Query 001744
Match_columns 1018
No_of_seqs 249 out of 640
Neff 3.9
Searched_HMMs 46136
Date Fri Mar 29 08:18:00 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/001744.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/001744hhsearch_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 1E-101 3E-106 853.5 32.5 464 465-1004 58-540 (540)
2 PF03399 SAC3_GANP: SAC3/GANP/ 100.0 1.1E-48 2.4E-53 393.1 17.9 194 743-937 2-204 (204)
3 KOG1860 Nuclear protein export 100.0 3.8E-39 8.2E-44 379.0 19.2 223 734-975 145-421 (927)
4 COG5079 SAC3 Nuclear protein e 100.0 3E-38 6.5E-43 352.7 18.2 225 734-977 113-384 (646)
5 KOG3151 26S proteasome regulat 99.6 6.3E-15 1.4E-19 155.0 16.8 162 792-970 54-222 (260)
6 PF10075 PCI_Csn8: COP9 signal 99.2 1E-10 2.2E-15 114.4 10.3 121 832-970 3-126 (143)
7 KOG3252 Uncharacterized conser 96.8 0.01 2.3E-07 62.3 10.9 124 836-978 64-187 (217)
8 PF01399 PCI: PCI domain; Int 95.7 0.054 1.2E-06 49.1 8.2 66 874-940 4-75 (105)
9 KOG1861 Leucine permease trans 94.6 0.0086 1.9E-07 69.9 -0.3 88 390-481 62-149 (540)
10 KOG2908 26S proteasome regulat 92.3 15 0.00032 42.8 19.9 70 870-940 234-309 (380)
11 KOG0687 26S proteasome regulat 91.8 4.6 0.0001 46.5 15.2 167 793-972 140-352 (393)
12 COG5187 RPN7 26S proteasome re 91.5 4.7 0.0001 45.9 14.7 148 791-939 149-345 (412)
13 KOG4414 COP9 signalosome, subu 91.2 2.3 4.9E-05 44.1 10.9 136 815-969 21-160 (197)
14 KOG1464 COP9 signalosome, subu 81.6 7.2 0.00016 44.2 9.1 126 811-940 245-379 (440)
15 smart00088 PINT motif in prote 81.2 2.9 6.3E-05 37.7 5.0 37 903-940 3-39 (88)
16 smart00753 PAM PCI/PINT associ 81.2 2.9 6.3E-05 37.7 5.0 37 903-940 3-39 (88)
17 KOG2581 26S proteasome regulat 78.6 33 0.00071 41.0 13.3 71 869-940 317-392 (493)
18 KOG1076 Translation initiation 76.5 48 0.001 41.8 14.4 69 871-940 655-733 (843)
19 KOG1498 26S proteasome regulat 65.1 1.5E+02 0.0032 35.6 14.5 178 767-965 169-377 (439)
20 PF14782 BBS2_C: Ciliary BBSom 53.5 1.5E+02 0.0032 35.7 12.3 75 807-893 350-431 (431)
21 KOG2753 Uncharacterized conser 46.8 3.3E+02 0.0072 32.2 13.2 161 767-940 145-309 (378)
22 KOG4637 Adaptor for phosphoino 43.6 4.9E+02 0.011 31.3 13.9 31 755-785 141-171 (464)
23 PF09759 Atx10homo_assoc: Spin 42.2 36 0.00077 33.3 4.2 69 898-982 34-102 (102)
24 PRK15338 type III secretion sy 41.9 2.9E+02 0.0062 32.9 12.0 47 882-929 280-334 (372)
25 PF04800 ETC_C1_NDUFA4: ETC co 39.3 17 0.00037 35.4 1.6 21 952-972 55-75 (101)
26 KOG0260 RNA polymerase II, lar 38.9 9.6E+02 0.021 33.0 16.6 23 3-26 1355-1377(1605)
27 KOG2422 Uncharacterized conser 36.3 3.9E+02 0.0084 33.7 12.2 134 790-927 280-450 (665)
28 PF04053 Coatomer_WDAD: Coatom 34.1 8.1E+02 0.017 29.6 14.4 125 752-898 295-431 (443)
29 KOG1077 Vesicle coat complex A 33.8 9.5E+02 0.021 31.3 15.0 88 834-921 386-499 (938)
30 PF08784 RPA_C: Replication pr 32.9 41 0.0009 31.6 3.0 52 907-971 45-98 (102)
31 cd02419 Peptidase_C39C A sub-f 31.5 3.5E+02 0.0076 25.4 9.0 89 910-1013 12-118 (127)
32 PRK14136 recX recombination re 31.3 4.4E+02 0.0095 30.7 11.1 68 751-826 192-270 (309)
33 PF13986 DUF4224: Domain of un 30.9 1.2E+02 0.0027 25.7 5.1 39 926-979 3-41 (47)
34 PF04769 MAT_Alpha1: Mating-ty 30.3 4.1E+02 0.0089 29.0 10.2 73 915-1011 87-172 (201)
35 KOG2582 COP9 signalosome, subu 29.7 4.9E+02 0.011 31.3 11.3 55 719-785 94-148 (422)
36 TIGR02297 HpaA 4-hydroxyphenyl 28.5 7.3E+02 0.016 26.8 11.9 33 906-940 234-266 (287)
37 PRK07764 DNA polymerase III su 28.3 2.2E+02 0.0047 37.0 9.0 144 774-918 103-299 (824)
38 PF12569 NARP1: NMDA receptor- 27.6 4.8E+02 0.01 32.2 11.3 122 794-923 38-170 (517)
39 cd02420 Peptidase_C39D A sub-f 27.1 4.8E+02 0.01 24.5 9.1 89 910-1013 12-118 (125)
40 KOG3758 Uncharacterized conser 25.9 6.1E+02 0.013 32.2 11.6 173 743-923 421-619 (655)
41 KOG2003 TPR repeat-containing 25.8 9.8E+02 0.021 29.7 12.9 29 866-894 656-685 (840)
42 PF15469 Sec5: Exocyst complex 25.7 6.7E+02 0.014 25.9 10.6 51 868-918 85-137 (182)
43 KOG3389 NADH:ubiquinone oxidor 25.3 37 0.0008 35.4 1.3 43 926-983 120-162 (178)
44 COG3071 HemY Uncharacterized e 24.5 1.3E+03 0.029 27.9 14.8 95 795-893 188-287 (400)
45 PF06777 DUF1227: Protein of u 24.3 89 0.0019 32.6 3.8 24 767-790 103-126 (146)
46 PF03634 TCP: TCP family trans 23.5 44 0.00095 33.5 1.5 21 930-965 34-54 (138)
47 PF12413 DLL_N: Homeobox prote 23.4 1.4E+02 0.0031 28.7 4.7 18 148-165 26-44 (86)
48 PF12833 HTH_18: Helix-turn-he 23.0 2.2E+02 0.0048 25.1 5.7 36 904-940 25-60 (81)
49 KOG1920 IkappaB kinase complex 22.5 1.4E+03 0.03 31.4 14.4 58 745-807 670-728 (1265)
50 KOG3107 Predicted haloacid deh 22.4 2.4E+02 0.0052 33.8 7.2 31 143-173 57-88 (468)
51 PF03851 UvdE: UV-endonuclease 22.3 38 0.00083 38.2 0.9 84 877-972 122-209 (275)
52 PF08785 Ku_PK_bind: Ku C term 22.0 2.9E+02 0.0063 27.3 6.8 65 769-837 20-87 (120)
53 KOG1676 K-homology type RNA bi 21.4 2.9E+02 0.0064 34.5 7.9 132 111-269 430-590 (600)
54 smart00874 B5 tRNA synthetase 20.2 1.8E+02 0.0038 25.5 4.4 34 925-972 5-38 (71)
55 PF10255 Paf67: RNA polymerase 20.1 8.7E+02 0.019 29.3 11.2 61 879-939 251-335 (404)
No 1
>KOG1861 consensus Leucine permease transcriptional regulator [Transcription]
Probab=100.00 E-value=1.3e-101 Score=853.45 Aligned_cols=464 Identities=39% Similarity=0.593 Sum_probs=345.6
Q ss_pred HHHHHHHHhhhccChhhHHHHHHHHHHHHHHHHhcCCccccCCCCCCCCCCC-----ccccccCCCCCCCccccccccCC
Q 001744 465 LCGYVERALARCKGDAEIAASQAVMGEIIKKANSDGTLFSRDWDVEPLFPKP-----TTEAVTKDLPTSTPLSALSKNKR 539 (1018)
Q Consensus 465 lr~YVqRaF~~c~~~~dr~~~E~~LKe~It~a~~~gtl~TidWd~ePLp~Lp-----~~~~~~~~~~~~~~~~~~~~~~~ 539 (1018)
+.+||+|||++|+.++||+.++..||++|..++..|.+||+|||+||||++- ..+..++..+...-....-..+.
T Consensus 58 ~~~y~~r~~~a~~t~~dk~~t~~~lk~~l~~~~~~~~~~t~dw~~ep~p~~~~~~l~~~~~~a~~~p~~~~~~n~f~~k~ 137 (540)
T KOG1861|consen 58 QPTYVERCFDACNTSEDKDPTNPRLKSMLNPYLNFGNATTEDWSAEPLPGPFSESLARPLDYANSFPSLTYNPNNFIGKQ 137 (540)
T ss_pred hHHHHHHHHHhhcchhhccchhHHHHHhcchhhccCccchhccccCCCCCccCcccCCCcccccCCCccccCCccccccc
Confidence 8899999999999999999999999999999999999999999999999743 33322222221000000000122
Q ss_pred CCccccCCCCCCCCCCCcccccccccccccccCCccccccccccccCCCC---cccccc--ccccccccccccccccc--
Q 001744 540 SPSRRTKSRWEPLPEEKPIDKLASSTNEIVKFSGWIHANEKDRKHISGSV---SKEDRL--NNIKFHLSEQKSASKSF-- 612 (1018)
Q Consensus 540 sp~rr~ksrwep~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~r~~~s~~~---~~~~~~--~~~~~~~~~~r~~sk~~-- 612 (1018)
+| +||.+ ++.... +.+.. .......++.+.+++. .++++. ...++.. ...+.+++.
T Consensus 138 ~~-----s~~r~--~~r~~~-------g~v~q--~~~~~~~~ssp~lsd~~~~ss~r~~~r~~~~~~s-~s~~~~es~~~ 200 (540)
T KOG1861|consen 138 EP-----SRPRP--SDRESW-------GAVNQ--GKEPLSVSSSPSLSDSMNKSSKRSPPRVSKRSSS-LSSKSNESLNK 200 (540)
T ss_pred CC-----CCCCC--cchhcc-------ccccc--cccccccCCCccchhhhhcccccCCccccccccc-ccccccHhhhh
Confidence 22 22322 111000 00000 0000000011100000 000000 0000000 000011111
Q ss_pred ----CchhhhhccccCCCcccCCCCCCCCchhhhcccccccccccccCCHHHHHHHHHHHhhhccCCCCCCcccccCCCC
Q 001744 613 ----QRPVKRQRLSADGFKTEDNGDASSDSDKEQSLTSYYSGAIALANSPEERMRRENRSKRFDRGQGNRSETNRFKGKN 688 (1018)
Q Consensus 613 ----~r~~Kr~r~~~~~~~~~~~~~~sSd~~k~~~l~~~~~~~~~~~~~~ee~~rr~~Ra~RF~~~~~~~~~~~~~~~~~ 688 (1018)
.++.+.++.++ + ..+-+++ .++. ..++||++||++|++||..+...+.+. .|..
T Consensus 201 k~~~a~~~~~~~~~~-~--------~t~~~~~---------n~~s-~~~~d~e~rr~~Ra~RF~~~~s~s~~~---~p~~ 258 (540)
T KOG1861|consen 201 KSGNARANANKRGKG-A--------VTPASGK---------NASS-VAGSDEEARRKRRARRFSQGGSRSTNN---NPNL 258 (540)
T ss_pred hhhhhhhhHHHhccC-C--------CCCcccc---------chhh-ccCchHHHHHHHHHHHHhhccccccCC---Ccch
Confidence 11111122211 0 0011111 1222 256789999999999999887543322 2222
Q ss_pred CCCCchhhhhhhhhhhccccCCCCCcccccCCCCCccccccchhHHHhhhccCCCCCCCCCCCHHHHHHHHHHHHhhch-
Q 001744 689 AGTGNLYVRRASALLISKSFDDGGSRAVEDIDWDALTVKGTCQEIEKRYLRLTSAPDPSTVRPEEVLEKALQMVQNSQK- 767 (1018)
Q Consensus 689 ~~~~~~~~rr~~~l~~~~~~~~~~~~~~~~~dwd~~~IVGTCq~LEK~YlRLTaaPdPsdVRPp~VL~KTL~yL~~k~~- 767 (1018)
..+.++.. .-..+|.+++||||||+|||+|||||++|+|++|||++||+++|.+|+.+++
T Consensus 259 ~~~~n~~~-------------------~~~~~~q~l~IvGtCq~lEKsyLRLTsAPdPstVRP~~VL~ksL~~vkdk~k~ 319 (540)
T KOG1861|consen 259 EDSKNLNS-------------------IVSPSHQKLHIVGTCQELEKSYLRLTSAPDPSTVRPLEVLKKSLCLVKDKWKA 319 (540)
T ss_pred hhccchhh-------------------ccCcccCceEEEEechhHHHhHhhhccCCCccccCCHHHHHHHHHHHHHHHHh
Confidence 22222221 1234677899999999999999999999999999999999999999999865
Q ss_pred --hhHhHHHHHhhHHHhhhhhhccchhhHHHHHHHHHHHhhcCChhhHHHHHHHHHHHHHcCcCCChhHHHHHHHHHHhh
Q 001744 768 --NYLYKCDQLKSIRQDLTVQRIRNQLTAKVYETHARLAIENGDLPEYNQCQSQLKILYAEGIEGCCMEFSAYHLLCVIL 845 (1018)
Q Consensus 768 --~Y~FI~DRLRSIRQDLTVQrIrneFTVkVYE~hARfaLeagDLeEFNQCqsQLk~LY~egi~~nE~EF~AYrILY~Ll 845 (1018)
+|.|+||||||||||||||+|+|+|||+|||+|||||||+||++||||||+||+.||.++++++..||.||+|||+|+
T Consensus 320 ~~~Y~y~CdQ~KSiRQDLTVQ~IrneFTveVYEtHARIALEkGD~~EfNQCQtQLk~LY~egipg~~~EF~AYriLY~i~ 399 (540)
T KOG1861|consen 320 KANYAYLCDQFKSIRQDLTVQRIRNEFTVEVYETHARIALEKGDLEEFNQCQTQLKALYSEGIPGAYLEFTAYRILYYIF 399 (540)
T ss_pred hccHHHHHHHHHHHhhhhhhheeccceeeeeehhhhHHHHhcCCHHHHHHHHHHHHHHHccCCCCchhhHHHHHHHHHHH
Confidence 999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCchHHHHHHHHhhhHHHhhCHHHHHHHHHHHHHHhCCHHHHHHHHhcCChhHHHHHHHHHHHHHHHHHHHHHHHcCCC
Q 001744 846 HSNNKRELLSLMSRLSDKAKQDKAVKHALAVRAAVSSGNYIMFFRLYKTAPNLNTCLMDLYVEKMRFKAVSCMSRSYRPT 925 (1018)
Q Consensus 846 ~~nN~~DLl~~L~~Lp~eik~dp~VkfAL~Vr~Ala~GNYvRFFRLyksaP~L~acLMd~f~~rmR~~ALk~I~KAYrpt 925 (1018)
+ .|..||+..|+.|+++++++++|+|||+||.||.+||||+||+||+.+|.|..||||+|++++|+.||.+|||+|+|+
T Consensus 400 t-kN~~di~sll~~lt~E~ked~~V~hAL~vR~A~~~GNY~kFFrLY~~AP~M~~yLmdlF~erER~~Al~ii~KsyrP~ 478 (540)
T KOG1861|consen 400 T-KNYPDILSLLRDLTEEDKEDEAVAHALEVRSAVTLGNYHKFFRLYLTAPNMSGYLMDLFLERERKKALTIICKSYRPT 478 (540)
T ss_pred h-cCchHHHHHHHhccHhhccCHHHHHHHHHHHHHHhccHHHHHHHHhhcccchhHHHHHHHHHHHHHHHHHHHHHcCCC
Confidence 8 577899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCHHHHHHhhCCCCCCCCCcccccccCCCHHHHHHHHHHcCCeEeeCCCCceEEeccCcCccccCCCCCCccccCCccc
Q 001744 926 VPVSYVAQVLGFTGVSPTNEECEERDSDGLEECVEWLKAHGASLVTDANGEVQLDAKASSSTLFMPEPEDAVSHGDANL 1004 (1018)
Q Consensus 926 IPLs~LaelLgFds~d~~~~~~e~~~~~~lEEc~eFLk~~Gl~v~~D~~Ge~~lD~K~S~~~L~mPep~~aV~hgdanl 1004 (1018)
|+++||++.|.|++. |+|.+||+.++|. .|..|..++|.+++...|+||+++.||+|++.||
T Consensus 479 i~~~fi~~~laf~~~---------------e~c~~~l~~~~~~--~~~~g~~~~~~~~~s~~i~~~~~~~~~v~~~~nl 540 (540)
T KOG1861|consen 479 ITVDFIASELAFDSM---------------EDCVNFLNEQNLT--YDSLGPQILDKNASSSNIKIPNTKGAVVQLIRNL 540 (540)
T ss_pred ccHHHHhhhhhhchH---------------HHHHHHHhccCcc--ccccCCcccccccccccccCCCcccceeecccCC
Confidence 999999999999987 9999999999965 4567888888899999999999999999999886
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=1.1e-48 Score=393.10 Aligned_cols=194 Identities=43% Similarity=0.739 Sum_probs=164.9
Q ss_pred CCCCCCCCCHHHHHHHHHHHHhh---chhhHhHHHHHhhHHHhhhhhhccchhhHHHHHHHHHHHhhcCChhhHHHHHHH
Q 001744 743 APDPSTVRPEEVLEKALQMVQNS---QKNYLYKCDQLKSIRQDLTVQRIRNQLTAKVYETHARLAIENGDLPEYNQCQSQ 819 (1018)
Q Consensus 743 aPdPsdVRPp~VL~KTL~yL~~k---~~~Y~FI~DRLRSIRQDLTVQrIrneFTVkVYE~hARfaLeagDLeEFNQCqsQ 819 (1018)
+|+|++|||++||++||+||+++ .++|.|||||||||||||+||||.++|+|+|||.+|||+|+++|+++|++|+++
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 579999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHcC----cCCChhHHHHHHHHHHhhccCchHHHHHHHHhhhHHHhhCHHHHHHHHHHHHHHhCCHHHHHHHH--h
Q 001744 820 LKILYAEG----IEGCCMEFSAYHLLCVILHSNNKRELLSLMSRLSDKAKQDKAVKHALAVRAAVSSGNYIMFFRLY--K 893 (1018)
Q Consensus 820 Lk~LY~eg----i~~nE~EF~AYrILY~Ll~~nN~~DLl~~L~~Lp~eik~dp~VkfAL~Vr~Ala~GNYvRFFRLy--k 893 (1018)
|++||.+. ..+++.||.||+|||+|++ ++..+++..+..|+.+++.+|.|++|++|+.|+++|||++||+++ +
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 3478999999999998754 567899999999999999999999999999999999999999999 8
Q ss_pred cCChhHHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHhhCC
Q 001744 894 TAPNLNTCLMDLYVEKMRFKAVSCMSRSYRPTVPVSYVAQVLGF 937 (1018)
Q Consensus 894 saP~L~acLMd~f~~rmR~~ALk~I~KAYrptIPLs~LaelLgF 937 (1018)
++|++.+|+|+.|++++|..||++|++||++.||+++|+++|+|
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=3.8e-39 Score=378.95 Aligned_cols=223 Identities=30% Similarity=0.457 Sum_probs=201.0
Q ss_pred HHhhhccCC---CCCCCCCCCHHHHHHHHHHHHhh---------chhhHhHHHHHhhHHHhhhhhhccchhhHHHHHHHH
Q 001744 734 EKRYLRLTS---APDPSTVRPEEVLEKALQMVQNS---------QKNYLYKCDQLKSIRQDLTVQRIRNQLTAKVYETHA 801 (1018)
Q Consensus 734 EK~YlRLTa---aPdPsdVRPp~VL~KTL~yL~~k---------~~~Y~FI~DRLRSIRQDLTVQrIrneFTVkVYE~hA 801 (1018)
+|+|.|.+| .|.|++|||++||.+||+||+.+ ...|.|||||+||||||||+|++.+..+|.++|.++
T Consensus 145 VK~ysRPAAgke~pLPsdvRP~~VL~~T~dYLl~~v~~~~~~sl~~~y~FvwDRtRAVR~D~t~Q~~~d~~Av~llE~i~ 224 (927)
T KOG1860|consen 145 VKEYSRPAAGKERPLPSDVRPPPVLVKTVDYLLGKVLCDKDISLREMYDFVWDRTRAVRQDFTIQNYSDQEAVELLERIA 224 (927)
T ss_pred HHHhcCcccCCCCCCccccCCHHHHHHHHHHHHHHhhccccccHHHHHHHHHHHHHHHHHHHHHhccCChHHHHHHHHHH
Confidence 699999996 59999999999999999999842 578999999999999999999999999999999999
Q ss_pred HHHhhcC--------------ChhhHHHHHHHHHHHHHcCc-----CCChhHHHHHHHHHHhhccCchHHHHHHHHhhhH
Q 001744 802 RLAIENG--------------DLPEYNQCQSQLKILYAEGI-----EGCCMEFSAYHLLCVILHSNNKRELLSLMSRLSD 862 (1018)
Q Consensus 802 RfaLeag--------------DLeEFNQCqsQLk~LY~egi-----~~nE~EF~AYrILY~Ll~~nN~~DLl~~L~~Lp~ 862 (1018)
||||.+. .++++++|+..|.+||+++. ++||+||+||+||++|. ..++...++.|+.
T Consensus 225 RfhI~~~h~Lce~~~~Fda~~nlEQL~K~l~sL~elYdD~r~~g~~cpnE~EFR~Y~vLl~Lg----d~~~~~~iq~~~~ 300 (927)
T KOG1860|consen 225 RFHILFRHRLCEEPEQFDAQQNLEQLQKCLQSLGELYDDLRKGGIPCPNEPEFRGYYVLLSLG----DPQVVRDIQAWPD 300 (927)
T ss_pred HHHHHHHHHhccCcccCChhHHHHHHHHHHHHHHHHHHHHHhcCCCCCChHHHHHHHHHHhcC----CchHHHHHHhcCc
Confidence 9999652 24778899999999999853 47899999999999983 4688888999999
Q ss_pred HHhhCHHHHHHHHHHHHHHhCCHHHHHH------------------HHh--cCChhHHHHHHHHHHHHHHHHHHHHHHHc
Q 001744 863 KAKQDKAVKHALAVRAAVSSGNYIMFFR------------------LYK--TAPNLNTCLMDLYVEKMRFKAVSCMSRSY 922 (1018)
Q Consensus 863 eik~dp~VkfAL~Vr~Ala~GNYvRFFR------------------Lyk--saP~L~acLMd~f~~rmR~~ALk~I~KAY 922 (1018)
+++.+..|++|+.+++|+..|||.+||| |.. ..++|+.|+++.||.-+|..||++|+++|
T Consensus 301 evr~~~~Vk~al~~~~a~~~nn~~~~~r~~~~~t~a~~~l~~~~~~l~q~p~~~~L~~~v~~~~f~~ir~~al~~~~~~~ 380 (927)
T KOG1860|consen 301 EVRQDSEVKLALCLRRAFQSNNFRRFFRLSSLRTEALQNLYTRFFKLMQSPALPYLMGCVLELFFPDIRWAALRAMSHAY 380 (927)
T ss_pred ccccchhHHHHHHHHHHhccCCeeeeeeccchhHHHHHHHHHHHHHHhcCcchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 9999999999999999999999999975 333 45789999999999999999999999999
Q ss_pred CC---CCCHHHHHHhhCCCCCCCCCcccccccCCCHHHHHHHHHHcCCeEeeCCCC
Q 001744 923 RP---TVPVSYVAQVLGFTGVSPTNEECEERDSDGLEECVEWLKAHGASLVTDANG 975 (1018)
Q Consensus 923 rp---tIPLs~LaelLgFds~d~~~~~~e~~~~~~lEEc~eFLk~~Gl~v~~D~~G 975 (1018)
+. .||+..|..+|.|+.. |+...+|+.+||.++.|..+
T Consensus 381 ~~~~~~vp~~~l~~~l~f~~~---------------e~~~~~~~~y~Leis~~~~~ 421 (927)
T KOG1860|consen 381 NSKHVPVPLGKLDRILLFDGE---------------EELKVVCNYYGLEISVDDKI 421 (927)
T ss_pred hccCCCcchhHHHHHHhcCCh---------------hhhHhhhhheeeEeeccccc
Confidence 73 8999999999999998 89999999999999876443
No 4
>COG5079 SAC3 Nuclear protein export factor [Intracellular trafficking and secretion / Cell division and chromosome partitioning]
Probab=100.00 E-value=3e-38 Score=352.70 Aligned_cols=225 Identities=24% Similarity=0.321 Sum_probs=198.6
Q ss_pred HHhhhccCC---CCCCCCCCCHHHHHHHHHHHHhh------chhhHhHHHHHhhHHHhhhhhhccchhhHHHHHHHHHHH
Q 001744 734 EKRYLRLTS---APDPSTVRPEEVLEKALQMVQNS------QKNYLYKCDQLKSIRQDLTVQRIRNQLTAKVYETHARLA 804 (1018)
Q Consensus 734 EK~YlRLTa---aPdPsdVRPp~VL~KTL~yL~~k------~~~Y~FI~DRLRSIRQDLTVQrIrneFTVkVYE~hARfa 804 (1018)
+|.|.|.++ .++|+|||||+||++|++||... ...|.|+|||+||||||||+|+.++..+|+|+|.+||||
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 467777764 57999999999999999999852 578999999999999999999999999999999999999
Q ss_pred hhc-------------CChhhHHHHHHHHHHHHHcCc-----CCChhHHHHHHHHHHhhccCchHHHHHHHHhhhHHHhh
Q 001744 805 IEN-------------GDLPEYNQCQSQLKILYAEGI-----EGCCMEFSAYHLLCVILHSNNKRELLSLMSRLSDKAKQ 866 (1018)
Q Consensus 805 Lea-------------gDLeEFNQCqsQLk~LY~egi-----~~nE~EF~AYrILY~Ll~~nN~~DLl~~L~~Lp~eik~ 866 (1018)
|.+ ..++++.+-+..|-+||+++. ++||+||+||.||.+|.+ .+...-++.||..++.
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 875 235666777788999999864 478999999999999854 4566667899999999
Q ss_pred CHHHHHHHHHHHHHHhCC---------------HHHHHHHHh--cCChhHHHHHHHHHHHHHHHHHHHHHHHcC---CCC
Q 001744 867 DKAVKHALAVRAAVSSGN---------------YIMFFRLYK--TAPNLNTCLMDLYVEKMRFKAVSCMSRSYR---PTV 926 (1018)
Q Consensus 867 dp~VkfAL~Vr~Ala~GN---------------YvRFFRLyk--saP~L~acLMd~f~~rmR~~ALk~I~KAYr---ptI 926 (1018)
++.|+.||++.+-...|| |.|||+|++ ++++|++||+++|+..+|..||++|.++|. ..+
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 999999999998877776 899999998 689999999999999999999999999985 389
Q ss_pred CHHHHHHhhCCCCCCCCCcccccccCCCHHHHHHHHHHcCCeEeeCCCCce
Q 001744 927 PVSYVAQVLGFTGVSPTNEECEERDSDGLEECVEWLKAHGASLVTDANGEV 977 (1018)
Q Consensus 927 PLs~LaelLgFds~d~~~~~~e~~~~~~lEEc~eFLk~~Gl~v~~D~~Ge~ 977 (1018)
|..+|..+|.|++. +|.++||+.+|+.+..+.++++
T Consensus 349 pf~~l~~il~f~~~---------------~e~~efckyy~lei~~ed~~~l 384 (646)
T COG5079 349 PFVDLSGILDFEEK---------------GEGEEFCKYYGLEIRIEDSVKL 384 (646)
T ss_pred Ceehhhhhcccccc---------------chhHHHhhhcceeeeccccccc
Confidence 99999999999998 7999999999999986656643
No 5
>KOG3151 consensus 26S proteasome regulatory complex, subunit RPN12/PSMD8 [Posttranslational modification, protein turnover, chaperones]
Probab=99.63 E-value=6.3e-15 Score=155.03 Aligned_cols=162 Identities=20% Similarity=0.302 Sum_probs=149.8
Q ss_pred hhHHHHHHHHHHHhhcCChhhHHHHHHHHHHHHHcCc---C--CChhHHHHHHHHHHhhccCchHHHHHHHHhhhHHHhh
Q 001744 792 LTAKVYETHARLAIENGDLPEYNQCQSQLKILYAEGI---E--GCCMEFSAYHLLCVILHSNNKRELLSLMSRLSDKAKQ 866 (1018)
Q Consensus 792 FTVkVYE~hARfaLeagDLeEFNQCqsQLk~LY~egi---~--~nE~EF~AYrILY~Ll~~nN~~DLl~~L~~Lp~eik~ 866 (1018)
++.+|||..+-.+|...|++.|.....||+..|-+.. + .++.-|.+.+|||.|.+ |+..||+.+|+.||..++.
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 6889999999999999999999999999999998853 2 45778999999998765 8889999999999999876
Q ss_pred C-HHHHHHHHHHHHHHhCCHHHHHHHHhcCChh-HHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHhhCCCCCCCCC
Q 001744 867 D-KAVKHALAVRAAVSSGNYIMFFRLYKTAPNL-NTCLMDLYVEKMRFKAVSCMSRSYRPTVPVSYVAQVLGFTGVSPTN 944 (1018)
Q Consensus 867 d-p~VkfAL~Vr~Ala~GNYvRFFRLyksaP~L-~acLMd~f~~rmR~~ALk~I~KAYrptIPLs~LaelLgFds~d~~~ 944 (1018)
+ ++|+++++|...+|+|-|.+.|.+.+++|.- ..++|++.++.+|.++..||.|+|. .||++.++.+|.|+++
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 6 9999999999999999999999999999965 4789999999999999999999998 9999999999999977
Q ss_pred cccccccCCCHHHHHHHHHHcCCeEe
Q 001744 945 EECEERDSDGLEECVEWLKAHGASLV 970 (1018)
Q Consensus 945 ~~~e~~~~~~lEEc~eFLk~~Gl~v~ 970 (1018)
+|...|..+.+|.+.
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=99.18 E-value=1e-10 Score=114.40 Aligned_cols=121 Identities=22% Similarity=0.381 Sum_probs=98.4
Q ss_pred hhHHHHHHHHHHhhccCchHHHHHHHHhhhHHHhh-CHHHHHHHHHHHHHHhCCHHHHHHHHhcCCh--hHHHHHHHHHH
Q 001744 832 CMEFSAYHLLCVILHSNNKRELLSLMSRLSDKAKQ-DKAVKHALAVRAAVSSGNYIMFFRLYKTAPN--LNTCLMDLYVE 908 (1018)
Q Consensus 832 E~EF~AYrILY~Ll~~nN~~DLl~~L~~Lp~eik~-dp~VkfAL~Vr~Ala~GNYvRFFRLyksaP~--L~acLMd~f~~ 908 (1018)
..++.+-.||.+|.. +...++...+.+||.+++. ++.|+....|..++..|+|.+||..++..+. ...-+|..|.+
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 467788777777765 5668999999999999998 5999999999999999999999999987533 34567889999
Q ss_pred HHHHHHHHHHHHHcCCCCCHHHHHHhhCCCCCCCCCcccccccCCCHHHHHHHHHHcCCeEe
Q 001744 909 KMRFKAVSCMSRSYRPTVPVSYVAQVLGFTGVSPTNEECEERDSDGLEECVEWLKAHGASLV 970 (1018)
Q Consensus 909 rmR~~ALk~I~KAYrptIPLs~LaelLgFds~d~~~~~~e~~~~~~lEEc~eFLk~~Gl~v~ 970 (1018)
.+|.+++.+|.+||. +|++..++++|||+ + +|+.+||+..||.+.
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=96.79 E-value=0.01 Score=62.32 Aligned_cols=124 Identities=10% Similarity=0.202 Sum_probs=99.6
Q ss_pred HHHHHHHHhhccCchHHHHHHHHhhhHHHhhCHHHHHHHHHHHHHHhCCHHHHHHHHhcCChhHHHHHHHHHHHHHHHHH
Q 001744 836 SAYHLLCVILHSNNKRELLSLMSRLSDKAKQDKAVKHALAVRAAVSSGNYIMFFRLYKTAPNLNTCLMDLYVEKMRFKAV 915 (1018)
Q Consensus 836 ~AYrILY~Ll~~nN~~DLl~~L~~Lp~eik~dp~VkfAL~Vr~Ala~GNYvRFFRLyksaP~L~acLMd~f~~rmR~~AL 915 (1018)
..++||+..+..--..||.-....|++....+..++..+.|-..+..++|..||.-...-+.|... |--|-+.+|..|-
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 567888877664445677777777888888999999999999999999999999766544443322 2347889999999
Q ss_pred HHHHHHcCCCCCHHHHHHhhCCCCCCCCCcccccccCCCHHHHHHHHHHcCCeEeeCCCCceE
Q 001744 916 SCMSRSYRPTVPVSYVAQVLGFTGVSPTNEECEERDSDGLEECVEWLKAHGASLVTDANGEVQ 978 (1018)
Q Consensus 916 k~I~KAYrptIPLs~LaelLgFds~d~~~~~~e~~~~~~lEEc~eFLk~~Gl~v~~D~~Ge~~ 978 (1018)
..+.-+|. +|+-..|+++||-.++ .+...|++.+||.. |++|.+.
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 99999997 9999999999998776 79999999999986 5577433
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=95.68 E-value=0.054 Score=49.09 Aligned_cols=66 Identities=20% Similarity=0.299 Sum_probs=54.8
Q ss_pred HHHHHHHHhCCHHHHHHHHhcC-Chh-----HHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHhhCCCCC
Q 001744 874 LAVRAAVSSGNYIMFFRLYKTA-PNL-----NTCLMDLYVEKMRFKAVSCMSRSYRPTVPVSYVAQVLGFTGV 940 (1018)
Q Consensus 874 L~Vr~Ala~GNYvRFFRLyksa-P~L-----~acLMd~f~~rmR~~ALk~I~KAYrptIPLs~LaelLgFds~ 940 (1018)
.++..|+..|||..|..++... ..+ ..-+++.+...+|..+|..+++.|. +|+++.|++.|+++..
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 333 2457888999999999999999998 9999999999999863
No 9
>KOG1861 consensus Leucine permease transcriptional regulator [Transcription]
Probab=94.62 E-value=0.0086 Score=69.85 Aligned_cols=88 Identities=23% Similarity=0.182 Sum_probs=78.6
Q ss_pred CCcccccccccccccCCCCccccccccCCCCCcCCcccccccCCCceeeecccCcchhcccccCCCCCCCCCChhHHHHH
Q 001744 390 TSPQLDNRRVSKLQIPTNPRIASNLALGLPKTDKDSSTANAAAKPAYIGVSLAKSNEKVVSHADSRVEPGTFPKSLCGYV 469 (1018)
Q Consensus 390 ~~~~~~~~~~~k~qip~npria~~~~~~~~~~~k~~~~~~~~~~pay~~v~~~~~~~~~~~~~~~~~~~~~wP~slr~YV 469 (1018)
...-.|.+++.+.++||||||++.|.-.+-+.++.....+.+.-|++++++|+++.+.+...++ ++-.|...+..+
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 3566789999999999999999999999999999999999999999999999999988776664 567889999999
Q ss_pred HHHhhhccChhh
Q 001744 470 ERALARCKGDAE 481 (1018)
Q Consensus 470 qRaF~~c~~~~d 481 (1018)
+|++.+|.+.+.
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=92.28 E-value=15 Score=42.75 Aligned_cols=70 Identities=20% Similarity=0.217 Sum_probs=53.7
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHh---cCChhHHHHHHHHHHHHHHHHHHHHHHHcC---CCCCHHHHHHhhCCCCC
Q 001744 870 VKHALAVRAAVSSGNYIMFFRLYK---TAPNLNTCLMDLYVEKMRFKAVSCMSRSYR---PTVPVSYVAQVLGFTGV 940 (1018)
Q Consensus 870 VkfAL~Vr~Ala~GNYvRFFRLyk---saP~L~acLMd~f~~rmR~~ALk~I~KAYr---ptIPLs~LaelLgFds~ 940 (1018)
.+.-.+|..|+..||..+|++|++ +.|-|.+. -+....++|+-||.-|+-.-- .+|+++.|++.+.....
T Consensus 234 ~eWL~dll~Afn~Gdl~~f~~l~~~~~~~p~L~~~-e~~L~qKI~LmaLiEi~F~rpa~~R~lsf~~Ia~~tkip~~ 309 (380)
T KOG2908|consen 234 REWLKDLLIAFNSGDLKRFESLKGVWGKQPDLASN-EDFLLQKIRLLALIEITFSRPANERTLSFKEIAEATKIPNK 309 (380)
T ss_pred HHHHHHHHHHhccCCHHHHHHHHHHhccCchHHHH-HHHHHHHHHHHHHHHHHhcCcchhccccHHHHHHHhCCCHH
Confidence 455668889999999999999997 44555443 355678888888887775531 18999999999999764
No 11
>KOG0687 consensus 26S proteasome regulatory complex, subunit RPN7/PSMD6 [Posttranslational modification, protein turnover, chaperones]
Probab=91.78 E-value=4.6 Score=46.51 Aligned_cols=167 Identities=19% Similarity=0.175 Sum_probs=98.9
Q ss_pred hHHHHHHHHHHHhhcCChhhHHHHHHHHHHHHHcCcC-CChhHHHHHHHHHHhhccCch--HHH----------------
Q 001744 793 TAKVYETHARLAIENGDLPEYNQCQSQLKILYAEGIE-GCCMEFSAYHLLCVILHSNNK--REL---------------- 853 (1018)
Q Consensus 793 TVkVYE~hARfaLeagDLeEFNQCqsQLk~LY~egi~-~nE~EF~AYrILY~Ll~~nN~--~DL---------------- 853 (1018)
-++|.=..+|+.+.-+|..--++-+...+.||++|-. ..+.-...|.=||.|...+-+ .+|
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 4567778889998888887778888888888887521 112223334333333210000 000
Q ss_pred --------HHHHH-----hhhHHHhhCHHHHHHH-------HHHHHHHhCCHHHHHHHHhc-------CChhHHHHHHHH
Q 001744 854 --------LSLMS-----RLSDKAKQDKAVKHAL-------AVRAAVSSGNYIMFFRLYKT-------APNLNTCLMDLY 906 (1018)
Q Consensus 854 --------l~~L~-----~Lp~eik~dp~VkfAL-------~Vr~Ala~GNYvRFFRLyks-------aP~L~acLMd~f 906 (1018)
+.-|- .|...+.+.|.|.-.| ++...+-+.+|..||.-+.. ...+..--.+.|
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 1122233444444333 45566789999999987732 122333346678
Q ss_pred HHHHHHHHHHHHHHHcCCCCCHHHHHHhhCCCCCCCCCcccccccCCCHHHHHHHHHHcCCeEeeC
Q 001744 907 VEKMRFKAVSCMSRSYRPTVPVSYVAQVLGFTGVSPTNEECEERDSDGLEECVEWLKAHGASLVTD 972 (1018)
Q Consensus 907 ~~rmR~~ALk~I~KAYrptIPLs~LaelLgFds~d~~~~~~e~~~~~~lEEc~eFLk~~Gl~v~~D 972 (1018)
+-.||.++-..+--+|+ ++.|+.+++-+|..-+ .-| .|+-.|+-.--+....|
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 88999999999999998 8888888888887532 111 45666766655544444
No 12
>COG5187 RPN7 26S proteasome regulatory complex component, contains PCI domain [Posttranslational modification, protein turnover, chaperones]
Probab=91.47 E-value=4.7 Score=45.93 Aligned_cols=148 Identities=19% Similarity=0.255 Sum_probs=86.9
Q ss_pred hhhHHHHHHHHHHHhhcCChhhHHHHHHHHHHHHHcCcC-CChhHHHHHHHHHHhhccC---------------chHHHH
Q 001744 791 QLTAKVYETHARLAIENGDLPEYNQCQSQLKILYAEGIE-GCCMEFSAYHLLCVILHSN---------------NKRELL 854 (1018)
Q Consensus 791 eFTVkVYE~hARfaLeagDLeEFNQCqsQLk~LY~egi~-~nE~EF~AYrILY~Ll~~n---------------N~~DLl 854 (1018)
..-|+|+-+.||+.+..+|.---.+-+..+..+|+.|-. ..+.-..+|.=++.|...+ ...+++
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 456889999999999888876556666667777765421 1122233333332221100 000110
Q ss_pred HH-----------H-----HhhhHHHhhCHHH----------HHHHHHHHHHHhCCHHHHHHHHh--cCChhH-----HH
Q 001744 855 SL-----------M-----SRLSDKAKQDKAV----------KHALAVRAAVSSGNYIMFFRLYK--TAPNLN-----TC 901 (1018)
Q Consensus 855 ~~-----------L-----~~Lp~eik~dp~V----------kfAL~Vr~Ala~GNYvRFFRLyk--saP~L~-----ac 901 (1018)
.. | ..+...+..+|.| .--..+...+-..||..||..+. -+-.|. ..
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 0 0011123334432 22234455677899998888654 223332 23
Q ss_pred HHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHhhCCCC
Q 001744 902 LMDLYVEKMRFKAVSCMSRSYRPTVPVSYVAQVLGFTG 939 (1018)
Q Consensus 902 LMd~f~~rmR~~ALk~I~KAYrptIPLs~LaelLgFds 939 (1018)
..+.|+..||+++...+-.+|+ .+.|+.++.-+|..-
T Consensus 309 h~d~fvREMRrrvYaQlLESYr-~lsl~sMA~tFgVSV 345 (412)
T COG5187 309 HVDLFVREMRRRVYAQLLESYR-LLSLESMAQTFGVSV 345 (412)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH-HhhHHHHHHHhCccH
Confidence 5678999999999999999999 899999998888753
No 13
>KOG4414 consensus COP9 signalosome, subunit CSN8 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=91.18 E-value=2.3 Score=44.13 Aligned_cols=136 Identities=15% Similarity=0.210 Sum_probs=96.1
Q ss_pred HHHHHHHHHHHcCcCCChhHHHHHHHHHHhhcc-CchHHHHHHHHhhhHHHhh-CHHHHHHHHHHHHHHhCCHHHHHHHH
Q 001744 815 QCQSQLKILYAEGIEGCCMEFSAYHLLCVILHS-NNKRELLSLMSRLSDKAKQ-DKAVKHALAVRAAVSSGNYIMFFRLY 892 (1018)
Q Consensus 815 QCqsQLk~LY~egi~~nE~EF~AYrILY~Ll~~-nN~~DLl~~L~~Lp~eik~-dp~VkfAL~Vr~Ala~GNYvRFFRLy 892 (1018)
+|-++-.+.=.+||.-+..=-.+-.|+.+++|. .+...++ ..++|+.|++ .|.+--|..|-.-+...+|...+..+
T Consensus 21 ~Cdn~~Lea~~eGIa~~~dw~Ya~~L~~Yf~~dD~dnARfL--WKRIP~AIKe~k~El~aaWgiGQkiWq~Df~GiYeaI 98 (197)
T KOG4414|consen 21 ICDNLELEAAGEGIATHDDWPYAIHLAGYFLHDDCDNARFL--WKRIPPAIKEAKPELGAAWGIGQKIWQHDFAGIYEAI 98 (197)
T ss_pred HhhhhhhcccCCCccCCCcchHHHHHHHHHHhccchhHHHH--HHhCCHHHhhcCchhhhhhhhhHHHHhcccchHHHHH
Confidence 555554444445553222111233333333442 2333333 3688998864 67888888888888889999888887
Q ss_pred hcC--ChhHHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHhhCCCCCCCCCcccccccCCCHHHHHHHHHHcCCeE
Q 001744 893 KTA--PNLNTCLMDLYVEKMRFKAVSCMSRSYRPTVPVSYVAQVLGFTGVSPTNEECEERDSDGLEECVEWLKAHGASL 969 (1018)
Q Consensus 893 ksa--P~L~acLMd~f~~rmR~~ALk~I~KAYrptIPLs~LaelLgFds~d~~~~~~e~~~~~~lEEc~eFLk~~Gl~v 969 (1018)
.-- +-...-+|..|-+.-|+++..-+..+|. +|-+..++-.||+.. +|+...+-+.||.+
T Consensus 99 ~~~dWSeeak~imaAf~D~~~kR~FaLl~qAYs-sI~~~D~A~FlGl~~----------------ddAtk~ilEnGWqa 160 (197)
T KOG4414|consen 99 NAHDWSEEAKDIMAAFRDATRKRAFALLLQAYS-SIIADDFAAFLGLPE----------------DDATKGILENGWQA 160 (197)
T ss_pred hhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHhCCCH----------------HHHHHHHHHcccch
Confidence 643 3345678999999999999999999998 999999999999976 58889999999975
No 14
>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=81.62 E-value=7.2 Score=44.25 Aligned_cols=126 Identities=13% Similarity=0.191 Sum_probs=84.0
Q ss_pred hhHHHHHHHHHHHHHcC---cCCChhHHHHHHHHHHhhccCchHHHHHHHHhhhHHHhhCHHHHHHHHHHHHHHhCCHHH
Q 001744 811 PEYNQCQSQLKILYAEG---IEGCCMEFSAYHLLCVILHSNNKRELLSLMSRLSDKAKQDKAVKHALAVRAAVSSGNYIM 887 (1018)
Q Consensus 811 eEFNQCqsQLk~LY~eg---i~~nE~EF~AYrILY~Ll~~nN~~DLl~~L~~Lp~eik~dp~VkfAL~Vr~Ala~GNYvR 887 (1018)
++|...-+-..+.+..- -.+.+.--.-|.+|-.|+. .+++.-.=.+--.-.+.+|.|-.--.+..|+..+....
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 57888887777776542 1233444455666655543 11111110010112567888877778899999999999
Q ss_pred HHHHHhcC------ChhHHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHhhCCCCC
Q 001744 888 FFRLYKTA------PNLNTCLMDLYVEKMRFKAVSCMSRSYRPTVPVSYVAQVLGFTGV 940 (1018)
Q Consensus 888 FFRLyksa------P~L~acLMd~f~~rmR~~ALk~I~KAYrptIPLs~LaelLgFds~ 940 (1018)
|=++++.- ....+--|+-++..+|...|-.+.|-|. .|-+.||.+.|..+..
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 2223344666788899999999999997 9999999999998764
No 15
>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=81.22 E-value=2.9 Score=37.67 Aligned_cols=37 Identities=22% Similarity=0.421 Sum_probs=33.6
Q ss_pred HHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHhhCCCCC
Q 001744 903 MDLYVEKMRFKAVSCMSRSYRPTVPVSYVAQVLGFTGV 940 (1018)
Q Consensus 903 Md~f~~rmR~~ALk~I~KAYrptIPLs~LaelLgFds~ 940 (1018)
++.+..++|..+|..+++.|. .|+++.|++.|+++.+
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 456788999999999999998 9999999999999864
No 16
>smart00753 PAM PCI/PINT associated module.
Probab=81.22 E-value=2.9 Score=37.67 Aligned_cols=37 Identities=22% Similarity=0.421 Sum_probs=33.6
Q ss_pred HHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHhhCCCCC
Q 001744 903 MDLYVEKMRFKAVSCMSRSYRPTVPVSYVAQVLGFTGV 940 (1018)
Q Consensus 903 Md~f~~rmR~~ALk~I~KAYrptIPLs~LaelLgFds~ 940 (1018)
++.+..++|..+|..+++.|. .|+++.|++.|+++.+
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 456788999999999999998 9999999999999864
No 17
>KOG2581 consensus 26S proteasome regulatory complex, subunit RPN3/PSMD3 [Posttranslational modification, protein turnover, chaperones]
Probab=78.62 E-value=33 Score=40.95 Aligned_cols=71 Identities=15% Similarity=0.226 Sum_probs=51.1
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHhcC-ChhHH----HHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHhhCCCCC
Q 001744 869 AVKHALAVRAAVSSGNYIMFFRLYKTA-PNLNT----CLMDLYVEKMRFKAVSCMSRSYRPTVPVSYVAQVLGFTGV 940 (1018)
Q Consensus 869 ~VkfAL~Vr~Ala~GNYvRFFRLyksa-P~L~a----cLMd~f~~rmR~~ALk~I~KAYrptIPLs~LaelLgFds~ 940 (1018)
.+..=+.|-.|+..||-.+|=..+.+- +-+++ -|+-++-.-+-+.+++.|.-+|. .|.+.+|++.|+++++
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 445556788999999999998877643 22221 23333334444577888888997 9999999999999986
No 18
>KOG1076 consensus Translation initiation factor 3, subunit c (eIF-3c) [Translation, ribosomal structure and biogenesis]
Probab=76.48 E-value=48 Score=41.82 Aligned_cols=69 Identities=19% Similarity=0.404 Sum_probs=55.3
Q ss_pred HHHHHHHHHHHhCCHHHHHHHHhc-C------ChhHHHHHHHHHHHHHHHHHHHHHHHcCC---CCCHHHHHHhhCCCCC
Q 001744 871 KHALAVRAAVSSGNYIMFFRLYKT-A------PNLNTCLMDLYVEKMRFKAVSCMSRSYRP---TVPVSYVAQVLGFTGV 940 (1018)
Q Consensus 871 kfAL~Vr~Ala~GNYvRFFRLyks-a------P~L~acLMd~f~~rmR~~ALk~I~KAYrp---tIPLs~LaelLgFds~ 940 (1018)
.|.+.--+|+..|||.+-|..+.. . |. .--++++...+|+..+|++.--+|.. +|+|+.|++++-+...
T Consensus 655 ehVvaAsKAm~~Gnw~~c~~fi~nn~KvW~Lfpn-~d~V~~Ml~~rIqEEsLRTYLftYss~Y~SvSl~~LA~mFdLp~~ 733 (843)
T KOG1076|consen 655 EHVVAASKAMQKGNWQKCFEFIVNNIKVWDLFPN-ADTVLDMLTERIQEESLRTYLFTYSSVYDSVSLAKLADMFDLPEP 733 (843)
T ss_pred HHHHHHHHHHhcCCHHHHHHHHHhhhhHHHhccc-HHHHHHHHHHHHHHHHHHHHHHHhhhhhhhccHHHHHHHhCCCch
Confidence 455666789999999999996654 2 22 24588999999999999998887763 8999999999988765
No 19
>KOG1498 consensus 26S proteasome regulatory complex, subunit RPN5/PSMD12 [Posttranslational modification, protein turnover, chaperones]
Probab=65.07 E-value=1.5e+02 Score=35.56 Aligned_cols=178 Identities=18% Similarity=0.251 Sum_probs=101.4
Q ss_pred hhhHhHHHHHhh-------HHHhhhhhhccc---------hhhHHHHHHHHHHHhhcCChhhHHHHHHHHHHHHHcCcCC
Q 001744 767 KNYLYKCDQLKS-------IRQDLTVQRIRN---------QLTAKVYETHARLAIENGDLPEYNQCQSQLKILYAEGIEG 830 (1018)
Q Consensus 767 ~~Y~FI~DRLRS-------IRQDLTVQrIrn---------eFTVkVYE~hARfaLeagDLeEFNQCqsQLk~LY~egi~~ 830 (1018)
..-.||.+|+|= ||-+++.--|.- ++-++-||-++|+++..+ .=|+-|. ..+..|..+.-.
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--AYLNVCR-SYRAIYDTGNVK 245 (439)
T ss_pred HHHHHHHHHHHHHHHhhhHHHHHHHHHHhhHHhcCCccHHHHHHHHHHHHHHhccccc--chhhHHH-HHHHHhcccccc
Confidence 345688888883 344444444431 245677999999877442 3355554 567777654211
Q ss_pred ChhHHHHHHHH----HHhh--ccCchHHHHHHHHhhhHHHhhCHHHHHHHHHHHHHHhCCHHHHHHHHh----cC-----
Q 001744 831 CCMEFSAYHLL----CVIL--HSNNKRELLSLMSRLSDKAKQDKAVKHALAVRAAVSSGNYIMFFRLYK----TA----- 895 (1018)
Q Consensus 831 nE~EF~AYrIL----Y~Ll--~~nN~~DLl~~L~~Lp~eik~dp~VkfAL~Vr~Ala~GNYvRFFRLyk----sa----- 895 (1018)
-..|=+.+.|. |.++ +.+-..+++..+. .-..+...|..+--|++.---.+-+|..+.+-|. +.
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 11222222111 1111 2233455555444 2334555666666666655555556665555443 11
Q ss_pred ChhHHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHhhCCCCCCCCCcccccccCCCHHHHHHHHHHc
Q 001744 896 PNLNTCLMDLYVEKMRFKAVSCMSRSYRPTVPVSYVAQVLGFTGVSPTNEECEERDSDGLEECVEWLKAH 965 (1018)
Q Consensus 896 P~L~acLMd~f~~rmR~~ALk~I~KAYrptIPLs~LaelLgFds~d~~~~~~e~~~~~~lEEc~eFLk~~ 965 (1018)
.-++.--++-.-.|+-.+-+++|++=|. .|++..|..+|++.. +|++.||...
T Consensus 325 ~~~gek~~~dL~~RIiEHNiRiiA~yYS-rIt~~rl~eLLdl~~----------------ee~E~~LS~l 377 (439)
T KOG1498|consen 325 GEEGEKRWSDLKLRIIEHNIRIIAKYYS-RITLKRLAELLDLPV----------------EEMEKFLSDL 377 (439)
T ss_pred cchhhhHHHHHHHHHHHHHHHHHHHHHh-hccHHHHHHHhCCCH----------------HHHHHHHHHH
Confidence 2223333444555666677899999997 999999999999986 4777777653
No 20
>PF14782 BBS2_C: Ciliary BBSome complex subunit 2, C-terminal
Probab=53.54 E-value=1.5e+02 Score=35.67 Aligned_cols=75 Identities=24% Similarity=0.360 Sum_probs=48.4
Q ss_pred cCChhhHHHHHHHHHHHHHcCcCCChhHHHHHHHHHHhhccCchHHHHHHHHhhhHHHh-------hCHHHHHHHHHHHH
Q 001744 807 NGDLPEYNQCQSQLKILYAEGIEGCCMEFSAYHLLCVILHSNNKRELLSLMSRLSDKAK-------QDKAVKHALAVRAA 879 (1018)
Q Consensus 807 agDLeEFNQCqsQLk~LY~egi~~nE~EF~AYrILY~Ll~~nN~~DLl~~L~~Lp~eik-------~dp~VkfAL~Vr~A 879 (1018)
-+|+..+-+...+|+.+=.+.+ ..|.|- . +|..+++..|.+|-.-|. ..+.-+..-..|.|
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 4678888888888877755543 233222 1 355566555555533222 34555666678899
Q ss_pred HHhCCHHHHHHHHh
Q 001744 880 VSSGNYIMFFRLYK 893 (1018)
Q Consensus 880 la~GNYvRFFRLyk 893 (1018)
+..+|....|++++
T Consensus 418 ik~nn~~~l~~ii~ 431 (431)
T PF14782_consen 418 IKNNNINALFKIIR 431 (431)
T ss_pred HHhcCHHHHHHHhC
Confidence 99999999999874
No 21
>KOG2753 consensus Uncharacterized conserved protein, contains PCI domain [General function prediction only]
Probab=46.82 E-value=3.3e+02 Score=32.21 Aligned_cols=161 Identities=14% Similarity=0.126 Sum_probs=89.1
Q ss_pred hhhHhHHHHHhhHHHhhhhhhccchhhHHHHHHHHHHHhhcCChhhHHHHHHHHHHHHHcCcCCChhHHHHHHHHHHhhc
Q 001744 767 KNYLYKCDQLKSIRQDLTVQRIRNQLTAKVYETHARLAIENGDLPEYNQCQSQLKILYAEGIEGCCMEFSAYHLLCVILH 846 (1018)
Q Consensus 767 ~~Y~FI~DRLRSIRQDLTVQrIrneFTVkVYE~hARfaLeagDLeEFNQCqsQLk~LY~egi~~nE~EF~AYrILY~Ll~ 846 (1018)
.+..++.|+|+-- ++.-+--.++|-..++...++.-.++=-|-++.|..-|.+.- -+++.=.|.+.+...+.
T Consensus 145 ~~lk~~~~~lkew-------~~~vedqrel~r~v~~al~~~k~~~~s~kvmt~lLgtyt~dn-as~AredA~rcV~~av~ 216 (378)
T KOG2753|consen 145 PNLKQLDDWLKEW-------NISVEDQRELLRAVHKALKDNKSVDESSKVMTELLGTYTEDN-ASEAREDAMRCVVEAVK 216 (378)
T ss_pred ccHHHHHHHHHhC-------CCCHHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHHhcccc-hhHHHHHHHHHHHHHHc
Confidence 3455666666533 222222333444444444444445555677777877786531 12221122222222222
Q ss_pred cCchHHHHHHHHhhhHH--HhhCHHHHHHHHHHHHHHhCCHHHHHHHHhcCChhHH--HHHHHHHHHHHHHHHHHHHHHc
Q 001744 847 SNNKRELLSLMSRLSDK--AKQDKAVKHALAVRAAVSSGNYIMFFRLYKTAPNLNT--CLMDLYVEKMRFKAVSCMSRSY 922 (1018)
Q Consensus 847 ~nN~~DLl~~L~~Lp~e--ik~dp~VkfAL~Vr~Ala~GNYvRFFRLyksaP~L~a--cLMd~f~~rmR~~ALk~I~KAY 922 (1018)
+-..=+..-|..||+- +.++. |-..|.|...=++..|+.|..--. -++.. ..=+..+.+||+..|..|+..
T Consensus 217 -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 217 -DPKIFLFDHLLTLPPVKQLEGDL-IHQLLKIFVSGKLDAYVEFVAANS--GFVQSQGLVHEQNMAKMRLLTLMSLAEE- 291 (378)
T ss_pred -CCceeccchhccCchHHHhccch-HHHHHHHHHhcchHHHHHHHHhCh--HHHHHhcccHHHHHHHHHHHHHHHHhcc-
Confidence 1111122334455542 33333 667777777777888888765322 22222 233567789999999999884
Q ss_pred CCCCCHHHHHHhhCCCCC
Q 001744 923 RPTVPVSYVAQVLGFTGV 940 (1018)
Q Consensus 923 rptIPLs~LaelLgFds~ 940 (1018)
.+.||.+.|++.|....+
T Consensus 292 s~eisy~~l~k~LqI~ed 309 (378)
T KOG2753|consen 292 SNEISYDTLAKELQINED 309 (378)
T ss_pred CCCCCHHHHHHHhccCHH
Confidence 349999999999999864
No 22
>KOG4637 consensus Adaptor for phosphoinositide 3-kinase [Signal transduction mechanisms]
Probab=43.55 E-value=4.9e+02 Score=31.28 Aligned_cols=31 Identities=19% Similarity=0.247 Sum_probs=22.0
Q ss_pred HHHHHHHHHhhchhhHhHHHHHhhHHHhhhh
Q 001744 755 LEKALQMVQNSQKNYLYKCDQLKSIRQDLTV 785 (1018)
Q Consensus 755 L~KTL~yL~~k~~~Y~FI~DRLRSIRQDLTV 785 (1018)
|+.++..|.++...|.=+.+-+-++||+|-.
T Consensus 141 ~~~~~q~lq~~~~~~er~~~~y~~~~qElq~ 171 (464)
T KOG4637|consen 141 LREYHQQLQEKSLEYERLYEEYTRTSQELQM 171 (464)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455566666677777777778889998844
No 23
>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=42.17 E-value=36 Score=33.30 Aligned_cols=69 Identities=23% Similarity=0.189 Sum_probs=45.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHhhCCCCCCCCCcccccccCCCHHHHHHHHHHcCCeEeeCCCCce
Q 001744 898 LNTCLMDLYVEKMRFKAVSCMSRSYRPTVPVSYVAQVLGFTGVSPTNEECEERDSDGLEECVEWLKAHGASLVTDANGEV 977 (1018)
Q Consensus 898 L~acLMd~f~~rmR~~ALk~I~KAYrptIPLs~LaelLgFds~d~~~~~~e~~~~~~lEEc~eFLk~~Gl~v~~D~~Ge~ 977 (1018)
|..|.+|..-+-+|..|+-+|.-.....-.-..+..-|--... +-.+-|++.|+.+..|++|.+
T Consensus 34 L~~c~iD~~nP~irEwai~aiRnL~e~n~eNQ~~I~~L~~~~~----------------~~~~~L~~~G~~v~~d~~Gk~ 97 (102)
T PF09759_consen 34 LSCCNIDDHNPFIREWAIFAIRNLCEGNPENQEFIAQLEPQGV----------------ADNEELEELGLEVEIDKDGKV 97 (102)
T ss_pred HHhcCCCcccHHHHHHHHHHHHHHHhCCHHHHHHHHhccccCC----------------cchHHHHHcCCeEEEcCCCeE
Confidence 4567888888889999988886554322222223333332222 223668889999999888998
Q ss_pred EEecc
Q 001744 978 QLDAK 982 (1018)
Q Consensus 978 ~lD~K 982 (1018)
.|..|
T Consensus 98 ~l~~~ 102 (102)
T PF09759_consen 98 RLKKK 102 (102)
T ss_pred eeecC
Confidence 88765
No 24
>PRK15338 type III secretion system regulator InvE; Provisional
Probab=41.86 E-value=2.9e+02 Score=32.87 Aligned_cols=47 Identities=13% Similarity=0.352 Sum_probs=28.5
Q ss_pred hCCHHHHH-HHHhcCChhHHHHHHHH-------HHHHHHHHHHHHHHHcCCCCCHH
Q 001744 882 SGNYIMFF-RLYKTAPNLNTCLMDLY-------VEKMRFKAVSCMSRSYRPTVPVS 929 (1018)
Q Consensus 882 ~GNYvRFF-RLyksaP~L~acLMd~f-------~~rmR~~ALk~I~KAYrptIPLs 929 (1018)
+..+..|| .+++....+..++-+.. ..+.|...|++|..+|+ .+|+.
T Consensus 280 E~~l~l~~~~~i~~pe~~~~fl~~~l~~~~~~~~~~~ra~~lQ~l~~af~-~lP~~ 334 (372)
T PRK15338 280 ESSWLLLMLSLLQQPEEVDSLLADILGLNALLLSHKDHASLLQAIYQVCK-ALPSS 334 (372)
T ss_pred HHHHHHHHHHHccCHHHHHHHHHHHHHHHhhcccHHHHHHHHHHHHHHHh-cCcHH
Confidence 44566666 34443333333322222 22588899999999998 88876
No 25
>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=39.29 E-value=17 Score=35.42 Aligned_cols=21 Identities=14% Similarity=0.305 Sum_probs=16.3
Q ss_pred CCCHHHHHHHHHHcCCeEeeC
Q 001744 952 SDGLEECVEWLKAHGASLVTD 972 (1018)
Q Consensus 952 ~~~lEEc~eFLk~~Gl~v~~D 972 (1018)
.+..|+++.||+.+|+.+...
T Consensus 55 F~skE~Ai~yaer~G~~Y~V~ 75 (101)
T PF04800_consen 55 FDSKEDAIAYAERNGWDYEVE 75 (101)
T ss_dssp ESSHHHHHHHHHHCT-EEEEE
T ss_pred eCCHHHHHHHHHHcCCeEEEe
Confidence 455699999999999987654
No 26
>KOG0260 consensus RNA polymerase II, large subunit [Transcription]
Probab=38.87 E-value=9.6e+02 Score=32.96 Aligned_cols=23 Identities=17% Similarity=0.094 Sum_probs=13.8
Q ss_pred cccccCCCCccccccCCCCCcccc
Q 001744 3 MMNQNQQGSTQNIASSVDPNSVEN 26 (1018)
Q Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~ 26 (1018)
|.|...|+|-|... ..-+.++|-
T Consensus 1355 m~itRhg~nr~~tg-aLmrcSfEe 1377 (1605)
T KOG0260|consen 1355 MAITRHGINRQDTG-ALMRCSFEE 1377 (1605)
T ss_pred eeeeccccchhhcc-ccccccHHH
Confidence 55666677777655 445555554
No 27
>KOG2422 consensus Uncharacterized conserved protein [Function unknown]
Probab=36.28 E-value=3.9e+02 Score=33.71 Aligned_cols=134 Identities=13% Similarity=0.150 Sum_probs=66.0
Q ss_pred chhhHHHHHHHHHHHhhcCChhh----HHHHHHHHHHHHHcCc----CCChhHH-----HHHHHHHH-----hhcc-Cc-
Q 001744 790 NQLTAKVYETHARLAIENGDLPE----YNQCQSQLKILYAEGI----EGCCMEF-----SAYHLLCV-----ILHS-NN- 849 (1018)
Q Consensus 790 neFTVkVYE~hARfaLeagDLeE----FNQCqsQLk~LY~egi----~~nE~EF-----~AYrILY~-----Ll~~-nN- 849 (1018)
+.+-|.-+-+.|-|....||.+- ..+|+-.+-....-.+ ..|+.+| +.++|+++ |-+. +-
T Consensus 280 sPYHvdsLLqva~~~r~qgD~e~aadLieR~Ly~~d~a~hp~F~~~sg~cRL~y~~~eNR~FyL~l~r~m~~l~~RGC~r 359 (665)
T KOG2422|consen 280 SPYHVDSLLQVADIFRFQGDREMAADLIERGLYVFDRALHPNFIPFSGNCRLPYIYPENRQFYLALFRYMQSLAQRGCWR 359 (665)
T ss_pred CCcchhHHHHHHHHHHHhcchhhHHHHHHHHHHHHHHHhccccccccccccCcccchhhHHHHHHHHHHHHHHHhcCChH
Confidence 45667777777777777888642 3456654443333221 1244333 33333321 1111 11
Q ss_pred -hHHHHHHHHhhhHHHhhCH-HHHHHHHHHHHHHhC---------CHHHHHHHHhcCChhH-HHHHHHHH-----HHHHH
Q 001744 850 -KRELLSLMSRLSDKAKQDK-AVKHALAVRAAVSSG---------NYIMFFRLYKTAPNLN-TCLMDLYV-----EKMRF 912 (1018)
Q Consensus 850 -~~DLl~~L~~Lp~eik~dp-~VkfAL~Vr~Ala~G---------NYvRFFRLyksaP~L~-acLMd~f~-----~rmR~ 912 (1018)
..+....|..|.+ .+|| +|.+.+++. |++.. |+.+-|+-+..+|++. ...+-+|+ +.-|.
T Consensus 360 TA~E~cKlllsLdp--~eDPl~~l~~ID~~-ALrareYqwiI~~~~~~e~~n~l~~~PN~~yS~AlA~f~l~~~~~~~rq 436 (665)
T KOG2422|consen 360 TALEWCKLLLSLDP--SEDPLGILYLIDIY-ALRAREYQWIIELSNEPENMNKLSQLPNFGYSLALARFFLRKNEEDDRQ 436 (665)
T ss_pred HHHHHHHHHhhcCC--cCCchhHHHHHHHH-HHHHHhHHHHHHHHHHHHhhccHhhcCCchHHHHHHHHHHhcCChhhHH
Confidence 1234444444432 1344 334444332 23333 4444444455677764 23333333 22599
Q ss_pred HHHHHHHHHcCCCCC
Q 001744 913 KAVSCMSRSYRPTVP 927 (1018)
Q Consensus 913 ~ALk~I~KAYrptIP 927 (1018)
.|+..|++|.+ .+|
T Consensus 437 sa~~~l~qAl~-~~P 450 (665)
T KOG2422|consen 437 SALNALLQALK-HHP 450 (665)
T ss_pred HHHHHHHHHHH-hCc
Confidence 99999999987 444
No 28
>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=34.14 E-value=8.1e+02 Score=29.62 Aligned_cols=125 Identities=17% Similarity=0.224 Sum_probs=70.1
Q ss_pred HHHHHHHHHHHHhh---chhhHhHHHHHhhHHHhhhhhhccc---------hhhHHHHHHHHHHHhhcCChhhHHHHHHH
Q 001744 752 EEVLEKALQMVQNS---QKNYLYKCDQLKSIRQDLTVQRIRN---------QLTAKVYETHARLAIENGDLPEYNQCQSQ 819 (1018)
Q Consensus 752 p~VL~KTL~yL~~k---~~~Y~FI~DRLRSIRQDLTVQrIrn---------eFTVkVYE~hARfaLeagDLeEFNQCqsQ 819 (1018)
+.-..+...||.++ +....|+.|- -.|=||-+|--+= .-...++++.+..||..||++--.+|+.+
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 34456666777664 4455666663 3555666663221 12234677777778888877766677665
Q ss_pred HHHHHHcCcCCChhHHHHHHHHHHhhccCchHHHHHHHHhhhHHHhhCHHHHHHHHHHHHHHhCCHHHHHHHHhcCChh
Q 001744 820 LKILYAEGIEGCCMEFSAYHLLCVILHSNNKRELLSLMSRLSDKAKQDKAVKHALAVRAAVSSGNYIMFFRLYKTAPNL 898 (1018)
Q Consensus 820 Lk~LY~egi~~nE~EF~AYrILY~Ll~~nN~~DLl~~L~~Lp~eik~dp~VkfAL~Vr~Ala~GNYvRFFRLyksaP~L 898 (1018)
.+.+ ....+||.+ . ++. +-+..|..+. +.+.+-.+ .+..++.+|++..-.+|+.++-.+
T Consensus 373 ~~d~------------~~L~lLy~~-~-g~~-~~L~kl~~~a-~~~~~~n~----af~~~~~lgd~~~cv~lL~~~~~~ 431 (443)
T PF04053_consen 373 AKDF------------SGLLLLYSS-T-GDR-EKLSKLAKIA-EERGDINI----AFQAALLLGDVEECVDLLIETGRL 431 (443)
T ss_dssp CT-H------------HHHHHHHHH-C-T-H-HHHHHHHHHH-HHTT-HHH----HHHHHHHHT-HHHHHHHHHHTT-H
T ss_pred hcCc------------cccHHHHHH-h-CCH-HHHHHHHHHH-HHccCHHH----HHHHHHHcCCHHHHHHHHHHcCCc
Confidence 5443 455567765 3 343 4444444432 22333333 445788999999999988876543
No 29
>KOG1077 consensus Vesicle coat complex AP-2, alpha subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=33.82 E-value=9.5e+02 Score=31.33 Aligned_cols=88 Identities=14% Similarity=0.166 Sum_probs=51.3
Q ss_pred HHHHHHHHHHhhccCchHHHHH----HHHhhhHHHhhCHHHHHHHHHHHH---------------------HHhCCHHHH
Q 001744 834 EFSAYHLLCVILHSNNKRELLS----LMSRLSDKAKQDKAVKHALAVRAA---------------------VSSGNYIMF 888 (1018)
Q Consensus 834 EF~AYrILY~Ll~~nN~~DLl~----~L~~Lp~eik~dp~VkfAL~Vr~A---------------------la~GNYvRF 888 (1018)
--++..|||.|++..|..+|.. .|......++++-.++.|+--... +.++=|+|.
T Consensus 386 rrravDLLY~mcD~~Nak~IV~elLqYL~tAd~sireeivlKvAILaEKyAtDy~WyVdviLqLiriagd~vsdeVW~Rv 465 (938)
T KOG1077|consen 386 RRRAVDLLYAMCDVSNAKQIVAELLQYLETADYSIREEIVLKVAILAEKYATDYSWYVDVILQLIRIAGDYVSDEVWYRV 465 (938)
T ss_pred HHHHHHHHHHHhchhhHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHhcccccHHHHHHh
Confidence 3478889999987666555443 333333345555555555422221 112334555
Q ss_pred HHHHhcCChhHHHHHHHHHHHHHHHH-HHHHHHH
Q 001744 889 FRLYKTAPNLNTCLMDLYVEKMRFKA-VSCMSRS 921 (1018)
Q Consensus 889 FRLyksaP~L~acLMd~f~~rmR~~A-Lk~I~KA 921 (1018)
.+++-.-+.++.|.....|+.+-..| =.+|.|+
T Consensus 466 vQiVvNnedlq~yaak~~fe~Lq~~a~hE~mVKv 499 (938)
T KOG1077|consen 466 VQIVVNNEDLQGYAAKRLFEYLQKPACHENMVKV 499 (938)
T ss_pred heeEecchhhhHHHHHHHHHHHhhhHHHHHHHHh
Confidence 55555667788888888887765544 4677775
No 30
>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=32.94 E-value=41 Score=31.60 Aligned_cols=52 Identities=19% Similarity=0.310 Sum_probs=36.4
Q ss_pred HHHHHHHHHHHHHHHcC--CCCCHHHHHHhhCCCCCCCCCcccccccCCCHHHHHHHHHHcCCeEee
Q 001744 907 VEKMRFKAVSCMSRSYR--PTVPVSYVAQVLGFTGVSPTNEECEERDSDGLEECVEWLKAHGASLVT 971 (1018)
Q Consensus 907 ~~rmR~~ALk~I~KAYr--ptIPLs~LaelLgFds~d~~~~~~e~~~~~~lEEc~eFLk~~Gl~v~~ 971 (1018)
+..++.+.|..|..... --|+++.|++.|+|... .+.++++||..-|.+...
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 27999999999988754 358999999999998763
No 31
>cd02419 Peptidase_C39C A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage is mediated by the transporter as part of the secretion process. Bacteriocins are antibiotic proteins secreted by some species of bacteria that inhibit the growth of other bacterial species. The bacteriocin is synthesized as a precursor with an N-terminal leader peptide, and processing involves removal of the leader peptide by cleavage at a Gly-Gly bond, followed by translocation of the mature bacteriocin across the cytoplasmic membrane. Most endopeptidases of family C39 are N-terminal domains in larger proteins (ABC transporters) that serve both functions. The proposed protease active site is conserved in this sub-family.
Probab=31.47 E-value=3.5e+02 Score=25.42 Aligned_cols=89 Identities=11% Similarity=0.113 Sum_probs=56.7
Q ss_pred HHHHHHHHHHHHcCCCCCHHHHHHhhCCCCCCCCCcccccccCCCHHHHHHHHHHcCCeEee------------------
Q 001744 910 MRFKAVSCMSRSYRPTVPVSYVAQVLGFTGVSPTNEECEERDSDGLEECVEWLKAHGASLVT------------------ 971 (1018)
Q Consensus 910 mR~~ALk~I~KAYrptIPLs~LaelLgFds~d~~~~~~e~~~~~~lEEc~eFLk~~Gl~v~~------------------ 971 (1018)
+...+|.++++-|.-.+..+.|...+..... ...+.++.++++..|+.+..
T Consensus 12 ~~l~~l~~~~~~~g~~~~~~~l~~~~~~~~~-----------~~~~~~l~~~a~~~Gl~~~~~~~~~~~l~~~~lP~i~~ 80 (127)
T cd02419 12 CGLACLAMIASYHGHHVDLASLRQRFPVSLK-----------GATLADLIDIAQQLGLSTRALRLDLEELGQLKLPCILH 80 (127)
T ss_pred HHHHHHHHHHHHcCCCCCHHHHHHHcCCCCC-----------CcCHHHHHHHHHHCCCceeEEEccHHHHhhCCCCEEEE
Confidence 4556888888888778999999998876532 13447888888888874322
Q ss_pred CCCCceEEeccCcCccccCCCCCCccccCCccccHHHHHHhh
Q 001744 972 DANGEVQLDAKASSSTLFMPEPEDAVSHGDANLAVNDFLARA 1013 (1018)
Q Consensus 972 D~~Ge~~lD~K~S~~~L~mPep~~aV~hgdanl~~~df~~~~ 1013 (1018)
+++|+..|-.|.....+.+-.|. .|...++.++|.++-
T Consensus 81 ~~~g~~~Vl~~~~~~~~~i~dp~----~~~~~~~~~el~~~~ 118 (127)
T cd02419 81 WDMNHFVVLKKVSRRRIVIHDPA----LGKRKLSLEEASRHF 118 (127)
T ss_pred ECCCEEEEEEEEcCCEEEEECCc----cCCEEEcHHHHHhhC
Confidence 13455444444443344444442 245578888887654
No 32
>PRK14136 recX recombination regulator RecX; Provisional
Probab=31.25 E-value=4.4e+02 Score=30.71 Aligned_cols=68 Identities=12% Similarity=0.205 Sum_probs=46.9
Q ss_pred CHHHHHHHHHHHHhh----chhh--HhHHHHHh-----hHHHhhhhhhccchhhHHHHHHHHHHHhhcCChhhHHHHHHH
Q 001744 751 PEEVLEKALQMVQNS----QKNY--LYKCDQLK-----SIRQDLTVQRIRNQLTAKVYETHARLAIENGDLPEYNQCQSQ 819 (1018)
Q Consensus 751 Pp~VL~KTL~yL~~k----~~~Y--~FI~DRLR-----SIRQDLTVQrIrneFTVkVYE~hARfaLeagDLeEFNQCqsQ 819 (1018)
++++...+|++|++. ...| .||..+.+ .|||+|.-.+|..++.-.++|.. +..+|..++..
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 568999999999874 2233 46665543 59999998889877666666621 33567778777
Q ss_pred HHHHHHc
Q 001744 820 LKILYAE 826 (1018)
Q Consensus 820 Lk~LY~e 826 (1018)
|..-|..
T Consensus 264 ~eKK~~~ 270 (309)
T PRK14136 264 WRKKFGA 270 (309)
T ss_pred HHHHhcc
Confidence 7777643
No 33
>PF13986 DUF4224: Domain of unknown function (DUF4224)
Probab=30.92 E-value=1.2e+02 Score=25.74 Aligned_cols=39 Identities=18% Similarity=0.465 Sum_probs=31.3
Q ss_pred CCHHHHHHhhCCCCCCCCCcccccccCCCHHHHHHHHHHcCCeEeeCCCCceEE
Q 001744 926 VPVSYVAQVLGFTGVSPTNEECEERDSDGLEECVEWLKAHGASLVTDANGEVQL 979 (1018)
Q Consensus 926 IPLs~LaelLgFds~d~~~~~~e~~~~~~lEEc~eFLk~~Gl~v~~D~~Ge~~l 979 (1018)
+.-+.|.++-|+.-. ..=++||+.+|+.+..+.+|..+|
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 456788888888866 566899999999999988886543
No 34
>PF04769 MAT_Alpha1: Mating-type protein MAT alpha 1; InterPro: IPR006856 This family includes Saccharomyces cerevisiae (Baker's yeast) mating type protein alpha 1 (P01365 from SWISSPROT). MAT alpha 1 is a transcription activator that activates mating-type alpha-specific genes with the help of the MADS-box containing MCM1 transcription factor, which together bind cooperatively to PQ elements upstream of alpha-specific genes. The MCM1-MATalpha1 complex is required for the proper DNA-bending that is needed for transcriptional activation []. Alpha 1 interacts in vivo with STE12, linking expression of alpha-specific genes to the alpha-pheromone (IPR006742 from INTERPRO) response pathway [].; GO: 0000772 mating pheromone activity, 0003677 DNA binding, 0045895 positive regulation of transcription, mating-type specific, 0005634 nucleus
Probab=30.35 E-value=4.1e+02 Score=29.02 Aligned_cols=73 Identities=26% Similarity=0.429 Sum_probs=43.9
Q ss_pred HHHHHHHcC--------CCCCHH----HHHHhhCCCCCCCCCcccccccCCCHHHHHHHHHHcCCeEeeCCCCceEEecc
Q 001744 915 VSCMSRSYR--------PTVPVS----YVAQVLGFTGVSPTNEECEERDSDGLEECVEWLKAHGASLVTDANGEVQLDAK 982 (1018)
Q Consensus 915 Lk~I~KAYr--------ptIPLs----~LaelLgFds~d~~~~~~e~~~~~~lEEc~eFLk~~Gl~v~~D~~Ge~~lD~K 982 (1018)
...|+++|. ..+||+ +...+||+-+. .++|..+||.+..|++|.+.+.-.
T Consensus 87 W~l~ak~ys~iRd~~gk~~~~L~~Fl~~~~p~~gi~~p------------------~~YL~~~Gw~l~~~~~g~~~l~~~ 148 (201)
T PF04769_consen 87 WSLMAKAYSFIRDQLGKDKAPLDQFLAFACPLIGIIPP------------------EDYLEQLGWQLSQNEEGTITLEQW 148 (201)
T ss_pred HHHHhhhhhhhccccccccCCHHHHHHHhhhhcCCCCH------------------HHHHHHcCCeEeeCCCCCEEEEee
Confidence 566788874 256663 33345555443 489999999999999997765433
Q ss_pred CcCccccCCCCCCccc-cCCccccHHHHHH
Q 001744 983 ASSSTLFMPEPEDAVS-HGDANLAVNDFLA 1011 (1018)
Q Consensus 983 ~S~~~L~mPep~~aV~-hgdanl~~~df~~ 1011 (1018)
.+ |+...... .-+.+|.++|.+.
T Consensus 149 ~~------~~~~~~~~~~~~~~ls~~div~ 172 (201)
T PF04769_consen 149 AS------PESTSFGWEIFQTNLSVNDIVG 172 (201)
T ss_pred cC------CcccccccccccccccHHHHHH
Confidence 22 22222111 1156677777654
No 35
>KOG2582 consensus COP9 signalosome, subunit CSN3 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=29.71 E-value=4.9e+02 Score=31.26 Aligned_cols=55 Identities=20% Similarity=0.296 Sum_probs=34.8
Q ss_pred CCCCCccccccchhHHHhhhccCCCCCCCCCCCHHHHHHHHHHHHhhchhhHhHHHHHhhHHHhhhh
Q 001744 719 IDWDALTVKGTCQEIEKRYLRLTSAPDPSTVRPEEVLEKALQMVQNSQKNYLYKCDQLKSIRQDLTV 785 (1018)
Q Consensus 719 ~dwd~~~IVGTCq~LEK~YlRLTaaPdPsdVRPp~VL~KTL~yL~~k~~~Y~FI~DRLRSIRQDLTV 785 (1018)
+..-...|+++|..+--..... =..+|+..++.++++.+..... ||-+|--||..
T Consensus 94 lr~as~~f~~lc~~l~~~~~~~-----~~p~~gi~ii~~av~k~~~~~~-------qlT~~H~~l~~ 148 (422)
T KOG2582|consen 94 LRLASEIFFPLCHDLTEAVVKK-----NKPLRGIRIIMQAVDKMQPSNG-------QLTSIHADLLQ 148 (422)
T ss_pred HhhHHHHHHHHHHHHHHHHHhc-----CCccccchHHHHHHHHhccCcc-------chhhhHHHHHH
Confidence 3333458999999884333321 2357999999999999876422 45555555443
No 36
>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=28.49 E-value=7.3e+02 Score=26.76 Aligned_cols=33 Identities=9% Similarity=0.101 Sum_probs=22.4
Q ss_pred HHHHHHHHHHHHHHHHcCCCCCHHHHHHhhCCCCC
Q 001744 906 YVEKMRFKAVSCMSRSYRPTVPVSYVAQVLGFTGV 940 (1018)
Q Consensus 906 f~~rmR~~ALk~I~KAYrptIPLs~LaelLgFds~ 940 (1018)
|+...|+.-.+.+-+ ....+|..|+..+||.+.
T Consensus 234 yi~~~Rl~~A~~lL~--~t~~sI~eIA~~~GF~s~ 266 (287)
T TIGR02297 234 LIIERVMQEARRLLL--FTQHSINQIAYDLGYKDP 266 (287)
T ss_pred HHHHHHHHHHHHHHH--cCCCCHHHHHHHhCCCCH
Confidence 444455544444322 247999999999999987
No 37
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=28.25 E-value=2.2e+02 Score=36.96 Aligned_cols=144 Identities=13% Similarity=0.087 Sum_probs=0.0
Q ss_pred HHHhhHHHhhhhhhccchhhH------------------HHHH---HHHHHHhhcCChhhHHHHHH--------------
Q 001744 774 DQLKSIRQDLTVQRIRNQLTA------------------KVYE---THARLAIENGDLPEYNQCQS-------------- 818 (1018)
Q Consensus 774 DRLRSIRQDLTVQrIrneFTV------------------kVYE---~hARfaLeagDLeEFNQCqs-------------- 818 (1018)
|.+|.||+++...-+.+.+-| +++| .++.|-|.+.+.+.+-..+.
T Consensus 103 d~iR~l~~~~~~~p~~~~~KV~IIDEad~lt~~a~NaLLK~LEEpP~~~~fIl~tt~~~kLl~TIrSRc~~v~F~~l~~~ 182 (824)
T PRK07764 103 DDARELRERAFFAPAESRYKIFIIDEAHMVTPQGFNALLKIVEEPPEHLKFIFATTEPDKVIGTIRSRTHHYPFRLVPPE 182 (824)
T ss_pred HHHHHHHHHHHhchhcCCceEEEEechhhcCHHHHHHHHHHHhCCCCCeEEEEEeCChhhhhHHHHhheeEEEeeCCCHH
Q ss_pred HHHHHHHcCc--CCChhHHHHHHHHHHhhccCchHHHHHHHHhhhHH-------------HhhCHHHHHHHHHHHHHHhC
Q 001744 819 QLKILYAEGI--EGCCMEFSAYHLLCVILHSNNKRELLSLMSRLSDK-------------AKQDKAVKHALAVRAAVSSG 883 (1018)
Q Consensus 819 QLk~LY~egi--~~nE~EF~AYrILY~Ll~~nN~~DLl~~L~~Lp~e-------------ik~dp~VkfAL~Vr~Ala~G 883 (1018)
.|..+-...+ .+...+=.++.+|..+.. ++..+++.+|.+|-.. +..........+|..++..+
T Consensus 183 ~l~~~L~~il~~EGv~id~eal~lLa~~sg-GdlR~Al~eLEKLia~~~~~~IT~e~V~allg~~~~~~I~~lidAL~~~ 261 (824)
T PRK07764 183 VMRGYLERICAQEGVPVEPGVLPLVIRAGG-GSVRDSLSVLDQLLAGAGPEGVTYERAVALLGVTDSALIDEAVDALAAG 261 (824)
T ss_pred HHHHHHHHHHHHcCCCCCHHHHHHHHHHcC-CCHHHHHHHHHHHHhhcCCCCCCHHHHHHHhcCCCHHHHHHHHHHHHcC
Q ss_pred CHHHHHHHHhcCC---hhHHHHHHHHHHHHHHHHHHHH
Q 001744 884 NYIMFFRLYKTAP---NLNTCLMDLYVEKMRFKAVSCM 918 (1018)
Q Consensus 884 NYvRFFRLyksaP---~L~acLMd~f~~rmR~~ALk~I 918 (1018)
|...+|+++.++- .-..-|+..++.++|...+...
T Consensus 262 D~a~al~~l~~Li~~G~dp~~~L~~LL~~fRDLL~vka 299 (824)
T PRK07764 262 DGAALFGTVDRVIEAGHDPRRFAEDLLERLRDLIVLQA 299 (824)
T ss_pred CHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHh
No 38
>PF12569 NARP1: NMDA receptor-regulated protein 1 ; InterPro: IPR021183 This group represents N-terminal acetyltransferase A (NatA) auxiliary subunit and represents a non-catalytic component of the NatA N-terminal acetyltransferase, which catalyzes acetylation of proteins beginning with Met-Ser, Met-Gly and Met-Ala. N-terminal acetylation plays a role in normal eukaryotic translation and processing, protect against proteolytic degradation and protein turnover. NAT1 anchors ARD1 and NAT5 to the ribosome and may present the N- terminal of nascent polypeptides for acetylation [], [].
Probab=27.63 E-value=4.8e+02 Score=32.16 Aligned_cols=122 Identities=21% Similarity=0.238 Sum_probs=63.3
Q ss_pred HHHHHHHHHHHhhcCChhhHHHHHHHHHHHHHcCcCCChhHHHHHHHHHHhh----c--cCchHHHHHHHHhhhHHHh-h
Q 001744 794 AKVYETHARLAIENGDLPEYNQCQSQLKILYAEGIEGCCMEFSAYHLLCVIL----H--SNNKRELLSLMSRLSDKAK-Q 866 (1018)
Q Consensus 794 VkVYE~hARfaLeagDLeEFNQCqsQLk~LY~egi~~nE~EF~AYrILY~Ll----~--~nN~~DLl~~L~~Lp~eik-~ 866 (1018)
+.++|.-|++.+.-|..+|=......|... |...+.-|+.|..++ . ......+..++..|-...- .
T Consensus 38 ~~~~E~rA~ll~kLg~~~eA~~~y~~Li~r-------NPdn~~Yy~~L~~~~g~~~~~~~~~~~~~~~~y~~l~~~yp~s 110 (517)
T PF12569_consen 38 LAVLEKRAELLLKLGRKEEAEKIYRELIDR-------NPDNYDYYRGLEEALGLQLQLSDEDVEKLLELYDELAEKYPRS 110 (517)
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHHH-------CCCcHHHHHHHHHHHhhhcccccccHHHHHHHHHHHHHhCccc
Confidence 457899999999988887755555555443 333344455554433 1 0112333333433322211 1
Q ss_pred CHHHHHHHHHHH--HH--HhCCHHHHHHHHhcCChhHHHHHHHHHHHHHHHHHHHHHHHcC
Q 001744 867 DKAVKHALAVRA--AV--SSGNYIMFFRLYKTAPNLNTCLMDLYVEKMRFKAVSCMSRSYR 923 (1018)
Q Consensus 867 dp~VkfAL~Vr~--Al--a~GNYvRFFRLyksaP~L~acLMd~f~~rmR~~ALk~I~KAYr 923 (1018)
+..-+++|.+.. .| ....|.+-+ |.+-+|.+..-|-..|-+..+..+|..|...|.
T Consensus 111 ~~~~rl~L~~~~g~~F~~~~~~yl~~~-l~KgvPslF~~lk~Ly~d~~K~~~i~~l~~~~~ 170 (517)
T PF12569_consen 111 DAPRRLPLDFLEGDEFKERLDEYLRPQ-LRKGVPSLFSNLKPLYKDPEKAAIIESLVEEYV 170 (517)
T ss_pred cchhHhhcccCCHHHHHHHHHHHHHHH-HhcCCchHHHHHHHHHcChhHHHHHHHHHHHHH
Confidence 111223332221 00 011122211 334678888888888888888888888877763
No 39
>cd02420 Peptidase_C39D A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage is mediated by the transporter as part of the secretion process. Bacteriocins are antibiotic proteins secreted by some species of bacteria that inhibit the growth of other bacterial species. The bacteriocin is synthesized as a precursor with an N-terminal leader peptide, and processing involves removal of the leader peptide by cleavage at a Gly-Gly bond, followed by translocation of the mature bacteriocin across the cytoplasmic membrane. Most endopeptidases of family C39 are N-terminal domains in larger proteins (ABC transporters) that serve both functions. The proposed protease active site is conserved in this sub-family.
Probab=27.09 E-value=4.8e+02 Score=24.48 Aligned_cols=89 Identities=11% Similarity=0.146 Sum_probs=55.3
Q ss_pred HHHHHHHHHHHHcCCCCCHHHHHHhhCCCCCCCCCcccccccCCCHHHHHHHHHHcCCeEee------------------
Q 001744 910 MRFKAVSCMSRSYRPTVPVSYVAQVLGFTGVSPTNEECEERDSDGLEECVEWLKAHGASLVT------------------ 971 (1018)
Q Consensus 910 mR~~ALk~I~KAYrptIPLs~LaelLgFds~d~~~~~~e~~~~~~lEEc~eFLk~~Gl~v~~------------------ 971 (1018)
+-..+|..+++-|.-.++.+.|...++.+... ....+..+.++..|+....
T Consensus 12 ~gl~~l~~i~~~~g~~~~~~~l~~~~~~~~~~-----------~~~~~l~~~a~~~Gl~~~~~~~~~~~L~~~~lP~I~~ 80 (125)
T cd02420 12 CGAASLAIILAYYGRYVPLSELRIACGVSRDG-----------SNASNLLKAAREYGLTAKGYKKDLEALREVSLPAIVF 80 (125)
T ss_pred HHHHHHHHHHHHcCCCCCHHHHHHHcCCCCCC-----------CCHHHHHHHHHHcCcccceEecCHHHHhcCCCCEEEE
Confidence 45677888888888789999999888764321 2346778888888864221
Q ss_pred CCCCceEEeccCcCccccCCCCCCccccCCccccHHHHHHhh
Q 001744 972 DANGEVQLDAKASSSTLFMPEPEDAVSHGDANLAVNDFLARA 1013 (1018)
Q Consensus 972 D~~Ge~~lD~K~S~~~L~mPep~~aV~hgdanl~~~df~~~~ 1013 (1018)
+++|+..|-.|.....+.+-.|.. |..-++.++|.+.-
T Consensus 81 ~~~g~~~Vl~~~~~~~~~i~dp~~----~~~~~s~~el~~~~ 118 (125)
T cd02420 81 WNFNHFLVVEGFDKRKVFLNDPAT----GRRTVSLEEFDQSF 118 (125)
T ss_pred eCCCEEEEEEEEeCCEEEEECCCc----CceeecHHHHHhhC
Confidence 245555555444333333433321 45567888876653
No 40
>KOG3758 consensus Uncharacterized conserved protein [Function unknown]
Probab=25.90 E-value=6.1e+02 Score=32.18 Aligned_cols=173 Identities=9% Similarity=0.114 Sum_probs=87.6
Q ss_pred CCCCCCCCCHHHHHHHHHHHHhh------------------chhhHhHHHHHhhHHHhhhhhhcc-chhhHHHHHHHHHH
Q 001744 743 APDPSTVRPEEVLEKALQMVQNS------------------QKNYLYKCDQLKSIRQDLTVQRIR-NQLTAKVYETHARL 803 (1018)
Q Consensus 743 aPdPsdVRPp~VL~KTL~yL~~k------------------~~~Y~FI~DRLRSIRQDLTVQrIr-neFTVkVYE~hARf 803 (1018)
.+.|.|+=||+.+...|..+.+- ...|.++.|++=-+-|-.+--|+. .+-.+.||+.++--
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 35666999999999999887541 357888999887777766655555 33444555555544
Q ss_pred Hhhc--CChhhHHHHHHHHHHHHHcCcCCChhHHHHHHHHHHhhccCchHHHHHHHHhhhHHHhhCHHHHHHHHHHHHHH
Q 001744 804 AIEN--GDLPEYNQCQSQLKILYAEGIEGCCMEFSAYHLLCVILHSNNKRELLSLMSRLSDKAKQDKAVKHALAVRAAVS 881 (1018)
Q Consensus 804 aLea--gDLeEFNQCqsQLk~LY~egi~~nE~EF~AYrILY~Ll~~nN~~DLl~~L~~Lp~eik~dp~VkfAL~Vr~Ala 881 (1018)
+|.. +-++-+++-...|...-+. +-.-.....+=++ ++..+..+++..+....++... ...=-.+..+..
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 LIKSRLARYEFLDERVEMLQAKIEA----YLDTLVTLQVSFL-LENTGLSDLYQKFNMITPEDSV---LSLDPDLESALL 572 (655)
T ss_pred HHHhHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHH-HHHcChHHHHHHHHhcCcchhh---hhccccccHHHH
Confidence 4432 1122223322222221110 0000111111111 1112334444444443332210 000002223333
Q ss_pred hCCHHHHHHHHh-----cCChhHHHHHHHHHHHHHHHHHHHHHHHcC
Q 001744 882 SGNYIMFFRLYK-----TAPNLNTCLMDLYVEKMRFKAVSCMSRSYR 923 (1018)
Q Consensus 882 ~GNYvRFFRLyk-----saP~L~acLMd~f~~rmR~~ALk~I~KAYr 923 (1018)
..--++|+..+. .+|.+...+--+.-++++.+..+.++++|.
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 345556555667778888888889999985
No 41
>KOG2003 consensus TPR repeat-containing protein [General function prediction only]
Probab=25.78 E-value=9.8e+02 Score=29.72 Aligned_cols=29 Identities=38% Similarity=0.548 Sum_probs=23.7
Q ss_pred hCHHHHHHHHHHHHHH-hCCHHHHHHHHhc
Q 001744 866 QDKAVKHALAVRAAVS-SGNYIMFFRLYKT 894 (1018)
Q Consensus 866 ~dp~VkfAL~Vr~Ala-~GNYvRFFRLyks 894 (1018)
+-..+++-|-|..||+ .|||.+-|.||+.
T Consensus 656 qp~~~kwqlmiasc~rrsgnyqka~d~yk~ 685 (840)
T KOG2003|consen 656 QPNQSKWQLMIASCFRRSGNYQKAFDLYKD 685 (840)
T ss_pred CccHHHHHHHHHHHHHhcccHHHHHHHHHH
Confidence 3345688889999986 7999999999974
No 42
>PF15469 Sec5: Exocyst complex component Sec5
Probab=25.71 E-value=6.7e+02 Score=25.94 Aligned_cols=51 Identities=16% Similarity=0.114 Sum_probs=34.3
Q ss_pred HHHHHHHHHHHHHHhCCHHHHHHHHhcCChhHHHH--HHHHHHHHHHHHHHHH
Q 001744 868 KAVKHALAVRAAVSSGNYIMFFRLYKTAPNLNTCL--MDLYVEKMRFKAVSCM 918 (1018)
Q Consensus 868 p~VkfAL~Vr~Ala~GNYvRFFRLyksaP~L~acL--Md~f~~rmR~~ALk~I 918 (1018)
..+.....|+.++..|+|..|.+.|.++-.+..-. -...|.++...+=.+|
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 45677778999999999999999998875543322 3334455544444433
No 43
>KOG3389 consensus NADH:ubiquinone oxidoreductase, NDUFS4/18 kDa subunit [Energy production and conversion]
Probab=25.31 E-value=37 Score=35.40 Aligned_cols=43 Identities=21% Similarity=0.312 Sum_probs=31.2
Q ss_pred CCHHHHHHhhCCCCCCCCCcccccccCCCHHHHHHHHHHcCCeEeeCCCCceEEeccC
Q 001744 926 VPVSYVAQVLGFTGVSPTNEECEERDSDGLEECVEWLKAHGASLVTDANGEVQLDAKA 983 (1018)
Q Consensus 926 IPLs~LaelLgFds~d~~~~~~e~~~~~~lEEc~eFLk~~Gl~v~~D~~Ge~~lD~K~ 983 (1018)
=||.-+--.|.|++. |+++.||+.+||.+...+..+-.+..|.
T Consensus 120 DPlsNvgm~L~F~tk---------------EdA~sFaEkngW~ydveep~~pk~K~Ks 162 (178)
T KOG3389|consen 120 DPLSNVGMALAFDTK---------------EDAKSFAEKNGWDYDVEEPNTPKLKVKS 162 (178)
T ss_pred CcccccceeeeeccH---------------HHHHHHHHHcCCcccccCCCCCcccccc
Confidence 466666667888877 8999999999999876655444444444
No 44
>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]
Probab=24.53 E-value=1.3e+03 Score=27.91 Aligned_cols=95 Identities=19% Similarity=0.140 Sum_probs=56.3
Q ss_pred HHHHHHHHHHhhcCChhhHHHHHHHHHHHHHcCcCCC----hhHHHHHH-HHHHhhccCchHHHHHHHHhhhHHHhhCHH
Q 001744 795 KVYETHARLAIENGDLPEYNQCQSQLKILYAEGIEGC----CMEFSAYH-LLCVILHSNNKRELLSLMSRLSDKAKQDKA 869 (1018)
Q Consensus 795 kVYE~hARfaLeagDLeEFNQCqsQLk~LY~egi~~n----E~EF~AYr-ILY~Ll~~nN~~DLl~~L~~Lp~eik~dp~ 869 (1018)
+|+-...|++|..|+..+ -+.-|-.|=+.++-.. ..|-.+|. ||--+.+.+....+......+|.+++.+|.
T Consensus 188 ~vlrLa~r~y~~~g~~~~---ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~~~pr~lr~~p~ 264 (400)
T COG3071 188 EVLRLALRAYIRLGAWQA---LLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWKNQPRKLRNDPE 264 (400)
T ss_pred HHHHHHHHHHHHhccHHH---HHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHHhccHHhhcChh
Confidence 444555566666655433 2333333333332211 23556665 444443333334567788999999999999
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHh
Q 001744 870 VKHALAVRAAVSSGNYIMFFRLYK 893 (1018)
Q Consensus 870 VkfAL~Vr~Ala~GNYvRFFRLyk 893 (1018)
|+.++. .+.+..|.+..-+++++
T Consensus 265 l~~~~a-~~li~l~~~~~A~~~i~ 287 (400)
T COG3071 265 LVVAYA-ERLIRLGDHDEAQEIIE 287 (400)
T ss_pred HHHHHH-HHHHHcCChHHHHHHHH
Confidence 988864 35667788877777765
No 45
>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=24.30 E-value=89 Score=32.55 Aligned_cols=24 Identities=21% Similarity=0.386 Sum_probs=15.1
Q ss_pred hhhHhHHHHHhhHHHhhhhhhccc
Q 001744 767 KNYLYKCDQLKSIRQDLTVQRIRN 790 (1018)
Q Consensus 767 ~~Y~FI~DRLRSIRQDLTVQrIrn 790 (1018)
+-..|+-+||+++=+-|-|.++.+
T Consensus 103 k~LrFc~eRL~sLl~TLei~d~~d 126 (146)
T PF06777_consen 103 KPLRFCSERLSSLLRTLEITDIDD 126 (146)
T ss_pred HHHHHHHHHHHHHHHHHCCCcHhh
Confidence 345677777777766666555443
No 46
>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=23.50 E-value=44 Score=33.46 Aligned_cols=21 Identities=33% Similarity=0.684 Sum_probs=17.0
Q ss_pred HHHHhhCCCCCCCCCcccccccCCCHHHHHHHHHHc
Q 001744 930 YVAQVLGFTGVSPTNEECEERDSDGLEECVEWLKAH 965 (1018)
Q Consensus 930 ~LaelLgFds~d~~~~~~e~~~~~~lEEc~eFLk~~ 965 (1018)
.|+++||||-. ..+++||-..
T Consensus 34 dLQDmLGfDKa---------------SKTveWLL~k 54 (138)
T PF03634_consen 34 DLQDMLGFDKA---------------SKTVEWLLTK 54 (138)
T ss_pred HHHHHhcCCCC---------------CchHHHHHHh
Confidence 38999999988 5788888654
No 47
>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=23.40 E-value=1.4e+02 Score=28.75 Aligned_cols=18 Identities=44% Similarity=0.767 Sum_probs=12.5
Q ss_pred CCcccCCCCCC-CcCcccc
Q 001744 148 VGAYQNSGAPY-QPISSFQ 165 (1018)
Q Consensus 148 ~g~~q~~ga~~-qp~~~f~ 165 (1018)
.|-.+.++.+| +||.++|
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 48
>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=23.01 E-value=2.2e+02 Score=25.08 Aligned_cols=36 Identities=17% Similarity=0.404 Sum_probs=23.4
Q ss_pred HHHHHHHHHHHHHHHHHHcCCCCCHHHHHHhhCCCCC
Q 001744 904 DLYVEKMRFKAVSCMSRSYRPTVPVSYVAQVLGFTGV 940 (1018)
Q Consensus 904 d~f~~rmR~~ALk~I~KAYrptIPLs~LaelLgFds~ 940 (1018)
..++..+|...+..+.... +.+++..|+..+||.+.
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 3466677775555544333 48999999999999987
No 49
>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]
Probab=22.50 E-value=1.4e+03 Score=31.35 Aligned_cols=58 Identities=16% Similarity=0.204 Sum_probs=29.7
Q ss_pred CCCCCCC-HHHHHHHHHHHHhhchhhHhHHHHHhhHHHhhhhhhccchhhHHHHHHHHHHHhhc
Q 001744 745 DPSTVRP-EEVLEKALQMVQNSQKNYLYKCDQLKSIRQDLTVQRIRNQLTAKVYETHARLAIEN 807 (1018)
Q Consensus 745 dPsdVRP-p~VL~KTL~yL~~k~~~Y~FI~DRLRSIRQDLTVQrIrneFTVkVYE~hARfaLea 807 (1018)
+-+.|=| .-||.++-++|..+.-.=.|.|-|-+-| ||.+= - +...+.++..+-.-|+.
T Consensus 670 NLEtI~pR~lVLa~vr~~l~~~~y~~AF~~~RkhRi--dlnii--~-d~~~~~Fl~nv~afl~~ 728 (1265)
T KOG1920|consen 670 NLETIYPRILVLAKVRTLLDRLRYKEAFEVMRKHRI--DLNII--F-DYDPKRFLKNVPAFLKQ 728 (1265)
T ss_pred CceeechhhhHHHHHHHHHHHHHHHHHHHHHHHhcc--Cccch--h-hcCHHHHHhhHHHHhcc
Confidence 4445555 4467777777766433334555444433 54331 1 22255666666555544
No 50
>KOG3107 consensus Predicted haloacid dehalogenase-like hydrolase (eyes absent) [General function prediction only]
Probab=22.45 E-value=2.4e+02 Score=33.82 Aligned_cols=31 Identities=23% Similarity=0.274 Sum_probs=16.9
Q ss_pred CCCccCC-cccCCCCCCCcCccccCCCcccCC
Q 001744 143 SYPQPVG-AYQNSGAPYQPISSFQNSGSYVGP 173 (1018)
Q Consensus 143 ~~~~~~g-~~q~~ga~~qp~~~f~~~gs~~~~ 173 (1018)
+++++-+ .||..|+-||+.+.+--.|.=+++
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 51
>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=22.26 E-value=38 Score=38.21 Aligned_cols=84 Identities=13% Similarity=0.191 Sum_probs=47.1
Q ss_pred HHHHHhCCHHH-HHHHHhcCChhHHHHHHHHHHH---HHHHHHHHHHHHcCCCCCHHHHHHhhCCCCCCCCCcccccccC
Q 001744 877 RAAVSSGNYIM-FFRLYKTAPNLNTCLMDLYVEK---MRFKAVSCMSRSYRPTVPVSYVAQVLGFTGVSPTNEECEERDS 952 (1018)
Q Consensus 877 r~Ala~GNYvR-FFRLyksaP~L~acLMd~f~~r---mR~~ALk~I~KAYrptIPLs~LaelLgFds~d~~~~~~e~~~~ 952 (1018)
.++++.=+||. +++++. ++....+.|.+|+.- -+..||..+.+.|+ .+|- .|.+.|-++++|.+
T Consensus 122 ~~si~~L~yH~~~Ld~mg-~~~~~~~~i~IH~GG~YgdK~~al~RF~~~~~-~L~~-~ir~rL~lENDd~~--------- 189 (275)
T PF03851_consen 122 ENSIRDLEYHARLLDLMG-LDDSPDHKINIHVGGVYGDKEAALERFIENFK-RLPE-SIRKRLTLENDDKT--------- 189 (275)
T ss_dssp HHHHHHHHHHHHHHHHTT--TT----EEEEE----SS-HHHHHHHHHHHHH-T--H-HHHTTEEEE--SSS---------
T ss_pred HHHHHHHHHHHHHHHHcC-CCcccccEEEEeeCCCCCChHHHHHHHHHHHh-hCCH-hhhhcEEEecCCCc---------
Confidence 34555555654 334433 222213455566663 36788888888886 6654 47888999987543
Q ss_pred CCHHHHHHHHHHcCCeEeeC
Q 001744 953 DGLEECVEWLKAHGASLVTD 972 (1018)
Q Consensus 953 ~~lEEc~eFLk~~Gl~v~~D 972 (1018)
=.++|++..|++.|+.++.|
T Consensus 190 yt~~d~L~ic~~~giP~VfD 209 (275)
T PF03851_consen 190 YTVEDVLPICEKLGIPMVFD 209 (275)
T ss_dssp --HHHHHHHHHHHT--EEEE
T ss_pred cCHHHHHHHHHHhCCCEEEE
Confidence 24689999999999999887
No 52
>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=22.00 E-value=2.9e+02 Score=27.27 Aligned_cols=65 Identities=22% Similarity=0.205 Sum_probs=45.9
Q ss_pred hHhHHHHHhhHHHhhhhhhccchhhHHHHHHHHH---HHhhcCChhhHHHHHHHHHHHHHcCcCCChhHHHH
Q 001744 769 YLYKCDQLKSIRQDLTVQRIRNQLTAKVYETHAR---LAIENGDLPEYNQCQSQLKILYAEGIEGCCMEFSA 837 (1018)
Q Consensus 769 Y~FI~DRLRSIRQDLTVQrIrneFTVkVYE~hAR---faLeagDLeEFNQCqsQLk~LY~egi~~nE~EF~A 837 (1018)
..-++.||+.|=.+|.-.. .+.+--+++|++.= -+|..+...+||..+..|+..+.. ++..+|+-
T Consensus 20 ~~~A~~qM~~vI~~Lv~~s-~~~~y~kalecl~~lR~~~i~~~ep~~yN~Fl~~LK~~~~~---~~~~~FW~ 87 (120)
T PF08785_consen 20 FQKAIQQMKNVIEQLVSDS-GDQNYDKALECLRALREECIEEEEPDEYNDFLRKLKKKLLS---KDRRDFWE 87 (120)
T ss_dssp CCHHHHHHHHHHHHHHHCS-HCHHHHHHHHHHHHHHHHHHHHT-CHHHHHHHHHHHHHHHC---TTTCHHHH
T ss_pred HHHHHHHHHHHHHHHHhcc-CcchHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHh---ccHHHHHH
Confidence 5668888888888887776 55555555555443 367778899999999999998764 24567775
No 53
>KOG1676 consensus K-homology type RNA binding proteins [RNA processing and modification]
Probab=21.42 E-value=2.9e+02 Score=34.54 Aligned_cols=132 Identities=26% Similarity=0.342 Sum_probs=0.0
Q ss_pred ccccCCCCCCCCCCCCCCCCCccccCCCCCCCCCCccCCcc----cCCCCCCCc--CccccCCCcccCCCCCCccccCCC
Q 001744 111 GYTSYPNSSDPYAYGSTAYPGYYSSYQQQPNHSYPQPVGAY----QNSGAPYQP--ISSFQNSGSYVGPASYSATYYNPG 184 (1018)
Q Consensus 111 ~~~~y~~~~~~~~y~~~~y~~yy~~y~q~~~~~~~~~~g~~----q~~ga~~qp--~~~f~~~gs~~~~~~~~~tyyn~~ 184 (1018)
.+..|..|-.||+++ ..++.|+ ++|+.|.+---..+++ |..-|.|+| +--=|+.+ -+. +..++-|-
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 001744 185 DYQTAGGYPSSGYSHQTTSWNEGNYTNYTSHQYSNYTSDTSGAYSSGTAPATSLQYQQQ--------------------- 243 (1018)
Q Consensus 185 ~~qt~~~y~~~~~~~q~~~~~~~~~~~~~~~~y~~~~~d~~~~~ss~~~~~~~~~y~q~--------------------- 243 (1018)
.-+..|. .+|..+.|.-|.+-.-.-++....+ ..=.|+++
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 001744 244 --YKQWADYYSQTEVSCAPGTENLSVAS 269 (1018)
Q Consensus 244 --y~qw~~yy~~~~~~~~~~~~~~~~~~ 269 (1018)
|-+|+.||.+.+-.-+...+.+.+..
T Consensus 563 dy~~~w~~Yy~~qa~~~~~t~g~~~~~~ 590 (600)
T KOG1676|consen 563 DYSASWAEYYRAQAAVYGQTPGTGGATP 590 (600)
T ss_pred CcchhhHHHHHHHHHHhhccCCcCCCCC
No 54
>smart00874 B5 tRNA synthetase B5 domain. This domain is found in phenylalanine-tRNA synthetase beta subunits.
Probab=20.17 E-value=1.8e+02 Score=25.51 Aligned_cols=34 Identities=26% Similarity=0.271 Sum_probs=28.3
Q ss_pred CCCHHHHHHhhCCCCCCCCCcccccccCCCHHHHHHHHHHcCCeEeeC
Q 001744 925 TVPVSYVAQVLGFTGVSPTNEECEERDSDGLEECVEWLKAHGASLVTD 972 (1018)
Q Consensus 925 tIPLs~LaelLgFds~d~~~~~~e~~~~~~lEEc~eFLk~~Gl~v~~D 972 (1018)
.++++.|.++||.+-. .+++.+.|+..|+.+..+
T Consensus 5 ~~~~~~i~~llG~~i~--------------~~ei~~~L~~lg~~~~~~ 38 (71)
T smart00874 5 TLRRERINRLLGLDLS--------------AEEIEEILKRLGFEVEVS 38 (71)
T ss_pred EecHHHHHHHHCCCCC--------------HHHHHHHHHHCCCeEEec
Confidence 5788999999998744 289999999999988654
No 55
>PF10255 Paf67: RNA polymerase I-associated factor PAF67; InterPro: IPR019382 RNA polymerase I is a multi-subunit enzyme and its transcription competence is dependent on the presence of PAF67 [].
Probab=20.08 E-value=8.7e+02 Score=29.25 Aligned_cols=61 Identities=21% Similarity=0.334 Sum_probs=40.3
Q ss_pred HHHhCCHHHHHHHHhcC-C--------h------------hHHHHHHHHHHHHHHHHHHHHHHHcC---CCCCHHHHHHh
Q 001744 879 AVSSGNYIMFFRLYKTA-P--------N------------LNTCLMDLYVEKMRFKAVSCMSRSYR---PTVPVSYVAQV 934 (1018)
Q Consensus 879 Ala~GNYvRFFRLyksa-P--------~------------L~acLMd~f~~rmR~~ALk~I~KAYr---ptIPLs~Lael 934 (1018)
.+..|+-..|-.|+..+ | . ....-+..|++.++....-...|+|- .+|+++.|+.+
T Consensus 251 kmq~gd~~~f~elF~~acPKFIsp~~pp~~~~~~~~~~~e~~~~Ql~~Fl~eV~~q~~l~~lRSyLKLYtti~l~KLA~f 330 (404)
T PF10255_consen 251 KMQRGDEEAFEELFSFACPKFISPVSPPDYDGPSQNKNKEPYRRQLKLFLDEVKQQQKLPTLRSYLKLYTTIPLEKLASF 330 (404)
T ss_pred HHHccCHHHHHHHHHhhCCCccCCCCCCCcccccchhhhhHHHHHHHHHHHHHHHhhhhhHHHHHHHhhcCCCHHHHHHH
Confidence 36678877777776532 2 1 11224667888887766544445543 29999999999
Q ss_pred hCCCC
Q 001744 935 LGFTG 939 (1018)
Q Consensus 935 LgFds 939 (1018)
|..+.
T Consensus 331 l~vd~ 335 (404)
T PF10255_consen 331 LDVDE 335 (404)
T ss_pred cCCCH
Confidence 99964
Done!