Query 039218
Match_columns 135
No_of_seqs 105 out of 385
Neff 5.4
Searched_HMMs 46136
Date Fri Mar 29 07:29:01 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/039218.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/039218hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF06201 PITH: PITH domain; I 100.0 2.8E-47 6E-52 289.5 10.8 116 3-119 33-152 (152)
2 KOG1730 Thioredoxin-like prote 100.0 7.7E-41 1.7E-45 260.6 10.1 117 3-121 56-173 (206)
3 KOG0908 Thioredoxin-like prote 100.0 6.3E-38 1.4E-42 255.2 10.9 129 6-134 153-283 (288)
4 PF07738 Sad1_UNC: Sad1 / UNC- 97.4 0.0035 7.5E-08 45.8 10.4 93 15-119 29-135 (135)
5 cd08667 APC10-ZZEF1 APC10/DOC1 96.9 0.017 3.7E-07 43.3 10.4 103 7-117 25-131 (131)
6 cd08366 APC10 APC10 subunit of 96.7 0.033 7.2E-07 42.0 10.3 106 5-117 27-139 (139)
7 cd08666 APC10-HECTD3 APC10-lik 96.0 0.2 4.2E-06 37.9 11.0 102 6-116 29-134 (134)
8 cd08159 APC10-like APC10-like 95.9 0.17 3.6E-06 37.9 10.1 102 6-116 24-129 (129)
9 PF03256 APC10: Anaphase-promo 95.3 0.12 2.6E-06 41.0 8.0 109 6-121 56-170 (193)
10 cd08365 APC10-like1 APC10-like 95.3 0.45 9.8E-06 35.7 10.6 102 6-115 25-130 (131)
11 KOG2687 Spindle pole body prot 94.6 0.58 1.3E-05 41.3 11.1 93 15-121 301-412 (414)
12 KOG3437 Anaphase-promoting com 94.6 0.5 1.1E-05 37.4 9.6 106 8-121 49-161 (184)
13 cd08665 APC10-CUL7 APC10-like 94.4 0.95 2.1E-05 34.0 10.3 102 7-117 25-131 (131)
14 cd08664 APC10-HERC2 APC10-like 92.4 3.2 6.9E-05 32.0 10.6 101 4-115 45-151 (152)
15 COG5156 DOC1 Anaphase-promotin 91.0 1.2 2.6E-05 35.0 7.0 104 8-120 53-165 (189)
16 PF14652 DUF4457: Domain of un 78.9 22 0.00048 30.1 9.3 108 14-121 79-218 (329)
17 PF10807 DUF2541: Protein of u 64.0 12 0.00026 28.3 3.9 27 108-134 108-134 (134)
18 PF00754 F5_F8_type_C: F5/8 ty 46.7 85 0.0018 20.8 9.5 56 8-63 28-86 (129)
19 cd00057 FA58C Substituted upda 46.0 99 0.0022 21.4 11.1 44 19-62 47-94 (143)
20 PRK10154 hypothetical protein; 35.9 47 0.001 25.1 3.1 28 107-134 107-134 (134)
21 cd06494 p23_NUDCD2_like p23-li 28.3 1.9E+02 0.0041 20.0 5.0 41 7-51 6-46 (93)
22 PF06165 Glyco_transf_36: Glyc 28.2 1.5E+02 0.0033 20.8 4.6 37 13-50 49-85 (110)
23 PF07380 Pneumo_M2: Pneumoviru 26.5 1.3E+02 0.0028 21.1 3.9 20 19-38 6-25 (89)
24 PF14652 DUF4457: Domain of un 22.3 1.2E+02 0.0025 25.7 3.7 36 14-50 67-102 (329)
25 PF00183 HSP90: Hsp90 protein; 20.1 1.4E+02 0.003 27.2 3.8 40 14-53 120-167 (531)
No 1
>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=2.8e-47 Score=289.51 Aligned_cols=116 Identities=53% Similarity=0.807 Sum_probs=87.8
Q ss_pred ccCCCceeecCCCcceEEEecccCceeEEEEEEeCC--CCCCceEEEEeec-CCCCCccCCCCCCCceEEEecC-CCCCC
Q 039218 3 REDEGLYLESDADEQLLIYLPFTQVVKLHSIVVKGP--EEEGPKTVKLFSN-REHMGFSNVNDFPPSDTAVLTP-DNLKG 78 (135)
Q Consensus 3 R~d~~~~l~SD~D~QLii~IpF~~~Vkl~sI~i~~~--~~~~P~~iKlf~N-~~~ldFd~~~~~~p~Q~~~l~~-~~~~~ 78 (135)
|.|. .+|+||+|+||||||||+++||||||+|+++ ++++|++||||+| +++|||++|++.+|+|+++|++ +..+.
T Consensus 33 r~d~-~~l~SD~D~QLii~IpF~~~Vkl~si~i~~~~~~~~~P~~iKlf~N~~~~ldF~~~~~~~p~q~~~l~~~~~~~~ 111 (152)
T PF06201_consen 33 RLDP-PFLESDADEQLIIHIPFTQPVKLHSIIIKGPPDDDSAPKTIKLFINQRPNLDFDDAESIKPTQELELTEEDSDGG 111 (152)
T ss_dssp TTS----EE-SS-SSEEEEEEEEEEEEEEEEEEE---STTTSEEEEEEEES-SS---CCHHCCS--SCEEE--TTTCCCT
T ss_pred ccCc-cccccCCCceeEEEEccCCceEEEEEEEEeccCCCCCCeEEEEEECCCCCcCccccccCCCCceEEcCccccCCc
Confidence 5565 8999999999999999999999999999995 6799999999999 8889999999999999999997 44478
Q ss_pred eEEEccccccccccEEEEEEeCCCCCCceEEEEEEEEEeEe
Q 039218 79 KPVVLKFVKFQNVRSLTIFIEDNQSDSEVTKVNKIALFGTT 119 (135)
Q Consensus 79 ~~~~Lr~~KFqnV~sLtif~~~n~~g~~~T~I~~I~l~G~~ 119 (135)
.+|+||++|||||++|||||++|+|+++.|+|+||||+|++
T Consensus 112 ~~~~Lk~~KFqnV~sLtif~~~n~g~~~~T~I~~i~l~G~~ 152 (152)
T PF06201_consen 112 VEYPLKFVKFQNVNSLTIFFEDNQGGDDVTRIYYIGLRGEF 152 (152)
T ss_dssp --EE--TTT-TTEEEEEEEEEEETT--SS-EESEEEEEEE-
T ss_pred eEeeeeeeccCCccEEEEEEeCCcCCCccEEEEEEEEEeeC
Confidence 99999999999999999999999977999999999999985
No 2
>KOG1730 consensus Thioredoxin-like protein [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=7.7e-41 Score=260.58 Aligned_cols=117 Identities=39% Similarity=0.585 Sum_probs=112.6
Q ss_pred ccCCCceeecCCCcceEEEecccCceeEEEEEEeC-CCCCCceEEEEeecCCCCCccCCCCCCCceEEEecCCCCCCeEE
Q 039218 3 REDEGLYLESDADEQLLIYLPFTQVVKLHSIVVKG-PEEEGPKTVKLFSNREHMGFSNVNDFPPSDTAVLTPDNLKGKPV 81 (135)
Q Consensus 3 R~d~~~~l~SD~D~QLii~IpF~~~Vkl~sI~i~~-~~~~~P~~iKlf~N~~~ldFd~~~~~~p~Q~~~l~~~~~~~~~~ 81 (135)
|.|.+.++|||+|+|||++|||++.|||++|+|.+ |++++|..|+||+||+.|||||++. +|+|++.|+.+..+..+|
T Consensus 56 R~d~se~vESDaD~eLLfniPFtg~vkLkgI~I~g~~d~shP~~~rlFkNR~~m~FdD~~~-~~dqef~lt~d~~g~iey 134 (206)
T KOG1730|consen 56 RTDRSEYVESDADEELLFNIPFTGNVKLKGISIMGEPDGSHPSKMRLFKNREQMDFDDAEA-EPDQEFSLTRDLTGEIEY 134 (206)
T ss_pred hcchhhhhhccCCceeEEeccccCceeEEEEEEEeCCCCCCchheEeecCCccCCcchhhc-CcceecceecccCceEEe
Confidence 88999999999999999999999999999999999 7889999999999999999999988 889999999887789999
Q ss_pred EccccccccccEEEEEEeCCCCCCceEEEEEEEEEeEecc
Q 039218 82 VLKFVKFQNVRSLTIFIEDNQSDSEVTKVNKIALFGTTVE 121 (135)
Q Consensus 82 ~Lr~~KFqnV~sLtif~~~n~~g~~~T~I~~I~l~G~~~~ 121 (135)
|+|.+|||||.+|+|||+.|+ |+|.|+|+||||||+..+
T Consensus 135 ~~K~s~f~nv~nLsi~f~~nf-G~D~TqI~YIGlRGeft~ 173 (206)
T KOG1730|consen 135 PTKISKFQNVHNLSIHFPKNF-GEDTTQIYYIGLRGEFTE 173 (206)
T ss_pred ccceeeeccceeEEEEecccc-CCCcceEEEEEecceeee
Confidence 999999999999999999999 799999999999999877
No 3
>KOG0908 consensus Thioredoxin-like protein [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=6.3e-38 Score=255.17 Aligned_cols=129 Identities=50% Similarity=0.817 Sum_probs=122.6
Q ss_pred CCceeecCCCcceEEEecccCceeEEEEEEeCC-CCCCceEEEEeecCCC-CCccCCCCCCCceEEEecCCCCCCeEEEc
Q 039218 6 EGLYLESDADEQLLIYLPFTQVVKLHSIVVKGP-EEEGPKTVKLFSNREH-MGFSNVNDFPPSDTAVLTPDNLKGKPVVL 83 (135)
Q Consensus 6 ~~~~l~SD~D~QLii~IpF~~~Vkl~sI~i~~~-~~~~P~~iKlf~N~~~-ldFd~~~~~~p~Q~~~l~~~~~~~~~~~L 83 (135)
.+.+++||+||||||.|||+++||+|||.|++| .+.+|+.+|||+|+|. |||+++++.+|+|.++|.+....+..++|
T Consensus 153 ~ss~lesD~DeQl~isi~fnq~vk~hS~a~k~p~~~~~Pk~vkifin~pr~~~F~~a~~f~ptQ~lel~e~~~~~~~V~l 232 (288)
T KOG0908|consen 153 FSSNLESDCDEQLIISIPFNQAVKVHSIAIKGPANPLGPKTVKIFINQPRTMDFENAESFEPTQLLELTELDLQGLPVPL 232 (288)
T ss_pred cccceecccccceEEEeeccCccceeeeecCCCCCCCCCeeEEEEecCccccCcccccccCcccccchhhhhccCceEEe
Confidence 346899999999999999999999999999998 7899999999999985 99999999999999999987777899999
Q ss_pred cccccccccEEEEEEeCCCCCCceEEEEEEEEEeEeccccCCCCceecccC
Q 039218 84 KFVKFQNVRSLTIFIEDNQSDSEVTKVNKIALFGTTVETTDMKGLKKIEDN 134 (135)
Q Consensus 84 r~~KFqnV~sLtif~~~n~~g~~~T~I~~I~l~G~~~~~t~m~~l~k~~~~ 134 (135)
|++|||||++|+||+++|+||++.|||.|++++|++.++++|+++|+++.+
T Consensus 233 ryvkfqnV~sv~iFiq~n~gg~evtri~~~~~~GsPv~~t~m~~~krv~~k 283 (288)
T KOG0908|consen 233 RYVKFQNVNSVQIFIQSNQGGEEVTRISKLGLFGSPVPTTNMNDFKRVEGK 283 (288)
T ss_pred eeeeEEEeeEEEEEEecCCCCcccceeeeeeeccccCCCCCCCcceecccc
Confidence 999999999999999999999999999999999999999999999998764
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=97.39 E-value=0.0035 Score=45.81 Aligned_cols=93 Identities=16% Similarity=0.215 Sum_probs=57.4
Q ss_pred CcceEEEecccCceeEEEEEEeC--C----CCCCceEEEEeecCCCC--------CccCCCCCCCceEEEecCCCCCCeE
Q 039218 15 DEQLLIYLPFTQVVKLHSIVVKG--P----EEEGPKTVKLFSNREHM--------GFSNVNDFPPSDTAVLTPDNLKGKP 80 (135)
Q Consensus 15 D~QLii~IpF~~~Vkl~sI~i~~--~----~~~~P~~iKlf~N~~~l--------dFd~~~~~~p~Q~~~l~~~~~~~~~ 80 (135)
+..--+-|-|.+++.+.+|.|.- . -.+|||.+.||.-...- .|.=..+..+.|+|.|.....
T Consensus 29 g~~~~~~I~L~~~I~v~~v~i~h~~~~~~~~sSapk~f~V~g~~~~~~~~~~~LG~f~y~~~~~~~QtF~l~~~~~---- 104 (135)
T PF07738_consen 29 GSKGWLTIELSEPIYVTSVTIEHVEKSIAPFSSAPKDFEVWGSVDYPDEEWVLLGEFEYDSDGNSIQTFPLPRPPR---- 104 (135)
T ss_dssp TT-EEEEEEEEEEEEEEEEEEE---GGGSG-TTSB-EEEEEEESSSSTS--EEEEEEE--TTS-SEEEEE-SS--S----
T ss_pred CCceEEEEEcCCcEEEEEEEEEEeccccCCcCCCCcEEEEEEEecccccceeeeceEEEcCCcCccEeeeeccCch----
Confidence 44445667788999999999986 2 45999999999765432 344223335678888754321
Q ss_pred EEccccccccccEEEEEEeCCCCCCceEEEEEEEEEeEe
Q 039218 81 VVLKFVKFQNVRSLTIFIEDNQSDSEVTKVNKIALFGTT 119 (135)
Q Consensus 81 ~~Lr~~KFqnV~sLtif~~~n~~g~~~T~I~~I~l~G~~ 119 (135)
+-++.|-|-|.+|+|..+-|-||++.+.|+.
T Consensus 105 --------~~~~~i~l~i~sN~G~~~ytclyr~rVhG~~ 135 (135)
T PF07738_consen 105 --------QPVRYIKLRILSNHGNEEYTCLYRFRVHGES 135 (135)
T ss_dssp ----------EEEEEEEE--BSS-SSEEEE-EEEEEEE-
T ss_pred --------hcCcEEEEEEEcCCCCCceEEEEEEEEEeeC
Confidence 1566777889999965669999999999973
No 5
>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=96.94 E-value=0.017 Score=43.33 Aligned_cols=103 Identities=17% Similarity=0.168 Sum_probs=72.7
Q ss_pred CceeecCCCc-ceEEEecccCceeEEEEEEeC-C-C-CCCceEEEEeecCCCCCccCCCCCCCceEEEecCCCCCCeEEE
Q 039218 7 GLYLESDADE-QLLIYLPFTQVVKLHSIVVKG-P-E-EEGPKTVKLFSNREHMGFSNVNDFPPSDTAVLTPDNLKGKPVV 82 (135)
Q Consensus 7 ~~~l~SD~D~-QLii~IpF~~~Vkl~sI~i~~-~-~-~~~P~~iKlf~N~~~ldFd~~~~~~p~Q~~~l~~~~~~~~~~~ 82 (135)
+.|=|||.-+ .=.|++-|..-|-|+.|.|.. + + ...|+.|.+++=. +|+++. ...++++.+...|-..++
T Consensus 25 ~TYWQSDG~q~pH~I~i~f~~~v~i~~l~i~v~~~DeSYtPs~I~I~~G~---~~~dL~---e~~~v~l~~~~~Gwv~l~ 98 (131)
T cd08667 25 STYWQSDGSARSHWIRLKMKPDVVLRHLSIAVAATDQSYMPQQVTVSVGR---SASSLQ---EVRDVHIPSNVTGYVTLL 98 (131)
T ss_pred CccCccCCCCCCeEEEEEecCCeEEEEEEEEEcCCCCCcCCcEEEEEecC---CHhhhe---eeEEEEcCCCCceeEEEE
Confidence 4688999753 568899999999999998876 4 3 3899999999832 233333 345566642222223333
Q ss_pred ccccccccccEEEEEEeCCCCCCceEEEEEEEEEe
Q 039218 83 LKFVKFQNVRSLTIFIEDNQSDSEVTKVNKIALFG 117 (135)
Q Consensus 83 Lr~~KFqnV~sLtif~~~n~~g~~~T~I~~I~l~G 117 (135)
.. .-....-|.|.|..|+.++--|+|.-|.++|
T Consensus 99 ~~--~~~~~~~iqI~I~~nhqnG~DthIRgiki~G 131 (131)
T cd08667 99 EN--ANISYLVVQINIKRCHSDGCDTRIHGLKTIG 131 (131)
T ss_pred cC--CceEEEEEEEEeHHhccCCccceeeEEEEcC
Confidence 32 2255667899999998888889999999987
No 6
>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=96.68 E-value=0.033 Score=41.95 Aligned_cols=106 Identities=19% Similarity=0.198 Sum_probs=78.9
Q ss_pred CCCceeecCCCcceEEEecccCceeEEEEEEeC-C---CCCCceEEEEeecCCCCCccCCCCCCCceEEEecCCCCCCeE
Q 039218 5 DEGLYLESDADEQLLIYLPFTQVVKLHSIVVKG-P---EEEGPKTVKLFSNREHMGFSNVNDFPPSDTAVLTPDNLKGKP 80 (135)
Q Consensus 5 d~~~~l~SD~D~QLii~IpF~~~Vkl~sI~i~~-~---~~~~P~~iKlf~N~~~ldFd~~~~~~p~Q~~~l~~~~~~~~~ 80 (135)
+.+.|=|||.-..=.|+|-|...|.|+.|.|.- . +...|+.|.+++=.. +. ++....++++.+ ..|-.-
T Consensus 27 ~~~TyWQSDg~qPH~I~i~f~k~~~i~~l~i~vd~~~DeSYtP~~I~v~~G~~---~~---dl~e~~~v~l~~-p~Gwv~ 99 (139)
T cd08366 27 SLDTYWQSDGPQPHLINIQFSKKTDISAVALYLDYKLDESYTPSKISIRAGTS---PH---DLQEVRTVELEE-PNGWVH 99 (139)
T ss_pred CCCccCCCCCCCCEEEEEEecCCcEEEEEEEEEccCCCCCCCCEEEEEEEECC---cC---chhheEEEEcCC-CCEEEE
Confidence 344578999777778999999999999998876 2 338999999998643 22 233355666643 234466
Q ss_pred EEccc---cccccccEEEEEEeCCCCCCceEEEEEEEEEe
Q 039218 81 VVLKF---VKFQNVRSLTIFIEDNQSDSEVTKVNKIALFG 117 (135)
Q Consensus 81 ~~Lr~---~KFqnV~sLtif~~~n~~g~~~T~I~~I~l~G 117 (135)
++|.- -+...+.-|.|-|..|+.++--|+|..|.++|
T Consensus 100 i~l~~~~~~~~~~~~~iqi~I~~nh~nG~DthiR~iki~g 139 (139)
T cd08366 100 IPLEDNRDGKPLRTFFLQIAILSNHQNGRDTHIRQIKVYG 139 (139)
T ss_pred EEccCCCCCCeeEEEEEEEEEecccCCCCCcceeeeEecC
Confidence 66654 35677788999999999878889999999887
No 7
>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=95.99 E-value=0.2 Score=37.86 Aligned_cols=102 Identities=15% Similarity=0.220 Sum_probs=71.5
Q ss_pred CCceeecCCCc-ceEEEecccCceeEEEEEEeC-C--CCCCceEEEEeecCCCCCccCCCCCCCceEEEecCCCCCCeEE
Q 039218 6 EGLYLESDADE-QLLIYLPFTQVVKLHSIVVKG-P--EEEGPKTVKLFSNREHMGFSNVNDFPPSDTAVLTPDNLKGKPV 81 (135)
Q Consensus 6 ~~~~l~SD~D~-QLii~IpF~~~Vkl~sI~i~~-~--~~~~P~~iKlf~N~~~ldFd~~~~~~p~Q~~~l~~~~~~~~~~ 81 (135)
.+.|=|||.-. +=.|+|-|..-|.|+.|.|.- + +...|++|.++.=. |++ ++...++++.+...+-+.+
T Consensus 29 ~~tyWQSdG~qgpH~I~l~f~~~v~i~~l~i~v~~~DeSYtP~~I~V~~G~----~~d---L~ei~~V~i~~~~~g~V~i 101 (134)
T cd08666 29 PDTYWESDGSQGQHWIRLHMKKGTIIKKLLLTVDATDDNYMPKRVAVYGGE----GDN---LKKLNDVSIDETLIGDVCI 101 (134)
T ss_pred CCccEecCCCCCCeEEEEEECCCcEeeEEEEEecCCCCCcCCcEEEEEecC----ccC---hhheEEEEeCCCCCCeEEE
Confidence 34688999766 799999999999999999987 3 33899999999865 333 3345566665422222333
Q ss_pred EccccccccccEEEEEEeCCCCCCceEEEEEEEEE
Q 039218 82 VLKFVKFQNVRSLTIFIEDNQSDSEVTKVNKIALF 116 (135)
Q Consensus 82 ~Lr~~KFqnV~sLtif~~~n~~g~~~T~I~~I~l~ 116 (135)
|+..+ ....-|.|.|.+|+.++--|+|..|.++
T Consensus 102 -l~~~~-~~~~~iqI~I~~nhqnG~DthIRgiKI~ 134 (134)
T cd08666 102 -LEDMT-THLPVIEIRIKECKDEGIDVRIRGIKIK 134 (134)
T ss_pred -ecCCc-eEeEEEEEEeHHhccCCccceeeEEEeC
Confidence 32221 1223589999999878888999998763
No 8
>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=95.87 E-value=0.17 Score=37.86 Aligned_cols=102 Identities=18% Similarity=0.144 Sum_probs=71.7
Q ss_pred CCceeecCC-CcceEEEecccCceeEEEEEEeC-C--CCCCceEEEEeecCCCCCccCCCCCCCceEEEecCCCCCCeEE
Q 039218 6 EGLYLESDA-DEQLLIYLPFTQVVKLHSIVVKG-P--EEEGPKTVKLFSNREHMGFSNVNDFPPSDTAVLTPDNLKGKPV 81 (135)
Q Consensus 6 ~~~~l~SD~-D~QLii~IpF~~~Vkl~sI~i~~-~--~~~~P~~iKlf~N~~~ldFd~~~~~~p~Q~~~l~~~~~~~~~~ 81 (135)
.+.|=+||. -++..|.+-|...|.|+.|.|.- + +...|++|.+++=. +|+++. ...++++.+. .| -+
T Consensus 24 ~~tyWQSdG~qphh~i~l~f~k~v~i~~l~i~~~~~DeSYtP~~I~V~~G~---~~~dL~---e~~~v~l~~p-~G--wv 94 (129)
T cd08159 24 YDTYWQSDGSQGSHWIRLFMKKDVLIRVLAIFVDMADSSYMPSLVVVYGGH---SPSDLR---ELKDVNIRPS-NG--WV 94 (129)
T ss_pred CCccCCCCCCCCCEEEEEEEcCCcEEEEEEEEecCCCCCcCCcEEEEEecC---CHHHhh---eeEEEEecCC-Cc--eE
Confidence 456789984 44578999999999999999987 3 33899999999853 344443 3455666432 22 22
Q ss_pred EccccccccccEEEEEEeCCCCCCceEEEEEEEEE
Q 039218 82 VLKFVKFQNVRSLTIFIEDNQSDSEVTKVNKIALF 116 (135)
Q Consensus 82 ~Lr~~KFqnV~sLtif~~~n~~g~~~T~I~~I~l~ 116 (135)
.|..-......-|.|.|..|+.++--|+|.-|.++
T Consensus 95 ~i~~~~~~~~~~iqI~I~~nhqnG~DthiRgikI~ 129 (129)
T cd08159 95 ALLEDDTLKCPYIEIRIKRCRSDGIDTRIRGLRLL 129 (129)
T ss_pred EEEcCCcEEEEEEEEEEHHhccCCccceeeEEEeC
Confidence 33222244567799999999878888999988764
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=95.32 E-value=0.12 Score=40.96 Aligned_cols=109 Identities=17% Similarity=0.155 Sum_probs=71.3
Q ss_pred CCceeecCCCcceEEEecccCceeEEEEEEeC-C---CCCCceEEEEeecCCCCCccCCCCCCCceEEEecCCCCCCeEE
Q 039218 6 EGLYLESDADEQLLIYLPFTQVVKLHSIVVKG-P---EEEGPKTVKLFSNREHMGFSNVNDFPPSDTAVLTPDNLKGKPV 81 (135)
Q Consensus 6 ~~~~l~SD~D~QLii~IpF~~~Vkl~sI~i~~-~---~~~~P~~iKlf~N~~~ldFd~~~~~~p~Q~~~l~~~~~~~~~~ 81 (135)
.+.|=|||.-.-=.|+|-|..-|.|+.|.|-- . +...|+.|.+++=.. +.++ ....++++.+ ..|-..+
T Consensus 56 ~~TyWQSDG~qpH~I~i~f~k~v~I~~l~iyvd~~~DeSYtPs~I~V~aG~~---~~dl---~e~~~v~l~~-p~GWv~i 128 (193)
T PF03256_consen 56 TETYWQSDGSQPHWITIQFHKRVIISSLSIYVDYKQDESYTPSKISVRAGNS---PHDL---QEVKTVELEE-PNGWVHI 128 (193)
T ss_dssp TT--EE--SSSSEEEEEEEEEEEEE-EEEEEEEHHHHGGGSEEEEEEEEESS---TTT----EEEEEEEECC--EEEEEE
T ss_pred hhHhhccCCCCCEEEEEEEcCCcEEEEEEEEEccCcCCCCCceEEEEEEeCC---cCce---EEEEEEEecC-CCccEEE
Confidence 45678998877789999999999999999865 2 448999999998532 2222 2245566643 2233666
Q ss_pred Ecc--ccccccccEEEEEEeCCCCCCceEEEEEEEEEeEecc
Q 039218 82 VLK--FVKFQNVRSLTIFIEDNQSDSEVTKVNKIALFGTTVE 121 (135)
Q Consensus 82 ~Lr--~~KFqnV~sLtif~~~n~~g~~~T~I~~I~l~G~~~~ 121 (135)
+|. ..++=.+..|.|.|..|+.++--|+|..|.++|-...
T Consensus 129 ~l~~~~~~~~r~~~iqI~I~~nhq~G~DthiR~iki~gp~~~ 170 (193)
T PF03256_consen 129 PLLDNRGNPLRCFFIQIAILSNHQNGKDTHIRGIKIYGPRPS 170 (193)
T ss_dssp E-BSTTTSBEEEEEEEEEEEEECCC-SS-EESEEEEEEE---
T ss_pred EeCCCCCCcEEEEEEEEEEEecccCCCCCceeeEEEECCCCc
Confidence 665 3355566789999999987777899999999997665
No 10
>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=95.29 E-value=0.45 Score=35.69 Aligned_cols=102 Identities=19% Similarity=0.180 Sum_probs=69.1
Q ss_pred CCceeecCCCc-ceEEEecccCceeEEEEEEeC-C--CCCCceEEEEeecCCCCCccCCCCCCCceEEEecCCCCCCeEE
Q 039218 6 EGLYLESDADE-QLLIYLPFTQVVKLHSIVVKG-P--EEEGPKTVKLFSNREHMGFSNVNDFPPSDTAVLTPDNLKGKPV 81 (135)
Q Consensus 6 ~~~~l~SD~D~-QLii~IpF~~~Vkl~sI~i~~-~--~~~~P~~iKlf~N~~~ldFd~~~~~~p~Q~~~l~~~~~~~~~~ 81 (135)
.+.|=|||.-. +=.|+|-|..-|.|++|.|.. + +...|++|.+++=.. |+++.. --++++.+...| -+
T Consensus 25 ~~tyWQSDG~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 TSTYWQSDGSQGSHWIRLKMKPDVLVRHLSLAVDATDSSYMPQRVVVAGGRS---ASNLQE---LRDVNIPPSVTG--YV 96 (131)
T ss_pred CCceEccCCCCCCEEEEEEEcCCcEEEEEEEEecCCCCCCCCcEEEEEecCC---HHHhee---EEEEEccCCCce--eE
Confidence 45688999655 589999999999999999987 3 348999999998642 444332 344444422111 11
Q ss_pred EccccccccccEEEEEEeCCCCCCceEEEEEEEE
Q 039218 82 VLKFVKFQNVRSLTIFIEDNQSDSEVTKVNKIAL 115 (135)
Q Consensus 82 ~Lr~~KFqnV~sLtif~~~n~~g~~~T~I~~I~l 115 (135)
+|---.-....-|.|.|..|+.++--|+|.-|.+
T Consensus 97 ~ll~~~~~~~~~iqI~I~~nhqnG~DthiRgikI 130 (131)
T cd08365 97 TLLEDATISQPYIEIRIKRCRSDGIDTRIHGLRI 130 (131)
T ss_pred EEccCCceeeEEEEEEEHHHccCCccceeeEEEe
Confidence 1111111234778999999987888899998876
No 11
>KOG2687 consensus Spindle pole body protein, contains UNC-84 domain [Cell cycle control, cell division, chromosome partitioning]
Probab=94.64 E-value=0.58 Score=41.27 Aligned_cols=93 Identities=14% Similarity=0.327 Sum_probs=63.2
Q ss_pred CcceEEEecccCceeEEEEEEeC------CC---CCCceEEEEeecCC---C----C---CccCCCCCCCceEEEecCCC
Q 039218 15 DEQLLIYLPFTQVVKLHSIVVKG------PE---EEGPKTVKLFSNRE---H----M---GFSNVNDFPPSDTAVLTPDN 75 (135)
Q Consensus 15 D~QLii~IpF~~~Vkl~sI~i~~------~~---~~~P~~iKlf~N~~---~----l---dFd~~~~~~p~Q~~~l~~~~ 75 (135)
+.|==+.|-+-..|-+.+|.+.- |+ .+|||...+|.=.+ . | -|| .+..+.|+|.+..+
T Consensus 301 Gsrg~v~V~La~~Iip~avTleHv~~sVspd~~~sSAPKdf~V~g~~~~~~~~~~LLG~ftYD--~d~~~~QtF~~q~~- 377 (414)
T KOG2687|consen 301 GSRGYVTVRLARFIIPSAVTLEHVPKSVSPDGNISSAPKDFDVFGSTQDCTEEEVLLGEFTYD--LDGSPIQTFSLQHD- 377 (414)
T ss_pred CCceEEEEEecceEEeeeeeeecccceecCCCCcCcCCcceEEEeecccCCcCceeeEEEEEC--CCCCcceEEeccCC-
Confidence 34445667778889999998854 22 37999999997655 0 1 233 22366677776422
Q ss_pred CCCeEEEccccccccccEEEEEEeCCCCCCceEEEEEEEEEeEecc
Q 039218 76 LKGKPVVLKFVKFQNVRSLTIFIEDNQSDSEVTKVNKIALFGTTVE 121 (135)
Q Consensus 76 ~~~~~~~Lr~~KFqnV~sLtif~~~n~~g~~~T~I~~I~l~G~~~~ 121 (135)
-+.-++++-|=|.+|||....|-||++.+.|++..
T Consensus 378 -----------~~~~~~~V~l~~~SN~G~p~fTCiYR~RVhG~~~~ 412 (414)
T KOG2687|consen 378 -----------TSAPFKTVELRFNSNHGHPKFTCIYRFRVHGRPVD 412 (414)
T ss_pred -----------CccccceEEEEEecCCCCCCceEEEEEEEcCccCC
Confidence 12334556677899995555999999999998654
No 12
>KOG3437 consensus Anaphase-promoting complex (APC), subunit 10 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=94.58 E-value=0.5 Score=37.41 Aligned_cols=106 Identities=22% Similarity=0.315 Sum_probs=79.5
Q ss_pred ceeecCCCcceEEEecccCceeEEEEEEeCC----CCCCceEEEEeecCCCCCccCCCCCCCceEEEec-CCCCCCeEEE
Q 039218 8 LYLESDADEQLLIYLPFTQVVKLHSIVVKGP----EEEGPKTVKLFSNREHMGFSNVNDFPPSDTAVLT-PDNLKGKPVV 82 (135)
Q Consensus 8 ~~l~SD~D~QLii~IpF~~~Vkl~sI~i~~~----~~~~P~~iKlf~N~~~ldFd~~~~~~p~Q~~~l~-~~~~~~~~~~ 82 (135)
.|-+||.-.=-.|+|-|..-|+|..+.|-.. ...+|.+|||+. .-+|.|+.. .|..++. +..| +-+|
T Consensus 49 tyWqSdG~~PH~i~I~F~K~~~I~~v~if~~f~~DeSYtPs~i~I~~---G~g~~dl~~---~~~~el~ep~GW--v~lp 120 (184)
T KOG3437|consen 49 TYWQSDGSQPHLINIQFHKRVDIQYVVIFLDFKQDESYTPSKIKIRA---GNGFNDLWE---IQSVELVEPKGW--VHLP 120 (184)
T ss_pred HheecCCCCCeEEEEEEEeEEEEEEEEEEEEEecccccCceeEEEEe---cCChhheee---eeEEEEecCCce--EEEe
Confidence 4667887776788999999999999999772 448999999876 356777665 6777775 3333 4444
Q ss_pred cc--ccccccccEEEEEEeCCCCCCceEEEEEEEEEeEecc
Q 039218 83 LK--FVKFQNVRSLTIFIEDNQSDSEVTKVNKIALFGTTVE 121 (135)
Q Consensus 83 Lr--~~KFqnV~sLtif~~~n~~g~~~T~I~~I~l~G~~~~ 121 (135)
+. ..+=-.|..|.|-|..|+..+.-|.+-.|.+++-..+
T Consensus 121 ~~d~~~~~lr~~~iqi~i~~NHq~GkDthvR~iri~~p~~e 161 (184)
T KOG3437|consen 121 VLDNDDKPLRCFMIQIAILSNHQNGKDTHVRHIRIYAPSIE 161 (184)
T ss_pred eccCCCCceEEEEEEEEeecccccCccceeEEEEEeccccc
Confidence 32 3455567889999999987677799999999998554
No 13
>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=94.36 E-value=0.95 Score=34.01 Aligned_cols=102 Identities=18% Similarity=0.257 Sum_probs=70.1
Q ss_pred CceeecCCCc-ceEEEecccCceeEEEEEEeC-C-C-CCCceEEEEeecCCCCCccCCCCCCCceEEEecCCCCCCeEEE
Q 039218 7 GLYLESDADE-QLLIYLPFTQVVKLHSIVVKG-P-E-EEGPKTVKLFSNREHMGFSNVNDFPPSDTAVLTPDNLKGKPVV 82 (135)
Q Consensus 7 ~~~l~SD~D~-QLii~IpF~~~Vkl~sI~i~~-~-~-~~~P~~iKlf~N~~~ldFd~~~~~~p~Q~~~l~~~~~~~~~~~ 82 (135)
+.|=|||.-+ .=.|+|-|..-|.|+.|.|.. + + ...|++|.+.+=.. |.++. +...+.++.+. .+ -...
T Consensus 25 ~tyWQSdG~q~pH~I~i~f~k~v~I~~l~i~v~~~DeSYtPs~I~V~~G~~---~~dL~--~e~~~V~~~~~-~g-~v~l 97 (131)
T cd08665 25 KTYWESNGSTGSHYINIHMHRGVVIRQLYMLVASEDSSYMPARVVVLGGDS---PSCIT--TELNAVNVSPT-AS-RVVL 97 (131)
T ss_pred CceEccCCCCCCeEEEEEECCCcEEEEEEEEecCCCCCcCCeeEEEEecCC---HHHhh--heeEEEEccCC-cc-eEEE
Confidence 4688999864 789999999999999999987 4 3 38999999987532 33332 12334444331 11 1112
Q ss_pred cccc-ccccccEEEEEEeCCCCCCceEEEEEEEEEe
Q 039218 83 LKFV-KFQNVRSLTIFIEDNQSDSEVTKVNKIALFG 117 (135)
Q Consensus 83 Lr~~-KFqnV~sLtif~~~n~~g~~~T~I~~I~l~G 117 (135)
|.-+ .|- .-|.|.|.+|+.++--|+|..|.++|
T Consensus 98 l~~~~~~~--~~iqI~I~~nhqnG~DthIRgikI~G 131 (131)
T cd08665 98 LENMTRFW--PIIQIRIKRCQQGGIDTRVRGLEILG 131 (131)
T ss_pred cccCcccc--eEEEEEEhhhcccCccceeeEEEecC
Confidence 3221 111 46899999999888889999999987
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=92.43 E-value=3.2 Score=32.01 Aligned_cols=101 Identities=18% Similarity=0.271 Sum_probs=70.5
Q ss_pred cCCCceeecCCCc-ceEEEecccCceeEEEEEEeC-C--CCCCceEEEEeecCCCCCccCCCCCCCceEEEecCCCCCCe
Q 039218 4 EDEGLYLESDADE-QLLIYLPFTQVVKLHSIVVKG-P--EEEGPKTVKLFSNREHMGFSNVNDFPPSDTAVLTPDNLKGK 79 (135)
Q Consensus 4 ~d~~~~l~SD~D~-QLii~IpF~~~Vkl~sI~i~~-~--~~~~P~~iKlf~N~~~ldFd~~~~~~p~Q~~~l~~~~~~~~ 79 (135)
.+.+.|=+||.-+ +=.|++-|..-|-|+++.|.. + +...|++|.+++= -+|+++ +...++++.+.. .
T Consensus 45 D~~~TYWQSdG~q~~HwI~l~~~~~v~I~~L~i~vd~~DeSY~Ps~I~V~~G---~~~~~L---~el~~V~i~~~~---~ 115 (152)
T cd08664 45 DGSGSYWQSSGSQGKHWIRLELHPDVLIHSLKIIVDPADSSYMPSLVVVSGG---DSLNSL---KELKTINVNATD---T 115 (152)
T ss_pred CCCCCeeccCCCCCceEEEEEECCCcEEEEEEEEecCCCCCcCCceEEEEec---CChhhh---heeEEEEcCCCC---c
Confidence 3445688998655 689999999999999999987 4 3389999999875 345554 334455554322 1
Q ss_pred EEEc--cccccccccEEEEEEeCCCCCCceEEEEEEEE
Q 039218 80 PVVL--KFVKFQNVRSLTIFIEDNQSDSEVTKVNKIAL 115 (135)
Q Consensus 80 ~~~L--r~~KFqnV~sLtif~~~n~~g~~~T~I~~I~l 115 (135)
.+.| ....| ..-|.|.|..|+.++--|+|.-|.+
T Consensus 116 ~v~Ll~~~~~~--~~~IqI~I~~ch~~GiDt~IrglkI 151 (152)
T cd08664 116 LVTLLQDVKEY--YRYIEIAIKQCRNNGIDCKIHGLNI 151 (152)
T ss_pred eEEeccCCCee--eEEEEEEhHhhhhCCCcceeeEEEe
Confidence 2222 22223 2578899999988888899998875
No 15
>COG5156 DOC1 Anaphase-promoting complex (APC), subunit 10 [Cell division and chromosome partitioning / Posttranslational modification, protein turnover, chaperones]
Probab=91.01 E-value=1.2 Score=34.97 Aligned_cols=104 Identities=15% Similarity=0.257 Sum_probs=73.0
Q ss_pred ceeecCCCcceEEEecccCceeEEEEEEeC----CCCCCceEEEEeecCCCCCccCCCCCCCceEEEecCCCCCCeEEEc
Q 039218 8 LYLESDADEQLLIYLPFTQVVKLHSIVVKG----PEEEGPKTVKLFSNREHMGFSNVNDFPPSDTAVLTPDNLKGKPVVL 83 (135)
Q Consensus 8 ~~l~SD~D~QLii~IpF~~~Vkl~sI~i~~----~~~~~P~~iKlf~N~~~ldFd~~~~~~p~Q~~~l~~~~~~~~~~~L 83 (135)
.|-+||.-.--=|+|-|..-+.|+++.+-- .+..+|+.|++++ .+.|+|++..+..|..+ ++. -+.|
T Consensus 53 tyWqsDg~qPH~i~I~F~kr~~I~~v~lfls~t~DeSYtPs~i~v~a---G~~~~D~r~~~~vev~e--p~G----wv~l 123 (189)
T COG5156 53 TYWQSDGVQPHSIQISFDKRRYIQSVQLFLSFTQDESYTPSKIGVRA---GLTREDVREISSVEVVE--PEG----WVTL 123 (189)
T ss_pred hhhccCCCCCceEEEEEeEEEeeeeehhhhhhhcccccCcceeEEec---cCChhhheeEEEEEEEc--CCc----eEEE
Confidence 467898777778999998888888877754 2458999999987 47788888755444333 222 2445
Q ss_pred cccccc-----cccEEEEEEeCCCCCCceEEEEEEEEEeEec
Q 039218 84 KFVKFQ-----NVRSLTIFIEDNQSDSEVTKVNKIALFGTTV 120 (135)
Q Consensus 84 r~~KFq-----nV~sLtif~~~n~~g~~~T~I~~I~l~G~~~ 120 (135)
+++.|- .|.-+-+.|..|...+.-|.+-.|.++-.+.
T Consensus 124 ~v~d~~~d~LL~c~~I~v~i~~NHq~GKDsHvR~ikiy~ps~ 165 (189)
T COG5156 124 SVADKREDDLLKCIYILVVINSNHQEGKDSHVRHIKIYEPST 165 (189)
T ss_pred EecccCcCCceeEEEEEEEEecCcccCcccceeeEEEeccCC
Confidence 666552 2566777888887666668888888876543
No 16
>PF14652 DUF4457: Domain of unknown function (DUF4457)
Probab=78.90 E-value=22 Score=30.10 Aligned_cols=108 Identities=19% Similarity=0.196 Sum_probs=61.3
Q ss_pred CCcceEEEecccCceeEEEEEEeC-C---C--CCCceEEEEeecCCCC-C--ccCCCC------CCCceEEEecCCCCC-
Q 039218 14 ADEQLLIYLPFTQVVKLHSIVVKG-P---E--EEGPKTVKLFSNREHM-G--FSNVND------FPPSDTAVLTPDNLK- 77 (135)
Q Consensus 14 ~D~QLii~IpF~~~Vkl~sI~i~~-~---~--~~~P~~iKlf~N~~~l-d--Fd~~~~------~~p~Q~~~l~~~~~~- 77 (135)
...+..|.|-|.++++|..|.|=- . . ...-|.|+||.|...+ + --.+.. ..-.|++.|......
T Consensus 79 ~~~~~~i~i~f~~~~~is~iRIWNYNks~~ds~~GvK~v~I~ldg~~i~~~~~~~irkapG~~~~D~~q~I~f~~~~k~~ 158 (329)
T PF14652_consen 79 PGKQHVITIRFPEPTSISGIRIWNYNKSREDSYRGVKDVKIYLDGKLIFPGEGFLIRKAPGNCHFDFGQTILFTDQDKIS 158 (329)
T ss_pred CCCCEEEEEEeCCCceeeEEEEEcCCCCcchhhcCeEEEEEEECCEEeecccceEEeeccccCccccccEEEeecccccc
Confidence 566778889999999999999955 2 2 2679999999996543 1 001111 123455555422110
Q ss_pred -C---e------------EEEccccccccccEEEEEEeCCCCCCceEEEEEEEEEeEecc
Q 039218 78 -G---K------------PVVLKFVKFQNVRSLTIFIEDNQSDSEVTKVNKIALFGTTVE 121 (135)
Q Consensus 78 -~---~------------~~~Lr~~KFqnV~sLtif~~~n~~g~~~T~I~~I~l~G~~~~ 121 (135)
. . .-+...--+.....|+|-+-+|||+.-.--+.-|+|+.+.++
T Consensus 159 ~~sks~~~~~~~~s~~~~~~~~~~~~~p~g~~l~~~ilStWGd~~yvGLngiElfD~~g~ 218 (329)
T PF14652_consen 159 ENSKSPSLISNVNSEEQASQDYEIPELPCGFVLQIEILSTWGDPHYVGLNGIELFDENGE 218 (329)
T ss_pred cccccccccccccccccccccccccccccceEEEEEEeeccCCcceecccceEEEcCCCC
Confidence 0 0 000111223457899999999995443344444444444444
No 17
>PF10807 DUF2541: Protein of unknown function (DUF2541); InterPro: IPR020240 This entry represents proteins found in the Gammaproteobacteria that have no known function.
Probab=64.04 E-value=12 Score=28.25 Aligned_cols=27 Identities=44% Similarity=0.605 Sum_probs=23.9
Q ss_pred EEEEEEEEEeEeccccCCCCceecccC
Q 039218 108 TKVNKIALFGTTVETTDMKGLKKIEDN 134 (135)
Q Consensus 108 T~I~~I~l~G~~~~~t~m~~l~k~~~~ 134 (135)
--|..|.+.|.+..+.||.-||=++||
T Consensus 108 RCVskI~~~G~t~nSS~~A~lKvigdd 134 (134)
T PF10807_consen 108 RCVSKITFSGHTVNSSDMASLKVIGDD 134 (134)
T ss_pred eeeeEEEEEeeeccCccceeeEeecCC
Confidence 456789999999999999999999886
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=46.65 E-value=85 Score=20.85 Aligned_cols=56 Identities=13% Similarity=0.172 Sum_probs=42.6
Q ss_pred ceeecCCCcceEEEecccCceeEEEEEEeC-C-CCC-CceEEEEeecCCCCCccCCCCC
Q 039218 8 LYLESDADEQLLIYLPFTQVVKLHSIVVKG-P-EEE-GPKTVKLFSNREHMGFSNVNDF 63 (135)
Q Consensus 8 ~~l~SD~D~QLii~IpF~~~Vkl~sI~i~~-~-~~~-~P~~iKlf~N~~~ldFd~~~~~ 63 (135)
.|+....+..-=|.|-|.++++|++|.|.. . ... .|+.++|+.-....+|..+.+.
T Consensus 28 ~W~~~~~~~~~~i~idl~~~~~i~~i~i~~~~~~~~~~~~~~~i~~s~dg~~w~~~~~~ 86 (129)
T PF00754_consen 28 AWCSNWDDSPQWIQIDLGKPYTISGISIQFRNDGNNGRPKSFKIEYSNDGSNWTTVASQ 86 (129)
T ss_dssp SEEESSSSSTEEEEEEEEEEEEEEEEEEEEESSTTTEEEEEEEEEEESSSSSEEEEEET
T ss_pred EEECCCCCCCceEEEEeeeeEecceeeecccccccceeeeeeeeeeecccccccccccc
Confidence 344432555566888999999999999988 3 334 8999999999877888777663
No 19
>cd00057 FA58C Substituted updates: Jan 31, 2002
Probab=45.97 E-value=99 Score=21.43 Aligned_cols=44 Identities=11% Similarity=0.163 Sum_probs=32.8
Q ss_pred EEEecccCceeEEEEEEeCC-C---CCCceEEEEeecCCCCCccCCCC
Q 039218 19 LIYLPFTQVVKLHSIVVKGP-E---EEGPKTVKLFSNREHMGFSNVND 62 (135)
Q Consensus 19 ii~IpF~~~Vkl~sI~i~~~-~---~~~P~~iKlf~N~~~ldFd~~~~ 62 (135)
-|.|-|.++++|.+|.|.+. + ...++..+|+.=...-.+..+.+
T Consensus 47 wi~vDL~~~~~i~~v~i~~~~~~~~~~~~~~~~i~~s~dg~~W~~~~~ 94 (143)
T cd00057 47 WLQVDLGKTRRVTGIQTQGRKGGGSSEWVTSYKVQYSLDGETWTTYKD 94 (143)
T ss_pred eEEEECCCCEEEEEEEEccCCCCCccCeeEEEEEEEECCCCCEeEEEc
Confidence 46688899999999999883 2 46788888877655555655544
No 20
>PRK10154 hypothetical protein; Provisional
Probab=35.85 E-value=47 Score=25.08 Aligned_cols=28 Identities=43% Similarity=0.541 Sum_probs=24.4
Q ss_pred eEEEEEEEEEeEeccccCCCCceecccC
Q 039218 107 VTKVNKIALFGTTVETTDMKGLKKIEDN 134 (135)
Q Consensus 107 ~T~I~~I~l~G~~~~~t~m~~l~k~~~~ 134 (135)
.--|..|.++|.+..+.||.-+|=.+|+
T Consensus 107 kRCV~kI~v~G~s~~Ss~~AglKVlG~~ 134 (134)
T PRK10154 107 KRCVSKITFSGHTVNSSDMATLKIIGDD 134 (134)
T ss_pred cceeeEEEEEecccCCccceeeEEecCC
Confidence 4567899999999999999999988875
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=28.29 E-value=1.9e+02 Score=19.97 Aligned_cols=41 Identities=10% Similarity=0.087 Sum_probs=31.1
Q ss_pred CceeecCCCcceEEEecccCceeEEEEEEeCCCCCCceEEEEeec
Q 039218 7 GLYLESDADEQLLIYLPFTQVVKLHSIVVKGPEEEGPKTVKLFSN 51 (135)
Q Consensus 7 ~~~l~SD~D~QLii~IpF~~~Vkl~sI~i~~~~~~~P~~iKlf~N 51 (135)
..|.=+-.++++-|.||+-..++-+.+.+. -.|+++++..+
T Consensus 6 ~~y~W~QT~~eV~v~i~lp~~~~~kdv~V~----i~~~~l~V~~~ 46 (93)
T cd06494 6 PWGCWYQTMDEVFIEVNVPPGTRAKDVKCK----LGSRDISLAVK 46 (93)
T ss_pred CCcEEEeEcCEEEEEEECCCCCceeeEEEE----EEcCEEEEEEC
Confidence 344445567889999999888999988887 55668888765
No 22
>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=28.19 E-value=1.5e+02 Score=20.78 Aligned_cols=37 Identities=14% Similarity=0.398 Sum_probs=26.6
Q ss_pred CCCcceEEEecccCceeEEEEEEeCCCCCCceEEEEee
Q 039218 13 DADEQLLIYLPFTQVVKLHSIVVKGPEEEGPKTVKLFS 50 (135)
Q Consensus 13 D~D~QLii~IpF~~~Vkl~sI~i~~~~~~~P~~iKlf~ 50 (135)
+-..+|-+.||=..+|+|..|.|+-. +..|+++.|+.
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 34558899999999999999999853 36788888764
No 23
>PF07380 Pneumo_M2: Pneumovirus M2 protein; InterPro: IPR009969 This family consists of several Pneumovirus M2 proteins. The M2-1 protein of respiratory syncytial virus (RSV) is a transcription processivity factor that is essential for virus replication [].
Probab=26.49 E-value=1.3e+02 Score=21.09 Aligned_cols=20 Identities=20% Similarity=0.369 Sum_probs=17.1
Q ss_pred EEEecccCceeEEEEEEeCC
Q 039218 19 LIYLPFTQVVKLHSIVVKGP 38 (135)
Q Consensus 19 ii~IpF~~~Vkl~sI~i~~~ 38 (135)
|+-.|=+-||.|.||+|+..
T Consensus 6 ImIlPdKYPCSIsSiLI~s~ 25 (89)
T PF07380_consen 6 IMILPDKYPCSISSILITSE 25 (89)
T ss_pred EEEcCCCCCceeeEEEEecc
Confidence 55678899999999999974
No 24
>PF14652 DUF4457: Domain of unknown function (DUF4457)
Probab=22.34 E-value=1.2e+02 Score=25.72 Aligned_cols=36 Identities=22% Similarity=0.467 Sum_probs=30.2
Q ss_pred CCcceEEEecccCceeEEEEEEeCCCCCCceEEEEee
Q 039218 14 ADEQLLIYLPFTQVVKLHSIVVKGPEEEGPKTVKLFS 50 (135)
Q Consensus 14 ~D~QLii~IpF~~~Vkl~sI~i~~~~~~~P~~iKlf~ 50 (135)
.|++-|.-+||+ |=+-+.|.|.-+....++.||+|.
T Consensus 67 ~d~~~MWl~pf~-~~~~~~i~i~f~~~~~is~iRIWN 102 (329)
T PF14652_consen 67 TDDEHMWLAPFS-PGKQHVITIRFPEPTSISGIRIWN 102 (329)
T ss_pred CcccceEEeecC-CCCCEEEEEEeCCCceeeEEEEEc
Confidence 577889999998 666677888777778999999997
No 25
>PF00183 HSP90: Hsp90 protein; InterPro: IPR001404 Molecular chaperones, or heat shock proteins (Hsps) are ubiquitous proteins that act to maintain proper protein folding within the cell []. They assist in the folding of nascent polypeptide chains, and are also involved in the re-folding of denatured proteins following proteotoxic stress. As their name implies, the heat shock proteins were first identified as proteins that were up-regulated under conditions of elevated temperature. However, subsequent studies have shown that increased Hsp expression is induced by a variety of cellular stresses, including oxidative stress and inflammation. Five major Hsp families have been determined, and are categorized according to their molecular size (Hsp100, Hsp90, Hsp70, Hsp60, and the small Hsps). Hsps are involved in a variety of cellular processes that are ATP-dependent. These include: prevention of protein aggregation, protein degradation, protein trafficking, and maintenance of signalling proteins in a conformation that permits activation. Hsp90 chaperones are unique in their ability to regulate a specific subset of cellular signalling proteins that have been implicated in disease processes, including intracellular protein kinases, steroid hormone receptors, and growth factor receptors [].; GO: 0005524 ATP binding, 0051082 unfolded protein binding, 0006457 protein folding, 0006950 response to stress; PDB: 3K99_D 2H55_A 3RLP_A 1OSF_A 3R4M_A 1YES_A 1UY9_A 3FT8_A 2YE2_A 2QF6_A ....
Probab=20.13 E-value=1.4e+02 Score=27.18 Aligned_cols=40 Identities=18% Similarity=0.254 Sum_probs=27.9
Q ss_pred CCcceEEEecccCceeEEEEEEeC---CCC-----CCceEEEEeecCC
Q 039218 14 ADEQLLIYLPFTQVVKLHSIVVKG---PEE-----EGPKTVKLFSNRE 53 (135)
Q Consensus 14 ~D~QLii~IpF~~~Vkl~sI~i~~---~~~-----~~P~~iKlf~N~~ 53 (135)
.|+-.-||.---+|+.+++|+... |.+ ..=+.||||+||-
T Consensus 120 ~~Pl~~iH~~~eg~~~~~~lLyiP~~~p~~~~~~~~~~~~ikLY~rrV 167 (531)
T PF00183_consen 120 DDPLFWIHFNAEGPFEFKSLLYIPKRAPFDLFENDKKKNGIKLYVRRV 167 (531)
T ss_dssp S-ESEEEEEEEESSSEEEEEEEEESS-SCCCCSSSTT--SEEEEETTE
T ss_pred cCchhheeccccccceeeEEEEeCCCCchhhhhhhhccccceeeeecc
Confidence 455666777777999999999975 322 1235799999986
Done!