Query 001958
Match_columns 991
No_of_seqs 247 out of 633
Neff 3.9
Searched_HMMs 46136
Date Thu Mar 28 13:16:10 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/001958.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/001958hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1861 Leucine permease trans 100.0 4.1E-98 9E-103 823.7 31.9 446 465-989 58-525 (540)
2 PF03399 SAC3_GANP: SAC3/GANP/ 100.0 3.7E-49 8E-54 395.4 18.0 194 743-937 2-204 (204)
3 KOG1860 Nuclear protein export 100.0 2E-39 4.4E-44 380.3 18.9 225 733-976 144-422 (927)
4 COG5079 SAC3 Nuclear protein e 100.0 6E-39 1.3E-43 357.5 18.0 226 734-978 113-385 (646)
5 KOG3151 26S proteasome regulat 99.6 2.2E-14 4.8E-19 150.6 16.8 162 792-970 54-222 (260)
6 PF10075 PCI_Csn8: COP9 signal 99.2 1.6E-10 3.4E-15 112.7 10.1 121 832-970 3-126 (143)
7 KOG3252 Uncharacterized conser 96.8 0.011 2.3E-07 62.1 10.9 124 836-978 64-187 (217)
8 PF01399 PCI: PCI domain; Int 95.5 0.049 1.1E-06 49.2 7.4 66 874-940 4-75 (105)
9 KOG1861 Leucine permease trans 94.8 0.0072 1.6E-07 70.3 -0.2 88 390-481 62-149 (540)
10 KOG2908 26S proteasome regulat 93.4 9.6 0.00021 44.1 20.3 148 792-940 113-309 (380)
11 KOG0687 26S proteasome regulat 93.0 2.8 6E-05 48.1 15.3 167 793-972 140-352 (393)
12 KOG4414 COP9 signalosome, subu 90.9 2.5 5.4E-05 43.7 10.9 137 814-969 20-160 (197)
13 COG5187 RPN7 26S proteasome re 90.2 3.6 7.8E-05 46.7 12.3 147 791-938 149-344 (412)
14 KOG1464 COP9 signalosome, subu 83.5 5.6 0.00012 45.0 9.1 126 811-940 245-379 (440)
15 smart00753 PAM PCI/PINT associ 80.9 3 6.6E-05 37.4 5.0 37 903-940 3-39 (88)
16 smart00088 PINT motif in prote 80.9 3 6.6E-05 37.4 5.0 37 903-940 3-39 (88)
17 KOG1076 Translation initiation 77.6 49 0.0011 41.6 14.9 69 871-940 655-733 (843)
18 KOG2581 26S proteasome regulat 76.7 43 0.00094 39.9 13.6 71 869-940 317-392 (493)
19 KOG1498 26S proteasome regulat 56.2 2.2E+02 0.0047 34.2 13.8 169 767-940 169-368 (439)
20 KOG2753 Uncharacterized conser 49.3 3.1E+02 0.0066 32.4 13.3 160 767-940 145-309 (378)
21 PF01756 ACOX: Acyl-CoA oxidas 47.3 1.1E+02 0.0024 31.7 9.0 139 748-898 1-168 (187)
22 KOG2422 Uncharacterized conser 47.0 2.1E+02 0.0046 35.8 12.2 146 789-938 279-463 (665)
23 PF14782 BBS2_C: Ciliary BBSom 43.1 1.7E+02 0.0036 35.2 10.6 75 807-893 350-431 (431)
24 PF09759 Atx10homo_assoc: Spin 40.6 39 0.00085 32.9 4.2 73 894-982 29-102 (102)
25 KOG2582 COP9 signalosome, subu 39.7 3.7E+02 0.0081 32.1 12.3 41 720-765 95-135 (422)
26 KOG0260 RNA polymerase II, lar 39.0 9.5E+02 0.021 32.9 16.5 23 3-26 1355-1377(1605)
27 KOG2003 TPR repeat-containing 38.8 7.7E+02 0.017 30.5 14.8 37 866-902 656-697 (840)
28 PF15469 Sec5: Exocyst complex 35.7 3.7E+02 0.008 27.7 10.7 51 868-918 85-137 (182)
29 PF04800 ETC_C1_NDUFA4: ETC co 35.1 23 0.0005 34.5 1.7 25 952-976 55-79 (101)
30 KOG1077 Vesicle coat complex A 34.9 9.2E+02 0.02 31.4 15.1 89 833-921 385-499 (938)
31 COG3071 HemY Uncharacterized e 34.8 8.9E+02 0.019 29.2 14.7 96 794-893 187-287 (400)
32 PRK14136 recX recombination re 33.8 3.9E+02 0.0084 31.0 11.2 68 751-826 192-270 (309)
33 PF14938 SNAP: Soluble NSF att 32.6 6.1E+02 0.013 27.9 12.3 112 791-903 132-271 (282)
34 PF13986 DUF4224: Domain of un 32.2 1.1E+02 0.0025 25.8 5.2 39 926-979 3-41 (47)
35 KOG4637 Adaptor for phosphoino 32.0 9.8E+02 0.021 28.8 14.5 31 755-785 141-171 (464)
36 PF08784 RPA_C: Replication pr 27.5 57 0.0012 30.5 3.0 52 907-971 45-98 (102)
37 PTZ00429 beta-adaptin; Provisi 26.5 1.2E+03 0.025 30.3 14.6 124 788-923 380-507 (746)
38 PF04053 Coatomer_WDAD: Coatom 26.4 1.2E+03 0.026 28.1 14.4 125 752-898 295-431 (443)
39 PF03851 UvdE: UV-endonuclease 26.1 29 0.00063 39.0 0.9 84 877-972 122-209 (275)
40 TIGR02297 HpaA 4-hydroxyphenyl 26.0 8.5E+02 0.018 26.2 11.9 34 905-940 233-266 (287)
41 KOG3389 NADH:ubiquinone oxidor 24.6 34 0.00073 35.6 0.9 42 926-982 120-161 (178)
42 PF12413 DLL_N: Homeobox prote 23.6 1.4E+02 0.003 28.7 4.7 18 148-165 26-44 (86)
43 PF06156 DUF972: Protein of un 23.4 2.5E+02 0.0054 27.7 6.5 38 792-829 30-87 (107)
44 KOG0775 Transcription factor S 22.9 1.7E+02 0.0036 33.5 5.8 30 863-893 94-123 (304)
45 KOG3758 Uncharacterized conser 22.1 8.3E+02 0.018 31.0 11.7 173 743-923 421-619 (655)
46 PF06777 DUF1227: Protein of u 21.7 1.1E+02 0.0023 31.8 3.9 23 767-789 103-125 (146)
47 PRK15338 type III secretion sy 21.5 1E+03 0.022 28.5 11.9 20 909-929 315-334 (372)
48 PF03634 TCP: TCP family trans 21.3 52 0.0011 32.9 1.5 11 930-940 34-44 (138)
49 KOG3107 Predicted haloacid deh 21.3 2.7E+02 0.0057 33.4 7.2 31 143-173 57-88 (468)
50 KOG3973 Uncharacterized conser 21.3 9.5E+02 0.021 28.7 11.4 59 829-895 158-225 (465)
51 PF12833 HTH_18: Helix-turn-he 20.7 2.6E+02 0.0057 24.5 5.7 36 904-940 25-60 (81)
52 KOG1676 K-homology type RNA bi 20.1 3.3E+02 0.0071 34.0 7.9 132 111-269 430-590 (600)
No 1
>KOG1861 consensus Leucine permease transcriptional regulator [Transcription]
Probab=100.00 E-value=4.1e-98 Score=823.72 Aligned_cols=446 Identities=38% Similarity=0.602 Sum_probs=327.5
Q ss_pred HHHHHHHHhhhccChhhHHHHHHHHHHHHHHHhhcCCccccCCCCCCCCCCC-----ccccccCCCCCC----Ccccccc
Q 001958 465 LCGYVERALARCKGDAEIAASQAVMGEIIKKANSDGTLFSRDWDVEPLFPKP-----TTEAVTKDLPTS----TPLSALS 535 (991)
Q Consensus 465 lr~YVqRaF~~c~~~~dr~~~E~~LKe~It~a~~~gtl~TidWd~ePLp~lp-----~~~~~~~~~~~~----~~~s~~s 535 (991)
+.+||+|||++|+.++||+.++..||++|..++..|.+||+|||+||||++- ..+...+..+.+ +.|.
T Consensus 58 ~~~y~~r~~~a~~t~~dk~~t~~~lk~~l~~~~~~~~~~t~dw~~ep~p~~~~~~l~~~~~~a~~~p~~~~~~n~f~--- 134 (540)
T KOG1861|consen 58 QPTYVERCFDACNTSEDKDPTNPRLKSMLNPYLNFGNATTEDWSAEPLPGPFSESLARPLDYANSFPSLTYNPNNFI--- 134 (540)
T ss_pred hHHHHHHHHHhhcchhhccchhHHHHHhcchhhccCccchhccccCCCCCccCcccCCCcccccCCCccccCCcccc---
Confidence 8899999999999999999999999999999999999999999999999742 222222222200 0010
Q ss_pred cccCCCccccCCCCCCCCCCCcccccccccccccccCCcccccccccccccCCCccccccccc--cccccccc--ccccc
Q 001958 536 KNKRSPSRRTKSRWEPLPEEKPIDKLASSTNEIVKFSGWIHANEKDRKHISGSVSKEDRLNNI--KFHLSEQK--SASKS 611 (991)
Q Consensus 536 ~~~rsp~rr~ksrwep~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~r~~~s~~~~~~~~~~~~--~~~~~~~r--~~sk~ 611 (991)
.+.+| +||.|- .+... +.+... ......++.+.+++.-.+++-.+. .+..+.+. +.+++
T Consensus 135 -~k~~~-----s~~r~~--~r~~~-------g~v~q~--~~~~~~~ssp~lsd~~~~ss~r~~~r~~~~~~s~s~~~~es 197 (540)
T KOG1861|consen 135 -GKQEP-----SRPRPS--DRESW-------GAVNQG--KEPLSVSSSPSLSDSMNKSSKRSPPRVSKRSSSLSSKSNES 197 (540)
T ss_pred -cccCC-----CCCCCc--chhcc-------cccccc--ccccccCCCccchhhhhcccccCCcccccccccccccccHh
Confidence 11222 233221 11000 110000 000000011111111000000000 00000000 00011
Q ss_pred c------CchhhhhhcccCCCcccCCCCCCCCchhhhhccccccchhcccCCHHHHHHHHHHHhhhccCCCCCCcccccC
Q 001958 612 F------QRPVKRQRLSADGFKTEDNGDASSDSDKEQSLTSYYSGAIALANSPEERMRRENRSKRFDRGQGNRSETNRFK 685 (991)
Q Consensus 612 ~------~r~~Kr~r~~~~~~~~~~~~~~ss~~~k~~~l~k~~~~~~~~~~~~ee~~rr~~Ra~RF~~~~~~~~~~~~~~ 685 (991)
. .++.+.++.++ ....-+.+ .++.+ .++||++||++|++||..+...+.+. .
T Consensus 198 ~~~k~~~a~~~~~~~~~~---------~~t~~~~~---------n~~s~-~~~d~e~rr~~Ra~RF~~~~s~s~~~---~ 255 (540)
T KOG1861|consen 198 LNKKSGNARANANKRGKG---------AVTPASGK---------NASSV-AGSDEEARRKRRARRFSQGGSRSTNN---N 255 (540)
T ss_pred hhhhhhhhhhhHHHhccC---------CCCCcccc---------chhhc-cCchHHHHHHHHHHHHhhccccccCC---C
Confidence 1 11111112211 11111111 12222 56789999999999999887543332 2
Q ss_pred CCCCCCCchhhhhhhhhhhccccCCCCCCcccccCCcCccccccchhhHHhhhccCCCCCCCCCCCHHHHHHHHHHHHhh
Q 001958 686 GKNAGTGNLYVRRASALLISKSFDDGGSRAVEDIDWDALTVKGTCQEIEKRYLRLTSAPDPSTVRPEEVLEKALQMVQNS 765 (991)
Q Consensus 686 ~~~~~~~~~~~~r~~~l~~~~~~~~g~s~~~~d~dwd~~~IVGTCq~LEK~YlRLTaaPdPsdVRPp~VL~KTLdyLl~k 765 (991)
|....+.++. ..-..+|.+++||||||+|||+|||||++|+|++|||++||+|+|.+|+.+
T Consensus 256 p~~~~~~n~~-------------------~~~~~~~q~l~IvGtCq~lEKsyLRLTsAPdPstVRP~~VL~ksL~~vkdk 316 (540)
T KOG1861|consen 256 PNLEDSKNLN-------------------SIVSPSHQKLHIVGTCQELEKSYLRLTSAPDPSTVRPLEVLKKSLCLVKDK 316 (540)
T ss_pred cchhhccchh-------------------hccCcccCceEEEEechhHHHhHhhhccCCCccccCCHHHHHHHHHHHHHH
Confidence 2222222221 112346778999999999999999999999999999999999999999998
Q ss_pred ch---hhHHHHHHHhhhHHhhhHhhccchhhHHHHHHHHHHHHhcCChhhHHHHHHHHHHHHHcCcCCChhHHHHHHHHH
Q 001958 766 QK---NYLYKCDQLKSIRQDLTVQRIRNQLTAKVYETHARLAIENGDLPEYNQCQSQLKILYAEGIEGCCMEFSAYHLLC 842 (991)
Q Consensus 766 ~k---~Y~FI~DRLRSIRQDLTVQ~I~neFTV~VYE~hARfaLeagDL~EFNQCqtQLk~LY~egi~gnEaEF~AYrILY 842 (991)
++ +|.|+||||||||||||||+|+|+|||+|||+||||+||+||++||||||+||+.||.++++++..||.||+|||
T Consensus 317 ~k~~~~Y~y~CdQ~KSiRQDLTVQ~IrneFTveVYEtHARIALEkGD~~EfNQCQtQLk~LY~egipg~~~EF~AYriLY 396 (540)
T KOG1861|consen 317 WKAKANYAYLCDQFKSIRQDLTVQRIRNEFTVEVYETHARIALEKGDLEEFNQCQTQLKALYSEGIPGAYLEFTAYRILY 396 (540)
T ss_pred HHhhccHHHHHHHHHHHhhhhhhheeccceeeeeehhhhHHHHhcCCHHHHHHHHHHHHHHHccCCCCchhhHHHHHHHH
Confidence 65 999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhhccCchHHHHHHHHhhhHHHhhCHHHHHHHHHHHHHHhCCHHHHHHHHhcCChhHHHHHHHHHHHHHHHHHHHHHHHc
Q 001958 843 VILHSNNKRELLSLMSRLSDKAKQDKAVKHALAVRAAVSSGNYIMFFRLYKTAPNLNTCLMDLYVEKMRFKAVSCMSRSY 922 (991)
Q Consensus 843 ~Ll~~nN~sDLl~~L~~Lp~eikkdp~VqfAL~Vr~Ala~GNYvRFFrLyksAP~L~acLMd~f~~r~R~~ALk~I~KAY 922 (991)
+|++ .|..||+..|..|++|++++++|+|||+||.|+.+||||+||+||+.+|.|..||||+|++++|..||.+|||+|
T Consensus 397 ~i~t-kN~~di~sll~~lt~E~ked~~V~hAL~vR~A~~~GNY~kFFrLY~~AP~M~~yLmdlF~erER~~Al~ii~Ksy 475 (540)
T KOG1861|consen 397 YIFT-KNYPDILSLLRDLTEEDKEDEAVAHALEVRSAVTLGNYHKFFRLYLTAPNMSGYLMDLFLERERKKALTIICKSY 475 (540)
T ss_pred HHHh-cCchHHHHHHHhccHhhccCHHHHHHHHHHHHHHhccHHHHHHHHhhcccchhHHHHHHHHHHHHHHHHHHHHHc
Confidence 9998 577899999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCHHHHHHhhCCCCCCCCCcccccccCCCHHHHHHHHHHcCCeEeeCCCCceEEecccccCccC
Q 001958 923 RPTVPVSYVAQVLGFTGVSPTNEECEERDSDGLEECVEWLKAHGASLVTDANGEVQLDAKVHLIQPY 989 (991)
Q Consensus 923 rptIPL~~LaelLgFds~d~a~~~~e~~~~~~lEEc~eFLk~~Gl~v~~D~~Ge~~ld~K~S~~~~~ 989 (991)
+|+|+++||++.|.|++. |+|.+||+.++|. .|..|..++|.|++.+.++
T Consensus 476 rP~i~~~fi~~~laf~~~---------------e~c~~~l~~~~~~--~~~~g~~~~~~~~~s~~i~ 525 (540)
T KOG1861|consen 476 RPTITVDFIASELAFDSM---------------EDCVNFLNEQNLT--YDSLGPQILDKNASSSNIK 525 (540)
T ss_pred CCCccHHHHhhhhhhchH---------------HHHHHHHhccCcc--ccccCCccccccccccccc
Confidence 999999999999999987 8999999999964 4556777777777765543
No 2
>PF03399 SAC3_GANP: SAC3/GANP/Nin1/mts3/eIF-3 p25 family; InterPro: IPR005062 This large family includes diverse proteins involved in large complexes [, , ]. The alignment contains one highly conserved negatively charged residue and one highly conserved positively charged residue that are probably important for the function of these proteins. The family includes the yeast nuclear export factor Sac3 [], and mammalian GANP/MCM3-associated proteins, which facilitate the nuclear localisation of MCM3, a protein that associates with chromatin in the G1 phase of the cell-cycle. The 26S protease (or 26S proteasome) is responsible for degrading ubiquitin conjugates. It consists of 19S regulatory complexes associated with the ends of 20S proteasomes. The 19S regulatory complex is composed of about 20 different polypeptides and confers ATP-dependence and substrate specificity to the 26S enzyme. The conserved region occurs at the C-terminal of the Nin1-like regulatory subunit [, , ]. This family includes several eukaryotic translation initiation factor 3 subunit 11 (eIF-3 p25) proteins. Eukaryotic initiation factor 3 (eIF3) is a multisubunit complex that is required for binding of mRNA to 40 S ribosomal subunits, stabilisation of ternary complex binding to 40 S subunits, and dissociation of 40 and 60 S subunits [].; PDB: 3T5V_D.
Probab=100.00 E-value=3.7e-49 Score=395.38 Aligned_cols=194 Identities=43% Similarity=0.739 Sum_probs=164.9
Q ss_pred CCCCCCCCCHHHHHHHHHHHHhh---chhhHHHHHHHhhhHHhhhHhhccchhhHHHHHHHHHHHHhcCChhhHHHHHHH
Q 001958 743 APDPSTVRPEEVLEKALQMVQNS---QKNYLYKCDQLKSIRQDLTVQRIRNQLTAKVYETHARLAIENGDLPEYNQCQSQ 819 (991)
Q Consensus 743 aPdPsdVRPp~VL~KTLdyLl~k---~k~Y~FI~DRLRSIRQDLTVQ~I~neFTV~VYE~hARfaLeagDL~EFNQCqtQ 819 (991)
+|+|++|||++||++||+||+++ .++|+|||||||||||||+||||.++|+|+|||.+|||+|+++|+++||+|+++
T Consensus 2 ~p~p~~vRp~~vL~~t~~~l~~~~~~~~~y~fi~drlRsiRqDl~vQ~~~~~~~i~v~E~~ar~~i~~~d~~qf~~c~~~ 81 (204)
T PF03399_consen 2 EPNPSDVRPPEVLKKTLNYLLRKIPFKDDYNFIWDRLRSIRQDLTVQNIENDFAIKVYERIARFAIESGDLEQFNQCLSQ 81 (204)
T ss_dssp ---------HHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTT--SHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCChHhCCCHHHHHHHHHHHHHHhhhhhhhHHHHHHhHHHHhhHHHHhcCCHHHHHHHHHHHHHHhhcCCHHHHHHHHHH
Confidence 68999999999999999999986 569999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHcC----cCCChhHHHHHHHHHHhhccCchHHHHHHHHhhhHHHhhCHHHHHHHHHHHHHHhCCHHHHHHHH--h
Q 001958 820 LKILYAEG----IEGCCMEFSAYHLLCVILHSNNKRELLSLMSRLSDKAKQDKAVKHALAVRAAVSSGNYIMFFRLY--K 893 (991)
Q Consensus 820 Lk~LY~eg----i~gnEaEF~AYrILY~Ll~~nN~sDLl~~L~~Lp~eikkdp~VqfAL~Vr~Ala~GNYvRFFrLy--k 893 (991)
|++||.+. ..+++.||+||+|||+|.. ++..+++..+..|+.+++++|.|++|++|+.|+++|||++||+++ +
T Consensus 82 L~~lY~~~~~~~~~~~~~ef~~y~lL~~l~~-~~~~~~~~~l~~l~~~~~~~~~i~~al~l~~a~~~gny~~ff~l~~~~ 160 (204)
T PF03399_consen 82 LKELYDDLRDLPPSPNEAEFIAYYLLYLLCQ-NNIPDFHMELELLPSEILSSPYIQFALELCRALMEGNYVRFFRLYRSK 160 (204)
T ss_dssp HHHHHHHHHHT---TTHHHHHHHHHHHTT-T----THHHHHHTTS-HHHHTSHHHHHHHHHHHHH--TTHHHHHHHHT-T
T ss_pred HHHHHHhhccCCCCCCHHHHHHHHHHHHHHc-ccchHHHHHHHHCchhhhcCHHHHHHHHHHHHHHcCCHHHHHHHHhcc
Confidence 99999985 3468999999999998754 567899999999999999999999999999999999999999999 8
Q ss_pred cCChhHHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHhhCC
Q 001958 894 TAPNLNTCLMDLYVEKMRFKAVSCMSRSYRPTVPVSYVAQVLGF 937 (991)
Q Consensus 894 sAP~L~acLMd~f~~r~R~~ALk~I~KAYrptIPL~~LaelLgF 937 (991)
++|++.+|+|+.|++++|..||++|++||++.||+++|+++|+|
T Consensus 161 ~~~~l~~~l~~~~~~~iR~~al~~i~~ay~~~i~l~~l~~~L~F 204 (204)
T PF03399_consen 161 SAPYLFACLMERFFNRIRLRALQSISKAYRSSIPLSFLAELLGF 204 (204)
T ss_dssp TS-HHHHHHHGGGHHHHHHHHHHHHHHHS-T-EEHHHHHHHTT-
T ss_pred CCChHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHcCC
Confidence 99999999999999999999999999999955999999999998
No 3
>KOG1860 consensus Nuclear protein export factor [Intracellular trafficking, secretion, and vesicular transport; Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=2e-39 Score=380.34 Aligned_cols=225 Identities=29% Similarity=0.449 Sum_probs=201.7
Q ss_pred hHHhhhccCC---CCCCCCCCCHHHHHHHHHHHHhh---------chhhHHHHHHHhhhHHhhhHhhccchhhHHHHHHH
Q 001958 733 IEKRYLRLTS---APDPSTVRPEEVLEKALQMVQNS---------QKNYLYKCDQLKSIRQDLTVQRIRNQLTAKVYETH 800 (991)
Q Consensus 733 LEK~YlRLTa---aPdPsdVRPp~VL~KTLdyLl~k---------~k~Y~FI~DRLRSIRQDLTVQ~I~neFTV~VYE~h 800 (991)
+||+|.|.+| .|+|++|||++||.+||+||+.+ ...|.|||||+||||||||+||+.+..+|.++|.|
T Consensus 144 aVK~ysRPAAgke~pLPsdvRP~~VL~~T~dYLl~~v~~~~~~sl~~~y~FvwDRtRAVR~D~t~Q~~~d~~Av~llE~i 223 (927)
T KOG1860|consen 144 AVKEYSRPAAGKERPLPSDVRPPPVLVKTVDYLLGKVLCDKDISLREMYDFVWDRTRAVRQDFTIQNYSDQEAVELLERI 223 (927)
T ss_pred HHHHhcCcccCCCCCCccccCCHHHHHHHHHHHHHHhhccccccHHHHHHHHHHHHHHHHHHHHHhccCChHHHHHHHHH
Confidence 3799999996 69999999999999999999842 56899999999999999999999999999999999
Q ss_pred HHHHHhcC--------------ChhhHHHHHHHHHHHHHcCc-----CCChhHHHHHHHHHHhhccCchHHHHHHHHhhh
Q 001958 801 ARLAIENG--------------DLPEYNQCQSQLKILYAEGI-----EGCCMEFSAYHLLCVILHSNNKRELLSLMSRLS 861 (991)
Q Consensus 801 ARfaLeag--------------DL~EFNQCqtQLk~LY~egi-----~gnEaEF~AYrILY~Ll~~nN~sDLl~~L~~Lp 861 (991)
+||||.+. +++++++|+..|.+||+++. ++||+||+||+||++|. ..++...++.|+
T Consensus 224 ~RfhI~~~h~Lce~~~~Fda~~nlEQL~K~l~sL~elYdD~r~~g~~cpnE~EFR~Y~vLl~Lg----d~~~~~~iq~~~ 299 (927)
T KOG1860|consen 224 ARFHILFRHRLCEEPEQFDAQQNLEQLQKCLQSLGELYDDLRKGGIPCPNEPEFRGYYVLLSLG----DPQVVRDIQAWP 299 (927)
T ss_pred HHHHHHHHHHhccCcccCChhHHHHHHHHHHHHHHHHHHHHHhcCCCCCChHHHHHHHHHHhcC----CchHHHHHHhcC
Confidence 99999652 24677899999999999853 46899999999999983 468888999999
Q ss_pred HHHhhCHHHHHHHHHHHHHHhCCHHHHHH------------------HHh--cCChhHHHHHHHHHHHHHHHHHHHHHHH
Q 001958 862 DKAKQDKAVKHALAVRAAVSSGNYIMFFR------------------LYK--TAPNLNTCLMDLYVEKMRFKAVSCMSRS 921 (991)
Q Consensus 862 ~eikkdp~VqfAL~Vr~Ala~GNYvRFFr------------------Lyk--sAP~L~acLMd~f~~r~R~~ALk~I~KA 921 (991)
.+++.+..|++|+.+++|+..|||.+||| |.. ..++|+.|+++.||.-+|..||+.|+++
T Consensus 300 ~evr~~~~Vk~al~~~~a~~~nn~~~~~r~~~~~t~a~~~l~~~~~~l~q~p~~~~L~~~v~~~~f~~ir~~al~~~~~~ 379 (927)
T KOG1860|consen 300 DEVRQDSEVKLALCLRRAFQSNNFRRFFRLSSLRTEALQNLYTRFFKLMQSPALPYLMGCVLELFFPDIRWAALRAMSHA 379 (927)
T ss_pred cccccchhHHHHHHHHHHhccCCeeeeeeccchhHHHHHHHHHHHHHHhcCcchHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999975 332 3578899999999999999999999999
Q ss_pred cCC---CCCHHHHHHhhCCCCCCCCCcccccccCCCHHHHHHHHHHcCCeEeeCCCCc
Q 001958 922 YRP---TVPVSYVAQVLGFTGVSPTNEECEERDSDGLEECVEWLKAHGASLVTDANGE 976 (991)
Q Consensus 922 Yrp---tIPL~~LaelLgFds~d~a~~~~e~~~~~~lEEc~eFLk~~Gl~v~~D~~Ge 976 (991)
|+. .||+..|..+|.|+.. |+...+|+.+||.++.|..+.
T Consensus 380 ~~~~~~~vp~~~l~~~l~f~~~---------------e~~~~~~~~y~Leis~~~~~~ 422 (927)
T KOG1860|consen 380 YNSKHVPVPLGKLDRILLFDGE---------------EELKVVCNYYGLEISVDDKIV 422 (927)
T ss_pred HhccCCCcchhHHHHHHhcCCh---------------hhhHhhhhheeeEeecccccc
Confidence 974 7999999999999998 899999999999998775443
No 4
>COG5079 SAC3 Nuclear protein export factor [Intracellular trafficking and secretion / Cell division and chromosome partitioning]
Probab=100.00 E-value=6e-39 Score=357.47 Aligned_cols=226 Identities=24% Similarity=0.319 Sum_probs=200.1
Q ss_pred HHhhhccCC---CCCCCCCCCHHHHHHHHHHHHhh------chhhHHHHHHHhhhHHhhhHhhccchhhHHHHHHHHHHH
Q 001958 734 EKRYLRLTS---APDPSTVRPEEVLEKALQMVQNS------QKNYLYKCDQLKSIRQDLTVQRIRNQLTAKVYETHARLA 804 (991)
Q Consensus 734 EK~YlRLTa---aPdPsdVRPp~VL~KTLdyLl~k------~k~Y~FI~DRLRSIRQDLTVQ~I~neFTV~VYE~hARfa 804 (991)
+|.|.|.++ .++|+|||||+||++||+||+.. ...|.|+|||+||||||||+|+.++..+|+|+|.+||||
T Consensus 113 vKay~RPAAgk~p~LPsDVRPp~VLvktidylv~~c~~d~l~e~~~Fv~drtRavrqDftiQN~~g~dAV~c~EriaRfh 192 (646)
T COG5079 113 VKAYHRPAAGKHPELPSDVRPPEVLVKTIDYLVKLCAGDQLIEMHRFVRDRTRAVRQDFTIQNEKGKDAVECHERIARFH 192 (646)
T ss_pred HHHhcCccccCCCCCcccCCChHHHHHHHHHHHHHhcCcchHHHHHHHHhhhHHHHhhceeecccCchHHHHHHHHHHHH
Confidence 688888885 58999999999999999999852 578999999999999999999999999999999999999
Q ss_pred Hhc----C---------ChhhHHHHHHHHHHHHHcCc-----CCChhHHHHHHHHHHhhccCchHHHHHHHHhhhHHHhh
Q 001958 805 IEN----G---------DLPEYNQCQSQLKILYAEGI-----EGCCMEFSAYHLLCVILHSNNKRELLSLMSRLSDKAKQ 866 (991)
Q Consensus 805 Lea----g---------DL~EFNQCqtQLk~LY~egi-----~gnEaEF~AYrILY~Ll~~nN~sDLl~~L~~Lp~eikk 866 (991)
|.. . .++++.+-+..|.+||+++. ++||+||+||.||..|.+ .+...-++.||.+++.
T Consensus 193 Il~lh~L~~~p~Fs~qqeleQL~ksL~sL~elYdd~r~~~~~cpneaEFraYaiL~slgD----p~yv~~iq~wp~~if~ 268 (646)
T COG5079 193 ILFLHLLHDHPHFSKQQELEQLKKSLASLIELYDDGRAGKKECPNEAEFRAYAILASLGD----PRYVAGIQGWPGGIFC 268 (646)
T ss_pred HHHHHHHhcCccccHHhHHHHHHHHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhCC----chhhhccccCCccccc
Confidence 975 2 34555566778999999863 478999999999999854 4666778899999999
Q ss_pred CHHHHHHHHHHHHHHhCC---------------HHHHHHHHh--cCChhHHHHHHHHHHHHHHHHHHHHHHHcC---CCC
Q 001958 867 DKAVKHALAVRAAVSSGN---------------YIMFFRLYK--TAPNLNTCLMDLYVEKMRFKAVSCMSRSYR---PTV 926 (991)
Q Consensus 867 dp~VqfAL~Vr~Ala~GN---------------YvRFFrLyk--sAP~L~acLMd~f~~r~R~~ALk~I~KAYr---ptI 926 (991)
++.|+.||++.+-...|| |.|||+|++ ++++|++||+++|+..+|..||++|.++|. ..+
T Consensus 269 d~~vq~alkl~~laq~nn~r~~~~rnteac~nlytrFfkl~qSpsv~~lmg~lle~h~~sir~~aLkAm~k~~~sahk~i 348 (646)
T COG5079 269 DLPVQIALKLMQLAQSNNFRLLGRRNTEACFNLYTRFFKLIQSPSVQYLMGCLLEKHNISIRGGALKAMEKEIESAHKNI 348 (646)
T ss_pred cchHHHHHHHHHHhhccCeeeccccchhhhhHHHHHHHHHHhCccHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHhhcCC
Confidence 999999999998887776 789999997 689999999999999999999999999985 389
Q ss_pred CHHHHHHhhCCCCCCCCCcccccccCCCHHHHHHHHHHcCCeEeeCCCCceE
Q 001958 927 PVSYVAQVLGFTGVSPTNEECEERDSDGLEECVEWLKAHGASLVTDANGEVQ 978 (991)
Q Consensus 927 PL~~LaelLgFds~d~a~~~~e~~~~~~lEEc~eFLk~~Gl~v~~D~~Ge~~ 978 (991)
|..+|..+|.|++. +|.++||+.+|+++..+.++++-
T Consensus 349 pf~~l~~il~f~~~---------------~e~~efckyy~lei~~ed~~~l~ 385 (646)
T COG5079 349 PFVDLSGILDFEEK---------------GEGEEFCKYYGLEIRIEDSVKLP 385 (646)
T ss_pred Ceehhhhhcccccc---------------chhHHHhhhcceeeecccccccc
Confidence 99999999999998 79999999999999866667653
No 5
>KOG3151 consensus 26S proteasome regulatory complex, subunit RPN12/PSMD8 [Posttranslational modification, protein turnover, chaperones]
Probab=99.60 E-value=2.2e-14 Score=150.63 Aligned_cols=162 Identities=20% Similarity=0.302 Sum_probs=149.3
Q ss_pred hhHHHHHHHHHHHHhcCChhhHHHHHHHHHHHHHcCc---C--CChhHHHHHHHHHHhhccCchHHHHHHHHhhhHHHhh
Q 001958 792 LTAKVYETHARLAIENGDLPEYNQCQSQLKILYAEGI---E--GCCMEFSAYHLLCVILHSNNKRELLSLMSRLSDKAKQ 866 (991)
Q Consensus 792 FTV~VYE~hARfaLeagDL~EFNQCqtQLk~LY~egi---~--gnEaEF~AYrILY~Ll~~nN~sDLl~~L~~Lp~eikk 866 (991)
++.+|||..|-.+|...|++.|.....||+..|-+.. + .++.-|++.+|||+|.+ |+..||+..|+.||.+++.
T Consensus 54 ~aR~ilEi~vl~SI~t~D~~sFerY~~Qlk~YY~d~~~~l~~S~~~~~l~GLnLL~LLsq-NRiaeFHteLe~lp~~~l~ 132 (260)
T KOG3151|consen 54 IARDILEIGVLLSILTKDFESFERYMNQLKPYYFDYNEKLSESEKKHKLLGLNLLYLLSQ-NRIAEFHTELELLPKKILQ 132 (260)
T ss_pred HHHHHHHHHHHHHHHhccHHHHHHHHHHhcchhcccccccCcchhhhHHHHHHHHHHHHh-ccHHHHHHHHHhccHHHhh
Confidence 5889999999999999999999999999999998743 2 45778999999998765 7889999999999999887
Q ss_pred C-HHHHHHHHHHHHHHhCCHHHHHHHHhcCChh-HHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHhhCCCCCCCCC
Q 001958 867 D-KAVKHALAVRAAVSSGNYIMFFRLYKTAPNL-NTCLMDLYVEKMRFKAVSCMSRSYRPTVPVSYVAQVLGFTGVSPTN 944 (991)
Q Consensus 867 d-p~VqfAL~Vr~Ala~GNYvRFFrLyksAP~L-~acLMd~f~~r~R~~ALk~I~KAYrptIPL~~LaelLgFds~d~a~ 944 (991)
+ ++|+++++|...+|+|-|.+.|...+++|.- ..++|++.++.+|.++..||.|+|. .||++.++.+|.|.++
T Consensus 133 ~~~~I~~~v~LEq~~MEGaYnKv~~a~~s~p~~~y~~FmdIl~~tiRdEIA~c~EKsYd-~l~~s~a~~~L~f~~~---- 207 (260)
T KOG3151|consen 133 HNPYISHPVSLEQSLMEGAYNKVLSAKQSIPSEEYTYFMDILLDTIRDEIAGCIEKSYD-KLSASDATQMLLFNND---- 207 (260)
T ss_pred ccchhhhHHHHHHHHHhhHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHHHHHHHHHHHh-hcCHHHHHHHHhcCCh----
Confidence 7 9999999999999999999999999999965 4789999999999999999999998 9999999999999977
Q ss_pred cccccccCCCHHHHHHHHHHcCCeEe
Q 001958 945 EECEERDSDGLEECVEWLKAHGASLV 970 (991)
Q Consensus 945 ~~~e~~~~~~lEEc~eFLk~~Gl~v~ 970 (991)
+|...|-...+|.+.
T Consensus 208 -----------~e~~~~~~~r~W~l~ 222 (260)
T KOG3151|consen 208 -----------KELKKFATERQWPLD 222 (260)
T ss_pred -----------HHHHHHHHhcCCccc
Confidence 899999999999875
No 6
>PF10075 PCI_Csn8: COP9 signalosome, subunit CSN8; InterPro: IPR019280 The photomorphogenic 9 (COP9) signalosome or CSN complex is composed of eight subunits: Cops1/GPS1, Cops2, Cops3, Cops4, Cops5, Cop6, Cops7 (Cops7A or Cops7B) and Cops8. In the complex, Cops8, which is the smallest subunit, probably interacts directly with Cops3, Cops4 and Cops7 (Cops7A or Cops7B). This signalosome is homologous to the lid subcomplex of the 26S proteasome and regulates the ubiquitin-proteasome pathway. It functions as a structural scaffold for subunit-subunit interactions within the complex and is a key regulator of photomorphogenic development [].; PDB: 1RZ4_A.
Probab=99.15 E-value=1.6e-10 Score=112.73 Aligned_cols=121 Identities=22% Similarity=0.381 Sum_probs=98.0
Q ss_pred hhHHHHHHHHHHhhccCchHHHHHHHHhhhHHHhh-CHHHHHHHHHHHHHHhCCHHHHHHHHhcCCh--hHHHHHHHHHH
Q 001958 832 CMEFSAYHLLCVILHSNNKRELLSLMSRLSDKAKQ-DKAVKHALAVRAAVSSGNYIMFFRLYKTAPN--LNTCLMDLYVE 908 (991)
Q Consensus 832 EaEF~AYrILY~Ll~~nN~sDLl~~L~~Lp~eikk-dp~VqfAL~Vr~Ala~GNYvRFFrLyksAP~--L~acLMd~f~~ 908 (991)
..++.+-.||.+|.. +...|+...+.+||.+++. ++.|+....|..++..|+|.+||..++..+. ...-+|..|.+
T Consensus 3 ~~~~~~~~Ll~~L~~-~~~~df~~~~~rip~~~~~~~~~i~~i~~l~~~L~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~ 81 (143)
T PF10075_consen 3 NPEIYALILLKYLMQ-NDLSDFRLLWKRIPEELKQSDPEIKAIWSLGQALWEGDYSKFWQALRSNPWSPDYKPFVPGFED 81 (143)
T ss_dssp -HHHHHHHHHHHHHT-TTSTHHHHHHHTS-HHHHTS-TTHHHHHHHHHHHHTT-HHHHHHHS-TT----HHHHTSTTHHH
T ss_pred chhHHHHHHHHHHHc-CCchHHHHHHHcCCHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHhccchHHHHHHHHHHHH
Confidence 457778777777665 5668999999999999998 5999999999999999999999999987643 34557788999
Q ss_pred HHHHHHHHHHHHHcCCCCCHHHHHHhhCCCCCCCCCcccccccCCCHHHHHHHHHHcCCeEe
Q 001958 909 KMRFKAVSCMSRSYRPTVPVSYVAQVLGFTGVSPTNEECEERDSDGLEECVEWLKAHGASLV 970 (991)
Q Consensus 909 r~R~~ALk~I~KAYrptIPL~~LaelLgFds~d~a~~~~e~~~~~~lEEc~eFLk~~Gl~v~ 970 (991)
.+|..++.+|.+||. +|++..++++|||+ + +|+.+|++..||.+.
T Consensus 82 ~iR~~i~~~i~~aY~-sIs~~~la~~Lg~~-~---------------~el~~~~~~~gW~~d 126 (143)
T PF10075_consen 82 TIRERIAHLISKAYS-SISLSDLAEMLGLS-E---------------EELEKFIKSRGWTVD 126 (143)
T ss_dssp HHHHHHHHHHHHH-S-EE-HHHHHHHTTS--H---------------HHHHHHHHHHT-EE-
T ss_pred HHHHHHHHHHHHHHh-HcCHHHHHHHhCCC-H---------------HHHHHHHHHcCCEEC
Confidence 999999999999998 99999999999999 5 799999999999984
No 7
>KOG3252 consensus Uncharacterized conserved protein [Function unknown]
Probab=96.78 E-value=0.011 Score=62.06 Aligned_cols=124 Identities=10% Similarity=0.202 Sum_probs=99.6
Q ss_pred HHHHHHHHhhccCchHHHHHHHHhhhHHHhhCHHHHHHHHHHHHHHhCCHHHHHHHHhcCChhHHHHHHHHHHHHHHHHH
Q 001958 836 SAYHLLCVILHSNNKRELLSLMSRLSDKAKQDKAVKHALAVRAAVSSGNYIMFFRLYKTAPNLNTCLMDLYVEKMRFKAV 915 (991)
Q Consensus 836 ~AYrILY~Ll~~nN~sDLl~~L~~Lp~eikkdp~VqfAL~Vr~Ala~GNYvRFFrLyksAP~L~acLMd~f~~r~R~~AL 915 (991)
..++||+..+..--.+||.-...-|+.....+..++..+.|-..+..++|..|+.-...-+.|..- |--|-+.+|..|-
T Consensus 64 itaqILlKaL~~lP~tDF~l~kcli~~~~~~ee~~r~ii~L~~~LEt~~Fq~FW~~~~~N~~mle~-itGFedsvr~yac 142 (217)
T KOG3252|consen 64 ITAQILLKALTNLPHTDFTLAKCLIDERVQMEEPFRSIIDLGDYLETCRFQQFWQEADENRDMLEG-ITGFEDSVRKYAC 142 (217)
T ss_pred HHHHHHHHHHhcCCCcchhHHHHhcCHHHhcccchhHHHhHHHHHhhchHHHHhhhhccchHHhcC-CCcHHHHHHHHHH
Confidence 567888877664456788777777888888999999999999999999999999766544444332 2357889999998
Q ss_pred HHHHHHcCCCCCHHHHHHhhCCCCCCCCCcccccccCCCHHHHHHHHHHcCCeEeeCCCCceE
Q 001958 916 SCMSRSYRPTVPVSYVAQVLGFTGVSPTNEECEERDSDGLEECVEWLKAHGASLVTDANGEVQ 978 (991)
Q Consensus 916 k~I~KAYrptIPL~~LaelLgFds~d~a~~~~e~~~~~~lEEc~eFLk~~Gl~v~~D~~Ge~~ 978 (991)
..+.-+|. +|+-..|+++||-.++ .+...|++.+||.. |++|.+.
T Consensus 143 hvv~iTyQ-kI~k~lLaellG~~sD---------------s~le~~~~~~GW~a--~e~G~if 187 (217)
T KOG3252|consen 143 HVVGITYQ-KIDKWLLAELLGGLSD---------------SQLEVWMTKYGWIA--DESGQIF 187 (217)
T ss_pred HheechHh-hchHHHHHHhhCcccH---------------HHHHHHHHHcccee--cCCceEE
Confidence 88989997 9999999999998776 68999999999986 4567443
No 8
>PF01399 PCI: PCI domain; InterPro: IPR000717 A homology domain of unclear function, occurs in the C-terminal region of several regulatory components of the 26S proteasome as well as in other proteins. This domain has also been called the PINT motif (Proteasome, Int-6, Nip-1 and TRIP-15) []. Apparently, all of the characterised proteins containing PCI domains are parts of larger multi-protein complexes. Proteins with PCI domains include budding yeast proteasome regulatory components Rpn3(Sun2), Rpn5, Rpn6, Rpn7and Rpn9 []; mammalian proteasome regulatory components p55, p58 and p44.5, and translation initiation factor 3 complex subunits p110 and INT6 [, ]; Arabidopsis COP9 and FUS6/COP11 []; mammalian G-protein pathway suppressor GPS1, and several uncharacterised ORFs from plant, nematodes and mammals. The complete homology domain comprises approx. 200 residues, the highest conservation is found in the C-terminal half. Several of the proteins mentioned above have no detectable homology to the N-terminal half of the domain.; GO: 0005515 protein binding; PDB: 3TXM_A 3TXN_A 1UFM_A 3CHM_A 3T5X_A 3T5V_B.
Probab=95.54 E-value=0.049 Score=49.15 Aligned_cols=66 Identities=20% Similarity=0.298 Sum_probs=54.5
Q ss_pred HHHHHHHHhCCHHHHHHHHhcC-ChhH-----HHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHhhCCCCC
Q 001958 874 LAVRAAVSSGNYIMFFRLYKTA-PNLN-----TCLMDLYVEKMRFKAVSCMSRSYRPTVPVSYVAQVLGFTGV 940 (991)
Q Consensus 874 L~Vr~Ala~GNYvRFFrLyksA-P~L~-----acLMd~f~~r~R~~ALk~I~KAYrptIPL~~LaelLgFds~ 940 (991)
.++..|+..||+..|..++... ..+. .-+++.+...+|..+|..+++.|. +|+++.|++.|+++..
T Consensus 4 ~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~~~~l~~~i~~~~l~~l~~~y~-~i~~~~ia~~l~~~~~ 75 (105)
T PF01399_consen 4 SELLRAFRSGDLQEFEEFLEKHSESLFKDPFLAEYVEQLKEKIRRRNLRQLSKPYS-SISISEIAKALQLSEE 75 (105)
T ss_dssp HHHHHHHHCT-HHHHHHHHHHTCHHHHHCTTHHHHHHHHHHHHHHHHHHHHHHC-S-EEEHHHHHHHHTCCHH
T ss_pred HHHHHHHHhCCHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHHHHHHHhc-ccchHHHHHHhccchH
Confidence 4677899999999999999876 3322 347788999999999999999998 9999999999999863
No 9
>KOG1861 consensus Leucine permease transcriptional regulator [Transcription]
Probab=94.83 E-value=0.0072 Score=70.28 Aligned_cols=88 Identities=23% Similarity=0.182 Sum_probs=78.7
Q ss_pred CCcccccccccccccCCCCccccccccCCCCCcCCcccccccCCCceeeecccCcchhhccccCCCCCCCCCChhHHHHH
Q 001958 390 TSPQLDNRRVSKLQIPTNPRIASNLALGLPKTDKDSSTANAAAKPAYIGVSLAKSNEKVVSHADSRVEPGTFPKSLCGYV 469 (991)
Q Consensus 390 ~~~~~~~~~~~k~qip~npria~~~~~~~~~~~k~~~~~~~~~~pay~~v~~~~~~~~~~~~~~~~~~~~~wP~slr~YV 469 (991)
...-.|.+++.+.++||||||++.|.-.+-+.++.....+.+.-|++++++|+++.+.+...++ ++-.|...+..+
T Consensus 62 ~~r~~~a~~t~~dk~~t~~~lk~~l~~~~~~~~~~t~dw~~ep~p~~~~~~l~~~~~~a~~~p~----~~~~~n~f~~k~ 137 (540)
T KOG1861|consen 62 VERCFDACNTSEDKDPTNPRLKSMLNPYLNFGNATTEDWSAEPLPGPFSESLARPLDYANSFPS----LTYNPNNFIGKQ 137 (540)
T ss_pred HHHHHHhhcchhhccchhHHHHHhcchhhccCccchhccccCCCCCccCcccCCCcccccCCCc----cccCCccccccc
Confidence 3567889999999999999999999999999999999999999999999999999988776664 567889999999
Q ss_pred HHHhhhccChhh
Q 001958 470 ERALARCKGDAE 481 (991)
Q Consensus 470 qRaF~~c~~~~d 481 (991)
+|++.+|.+.+.
T Consensus 138 ~~s~~r~~~r~~ 149 (540)
T KOG1861|consen 138 EPSRPRPSDRES 149 (540)
T ss_pred CCCCCCCcchhc
Confidence 999999988754
No 10
>KOG2908 consensus 26S proteasome regulatory complex, subunit RPN9/PSMD13 [Posttranslational modification, protein turnover, chaperones]
Probab=93.40 E-value=9.6 Score=44.07 Aligned_cols=148 Identities=22% Similarity=0.255 Sum_probs=92.0
Q ss_pred hhHHHHHHHHHHHHhcCChhhHHHHHHHHHHHHHcC--cC---------------CChhHHHHHH--HHHHhhccC--c-
Q 001958 792 LTAKVYETHARLAIENGDLPEYNQCQSQLKILYAEG--IE---------------GCCMEFSAYH--LLCVILHSN--N- 849 (991)
Q Consensus 792 FTV~VYE~hARfaLeagDL~EFNQCqtQLk~LY~eg--i~---------------gnEaEF~AYr--ILY~Ll~~n--N- 849 (991)
-.+.+.-.++|+.|+.+|+.+--+-+..++..-+.. +. .+..+|.+|+ .|.+|...+ +
T Consensus 113 av~~~~t~~~r~~L~i~DLk~~kk~ldd~~~~ld~~~~v~~~Vh~~fY~lssqYyk~~~d~a~yYr~~L~YL~~~d~~~l 192 (380)
T KOG2908|consen 113 AVIYILTEIARLKLEINDLKEIKKLLDDLKSMLDSLDGVTSNVHSSFYSLSSQYYKKIGDFASYYRHALLYLGCSDIDDL 192 (380)
T ss_pred hHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhcccCCChhhhhhHHHHHHHHHHHHHhHHHHHHHHHHHhcccccccc
Confidence 455677788999999999876665555555544331 11 1345666664 333332210 0
Q ss_pred -hHH---H---HHHHHhhhH------HHhhCHHH--------HHHHHHHHHHHhCCHHHHHHHHh---cCChhHHHHHHH
Q 001958 850 -KRE---L---LSLMSRLSD------KAKQDKAV--------KHALAVRAAVSSGNYIMFFRLYK---TAPNLNTCLMDL 905 (991)
Q Consensus 850 -~sD---L---l~~L~~Lp~------eikkdp~V--------qfAL~Vr~Ala~GNYvRFFrLyk---sAP~L~acLMd~ 905 (991)
..+ + +..-+-|.+ +++.||.+ +.-.+|..|+..||..+|++|++ +.|-|.+. -+.
T Consensus 193 ~~se~~~lA~~L~~aALLGe~iyNfGELL~HPilesL~gT~~eWL~dll~Afn~Gdl~~f~~l~~~~~~~p~L~~~-e~~ 271 (380)
T KOG2908|consen 193 SESEKQDLAFDLSLAALLGENIYNFGELLAHPILESLKGTNREWLKDLLIAFNSGDLKRFESLKGVWGKQPDLASN-EDF 271 (380)
T ss_pred CHHHHHHHHHHHHHHHHhccccccHHHHHhhHHHHHhcCCcHHHHHHHHHHhccCCHHHHHHHHHHhccCchHHHH-HHH
Confidence 011 1 111111222 34455543 45568899999999999999997 45666554 356
Q ss_pred HHHHHHHHHHHHHHHHcC---CCCCHHHHHHhhCCCCC
Q 001958 906 YVEKMRFKAVSCMSRSYR---PTVPVSYVAQVLGFTGV 940 (991)
Q Consensus 906 f~~r~R~~ALk~I~KAYr---ptIPL~~LaelLgFds~ 940 (991)
...++|+.||.-|+-.-- .+|+++.|++.+.....
T Consensus 272 L~qKI~LmaLiEi~F~rpa~~R~lsf~~Ia~~tkip~~ 309 (380)
T KOG2908|consen 272 LLQKIRLLALIEITFSRPANERTLSFKEIAEATKIPNK 309 (380)
T ss_pred HHHHHHHHHHHHHHhcCcchhccccHHHHHHHhCCCHH
Confidence 778889888888765531 18999999999998764
No 11
>KOG0687 consensus 26S proteasome regulatory complex, subunit RPN7/PSMD6 [Posttranslational modification, protein turnover, chaperones]
Probab=92.96 E-value=2.8 Score=48.09 Aligned_cols=167 Identities=20% Similarity=0.181 Sum_probs=98.5
Q ss_pred hHHHHHHHHHHHHhcCChhhHHHHHHHHHHHHHcCcC-CChhHHHHHHHHHHhhccCch--HHH----------------
Q 001958 793 TAKVYETHARLAIENGDLPEYNQCQSQLKILYAEGIE-GCCMEFSAYHLLCVILHSNNK--REL---------------- 853 (991)
Q Consensus 793 TV~VYE~hARfaLeagDL~EFNQCqtQLk~LY~egi~-gnEaEF~AYrILY~Ll~~nN~--sDL---------------- 853 (991)
-++|.=..+|+.+.-+|..--++-+...+.|+++|-. ..+.-...|.=||.|...+=+ .+|
T Consensus 140 kiDVvf~~iRlglfy~D~~lV~~~iekak~liE~GgDWeRrNRlKvY~Gly~msvR~Fk~Aa~Lfld~vsTFtS~El~~Y 219 (393)
T KOG0687|consen 140 KIDVVFYKIRLGLFYLDHDLVTESIEKAKSLIEEGGDWERRNRLKVYQGLYCMSVRNFKEAADLFLDSVSTFTSYELMSY 219 (393)
T ss_pred chhhHHHHHHHHHhhccHHHHHHHHHHHHHHHHhCCChhhhhhHHHHHHHHHHHHHhHHHHHHHHHHHcccccceecccH
Confidence 4667778889998888888788888888888887521 112223334333333211000 000
Q ss_pred --------HHHHH-----hhhHHHhhCHHHHHHH-------HHHHHHHhCCHHHHHHHHhc--C-----ChhHHHHHHHH
Q 001958 854 --------LSLMS-----RLSDKAKQDKAVKHAL-------AVRAAVSSGNYIMFFRLYKT--A-----PNLNTCLMDLY 906 (991)
Q Consensus 854 --------l~~L~-----~Lp~eikkdp~VqfAL-------~Vr~Ala~GNYvRFFrLyks--A-----P~L~acLMd~f 906 (991)
+.-|. .|...+.+.|.|.-.| ++...+-..+|..||.-+.. + ..+..--.+.|
T Consensus 220 ~~~v~Ytv~~g~i~leR~dlktKVi~~~Evl~vl~~l~~~~q~l~SLY~C~Y~~Ff~~L~~~~~~~lk~D~~l~~h~~yy 299 (393)
T KOG0687|consen 220 ETFVRYTVITGLIALERVDLKTKVIKCPEVLEVLHKLPSVSQLLNSLYECDYSDFFNDLAAVEAKQLKDDRYLGPHYRYY 299 (393)
T ss_pred HHHHHHHHHHhhheeccchHHhhhcCcHHHHHHhhcCchHHHHHHHHHhccHHHHHHHHHHHHHHhhccchhcchHHHHH
Confidence 00000 1122233445444333 45566778999999987632 1 22222345678
Q ss_pred HHHHHHHHHHHHHHHcCCCCCHHHHHHhhCCCCCCCCCcccccccCCCHHHHHHHHHHcCCeEeeC
Q 001958 907 VEKMRFKAVSCMSRSYRPTVPVSYVAQVLGFTGVSPTNEECEERDSDGLEECVEWLKAHGASLVTD 972 (991)
Q Consensus 907 ~~r~R~~ALk~I~KAYrptIPL~~LaelLgFds~d~a~~~~e~~~~~~lEEc~eFLk~~Gl~v~~D 972 (991)
+..||.++-..+--+|| ++.|+.+++-+|..-+ --| .|+-.|+..--|....|
T Consensus 300 vREMR~rvY~QlLESYr-sl~l~~MA~aFgVSVe-----fiD-------reL~rFI~~grL~ckID 352 (393)
T KOG0687|consen 300 VREMRRRVYAQLLESYR-SLTLESMAKAFGVSVE-----FID-------RELGRFIAAGRLHCKID 352 (393)
T ss_pred HHHHHHHHHHHHHHHHH-HHHHHHHHHHhCchHH-----HHH-------hHHHHhhccCceeeeee
Confidence 89999999888888888 8888888888876522 001 46677777766655555
No 12
>KOG4414 consensus COP9 signalosome, subunit CSN8 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=90.93 E-value=2.5 Score=43.72 Aligned_cols=137 Identities=15% Similarity=0.213 Sum_probs=95.2
Q ss_pred HHHHHHHHHHHHcCcCCChhHHHHHHHHHHhhcc-CchHHHHHHHHhhhHHHhh-CHHHHHHHHHHHHHHhCCHHHHHHH
Q 001958 814 NQCQSQLKILYAEGIEGCCMEFSAYHLLCVILHS-NNKRELLSLMSRLSDKAKQ-DKAVKHALAVRAAVSSGNYIMFFRL 891 (991)
Q Consensus 814 NQCqtQLk~LY~egi~gnEaEF~AYrILY~Ll~~-nN~sDLl~~L~~Lp~eikk-dp~VqfAL~Vr~Ala~GNYvRFFrL 891 (991)
.+|-++-.+.=.+||.-+..=-.+-+|+.++++. .+...++ ..++|+.|++ .|.+--|..|-.-+...+|...+..
T Consensus 20 D~Cdn~~Lea~~eGIa~~~dw~Ya~~L~~Yf~~dD~dnARfL--WKRIP~AIKe~k~El~aaWgiGQkiWq~Df~GiYea 97 (197)
T KOG4414|consen 20 DICDNLELEAAGEGIATHDDWPYAIHLAGYFLHDDCDNARFL--WKRIPPAIKEAKPELGAAWGIGQKIWQHDFAGIYEA 97 (197)
T ss_pred HHhhhhhhcccCCCccCCCcchHHHHHHHHHHhccchhHHHH--HHhCCHHHhhcCchhhhhhhhhHHHHhcccchHHHH
Confidence 3565555554445553222111223333333442 2223333 3688998874 5788888888888888899988888
Q ss_pred HhcC--ChhHHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHhhCCCCCCCCCcccccccCCCHHHHHHHHHHcCCeE
Q 001958 892 YKTA--PNLNTCLMDLYVEKMRFKAVSCMSRSYRPTVPVSYVAQVLGFTGVSPTNEECEERDSDGLEECVEWLKAHGASL 969 (991)
Q Consensus 892 yksA--P~L~acLMd~f~~r~R~~ALk~I~KAYrptIPL~~LaelLgFds~d~a~~~~e~~~~~~lEEc~eFLk~~Gl~v 969 (991)
+.-- +-...-+|.-|-+.-|+++..-+..+|. +|-+.+++-.||+.. +|+...+-+.|+.+
T Consensus 98 I~~~dWSeeak~imaAf~D~~~kR~FaLl~qAYs-sI~~~D~A~FlGl~~----------------ddAtk~ilEnGWqa 160 (197)
T KOG4414|consen 98 INAHDWSEEAKDIMAAFRDATRKRAFALLLQAYS-SIIADDFAAFLGLPE----------------DDATKGILENGWQA 160 (197)
T ss_pred HhhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHhCCCH----------------HHHHHHHHHcccch
Confidence 7643 3334568889999999999999999998 899999999999976 47888888999875
No 13
>COG5187 RPN7 26S proteasome regulatory complex component, contains PCI domain [Posttranslational modification, protein turnover, chaperones]
Probab=90.23 E-value=3.6 Score=46.74 Aligned_cols=147 Identities=18% Similarity=0.256 Sum_probs=85.6
Q ss_pred hhhHHHHHHHHHHHHhcCChhhHHHHHHHHHHHHHcCcC-CChhHHHHHHHHHHhhccC---------------chHHHH
Q 001958 791 QLTAKVYETHARLAIENGDLPEYNQCQSQLKILYAEGIE-GCCMEFSAYHLLCVILHSN---------------NKRELL 854 (991)
Q Consensus 791 eFTV~VYE~hARfaLeagDL~EFNQCqtQLk~LY~egi~-gnEaEF~AYrILY~Ll~~n---------------N~sDLl 854 (991)
..-|+|+-+.+|+.+.-+|.---.+-+..+..+|+.|-. ..+.-..+|.=++.|...+ ...+++
T Consensus 149 g~KiDv~l~kiRlg~~y~d~~vV~e~lE~~~~~iEkGgDWeRrNRyK~Y~Gi~~m~~RnFkeAa~Ll~d~l~tF~S~El~ 228 (412)
T COG5187 149 GLKIDVFLCKIRLGLIYGDRKVVEESLEVADDIIEKGGDWERRNRYKVYKGIFKMMRRNFKEAAILLSDILPTFESSELI 228 (412)
T ss_pred ccchhhHHHHHHHHHhhccHHHHHHHHHHHHHHHHhCCCHHhhhhHHHHHHHHHHHHHhhHHHHHHHHHHhccccccccc
Confidence 456889999999999888876666667777777765421 1122233343333222110 001110
Q ss_pred HH-----------HH-----hhhHHHhhCHH----------HHHHHHHHHHHHhCCHHHHHHHHh--cCChhHHH-----
Q 001958 855 SL-----------MS-----RLSDKAKQDKA----------VKHALAVRAAVSSGNYIMFFRLYK--TAPNLNTC----- 901 (991)
Q Consensus 855 ~~-----------L~-----~Lp~eikkdp~----------VqfAL~Vr~Ala~GNYvRFFrLyk--sAP~L~ac----- 901 (991)
.. |. .+...|..+|. +.--..+...+-..||..||.-+. -+..|..|
T Consensus 229 sY~~~vrYa~~~Gl~~leR~diktki~dspevl~vi~~~e~l~sl~~l~~SLy~cdY~~~F~~ll~~~~n~L~~d~fl~r 308 (412)
T COG5187 229 SYSRAVRYAIFCGLLRLERRDIKTKILDSPEVLDVIGSSEKLGSLVQLATSLYECDYGGDFMNLLYLFCNSLQDDVFLGR 308 (412)
T ss_pred cHHHHHHHHHHhhhheeehhhhhhhhcCCHHHHHhccchhhhhhHHHHHHHHHHhccchhhHHHHHHHHhhccchHHHHH
Confidence 00 00 01112333442 222234555677889998887543 23333322
Q ss_pred HHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHhhCCC
Q 001958 902 LMDLYVEKMRFKAVSCMSRSYRPTVPVSYVAQVLGFT 938 (991)
Q Consensus 902 LMd~f~~r~R~~ALk~I~KAYrptIPL~~LaelLgFd 938 (991)
..+.|+.+||+++...+--+|| .+.|+-++.-+|..
T Consensus 309 h~d~fvREMRrrvYaQlLESYr-~lsl~sMA~tFgVS 344 (412)
T COG5187 309 HVDLFVREMRRRVYAQLLESYR-LLSLESMAQTFGVS 344 (412)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH-HhhHHHHHHHhCcc
Confidence 4578999999999999999998 78888888877765
No 14
>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=83.45 E-value=5.6 Score=44.98 Aligned_cols=126 Identities=13% Similarity=0.203 Sum_probs=83.1
Q ss_pred hhHHHHHHHHHHHHHc---CcCCChhHHHHHHHHHHhhccCchHHHHHHHHhhhHHHhhCHHHHHHHHHHHHHHhCCHHH
Q 001958 811 PEYNQCQSQLKILYAE---GIEGCCMEFSAYHLLCVILHSNNKRELLSLMSRLSDKAKQDKAVKHALAVRAAVSSGNYIM 887 (991)
Q Consensus 811 ~EFNQCqtQLk~LY~e---gi~gnEaEF~AYrILY~Ll~~nN~sDLl~~L~~Lp~eikkdp~VqfAL~Vr~Ala~GNYvR 887 (991)
++|...-+-..+.|.. .-.+.+.--.-|-+|-.|+. .+++.-+=.+--...+.+|.|-.--.+..|+..++...
T Consensus 245 g~fe~AhTDFFEAFKNYDEsGspRRttCLKYLVLANMLm---kS~iNPFDsQEAKPyKNdPEIlAMTnlv~aYQ~NdI~e 321 (440)
T KOG1464|consen 245 GEFEKAHTDFFEAFKNYDESGSPRRTTCLKYLVLANMLM---KSGINPFDSQEAKPYKNDPEILAMTNLVAAYQNNDIIE 321 (440)
T ss_pred chHHHHHhHHHHHHhcccccCCcchhHHHHHHHHHHHHH---HcCCCCCcccccCCCCCCHHHHHHHHHHHHHhcccHHH
Confidence 5777777776666543 22233444445555555543 11221111111123568898888888999999999999
Q ss_pred HHHHHhcC------ChhHHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHhhCCCCC
Q 001958 888 FFRLYKTA------PNLNTCLMDLYVEKMRFKAVSCMSRSYRPTVPVSYVAQVLGFTGV 940 (991)
Q Consensus 888 FFrLyksA------P~L~acLMd~f~~r~R~~ALk~I~KAYrptIPL~~LaelLgFds~ 940 (991)
|=++++.- ....+--|+-++..+|...|-.+.|-|. .|-+.||.+.|..+..
T Consensus 322 FE~Il~~~~~~IM~DpFIReh~EdLl~niRTQVLlkLIkPYt-~i~Ipfis~~Lnv~~~ 379 (440)
T KOG1464|consen 322 FERILKSNRSNIMDDPFIREHIEDLLRNIRTQVLLKLIKPYT-NIGIPFISKELNVPEA 379 (440)
T ss_pred HHHHHHhhhccccccHHHHHHHHHHHHHHHHHHHHHHhcccc-ccCchhhHhhcCCCHH
Confidence 98888731 1222334567788999999999999997 8999999999998764
No 15
>smart00753 PAM PCI/PINT associated module.
Probab=80.93 E-value=3 Score=37.42 Aligned_cols=37 Identities=22% Similarity=0.421 Sum_probs=33.4
Q ss_pred HHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHhhCCCCC
Q 001958 903 MDLYVEKMRFKAVSCMSRSYRPTVPVSYVAQVLGFTGV 940 (991)
Q Consensus 903 Md~f~~r~R~~ALk~I~KAYrptIPL~~LaelLgFds~ 940 (991)
++.+..++|..+|..+++.|. .|+++.|++.|+++.+
T Consensus 3 ~~~l~~~~~~~~l~~l~~~y~-~i~~~~i~~~~~l~~~ 39 (88)
T smart00753 3 VERLQRKIRLTNLLQLSEPYS-SISLSDLAKLLGLSVP 39 (88)
T ss_pred HHHHHHHHHHHHHHHHhHHhc-eeeHHHHHHHhCcCHH
Confidence 456789999999999999998 9999999999999764
No 16
>smart00088 PINT motif in proteasome subunits, Int-6, Nip-1 and TRIP-15. Also called the PCI (Proteasome, COP9, Initiation factor 3) domain. Unknown function.
Probab=80.93 E-value=3 Score=37.42 Aligned_cols=37 Identities=22% Similarity=0.421 Sum_probs=33.4
Q ss_pred HHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHhhCCCCC
Q 001958 903 MDLYVEKMRFKAVSCMSRSYRPTVPVSYVAQVLGFTGV 940 (991)
Q Consensus 903 Md~f~~r~R~~ALk~I~KAYrptIPL~~LaelLgFds~ 940 (991)
++.+..++|..+|..+++.|. .|+++.|++.|+++.+
T Consensus 3 ~~~l~~~~~~~~l~~l~~~y~-~i~~~~i~~~~~l~~~ 39 (88)
T smart00088 3 VERLQRKIRLTNLLQLSEPYS-SISLSDLAKLLGLSVP 39 (88)
T ss_pred HHHHHHHHHHHHHHHHhHHhc-eeeHHHHHHHhCcCHH
Confidence 456789999999999999998 9999999999999764
No 17
>KOG1076 consensus Translation initiation factor 3, subunit c (eIF-3c) [Translation, ribosomal structure and biogenesis]
Probab=77.57 E-value=49 Score=41.62 Aligned_cols=69 Identities=19% Similarity=0.392 Sum_probs=55.3
Q ss_pred HHHHHHHHHHHhCCHHHHHHHHhc-------CChhHHHHHHHHHHHHHHHHHHHHHHHcCC---CCCHHHHHHhhCCCCC
Q 001958 871 KHALAVRAAVSSGNYIMFFRLYKT-------APNLNTCLMDLYVEKMRFKAVSCMSRSYRP---TVPVSYVAQVLGFTGV 940 (991)
Q Consensus 871 qfAL~Vr~Ala~GNYvRFFrLyks-------AP~L~acLMd~f~~r~R~~ALk~I~KAYrp---tIPL~~LaelLgFds~ 940 (991)
.|++.--+|+..|||.+-|..+.. +|.+ --++++...+|+..+|++---+|.. +|+|+.|++++-+...
T Consensus 655 ehVvaAsKAm~~Gnw~~c~~fi~nn~KvW~Lfpn~-d~V~~Ml~~rIqEEsLRTYLftYss~Y~SvSl~~LA~mFdLp~~ 733 (843)
T KOG1076|consen 655 EHVVAASKAMQKGNWQKCFEFIVNNIKVWDLFPNA-DTVLDMLTERIQEESLRTYLFTYSSVYDSVSLAKLADMFDLPEP 733 (843)
T ss_pred HHHHHHHHHHhcCCHHHHHHHHHhhhhHHHhcccH-HHHHHHHHHHHHHHHHHHHHHHhhhhhhhccHHHHHHHhCCCch
Confidence 356666789999999999996654 2332 3478999999999999998888763 8999999999888765
No 18
>KOG2581 consensus 26S proteasome regulatory complex, subunit RPN3/PSMD3 [Posttranslational modification, protein turnover, chaperones]
Probab=76.73 E-value=43 Score=39.88 Aligned_cols=71 Identities=15% Similarity=0.227 Sum_probs=50.5
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHhcCC-hhHH----HHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHhhCCCCC
Q 001958 869 AVKHALAVRAAVSSGNYIMFFRLYKTAP-NLNT----CLMDLYVEKMRFKAVSCMSRSYRPTVPVSYVAQVLGFTGV 940 (991)
Q Consensus 869 ~VqfAL~Vr~Ala~GNYvRFFrLyksAP-~L~a----cLMd~f~~r~R~~ALk~I~KAYrptIPL~~LaelLgFds~ 940 (991)
.+..=+.|-.|+..||-.+|=..+.+-- -+++ -|+-++-..+-..+++.|.-+|. .|.+.+|++.|+++++
T Consensus 317 sL~~Yf~Lt~AVr~gdlkkF~~~leq~k~~f~~D~ty~LivRLR~NVIkTgIR~ISlsYS-RISl~DIA~kL~l~Se 392 (493)
T KOG2581|consen 317 SLRPYFKLTQAVRLGDLKKFNETLEQFKDKFQADGTYTLIVRLRHNVIKTGIRKISLSYS-RISLQDIAKKLGLNSE 392 (493)
T ss_pred HHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHhhhheeeeee-eccHHHHHHHhcCCCc
Confidence 4555567888999999999987776421 1111 23333344444567888888997 9999999999999987
No 19
>KOG1498 consensus 26S proteasome regulatory complex, subunit RPN5/PSMD12 [Posttranslational modification, protein turnover, chaperones]
Probab=56.23 E-value=2.2e+02 Score=34.18 Aligned_cols=169 Identities=17% Similarity=0.231 Sum_probs=95.0
Q ss_pred hhhHHHHHHHhh-------hHHhhhHhhccc---------hhhHHHHHHHHHHHHhcCChhhHHHHHHHHHHHHHcCcCC
Q 001958 767 KNYLYKCDQLKS-------IRQDLTVQRIRN---------QLTAKVYETHARLAIENGDLPEYNQCQSQLKILYAEGIEG 830 (991)
Q Consensus 767 k~Y~FI~DRLRS-------IRQDLTVQ~I~n---------eFTV~VYE~hARfaLeagDL~EFNQCqtQLk~LY~egi~g 830 (991)
..-.||-+|+|= ||-+++.--|.- ++-++-||-++|+++..+ .=||-| ...+.+|+.+.-.
T Consensus 169 ekV~fiLEQmrKOG~~~D~vra~i~skKI~~K~F~~~~~~~lKlkyY~lmI~l~lh~~--~Yl~v~-~~Yraiy~t~~vk 245 (439)
T KOG1498|consen 169 EKVAFILEQMRLCLLRLDYVRAQIISKKINKKFFEKPDVQELKLKYYELMIRLGLHDR--AYLNVC-RSYRAIYDTGNVK 245 (439)
T ss_pred HHHHHHHHHHHHHHHhhhHHHHHHHHHHhhHHhcCCccHHHHHHHHHHHHHHhccccc--chhhHH-HHHHHHhcccccc
Confidence 345788888884 344444444432 235677999999876432 234555 3577778764211
Q ss_pred ChhHHHHHHHH----HHhh--ccCchHHHHHHHHhhhHHHhhCHHHHHHHHHHHHHHhCCHHHHHHHHhc----C-----
Q 001958 831 CCMEFSAYHLL----CVIL--HSNNKRELLSLMSRLSDKAKQDKAVKHALAVRAAVSSGNYIMFFRLYKT----A----- 895 (991)
Q Consensus 831 nEaEF~AYrIL----Y~Ll--~~nN~sDLl~~L~~Lp~eikkdp~VqfAL~Vr~Ala~GNYvRFFrLyks----A----- 895 (991)
-..|=..+.|. |.++ +.+-..+++..+. ....+...|..+--|++..--.+-+|+.+-+-|.. .
T Consensus 246 ~d~~kw~~vL~~iv~f~~LAp~dneQsdll~~is-~dKkL~e~p~~k~lLklfv~~EL~rw~s~~~~yg~~l~~~~~~~~ 324 (439)
T KOG1498|consen 246 EDPEKWIEVLRSIVSFCVLAPHDNEQSDLLARIS-NDKKLSELPDYKELLKLFVTMELIRWVSLVESYGDELRTNDFFDG 324 (439)
T ss_pred cChhhhhhhhhhheeEEeecCCCcHHHHHHHHHh-cccccccCccHHHHHHHHHhcceeeehhHhhhhHHHHhhcccccc
Confidence 11121222111 1111 1233455555554 33445566777766666655555555555444431 1
Q ss_pred ChhHHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHhhCCCCC
Q 001958 896 PNLNTCLMDLYVEKMRFKAVSCMSRSYRPTVPVSYVAQVLGFTGV 940 (991)
Q Consensus 896 P~L~acLMd~f~~r~R~~ALk~I~KAYrptIPL~~LaelLgFds~ 940 (991)
.-++.--++-.-.|+=.+=+++|++=|. .|++..|.++|++..+
T Consensus 325 ~~~gek~~~dL~~RIiEHNiRiiA~yYS-rIt~~rl~eLLdl~~e 368 (439)
T KOG1498|consen 325 GEEGEKRWSDLKLRIIEHNIRIIAKYYS-RITLKRLAELLDLPVE 368 (439)
T ss_pred cchhhhHHHHHHHHHHHHHHHHHHHHHh-hccHHHHHHHhCCCHH
Confidence 2233333444455566667889999997 9999999999999753
No 20
>KOG2753 consensus Uncharacterized conserved protein, contains PCI domain [General function prediction only]
Probab=49.26 E-value=3.1e+02 Score=32.38 Aligned_cols=160 Identities=13% Similarity=0.115 Sum_probs=90.2
Q ss_pred hhhHHHHHHHhhhHHhhhHhhccchhhHHHHHHHHHHHHhcCChhhHHHHHHHHHHHHHcCc-C-CChhHHHHHHHHHHh
Q 001958 767 KNYLYKCDQLKSIRQDLTVQRIRNQLTAKVYETHARLAIENGDLPEYNQCQSQLKILYAEGI-E-GCCMEFSAYHLLCVI 844 (991)
Q Consensus 767 k~Y~FI~DRLRSIRQDLTVQ~I~neFTV~VYE~hARfaLeagDL~EFNQCqtQLk~LY~egi-~-gnEaEF~AYrILY~L 844 (991)
.+..++.|+|+---=|. +.-.++|-...+...++.-.++=-|..+-|..-|.+-- . ..+.-++| +...
T Consensus 145 ~~lk~~~~~lkew~~~v-------edqrel~r~v~~al~~~k~~~~s~kvmt~lLgtyt~dnas~AredA~rc---V~~a 214 (378)
T KOG2753|consen 145 PNLKQLDDWLKEWNISV-------EDQRELLRAVHKALKDNKSVDESSKVMTELLGTYTEDNASEAREDAMRC---VVEA 214 (378)
T ss_pred ccHHHHHHHHHhCCCCH-------HHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHHhcccchhHHHHHHHHH---HHHH
Confidence 35566666666432222 22223333333434444445555677777877786521 1 12333333 2222
Q ss_pred hccCchHHHHHHHHhhhHH-HhhCHHHHHHHHHHHHHHhCCHHHHHHHHhcCChhHHH--HHHHHHHHHHHHHHHHHHHH
Q 001958 845 LHSNNKRELLSLMSRLSDK-AKQDKAVKHALAVRAAVSSGNYIMFFRLYKTAPNLNTC--LMDLYVEKMRFKAVSCMSRS 921 (991)
Q Consensus 845 l~~nN~sDLl~~L~~Lp~e-ikkdp~VqfAL~Vr~Ala~GNYvRFFrLyksAP~L~ac--LMd~f~~r~R~~ALk~I~KA 921 (991)
+. .-..-++..|.+||+- .++-..|--.|.|...=++..|+.|..--. -++..+ .=+..+.+||+..|..|+..
T Consensus 215 v~-dP~~F~fD~Ll~L~pV~qLE~d~i~qLL~IF~s~~L~aYveF~~~N~--~Fvqs~gl~~E~~~~KMRLLTlm~LA~e 291 (378)
T KOG2753|consen 215 VK-DPKIFLFDHLLTLPPVKQLEGDLIHQLLKIFVSGKLDAYVEFVAANS--GFVQSQGLVHEQNMAKMRLLTLMSLAEE 291 (378)
T ss_pred Hc-CCceeccchhccCchHHHhccchHHHHHHHHHhcchHHHHHHHHhCh--HHHHHhcccHHHHHHHHHHHHHHHHhcc
Confidence 21 1222334445566652 233333667778777777788888865322 222222 33467789999999999873
Q ss_pred cCCCCCHHHHHHhhCCCCC
Q 001958 922 YRPTVPVSYVAQVLGFTGV 940 (991)
Q Consensus 922 YrptIPL~~LaelLgFds~ 940 (991)
.+.||.+.|++.|....+
T Consensus 292 -s~eisy~~l~k~LqI~ed 309 (378)
T KOG2753|consen 292 -SNEISYDTLAKELQINED 309 (378)
T ss_pred -CCCCCHHHHHHHhccCHH
Confidence 349999999999999764
No 21
>PF01756 ACOX: Acyl-CoA oxidase; InterPro: IPR002655 Acyl-CoA oxidase (ACO) acts on CoA derivatives of fatty acids with chain lengths from 8 to 18. It catalyses the first and rate-determining step of the peroxisomal beta-oxidation of fatty acids []. Acyl-CoA oxidase is a homodimer and the polypeptide chain of the subunit is folded into the N-terminal alpha-domain, beta-domain, and C-terminal alpha-domain []. Functional differences between the peroxisomal acyl-CoA oxidases and the mitochondrial acyl-CoA dehydrogenases are attributed to structural differences in the FAD environments []. Experimental data indicate that, in the pumpkin, the expression pattern of ACOX is very similar to that of the glyoxysomal enzyme 3-ketoacyl-CoA thiolase []. In humans, defects in ACOX1 are the cause of pseudoneonatal adrenoleukodystrophy, also known as peroxisomal acyl-CoA oxidase deficiency. Pseudo-NALD is a peroxisomal single-enzyme disorder. Clinical features include mental retardation, leukodystrophy, seizures, mild hepatomegaly and hearing deficit. Pseudo-NALD is characterised by increased plasma levels of very-long chain fatty acids due to a decrease in, or absence of, peroxisome acyl-CoA oxidase activity, despite the peroxisomes being intact and functioning. This entry represents the Acyl-CoA oxidase C-terminal.; GO: 0003997 acyl-CoA oxidase activity, 0006635 fatty acid beta-oxidation, 0055114 oxidation-reduction process, 0005777 peroxisome; PDB: 2FON_A 1IS2_B 2DDH_A 1W07_B.
Probab=47.29 E-value=1.1e+02 Score=31.71 Aligned_cols=139 Identities=21% Similarity=0.237 Sum_probs=65.0
Q ss_pred CCCCHHHHHHHHHHHHhhchhhHHHHHHHhh-hHHhhhHhhccchhhHHHHHHHHHHHHhc-------------CChhhH
Q 001958 748 TVRPEEVLEKALQMVQNSQKNYLYKCDQLKS-IRQDLTVQRIRNQLTAKVYETHARLAIEN-------------GDLPEY 813 (991)
Q Consensus 748 dVRPp~VL~KTLdyLl~k~k~Y~FI~DRLRS-IRQDLTVQ~I~neFTV~VYE~hARfaLea-------------gDL~EF 813 (991)
|+|-+++|.+.+++.....-. -+.++++. ++.........|+-.+.+.+ .+|.|++. ..-++.
T Consensus 1 d~~~~~~l~~a~~~r~~~ll~--~~~~~l~~~~~~g~~~~~awn~~~~~l~~-~a~Ah~e~~i~~~f~~~i~~~~~~~~~ 77 (187)
T PF01756_consen 1 DLLDPEFLLQAFEHRAARLLQ--RAAQKLQKLMKSGKSPFEAWNDCSVQLVR-AAKAHAERYILEQFIEAIQSSCADPEV 77 (187)
T ss_dssp GGGSHHHHHHHHHHHHHHHHH--HHHHHHCTSHHHHSSHHHHHHHTHHHHHH-HHHHHHHHHHHHHHHHHTTSG-SSTTH
T ss_pred CCCCHHHHHHHHHHHHHHHHH--HHHHHHHHHHhcCCCHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHhcccCCChHH
Confidence 467788888888886542100 02222332 33333333333333322221 12222211 122345
Q ss_pred HHHHHHHHHHHHcC-cCCChhHHHHHHHHHHhhccCchHHHHHHHHhhhHHHhhCHHHHHHHHHHHHH------------
Q 001958 814 NQCQSQLKILYAEG-IEGCCMEFSAYHLLCVILHSNNKRELLSLMSRLSDKAKQDKAVKHALAVRAAV------------ 880 (991)
Q Consensus 814 NQCqtQLk~LY~eg-i~gnEaEF~AYrILY~Ll~~nN~sDLl~~L~~Lp~eikkdp~VqfAL~Vr~Al------------ 880 (991)
-+-+.+|..||... +..+-.+|..+.+|- ......|-..+.+|-.+++-+ |+.|..||
T Consensus 78 ~~vL~~L~~Lyal~~i~~~~g~fl~~g~ls----~~~~~~l~~~i~~l~~~lrp~-----av~LVDAF~~~D~~L~S~iG 148 (187)
T PF01756_consen 78 RQVLRQLCQLYALSIIEENAGDFLEHGYLS----PEQIKALRKAIEELCAELRPN-----AVALVDAFDFPDFFLNSPIG 148 (187)
T ss_dssp HHHHHHHHHHHHHHHHHHTHHHHHHTTSS-----HHHHHHHHHHHHHHHHHHGGG-----HHHHHHTT---HHHHT-STT
T ss_pred HHHHHHHHHHHhHHHHHHHHHHHHhCCcCC----HHHHHHHHHHHHHHHHHHHhH-----HHHHHHhcCCCHHHHcChhc
Confidence 66778888888642 233445555554331 111223333444444445432 44444443
Q ss_pred -HhCC-HHHHHHHHhcCChh
Q 001958 881 -SSGN-YIMFFRLYKTAPNL 898 (991)
Q Consensus 881 -a~GN-YvRFFrLyksAP~L 898 (991)
..|| |.++|...++.|..
T Consensus 149 ~~DG~vYe~l~~~a~~~~~n 168 (187)
T PF01756_consen 149 RYDGDVYEALFEWAKKSPLN 168 (187)
T ss_dssp -TT--HHHHHHHHHHHSGGG
T ss_pred cccchHHHHHHHHHHHCCCC
Confidence 3577 89999988876643
No 22
>KOG2422 consensus Uncharacterized conserved protein [Function unknown]
Probab=47.01 E-value=2.1e+02 Score=35.75 Aligned_cols=146 Identities=12% Similarity=0.143 Sum_probs=71.4
Q ss_pred cchhhHHHHHHHHHHHHhcCChhh----HHHHHHHHHHHHHcCc----CCChhHH-----HHHHHHHH-----hhccCc-
Q 001958 789 RNQLTAKVYETHARLAIENGDLPE----YNQCQSQLKILYAEGI----EGCCMEF-----SAYHLLCV-----ILHSNN- 849 (991)
Q Consensus 789 ~neFTV~VYE~hARfaLeagDL~E----FNQCqtQLk~LY~egi----~gnEaEF-----~AYrILY~-----Ll~~nN- 849 (991)
.+.+-|+-+=..|-|....||.+- ..+|+-.+-....-.+ ..|+.+| +.++|+++ |.+.+-
T Consensus 279 ssPYHvdsLLqva~~~r~qgD~e~aadLieR~Ly~~d~a~hp~F~~~sg~cRL~y~~~eNR~FyL~l~r~m~~l~~RGC~ 358 (665)
T KOG2422|consen 279 SSPYHVDSLLQVADIFRFQGDREMAADLIERGLYVFDRALHPNFIPFSGNCRLPYIYPENRQFYLALFRYMQSLAQRGCW 358 (665)
T ss_pred cCCcchhHHHHHHHHHHHhcchhhHHHHHHHHHHHHHHHhccccccccccccCcccchhhHHHHHHHHHHHHHHHhcCCh
Confidence 345667777777777777888642 3456654444333222 1244433 34333321 111111
Q ss_pred --hHHHHHHHHhhhHHHhhCH-HHHHHHHHHHHHHhCC---------HHHHHHHHhcCChhH-HHHHHHHH-----HHHH
Q 001958 850 --KRELLSLMSRLSDKAKQDK-AVKHALAVRAAVSSGN---------YIMFFRLYKTAPNLN-TCLMDLYV-----EKMR 911 (991)
Q Consensus 850 --~sDLl~~L~~Lp~eikkdp-~VqfAL~Vr~Ala~GN---------YvRFFrLyksAP~L~-acLMd~f~-----~r~R 911 (991)
..+...+|-.|.+ .+|| +|.+.|++. |+...+ +.+-|+-+..+|++. ...+-+|+ +.-|
T Consensus 359 rTA~E~cKlllsLdp--~eDPl~~l~~ID~~-ALrareYqwiI~~~~~~e~~n~l~~~PN~~yS~AlA~f~l~~~~~~~r 435 (665)
T KOG2422|consen 359 RTALEWCKLLLSLDP--SEDPLGILYLIDIY-ALRAREYQWIIELSNEPENMNKLSQLPNFGYSLALARFFLRKNEEDDR 435 (665)
T ss_pred HHHHHHHHHHhhcCC--cCCchhHHHHHHHH-HHHHHhHHHHHHHHHHHHhhccHhhcCCchHHHHHHHHHHhcCChhhH
Confidence 1233344444322 1344 344444442 333334 334444455677764 23333333 2249
Q ss_pred HHHHHHHHHHcCCCCC--HHHHHHhhCCC
Q 001958 912 FKAVSCMSRSYRPTVP--VSYVAQVLGFT 938 (991)
Q Consensus 912 ~~ALk~I~KAYrptIP--L~~LaelLgFd 938 (991)
..|+..|++|++ .+| |..|.+.|.+.
T Consensus 436 qsa~~~l~qAl~-~~P~vl~eLld~~~l~ 463 (665)
T KOG2422|consen 436 QSALNALLQALK-HHPLVLSELLDELLLG 463 (665)
T ss_pred HHHHHHHHHHHH-hCcHHHHHHHHhccCC
Confidence 999999999997 555 33444444443
No 23
>PF14782 BBS2_C: Ciliary BBSome complex subunit 2, C-terminal
Probab=43.12 E-value=1.7e+02 Score=35.17 Aligned_cols=75 Identities=24% Similarity=0.360 Sum_probs=49.1
Q ss_pred cCChhhHHHHHHHHHHHHHcCcCCChhHHHHHHHHHHhhccCchHHHHHHHHhhhHHHh-------hCHHHHHHHHHHHH
Q 001958 807 NGDLPEYNQCQSQLKILYAEGIEGCCMEFSAYHLLCVILHSNNKRELLSLMSRLSDKAK-------QDKAVKHALAVRAA 879 (991)
Q Consensus 807 agDL~EFNQCqtQLk~LY~egi~gnEaEF~AYrILY~Ll~~nN~sDLl~~L~~Lp~eik-------kdp~VqfAL~Vr~A 879 (991)
-+|+..+-+...+|..+=.+.+ ..|.|- . +|..+++..|.+|-.-|. ..+.-+..-..|.|
T Consensus 350 ~~d~~~m~k~y~~l~~~n~~l~-------~~~~~R----~-~N~~~l~~~lk~vn~~iq~a~~LRvG~~~~~~v~~cR~A 417 (431)
T PF14782_consen 350 MGDMKNMRKYYAELYDLNRDLI-------NEYKIR----C-NNHEELLSSLKEVNQIIQKASRLRVGKAKTQVVAACRAA 417 (431)
T ss_pred hhhHHHHHHHHHHHHHHHHHHH-------HHHHHH----h-hhHHHHHHHHHHHHHHHHHHhhhccCchHHHHHHHHHHH
Confidence 3677777777777777755533 233322 1 456666666665544332 34556666778899
Q ss_pred HHhCCHHHHHHHHh
Q 001958 880 VSSGNYIMFFRLYK 893 (991)
Q Consensus 880 la~GNYvRFFrLyk 893 (991)
+..+|....|++++
T Consensus 418 ik~nn~~~l~~ii~ 431 (431)
T PF14782_consen 418 IKNNNINALFKIIR 431 (431)
T ss_pred HHhcCHHHHHHHhC
Confidence 99999999999874
No 24
>PF09759 Atx10homo_assoc: Spinocerebellar ataxia type 10 protein domain; InterPro: IPR019156 This is the conserved C-terminal 100 residues of Ataxin-10. Ataxin-10 belongs to the family of armadillo repeat proteins and in solution it tends to form homotrimeric complexes, which associate via a tip-to-tip association in a horseshoe-shaped contact with the concave sides of the molecules facing each other. This domain may represent the homo-association site since that is located near the C terminus of Ataxin-10. The protein does not contain a signal sequence for secretion or any subcellular compartment confirming its cytoplasmic localisation, specifically to the olivocerebellar region [].
Probab=40.64 E-value=39 Score=32.91 Aligned_cols=73 Identities=23% Similarity=0.191 Sum_probs=47.5
Q ss_pred cCCh-hHHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHhhCCCCCCCCCcccccccCCCHHHHHHHHHHcCCeEeeC
Q 001958 894 TAPN-LNTCLMDLYVEKMRFKAVSCMSRSYRPTVPVSYVAQVLGFTGVSPTNEECEERDSDGLEECVEWLKAHGASLVTD 972 (991)
Q Consensus 894 sAP~-L~acLMd~f~~r~R~~ALk~I~KAYrptIPL~~LaelLgFds~d~a~~~~e~~~~~~lEEc~eFLk~~Gl~v~~D 972 (991)
-+|. |..|.+|-.-+-+|..|+-+|.-.....-.-..+...|--... +-.+-|++.|+.+..|
T Consensus 29 Gi~liL~~c~iD~~nP~irEwai~aiRnL~e~n~eNQ~~I~~L~~~~~----------------~~~~~L~~~G~~v~~d 92 (102)
T PF09759_consen 29 GIPLILSCCNIDDHNPFIREWAIFAIRNLCEGNPENQEFIAQLEPQGV----------------ADNEELEELGLEVEID 92 (102)
T ss_pred ChHHHHHhcCCCcccHHHHHHHHHHHHHHHhCCHHHHHHHHhccccCC----------------cchHHHHHcCCeEEEc
Confidence 3443 4567888888899999998886554333333333333333322 1225688899999998
Q ss_pred CCCceEEecc
Q 001958 973 ANGEVQLDAK 982 (991)
Q Consensus 973 ~~Ge~~ld~K 982 (991)
.+|.+.|-.|
T Consensus 93 ~~Gk~~l~~~ 102 (102)
T PF09759_consen 93 KDGKVRLKKK 102 (102)
T ss_pred CCCeEeeecC
Confidence 8898887655
No 25
>KOG2582 consensus COP9 signalosome, subunit CSN3 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=39.72 E-value=3.7e+02 Score=32.11 Aligned_cols=41 Identities=12% Similarity=0.232 Sum_probs=28.6
Q ss_pred CCcCccccccchhhHHhhhccCCCCCCCCCCCHHHHHHHHHHHHhh
Q 001958 720 DWDALTVKGTCQEIEKRYLRLTSAPDPSTVRPEEVLEKALQMVQNS 765 (991)
Q Consensus 720 dwd~~~IVGTCq~LEK~YlRLTaaPdPsdVRPp~VL~KTLdyLl~k 765 (991)
..-...|+++|..|--...... .-+|+..++.++++.+...
T Consensus 95 r~as~~f~~lc~~l~~~~~~~~-----~p~~gi~ii~~av~k~~~~ 135 (422)
T KOG2582|consen 95 RLASEIFFPLCHDLTEAVVKKN-----KPLRGIRIIMQAVDKMQPS 135 (422)
T ss_pred hhHHHHHHHHHHHHHHHHHhcC-----CccccchHHHHHHHHhccC
Confidence 3334579999988754444222 2479999999999998753
No 26
>KOG0260 consensus RNA polymerase II, large subunit [Transcription]
Probab=38.99 E-value=9.5e+02 Score=32.89 Aligned_cols=23 Identities=17% Similarity=0.094 Sum_probs=14.1
Q ss_pred cccccCCCCccccccCCCCCcccc
Q 001958 3 MMNQNQQGSTQNIASSVDPNSVEN 26 (991)
Q Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~ 26 (991)
|.|...|+|-|... ..-+.++|-
T Consensus 1355 m~itRhg~nr~~tg-aLmrcSfEe 1377 (1605)
T KOG0260|consen 1355 MAITRHGINRQDTG-ALMRCSFEE 1377 (1605)
T ss_pred eeeeccccchhhcc-ccccccHHH
Confidence 55666677777665 455555554
No 27
>KOG2003 consensus TPR repeat-containing protein [General function prediction only]
Probab=38.75 E-value=7.7e+02 Score=30.46 Aligned_cols=37 Identities=38% Similarity=0.562 Sum_probs=27.2
Q ss_pred hCHHHHHHHHHHHHHH-hCCHHHHHHHHhc----CChhHHHH
Q 001958 866 QDKAVKHALAVRAAVS-SGNYIMFFRLYKT----APNLNTCL 902 (991)
Q Consensus 866 kdp~VqfAL~Vr~Ala-~GNYvRFFrLyks----AP~L~acL 902 (991)
+-..++.-|-|..|++ .|||.+-|.||+. .|--..||
T Consensus 656 qp~~~kwqlmiasc~rrsgnyqka~d~yk~~hrkfpedldcl 697 (840)
T KOG2003|consen 656 QPNQSKWQLMIASCFRRSGNYQKAFDLYKDIHRKFPEDLDCL 697 (840)
T ss_pred CccHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCccchHHH
Confidence 3446778888888885 7999999999974 45444454
No 28
>PF15469 Sec5: Exocyst complex component Sec5
Probab=35.65 E-value=3.7e+02 Score=27.70 Aligned_cols=51 Identities=16% Similarity=0.114 Sum_probs=34.8
Q ss_pred HHHHHHHHHHHHHHhCCHHHHHHHHhcCChhHHHH--HHHHHHHHHHHHHHHH
Q 001958 868 KAVKHALAVRAAVSSGNYIMFFRLYKTAPNLNTCL--MDLYVEKMRFKAVSCM 918 (991)
Q Consensus 868 p~VqfAL~Vr~Ala~GNYvRFFrLyksAP~L~acL--Md~f~~r~R~~ALk~I 918 (991)
..+.....|+.++..|+|..|.+.|.++-.+..-. -...|.++...+=.+|
T Consensus 85 flF~LP~~L~~~i~~~dy~~~i~dY~kak~l~~~~~~~~~vf~~v~~eve~ii 137 (182)
T PF15469_consen 85 FLFNLPSNLRECIKKGDYDQAINDYKKAKSLFEKYKQQVPVFQKVWSEVEKII 137 (182)
T ss_pred HHHHhHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHH
Confidence 46677788999999999999999998776554322 3344555554444444
No 29
>PF04800 ETC_C1_NDUFA4: ETC complex I subunit conserved region; InterPro: IPR006885 This entry represents prokaryotic NADH-ubiquinone oxidoreductase subunits (1.6.5.3 from EC, 1.6.99.3 from EC) from complex I of the electron transport chain initially identified in Neurospora crassa as a 21 kDa protein [].; GO: 0016651 oxidoreductase activity, acting on NADH or NADPH, 0022900 electron transport chain, 0005743 mitochondrial inner membrane; PDB: 2JYA_A 2LJU_A.
Probab=35.13 E-value=23 Score=34.49 Aligned_cols=25 Identities=12% Similarity=0.246 Sum_probs=17.2
Q ss_pred CCCHHHHHHHHHHcCCeEeeCCCCc
Q 001958 952 SDGLEECVEWLKAHGASLVTDANGE 976 (991)
Q Consensus 952 ~~~lEEc~eFLk~~Gl~v~~D~~Ge 976 (991)
.+..|+++.||+.+|+.+...+.-+
T Consensus 55 F~skE~Ai~yaer~G~~Y~V~~p~~ 79 (101)
T PF04800_consen 55 FDSKEDAIAYAERNGWDYEVEEPKK 79 (101)
T ss_dssp ESSHHHHHHHHHHCT-EEEEE-STT
T ss_pred eCCHHHHHHHHHHcCCeEEEeCCCC
Confidence 3445999999999999876654333
No 30
>KOG1077 consensus Vesicle coat complex AP-2, alpha subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=34.95 E-value=9.2e+02 Score=31.36 Aligned_cols=89 Identities=12% Similarity=0.190 Sum_probs=51.2
Q ss_pred hHHHHHHHHHHhhccCchHHHH----HHHHhhhHHHhhCHHHHHHHHHHHHH---------------HhCC------HHH
Q 001958 833 MEFSAYHLLCVILHSNNKRELL----SLMSRLSDKAKQDKAVKHALAVRAAV---------------SSGN------YIM 887 (991)
Q Consensus 833 aEF~AYrILY~Ll~~nN~sDLl----~~L~~Lp~eikkdp~VqfAL~Vr~Al---------------a~GN------YvR 887 (991)
.--++..|||.|++..|.-+|. ..|......++++-.+|.|+--.+.. -.|+ |+|
T Consensus 385 irrravDLLY~mcD~~Nak~IV~elLqYL~tAd~sireeivlKvAILaEKyAtDy~WyVdviLqLiriagd~vsdeVW~R 464 (938)
T KOG1077|consen 385 IRRRAVDLLYAMCDVSNAKQIVAELLQYLETADYSIREEIVLKVAILAEKYATDYSWYVDVILQLIRIAGDYVSDEVWYR 464 (938)
T ss_pred HHHHHHHHHHHHhchhhHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHhcccccHHHHHH
Confidence 4457889999998866655444 33433333455555555554222210 0133 344
Q ss_pred HHHHHhcCChhHHHHHHHHHHHHHHHH-HHHHHHH
Q 001958 888 FFRLYKTAPNLNTCLMDLYVEKMRFKA-VSCMSRS 921 (991)
Q Consensus 888 FFrLyksAP~L~acLMd~f~~r~R~~A-Lk~I~KA 921 (991)
..+++-.-+.++.|...+.|+.+-..| =.+|.|+
T Consensus 465 vvQiVvNnedlq~yaak~~fe~Lq~~a~hE~mVKv 499 (938)
T KOG1077|consen 465 VVQIVVNNEDLQGYAAKRLFEYLQKPACHENMVKV 499 (938)
T ss_pred hheeEecchhhhHHHHHHHHHHHhhhHHHHHHHHh
Confidence 444444557788888888887776544 4677775
No 31
>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]
Probab=34.75 E-value=8.9e+02 Score=29.19 Aligned_cols=96 Identities=19% Similarity=0.137 Sum_probs=59.4
Q ss_pred HHHHHHHHHHHHhcCChhhHHHHHHHHHHHHHcCcCCC----hhHHHHHH-HHHHhhccCchHHHHHHHHhhhHHHhhCH
Q 001958 794 AKVYETHARLAIENGDLPEYNQCQSQLKILYAEGIEGC----CMEFSAYH-LLCVILHSNNKRELLSLMSRLSDKAKQDK 868 (991)
Q Consensus 794 V~VYE~hARfaLeagDL~EFNQCqtQLk~LY~egi~gn----EaEF~AYr-ILY~Ll~~nN~sDLl~~L~~Lp~eikkdp 868 (991)
.+|+-...|++|..|+..+. +.-|-.|=+.++-.. ..|-.+|. ||--+.+.+....+.....++|.+++.+|
T Consensus 187 ~~vlrLa~r~y~~~g~~~~l---l~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~~~pr~lr~~p 263 (400)
T COG3071 187 PEVLRLALRAYIRLGAWQAL---LAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWKNQPRKLRNDP 263 (400)
T ss_pred hHHHHHHHHHHHHhccHHHH---HHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHHhccHHhhcCh
Confidence 34555566777777665432 333333333332211 23556666 44444343334567788899999999999
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHh
Q 001958 869 AVKHALAVRAAVSSGNYIMFFRLYK 893 (991)
Q Consensus 869 ~VqfAL~Vr~Ala~GNYvRFFrLyk 893 (991)
.|+.++.. +.+.+|.+..-+++++
T Consensus 264 ~l~~~~a~-~li~l~~~~~A~~~i~ 287 (400)
T COG3071 264 ELVVAYAE-RLIRLGDHDEAQEIIE 287 (400)
T ss_pred hHHHHHHH-HHHHcCChHHHHHHHH
Confidence 99888754 5677888888888776
No 32
>PRK14136 recX recombination regulator RecX; Provisional
Probab=33.78 E-value=3.9e+02 Score=31.05 Aligned_cols=68 Identities=12% Similarity=0.205 Sum_probs=46.8
Q ss_pred CHHHHHHHHHHHHhh----chhh--HHHHHHHh-----hhHHhhhHhhccchhhHHHHHHHHHHHHhcCChhhHHHHHHH
Q 001958 751 PEEVLEKALQMVQNS----QKNY--LYKCDQLK-----SIRQDLTVQRIRNQLTAKVYETHARLAIENGDLPEYNQCQSQ 819 (991)
Q Consensus 751 Pp~VL~KTLdyLl~k----~k~Y--~FI~DRLR-----SIRQDLTVQ~I~neFTV~VYE~hARfaLeagDL~EFNQCqtQ 819 (991)
++++...+|++|++. ...| .||..|.+ .|||+|...+|..+..=.++|.. +..+|..++..
T Consensus 192 ~ee~IE~VIerLke~gYLDDeRFAesyVr~R~~kkGp~rIrqELrQKGId~eLIEqALeei--------eEDE~E~A~~L 263 (309)
T PRK14136 192 ESDSVEPLLDALEREGWLSDARFAESLVHRRASRVGSARIVSELKRHAVGDALVESVGAQL--------RETEFERAQAV 263 (309)
T ss_pred CHHHHHHHHHHHHHcCCcCHHHHHHHHHHHHhhchhHHHHHHHHHHcCCCHHHHHHHHHhc--------cHhHHHHHHHH
Confidence 568999999999873 2233 46665543 59999998889877666666521 33567788777
Q ss_pred HHHHHHc
Q 001958 820 LKILYAE 826 (991)
Q Consensus 820 Lk~LY~e 826 (991)
|..-|..
T Consensus 264 ~eKK~~~ 270 (309)
T PRK14136 264 WRKKFGA 270 (309)
T ss_pred HHHHhcc
Confidence 7777643
No 33
>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A.
Probab=32.57 E-value=6.1e+02 Score=27.86 Aligned_cols=112 Identities=17% Similarity=0.218 Sum_probs=58.4
Q ss_pred hhhHHHHHHHHHHHHhcCChhhHHHHHHHHHHHHHcC-----------------cCC-----ChhHHHHHHHHHHhhccC
Q 001958 791 QLTAKVYETHARLAIENGDLPEYNQCQSQLKILYAEG-----------------IEG-----CCMEFSAYHLLCVILHSN 848 (991)
Q Consensus 791 eFTV~VYE~hARfaLeagDL~EFNQCqtQLk~LY~eg-----------------i~g-----nEaEF~AYrILY~Ll~~n 848 (991)
+.+++.|+..+-++-..+....-++|+.++-.||... +.. +-.++.---+|++|.. +
T Consensus 132 e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~-~ 210 (282)
T PF14938_consen 132 EKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAM-G 210 (282)
T ss_dssp HHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHT-T
T ss_pred HHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHc-C
Confidence 4577777777777666665555566666555554321 111 1123222235666543 2
Q ss_pred chHHHHHHHHh---hhHHHhhCHHHHHHHHHHHHHHhCCHHHHH---HHHhcCChhHHHHH
Q 001958 849 NKRELLSLMSR---LSDKAKQDKAVKHALAVRAAVSSGNYIMFF---RLYKTAPNLNTCLM 903 (991)
Q Consensus 849 N~sDLl~~L~~---Lp~eikkdp~VqfAL~Vr~Ala~GNYvRFF---rLyksAP~L~acLM 903 (991)
........+.+ +-+.+......+++-.|..|+..||--.|= +-|.++..|-....
T Consensus 211 D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~l~~A~~~~D~e~f~~av~~~d~~~~ld~w~~ 271 (282)
T PF14938_consen 211 DYVAARKALERYCSQDPSFASSREYKFLEDLLEAYEEGDVEAFTEAVAEYDSISRLDNWKT 271 (282)
T ss_dssp -HHHHHHHHHHHGTTSTTSTTSHHHHHHHHHHHHHHTT-CCCHHHHCHHHTTSS---HHHH
T ss_pred CHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHhCCHHHHHHHHHHHcccCccHHHHH
Confidence 22233333333 223455678899999999999998854444 44556655554433
No 34
>PF13986 DUF4224: Domain of unknown function (DUF4224)
Probab=32.22 E-value=1.1e+02 Score=25.84 Aligned_cols=39 Identities=18% Similarity=0.465 Sum_probs=31.1
Q ss_pred CCHHHHHHhhCCCCCCCCCcccccccCCCHHHHHHHHHHcCCeEeeCCCCceEE
Q 001958 926 VPVSYVAQVLGFTGVSPTNEECEERDSDGLEECVEWLKAHGASLVTDANGEVQL 979 (991)
Q Consensus 926 IPL~~LaelLgFds~d~a~~~~e~~~~~~lEEc~eFLk~~Gl~v~~D~~Ge~~l 979 (991)
+.-+.|.++-|+.-. ..=.+||+.+|+.+..+.+|..+|
T Consensus 3 LT~~El~elTG~k~~---------------~~Q~~~L~~~Gi~~~~~~~G~p~V 41 (47)
T PF13986_consen 3 LTDEELQELTGYKRP---------------SKQIRWLRRNGIPFVVRADGRPIV 41 (47)
T ss_pred CCHHHHHHHHCCCCH---------------HHHHHHHHHCCCeeEECCCCCEEe
Confidence 456778888888765 455799999999999988896654
No 35
>KOG4637 consensus Adaptor for phosphoinositide 3-kinase [Signal transduction mechanisms]
Probab=32.01 E-value=9.8e+02 Score=28.84 Aligned_cols=31 Identities=19% Similarity=0.247 Sum_probs=23.3
Q ss_pred HHHHHHHHHhhchhhHHHHHHHhhhHHhhhH
Q 001958 755 LEKALQMVQNSQKNYLYKCDQLKSIRQDLTV 785 (991)
Q Consensus 755 L~KTLdyLl~k~k~Y~FI~DRLRSIRQDLTV 785 (991)
|..++..|.++...|+=+.+-+-++||+|-.
T Consensus 141 ~~~~~q~lq~~~~~~er~~~~y~~~~qElq~ 171 (464)
T KOG4637|consen 141 LREYHQQLQEKSLEYERLYEEYTRTSQELQM 171 (464)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4556666777777887778888899999854
No 36
>PF08784 RPA_C: Replication protein A C terminal; InterPro: IPR014892 This protein corresponds to the C-terminal of the single stranded DNA binding protein RPA (replication protein A). RPA is involved in many DNA metabolic pathways including DNA replication, DNA repair, recombination, cell cycle and DNA damage checkpoints. ; PDB: 1QUQ_C 2PQA_C 3KDF_B 2Z6K_B 2PI2_B 1L1O_E 1DPU_A 1Z1D_A.
Probab=27.49 E-value=57 Score=30.55 Aligned_cols=52 Identities=19% Similarity=0.310 Sum_probs=36.0
Q ss_pred HHHHHHHHHHHHHHHcC--CCCCHHHHHHhhCCCCCCCCCcccccccCCCHHHHHHHHHHcCCeEee
Q 001958 907 VEKMRFKAVSCMSRSYR--PTVPVSYVAQVLGFTGVSPTNEECEERDSDGLEECVEWLKAHGASLVT 971 (991)
Q Consensus 907 ~~r~R~~ALk~I~KAYr--ptIPL~~LaelLgFds~d~a~~~~e~~~~~~lEEc~eFLk~~Gl~v~~ 971 (991)
+..++.+.|..|..... --|+++.|++.|+|... .+.++++||..-|.++..
T Consensus 45 ~~~~~~~Vl~~i~~~~~~~~Gv~v~~I~~~l~~~~~-------------~v~~al~~L~~eG~IYsT 98 (102)
T PF08784_consen 45 LSPLQDKVLNFIKQQPNSEEGVHVDEIAQQLGMSEN-------------EVRKALDFLSNEGHIYST 98 (102)
T ss_dssp S-HHHHHHHHHHHC----TTTEEHHHHHHHSTS-HH-------------HHHHHHHHHHHTTSEEES
T ss_pred CCHHHHHHHHHHHhcCCCCCcccHHHHHHHhCcCHH-------------HHHHHHHHHHhCCeEecc
Confidence 45556666666655222 15999999999988754 358999999999998764
No 37
>PTZ00429 beta-adaptin; Provisional
Probab=26.49 E-value=1.2e+03 Score=30.28 Aligned_cols=124 Identities=14% Similarity=0.174 Sum_probs=58.2
Q ss_pred ccchhhHHHHHHHHHHHHhcCChhhHHHHHHHHHHHHHcCcCCChhHHHHHHHHHHhhccCchHHHHHHHH-hhhHHHhh
Q 001958 788 IRNQLTAKVYETHARLAIENGDLPEYNQCQSQLKILYAEGIEGCCMEFSAYHLLCVILHSNNKRELLSLMS-RLSDKAKQ 866 (991)
Q Consensus 788 I~neFTV~VYE~hARfaLeagDL~EFNQCqtQLk~LY~egi~gnEaEF~AYrILY~Ll~~nN~sDLl~~L~-~Lp~eikk 866 (991)
+..+|..++...+.|+++... .-...|+..|..|-..... ...| +-..+-.|+......-++..|. .+..+...
T Consensus 380 ~D~ef~r~aIrAIg~lA~k~~--~~a~~cV~~Ll~ll~~~~~-~v~e--~i~vik~IlrkyP~~~il~~L~~~~~~~~i~ 454 (746)
T PTZ00429 380 VDMVFVVEVVRAIASLAIKVD--SVAPDCANLLLQIVDRRPE-LLPQ--VVTAAKDIVRKYPELLMLDTLVTDYGADEVV 454 (746)
T ss_pred CCHHHHHHHHHHHHHHHHhCh--HHHHHHHHHHHHHhcCCch-hHHH--HHHHHHHHHHHCccHHHHHHHHHhhcccccc
Confidence 334566666666666665432 2356888888887654211 1111 1111111211100011111111 01001123
Q ss_pred CHHHHHHHHHHHHHHhCCHHHHHHHHhcCChhHHHHHHHHH---HHHHHHHHHHHHHHcC
Q 001958 867 DKAVKHALAVRAAVSSGNYIMFFRLYKTAPNLNTCLMDLYV---EKMRFKAVSCMSRSYR 923 (991)
Q Consensus 867 dp~VqfAL~Vr~Ala~GNYvRFFrLyksAP~L~acLMd~f~---~r~R~~ALk~I~KAYr 923 (991)
++..+-++ .|..|.|..+. ..++.+...+++.|. ..+|..+|.+.+|-|-
T Consensus 455 e~~AKaai----iWILGEy~~~I---~~a~~~L~~~i~~f~~E~~~VqlqlLta~vKlfl 507 (746)
T PTZ00429 455 EEEAKVSL----LWMLGEYCDFI---ENGKDIIQRFIDTIMEHEQRVQLAILSAAVKMFL 507 (746)
T ss_pred cHHHHHHH----HHHHHhhHhhH---hhHHHHHHHHHhhhccCCHHHHHHHHHHHHHHHh
Confidence 44444332 57788887754 345555444445444 3578888888888774
No 38
>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the WD-associated region found in coatomer subunits alpha, beta and beta' subunits. The alpha-subunit (RET1P) of the coatomer complex in Saccharomyces cerevisiae (Baker's yeast), participates in membrane transport between the endoplasmic reticulum and Golgi apparatus. The protein contains six WD-40 repeat motifs in its N-terminal region []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 3MKQ_B.
Probab=26.37 E-value=1.2e+03 Score=28.09 Aligned_cols=125 Identities=18% Similarity=0.236 Sum_probs=70.4
Q ss_pred HHHHHHHHHHHHhh---chhhHHHHHHHhhhHHhhhHhhcc---------chhhHHHHHHHHHHHHhcCChhhHHHHHHH
Q 001958 752 EEVLEKALQMVQNS---QKNYLYKCDQLKSIRQDLTVQRIR---------NQLTAKVYETHARLAIENGDLPEYNQCQSQ 819 (991)
Q Consensus 752 p~VL~KTLdyLl~k---~k~Y~FI~DRLRSIRQDLTVQ~I~---------neFTV~VYE~hARfaLeagDL~EFNQCqtQ 819 (991)
+.-..+...||.++ +.-..|+.|- -.|=||-+|--+ ..-...++++.+..||..||+.--.+|+.+
T Consensus 295 ~~~~~~i~~fL~~~G~~e~AL~~~~D~--~~rFeLAl~lg~L~~A~~~a~~~~~~~~W~~Lg~~AL~~g~~~lAe~c~~k 372 (443)
T PF04053_consen 295 KDQGQSIARFLEKKGYPELALQFVTDP--DHRFELALQLGNLDIALEIAKELDDPEKWKQLGDEALRQGNIELAEECYQK 372 (443)
T ss_dssp HHHHHHHHHHHHHTT-HHHHHHHSS-H--HHHHHHHHHCT-HHHHHHHCCCCSTHHHHHHHHHHHHHTTBHHHHHHHHHH
T ss_pred hhHHHHHHHHHHHCCCHHHHHhhcCCh--HHHhHHHHhcCCHHHHHHHHHhcCcHHHHHHHHHHHHHcCCHHHHHHHHHh
Confidence 44456667777664 4455666663 355567666221 112345777778888888887766677765
Q ss_pred HHHHHHcCcCCChhHHHHHHHHHHhhccCchHHHHHHHHhhhHHHhhCHHHHHHHHHHHHHHhCCHHHHHHHHhcCChh
Q 001958 820 LKILYAEGIEGCCMEFSAYHLLCVILHSNNKRELLSLMSRLSDKAKQDKAVKHALAVRAAVSSGNYIMFFRLYKTAPNL 898 (991)
Q Consensus 820 Lk~LY~egi~gnEaEF~AYrILY~Ll~~nN~sDLl~~L~~Lp~eikkdp~VqfAL~Vr~Ala~GNYvRFFrLyksAP~L 898 (991)
.+.+ ....+||.+. ++ .+-+..|..+. +.+.+-. +.+..++.+|++..-.+|+.++-.+
T Consensus 373 ~~d~------------~~L~lLy~~~--g~-~~~L~kl~~~a-~~~~~~n----~af~~~~~lgd~~~cv~lL~~~~~~ 431 (443)
T PF04053_consen 373 AKDF------------SGLLLLYSST--GD-REKLSKLAKIA-EERGDIN----IAFQAALLLGDVEECVDLLIETGRL 431 (443)
T ss_dssp CT-H------------HHHHHHHHHC--T--HHHHHHHHHHH-HHTT-HH----HHHHHHHHHT-HHHHHHHHHHTT-H
T ss_pred hcCc------------cccHHHHHHh--CC-HHHHHHHHHHH-HHccCHH----HHHHHHHHcCCHHHHHHHHHHcCCc
Confidence 5543 3455666652 34 34444444432 2233333 3445788899999998888876543
No 39
>PF03851 UvdE: UV-endonuclease UvdE; InterPro: IPR004601 Schizosaccharomyces pombe ultraviolet damage endonuclease (UVDE or Uve1p) performs the initial step in an alternative excision repair pathway for UV-induced DNA damage. This DNA repair pathway was originally thought to be specific for UV damage, however Uve1p also recognises UV-induced bipyrimidine photoadducts and other non-UV-induced DNA adducts []. The Deinococcus radiodurans UVSE protein has also shown to be a UV DNA damage endonuclease that catalyzes repair of UV-induced DNA damage by a similar mechanism [].; GO: 0004519 endonuclease activity, 0006289 nucleotide-excision repair, 0009411 response to UV; PDB: 3BZG_A 3BZJ_A 3C0L_A 3C0S_A 3C0Q_A.
Probab=26.12 E-value=29 Score=39.01 Aligned_cols=84 Identities=14% Similarity=0.192 Sum_probs=47.7
Q ss_pred HHHHHhCCHHHH-HHHHhcCChhHHHHHHHHHHH---HHHHHHHHHHHHcCCCCCHHHHHHhhCCCCCCCCCcccccccC
Q 001958 877 RAAVSSGNYIMF-FRLYKTAPNLNTCLMDLYVEK---MRFKAVSCMSRSYRPTVPVSYVAQVLGFTGVSPTNEECEERDS 952 (991)
Q Consensus 877 r~Ala~GNYvRF-FrLyksAP~L~acLMd~f~~r---~R~~ALk~I~KAYrptIPL~~LaelLgFds~d~a~~~~e~~~~ 952 (991)
.+++..=+||.- ++++. ++......|.+|++- -+..||..+.+.|+ .+|-. |.+.|-++++|...
T Consensus 122 ~~si~~L~yH~~~Ld~mg-~~~~~~~~i~IH~GG~YgdK~~al~RF~~~~~-~L~~~-ir~rL~lENDd~~y-------- 190 (275)
T PF03851_consen 122 ENSIRDLEYHARLLDLMG-LDDSPDHKINIHVGGVYGDKEAALERFIENFK-RLPES-IRKRLTLENDDKTY-------- 190 (275)
T ss_dssp HHHHHHHHHHHHHHHHTT--TT----EEEEE----SS-HHHHHHHHHHHHH-T--HH-HHTTEEEE--SSS---------
T ss_pred HHHHHHHHHHHHHHHHcC-CCcccccEEEEeeCCCCCChHHHHHHHHHHHh-hCCHh-hhhcEEEecCCCcc--------
Confidence 445555566543 34443 332223455566663 37788888888886 66644 77889999875432
Q ss_pred CCHHHHHHHHHHcCCeEeeC
Q 001958 953 DGLEECVEWLKAHGASLVTD 972 (991)
Q Consensus 953 ~~lEEc~eFLk~~Gl~v~~D 972 (991)
.++|++..|+..|+.++.|
T Consensus 191 -t~~d~L~ic~~~giP~VfD 209 (275)
T PF03851_consen 191 -TVEDVLPICEKLGIPMVFD 209 (275)
T ss_dssp --HHHHHHHHHHHT--EEEE
T ss_pred -CHHHHHHHHHHhCCCEEEE
Confidence 3699999999999999888
No 40
>TIGR02297 HpaA 4-hydroxyphenylacetate catabolism regulatory protein HpaA. This putative transcriptional regulator, which contains both the substrate-binding, dimerization domain (pfam02311) and the helix-turn-helix DNA-binding domain (pfam00165) of the AraC famil, is located proximal to genes of the 4-hydroxyphenylacetate catabolism pathway.
Probab=26.00 E-value=8.5e+02 Score=26.19 Aligned_cols=34 Identities=9% Similarity=0.077 Sum_probs=22.7
Q ss_pred HHHHHHHHHHHHHHHHHcCCCCCHHHHHHhhCCCCC
Q 001958 905 LYVEKMRFKAVSCMSRSYRPTVPVSYVAQVLGFTGV 940 (991)
Q Consensus 905 ~f~~r~R~~ALk~I~KAYrptIPL~~LaelLgFds~ 940 (991)
.|+...|+.-.+.+-+ ...+++..|+..+||.+.
T Consensus 233 ~yi~~~Rl~~A~~lL~--~t~~sI~eIA~~~GF~s~ 266 (287)
T TIGR02297 233 RLIIERVMQEARRLLL--FTQHSINQIAYDLGYKDP 266 (287)
T ss_pred HHHHHHHHHHHHHHHH--cCCCCHHHHHHHhCCCCH
Confidence 3444555544444322 247999999999999987
No 41
>KOG3389 consensus NADH:ubiquinone oxidoreductase, NDUFS4/18 kDa subunit [Energy production and conversion]
Probab=24.58 E-value=34 Score=35.57 Aligned_cols=42 Identities=21% Similarity=0.310 Sum_probs=30.5
Q ss_pred CCHHHHHHhhCCCCCCCCCcccccccCCCHHHHHHHHHHcCCeEeeCCCCceEEecc
Q 001958 926 VPVSYVAQVLGFTGVSPTNEECEERDSDGLEECVEWLKAHGASLVTDANGEVQLDAK 982 (991)
Q Consensus 926 IPL~~LaelLgFds~d~a~~~~e~~~~~~lEEc~eFLk~~Gl~v~~D~~Ge~~ld~K 982 (991)
=||..+--.|.|+.. |+++.||+.+|+.+...+..+-.+..|
T Consensus 120 DPlsNvgm~L~F~tk---------------EdA~sFaEkngW~ydveep~~pk~K~K 161 (178)
T KOG3389|consen 120 DPLSNVGMALAFDTK---------------EDAKSFAEKNGWDYDVEEPNTPKLKVK 161 (178)
T ss_pred CcccccceeeeeccH---------------HHHHHHHHHcCCcccccCCCCCccccc
Confidence 456666667888777 899999999999987665554444444
No 42
>PF12413 DLL_N: Homeobox protein distal-less-like N terminal ; InterPro: IPR022135 This domain family is found in eukaryotes, and is approximately 80 amino acids in length. The family is found in association with PF00046 from PFAM. This family is the N-terminal of a homeobox protein involved in embryonic development and adult neural regeneration.
Probab=23.58 E-value=1.4e+02 Score=28.68 Aligned_cols=18 Identities=44% Similarity=0.767 Sum_probs=12.5
Q ss_pred CCcccCCCCCC-CcCcccc
Q 001958 148 VGAYQNSGAPY-QPISSFQ 165 (991)
Q Consensus 148 ~g~~q~~ga~~-qp~~~f~ 165 (991)
.|-.+.++.+| +||.++|
T Consensus 26 h~y~~~~~~~y~~~ln~Yq 44 (86)
T PF12413_consen 26 HGYCSPSGQPYGQQLNSYQ 44 (86)
T ss_pred CCccCCCcccccccCCccc
Confidence 34555577888 8888765
No 43
>PF06156 DUF972: Protein of unknown function (DUF972); InterPro: IPR010377 FUNCTION: Involved in initiation control of chromosome replication. SUBUNIT: Interacts with both DnaA and DnaN, acting as a bridge between these two proteins. SIMILARITY: Belongs to the YabA family.
Probab=23.39 E-value=2.5e+02 Score=27.70 Aligned_cols=38 Identities=37% Similarity=0.516 Sum_probs=27.5
Q ss_pred hhHHHHHHHHHHHHhcCChhhH----H----------------HHHHHHHHHHHcCcC
Q 001958 792 LTAKVYETHARLAIENGDLPEY----N----------------QCQSQLKILYAEGIE 829 (991)
Q Consensus 792 FTV~VYE~hARfaLeagDL~EF----N----------------QCqtQLk~LY~egi~ 829 (991)
....++|.++++-||+..|-+. . +-..-|..||.+|+.
T Consensus 30 ~~~~l~EEN~~L~~EN~~Lr~~l~~~~~~~~~~~~~~~~~~~~~g~~NL~~LY~EGFH 87 (107)
T PF06156_consen 30 QLQELLEENARLRIENEHLRERLEELEQEEEEKEEKKTKKKLGEGRDNLARLYQEGFH 87 (107)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhccccccccccccccccchHHHHHHHHhcCee
Confidence 3478999999999998765432 1 234469999999853
No 44
>KOG0775 consensus Transcription factor SIX and related HOX domain proteins [Transcription]
Probab=22.86 E-value=1.7e+02 Score=33.50 Aligned_cols=30 Identities=27% Similarity=0.437 Sum_probs=15.6
Q ss_pred HHhhCHHHHHHHHHHHHHHhCCHHHHHHHHh
Q 001958 863 KAKQDKAVKHALAVRAAVSSGNYIMFFRLYK 893 (991)
Q Consensus 863 eikkdp~VqfAL~Vr~Ala~GNYvRFFrLyk 893 (991)
+++.++.|-.|-.| .||..|||..+|+|+.
T Consensus 94 ~~~~nEsvLkArA~-vafH~gnf~eLY~iLE 123 (304)
T KOG0775|consen 94 ELLKNESVLKARAV-VAFHSGNFRELYHILE 123 (304)
T ss_pred HHhhhHHHHHHHHH-HHHhcccHHHHHHHHH
Confidence 34444444444333 4556666666666665
No 45
>KOG3758 consensus Uncharacterized conserved protein [Function unknown]
Probab=22.13 E-value=8.3e+02 Score=31.03 Aligned_cols=173 Identities=9% Similarity=0.115 Sum_probs=86.3
Q ss_pred CCCCCCCCCHHHHHHHHHHHHhh------------------chhhHHHHHHHhhhHHhhhHhhcc-chhhHHHHHHHHHH
Q 001958 743 APDPSTVRPEEVLEKALQMVQNS------------------QKNYLYKCDQLKSIRQDLTVQRIR-NQLTAKVYETHARL 803 (991)
Q Consensus 743 aPdPsdVRPp~VL~KTLdyLl~k------------------~k~Y~FI~DRLRSIRQDLTVQ~I~-neFTV~VYE~hARf 803 (991)
-+.|.|+=||+.+...|..+.+- ...|.++.|++=-+-|-.+--|+. .+-.+.||+.++--
T Consensus 421 l~p~~DLlPpp~v~~~l~ll~ei~~~~~a~~~~~d~~~~df~~l~s~vldpilq~c~~sae~~lp~~d~~~~if~iNcL~ 500 (655)
T KOG3758|consen 421 LSPPSDLLPPPAVREYLNLLVEIFEIYEASHTAEDGEQLDFKLLLSCVLDPILQMCQKSAEAHLPTSDKGSLIFMINCLD 500 (655)
T ss_pred CCCccccCCCHHHHHHHHHHHHHHHHhhhhhccccccccchHHHHHHHHHHHHHHHHHHHHhcCCCcccccceehhhhHH
Confidence 36677999999999999887541 346888888887776666655555 33444555555544
Q ss_pred HHhc--CChhhHHHHHHHHHHHHHcCcCCChhHHHHHHHHHHhhccCchHHHHHHHHhhhHHHhhCHHHHHHHHHHHHHH
Q 001958 804 AIEN--GDLPEYNQCQSQLKILYAEGIEGCCMEFSAYHLLCVILHSNNKRELLSLMSRLSDKAKQDKAVKHALAVRAAVS 881 (991)
Q Consensus 804 aLea--gDL~EFNQCqtQLk~LY~egi~gnEaEF~AYrILY~Ll~~nN~sDLl~~L~~Lp~eikkdp~VqfAL~Vr~Ala 881 (991)
+|.+ +-++-|++-...|...-+ .+-.-.....+=++ ++..+-.+++..+....++... ...=-.+..+..
T Consensus 501 ~iks~l~~~e~~~~~~e~lq~~ie----~~~d~L~t~q~s~l-l~~~GLs~~~q~~~~~~p~~~~---ls~~~~l~s~~~ 572 (655)
T KOG3758|consen 501 LIKSRLARYEFLDERVEMLQAKIE----AYLDTLVTLQVSFL-LENTGLSDLYQKFNMITPEDSV---LSLDPDLESALL 572 (655)
T ss_pred HHHhHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHH-HHHcChHHHHHHHHhcCcchhh---hhccccccHHHH
Confidence 4332 111112222222221110 00000111111111 1112334455545444333210 000012223333
Q ss_pred hCCHHHHHHHHh-----cCChhHHHHHHHHHHHHHHHHHHHHHHHcC
Q 001958 882 SGNYIMFFRLYK-----TAPNLNTCLMDLYVEKMRFKAVSCMSRSYR 923 (991)
Q Consensus 882 ~GNYvRFFrLyk-----sAP~L~acLMd~f~~r~R~~ALk~I~KAYr 923 (991)
..--++|+..+. .+|.+...+.-+.-++++.+..+.++++|.
T Consensus 573 ~~~i~~fd~~l~~~~~~~lpq~q~l~sp~~r~~i~kr~~~~~~~aY~ 619 (655)
T KOG3758|consen 573 DEAIVKFDMFLHAPLNLTLPQLQQLTSPMVRDEICKRSAKKFVLAYE 619 (655)
T ss_pred HHHHHHHHHHhcccccccchHHHHHcCHHHHHHHHHHHHHHHHHHHH
Confidence 333455666433 345556555567778888888888888885
No 46
>PF06777 DUF1227: Protein of unknown function (DUF1227); InterPro: IPR010643 This domain represents a conserved region within a number of eukaryotic DNA repair helicases.; GO: 0005634 nucleus
Probab=21.66 E-value=1.1e+02 Score=31.84 Aligned_cols=23 Identities=22% Similarity=0.371 Sum_probs=14.4
Q ss_pred hhhHHHHHHHhhhHHhhhHhhcc
Q 001958 767 KNYLYKCDQLKSIRQDLTVQRIR 789 (991)
Q Consensus 767 k~Y~FI~DRLRSIRQDLTVQ~I~ 789 (991)
+...|+-+||+++=+.|-|.++.
T Consensus 103 k~LrFc~eRL~sLl~TLei~d~~ 125 (146)
T PF06777_consen 103 KPLRFCSERLSSLLRTLEITDID 125 (146)
T ss_pred HHHHHHHHHHHHHHHHHCCCcHh
Confidence 34567777777776666655443
No 47
>PRK15338 type III secretion system regulator InvE; Provisional
Probab=21.46 E-value=1e+03 Score=28.49 Aligned_cols=20 Identities=15% Similarity=0.242 Sum_probs=17.5
Q ss_pred HHHHHHHHHHHHHcCCCCCHH
Q 001958 909 KMRFKAVSCMSRSYRPTVPVS 929 (991)
Q Consensus 909 r~R~~ALk~I~KAYrptIPL~ 929 (991)
+.|...|++|..+|+ .+|+.
T Consensus 315 ~~ra~~lQ~l~~af~-~lP~~ 334 (372)
T PRK15338 315 KDHASLLQAIYQVCK-ALPSS 334 (372)
T ss_pred HHHHHHHHHHHHHHh-cCcHH
Confidence 688899999999998 88876
No 48
>PF03634 TCP: TCP family transcription factor; InterPro: IPR005333 The TCP transcription factor family was named after: teosinte branched 1 (tb1, Zea mays (Maize)) [], cycloidea (cyc) (Antirrhinum majus) (Garden snapdragon) [] and PCF in rice (Oryza sativa) [, ]. The TCP proteins code for structurally related proteins implicated in the evolution of key morphological traits []. However, the biochemical function of CYC and TB1 proteins remains to be demonstrated. One of the conserved regions is predicted to form a non-canonical basic-Helix-Loop-Helix (bHLP) structure. This domain is also found in two rice DNA-binding proteins, PCF1 and PCF2, where it has been shown to be involved in DNA-binding and dimerization. This family of transcription factors are exclusive to higher plants. They can be divided into two groups, TCP-C and TCP-P, that appear to have separated following an early gene duplication event []. This duplication event may have led to functional divergence and it has been proposed that that the TCP-P subfamily are transcriptional repressors, while the TPC-C subfamily are transcription activators [].
Probab=21.31 E-value=52 Score=32.86 Aligned_cols=11 Identities=27% Similarity=0.543 Sum_probs=9.7
Q ss_pred HHHHhhCCCCC
Q 001958 930 YVAQVLGFTGV 940 (991)
Q Consensus 930 ~LaelLgFds~ 940 (991)
.|+++||||-.
T Consensus 34 dLQDmLGfDKa 44 (138)
T PF03634_consen 34 DLQDMLGFDKA 44 (138)
T ss_pred HHHHHhcCCCC
Confidence 38999999987
No 49
>KOG3107 consensus Predicted haloacid dehalogenase-like hydrolase (eyes absent) [General function prediction only]
Probab=21.27 E-value=2.7e+02 Score=33.41 Aligned_cols=31 Identities=23% Similarity=0.274 Sum_probs=16.8
Q ss_pred CCCccCC-cccCCCCCCCcCccccCCCcccCC
Q 001958 143 SYPQPVG-AYQNSGAPYQPISSFQNSGSYVGP 173 (991)
Q Consensus 143 ~~~~~~g-~~q~~ga~~qp~~~f~~~gs~~~~ 173 (991)
+++++-+ .||..|+-||+.+.+--.|.=+++
T Consensus 57 s~P~~a~Yty~~~ass~~~~t~~~~~~~t~~n 88 (468)
T KOG3107|consen 57 SQPGYAPYTYQMPASSYQQVTANYRGGNTAFN 88 (468)
T ss_pred CCCCCCCccccCcchhhhhhhhhccccccccc
Confidence 4444334 667777777766655444443333
No 50
>KOG3973 consensus Uncharacterized conserved glycine-rich protein [Function unknown]
Probab=21.25 E-value=9.5e+02 Score=28.69 Aligned_cols=59 Identities=15% Similarity=0.182 Sum_probs=35.9
Q ss_pred CCChhHHHHHHHHHHhhccCchHHHHHHHHhhhHHHhhCHHHHHHH---------HHHHHHHhCCHHHHHHHHhcC
Q 001958 829 EGCCMEFSAYHLLCVILHSNNKRELLSLMSRLSDKAKQDKAVKHAL---------AVRAAVSSGNYIMFFRLYKTA 895 (991)
Q Consensus 829 ~gnEaEF~AYrILY~Ll~~nN~sDLl~~L~~Lp~eikkdp~VqfAL---------~Vr~Ala~GNYvRFFrLyksA 895 (991)
++|-.||.-+.-|- ..+-..|.++++..+.+|.++..| +++.+|...=|.|-.-|.+.+
T Consensus 158 p~Nin~~~lfe~i~--------~kl~~ai~kv~p~~~~~PLlKkpl~~a~w~~iE~~~~~~~~ey~~Rr~ll~sRL 225 (465)
T KOG3973|consen 158 PGNINEWKLFETIR--------QKLDGAIKKVSPSQRSHPLLKKPLDEATWPEIEKQCESFSREYYNRRLLLNSRL 225 (465)
T ss_pred CCCchHHHHHHHHH--------HHHHhHHhcCCHhhcCCchhcCcCChhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35666665443221 224566778888888888777554 456666666666665555543
No 51
>PF12833 HTH_18: Helix-turn-helix domain; PDB: 2K9S_A 3LSG_C 3OIO_A 1D5Y_B 3GBG_A 3OOU_A 1BL0_A 1XS9_A 3MN2_B 3MKL_B ....
Probab=20.72 E-value=2.6e+02 Score=24.50 Aligned_cols=36 Identities=17% Similarity=0.404 Sum_probs=23.5
Q ss_pred HHHHHHHHHHHHHHHHHHcCCCCCHHHHHHhhCCCCC
Q 001958 904 DLYVEKMRFKAVSCMSRSYRPTVPVSYVAQVLGFTGV 940 (991)
Q Consensus 904 d~f~~r~R~~ALk~I~KAYrptIPL~~LaelLgFds~ 940 (991)
..++..+|...+..+.... +.+++..|+..+||.+.
T Consensus 25 ~~~~~~~R~~~a~~~L~~~-~~~~i~~ia~~~Gf~~~ 60 (81)
T PF12833_consen 25 KQYLRELRLQRAKELLRQN-TDLSIAEIAEECGFSSQ 60 (81)
T ss_dssp HHHHHHHHHHHHHHHHHHH-TT--HHHHHHHTT-SSH
T ss_pred HHHHHHHHHHHHHHHHHHh-hcccHHHHHHHcCCCCH
Confidence 3566777776655554333 48999999999999987
No 52
>KOG1676 consensus K-homology type RNA binding proteins [RNA processing and modification]
Probab=20.09 E-value=3.3e+02 Score=34.05 Aligned_cols=132 Identities=26% Similarity=0.342 Sum_probs=0.0
Q ss_pred ccccCCCCCCCCCCCCCCCCCccccCCCCCCCCCCccCCcc----cCCCCCCCc--CccccCCCcccCCCCCCccccCCC
Q 001958 111 GYTSYPNSSDPYAYGSTAYPGYYSSYQQQPNHSYPQPVGAY----QNSGAPYQP--ISSFQNSGSYVGPASYSATYYNPG 184 (991)
Q Consensus 111 ~~~~y~~~~~~~~y~~~~y~~yy~~y~q~~~~~~~~~~g~~----q~~ga~~qp--~~~f~~~gs~~~~~~~s~tyyn~~ 184 (991)
.+..|..|-.||+++ ..++.|+ ++|..|.+---..+++ |..-|.|+| +--=|+.+ -+. +..++-|-
T Consensus 430 ~~g~p~~s~~~~g~g-~~~p~~q--~~~~~~P~~~~~~~a~Pp~q~~~~a~~~~~~~QQ~~~~~---~~~--~~~~gapp 501 (600)
T KOG1676|consen 430 ANGGPPASQQPYGQG-GQQPQVQ--PQQTMAPSAAPGAQAYPPSQQSYQAYYQPTVVQQPQPQP---SPA--SAAQGAPP 501 (600)
T ss_pred CCCCCCcccCCCCcc-ccCCccc--CCCCCCcccCcccccCCchhhhhhhhcCccccccCCCCC---CCC--cccCCCCC
Q ss_pred CccccCCCCCCCcccccccCCCCCCCCcccccccccCCCCCCccccCCCCCCcchhHHH---------------------
Q 001958 185 DYQTAGGYPSSGYSHQTTSWNEGNYTNYTSHQYSNYTSDTSGAYSSGTAPATSLQYQQQ--------------------- 243 (991)
Q Consensus 185 ~~qt~~~y~~~~~~~q~~~w~~~~~~~~~~~~y~~~~~d~~~~~ss~~~~~~~~~y~q~--------------------- 243 (991)
.-+..|. .+|..+.|.-|.+-...-++....+ ..=.|+++
T Consensus 502 ~~p~~g~------------------~~~~~~~~ayY~~~~~~~q~~qq~a-~~~a~~~~~~~qaaaa~~~~~~~~p~~~~ 562 (600)
T KOG1676|consen 502 QSPATGA------------------SDYSPQWYAYYKSIGAPPQSEQQPA-YMKAYEEQSKKQAAAAAGGPGGSAPGGQP 562 (600)
T ss_pred CCCCCCc------------------cccchhhhhcccccCCCcccccccc-hhHHHHHHHhhhhccccCCCCCCCCCCCC
Q ss_pred --hhhhhhhhcccccccCCCCCCccccc
Q 001958 244 --YKQWADYYSQTEVSCAPGTENLSVAS 269 (991)
Q Consensus 244 --y~qw~~yy~~~~~~~~~~~~~~~~~~ 269 (991)
|-+|+.||.+.+-.-+...+.+.+..
T Consensus 563 dy~~~w~~Yy~~qa~~~~~t~g~~~~~~ 590 (600)
T KOG1676|consen 563 DYSASWAEYYRAQAAVYGQTPGTGGATP 590 (600)
T ss_pred CcchhhHHHHHHHHHHhhccCCcCCCCC
Done!