZZ-type domains. ZZEF1-like APC10 domains are homologous to the APC10 subunit/DOC1 domains present in E3 ubiquitin ligases, which mediate substrate ubiquitination (or ubiquitylation), and are components of the ubiquitin-26S proteasome pathway for selective proteolytic degradation.
Probab=96.79 E-value=0.03 Score=44.70 Aligned_cols=104 Identities=19% Similarity=0.281 Sum_probs=76.0
Q ss_pred CCCcceecCCCC-CceEEEeecCCceeEEEEEEEcC--CCCCCCceEEEeecCCCCCccccccCCcceEEEeeccccceE
Q 028742 53 SSGEHLESNDGD-PELLVYIPFTTDVKIKSISIVGG--ADGTSPSKMRVFINREGIDFSDAQDMQAIQEWDLVENLQGVL 129 (204)
Q Consensus 53 ~~~~~l~S~D~D-eQLii~IpF~~~Vkl~sI~I~~~--~~~~~Pk~iKlf~N~p~ldFd~~~~~~p~Q~~~L~~~~~g~~ 129 (204)
.+.| =|| |-- ..=.|+|-|..-|-|+.|.|... ++...|++|+|++=.. |.|+ +...++++++...|++
T Consensus 24 ~~TY-WQS-DG~q~pH~I~i~f~~~v~i~~l~i~v~~~DeSYtPs~I~I~~G~~---~~dL---~e~~~v~l~~~~~Gwv 95 (131)
T cd08667 24 TSTY-WQS-DGSARSHWIRLKMKPDVVLRHLSIAVAATDQSYMPQQVTVSVGRS---ASSL---QEVRDVHIPSNVTGYV 95 (131)
T ss_pred CCcc-Ccc-CCCCCCeEEEEEecCCeEEEEEEEEEcCCCCCcCCcEEEEEecCC---Hhhh---eeeEEEEcCCCCceeE
Confidence 3456 899 654 24688999999999999988763 4567999999998432 3333 3456677754446787
Q ss_pred EEeccccCcccccEEEEEEcCCCCCC-eeEEEEEEEEe
Q 028742 130 EYQTRYSKFQSVANITLHFPDNFGGD-TTQIHYIGLKG 166 (204)
Q Consensus 130 e~~Lk~~KFqnV~sLtif~~~N~g~e-~t~I~~Igl~G 166 (204)
.++.... ....-|.|.|..|..+. -|+|.-|.++|
T Consensus 96 ~l~~~~~--~~~~~iqI~I~~nhqnG~DthIRgiki~G 131 (131)
T cd08667 96 TLLENAN--ISYLVVQINIKRCHSDGCDTRIHGLKTIG 131 (131)
T ss_pred EEEcCCc--eEEEEEEEEeHHhccCCccceeeEEEEcC
Confidence 7755433 56678999999998544 79999999987
No 7
>cd08159 APC10-like APC10-like DOC1 domains in E3 ubiquitin ligases that mediate substrate ubiquitination. This family contains the single domain protein, APC10, a subunit of the anaphase-promoting complex (APC), as well as the DOC1 domain of multi-domain proteins present in E3 ubiquitin ligases. E3 ubiquitin ligases mediate substrate ubiquitination (or ubiquitylation), a component of the ubiquitin-26S proteasome pathway for selective proteolytic degradation. The APC, a multi-protein complex (or cyclosome), is a cell cycle-regulated, E3 ubiquitin ligase that controls important transitions in mitosis and the G1 phase by ubiquitinating regulatory proteins, thereby targeting them for degradation. APC10-like DOC1 domains such as those present in HECT (Homologous to the E6-AP Carboxyl Terminus) and Cullin-RING (Really Interesting New Gene) E3 ubiquitin ligase proteins, HECTD3, and CUL7, respectively, are also included in this hierarchy. CUL7 is a member of the Cullin-RING ligase family and f
Probab=96.40 E-value=0.072 Score=42.43 Aligned_cols=103 Identities=15% Similarity=0.162 Sum_probs=74.2
Q ss_pred CCCcceecCCCCCceEEEeecCCceeEEEEEEEcC--CCCCCCceEEEeecCCCCCccccccCCcceEEEeeccccceEE
Q 028742 53 SSGEHLESNDGDPELLVYIPFTTDVKIKSISIVGG--ADGTSPSKMRVFINREGIDFSDAQDMQAIQEWDLVENLQGVLE 130 (204)
Q Consensus 53 ~~~~~l~S~D~DeQLii~IpF~~~Vkl~sI~I~~~--~~~~~Pk~iKlf~N~p~ldFd~~~~~~p~Q~~~L~~~~~g~~e 130 (204)
.+.| =+|+..-++..|.+-|...|.|+.|.|... ++...|++|.+++=.. |.|+ +...++++.+. .|++.
T Consensus 24 ~~ty-WQSdG~qphh~i~l~f~k~v~i~~l~i~~~~~DeSYtP~~I~V~~G~~---~~dL---~e~~~v~l~~p-~Gwv~ 95 (129)
T cd08159 24 YDTY-WQSDGSQGSHWIRLFMKKDVLIRVLAIFVDMADSSYMPSLVVVYGGHS---PSDL---RELKDVNIRPS-NGWVA 95 (129)
T ss_pred CCcc-CCCCCCCCCEEEEEEEcCCcEEEEEEEEecCCCCCcCCcEEEEEecCC---HHHh---heeEEEEecCC-CceEE
Confidence 4556 899446667889999999999999999764 4557999999998643 4443 44567777555 67765
Q ss_pred EeccccCcccccEEEEEEcCCCCCC-eeEEEEEEEE
Q 028742 131 YQTRYSKFQSVANITLHFPDNFGGD-TTQIHYIGLK 165 (204)
Q Consensus 131 ~~Lk~~KFqnV~sLtif~~~N~g~e-~t~I~~Igl~ 165 (204)
+.. -......-|.|.|..|..+. -|+|.-|.++
T Consensus 96 i~~--~~~~~~~~iqI~I~~nhqnG~DthiRgikI~ 129 (129)
T cd08159 96 LLE--DDTLKCPYIEIRIKRCRSDGIDTRIRGLRLL 129 (129)
T ss_pred EEc--CCcEEEEEEEEEEHHhccCCccceeeEEEeC
Confidence 532 23455677899999997544 6888887763
No 8
>cd08666 APC10-HECTD3 APC10-like DOC1 domain of HECTD3, a HECT E3 ubiquitin ligase protein that mediates substrate ubiquitination. This model represents the APC10/DOC1 domain present in HECTD3, a HECT (Homologous to the E6-AP Carboxyl Terminus) E3 ubiquitin ligase protein. HECT E3 ubiquitin ligases mediate substrate ubiquitination (or ubiquitylation), and are a component of the ubiquitin-26S proteasome pathway for selective proteolytic degradation. They also regulate the trafficking of many receptors, channels, transporters and viral proteins. HECTD3 (HECT domain-containing protein3) contains a C-terminal HECT domain with the active site for ubiquitin transfer onto substrates, and an N-terminal APC10/DOC1 domain, which is responsible for substrate recognition and binding. HECTD3 specifically recognizes the Trio-binding protein, Tara (Trio-associated repeat on actin), implicated in regulating actin cytoskeletal, cell motility and cell growth. Tara also binds to TRF1 and may participate i
Probab=96.05 E-value=0.22 Score=40.02 Aligned_cols=102 Identities=16% Similarity=0.214 Sum_probs=71.7
Q ss_pred CCCcceecCCCCC-ceEEEeecCCceeEEEEEEEcC--CCCCCCceEEEeecCCCCCccccccCCcceEEEeeccccceE
Q 028742 53 SSGEHLESNDGDP-ELLVYIPFTTDVKIKSISIVGG--ADGTSPSKMRVFINREGIDFSDAQDMQAIQEWDLVENLQGVL 129 (204)
Q Consensus 53 ~~~~~l~S~D~De-QLii~IpF~~~Vkl~sI~I~~~--~~~~~Pk~iKlf~N~p~ldFd~~~~~~p~Q~~~L~~~~~g~~ 129 (204)
.+.| =|| |--. +=.|+|-|..-|.|+.|.|... ++...|++|.+++=. |.+ .+...++++.+...|++
T Consensus 29 ~~ty-WQS-dG~qgpH~I~l~f~~~v~i~~l~i~v~~~DeSYtP~~I~V~~G~----~~d---L~ei~~V~i~~~~~g~V 99 (134)
T cd08666 29 PDTY-WES-DGSQGQHWIRLHMKKGTIIKKLLLTVDATDDNYMPKRVAVYGGE----GDN---LKKLNDVSIDETLIGDV 99 (134)
T ss_pred CCcc-Eec-CCCCCCeEEEEEECCCcEeeEEEEEecCCCCCcCCcEEEEEecC----ccC---hhheEEEEeCCCCCCeE
Confidence 4556 899 6555 6899999999999999999763 455799999999865 233 34455677755445666
Q ss_pred EEeccccCcccccEEEEEEcCCCCCC-eeEEEEEEEE
Q 028742 130 EYQTRYSKFQSVANITLHFPDNFGGD-TTQIHYIGLK 165 (204)
Q Consensus 130 e~~Lk~~KFqnV~sLtif~~~N~g~e-~t~I~~Igl~ 165 (204)
.+ |+..+ ....-|.|.|..|..+. -|+|..|.++
T Consensus 100 ~i-l~~~~-~~~~~iqI~I~~nhqnG~DthIRgiKI~ 134 (134)
T cd08666 100 CI-LEDMT-THLPVIEIRIKECKDEGIDVRIRGIKIK 134 (134)
T ss_pred EE-ecCCc-eEeEEEEEEeHHhccCCccceeeEEEeC
Confidence 55 33322 22235899999997544 7999888763
No 9
>PF03256 APC10: Anaphase-promoting complex, subunit 10 (APC10); InterPro: IPR004939 The anaphase-promoting complex (APC) or cyclosome is a multi-subunit E3 protein ubiquitin ligase that regulates important events in mitosis such as the initiation of anaphase and exit from telophase. The APC, in conjunction with other enzymes, assembles multi-ubiquitin chains on a variety of regulatory proteins, thereby targeting them for proteolysis by the 26S proteasome. Anaphase is initiated when the APC triggers the destruction of securin, thereby allowing the protease, separase, to disrupt sister-chromatid cohesion. Securin ubiquitination by the APC is inhibited by cyclin-dependent kinase 1 (Cdk1)-dependent phosphorylation []. Forkhead Box M1 (FoxM1), which is a transcription factor that is over-expressed in many cancers, is degraded in late mitosis and early G1 phase by the APC/cyclosome (APC/C) E3 ubiquitin ligase []. The APC/C targets mitotic cyclins for destruction in mitosis and G1 phase and is then inactivated at S phase. It thereby generates alternating states of high and low cyclin-Cdk activity, which is required for the alternation of mitosis and DNA replication []. The APC/C is composed of at least 13 subunits that stay tightly associated throughout the cell cycle: APC1, APC2, APC4, APC5, APC9, APC11, CDC16, CDC23, CDC26, CDC27, DOC1, MND2 and SWM1[], []. In fission yeast the 13 subunits are known as: Apc1, Apc2, Nuc2, Apc4, Apc5, Cut9, Apc8, Apc10, Apc11, Hcn1, Apc13, Apc14 and Apc15 []. One of the subunits of the APC that is required for ubiquitination activity is APC10, a one-domain protein homologous to a sequence element, termed the DOC domain, found in several hypothetical proteins that may also mediate ubiquitination reactions, because they contain combinations of either RING finger (see PDOC00449 from PROSITEDOC), cullin (see PDOC00967 from PROSITEDOC) or HECT (see PDOC50237 from PROSITEDOC) domains [, , ]. The DOC domain consists of a beta-sandwich, in which a five-stranded antiparallel beta-sheet is packed on top of a three stranded antiparallel beta-sheet, exhibiting a 'jellyroll' fold [, ]. Proteins known to contain a DOC domain include: Eucaryotic Doc1/Apc10. Mammalian protein associated with the transcription factor Myc (PAM). Mouse runty-jerky-sterile (RJS) protein. Human HERC2, the ortholog of RJS. ; PDB: 1GQP_B 1JHJ_A.
Probab=95.61 E-value=0.057 Score=45.69 Aligned_cols=110 Identities=23% Similarity=0.229 Sum_probs=74.4
Q ss_pred CCCCcceecCCCCCceEEEeecCCceeEEEEEEEcC---CCCCCCceEEEeecCCCCCccccccCCcceEEEeeccccce
Q 028742 52 NSSGEHLESNDGDPELLVYIPFTTDVKIKSISIVGG---ADGTSPSKMRVFINREGIDFSDAQDMQAIQEWDLVENLQGV 128 (204)
Q Consensus 52 d~~~~~l~S~D~DeQLii~IpF~~~Vkl~sI~I~~~---~~~~~Pk~iKlf~N~p~ldFd~~~~~~p~Q~~~L~~~~~g~ 128 (204)
+.+.| =|| |--.-=.|.|-|..-|.|+.|.|-.. ++...|++|.|++=.. +.|+ ....+++|.+ ..|+
T Consensus 55 ~~~Ty-WQS-DG~qpH~I~i~f~k~v~I~~l~iyvd~~~DeSYtPs~I~V~aG~~---~~dl---~e~~~v~l~~-p~GW 125 (193)
T PF03256_consen 55 STETY-WQS-DGSQPHWITIQFHKRVIISSLSIYVDYKQDESYTPSKISVRAGNS---PHDL---QEVKTVELEE-PNGW 125 (193)
T ss_dssp -TT---EE---SSSSEEEEEEEEEEEEE-EEEEEEEHHHHGGGSEEEEEEEEESS---TTT----EEEEEEEECC--EEE
T ss_pred ChhHh-hcc-CCCCCEEEEEEEcCCcEEEEEEEEEccCcCCCCCceEEEEEEeCC---cCce---EEEEEEEecC-CCcc
Confidence 35666 999 66656899999999999999999753 5668999999998543 2222 3345667755 3789
Q ss_pred EEEeccc--cCcccccEEEEEEcCCCCC-CeeEEEEEEEEeEEcC
Q 028742 129 LEYQTRY--SKFQSVANITLHFPDNFGG-DTTQIHYIGLKGEATQ 170 (204)
Q Consensus 129 ~e~~Lk~--~KFqnV~sLtif~~~N~g~-e~t~I~~Igl~G~~~~ 170 (204)
+.++|+- .++-.+.-|.|.|..|..+ --|+|..|.++|-...
T Consensus 126 v~i~l~~~~~~~~r~~~iqI~I~~nhq~G~DthiR~iki~gp~~~ 170 (193)
T PF03256_consen 126 VHIPLLDNRGNPLRCFFIQIAILSNHQNGKDTHIRGIKIYGPRPS 170 (193)
T ss_dssp EEEE-BSTTTSBEEEEEEEEEEEEECCC-SS-EESEEEEEEE---
T ss_pred EEEEeCCCCCCcEEEEEEEEEEEecccCCCCCceeeEEEECCCCc
Confidence 9999874 3555667899999888744 4799999999996443
No 10
>cd08665 APC10-CUL7 APC10-like DOC1 domain of CUL7, subunit of the SCF-ROC1-like E3 ubiquitin ligase complex that mediates substrate ubiquitination. This model represents the APC10/DOC1 domain present in CUL7, a subunit of the SCF-ROC1-like E3 Ubiquitin (Ub) ligase complex, which mediates substrate ubiquitination (or ubiquitylation), and is a component of the ubiquitin-26S proteasome pathway for selective proteolytic degradation. CUL7 is a member of the Cullin-RING ligase family and functions as a molecular scaffold assembling the SCF-ROC1-like E3 Ub ligase complex consisting of the adapter protein Skp1, CUL7, the WD40 repeat-containing F-box Fbw8 (also known as Fbx29), and ROC1 (RING-box protein 1). CUL7 is a large protein with a C-terminal cullin domain that binds ROC1 and additional domains, including an APC10/DOC1 domain. While the Fbw8 protein is responsible for substrate protein recognition, the ROC1 RING domain recruits an Ub-charged E2 Ub-conjugating enzyme for substrate ubiqui
Probab=95.14 E-value=0.58 Score=37.44 Aligned_cols=103 Identities=14% Similarity=0.174 Sum_probs=71.8
Q ss_pred CCCcceecCCCC-CceEEEeecCCceeEEEEEEEcC--CCCCCCceEEEeecCCCCCccccccCCcceEEEeeccccceE
Q 028742 53 SSGEHLESNDGD-PELLVYIPFTTDVKIKSISIVGG--ADGTSPSKMRVFINREGIDFSDAQDMQAIQEWDLVENLQGVL 129 (204)
Q Consensus 53 ~~~~~l~S~D~D-eQLii~IpF~~~Vkl~sI~I~~~--~~~~~Pk~iKlf~N~p~ldFd~~~~~~p~Q~~~L~~~~~g~~ 129 (204)
.+.| =|| |-- ..=.|+|-|..-|.|+.|.|... ++...|++|.|.+=.. |.++. +...++++.+. .|++
T Consensus 24 ~~ty-WQS-dG~q~pH~I~i~f~k~v~I~~l~i~v~~~DeSYtPs~I~V~~G~~---~~dL~--~e~~~V~~~~~-~g~v 95 (131)
T cd08665 24 PKTY-WES-NGSTGSHYINIHMHRGVVIRQLYMLVASEDSSYMPARVVVLGGDS---PSCIT--TELNAVNVSPT-ASRV 95 (131)
T ss_pred CCce-Ecc-CCCCCCeEEEEEECCCcEEEEEEEEecCCCCCcCCeeEEEEecCC---HHHhh--heeEEEEccCC-cceE
Confidence 4456 899 665 37799999999999999999764 3457999999998543 33332 23445566444 4655
Q ss_pred EEecccc-CcccccEEEEEEcCCCCCC-eeEEEEEEEEe
Q 028742 130 EYQTRYS-KFQSVANITLHFPDNFGGD-TTQIHYIGLKG 166 (204)
Q Consensus 130 e~~Lk~~-KFqnV~sLtif~~~N~g~e-~t~I~~Igl~G 166 (204)
.+ |.-+ .|. .-|.|.|..|+.+. -|+|.-|.++|
T Consensus 96 ~l-l~~~~~~~--~~iqI~I~~nhqnG~DthIRgikI~G 131 (131)
T cd08665 96 VL-LENMTRFW--PIIQIRIKRCQQGGIDTRVRGLEILG 131 (131)
T ss_pred EE-cccCcccc--eEEEEEEhhhcccCccceeeEEEecC
Confidence 43 4332 222 46999999998544 79999999987
No 11
>cd08365 APC10-like1 APC10-like DOC1 domains of E3 ubiquitin ligases that mediate substrate ubiquitination. This model represens the APC10-like DOC1 domain of multi-domain proteins present in E3 ubiquitin ligases. E3 ubiquitin ligases mediate substrate ubiquitination (or ubiquitylation), a component of the ubiquitin-26S proteasome pathway for selective proteolytic degradation. APC10/DOC1 domains such as those present in HECT (Homologous to the E6-AP Carboxyl Terminus) and Cullin-RING (Really Interesting New Gene) E3 ubiquitin ligase proteins, HECTD3, and CUL7, respectively, are also included here. CUL7 is a member of the Cullin-RING ligase family and functions as a molecular scaffold assembling a SCF-ROC1-like E3 ubiquitin ligase complex consisting of Skp1, CUL7, Fbx29 F-box protein, and ROC1 (RING-box protein 1) and promotes ubiquitination. CUL7 is a multi-domain protein with a C-terminal cullin domain that binds ROC1 and a centrally positioned APC10/DOC1 domain. HECTD3 contains a C-te
Probab=94.30 E-value=0.9 Score=36.28 Aligned_cols=102 Identities=18% Similarity=0.240 Sum_probs=70.1
Q ss_pred CCCcceecCCCCC-ceEEEeecCCceeEEEEEEEcC--CCCCCCceEEEeecCCCCCccccccCCcceEEEeeccccceE
Q 028742 53 SSGEHLESNDGDP-ELLVYIPFTTDVKIKSISIVGG--ADGTSPSKMRVFINREGIDFSDAQDMQAIQEWDLVENLQGVL 129 (204)
Q Consensus 53 ~~~~~l~S~D~De-QLii~IpF~~~Vkl~sI~I~~~--~~~~~Pk~iKlf~N~p~ldFd~~~~~~p~Q~~~L~~~~~g~~ 129 (204)
.+.| =|| |--. +=.|+|-|..-|.|++|.|... ++...|++|++++=.. |+|+ +...++++.+...|++
T Consensus 25 ~~ty-WQS-DG~q~pH~I~i~f~k~v~i~~l~l~vd~~DeSYtP~~I~V~~G~~---~~dL---~e~~~v~v~~~~~g~v 96 (131)
T cd08365 25 TSTY-WQS-DGSQGSHWIRLKMKPDVLVRHLSLAVDATDSSYMPQRVVVAGGRS---ASNL---QELRDVNIPPSVTGYV 96 (131)
T ss_pred CCce-Ecc-CCCCCCEEEEEEEcCCcEEEEEEEEecCCCCCCCCcEEEEEecCC---HHHh---eeEEEEEccCCCceeE
Confidence 4556 899 5433 5799999999999999999863 4457999999998643 4443 3355566654434555
Q ss_pred EEeccccCcccccEEEEEEcCCCCCC-eeEEEEEEE
Q 028742 130 EYQTRYSKFQSVANITLHFPDNFGGD-TTQIHYIGL 164 (204)
Q Consensus 130 e~~Lk~~KFqnV~sLtif~~~N~g~e-~t~I~~Igl 164 (204)
.+ | .-.-....-|.|.|..|..+. -|+|.-|.+
T Consensus 97 ~l-l-~~~~~~~~~iqI~I~~nhqnG~DthiRgikI 130 (131)
T cd08365 97 TL-L-EDATISQPYIEIRIKRCRSDGIDTRIHGLRI 130 (131)
T ss_pred EE-c-cCCceeeEEEEEEEHHHccCCccceeeEEEe
Confidence 43 2 112234567899999997544 688887765
No 12
>KOG3437 consensus Anaphase-promoting complex (APC), subunit 10 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=93.95 E-value=1 Score=37.89 Aligned_cols=108 Identities=23% Similarity=0.298 Sum_probs=79.8
Q ss_pred CCcceecCCCCCceEEEeecCCceeEEEEEEEcC---CCCCCCceEEEeecCCCCCccccccCCcceEEEeeccccceEE
Q 028742 54 SGEHLESNDGDPELLVYIPFTTDVKIKSISIVGG---ADGTSPSKMRVFINREGIDFSDAQDMQAIQEWDLVENLQGVLE 130 (204)
Q Consensus 54 ~~~~l~S~D~DeQLii~IpF~~~Vkl~sI~I~~~---~~~~~Pk~iKlf~N~p~ldFd~~~~~~p~Q~~~L~~~~~g~~e 130 (204)
+.| -+| |--.==.|+|-|..-|+|..+.|-.. ++..+|.+|||..= -+|.|+.. .|..+|.+. +|++-
T Consensus 48 ety-WqS-dG~~PH~i~I~F~K~~~I~~v~if~~f~~DeSYtPs~i~I~~G---~g~~dl~~---~~~~el~ep-~GWv~ 118 (184)
T KOG3437|consen 48 ETY-WQS-DGSQPHLINIQFHKRVDIQYVVIFLDFKQDESYTPSKIKIRAG---NGFNDLWE---IQSVELVEP-KGWVH 118 (184)
T ss_pred hHh-eec-CCCCCeEEEEEEEeEEEEEEEEEEEEEecccccCceeEEEEec---CChhheee---eeEEEEecC-CceEE
Confidence 344 788 55444567899999999999999864 56789999998874 35655544 677888665 78887
Q ss_pred Eeccc--cCcccccEEEEEEcCCCCC-CeeEEEEEEEEeEEcC
Q 028742 131 YQTRY--SKFQSVANITLHFPDNFGG-DTTQIHYIGLKGEATQ 170 (204)
Q Consensus 131 ~~Lk~--~KFqnV~sLtif~~~N~g~-e~t~I~~Igl~G~~~~ 170 (204)
+|+.- .+--.|..|.|-|..|..+ --|-+..|.+++-+.+
T Consensus 119 lp~~d~~~~~lr~~~iqi~i~~NHq~GkDthvR~iri~~p~~e 161 (184)
T KOG3437|consen 119 LPVLDNDDKPLRCFMIQIAILSNHQNGKDTHVRHIRIYAPSIE 161 (184)
T ss_pred EeeccCCCCceEEEEEEEEeecccccCccceeEEEEEeccccc
Confidence 77765 4555678888999999754 3577888888886543
No 13
>PF14652 DUF4457: Domain of unknown function (DUF4457)
Probab=93.00 E-value=1.9 Score=39.23 Aligned_cols=139 Identities=11% Similarity=0.088 Sum_probs=76.1
Q ss_pred CCCCcceecCCCCCceEEEeecCCceeEEEEEEEcCC-----CCCCCceEEEeecCCCC-C--ccccccCC------cce
Q 028742 52 NSSGEHLESNDGDPELLVYIPFTTDVKIKSISIVGGA-----DGTSPSKMRVFINREGI-D--FSDAQDMQ------AIQ 117 (204)
Q Consensus 52 d~~~~~l~S~D~DeQLii~IpF~~~Vkl~sI~I~~~~-----~~~~Pk~iKlf~N~p~l-d--Fd~~~~~~------p~Q 117 (204)
+...| +..-....+..|.|-|.++++|..|.|=--. ....-|.|+||.|...+ + --.+...+ -.|
T Consensus 69 ~~~MW-l~pf~~~~~~~i~i~f~~~~~is~iRIWNYNks~~ds~~GvK~v~I~ldg~~i~~~~~~~irkapG~~~~D~~q 147 (329)
T PF14652_consen 69 DEHMW-LAPFSPGKQHVITIRFPEPTSISGIRIWNYNKSREDSYRGVKDVKIYLDGKLIFPGEGFLIRKAPGNCHFDFGQ 147 (329)
T ss_pred ccceE-EeecCCCCCEEEEEEeCCCceeeEEEEEcCCCCcchhhcCeEEEEEEECCEEeecccceEEeeccccCcccccc
Confidence 45566 5331256688999999999999999996431 23568999999996543 1 00122211 245
Q ss_pred EEEeeccccce-----------------EEEeccccCcccccEEEEEEcCCCCCCeeEEEEEEEEeEEcC-ccccceEEe
Q 028742 118 EWDLVENLQGV-----------------LEYQTRYSKFQSVANITLHFPDNFGGDTTQIHYIGLKGEATQ-LKRDVVATI 179 (204)
Q Consensus 118 ~~~L~~~~~g~-----------------~e~~Lk~~KFqnV~sLtif~~~N~g~e~t~I~~Igl~G~~~~-~~r~~v~t~ 179 (204)
++.|....... ..-.....-+.....|+|.+-+|||+. +||||-|---- ..-+++...
T Consensus 148 ~I~f~~~~k~~~~sks~~~~~~~~s~~~~~~~~~~~~~p~g~~l~~~ilStWGd~----~yvGLngiElfD~~g~~i~~~ 223 (329)
T PF14652_consen 148 TILFTDQDKISENSKSPSLISNVNSEEQASQDYEIPELPCGFVLQIEILSTWGDP----HYVGLNGIELFDENGERIKIS 223 (329)
T ss_pred EEEeecccccccccccccccccccccccccccccccccccceEEEEEEeeccCCc----ceecccceEEEcCCCCEEeec
Confidence 55553321100 000111223456789999999999985 44444442111 111233211
Q ss_pred eeecCCCCCCCccccc
Q 028742 180 VYELRPNPSDHKTKSE 195 (204)
Q Consensus 180 vYE~~~np~Dhk~~~~ 195 (204)
-+...+.|.|-.+.++
T Consensus 224 ~~~i~a~p~~v~~l~~ 239 (329)
T PF14652_consen 224 PNNITAFPPSVNVLPG 239 (329)
T ss_pred hhheeccCcccccCcc
Confidence 2344566666665533
No 14
>cd08664 APC10-HERC2 APC10-like DOC1 domain present in HERC2 (HECT domain and RLD2). This model represents the APC10/DOC1 domain present in HERC2 (HECT domain and RLD2), a large multi-domain protein with three RCC1-like domains (RLDs), additional internal domains including a zinc finger ZZ-type and Cyt-b5 (Cytochrome b5-like Heme/Steroid binding) domains, and a C-terminal HECT (Homologous to the E6-AP Carboxyl Terminus) domain. The APC10/DOC1 domain of HERC2 is a homolog of the APC10 subunit and the DOC1 domain present in E3 ubiquitin ligases which mediate substrate ubiquitination (or ubiquitylation), a component of the ubiquitin-26S proteasome pathway for selective proteolytic degradation. As suggested by structural relationships between HERC2 and other proteins such as HERC1, the proposed role for HERC2 in protein trafficking and degradation pathways is consistent with observations that mutations in HERC2 lead to neuromuscular secretory vesicle and sperm acrosome defects, other develo
Probab=91.98 E-value=3.5 Score=33.77 Aligned_cols=102 Identities=13% Similarity=0.187 Sum_probs=68.7
Q ss_pred CCCcceecCCCCCceEEEeecCCceeEEEEEEEcC--CCCCCCceEEEeecCCCCCccccccCCcceEEEeeccccceEE
Q 028742 53 SSGEHLESNDGDPELLVYIPFTTDVKIKSISIVGG--ADGTSPSKMRVFINREGIDFSDAQDMQAIQEWDLVENLQGVLE 130 (204)
Q Consensus 53 ~~~~~l~S~D~DeQLii~IpF~~~Vkl~sI~I~~~--~~~~~Pk~iKlf~N~p~ldFd~~~~~~p~Q~~~L~~~~~g~~e 130 (204)
.+.| =||+..-++=.|+|-|..-|-|++|.|... ++...|++|.|++=. +|+++ +...++++++. .+.+.
T Consensus 47 ~~TY-WQSdG~q~~HwI~l~~~~~v~I~~L~i~vd~~DeSY~Ps~I~V~~G~---~~~~L---~el~~V~i~~~-~~~v~ 118 (152)
T cd08664 47 SGSY-WQSSGSQGKHWIRLELHPDVLIHSLKIIVDPADSSYMPSLVVVSGGD---SLNSL---KELKTINVNAT-DTLVT 118 (152)
T ss_pred CCCe-eccCCCCCceEEEEEECCCcEEEEEEEEecCCCCCcCCceEEEEecC---Chhhh---heeEEEEcCCC-CceEE
Confidence 3455 899333336899999999999999999865 345799999998754 35443 44455566444 23333
Q ss_pred EeccccCcccccEEEEEEcCCCCCC-eeEEEEEEE
Q 028742 131 YQTRYSKFQSVANITLHFPDNFGGD-TTQIHYIGL 164 (204)
Q Consensus 131 ~~Lk~~KFqnV~sLtif~~~N~g~e-~t~I~~Igl 164 (204)
+......|. .-|.|.|..|..+. -|+|.-|.+
T Consensus 119 Ll~~~~~~~--~~IqI~I~~ch~~GiDt~IrglkI 151 (152)
T cd08664 119 LLQDVKEYY--RYIEIAIKQCRNNGIDCKIHGLNI 151 (152)
T ss_pred eccCCCeee--EEEEEEhHhhhhCCCcceeeEEEe
Confidence 322333442 57899999998554 788887765
No 15
>COG5156 DOC1 Anaphase-promoting complex (APC), subunit 10 [Cell division and chromosome partitioning / Posttranslational modification, protein turnover, chaperones]
Probab=91.80 E-value=1.4 Score=36.63 Aligned_cols=135 Identities=16% Similarity=0.202 Sum_probs=85.4
Q ss_pred ccccccccc---ceEEcCCCCCcccccccccccccCCCCcceecCCCCCceEEEeecCCceeEEEEEEEc---CCCCCCC
Q 028742 20 LYKHIDLSK---VSALNEAVPGSVKSVFKAWEQRLNSSGEHLESNDGDPELLVYIPFTTDVKIKSISIVG---GADGTSP 93 (204)
Q Consensus 20 L~~~ID~~~---v~cLNe~~~~~~~~v~k~~~~r~d~~~~~l~S~D~DeQLii~IpF~~~Vkl~sI~I~~---~~~~~~P 93 (204)
-..+||... .+|--....++++.++.. +-+.| -+| |.-.---|+|-|..-+-|+++.+-- .++..+|
T Consensus 20 sa~~inv~~La~w~~SSfK~g~p~r~~ldd-----n~dty-Wqs-Dg~qPH~i~I~F~kr~~I~~v~lfls~t~DeSYtP 92 (189)
T COG5156 20 SARMINVTHLAEWRLSSFKRGHPLRELLDD-----NMDTY-WQS-DGVQPHSIQISFDKRRYIQSVQLFLSFTQDESYTP 92 (189)
T ss_pred ccceecchhheeeeecccccCCcHHHHhhc-----chhhh-hcc-CCCCCceEEEEEeEEEeeeeehhhhhhhcccccCc
Confidence 334555443 345445556666666532 22445 889 6555567899998888888887753 4677899
Q ss_pred ceEEEeecCCCCCccccccCCcceEEEeeccccceEEEeccccCcc-----cccEEEEEEcCCCCC-CeeEEEEEEEEeE
Q 028742 94 SKMRVFINREGIDFSDAQDMQAIQEWDLVENLQGVLEYQTRYSKFQ-----SVANITLHFPDNFGG-DTTQIHYIGLKGE 167 (204)
Q Consensus 94 k~iKlf~N~p~ldFd~~~~~~p~Q~~~L~~~~~g~~e~~Lk~~KFq-----nV~sLtif~~~N~g~-e~t~I~~Igl~G~ 167 (204)
.+|++++- ++|+|++..+ ++++.+. .|++ .|++..|- .|.-|.|.|..|..+ .-+.+.-|.++--
T Consensus 93 s~i~v~aG---~~~~D~r~~~---~vev~ep-~Gwv--~l~v~d~~~d~LL~c~~I~v~i~~NHq~GKDsHvR~ikiy~p 163 (189)
T COG5156 93 SKIGVRAG---LTREDVREIS---SVEVVEP-EGWV--TLSVADKREDDLLKCIYILVVINSNHQEGKDSHVRHIKIYEP 163 (189)
T ss_pred ceeEEecc---CChhhheeEE---EEEEEcC-CceE--EEEecccCcCCceeEEEEEEEEecCcccCcccceeeEEEecc
Confidence 99999984 5677777654 3444333 5664 57777663 356677778888743 3466666766654
Q ss_pred EcC
Q 028742 168 ATQ 170 (204)
Q Consensus 168 ~~~ 170 (204)
..+
T Consensus 164 s~e 166 (189)
T COG5156 164 STE 166 (189)
T ss_pred CCc
Confidence 443
No 16
>KOG2687 consensus Spindle pole body protein, contains UNC-84 domain [Cell cycle control, cell division, chromosome partitioning]
Probab=91.54 E-value=2.6 Score=39.64 Aligned_cols=90 Identities=17% Similarity=0.249 Sum_probs=63.0
Q ss_pred CCceEEEeecCCceeEEEEEEEcC------CC--CCCCceEEEeecCC----------CCCccccccCCcceEEEeeccc
Q 028742 64 DPELLVYIPFTTDVKIKSISIVGG------AD--GTSPSKMRVFINRE----------GIDFSDAQDMQAIQEWDLVENL 125 (204)
Q Consensus 64 DeQLii~IpF~~~Vkl~sI~I~~~------~~--~~~Pk~iKlf~N~p----------~ldFd~~~~~~p~Q~~~L~~~~ 125 (204)
++|=-+.|-+-..|-+.+|.+.-. +. .+|||...||.=.+ ...|| .+.++.|+|.+..+.
T Consensus 301 Gsrg~v~V~La~~Iip~avTleHv~~sVspd~~~sSAPKdf~V~g~~~~~~~~~~LLG~ftYD--~d~~~~QtF~~q~~~ 378 (414)
T KOG2687|consen 301 GSRGYVTVRLARFIIPSAVTLEHVPKSVSPDGNISSAPKDFDVFGSTQDCTEEEVLLGEFTYD--LDGSPIQTFSLQHDT 378 (414)
T ss_pred CCceEEEEEecceEEeeeeeeecccceecCCCCcCcCCcceEEEeecccCCcCceeeEEEEEC--CCCCcceEEeccCCC
Confidence 445566777889999999988643 22 47999999997654 11333 233567777774431
Q ss_pred cceEEEeccccCcccccEEEEEEcCCCCCC-eeEEEEEEEEeE
Q 028742 126 QGVLEYQTRYSKFQSVANITLHFPDNFGGD-TTQIHYIGLKGE 167 (204)
Q Consensus 126 ~g~~e~~Lk~~KFqnV~sLtif~~~N~g~e-~t~I~~Igl~G~ 167 (204)
+.-++++-|-|.+|||.. .|-||++.+.|+
T Consensus 379 ------------~~~~~~V~l~~~SN~G~p~fTCiYR~RVhG~ 409 (414)
T KOG2687|consen 379 ------------SAPFKTVELRFNSNHGHPKFTCIYRFRVHGR 409 (414)
T ss_pred ------------ccccceEEEEEecCCCCCCceEEEEEEEcCc
Confidence 223445667799999997 899999999997
No 17
>cd00057 FA58C Substituted updates: Jan 31, 2002
Probab=73.22 E-value=37 Score=25.54 Aligned_cols=48 Identities=13% Similarity=0.258 Sum_probs=33.7
Q ss_pred CCceEEEeecCCceeEEEEEEEcCCC---CCCCceEEEeecCCCCCcccccc
Q 028742 64 DPELLVYIPFTTDVKIKSISIVGGAD---GTSPSKMRVFINREGIDFSDAQD 112 (204)
Q Consensus 64 DeQLii~IpF~~~Vkl~sI~I~~~~~---~~~Pk~iKlf~N~p~ldFd~~~~ 112 (204)
.+| =|.|-|.++++|..|.|.+..+ ...+++.+|+.=...-.+..+.+
T Consensus 44 ~~~-wi~vDL~~~~~i~~v~i~~~~~~~~~~~~~~~~i~~s~dg~~W~~~~~ 94 (143)
T cd00057 44 PPQ-WLQVDLGKTRRVTGIQTQGRKGGGSSEWVTSYKVQYSLDGETWTTYKD 94 (143)
T ss_pred CCc-eEEEECCCCEEEEEEEEccCCCCCccCeeEEEEEEEECCCCCEeEEEc
Confidence 344 4668899999999999997653 45688888877555444554443
No 18
>PF00754 F5_F8_type_C: F5/8 type C domain; InterPro: IPR000421 Blood coagulation factors V and VIII contain a C-terminal, twice repeated, domain of about 150 amino acids, which is called F5/8 type C, FA58C, or C1/C2- like domain. In the Dictyostelium discoideum (Slime mold) cell adhesion protein discoidin, a related domain, named discoidin I-like domain, DLD, or DS, has been found which shares a common C-terminal region of about 110 amino acids with the FA58C domain, but whose N-terminal 40 amino acids are much less conserved. Similar domains have been detected in other extracellular and membrane proteins [, , ] In coagulation factors V and VIII the repeated domains compose part of a larger functional domain which promotes binding to anionic phospholipids on the surface of platelets and endothelial cells []. The C-terminal domain of the second FA58C repeat (C2) of coagulation factor VIII has been shown to be responsible for phosphatidylserine-binding and essential for activity [, ]. It forms an amphipathic alpha-helix, which binds to the membrane []. FA58C contains two conserved cysteines in most proteins, which link the extremities of the domain by a disulphide bond [, , ]. A further disulphide bond is located near the C-terminal of the second FA58C domain in MFGM Q08431 from SWISSPROT []. +------------------------------------------------------------------------+ | +-+ | | | | | CxPLGxxQITASxxxxxRLxxxWxxxxWxxxxxxQGxxxxxxxxxxxxGNxxxxxxxxxxRxPxcxcLRxExGC 'C': conserved cysteine involved in a disulphide bond. 'c': cysteine involved in a disulphide bond in MFGM Q08431 from SWISSPROT. 'x': any amino acid. upper case letters: conserved residues. ; GO: 0007155 cell adhesion; PDB: 2J22_A 3CQO_C 1SDD_B 2VCA_A 2VC9_A 2VCC_A 2VCB_A 2J1E_A 2J7M_A 2J1A_A ....
Probab=67.25 E-value=42 Score=24.20 Aligned_cols=51 Identities=20% Similarity=0.333 Sum_probs=40.8
Q ss_pred CCCceEEEeecCCceeEEEEEEEcCCCCC--CCceEEEeecCCCCCccccccC
Q 028742 63 GDPELLVYIPFTTDVKIKSISIVGGADGT--SPSKMRVFINREGIDFSDAQDM 113 (204)
Q Consensus 63 ~DeQLii~IpF~~~Vkl~sI~I~~~~~~~--~Pk~iKlf~N~p~ldFd~~~~~ 113 (204)
.+..-=|.|-|.++++|++|.|....+.. .|+.++|+.-....+|..+.+.
T Consensus 34 ~~~~~~i~idl~~~~~i~~i~i~~~~~~~~~~~~~~~i~~s~dg~~w~~~~~~ 86 (129)
T PF00754_consen 34 DDSPQWIQIDLGKPYTISGISIQFRNDGNNGRPKSFKIEYSNDGSNWTTVASQ 86 (129)
T ss_dssp SSSTEEEEEEEEEEEEEEEEEEEEESSTTTEEEEEEEEEEESSSSSEEEEEET
T ss_pred CCCCceEEEEeeeeEecceeeecccccccceeeeeeeeeeecccccccccccc
Confidence 55566788899999999999999865543 7999999999777777766653
No 19
>PF06165 Glyco_transf_36: Glycosyltransferase family 36; InterPro: IPR010383 The biosynthesis of disaccharides, oligosaccharides and polysaccharides involves the action of hundreds of different glycosyltransferases. These enzymes catalyse the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. A classification of glycosyltransferases using nucleotide diphospho-sugar, nucleotide monophospho-sugar and sugar phosphates (2.4.1.- from EC) and related proteins into distinct sequence based families has been described []. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. The same three-dimensional fold is expected to occur within each of the families. Because 3-D structures are better conserved than sequences, several of the families defined on the basis of sequence similarities may have similar 3-D structures and therefore form 'clans'. The glycosyltransferase family 36 includes cellobiose phosphorylase (2.4.1.20 from EC), cellodextrin phosphorylase (2.4.1.49 from EC), and chitobiose phosphorylase. Many members of this family contain two copies of the domain represented in this entry.; PDB: 3QDE_A 3RRS_B 1V7V_A 1V7W_A 1V7X_A 3ACT_B 2CQT_A 3QFY_B 3QFZ_A 2CQS_A ....
Probab=29.27 E-value=1.2e+02 Score=22.82 Aligned_cols=37 Identities=22% Similarity=0.433 Sum_probs=27.1
Q ss_pred CCCCceEEEeecCCceeEEEEEEEcCCCCCCCceEEEee
Q 028742 62 DGDPELLVYIPFTTDVKIKSISIVGGADGTSPSKMRVFI 100 (204)
Q Consensus 62 D~DeQLii~IpF~~~Vkl~sI~I~~~~~~~~Pk~iKlf~ 100 (204)
+..-+|-+.||=..+|+|..|.|+-. +..|+++.|+.
T Consensus 49 gi~~~~~v~V~~~~~vEi~~l~l~N~--~~~~r~L~vts 85 (110)
T PF06165_consen 49 GIETELTVFVPPDDPVEIRRLRLTNT--SNRPRRLSVTS 85 (110)
T ss_dssp TEEEEEEEE--TTSSEEEEEEEEEE---SSS-EEEEEEE
T ss_pred CEEEEEEEEEcCCCCEEEEEEEEEEC--cCCcEEEEEEE
Confidence 34457999999999999999999954 35788998874
No 20
>PF01834 XRCC1_N: XRCC1 N terminal domain; InterPro: IPR002706 DNA-repair protein Xrcc1 functions in the repair of single-strand DNA breaks in mammalian cells and forms a repair complex with beta-Pol, ligase III and PARP []. The NMR solution structure of the Xrcc1 N-terminal domain (Xrcc1 NTD) shows that the structural core is a beta-sandwich with beta-strands connected by loops, three helices and two short two-stranded beta-sheets at each connection side. The Xrcc1 NTD specifically binds single-strand break DNA (gapped and nicked) and a gapped DNA-beta-Pol complex [].; GO: 0003684 damaged DNA binding, 0000012 single strand break repair, 0005634 nucleus; PDB: 3K77_E 3K75_C 3LQC_A 1XNA_A 1XNT_A.
Probab=27.10 E-value=54 Score=26.96 Aligned_cols=52 Identities=17% Similarity=0.070 Sum_probs=36.4
Q ss_pred ceEEcCCCCCcccccccccccccCCCCcceecCCCC-CceEEEeecCCceeEEEEEEEc
Q 028742 29 VSALNEAVPGSVKSVFKAWEQRLNSSGEHLESNDGD-PELLVYIPFTTDVKIKSISIVG 86 (204)
Q Consensus 29 v~cLNe~~~~~~~~v~k~~~~r~d~~~~~l~S~D~D-eQLii~IpF~~~Vkl~sI~I~~ 86 (204)
+.|-.|++.+++.|+|++-. -..| .-+ ... .|+=+-+-|..++.|++|-|..
T Consensus 10 vS~SSed~~~~A~NLL~~d~----~r~W-~~~-~~gek~~~V~lQl~~~~~I~~IDIGN 62 (153)
T PF01834_consen 10 VSFSSEDPVHPAENLLKSDT----YRKW-KCA-KAGEKQASVELQLEKASQITSIDIGN 62 (153)
T ss_dssp EEESSS-SSSHGGGGSCGGG----CHHE-EHS-STT-SEEEEEEEEEEEE--SEEEEEE
T ss_pred EEEeCCCCCCchhhccCccc----CCcc-ccc-CCCCceEEEEEEecCceEEEEEeccC
Confidence 56888999999999998622 1346 544 444 4666889999999999999973
No 21
>cd06494 p23_NUDCD2_like p23-like NUD (nuclear distribution) C-like found in human NUDC domain-containing protein 2 (NUDCD2) and similar proteins. Little is known about the function of the proteins in this subgroup.
Probab=25.73 E-value=1.2e+02 Score=22.42 Aligned_cols=37 Identities=5% Similarity=0.138 Sum_probs=31.2
Q ss_pred cCCCCCceEEEeecCCceeEEEEEEEcCCCCCCCceEEEeecC
Q 028742 60 SNDGDPELLVYIPFTTDVKIKSISIVGGADGTSPSKMRVFINR 102 (204)
Q Consensus 60 S~D~DeQLii~IpF~~~Vkl~sI~I~~~~~~~~Pk~iKlf~N~ 102 (204)
+ -.++++-|.||+-..++-+.+.+. -.|+++++..+.
T Consensus 11 ~-QT~~eV~v~i~lp~~~~~kdv~V~-----i~~~~l~V~~~g 47 (93)
T cd06494 11 Y-QTMDEVFIEVNVPPGTRAKDVKCK-----LGSRDISLAVKG 47 (93)
T ss_pred E-eEcCEEEEEEECCCCCceeeEEEE-----EEcCEEEEEECC
Confidence 5 368889999999999999999998 677889988763
Done!