Query 001681
Match_columns 1031
No_of_seqs 310 out of 671
Neff 4.9
Searched_HMMs 46136
Date Fri Mar 29 06:47:25 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/001681.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/001681hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG5602 SIN3 Histone deacetyla 100.0 3E-126 6E-131 1099.0 43.4 581 38-780 121-768 (1163)
2 smart00761 HDAC_interact Histo 100.0 7.4E-44 1.6E-48 332.6 7.1 100 504-603 1-101 (102)
3 KOG4204 Histone deacetylase co 100.0 2.1E-41 4.6E-46 359.9 19.6 163 39-201 13-197 (231)
4 PF08295 Sin3_corepress: Sin3 100.0 6.5E-42 1.4E-46 321.1 7.8 100 504-603 1-100 (101)
5 COG5602 SIN3 Histone deacetyla 99.9 3.5E-21 7.6E-26 226.4 18.2 209 126-411 123-334 (1163)
6 KOG4204 Histone deacetylase co 99.9 7.6E-21 1.7E-25 203.0 17.4 176 127-412 15-193 (231)
7 PF02671 PAH: Paired amphipath 99.4 1.2E-13 2.5E-18 113.3 5.7 47 63-109 1-47 (47)
8 PF02671 PAH: Paired amphipath 99.3 1.4E-12 3E-17 107.0 5.9 47 149-195 1-47 (47)
9 cd07354 HN_L-delphilin-R1_like 78.8 7.5 0.00016 36.2 6.8 67 132-199 3-71 (80)
10 cd07354 HN_L-delphilin-R1_like 75.1 12 0.00027 34.9 7.1 67 46-113 3-71 (80)
11 PF11867 DUF3387: Domain of un 45.6 73 0.0016 36.8 8.2 100 81-181 117-229 (335)
12 PF12174 RST: RCD1-SRO-TAF4 (R 44.3 50 0.0011 30.1 5.3 43 355-397 14-57 (70)
13 PF08963 DUF1878: Protein of u 42.4 47 0.001 33.1 5.1 64 347-410 41-110 (113)
14 PRK09807 hypothetical protein; 34.5 37 0.00079 33.6 3.0 49 55-103 2-62 (161)
15 KOG3304 Surfeit family protein 32.5 74 0.0016 32.5 4.8 37 41-77 10-47 (148)
16 PF12083 DUF3560: Domain of un 30.2 1.3E+02 0.0028 30.6 6.1 66 600-665 40-118 (126)
17 cd07347 harmonin_N_like N-term 28.7 1.7E+02 0.0038 27.4 6.2 61 352-413 5-68 (78)
18 PF08785 Ku_PK_bind: Ku C term 27.8 75 0.0016 31.5 4.0 36 42-77 40-77 (120)
19 PF08349 DUF1722: Protein of u 27.6 1.1E+02 0.0025 30.0 5.2 48 353-400 56-104 (117)
20 PF11186 DUF2972: Protein of u 25.7 1.5E+02 0.0033 32.1 6.1 57 351-411 113-169 (199)
21 COG5324 Uncharacterized conser 24.6 1E+02 0.0022 37.8 4.8 128 568-700 523-680 (758)
22 PRK14981 DNA-directed RNA poly 24.5 6.4E+02 0.014 24.9 9.7 100 40-163 9-111 (112)
23 PF15011 CK2S: Casein Kinase 2 22.9 3.4E+02 0.0074 28.7 8.0 45 628-672 55-99 (168)
24 PF11554 DUF3232: Protein of u 22.8 2.2E+02 0.0047 29.7 6.1 109 615-759 26-146 (152)
25 PF09357 RteC: RteC protein; 22.5 9.5E+02 0.021 26.5 11.5 141 629-781 19-182 (218)
26 KOG4098 Molecular chaperone Pr 21.7 1.8E+02 0.0039 29.9 5.3 50 615-664 61-117 (140)
27 PF03556 Cullin_binding: Culli 21.6 1.5E+02 0.0032 29.5 4.7 65 133-197 3-72 (117)
28 PF02520 DUF148: Domain of unk 21.3 4.1E+02 0.0088 25.8 7.7 98 67-190 5-102 (113)
29 PF12238 MSA-2c: Merozoite sur 21.2 1.1E+03 0.025 25.9 13.4 127 44-198 7-139 (205)
30 cd08332 CARD_CASP2 Caspase act 20.7 1.5E+02 0.0031 28.2 4.3 30 129-161 48-77 (90)
31 PF08424 NRDE-2: NRDE-2, neces 20.2 3.7E+02 0.0081 30.8 8.3 135 633-784 57-192 (321)
32 PF00611 FCH: Fes/CIP4, and EF 20.1 3.4E+02 0.0074 24.4 6.5 50 640-691 9-58 (91)
No 1
>COG5602 SIN3 Histone deacetylase complex, SIN3 component [Chromatin structure and dynamics]
Probab=100.00 E-value=2.6e-126 Score=1098.97 Aligned_cols=581 Identities=36% Similarity=0.580 Sum_probs=463.7
Q ss_pred CCCCCCChhHHHHHHHHHHHHhccChhhHHHHHHHHHHHHhcCCChhHHHHHHHHHhhcChhHHHHhhhcCCCCccccCC
Q 001681 38 GGAQKLTTNDALAYLKAVKDIFQDKREKYDDFLEVMKDFKAQRIDTAGVIARVKELFKGHRDLILGFNTFLPKGYEITLP 117 (1031)
Q Consensus 38 ~~~~~l~~~dAlsYL~~VK~~F~d~P~vY~~FLdIMkdfk~q~idt~gVi~rV~~LFkgHpdLI~GFN~FLP~gy~I~~~ 117 (1031)
...++|+|+|||+||++||.+|.++|++|+.|||||||||+|.|||+|||+||+.||+|||+||+|||+|||+||+|++.
T Consensus 121 ~~~r~Ldv~DAlsyLe~vK~~f~~rp~iYn~FLdiMkdFKsqaiDtpgVI~RVS~LFrgYP~LIegFNtFLPsgYkie~S 200 (1163)
T COG5602 121 IPYRPLDVSDALSYLEKVKEQFSNRPEIYNNFLDIMKDFKSQAIDTPGVIERVSVLFRGYPHLIEGFNTFLPSGYKIEGS 200 (1163)
T ss_pred CCCCCCChHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHhcccCcHHHHHHHHHHHcCChHHHHHHhhhCCCccEEEEe
Confidence 56789999999999999999999999999999999999999999999999999999999999999999999999999874
Q ss_pred CCCC-------------------------------------------CC-C-----------CCCCcchHHHHHHHHHHH
Q 001681 118 LEDE-------------------------------------------QP-P-----------PKKPVEFEEAINFVNKIK 142 (1031)
Q Consensus 118 ~~de-------------------------------------------~~-p-----------~k~~vef~~Ai~FvnKVK 142 (1031)
+.+. || | .+..++|+.||.|||+||
T Consensus 201 ~~~~~~s~l~vtTP~gp~s~~pv~ss~y~a~~n~~qrts~p~lps~~Q~e~s~~~~~~sd~~~~~~~d~nqAI~~vnkVK 280 (1163)
T COG5602 201 LPQPNGSRLHVTTPQGPLSSPPVQSSYYVAPCNHDQRTSHPTLPSDSQPEPSAPSHMPSDARGKHQVDFNQAIIFVNKVK 280 (1163)
T ss_pred cCCCCCCeeeecCCCCCCCCCCcccccccccccccccccCCCCccccCCCCCCcccCCcccccccceehhHHHHHHHHHH
Confidence 3110 00 0 123378999999999999
Q ss_pred hhcCCChHHHHHHHHHHHhhhhcCCCHHHHHHHHHHHhccChhHHHHHchhCCCCCCCCcccccCCCCCccccCCCCCCC
Q 001681 143 TRFQGDDHVYKSFLDILNMYRKENKSITEVYQEVEALFQDHPDLLEEFTHFLPDSSGAASIHYVPSGRNSILRDRSSAMP 222 (1031)
Q Consensus 143 ~RF~~~pevYk~FLeIL~~y~~~~~si~eV~~~V~~LF~~hPDLL~eF~~FLP~~~~~~~~~~~p~~~n~~~~dr~s~~P 222 (1031)
.||+++|+.|..||++|++||..++++.|||++|+.||+++|||+++|..|||+....+...+ +.. .. ....+|
T Consensus 281 ~r~~~~pe~y~~fl~~Lrtyq~~qr~i~ev~~~Vt~lfa~~PdLleeFk~FLPd~~~~a~q~~-a~a---q~--p~~~lP 354 (1163)
T COG5602 281 VRFQNNPEMYYDFLDSLRTYQMKQRSIQEVYARVTKLFAEAPDLLEEFKEFLPDSSVSAEQST-ANA---QK--PSKRLP 354 (1163)
T ss_pred HhcCCCchhHHHHHHHHHHHHhhhccHHHHHHHHHHHHhhChHHHHHHHHhCccccccccccc-ccc---CC--CcccCC
Confidence 999999999999999999999999999999999999999999999999999999865442111 000 00 011223
Q ss_pred ccccccchh--hhhccccccCCCCCCCCCCCCchhhhhhchhhhhhhhhhhhhccccccccccccccccccccccccccc
Q 001681 223 TARQVHVDK--KERAMASHADRDLSVDRPDPDHDRVLLKSDKDQRRRGEKERERRDDHRRERERDDRDFENDVNRDFSMQ 300 (1031)
Q Consensus 223 ~~~~~~~~k--r~r~~~s~~~~~~s~~~P~~~~~~~~~~~~k~q~~~~~ke~~~~~~~rr~~~~~~~~~~~~~~~~~~~q 300 (1031)
+.+.+..++ +.++.|++.. ..|. ++ .
T Consensus 355 PiG~Fs~p~~a~~~~~ps~~~-----~~p~------~~-------------------~---------------------- 382 (1163)
T COG5602 355 PIGSFSLPTAAPEQNRPSLLW-----ESPR------SI-------------------S---------------------- 382 (1163)
T ss_pred CCCCCCCCCcccccCChHHhh-----cCcc------hh-------------------c----------------------
Confidence 222111100 0000011000 0000 00 0
Q ss_pred cCCcccccccccCCCCCCcCCCCCCCCCCCCCCCCCCcccchhhhhhhhhhHhHHHHHHHHHH--HHHHHHHHHHHHhhh
Q 001681 301 RFPHKRKSARKIEDSTAEPLHQGGEGDENFGMHPVSSSYDDKNAMKSMFSQELSFCEKVKDKL--RDDYQEFLRCLHLYT 378 (1031)
Q Consensus 301 ~~~~k~k~~~k~~d~~~~~~~~~~~~pe~~g~~P~s~~~~dk~a~k~~~~eElaFFDKVKk~L--ke~Y~EFLKcLNLYS 378 (1031)
....+| + +......... .|..+. .|++.. . ++.-.||++||.+| +.+|+|||||||||+
T Consensus 383 ~~~~~r-----~-d~~~S~s~~~--~P~~~~-~P~s~~---------~-~~se~ffe~ikq~L~~~~~y~eFLKlLnLY~ 443 (1163)
T COG5602 383 NISRYR-----A-DLLTSFSRNF--VPIRIH-MPISHL---------S-NESEDFFERIKQYLKDKNLYHEFLKLLNLYS 443 (1163)
T ss_pred cccccc-----c-chhhhhhhhc--CCcccc-CCcccc---------C-CchHHHHHHHHHHhccHHHHHHHHHHHHHHH
Confidence 000000 0 0000000000 001111 121110 1 11227999999999 999999999999999
Q ss_pred hcCCCHHHHHHHHHHhhcCChhHHHHHhhhcccccchhHHHHhhhhhccccccCCCCCcccccccccccccccCCCcchh
Q 001681 379 KEIITRSELQSLVGDLLGRYPDLMDGFNGFLARCEKSEELLADVMSKKSLWNEGRIPKSVKVEDRDRDRDRERDDGVKDR 458 (1031)
Q Consensus 379 QeIIdr~ELv~lV~~fLG~~PDLm~~FK~FLg~~e~~~g~l~gv~~~~~l~~~g~~~~~~~~e~~~r~~~~~~~~~~ker 458 (1031)
|+|||+++||+++-.|||.+.+||.|||+|++|.+.. + + .+
T Consensus 444 Q~iiDk~~Lver~~~~L~sNe~L~~wFk~fi~y~~~~-----------------------~-~------------~~--- 484 (1163)
T COG5602 444 QKIIDKNDLVERLFAFLGSNEELIRWFKAFINYSEPE-----------------------K-E------------PL--- 484 (1163)
T ss_pred HhhccHHHHHHHHHHHhcCcHHHHHHHHHHhccCCCC-----------------------C-C------------Cc---
Confidence 9999999999999999999999999999999986521 0 0 00
Q ss_pred hhHHhhhhhcccchhccccCCCCCccccccccccccCCcccccCCCCcccCccccccCcCCCCCCCCCCcccccccccce
Q 001681 459 DREAREKDRLDKSVAFVNKDVGPKMSMYSSKDKYLAKPIQELDLSNCERCTPSYRLLPKNYLIPSASQRTELGAEVLNDH 538 (1031)
Q Consensus 459 d~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~ek~~~kp~~elDls~c~r~gpSYRlLPk~~~~~~cSgR~eL~~~VLND~ 538 (1031)
. -...||+.|+.||||||+||+++...+|||||+|||+||||+
T Consensus 485 -------------------------------~------~~~~~le~~~~~GpSYR~LP~~e~~i~CSGRDDl~w~VLND~ 527 (1163)
T COG5602 485 -------------------------------R------ETRKDLEKFEKCGPSYRLLPKSEEEIKCSGRDDLAWEVLNDD 527 (1163)
T ss_pred -------------------------------c------ccccCHhHhhhhCcchhcCCchhhhCCccCcchhhHhhhccc
Confidence 0 013688999999999999999999999999999999999999
Q ss_pred eeec-ccCCCCcccchhchhhhhHHhhhcccchhhHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCcccCcc----hH
Q 001681 539 WVSV-TSGSEDYSFKHMRKNQYEESLFRCEDDRFELDMLLESVNVTTKRVEELLEKINNNTIKTDGPIRVEDHF----TA 613 (1031)
Q Consensus 539 wVS~-t~~SED~~F~~~RKNqyEE~Lfr~EDER~E~D~~IE~~~~tI~~Le~l~~~i~~~~~~~~~~~~l~~~L----~~ 613 (1031)
|||| ||+|||++|++||||||||+||++||||||||.+||++.+||+.|+.++++|.+|...++..+.|.++| .+
T Consensus 528 wVs~Pt~aSEdSgfI~hrkNqyEEaL~kiEeERyEyDr~Iea~~~~Ik~Le~i~d~~~~~~e~Eka~~~Lp~glg~~S~s 607 (1163)
T COG5602 528 WVSHPTWASEDSGFIAHRKNQYEEALFKIEEERYEYDRHIEATQRTIKALEQIIDKIKDMEESEKANKTLPGGLGLPSKS 607 (1163)
T ss_pred cccCCCcccccccceeecccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcchhhHHHHhcCCCcCCCccHH
Confidence 9999 799999999999999999999999999999999999999999999999999999998888877777765 58
Q ss_pred HHHHHHHHhhC-CchHHHHHHHHhccccchhHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhhhhcccCCccccccccc
Q 001681 614 LNLRCIERLYG-DHGLDVMDVLRKNASLALPVILTRLKQKQEEWARCRSDFNKVWAEIYSKNYHKSLDHRSFYFKQQDSK 692 (1031)
Q Consensus 614 i~~R~I~riYG-d~g~evi~~l~knP~~alPvVL~RLKqK~eEW~~~r~e~nkvWrev~~KNy~KSLDHrs~~FKq~DkK 692 (1031)
||+++|++||| +||.+||++|+++|++|+||||+|||+|++|||+|+|+|||+||+|.+|||||||||||++||+.|||
T Consensus 608 IyKkvik~VY~KEhA~eile~L~k~P~vt~PiVlkRLk~Kd~EWR~~kRew~kiWReIEeKN~~ksLD~~g~sfK~rDKk 687 (1163)
T COG5602 608 IYKKVIKKVYDKEHAPEILEALLKKPHVTIPIVLKRLKMKDEEWRSCKREWNKIWREIEEKNYHKSLDHQGVSFKSRDKK 687 (1163)
T ss_pred HHHHHHHHHhchhhHHHHHHHHHhCCCcchHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHhHHhhhhhcccceeccccc
Confidence 99999999999 79999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccchhhhHHHHHHHHHHhhhhhhHHHHHHhcCCCCCCCCceeecCChhHHHHHHHHHHHHhcCCCCh--HHHHHHHHHHH
Q 001681 693 SLGAKALSAEIKEISEKKRKEDDVLLAIAAGNRRSIVPHLEFEYSDPDIHEDLYQLIKYSCGEMCTT--EQLDKVMKIWT 770 (1031)
Q Consensus 693 ~ls~K~Ll~EIk~i~e~k~~e~d~l~~~a~g~~~p~~p~l~f~y~D~~I~~D~~~LI~y~~~~~~ss--e~~~ki~~~~~ 770 (1031)
.||+|.||.||..++.++..- + ......-++.|.|+|.-|+.|++.|..-..-.+++. .+++++..++.
T Consensus 688 ~lstk~il~eidd~~q~kih~---~------~~~k~~fqf~fvlcd~~If~nil~l~dt~itn~ssyl~~dkerlka~lk 758 (1163)
T COG5602 688 ILSTKNILEEIDDRSQAKIHV---S------IDDKKVFQFVFVLCDTYIFVNILDLKDTLITNMSSYLESDKERLKANLK 758 (1163)
T ss_pred cchHHHHHHHhhHhhhcceee---e------cCccccceeeeecccceeEeeeccccceeeecchhhhhhhHHHHHHHHH
Confidence 999999999999776654211 0 011123488899999999999999965443333332 68899999999
Q ss_pred HhhhhccCCC
Q 001681 771 TFLEPMLGVP 780 (1031)
Q Consensus 771 ~Fl~~ff~i~ 780 (1031)
+||..||++.
T Consensus 759 ~~~slff~~~ 768 (1163)
T COG5602 759 TIVSLFFLLC 768 (1163)
T ss_pred HHHHHHhhhh
Confidence 9999999944
No 2
>smart00761 HDAC_interact Histone deacetylase (HDAC) interacting. This domain is found on transcriptional regulators. It forms interactions with histone deacetylases.
Probab=100.00 E-value=7.4e-44 Score=332.61 Aligned_cols=100 Identities=58% Similarity=0.890 Sum_probs=96.4
Q ss_pred CCcccCccccccCcCCCCCCCCCCcccccccccceeeecccC-CCCcccchhchhhhhHHhhhcccchhhHHHHHHHHHH
Q 001681 504 NCERCTPSYRLLPKNYLIPSASQRTELGAEVLNDHWVSVTSG-SEDYSFKHMRKNQYEESLFRCEDDRFELDMLLESVNV 582 (1031)
Q Consensus 504 ~c~r~gpSYRlLPk~~~~~~cSgR~eL~~~VLND~wVS~t~~-SED~~F~~~RKNqyEE~Lfr~EDER~E~D~~IE~~~~ 582 (1031)
+|++||||||+|||+|+.++||||++||++||||+|||||+| |||++|++||||||||+|||||||||||||+||++.+
T Consensus 1 ~c~~~gpSYr~Lpk~~~~~~cSgR~~l~~~VLND~wvsvps~~SED~~F~~~rKNqyEE~Lfr~EDeR~E~D~~ie~~~~ 80 (102)
T smart00761 1 NCERCGPSYRLLPKSEKQPKCSGRDELCKEVLNDTWVSHPTWASEDSGFVAHRKNQYEEALFRCEDERFELDMVIESNSS 80 (102)
T ss_pred CCcccCcchhhCCcccCCCCCCCccHHHHHHhCCceEeecCCcccccchhhhhccHHHHHHHHhhhhhhHHHHHHHHHHH
Confidence 599999999999999999999999999999999999999876 9999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHhcCCCCCCC
Q 001681 583 TTKRVEELLEKINNNTIKTDG 603 (1031)
Q Consensus 583 tI~~Le~l~~~i~~~~~~~~~ 603 (1031)
||+.|++|+++|+.|+++++.
T Consensus 81 ti~~le~l~~~~~~~~~~e~~ 101 (102)
T smart00761 81 TIKLLEEILNKIEDMSDEERA 101 (102)
T ss_pred HHHHHHHHHHHHhcCChhhcc
Confidence 999999999999999887653
No 3
>KOG4204 consensus Histone deacetylase complex, SIN3 component [Chromatin structure and dynamics]
Probab=100.00 E-value=2.1e-41 Score=359.86 Aligned_cols=163 Identities=71% Similarity=1.120 Sum_probs=150.9
Q ss_pred CCCCCChhHHHHHHHHHHHHhccChhhHHHHHHHHHHHHhcCCChhHHHHHHHHHhhcChhHHHHhhhcCCCCccccCCC
Q 001681 39 GAQKLTTNDALAYLKAVKDIFQDKREKYDDFLEVMKDFKAQRIDTAGVIARVKELFKGHRDLILGFNTFLPKGYEITLPL 118 (1031)
Q Consensus 39 ~~~~l~~~dAlsYL~~VK~~F~d~P~vY~~FLdIMkdfk~q~idt~gVi~rV~~LFkgHpdLI~GFN~FLP~gy~I~~~~ 118 (1031)
..++++++||++||++||.+|+|+|++|++||+||+|||+++||++|||+||++||+|||+||+|||+|||+||+|++++
T Consensus 13 ~~~~~t~~DAlsYl~~VK~~f~d~p~kY~~FL~im~d~ka~~iD~~~vi~rv~eLfK~h~~Ll~gfN~fLP~~~~i~~~~ 92 (231)
T KOG4204|consen 13 VSPALTLDDALAYLKAVKEAFQDEPEKYDEFLEIMKDFKAQRIDTPGVIARVKELLKGHPDLLLGFNTFLPPGYKITLSS 92 (231)
T ss_pred CCCCCChHHHHHHHHHHHHHHhcChHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHccCHHHHHHHHhhCcccceeccCc
Confidence 44569999999999999999999999999999999999999999999999999999999999999999999999999986
Q ss_pred CCCC-----------CCCCCC-----------cchHHHHHHHHHHHhhcCCChHHHHHHHHHHHhhhhcCCCHHHHHHHH
Q 001681 119 EDEQ-----------PPPKKP-----------VEFEEAINFVNKIKTRFQGDDHVYKSFLDILNMYRKENKSITEVYQEV 176 (1031)
Q Consensus 119 ~de~-----------~p~k~~-----------vef~~Ai~FvnKVK~RF~~~pevYk~FLeIL~~y~~~~~si~eV~~~V 176 (1031)
++.. ++.+.. +++++|++|+||||+||++++++|++||+||++|+++++++.+||++|
T Consensus 93 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~fv~klk~rf~~~~~v~~s~l~il~~y~~~~ks~~e~~~eV 172 (231)
T KOG4204|consen 93 EAKDEFTIYGATSYLPSPKVAFHEEILKLLEDVEFDRAISFVNKLKTRFQGDDHVYKSFLEILRMYQEGNKSVSEVYQEV 172 (231)
T ss_pred ccccccccccccccCCCccccccchhhhhcccchHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhhccchHHHHHHHH
Confidence 5421 223343 789999999999999999999999999999999999999999999999
Q ss_pred HHHhccChhHHHHHchhCCCCCCCC
Q 001681 177 EALFQDHPDLLEEFTHFLPDSSGAA 201 (1031)
Q Consensus 177 ~~LF~~hPDLL~eF~~FLP~~~~~~ 201 (1031)
..||++|+||+.+|..|||......
T Consensus 173 ~~L~~~~~DL~~ef~~~lp~~~~~~ 197 (231)
T KOG4204|consen 173 EALLQGHEDLLEEFSHFLPTDPATG 197 (231)
T ss_pred HHHHccCHHHHHHHHhhccCCcccc
Confidence 9999999999999999999986544
No 4
>PF08295 Sin3_corepress: Sin3 family co-repressor; InterPro: IPR013194 This domain is found on transcriptional regulators. It forms interactions with histone deacetylases [].
Probab=100.00 E-value=6.5e-42 Score=321.10 Aligned_cols=100 Identities=64% Similarity=0.960 Sum_probs=96.9
Q ss_pred CCcccCccccccCcCCCCCCCCCCcccccccccceeeecccCCCCcccchhchhhhhHHhhhcccchhhHHHHHHHHHHH
Q 001681 504 NCERCTPSYRLLPKNYLIPSASQRTELGAEVLNDHWVSVTSGSEDYSFKHMRKNQYEESLFRCEDDRFELDMLLESVNVT 583 (1031)
Q Consensus 504 ~c~r~gpSYRlLPk~~~~~~cSgR~eL~~~VLND~wVS~t~~SED~~F~~~RKNqyEE~Lfr~EDER~E~D~~IE~~~~t 583 (1031)
+|++||||||+||++|+.++||||++||++||||+|||||+||||++|++||||||||+|||||||||||||+||++++|
T Consensus 1 ~c~~~gpSYr~LP~~~~~~~cSgR~~l~~~VLND~wvs~p~~sEd~~f~~~kKnqyEE~lf~~EDeR~E~D~~ie~~~~t 80 (101)
T PF08295_consen 1 NCERCGPSYRLLPKSYQNPPCSGRDELCWSVLNDTWVSVPSWSEDSSFKAMKKNQYEEALFRCEDERFELDMLIESNRST 80 (101)
T ss_pred CCCcCccchhhCCcccCCCCCCCCchhhhhhcCCEEEEeCCccccccccchhhhHHHHHHHHhhhhhHHHHHHHHHHHHH
Confidence 59999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHhcCCCCCCC
Q 001681 584 TKRVEELLEKINNNTIKTDG 603 (1031)
Q Consensus 584 I~~Le~l~~~i~~~~~~~~~ 603 (1031)
|+.|++|+++|+.|+++++.
T Consensus 81 I~~Le~l~~~i~~~~~ee~~ 100 (101)
T PF08295_consen 81 IKLLEELQEKIQDMSPEERA 100 (101)
T ss_pred HHHHHHHHHHHhcCCHhHhc
Confidence 99999999999999887653
No 5
>COG5602 SIN3 Histone deacetylase complex, SIN3 component [Chromatin structure and dynamics]
Probab=99.86 E-value=3.5e-21 Score=226.43 Aligned_cols=209 Identities=25% Similarity=0.437 Sum_probs=143.6
Q ss_pred CCCcchHHHHHHHHHHHhhcCCChHHHHHHHHHHHhhhhcCCCHHHHHHHHHHHhccChhHHHHHchhCCCCCCCCcccc
Q 001681 126 KKPVEFEEAINFVNKIKTRFQGDDHVYKSFLDILNMYRKENKSITEVYQEVEALFQDHPDLLEEFTHFLPDSSGAASIHY 205 (1031)
Q Consensus 126 k~~vef~~Ai~FvnKVK~RF~~~pevYk~FLeIL~~y~~~~~si~eV~~~V~~LF~~hPDLL~eF~~FLP~~~~~~~~~~ 205 (1031)
-+++++.+|++||++||.+|.++|++|..||+||++|+.+.++..+|+++|..||+|+|+||++|+.|||.++..-....
T Consensus 123 ~r~Ldv~DAlsyLe~vK~~f~~rp~iYn~FLdiMkdFKsqaiDtpgVI~RVS~LFrgYP~LIegFNtFLPsgYkie~S~~ 202 (1163)
T COG5602 123 YRPLDVSDALSYLEKVKEQFSNRPEIYNNFLDIMKDFKSQAIDTPGVIERVSVLFRGYPHLIEGFNTFLPSGYKIEGSLP 202 (1163)
T ss_pred CCCCChHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHhcccCcHHHHHHHHHHHcCChHHHHHHhhhCCCccEEEEecC
Confidence 56789999999999999999999999999999999999999999999999999999999999999999999986542221
Q ss_pred cCCCCCccccCCCCCCCccccccchhhhhccccccCCCCCCCCCCCCchhhhhhchhhhhhhhhhhhhcccccccccccc
Q 001681 206 VPSGRNSILRDRSSAMPTARQVHVDKKERAMASHADRDLSVDRPDPDHDRVLLKSDKDQRRRGEKERERRDDHRRERERD 285 (1031)
Q Consensus 206 ~p~~~n~~~~dr~s~~P~~~~~~~~kr~r~~~s~~~~~~s~~~P~~~~~~~~~~~~k~q~~~~~ke~~~~~~~rr~~~~~ 285 (1031)
.|.+ .....+.+..|.+.+. +++. ....|-
T Consensus 203 ~~~~--s~l~vtTP~gp~s~~p--------v~ss-----~y~a~~----------------------------------- 232 (1163)
T COG5602 203 QPNG--SRLHVTTPQGPLSSPP--------VQSS-----YYVAPC----------------------------------- 232 (1163)
T ss_pred CCCC--CeeeecCCCCCCCCCC--------cccc-----cccccc-----------------------------------
Confidence 1111 2222222222221110 0000 000000
Q ss_pred ccccccccccccccccCCcccccccccCCCCCCcCCCCCCCCCCCCCCCCCCcccchhhhhhhhhhHhHHHHHHHHHH--
Q 001681 286 DRDFENDVNRDFSMQRFPHKRKSARKIEDSTAEPLHQGGEGDENFGMHPVSSSYDDKNAMKSMFSQELSFCEKVKDKL-- 363 (1031)
Q Consensus 286 ~~~~~~~~~~~~~~q~~~~k~k~~~k~~d~~~~~~~~~~~~pe~~g~~P~s~~~~dk~a~k~~~~eElaFFDKVKk~L-- 363 (1031)
.+++.. . +.. -|... + |+.-+..-+++ +.+.-....+.+++.|..|||.++
T Consensus 233 ----n~~qrt-------s------~p~-lps~~---Q----~e~s~~~~~~s--d~~~~~~~d~nqAI~~vnkVK~r~~~ 285 (1163)
T COG5602 233 ----NHDQRT-------S------HPT-LPSDS---Q----PEPSAPSHMPS--DARGKHQVDFNQAIIFVNKVKVRFQN 285 (1163)
T ss_pred ----cccccc-------c------CCC-Ccccc---C----CCCCCcccCCc--ccccccceehhHHHHHHHHHHHhcCC
Confidence 000000 0 000 00000 0 01000000000 000011235789999999999999
Q ss_pred -HHHHHHHHHHHHhhhhcCCCHHHHHHHHHHhhcCChhHHHHHhhhccc
Q 001681 364 -RDDYQEFLRCLHLYTKEIITRSELQSLVGDLLGRYPDLMDGFNGFLAR 411 (1031)
Q Consensus 364 -ke~Y~EFLKcLNLYSQeIIdr~ELv~lV~~fLG~~PDLm~~FK~FLg~ 411 (1031)
+++|.+||.+|..|..+.-+.+|++.+|+.+|..+|||+++||.||+.
T Consensus 286 ~pe~y~~fl~~Lrtyq~~qr~i~ev~~~Vt~lfa~~PdLleeFk~FLPd 334 (1163)
T COG5602 286 NPEMYYDFLDSLRTYQMKQRSIQEVYARVTKLFAEAPDLLEEFKEFLPD 334 (1163)
T ss_pred CchhHHHHHHHHHHHHhhhccHHHHHHHHHHHHhhChHHHHHHHHhCcc
Confidence 999999999999999999999999999999999999999999999975
No 6
>KOG4204 consensus Histone deacetylase complex, SIN3 component [Chromatin structure and dynamics]
Probab=99.86 E-value=7.6e-21 Score=203.03 Aligned_cols=176 Identities=25% Similarity=0.420 Sum_probs=136.1
Q ss_pred CCcchHHHHHHHHHHHhhcCCChHHHHHHHHHHHhhhhcCCCHHHHHHHHHHHhccChhHHHHHchhCCCCCCCCccccc
Q 001681 127 KPVEFEEAINFVNKIKTRFQGDDHVYKSFLDILNMYRKENKSITEVYQEVEALFQDHPDLLEEFTHFLPDSSGAASIHYV 206 (1031)
Q Consensus 127 ~~vef~~Ai~FvnKVK~RF~~~pevYk~FLeIL~~y~~~~~si~eV~~~V~~LF~~hPDLL~eF~~FLP~~~~~~~~~~~ 206 (1031)
..+++++|++||++||.+|+++|++|.+||+||++|+.+.++..+|+++|+.||+||||||.+|+.|||.+......+..
T Consensus 15 ~~~t~~DAlsYl~~VK~~f~d~p~kY~~FL~im~d~ka~~iD~~~vi~rv~eLfK~h~~Ll~gfN~fLP~~~~i~~~~~~ 94 (231)
T KOG4204|consen 15 PALTLDDALAYLKAVKEAFQDEPEKYDEFLEIMKDFKAQRIDTPGVIARVKELLKGHPDLLLGFNTFLPPGYKITLSSEA 94 (231)
T ss_pred CCCChHHHHHHHHHHHHHHhcChHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHccCHHHHHHHHhhCcccceeccCccc
Confidence 34789999999999999999999999999999999999999999999999999999999999999999999865433210
Q ss_pred CCCCCccccCCCCCCCccccccchhhhhccccccCCCCCCCCCCCCchhhhhhchhhhhhhhhhhhhccccccccccccc
Q 001681 207 PSGRNSILRDRSSAMPTARQVHVDKKERAMASHADRDLSVDRPDPDHDRVLLKSDKDQRRRGEKERERRDDHRRERERDD 286 (1031)
Q Consensus 207 p~~~n~~~~dr~s~~P~~~~~~~~kr~r~~~s~~~~~~s~~~P~~~~~~~~~~~~k~q~~~~~ke~~~~~~~rr~~~~~~ 286 (1031)
... . .+.. .+...|.
T Consensus 95 ~~~-~--------~~~~--------------------~~~~~~~------------------------------------ 109 (231)
T KOG4204|consen 95 KDE-F--------TIYG--------------------ATSYLPS------------------------------------ 109 (231)
T ss_pred ccc-c--------cccc--------------------ccccCCC------------------------------------
Confidence 000 0 0000 0000000
Q ss_pred cccccccccccccccCCcccccccccCCCCCCcCCCCCCCCCCCCCCCCCCcccchhhhhhhhhhHhHHHHHHHHHH---
Q 001681 287 RDFENDVNRDFSMQRFPHKRKSARKIEDSTAEPLHQGGEGDENFGMHPVSSSYDDKNAMKSMFSQELSFCEKVKDKL--- 363 (1031)
Q Consensus 287 ~~~~~~~~~~~~~q~~~~k~k~~~k~~d~~~~~~~~~~~~pe~~g~~P~s~~~~dk~a~k~~~~eElaFFDKVKk~L--- 363 (1031)
+ +. ... .. . ...++. ..+.+++.|.+|||+++
T Consensus 110 ----------------~-~~-~~~-~~------~------~~~~~~--------------~~~~~a~~fv~klk~rf~~~ 144 (231)
T KOG4204|consen 110 ----------------P-KV-AFH-EE------I------LKLLED--------------VEFDRAISFVNKLKTRFQGD 144 (231)
T ss_pred ----------------c-cc-ccc-ch------h------hhhccc--------------chHHHHHHHHHHHHHHhcCC
Confidence 0 00 000 00 0 001110 15678999999999999
Q ss_pred HHHHHHHHHHHHhhhhcCCCHHHHHHHHHHhhcCChhHHHHHhhhcccc
Q 001681 364 RDDYQEFLRCLHLYTKEIITRSELQSLVGDLLGRYPDLMDGFNGFLARC 412 (1031)
Q Consensus 364 ke~Y~EFLKcLNLYSQeIIdr~ELv~lV~~fLG~~PDLm~~FK~FLg~~ 412 (1031)
.++|+.||.+|++|.++-.+.+|+.+.|..+|++|+||+.+|..||+-.
T Consensus 145 ~~v~~s~l~il~~y~~~~ks~~e~~~eV~~L~~~~~DL~~ef~~~lp~~ 193 (231)
T KOG4204|consen 145 DHVYKSFLEILRMYQEGNKSVSEVYQEVEALLQGHEDLLEEFSHFLPTD 193 (231)
T ss_pred HHHHHHHHHHHHHHhhccchHHHHHHHHHHHHccCHHHHHHHHhhccCC
Confidence 6899999999999999999999999999999999999999999999754
No 7
>PF02671 PAH: Paired amphipathic helix repeat; InterPro: IPR003822 This family contains the paired amphipathic helix (PAH) repeat. The family contains the eukaryotic Sin3 proteins, which have at least three PAH domains (PAH1, PAH2, and PAH3). Sin3 proteins are components of a co-repressor complex that silences transcription, playing important roles in the transition between proliferation and differentiation. Sin3 proteins are recruited to the DNA by various DNA-binding transcription factors such as the Mad family of repressors, Mnt/Rox, PLZF, MeCP2, p53, REST/NRSF, MNFbeta, Sp1, TGIF and Ume6 []. Sin3 acts as a scaffold protein that in turn recruits histone-binding proteins RbAp46/RbAp48 and histone deacetylases HDAC1/HDAC2, which deacetylate the core histones resulting in a repressed state of the chromatin []. The PAH domains are protein-protein interaction domains through which Sin3 fulfils its role as a scaffold. The PAH2 domain of Sin3 can interact with a wide range of unrelated and structurally diverse transcription factors that bind using different interaction motifs. For example, the Sin3 PAH2 domain can interact with the unrelated Mad and HBP1 factors using alternative interaction motifs that involve binding in opposite helical orientations [].; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 1S5Q_B 2L9S_B 1G1E_B 1S5R_B 2CR7_A 2CZY_A 2LD7_B 2RMR_A 2RMS_A 1PD7_A ....
Probab=99.44 E-value=1.2e-13 Score=113.31 Aligned_cols=47 Identities=47% Similarity=0.892 Sum_probs=45.5
Q ss_pred hhhHHHHHHHHHHHHhcCCChhHHHHHHHHHhhcChhHHHHhhhcCC
Q 001681 63 REKYDDFLEVMKDFKAQRIDTAGVIARVKELFKGHRDLILGFNTFLP 109 (1031)
Q Consensus 63 P~vY~~FLdIMkdfk~q~idt~gVi~rV~~LFkgHpdLI~GFN~FLP 109 (1031)
|++|++||+||++|+.++++..+|+++|+.||+||||||.+|+.|||
T Consensus 1 p~~Y~~FL~il~~y~~~~~~~~~v~~~v~~Ll~~hpdLl~~F~~FlP 47 (47)
T PF02671_consen 1 PEVYNEFLKILNDYKKGRISRSEVIEEVSELLRGHPDLLEEFNRFLP 47 (47)
T ss_dssp HHHHHHHHHHHHHHHCTCSCHHHHHHHHHHHTTT-HHHHHHHHHHSS
T ss_pred ChHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHccCHHHHHHHHhhCc
Confidence 89999999999999999999999999999999999999999999998
No 8
>PF02671 PAH: Paired amphipathic helix repeat; InterPro: IPR003822 This family contains the paired amphipathic helix (PAH) repeat. The family contains the eukaryotic Sin3 proteins, which have at least three PAH domains (PAH1, PAH2, and PAH3). Sin3 proteins are components of a co-repressor complex that silences transcription, playing important roles in the transition between proliferation and differentiation. Sin3 proteins are recruited to the DNA by various DNA-binding transcription factors such as the Mad family of repressors, Mnt/Rox, PLZF, MeCP2, p53, REST/NRSF, MNFbeta, Sp1, TGIF and Ume6 []. Sin3 acts as a scaffold protein that in turn recruits histone-binding proteins RbAp46/RbAp48 and histone deacetylases HDAC1/HDAC2, which deacetylate the core histones resulting in a repressed state of the chromatin []. The PAH domains are protein-protein interaction domains through which Sin3 fulfils its role as a scaffold. The PAH2 domain of Sin3 can interact with a wide range of unrelated and structurally diverse transcription factors that bind using different interaction motifs. For example, the Sin3 PAH2 domain can interact with the unrelated Mad and HBP1 factors using alternative interaction motifs that involve binding in opposite helical orientations [].; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 1S5Q_B 2L9S_B 1G1E_B 1S5R_B 2CR7_A 2CZY_A 2LD7_B 2RMR_A 2RMS_A 1PD7_A ....
Probab=99.34 E-value=1.4e-12 Score=106.97 Aligned_cols=47 Identities=55% Similarity=0.904 Sum_probs=45.3
Q ss_pred hHHHHHHHHHHHhhhhcCCCHHHHHHHHHHHhccChhHHHHHchhCC
Q 001681 149 DHVYKSFLDILNMYRKENKSITEVYQEVEALFQDHPDLLEEFTHFLP 195 (1031)
Q Consensus 149 pevYk~FLeIL~~y~~~~~si~eV~~~V~~LF~~hPDLL~eF~~FLP 195 (1031)
|++|++||+||++|+++.++..+|+++|+.||++||||+++|+.|||
T Consensus 1 p~~Y~~FL~il~~y~~~~~~~~~v~~~v~~Ll~~hpdLl~~F~~FlP 47 (47)
T PF02671_consen 1 PEVYNEFLKILNDYKKGRISRSEVIEEVSELLRGHPDLLEEFNRFLP 47 (47)
T ss_dssp HHHHHHHHHHHHHHHCTCSCHHHHHHHHHHHTTT-HHHHHHHHHHSS
T ss_pred ChHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHccCHHHHHHHHhhCc
Confidence 79999999999999999999999999999999999999999999998
No 9
>cd07354 HN_L-delphilin-R1_like First harmonin_N_like domain (repeat 1) of L-delphilin, and related domains. This subgroup contains the first of two harmonin_N_like domains of an alternatively spliced longer variant of mouse delphilin (L-delphilin, isoform 1), and related domains. Delphilin is a scaffold protein which binds the glutamate receptor delta-2 (GRID2) subunit and the monocarboxylate transporter 2 at the cerebellar parallel fiber-Purkinje cell synapses. The N-terminus of L-delphilin contains this harmonin_N_like domain preceded by a postsynaptic density-95/discs-large/ZO-1 (PDZ) protein-binding domain, PDZ1. L-delphilin, in common with the shorter C-terminal isoforms (S-delphilin/delphilin alpha and delphilin beta) has a second harmonin_N_like domain (not belonging to this subgroup) and a second PDZ domain, PDZ2. This first harmonin_N_like domain is a putative protein-binding module based on its sequence similarity to the harmonin N-domain.
Probab=78.84 E-value=7.5 Score=36.23 Aligned_cols=67 Identities=22% Similarity=0.372 Sum_probs=57.7
Q ss_pred HHHHHHHHHHHhhcCCChHHHHHHHHHHHhhhhcCCCHHHHHHHHHHHhcc--ChhHHHHHchhCCCCCC
Q 001681 132 EEAINFVNKIKTRFQGDDHVYKSFLDILNMYRKENKSITEVYQEVEALFQD--HPDLLEEFTHFLPDSSG 199 (1031)
Q Consensus 132 ~~Ai~FvnKVK~RF~~~pevYk~FLeIL~~y~~~~~si~eV~~~V~~LF~~--hPDLL~eF~~FLP~~~~ 199 (1031)
..|..|..||..-+.++|..=....+.|++|.. .+.+..+...+..++.. |--|+++--.|+|.-+.
T Consensus 3 ~kA~eF~~Kvd~iL~~dp~~Ke~l~~aLk~Ya~-~k~vd~l~~aL~~~L~~e~~~~Lld~IR~fIP~KHr 71 (80)
T cd07354 3 RKAQEFSRKVDAILGDDPVKKEQVFAALKQYAA-DKNVDCLVWALCGLLQTEAHKKLLDEIRIFIPKKHR 71 (80)
T ss_pred hHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHH-HcCHHHHHHHHHHHhCcHHHHHHHHHhHhcCCchhH
Confidence 469999999999999999999999999999965 45778888888888864 77799999999998654
No 10
>cd07354 HN_L-delphilin-R1_like First harmonin_N_like domain (repeat 1) of L-delphilin, and related domains. This subgroup contains the first of two harmonin_N_like domains of an alternatively spliced longer variant of mouse delphilin (L-delphilin, isoform 1), and related domains. Delphilin is a scaffold protein which binds the glutamate receptor delta-2 (GRID2) subunit and the monocarboxylate transporter 2 at the cerebellar parallel fiber-Purkinje cell synapses. The N-terminus of L-delphilin contains this harmonin_N_like domain preceded by a postsynaptic density-95/discs-large/ZO-1 (PDZ) protein-binding domain, PDZ1. L-delphilin, in common with the shorter C-terminal isoforms (S-delphilin/delphilin alpha and delphilin beta) has a second harmonin_N_like domain (not belonging to this subgroup) and a second PDZ domain, PDZ2. This first harmonin_N_like domain is a putative protein-binding module based on its sequence similarity to the harmonin N-domain.
Probab=75.12 E-value=12 Score=34.90 Aligned_cols=67 Identities=19% Similarity=0.385 Sum_probs=55.3
Q ss_pred hHHHHHHHHHHHHhccChhhHHHHHHHHHHHHhcCCChhHHHHHHHHHhhc--ChhHHHHhhhcCCCCcc
Q 001681 46 NDALAYLKAVKDIFQDKREKYDDFLEVMKDFKAQRIDTAGVIARVKELFKG--HRDLILGFNTFLPKGYE 113 (1031)
Q Consensus 46 ~dAlsYL~~VK~~F~d~P~vY~~FLdIMkdfk~q~idt~gVi~rV~~LFkg--HpdLI~GFN~FLP~gy~ 113 (1031)
+-|..|..+|..-+.++|.+=++..++|+.|-+.+ +.+.+...+.-++.. |--||.....|+|.-++
T Consensus 3 ~kA~eF~~Kvd~iL~~dp~~Ke~l~~aLk~Ya~~k-~vd~l~~aL~~~L~~e~~~~Lld~IR~fIP~KHr 71 (80)
T cd07354 3 RKAQEFSRKVDAILGDDPVKKEQVFAALKQYAADK-NVDCLVWALCGLLQTEAHKKLLDEIRIFIPKKHR 71 (80)
T ss_pred hHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHc-CHHHHHHHHHHHhCcHHHHHHHHHhHhcCCchhH
Confidence 45899999999999999999999999999997644 456666666666654 67799999999998665
No 11
>PF11867 DUF3387: Domain of unknown function (DUF3387); InterPro: IPR021810 This domain is functionally uncharacterised. This domain is found in bacteria and archaea. This presumed domain is typically between 255 to 340 amino acids in length. This domain is found associated with PF04851 from PFAM, PF04313 from PFAM.
Probab=45.63 E-value=73 Score=36.77 Aligned_cols=100 Identities=23% Similarity=0.281 Sum_probs=59.8
Q ss_pred CChhHHHHHHHHHhhcCh---hHHHHhhhcCCCCccccCCCCCC-----CCCCCCCcchHHHHHHHH-HHHhhcCCChHH
Q 001681 81 IDTAGVIARVKELFKGHR---DLILGFNTFLPKGYEITLPLEDE-----QPPPKKPVEFEEAINFVN-KIKTRFQGDDHV 151 (1031)
Q Consensus 81 idt~gVi~rV~~LFkgHp---dLI~GFN~FLP~gy~I~~~~~de-----~~p~k~~vef~~Ai~Fvn-KVK~RF~~~pev 151 (1031)
+|..++-.+|.+|+..|= ..+.-|..+=|..-.|++-. ++ ..-+.+....+.-..+++ +|+.++..+|..
T Consensus 117 ~~~~~~~~~i~~Lid~~I~s~~v~~i~~~~~~~~~disild-~eFl~~v~~~~~k~~~~e~L~~~l~~~I~~~~~~N~~~ 195 (335)
T PF11867_consen 117 PDIKEVEEKIRQLIDESIASEGVVDIFEAAGLKKPDISILD-DEFLEEVKKMKSKNLKAELLEKLLRDEIKVRMKENPVR 195 (335)
T ss_pred CCHHHHHHHHHHHHHHHHhcccchhHHhhcCCCCCChhhcC-HHHHHHHHhccCchHHHHHHHHHHHHHHHHHHhcCHHH
Confidence 567788888888887662 22222332211111122210 00 000122233333344454 799999999999
Q ss_pred HHHHHH----HHHhhhhcCCCHHHHHHHHHHHhc
Q 001681 152 YKSFLD----ILNMYRKENKSITEVYQEVEALFQ 181 (1031)
Q Consensus 152 Yk~FLe----IL~~y~~~~~si~eV~~~V~~LF~ 181 (1031)
|++|-+ +|..|+++.++..++++++..|-+
T Consensus 196 ~~~fsErLe~iI~~Y~~~~i~~~e~~~eLi~la~ 229 (335)
T PF11867_consen 196 YKKFSERLEEIIEKYNNRSISSEEVIEELIKLAK 229 (335)
T ss_pred HHHHHHHHHHHHHHHHcccchHHHHHHHHHHHHH
Confidence 988774 677799999999999999888765
No 12
>PF12174 RST: RCD1-SRO-TAF4 (RST) plant domain; InterPro: IPR022003 This domain is found in many plant proteins including SROs and RCD1s; it is required for interaction with multiple plant transcription factors.
Probab=44.30 E-value=50 Score=30.13 Aligned_cols=43 Identities=14% Similarity=0.294 Sum_probs=36.1
Q ss_pred HHHHHHHHH-HHHHHHHHHHHHhhhhcCCCHHHHHHHHHHhhcC
Q 001681 355 FCEKVKDKL-RDDYQEFLRCLHLYTKEIITRSELQSLVGDLLGR 397 (1031)
Q Consensus 355 FFDKVKk~L-ke~Y~EFLKcLNLYSQeIIdr~ELv~lV~~fLG~ 397 (1031)
.|..+++.| ++....-.+..+-|-+..|+|+|+|..+..+.|+
T Consensus 14 L~~~l~~~l~~~~~~~l~~~Y~~~k~~kIsR~~fvr~lR~IVGD 57 (70)
T PF12174_consen 14 LFSALSKHLPPSKMDLLQKHYEEFKKKKISREEFVRKLRQIVGD 57 (70)
T ss_pred HHHHHHHHCCHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHH
Confidence 577778888 6766667777777889999999999999999995
No 13
>PF08963 DUF1878: Protein of unknown function (DUF1878); InterPro: IPR015058 This family consist of hypothetical bacterial proteins. ; PDB: 1SED_B.
Probab=42.41 E-value=47 Score=33.05 Aligned_cols=64 Identities=19% Similarity=0.407 Sum_probs=47.5
Q ss_pred hhhhhHhHHHHHHHHHH----HHHHHHHHHHHHhhhhcCCCHHHHHHHHHHhh--cCChhHHHHHhhhcc
Q 001681 347 SMFSQELSFCEKVKDKL----RDDYQEFLRCLHLYTKEIITRSELQSLVGDLL--GRYPDLMDGFNGFLA 410 (1031)
Q Consensus 347 ~~~~eElaFFDKVKk~L----ke~Y~EFLKcLNLYSQeIIdr~ELv~lV~~fL--G~~PDLm~~FK~FLg 410 (1031)
....+-+..|++..+.+ .+-|-.|-.+|..|..-+..+=++-+-+..++ |-+++||.+|+.++.
T Consensus 41 eevee~~~lce~l~ee~~~QKAeG~v~F~pLl~~F~~~L~~~L~~~eti~Al~~Qgl~~~lM~ef~~~i~ 110 (113)
T PF08963_consen 41 EEVEEFLRLCEELSEELEEQKAEGFVIFDPLLAQFAGMLHEKLDVHETIEALLRQGLFQPLMTEFKKIIK 110 (113)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHTT----HHHHHHHHHHS-TTS-HHHHHHHHHHTT-SHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcchhhHHHHHHHHHhhcCccCCHHHHHHHHHHccCcHHHHHHHHHHHh
Confidence 34556688999999999 55788999999999988888877777788888 679999999999873
No 14
>PRK09807 hypothetical protein; Provisional
Probab=34.55 E-value=37 Score=33.63 Aligned_cols=49 Identities=37% Similarity=0.474 Sum_probs=39.7
Q ss_pred HHHHhccChhhHHHHHHHHHHHHh------c------CCChhHHHHHHHHHhhcChhHHHH
Q 001681 55 VKDIFQDKREKYDDFLEVMKDFKA------Q------RIDTAGVIARVKELFKGHRDLILG 103 (1031)
Q Consensus 55 VK~~F~d~P~vY~~FLdIMkdfk~------q------~idt~gVi~rV~~LFkgHpdLI~G 103 (1031)
|-.-|+.+|-...+||.+=.||.+ | .+|+.-.|--|..||.|.|.||..
T Consensus 2 vaalfgcqpylvqrflavdndfaailkgngqhaavdfavdiavaipvvqtlfngqpqlisq 62 (161)
T PRK09807 2 VAALFGCQPYLVQRFLAVDNDFAAILKGNGQHAAVDFAVDIAVAIPVVQTLFNGQPQLISQ 62 (161)
T ss_pred chhhhcCcHHHHHHHHHhcchHHHHHcCCCceeeeeeeeeeeeehHHHHHHhCCChHHHHH
Confidence 345688899999999999888864 1 246677789999999999999976
No 15
>KOG3304 consensus Surfeit family protein 5 [General function prediction only]
Probab=32.50 E-value=74 Score=32.48 Aligned_cols=37 Identities=24% Similarity=0.354 Sum_probs=27.8
Q ss_pred CCCChhHHHHHHHHHHHHhccC-hhhHHHHHHHHHHHH
Q 001681 41 QKLTTNDALAYLKAVKDIFQDK-REKYDDFLEVMKDFK 77 (1031)
Q Consensus 41 ~~l~~~dAlsYL~~VK~~F~d~-P~vY~~FLdIMkdfk 77 (1031)
++....-+-..|+..+.|+.|+ ..+-+.|-+|++--|
T Consensus 10 ~~~~~ask~al~k~~~~Rl~ddIkS~~dNF~~Ii~~Ak 47 (148)
T KOG3304|consen 10 RPALPASKEALLKSYNKRLKDDIKSIMDNFTEIIKTAK 47 (148)
T ss_pred ccccHHHHHHHHHHHHHHHHHhHHHHHHhHHHHHHHHh
Confidence 3666666677788888888864 468899999998655
No 16
>PF12083 DUF3560: Domain of unknown function (DUF3560); InterPro: IPR021944 This presumed domain is functionally uncharacterised. This domain is found in bacteria. This domain is about 120 amino acids in length. This domain has a conserved GHHSE sequence motif.
Probab=30.22 E-value=1.3e+02 Score=30.60 Aligned_cols=66 Identities=24% Similarity=0.268 Sum_probs=49.7
Q ss_pred CCCCCCcccCcchHHHHHHHHHhhC--CchHHHHHHHH-----------hccccchhHHHHHHHHHHHHHHHHHHHhhH
Q 001681 600 KTDGPIRVEDHFTALNLRCIERLYG--DHGLDVMDVLR-----------KNASLALPVILTRLKQKQEEWARCRSDFNK 665 (1031)
Q Consensus 600 ~~~~~~~l~~~L~~i~~R~I~riYG--d~g~evi~~l~-----------knP~~alPvVL~RLKqK~eEW~~~r~e~nk 665 (1031)
-+..||.++-|+..=++|.++|+-. +++.+..+.-. ---..-.|.+|.||+.+..+.+..|+.+..
T Consensus 40 p~GQPIlVGHHSE~R~Rr~~eR~~~~m~kav~~~~kA~y~~~rA~aa~~~~i~~~~Pda~~ri~~~la~~r~~q~~mk~ 118 (126)
T PF12083_consen 40 PFGQPILVGHHSEKRHRRYRERIHNRMGKAVEAMDKAEYYEQRAAAAGRTAISSDDPDALRRIKKKLAELRASQRRMKA 118 (126)
T ss_pred CCCCCeeccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcchhccChHHHHHHHHHHHHHHHHHHHHHH
Confidence 3478999999999999999999987 45555443222 112234688899999999999999998854
No 17
>cd07347 harmonin_N_like N-terminal protein-binding module of harmonin and similar domains. This domain is found in harmonin, and similar proteins such as delphilin, and whirlin. These are postsynaptic density-95/discs-large/ZO-1 (PDZ) domain-containing scaffold proteins. Harmonin and whirlin are organizers of the Usher protein network of the inner ear and the retina, delphilin is found at the cerebellar parallel fiber-Purkinje cell synapses. This harmonin_N_like domain is found in either one or two copies. Harmonin contains a single copy, which is found at its N-terminus and binds specifically to a short internal peptide fragment of the cadherin 23 cytoplasmic domain; cadherin 23 is a component of the Usher protein network. Whirlin contains two copies of the harmonin_N_like domain; the first of these has been assayed for interaction with the cytoplasmic domain of cadherin 23 and no interaction could be detected.
Probab=28.72 E-value=1.7e+02 Score=27.38 Aligned_cols=61 Identities=16% Similarity=0.188 Sum_probs=50.2
Q ss_pred HhHHHHHHHHHH-HHHHHHHHHHHHhhhhcCCCHHHHHHHHHHhhcCC--hhHHHHHhhhccccc
Q 001681 352 ELSFCEKVKDKL-RDDYQEFLRCLHLYTKEIITRSELQSLVGDLLGRY--PDLMDGFNGFLARCE 413 (1031)
Q Consensus 352 ElaFFDKVKk~L-ke~Y~EFLKcLNLYSQeIIdr~ELv~lV~~fLG~~--PDLm~~FK~FLg~~e 413 (1031)
.-.|.++|..-| ..--+.|..+|+.|.++- +..+||.-+..+|-.. -.|+.+-..+|+..+
T Consensus 5 ~r~f~~q~~~LL~~~Er~~~~~~L~~Y~~~~-~Vd~LV~~L~~vLdtPaK~~Ll~~iR~lIp~~d 68 (78)
T cd07347 5 AREFSQQVDHLLTDAEREQVTRALERYHQER-NVDDLVRDLYLVLDTPAKLPLLQFLRQVIPPKD 68 (78)
T ss_pred HHHHHHHHHHHCCHHHHHHHHHHHHHHHhcC-CHHHHHHHHHHHcCcHhHHHHHHHHHHHcCHHH
Confidence 346889999999 666889999999999999 9999999999999642 268888888876543
No 18
>PF08785 Ku_PK_bind: Ku C terminal domain like; InterPro: IPR014893 The non-homologous end joining (NHEJ) pathway is one method by which double stranded breaks in chromosomal DNA are repaired. Ku is a component of a multi-protein complex that is involved in the NHEJ. Ku has affinity for DNA ends and recruits the DNA-dependent protein kinase catalytic subunit (DNA-PKcs). This domain is found at the C-terminal of Ku which binds to DNA-PKcs []. ; GO: 0016817 hydrolase activity, acting on acid anhydrides; PDB: 1RW2_A 1Q2Z_A 3ISM_C.
Probab=27.77 E-value=75 Score=31.48 Aligned_cols=36 Identities=25% Similarity=0.458 Sum_probs=27.6
Q ss_pred CCChhHHHHHHHHHHHHhc--cChhhHHHHHHHHHHHH
Q 001681 42 KLTTNDALAYLKAVKDIFQ--DKREKYDDFLEVMKDFK 77 (1031)
Q Consensus 42 ~l~~~dAlsYL~~VK~~F~--d~P~vY~~FLdIMkdfk 77 (1031)
...+.-|+..|..++..+. +.|+.||.||.-||+.-
T Consensus 40 ~~~y~kalecl~~lR~~~i~~~ep~~yN~Fl~~LK~~~ 77 (120)
T PF08785_consen 40 DQNYDKALECLRALREECIEEEEPDEYNDFLRKLKKKL 77 (120)
T ss_dssp CHHHHHHHHHHHHHHHHHHHHT-CHHHHHHHHHHHHHH
T ss_pred cchHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHH
Confidence 3456778888888888876 57889999988888754
No 19
>PF08349 DUF1722: Protein of unknown function (DUF1722); InterPro: IPR013560 This domain of unknown function is found in bacteria and archaea and is homologous to the hypothetical protein ybgA from Escherichia coli.
Probab=27.55 E-value=1.1e+02 Score=29.98 Aligned_cols=48 Identities=31% Similarity=0.407 Sum_probs=40.8
Q ss_pred hHHHHHHHHHH-HHHHHHHHHHHHhhhhcCCCHHHHHHHHHHhhcCChh
Q 001681 353 LSFCEKVKDKL-RDDYQEFLRCLHLYTKEIITRSELQSLVGDLLGRYPD 400 (1031)
Q Consensus 353 laFFDKVKk~L-ke~Y~EFLKcLNLYSQeIIdr~ELv~lV~~fLG~~PD 400 (1031)
...|.-.|+.+ .+-=++|+++|..|.++.|+...++.+...++.++++
T Consensus 56 ~Hi~Gyfk~~ls~~EK~~~~~~i~~yr~g~i~l~~~l~~L~~~~~ry~~ 104 (117)
T PF08349_consen 56 QHIFGYFKKKLSSEEKQHFLDLIEDYREGKIPLSVPLTLLKHLARRYPD 104 (117)
T ss_pred HHHHHHHHHhCCHHHHHHHHHHHHHHHcCCccHHHHHHHHHHHHHHCCC
Confidence 34555568888 7778899999999999999999999999999988753
No 20
>PF11186 DUF2972: Protein of unknown function (DUF2972); InterPro: IPR021353 Some members in this family of proteins with unknown function are annotated as sugar transferase proteins, however this cannot be confirmed.
Probab=25.69 E-value=1.5e+02 Score=32.06 Aligned_cols=57 Identities=18% Similarity=0.294 Sum_probs=47.4
Q ss_pred hHhHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCHHHHHHHHHHhhcCChhHHHHHhhhccc
Q 001681 351 QELSFCEKVKDKLRDDYQEFLRCLHLYTKEIITRSELQSLVGDLLGRYPDLMDGFNGFLAR 411 (1031)
Q Consensus 351 eElaFFDKVKk~Lke~Y~EFLKcLNLYSQeIIdr~ELv~lV~~fLG~~PDLm~~FK~FLg~ 411 (1031)
+.-.+|.+||.+|......+-+-++......|+-.++++ +|..|++|...||..|-+
T Consensus 113 ~n~~l~~~ik~YL~~fi~~L~~~i~~~~~k~i~E~diL~----ylk~nk~l~~k~K~ilD~ 169 (199)
T PF11186_consen 113 NNNKLFKKIKKYLNKFIKALEKQIKIEKKKLIKEKDILE----YLKNNKDLRRKFKKILDK 169 (199)
T ss_pred hCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHH----HHHhCHHHHHHHHHHHHH
Confidence 445789999999966677777777888888999888765 889999999999999954
No 21
>COG5324 Uncharacterized conserved protein [Function unknown]
Probab=24.57 E-value=1e+02 Score=37.77 Aligned_cols=128 Identities=20% Similarity=0.274 Sum_probs=73.3
Q ss_pred cchhhHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCcccCcchHH------HHHHHHHhhCCchH--------HHHHH
Q 001681 568 DDRFELDMLLESVNVTTKRVEELLEKINNNTIKTDGPIRVEDHFTAL------NLRCIERLYGDHGL--------DVMDV 633 (1031)
Q Consensus 568 DER~E~D~~IE~~~~tI~~Le~l~~~i~~~~~~~~~~~~l~~~L~~i------~~R~I~riYGd~g~--------evi~~ 633 (1031)
|+..|+|.+|.++..|-+.+..+-+.|-..-++..+ ++...+- |.-..++++|.... |+|++
T Consensus 523 d~~ield~~~~sl~nar~i~n~~~k~~p~lip~~p~----ddd~~~a~~~a~ey~pt~rk~~gn~~kkik~~itae~i~~ 598 (758)
T COG5324 523 DDIIELDPLIGSLENARRIVNYFKKNIPELIPNDPS----DDDYAAALNYAVEYVPTYRKTFGNDSKKIKNKITAEGITG 598 (758)
T ss_pred cceeecccccchhhhHHHHHHHHHhhCccccCCCCC----chHHHHHHhhhhhcCchhhhhhCCchHHhhhheehhhccc
Confidence 677899999999988888777776666544433222 2222222 33346677774322 33433
Q ss_pred HH---hccccchhHHHHHHHHHHHHHHHHHHHhhHHHHHHHHH-------------hhhhhcccCCcccccccccccchh
Q 001681 634 LR---KNASLALPVILTRLKQKQEEWARCRSDFNKVWAEIYSK-------------NYHKSLDHRSFYFKQQDSKSLGAK 697 (1031)
Q Consensus 634 l~---knP~~alPvVL~RLKqK~eEW~~~r~e~nkvWrev~~K-------------Ny~KSLDHrs~~FKq~DkK~ls~K 697 (1031)
.. +....-.-++|.| |.-.-.+...-.+.|+.|.+...+ |-.|+-..|...-|..||-+++..
T Consensus 599 ~~~c~~~~~~~f~~ll~~-k~~~~sl~~vlt~a~~~wq~~~~ryt~q~s~~~~~i~~sq~~~n~q~~~~k~t~km~fri~ 677 (758)
T COG5324 599 SSTCFKKAPRYFGVLLDR-KTVESSLVQVLTIANLQWQEAFSRYTLQDSFHITMIHESQKPVNSQHMHDKNTTKMGFRIT 677 (758)
T ss_pred hHHHHHHhHHHHHHHhhh-hhHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhccCCCcccccccccccccceeEE
Confidence 22 3333334455552 333333444556889999987665 334566666666666666666555
Q ss_pred hhH
Q 001681 698 ALS 700 (1031)
Q Consensus 698 ~Ll 700 (1031)
+|+
T Consensus 678 ~l~ 680 (758)
T COG5324 678 HLV 680 (758)
T ss_pred EEe
Confidence 444
No 22
>PRK14981 DNA-directed RNA polymerase subunit F; Provisional
Probab=24.54 E-value=6.4e+02 Score=24.92 Aligned_cols=100 Identities=18% Similarity=0.262 Sum_probs=69.1
Q ss_pred CCCCChhHHHHHHHHHHHHhccChhhHHHHHHHHHHHHhcCCChhHHHHHHHHHhhc---ChhHHHHhhhcCCCCccccC
Q 001681 40 AQKLTTNDALAYLKAVKDIFQDKREKYDDFLEVMKDFKAQRIDTAGVIARVKELFKG---HRDLILGFNTFLPKGYEITL 116 (1031)
Q Consensus 40 ~~~l~~~dAlsYL~~VK~~F~d~P~vY~~FLdIMkdfk~q~idt~gVi~rV~~LFkg---HpdLI~GFN~FLP~gy~I~~ 116 (1031)
...++...|...|.++...- .-..+++.-|+-+..|.. ++.....+-|.+|+.- |+.-+.-.-..+|
T Consensus 9 e~~lt~sEa~~iL~~~~~~~-els~~~~ktl~y~~kFsk--~~~e~a~elve~L~~~~~l~e~~a~~I~nL~P------- 78 (112)
T PRK14981 9 EEYITIAEAKEILSEIEEER-ELSYELRRTLDYLNRFSK--LDPEDAEELVEELLELEKMKEKTAVKIADILP------- 78 (112)
T ss_pred cccccHHHHHHHHHHHHhcc-chhHHHHHHHHHHHHHhC--CCHHHHHHHHHHHHHccCCCHHHHHHHHhcCC-------
Confidence 35688999999999877643 445688888888888865 4555555555555432 3343443444444
Q ss_pred CCCCCCCCCCCCcchHHHHHHHHHHHhhcCCChHHHHHHHHHHHhhh
Q 001681 117 PLEDEQPPPKKPVEFEEAINFVNKIKTRFQGDDHVYKSFLDILNMYR 163 (1031)
Q Consensus 117 ~~~de~~p~k~~vef~~Ai~FvnKVK~RF~~~pevYk~FLeIL~~y~ 163 (1031)
.+.+++..++-+.+.+| .++..++.|++|..|.
T Consensus 79 ------------~~~dElrai~~~~~~~~--~~e~l~~ILd~l~k~~ 111 (112)
T PRK14981 79 ------------ETRDELRAIFAKERYTL--SPEELDEILDIVKKYR 111 (112)
T ss_pred ------------CCHHHHHHHHHHhccCC--CHHHHHHHHHHHHHhh
Confidence 25778999999886665 5688999999999884
No 23
>PF15011 CK2S: Casein Kinase 2 substrate
Probab=22.91 E-value=3.4e+02 Score=28.67 Aligned_cols=45 Identities=22% Similarity=0.452 Sum_probs=35.9
Q ss_pred HHHHHHHHhccccchhHHHHHHHHHHHHHHHHHHHhhHHHHHHHH
Q 001681 628 LDVMDVLRKNASLALPVILTRLKQKQEEWARCRSDFNKVWAEIYS 672 (1031)
Q Consensus 628 ~evi~~l~knP~~alPvVL~RLKqK~eEW~~~r~e~nkvWrev~~ 672 (1031)
.++-+.|...-..++=.||.+|+++.++...++..+.+.++++..
T Consensus 55 pdl~~rL~~Kq~~ale~vl~~L~e~l~~l~~v~~~l~~~~~~~~~ 99 (168)
T PF15011_consen 55 PDLQERLRRKQLEALETVLAKLRETLEELQKVRDSLSRQVRDVFQ 99 (168)
T ss_pred ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345555555555677889999999999999999999999888743
No 24
>PF11554 DUF3232: Protein of unknown function (DUF3232); InterPro: IPR021618 This bacterial family of proteins has no known function. ; PDB: 2RDC_A.
Probab=22.78 E-value=2.2e+02 Score=29.69 Aligned_cols=109 Identities=19% Similarity=0.289 Sum_probs=68.0
Q ss_pred HHHHHHHhhC-C-chHHHHHHHHhccccchhHHHH--------HHHHHHHHHHHHHHHhhHHHHHHHHHhhhhhcccCCc
Q 001681 615 NLRCIERLYG-D-HGLDVMDVLRKNASLALPVILT--------RLKQKQEEWARCRSDFNKVWAEIYSKNYHKSLDHRSF 684 (1031)
Q Consensus 615 ~~R~I~riYG-d-~g~evi~~l~knP~~alPvVL~--------RLKqK~eEW~~~r~e~nkvWrev~~KNy~KSLDHrs~ 684 (1031)
|+++|. +|+ | .+++||+.+..+-..=+-+|+. |.+--.+|+|.+-.++.+.-+.+
T Consensus 26 f~~v~~-~~~~D~~~l~liE~~ids~~~Y~~~V~~mE~~l~t~rfrlegeeYRd~vE~LDr~Rtna-------------- 90 (152)
T PF11554_consen 26 FKRVIS-ITKDDEDALDLIEELIDSFKEYVLIVYRMEDQLQTWRFRLEGEEYRDLVEELDRTRTNA-------------- 90 (152)
T ss_dssp HHHHHH-HHTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCTS-HHHHHHHHHHHHHHHHHH--------------
T ss_pred HHHHHH-HhcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHH--------------
Confidence 566664 554 4 7888998888877776666664 33444567777777776533333
Q ss_pred ccccccccccchhhhHHHHHHHHHHhhhhhhHHH--HHHhcCCCCCCCCceeecCChhHHHHHHHHHHHHhcCCCCh
Q 001681 685 YFKQQDSKSLGAKALSAEIKEISEKKRKEDDVLL--AIAAGNRRSIVPHLEFEYSDPDIHEDLYQLIKYSCGEMCTT 759 (1031)
Q Consensus 685 ~FKq~DkK~ls~K~Ll~EIk~i~e~k~~e~d~l~--~~a~g~~~p~~p~l~f~y~D~~I~~D~~~LI~y~~~~~~ss 759 (1031)
--++++.|+-++.--.++....+ +.-+|+ .++.+++-++.-.|+.|+|+.+|..
T Consensus 91 -----------H~a~ISd~kIlNR~aek~~~~~l~~a~f~Gn----------~e~r~evaef~~aIvdf~ge~~~~i 146 (152)
T PF11554_consen 91 -----------HNAAISDCKILNRMAEKENQEPLSEAGFQGN----------IEDRPEVAEFCQAIVDFCGELLCTI 146 (152)
T ss_dssp -----------HHHHHHHHHHHHHHHHHHHHHHHHHTT-TTT----------TSS-STTTT-HHHHHHHHHHHHHHH
T ss_pred -----------HHHHHHHHHHHHHHHHHcCCcccccccccCC----------CCCChhHHHHHHHHHHHhhhhHHHH
Confidence 23678888888765444433333 223444 3556788888999999999888876
No 25
>PF09357 RteC: RteC protein; InterPro: IPR018534 Human colonic Bacteroides species harbour a family of large conjugative transposons, called tetracycline resistance (Tcr) elements. Activities of these elements are enhanced by pregrowth of bacteria in medium containing tetracycline, indicating that at least some Tcr element genes are regulated by tetracycline. An insertional disruption in the rteC gene abolished self-transfer of the Tcr element to Bacteroides recipients, indicating that the gene was essential for self-transfer [].
Probab=22.55 E-value=9.5e+02 Score=26.52 Aligned_cols=141 Identities=18% Similarity=0.212 Sum_probs=81.8
Q ss_pred HHHHHHHhccccchhHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhhhh----cccCCccccccccc------------
Q 001681 629 DVMDVLRKNASLALPVILTRLKQKQEEWARCRSDFNKVWAEIYSKNYHKS----LDHRSFYFKQQDSK------------ 692 (1031)
Q Consensus 629 evi~~l~knP~~alPvVL~RLKqK~eEW~~~r~e~nkvWrev~~KNy~KS----LDHrs~~FKq~DkK------------ 692 (1031)
+|.......|...+-+..+-+.++..++.+.=.. ...-=.||+| |||+-|.=...|.+
T Consensus 19 ~iy~ie~~~p~g~~~~~~~y~~~el~~l~~~f~~------n~~fy~Yyrs~~t~lD~~yF~R~~~~~~~~~~~~~~~~D~ 92 (218)
T PF09357_consen 19 KIYRIETNKPNGSLEAQKKYFEKELKKLKRFFDD------NLDFYQYYRSGATHLDEYYFVRGKYDLKLCLDSFYFEKDP 92 (218)
T ss_pred HHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHh------HHHHHHHHHhCCccccHhhhccCCCcccccccchhhccCc
Confidence 5667778899888999999999888887665444 3344456665 77776665566655
Q ss_pred --ccchhhhHHHHHHHHHHhhhhhhHHHHHHhc----CCCCCCCCceeecCChhHHHHHHHHHHHHhcCCCCh-HHHHHH
Q 001681 693 --SLGAKALSAEIKEISEKKRKEDDVLLAIAAG----NRRSIVPHLEFEYSDPDIHEDLYQLIKYSCGEMCTT-EQLDKV 765 (1031)
Q Consensus 693 --~ls~K~Ll~EIk~i~e~k~~e~d~l~~~a~g----~~~p~~p~l~f~y~D~~I~~D~~~LI~y~~~~~~ss-e~~~ki 765 (1031)
+.+--.+|+.|.+-..-..--.+.+..+..+ ......+-|.|+=+-.++.+=+|.| |+++..... -++..|
T Consensus 93 ~FsT~~D~~vAki~A~e~L~~yl~~~l~~l~~~~~~~~~~~~~~~l~WTgsk~~LiELiYaL--~~~g~in~G~~~i~~i 170 (218)
T PF09357_consen 93 SFSTSHDYKVAKIIANELLQVYLNKELENLENKDNKPTSPSPKSKLKWTGSKTDLIELIYAL--YASGCINNGNADIKEI 170 (218)
T ss_pred hhhhhHHhhhhhhhhhhHhHHHHHHHHHHhhcccccccccCCCCCccccchHHHHHHHHHHH--HHcCCcCCCccCHHHH
Confidence 4444667787754211111111112222111 1112234566665555566666655 556554443 455566
Q ss_pred HHHHHHhhhhccCCCC
Q 001681 766 MKIWTTFLEPMLGVPS 781 (1031)
Q Consensus 766 ~~~~~~Fl~~ff~i~~ 781 (1031)
+. +++.+|+|..
T Consensus 171 ~~----~fe~~F~i~l 182 (218)
T PF09357_consen 171 AR----FFEKLFNIDL 182 (218)
T ss_pred HH----HHHHHhCCCc
Confidence 64 7778888875
No 26
>KOG4098 consensus Molecular chaperone Prefoldin, subunit 2 [Posttranslational modification, protein turnover, chaperones]
Probab=21.73 E-value=1.8e+02 Score=29.87 Aligned_cols=50 Identities=20% Similarity=0.383 Sum_probs=36.1
Q ss_pred HHHHHHHhhC---C-chHHHHHHHHh---ccccchhHHHHHHHHHHHHHHHHHHHhh
Q 001681 615 NLRCIERLYG---D-HGLDVMDVLRK---NASLALPVILTRLKQKQEEWARCRSDFN 664 (1031)
Q Consensus 615 ~~R~I~riYG---d-~g~evi~~l~k---nP~~alPvVL~RLKqK~eEW~~~r~e~n 664 (1031)
.++|.+.|=| + .--+||-.|.. |-..++--+..-|.||-.|+..++.+-|
T Consensus 61 ~RKCfRmIgGvLVErTVkeVlP~L~~nke~i~~~i~~l~~qL~~k~kElnkfk~~hk 117 (140)
T KOG4098|consen 61 TRKCFRMIGGVLVERTVKEVLPILQTNKENIEKVIKKLTDQLVQKGKELNKFKKDHK 117 (140)
T ss_pred hhHHHHHhccchhhhhHHHHhHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 4788888888 3 34467777765 4566777788888888888877776544
No 27
>PF03556 Cullin_binding: Cullin binding; InterPro: IPR005176 The eukaryotic defective in cullin neddylation (DCN) protein family, may contribute to neddylation of cullin components of SCF-type E3 ubiquitin ligase complexes. These multi-protein complexes are required for polyubiquitination and subsequent degradation of target proteins by the 26S proteasome []. Proteins in the DCN family include: Yeast DCN1. Vertebrate DCN1-like protein 1. Vertebrate DCN1-like protein 2. Vertebrate DCN1-like protein 4. This entry represents a domain found within DCN family proteins. Its function is unknown but it has been suggested that it has the features of a basic helix-loop-helix leucine zipper (bHLH-ZIP) domain [].It is often found in association with a UBA-like domain (IPR009060 from INTERPRO).; PDB: 3TDI_A 2IS9_A 3O6B_E 3O2P_A 3BQ3_A 3TDZ_A 3TDU_B.
Probab=21.63 E-value=1.5e+02 Score=29.55 Aligned_cols=65 Identities=14% Similarity=0.293 Sum_probs=53.5
Q ss_pred HHHHHHHHHHhhcCCChHHHHHHHHHHHhhhh----cCCCHHHHHHHHHHHhccC-hhHHHHHchhCCCC
Q 001681 133 EAINFVNKIKTRFQGDDHVYKSFLDILNMYRK----ENKSITEVYQEVEALFQDH-PDLLEEFTHFLPDS 197 (1031)
Q Consensus 133 ~Ai~FvnKVK~RF~~~pevYk~FLeIL~~y~~----~~~si~eV~~~V~~LF~~h-PDLL~eF~~FLP~~ 197 (1031)
.-.++|..+...+..+++.+++|-.-.=.|.+ ..++++..++.-.-||.++ +.+++.|..||-..
T Consensus 3 ~lk~~l~~l~~~l~~d~~~F~~~Y~f~F~~~~~~~qr~l~~e~Ai~~W~llf~~~~~~~l~~w~~Fl~~~ 72 (117)
T PF03556_consen 3 KLKQKLPELRKELRSDPEYFKKFYRFTFDFAREEGQRSLPLETAIAYWRLLFSGRFFPLLDSWIEFLEEK 72 (117)
T ss_dssp HHHHCHHHHHHHCCHSHHHHHHHHHHHHHHHS-TT-SSEEHHHHHHHHHHHTTTTSSCCHHHHHHHHHHC
T ss_pred HHHHHHHHHHHHHccCHHHHHHHHHHHHHHhCCcccCCCCHHHHHHHHHHHcCCCCcHHHHHHHHHHHHc
Confidence 34568889999999889999999988877754 3567788888899999988 89999999999543
No 28
>PF02520 DUF148: Domain of unknown function DUF148; InterPro: IPR003677 This entry represents the domain DUF148, which has no known function.
Probab=21.32 E-value=4.1e+02 Score=25.76 Aligned_cols=98 Identities=12% Similarity=0.269 Sum_probs=68.9
Q ss_pred HHHHHHHHHHHhcCCChhHHHHHHHHHhhcChhHHHHhhhcCCCCccccCCCCCCCCCCCCCcchHHHHHHHHHHHhhcC
Q 001681 67 DDFLEVMKDFKAQRIDTAGVIARVKELFKGHRDLILGFNTFLPKGYEITLPLEDEQPPPKKPVEFEEAINFVNKIKTRFQ 146 (1031)
Q Consensus 67 ~~FLdIMkdfk~q~idt~gVi~rV~~LFkgHpdLI~GFN~FLP~gy~I~~~~~de~~p~k~~vef~~Ai~FvnKVK~RF~ 146 (1031)
.+|-.|+.+ ..+...++-.+|..+-..|. +-..|+.|.-.- ...... +...+..-..
T Consensus 5 ~ef~~I~~n---~~lt~~e~~~~l~~Wa~~~~-v~~~~~~f~~~~----------------~~~~~~---~~~~~~~vi~ 61 (113)
T PF02520_consen 5 KEFFQIFQN---PNLTKAEIEEQLDEWAEKYG-VQDQYNEFKAQV----------------QAQKEE---VRKNVTAVIS 61 (113)
T ss_pred HHHHHHHcC---CCCCHHHHHHHHHHHHHHCC-cHHHHHHHHHHH----------------HHHHHH---HHHHHHHHHH
Confidence 468888875 67888999999999999887 555566654210 001112 2233333333
Q ss_pred CChHHHHHHHHHHHhhhhcCCCHHHHHHHHHHHhccChhHHHHH
Q 001681 147 GDDHVYKSFLDILNMYRKENKSITEVYQEVEALFQDHPDLLEEF 190 (1031)
Q Consensus 147 ~~pevYk~FLeIL~~y~~~~~si~eV~~~V~~LF~~hPDLL~eF 190 (1031)
+=|.+|.++-.|+. +...+..+..+.|..|+..+|.-+..+
T Consensus 62 ~L~~a~~~l~~I~~---n~~lT~~q~~~~I~~l~~~~~~e~~~l 102 (113)
T PF02520_consen 62 NLSSAFAKLSAILD---NKSLTRQQQQEAIDALRKQYPEEVDTL 102 (113)
T ss_pred HHHHHHHHHHHHHc---CcccCHHHHHHHHHHHHHHCCHHHHHH
Confidence 44689999999997 578899999999999999998875554
No 29
>PF12238 MSA-2c: Merozoite surface antigen 2c; InterPro: IPR021060 This family of proteins are restricted to the apicomplexan Babesia bovis. Proteins in this entry are typically between 263 and 318 amino acids in length and plasma membrane glycoproteins. These antigens present on the merozoite surface (MSA) and are involved in the parasite invasion of the bovine erythrocyte. MSA-2c has been suggested as a possible antigen for a vaccine candidate [].
Probab=21.19 E-value=1.1e+03 Score=25.94 Aligned_cols=127 Identities=19% Similarity=0.328 Sum_probs=74.8
Q ss_pred ChhHHHHHHHHHHHHhccChh-hHHHHHH-HHHHHHhcCCC--hhHHHHHHHHHhhcChhHHHHhhhcCCCCccccCCCC
Q 001681 44 TTNDALAYLKAVKDIFQDKRE-KYDDFLE-VMKDFKAQRID--TAGVIARVKELFKGHRDLILGFNTFLPKGYEITLPLE 119 (1031)
Q Consensus 44 ~~~dAlsYL~~VK~~F~d~P~-vY~~FLd-IMkdfk~q~id--t~gVi~rV~~LFkgHpdLI~GFN~FLP~gy~I~~~~~ 119 (1031)
.+.||+.+|.+|++-|.++|- .=.-|=+ ++..|..|..+ ..-++.+|..+++ -|.-||.||=. .-..+
T Consensus 7 ~~~d~~~~l~~v~~~iK~~~pf~t~lFd~~~~~~~s~q~~ee~F~~l~~sV~~m~~----~i~~~n~fl~~-~~~~~--- 78 (205)
T PF12238_consen 7 SSKDALKALKKVLDLIKENPPFKTSLFDETVLSNLSGQSDEEKFKSLFDSVPLMKH----KISHMNAFLND-WPPHM--- 78 (205)
T ss_pred hhHHHHHHHHHHHHHHccCCCCchhhhhHHHHHhcccCCHHHHHHHHHHHHHHHHH----HHHHHHHHHcc-Cchhh---
Confidence 468999999999999997665 4455544 44555544432 2456778877765 68899999961 11000
Q ss_pred CCCCCCCCCcchHHHHHHHHHHHhhcCCChHH--HHHHHHHHHhhhhcCCCHHHHHHHHHHHhccChhHHHHHchhCCCC
Q 001681 120 DEQPPPKKPVEFEEAINFVNKIKTRFQGDDHV--YKSFLDILNMYRKENKSITEVYQEVEALFQDHPDLLEEFTHFLPDS 197 (1031)
Q Consensus 120 de~~p~k~~vef~~Ai~FvnKVK~RF~~~pev--Yk~FLeIL~~y~~~~~si~eV~~~V~~LF~~hPDLL~eF~~FLP~~ 197 (1031)
-.-.-.++..|..| .-+..+-++ |+....+.++|-...-..--+| .-+..|..|+...
T Consensus 79 -------~~~~~~~~~~YyKk--hIy~~d~~v~d~~~lv~~ck~Fl~~~s~f~~l~-----------~~~~~f~elVkk~ 138 (205)
T PF12238_consen 79 -------LEEGREKMTKYYKK--HIYKEDSEVKDYNGLVKFCKDFLDSESPFMKLY-----------KAFNTFEELVKKK 138 (205)
T ss_pred -------hhccHHHHHHHHHH--hccCcccccccHHHHHHHHHHHhccccHHHHHH-----------HHHHHHHHHhhhc
Confidence 00123455556543 223344453 7777888888866554433333 2235666666544
Q ss_pred C
Q 001681 198 S 198 (1031)
Q Consensus 198 ~ 198 (1031)
.
T Consensus 139 p 139 (205)
T PF12238_consen 139 P 139 (205)
T ss_pred c
Confidence 3
No 30
>cd08332 CARD_CASP2 Caspase activation and recruitment domain of Caspase-2. Caspase activation and recruitment domain (CARD) similar to that found in caspase-2. Caspases are aspartate-specific cysteine proteases with functions in apoptosis and immune signaling. Caspase-2 (also known as ICH1, NEDD2, or CASP2) is one of the most evolutionarily conserved caspases, and plays a role in apoptosis, DNA damage response, cell cycle regulation, and tumor suppression. It is localized in the nucleus and exhibits properties of both an initiator and an effector caspase. In general, CARDs are death domains (DDs) found associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation, and host-defense mechanisms. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including PYRIN and
Probab=20.67 E-value=1.5e+02 Score=28.17 Aligned_cols=30 Identities=17% Similarity=0.448 Sum_probs=26.9
Q ss_pred cchHHHHHHHHHHHhhcCCChHHHHHHHHHHHh
Q 001681 129 VEFEEAINFVNKIKTRFQGDDHVYKSFLDILNM 161 (1031)
Q Consensus 129 vef~~Ai~FvnKVK~RF~~~pevYk~FLeIL~~ 161 (1031)
...+.+..+++.+..| .|..|..|+++|+.
T Consensus 48 t~~~k~~~Lld~L~~R---G~~AF~~F~~aL~~ 77 (90)
T cd08332 48 TSFSQNVALLNLLPKR---GPRAFSAFCEALRE 77 (90)
T ss_pred CcHHHHHHHHHHHHHh---ChhHHHHHHHHHHh
Confidence 4678899999999998 78999999999974
No 31
>PF08424 NRDE-2: NRDE-2, necessary for RNA interference; InterPro: IPR013633 This is domain is found in eukaryotic proteins of unknown function.
Probab=20.15 E-value=3.7e+02 Score=30.82 Aligned_cols=135 Identities=19% Similarity=0.323 Sum_probs=77.1
Q ss_pred HHHhccccchhHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhh-hhcccCCcccccccccccchhhhHHHHHHHHHHhh
Q 001681 633 VLRKNASLALPVILTRLKQKQEEWARCRSDFNKVWAEIYSKNYH-KSLDHRSFYFKQQDSKSLGAKALSAEIKEISEKKR 711 (1031)
Q Consensus 633 ~l~knP~~alPvVL~RLKqK~eEW~~~r~e~nkvWrev~~KNy~-KSLDHrs~~FKq~DkK~ls~K~Ll~EIk~i~e~k~ 711 (1031)
+|..|| ...=++|..|+.-.+-| -...+.+.|++++.+|-. -.|=..-+.|.|.+-..++. .++..++.+.-
T Consensus 57 AL~~np-~~~~L~l~~l~~~~~~~--~~~~l~~~we~~l~~~~~~~~LW~~yL~~~q~~~~~f~v----~~~~~~y~~~l 129 (321)
T PF08424_consen 57 ALKHNP-DSERLLLGYLEEGEKVW--DSEKLAKKWEELLFKNPGSPELWREYLDFRQSNFASFTV----SDVRDVYEKCL 129 (321)
T ss_pred HHHhCC-CCHHHHHHHHHHHHHhC--CHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHhccCcH----HHHHHHHHHHH
Confidence 356677 66677888888888888 445677889999888531 12222334566776555554 45555555432
Q ss_pred hhhhHHHHHHhcCCCCCCCCceeecCChhHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHhhhhccCCCCCCC
Q 001681 712 KEDDVLLAIAAGNRRSIVPHLEFEYSDPDIHEDLYQLIKYSCGEMCTTEQLDKVMKIWTTFLEPMLGVPSRPQ 784 (1031)
Q Consensus 712 ~e~d~l~~~a~g~~~p~~p~l~f~y~D~~I~~D~~~LI~y~~~~~~sse~~~ki~~~~~~Fl~~ff~i~~r~~ 784 (1031)
..|.....|. ...| -.-..+-..++.|+...|.-...+-..++...+|...|+.=|+.|....
T Consensus 130 ---~~L~~~~~~~---~~~~----~~~~~~e~~~l~v~~r~~~fl~~aG~~E~Ava~~Qa~lE~n~~~P~~~~ 192 (321)
T PF08424_consen 130 ---RALSRRRSGR---MTSH----PDLPELEEFMLYVFLRLCRFLRQAGYTERAVALWQALLEFNFFRPESLS 192 (321)
T ss_pred ---HHHHHhhccc---cccc----cchhhHHHHHHHHHHHHHHHHHHCCchHHHHHHHHHHHHHHcCCccccc
Confidence 1122222222 1111 1122334445555544454333334556899999999998888775543
No 32
>PF00611 FCH: Fes/CIP4, and EFC/F-BAR homology domain; InterPro: IPR001060 The FCH domain is a short conserved region of around 60 amino acids first described as a region of homology between FER and CIP4 proteins []. Many proteins containing an FCH domain are involved in the regulation of cytoskeletal rearrangements, vesicular transport and endocytosis. In the CIP4 protein the FCH domain binds to microtubules []. The FCH domain is always found N-terminally and is followed by a coiled-coil region. Proteins containing an FCH domain can be divided in 3 classes []: A subfamily of protein kinases usually associated with an SH2 domain: Fps/fes (Fujimani poultry sarcoma/feline sarcoma) proto-oncogenes. They are non-receptor protein-tyrosine kinases preferentially expressed in myeloid lineage. The viral oncogene has an unregulated kinase activity which abrogates the need for cytokines and influences differentiation of haematopoietic progenitor cells. Fes related protein (fer). It is an ubiquitously expressed homologue of Fes. Adaptor proteins usually associated with a C-terminal SH3 domain: Schizosaccharomyces pombe CDC15 protein. It mediates cytoskeletal rearrangements required for cytokinesis. It is essential for viability. CD2 cytoplasmic domain binding protein. Mammalian Cdc42-interacting protein 4 (CIP4). It may act as a link between Cdc42 signaling and regulation of the actin cytoskeleton. Mammalian PACSIN proteins. A family of cytoplasmic phosphoproteins playing a role in vesicle formation and transport. A subfamily of Rho-GAP proteins: Mammalian RhoGAP4 proteins. They may down-regulate Rho-like GTPases in hematopoietic cells. Yeast hypothetical protein YBR260C. Caenorhabditis elegans hypothetical protein ZK669.1. ; PDB: 2EFK_A 2EFL_A 2X3W_A 2X3X_C 2X3V_C 3I2W_A 3ABH_B 3Q0K_B 3HAJ_A 3ACO_B ....
Probab=20.06 E-value=3.4e+02 Score=24.40 Aligned_cols=50 Identities=26% Similarity=0.283 Sum_probs=41.1
Q ss_pred cchhHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhhhhcccCCcccccccc
Q 001681 640 LALPVILTRLKQKQEEWARCRSDFNKVWAEIYSKNYHKSLDHRSFYFKQQDS 691 (1031)
Q Consensus 640 ~alPvVL~RLKqK~eEW~~~r~e~nkvWrev~~KNy~KSLDHrs~~FKq~Dk 691 (1031)
..+++|++|+++-...-.....-+.+ |..+++.|.|+|-.-+-.+.....
T Consensus 9 ~g~~~l~~~~~~~~~~~~~l~~~~ke--Ra~lE~~Yak~L~kl~~~~~~~~~ 58 (91)
T PF00611_consen 9 DGFEVLFKRLKQGIKLLEELASFFKE--RASLEEEYAKSLQKLAKKFKKKMK 58 (91)
T ss_dssp CTTHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHhcccc
Confidence 57889999999998888888887877 778899999999887777775554
Done!