Query 040130
Match_columns 147
No_of_seqs 106 out of 1424
Neff 7.1
Searched_HMMs 46136
Date Fri Mar 29 05:24:32 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/040130.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/040130hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2120 SCF ubiquitin ligase, 99.5 2.3E-14 5E-19 116.9 6.1 111 35-146 93-275 (419)
2 KOG4341 F-box protein containi 99.5 2.4E-14 5.2E-19 120.4 4.5 101 43-146 74-205 (483)
3 PF12937 F-box-like: F-box-lik 99.2 2.8E-12 6.1E-17 77.1 0.6 44 41-84 1-46 (47)
4 smart00256 FBOX A Receptor for 98.6 1.5E-08 3.3E-13 58.1 1.9 32 44-75 1-32 (41)
5 PF00646 F-box: F-box domain; 98.5 1.5E-08 3.2E-13 60.5 0.0 35 41-75 3-37 (48)
6 KOG4341 F-box protein containi 98.2 5.6E-07 1.2E-11 76.4 1.1 62 82-146 169-231 (483)
7 KOG1947 Leucine rich repeat pr 98.0 6.3E-06 1.4E-10 68.9 4.6 53 92-147 259-311 (482)
8 KOG0281 Beta-TrCP (transducin 97.4 2.6E-05 5.7E-10 65.1 -0.5 45 38-82 72-122 (499)
9 KOG1947 Leucine rich repeat pr 97.4 0.00017 3.7E-09 60.3 4.3 51 94-147 235-285 (482)
10 smart00367 LRR_CC Leucine-rich 97.4 0.00019 4.1E-09 37.6 2.4 25 101-128 1-25 (26)
11 smart00367 LRR_CC Leucine-rich 97.3 0.0001 2.3E-09 38.6 1.2 18 130-147 1-18 (26)
12 KOG2997 F-box protein FBX9 [Ge 97.2 0.00017 3.8E-09 59.5 2.0 57 25-81 89-154 (366)
13 KOG3864 Uncharacterized conser 97.1 0.00046 1E-08 53.9 3.6 46 98-146 121-166 (221)
14 PLN03215 ascorbic acid mannose 96.3 0.0024 5.1E-08 54.0 2.4 36 41-76 4-40 (373)
15 KOG2120 SCF ubiquitin ligase, 96.2 0.0022 4.7E-08 53.3 1.7 47 94-144 305-351 (419)
16 KOG3864 Uncharacterized conser 95.2 0.0089 1.9E-07 46.8 1.3 47 94-144 143-189 (221)
17 PF12799 LRR_4: Leucine Rich r 95.0 0.016 3.5E-07 34.1 1.6 38 102-146 1-38 (44)
18 PF13516 LRR_6: Leucine Rich r 94.4 0.037 8.1E-07 28.0 2.0 24 101-128 1-24 (24)
19 KOG0274 Cdc4 and related F-box 94.2 0.015 3.4E-07 51.3 0.5 40 36-75 103-142 (537)
20 cd00116 LRR_RI Leucine-rich re 93.0 0.17 3.7E-06 40.1 4.5 41 97-141 216-260 (319)
21 PF13013 F-box-like_2: F-box-l 91.9 0.16 3.4E-06 35.9 2.6 29 41-69 22-50 (109)
22 smart00368 LRR_RI Leucine rich 89.7 0.43 9.4E-06 25.1 2.6 25 102-130 2-26 (28)
23 KOG3665 ZYG-1-like serine/thre 89.5 0.44 9.6E-06 43.5 4.0 49 92-145 138-186 (699)
24 PF13504 LRR_7: Leucine rich r 88.5 0.36 7.7E-06 22.6 1.5 14 131-145 1-14 (17)
25 cd00116 LRR_RI Leucine-rich re 85.8 1.2 2.5E-05 35.3 4.0 38 100-141 191-231 (319)
26 KOG3926 F-box proteins [Amino 85.7 0.27 5.9E-06 40.2 0.2 54 28-82 190-246 (332)
27 KOG2982 Uncharacterized conser 84.3 0.9 1.9E-05 38.1 2.7 47 94-145 63-110 (418)
28 PF13855 LRR_8: Leucine rich r 84.1 0.074 1.6E-06 32.6 -2.9 42 96-142 19-60 (61)
29 PF09372 PRANC: PRANC domain; 83.5 1.3 2.9E-05 29.9 2.9 27 38-64 69-95 (97)
30 PF00560 LRR_1: Leucine Rich R 78.7 0.76 1.7E-05 22.7 0.3 13 132-145 1-13 (22)
31 KOG2739 Leucine-rich acidic nu 77.7 1.1 2.4E-05 36.2 1.1 19 122-140 82-100 (260)
32 KOG3207 Beta-tubulin folding c 77.4 1.8 3.8E-05 37.8 2.3 17 94-110 164-180 (505)
33 KOG1909 Ran GTPase-activating 76.6 3 6.4E-05 35.4 3.3 21 36-56 164-184 (382)
34 KOG3207 Beta-tubulin folding c 74.4 2.3 4.9E-05 37.2 2.1 36 101-140 196-231 (505)
35 PF06881 Elongin_A: RNA polyme 67.4 4 8.6E-05 28.3 1.8 43 40-82 3-45 (109)
36 PF14580 LRR_9: Leucine-rich r 62.7 5.2 0.00011 30.3 1.8 14 44-57 4-17 (175)
37 PHA03100 ankyrin repeat protei 61.7 8.6 0.00019 32.5 3.1 30 39-68 446-475 (480)
38 KOG1909 Ran GTPase-activating 59.8 10 0.00023 32.2 3.2 44 94-141 205-251 (382)
39 PHA02875 ankyrin repeat protei 54.8 10 0.00022 31.6 2.4 26 39-64 385-410 (413)
40 PLN00113 leucine-rich repeat r 54.8 13 0.00027 34.6 3.2 44 94-141 85-128 (968)
41 KOG3665 ZYG-1-like serine/thre 54.1 4.1 8.8E-05 37.4 -0.1 47 64-110 132-181 (699)
42 PHA02989 ankyrin repeat protei 50.6 13 0.00029 31.9 2.5 28 39-66 457-484 (494)
43 PF07723 LRR_2: Leucine Rich R 50.0 12 0.00027 19.2 1.4 25 104-131 2-26 (26)
44 KOG2739 Leucine-rich acidic nu 45.7 11 0.00024 30.5 1.2 44 94-142 83-127 (260)
45 PLN03210 Resistant to P. syrin 42.9 22 0.00047 34.3 2.9 16 129-144 679-694 (1153)
46 PLN03210 Resistant to P. syrin 42.4 15 0.00032 35.5 1.7 43 98-145 865-907 (1153)
47 PHA03095 ankyrin-like protein; 42.4 25 0.00054 29.6 2.9 23 42-64 443-465 (471)
48 PHA02878 ankyrin repeat protei 41.4 25 0.00054 30.0 2.8 25 39-63 445-469 (477)
49 PHA02798 ankyrin-like protein; 40.9 24 0.00052 30.3 2.6 25 38-62 461-485 (489)
50 KOG4194 Membrane glycoprotein 30.9 14 0.0003 33.9 -0.5 42 99-140 314-374 (873)
51 PLN03150 hypothetical protein; 30.5 32 0.0007 30.9 1.8 13 129-141 488-500 (623)
52 PF08004 DUF1699: Protein of u 28.9 71 0.0015 23.2 3.0 21 118-138 28-48 (131)
53 KOG2123 Uncharacterized conser 28.8 11 0.00023 31.6 -1.4 36 99-138 60-95 (388)
54 KOG0618 Serine/threonine phosp 26.6 35 0.00076 32.7 1.3 36 102-142 452-487 (1081)
55 KOG2502 Tub family proteins [G 26.5 88 0.0019 26.5 3.5 37 39-75 43-87 (355)
56 KOG3763 mRNA export factor TAP 26.2 65 0.0014 29.1 2.9 45 93-140 209-253 (585)
57 COG5238 RNA1 Ran GTPase-activa 23.8 52 0.0011 27.6 1.7 39 99-141 211-252 (388)
58 PHA02876 ankyrin repeat protei 22.8 60 0.0013 29.1 2.1 25 39-63 654-678 (682)
59 PLN00113 leucine-rich repeat r 22.7 56 0.0012 30.4 1.9 13 98-110 160-172 (968)
60 PLN03150 hypothetical protein; 21.1 61 0.0013 29.2 1.7 43 94-141 434-476 (623)
No 1
>KOG2120 consensus SCF ubiquitin ligase, Skp2 component [Posttranslational modification, protein turnover, chaperones]
Probab=99.51 E-value=2.3e-14 Score=116.89 Aligned_cols=111 Identities=26% Similarity=0.413 Sum_probs=83.9
Q ss_pred ccCCCCCCCCCHHHHHHHHHhCChHHHHHHhhhcccccccC--CCcceeeeccchh---hh-------------------
Q 040130 35 DKARDFTGDLPDDCLAYIFQFLGSGDRKRCSLVCKRWLRVD--GGSRYRLSLNAQS---EI------------------- 90 (147)
Q Consensus 35 ~~~~~~~~~LP~elL~~If~~L~~~dl~~~s~VCk~W~~~~--~~~~~~l~l~~~~---~~------------------- 90 (147)
.++.. ++.|||||++.||+.|..+++.+++.|||+||+++ ..+|+.+|+.... +.
T Consensus 93 npgv~-~~slpDEill~IFs~L~kk~LL~~~~VC~Rfyr~~~de~lW~~lDl~~r~i~p~~l~~l~~rgV~v~Rlar~~~ 171 (419)
T KOG2120|consen 93 NPGVS-WDSLPDEILLGIFSCLCKKELLKVSGVCKRFYRLASDESLWQTLDLTGRNIHPDVLGRLLSRGVIVFRLARSFM 171 (419)
T ss_pred CCCCC-cccCCHHHHHHHHHhccHHHHHHHHHHHHHHhhccccccceeeeccCCCccChhHHHHHHhCCeEEEEcchhhh
Confidence 45556 67899999999999999999999999999999986 5899998875321 00
Q ss_pred -h--------------------------hchHHHhhcCccceeecee----------c-----------cCCCCcccHHH
Q 040130 91 -L--------------------------SSLPSVFSRFDSVTKLALR----------C-----------DRKSISLDDDA 122 (147)
Q Consensus 91 -~--------------------------~~l~~l~~r~~~L~~L~L~----------c-----------~~~c~~itD~~ 122 (147)
. ..+..+++.|.+|+.|+|. | +.+|.++|..+
T Consensus 172 ~~prlae~~~~frsRlq~lDLS~s~it~stl~~iLs~C~kLk~lSlEg~~LdD~I~~~iAkN~~L~~lnlsm~sG~t~n~ 251 (419)
T KOG2120|consen 172 DQPRLAEHFSPFRSRLQHLDLSNSVITVSTLHGILSQCSKLKNLSLEGLRLDDPIVNTIAKNSNLVRLNLSMCSGFTENA 251 (419)
T ss_pred cCchhhhhhhhhhhhhHHhhcchhheeHHHHHHHHHHHHhhhhccccccccCcHHHHHHhccccceeeccccccccchhH
Confidence 0 0122244445444444443 1 12789999999
Q ss_pred HHHHHHhCCCCcEEeccCCCCCCC
Q 040130 123 LVLISLRCQKLTRLKLRGCREITD 146 (147)
Q Consensus 123 L~~la~~cp~L~~L~L~~C~~vtD 146 (147)
+..+...|..|++|||++|..++|
T Consensus 252 ~~ll~~scs~L~~LNlsWc~l~~~ 275 (419)
T KOG2120|consen 252 LQLLLSSCSRLDELNLSWCFLFTE 275 (419)
T ss_pred HHHHHHhhhhHhhcCchHhhccch
Confidence 999999999999999999988776
No 2
>KOG4341 consensus F-box protein containing LRR [General function prediction only]
Probab=99.48 E-value=2.4e-14 Score=120.36 Aligned_cols=101 Identities=26% Similarity=0.478 Sum_probs=77.2
Q ss_pred CCCHHHHHHHHHhCChHHHHHHhhhcccccc--cCCCcceeeeccch-hhh-hhch------------------------
Q 040130 43 DLPDDCLAYIFQFLGSGDRKRCSLVCKRWLR--VDGGSRYRLSLNAQ-SEI-LSSL------------------------ 94 (147)
Q Consensus 43 ~LP~elL~~If~~L~~~dl~~~s~VCk~W~~--~~~~~~~~l~l~~~-~~~-~~~l------------------------ 94 (147)
.||.|++++||++|+.+.++++++||+.|+. +++.+|+++++... .++ ...+
T Consensus 74 ~LPpEl~lkvFS~LDtksl~r~a~~c~~~n~~AlD~~~~q~idL~t~~rDv~g~VV~~~~~Rcgg~lk~LSlrG~r~v~~ 153 (483)
T KOG4341|consen 74 SLPPELLLKVFSMLDTKSLCRAAQCCTMWNKLALDGSCWQHIDLFTFQRDVDGGVVENMISRCGGFLKELSLRGCRAVGD 153 (483)
T ss_pred cCCHHHHHHHHHHHhHHHHHHHHHHHHHhhhhhhccccceeeehhcchhcCCCcceehHhhhhccccccccccccccCCc
Confidence 6999999999999999999999999999966 45899999998533 222 1223
Q ss_pred ---HHHhhcCccceeeceeccCCCCcccHHHHHHHHHhCCCCcEEeccCCCCCCC
Q 040130 95 ---PSVFSRFDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGCREITD 146 (147)
Q Consensus 95 ---~~l~~r~~~L~~L~L~c~~~c~~itD~~L~~la~~cp~L~~L~L~~C~~vtD 146 (147)
..+...|+|+++|++. +|..|||+.+..+++.|++|+.|+|..|..+||
T Consensus 154 sslrt~~~~CpnIehL~l~---gc~~iTd~s~~sla~~C~~l~~l~L~~c~~iT~ 205 (483)
T KOG4341|consen 154 SSLRTFASNCPNIEHLALY---GCKKITDSSLLSLARYCRKLRHLNLHSCSSITD 205 (483)
T ss_pred chhhHHhhhCCchhhhhhh---cceeccHHHHHHHHHhcchhhhhhhcccchhHH
Confidence 3344455555555555 677888888888888888888888888877775
No 3
>PF12937 F-box-like: F-box-like; PDB: 1P22_A 2OVP_B 2OVR_B 2OVQ_B 1FS1_A 1FS2_C 1FQV_I 1LDK_E 2AST_B 2ASS_B.
Probab=99.21 E-value=2.8e-12 Score=77.05 Aligned_cols=44 Identities=43% Similarity=0.741 Sum_probs=36.5
Q ss_pred CCCCCHHHHHHHHHhCChHHHHHHhhhcccccccC--CCcceeeec
Q 040130 41 TGDLPDDCLAYIFQFLGSGDRKRCSLVCKRWLRVD--GGSRYRLSL 84 (147)
Q Consensus 41 ~~~LP~elL~~If~~L~~~dl~~~s~VCk~W~~~~--~~~~~~l~l 84 (147)
+..||+|++.+||+||+.+|+.++++|||+|+.++ ..+|+++.+
T Consensus 1 i~~LP~Eil~~If~~L~~~dl~~~~~vcr~w~~~~~~~~lW~~~~~ 46 (47)
T PF12937_consen 1 ISSLPDEILLEIFSYLDPRDLLRLSLVCRRWRRIANDNSLWRRLCL 46 (47)
T ss_dssp CCCS-HHHHHHHHTTS-HHHHHHHTTSSHHHHHHHTCCCHHHHHC-
T ss_pred ChHhHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHCChhhhhhhcc
Confidence 45799999999999999999999999999999875 478887654
No 4
>smart00256 FBOX A Receptor for Ubiquitination Targets.
Probab=98.63 E-value=1.5e-08 Score=58.09 Aligned_cols=32 Identities=34% Similarity=0.478 Sum_probs=30.5
Q ss_pred CCHHHHHHHHHhCChHHHHHHhhhcccccccC
Q 040130 44 LPDDCLAYIFQFLGSGDRKRCSLVCKRWLRVD 75 (147)
Q Consensus 44 LP~elL~~If~~L~~~dl~~~s~VCk~W~~~~ 75 (147)
||+|++.+||.+|+..|+.++++|||+|+.+.
T Consensus 1 lP~~ll~~I~~~l~~~d~~~~~~vc~~~~~~~ 32 (41)
T smart00256 1 LPDEILEEILSKLPPKDLLRLRKVSRRWRSLI 32 (41)
T ss_pred CCHHHHHHHHHcCCHHHHHHHHHHHHHHHHHh
Confidence 79999999999999999999999999998865
No 5
>PF00646 F-box: F-box domain; InterPro: IPR001810 The F-box domain was first described as a sequence motif found in cyclin-F that interacts with the protein SKP1 [, ]. This relatively conserved structural motif is present in numerous proteins and serves as a link between a target protein and a ubiquitin-conjugating enzyme. The SCF complex (e.g., Skp1-Cullin-F-box) plays a similar role as an E3 ligase in the ubiquitin protein degradation pathway [, ]. Different F-box proteins as a part of SCF complex recruit particular substrates for ubiquitination through specific protein-protein interaction domains. Many mammalian F-box domains contain leucine-rich or WD-40 repeats (IPR001680 from INTERPRO). However, several F-box proteins either have other previously described domains such as Sec7 domain found in FBS protein or do not contain defined protein-protein interaction domains or motifs.; GO: 0005515 protein binding; PDB: 2E32_A 2E31_A 3V7D_B 1NEX_B 3MKS_D 3L2O_B.
Probab=98.54 E-value=1.5e-08 Score=60.53 Aligned_cols=35 Identities=43% Similarity=0.661 Sum_probs=29.1
Q ss_pred CCCCCHHHHHHHHHhCChHHHHHHhhhcccccccC
Q 040130 41 TGDLPDDCLAYIFQFLGSGDRKRCSLVCKRWLRVD 75 (147)
Q Consensus 41 ~~~LP~elL~~If~~L~~~dl~~~s~VCk~W~~~~ 75 (147)
+.+||+|++.+||+||+..|+.++++|||+|+++.
T Consensus 3 ~~~LP~~il~~Il~~l~~~~~~~l~~vsk~~~~~~ 37 (48)
T PF00646_consen 3 LSDLPDEILQEILSYLDPKDLLRLSLVSKRWRSLV 37 (48)
T ss_dssp HHHS-HHHHHHHHHTS-HHHHHHHCTT-HHHHHHH
T ss_pred HHHCCHHHHHHHHHHCcHHHHHHHHHHhhHHHHHH
Confidence 34699999999999999999999999999998765
No 6
>KOG4341 consensus F-box protein containing LRR [General function prediction only]
Probab=98.17 E-value=5.6e-07 Score=76.38 Aligned_cols=62 Identities=31% Similarity=0.403 Sum_probs=47.2
Q ss_pred eeccchhhhh-hchHHHhhcCccceeeceeccCCCCcccHHHHHHHHHhCCCCcEEeccCCCCCCC
Q 040130 82 LSLNAQSEIL-SSLPSVFSRFDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGCREITD 146 (147)
Q Consensus 82 l~l~~~~~~~-~~l~~l~~r~~~L~~L~L~c~~~c~~itD~~L~~la~~cp~L~~L~L~~C~~vtD 146 (147)
+.+..+..++ ..+..+.+.|++|+.|+|. +|..|||..|+.+++.|++|++||+++|.++++
T Consensus 169 L~l~gc~~iTd~s~~sla~~C~~l~~l~L~---~c~~iT~~~Lk~la~gC~kL~~lNlSwc~qi~~ 231 (483)
T KOG4341|consen 169 LALYGCKKITDSSLLSLARYCRKLRHLNLH---SCSSITDVSLKYLAEGCRKLKYLNLSWCPQISG 231 (483)
T ss_pred hhhhcceeccHHHHHHHHHhcchhhhhhhc---ccchhHHHHHHHHHHhhhhHHHhhhccCchhhc
Confidence 3333343333 3466778888888888888 788888888888888888888888888888875
No 7
>KOG1947 consensus Leucine rich repeat proteins, some proteins contain F-box [General function prediction only]
Probab=98.02 E-value=6.3e-06 Score=68.90 Aligned_cols=53 Identities=36% Similarity=0.607 Sum_probs=46.7
Q ss_pred hchHHHhhcCccceeeceeccCCCCcccHHHHHHHHHhCCCCcEEeccCCCCCCCC
Q 040130 92 SSLPSVFSRFDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGCREITDH 147 (147)
Q Consensus 92 ~~l~~l~~r~~~L~~L~L~c~~~c~~itD~~L~~la~~cp~L~~L~L~~C~~vtD~ 147 (147)
..+..+..+|++|++|.+. +|..+||+++..+++.|++|++|+|++|..++|+
T Consensus 259 ~~l~~l~~~c~~L~~L~l~---~c~~lt~~gl~~i~~~~~~L~~L~l~~c~~~~d~ 311 (482)
T KOG1947|consen 259 IGLSALASRCPNLETLSLS---NCSNLTDEGLVSIAERCPSLRELDLSGCHGLTDS 311 (482)
T ss_pred hhHHHHHhhCCCcceEccC---CCCccchhHHHHHHHhcCcccEEeeecCccchHH
Confidence 3577788889999999987 7888999999999999999999999999998763
No 8
>KOG0281 consensus Beta-TrCP (transducin repeats containing)/Slimb proteins [Function unknown]
Probab=97.42 E-value=2.6e-05 Score=65.10 Aligned_cols=45 Identities=40% Similarity=0.658 Sum_probs=39.9
Q ss_pred CCCCCCCC----HHHHHHHHHhCChHHHHHHhhhcccccccC--CCcceee
Q 040130 38 RDFTGDLP----DDCLAYIFQFLGSGDRKRCSLVCKRWLRVD--GGSRYRL 82 (147)
Q Consensus 38 ~~~~~~LP----~elL~~If~~L~~~dl~~~s~VCk~W~~~~--~~~~~~l 82 (147)
+|++..|| +++-+.||+||+..+|++|.+|||.|+++. +.+|+++
T Consensus 72 rDFi~~lP~~gl~hi~e~ilsyld~~sLc~celv~k~W~r~l~dg~~WKkL 122 (499)
T KOG0281|consen 72 RDFITALPEQGLDHIAENILSYLDALSLCACELVCKEWKRVLSDGMLWKKL 122 (499)
T ss_pred HHHHHhcccccHHHHHHHHHHhcchhhhhHHHHHHHHHHHHhccchHHHHH
Confidence 58888999 999999999999999999999999998864 5677765
No 9
>KOG1947 consensus Leucine rich repeat proteins, some proteins contain F-box [General function prediction only]
Probab=97.42 E-value=0.00017 Score=60.27 Aligned_cols=51 Identities=27% Similarity=0.408 Sum_probs=45.7
Q ss_pred hHHHhhcCccceeeceeccCCCCcccHHHHHHHHHhCCCCcEEeccCCCCCCCC
Q 040130 94 LPSVFSRFDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGCREITDH 147 (147)
Q Consensus 94 l~~l~~r~~~L~~L~L~c~~~c~~itD~~L~~la~~cp~L~~L~L~~C~~vtD~ 147 (147)
...+...|.+|++|+|+ .|..++|.++..++..|++|++|.+.+|..+||+
T Consensus 235 ~~~~~~~~~~L~~l~l~---~~~~isd~~l~~l~~~c~~L~~L~l~~c~~lt~~ 285 (482)
T KOG1947|consen 235 LLLLLSICRKLKSLDLS---GCGLVTDIGLSALASRCPNLETLSLSNCSNLTDE 285 (482)
T ss_pred hhhhhhhcCCcCccchh---hhhccCchhHHHHHhhCCCcceEccCCCCccchh
Confidence 34477888999999999 6777999999999999999999999999999874
No 10
>smart00367 LRR_CC Leucine-rich repeat - CC (cysteine-containing) subfamily.
Probab=97.35 E-value=0.00019 Score=37.63 Aligned_cols=25 Identities=16% Similarity=0.306 Sum_probs=20.0
Q ss_pred CccceeeceeccCCCCcccHHHHHHHHH
Q 040130 101 FDSVTKLALRCDRKSISLDDDALVLISL 128 (147)
Q Consensus 101 ~~~L~~L~L~c~~~c~~itD~~L~~la~ 128 (147)
|++|++|+|+ +|..|||.++..|++
T Consensus 1 c~~L~~L~l~---~C~~itD~gl~~l~~ 25 (26)
T smart00367 1 CPNLRELDLS---GCTNITDEGLQALAK 25 (26)
T ss_pred CCCCCEeCCC---CCCCcCHHHHHHHhc
Confidence 5678888888 788888888888875
No 11
>smart00367 LRR_CC Leucine-rich repeat - CC (cysteine-containing) subfamily.
Probab=97.31 E-value=0.0001 Score=38.63 Aligned_cols=18 Identities=50% Similarity=1.018 Sum_probs=16.9
Q ss_pred CCCCcEEeccCCCCCCCC
Q 040130 130 CQKLTRLKLRGCREITDH 147 (147)
Q Consensus 130 cp~L~~L~L~~C~~vtD~ 147 (147)
|++|++|+|++|.+|||+
T Consensus 1 c~~L~~L~l~~C~~itD~ 18 (26)
T smart00367 1 CPNLRELDLSGCTNITDE 18 (26)
T ss_pred CCCCCEeCCCCCCCcCHH
Confidence 899999999999999984
No 12
>KOG2997 consensus F-box protein FBX9 [General function prediction only]
Probab=97.21 E-value=0.00017 Score=59.49 Aligned_cols=57 Identities=21% Similarity=0.314 Sum_probs=41.3
Q ss_pred CCCCCCCcccc--cCCCCCCCCCHHHHHHHHHh-----CChHHHHHHhhhcccccccC--CCccee
Q 040130 25 NDGVEFSDELD--KARDFTGDLPDDCLAYIFQF-----LGSGDRKRCSLVCKRWLRVD--GGSRYR 81 (147)
Q Consensus 25 ~~~~~~~~~~~--~~~~~~~~LP~elL~~If~~-----L~~~dl~~~s~VCk~W~~~~--~~~~~~ 81 (147)
+++.-+-|..+ +....|..||+|||+.||.. |+.+++.+++.|||.|+..+ ..+|+.
T Consensus 89 ~~tLt~qe~v~~qp~~~~~~~LPdEvLm~I~~~vv~~~~d~rsL~~~s~vCr~F~~~~R~~~lwR~ 154 (366)
T KOG2997|consen 89 QQTLTFQESVLCQPELISISVLPDEVLMRIFRWVVSSLLDLRSLEQLSLVCRGFYKCARDPELWRL 154 (366)
T ss_pred ccccccccccccchhhhhhhhCCHHHHHHHHHHHHhhhcchhhHHHhHhhHHHHHHHHcChHHHHH
Confidence 44433344433 55566779999999999986 45689999999999998765 355553
No 13
>KOG3864 consensus Uncharacterized conserved protein [Function unknown]
Probab=97.14 E-value=0.00046 Score=53.92 Aligned_cols=46 Identities=30% Similarity=0.425 Sum_probs=41.4
Q ss_pred hhcCccceeeceeccCCCCcccHHHHHHHHHhCCCCcEEeccCCCCCCC
Q 040130 98 FSRFDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGCREITD 146 (147)
Q Consensus 98 ~~r~~~L~~L~L~c~~~c~~itD~~L~~la~~cp~L~~L~L~~C~~vtD 146 (147)
+..++.|+.|.+. +|.++.|.+|.-|+...|+|+.|+|++|..|||
T Consensus 121 L~~l~~i~~l~l~---~ck~~dD~~L~~l~~~~~~L~~L~lsgC~rIT~ 166 (221)
T KOG3864|consen 121 LRDLRSIKSLSLA---NCKYFDDWCLERLGGLAPSLQDLDLSGCPRITD 166 (221)
T ss_pred Hhccchhhhheec---cccchhhHHHHHhcccccchheeeccCCCeech
Confidence 4556788888888 899999999999999999999999999999997
No 14
>PLN03215 ascorbic acid mannose pathway regulator 1; Provisional
Probab=96.35 E-value=0.0024 Score=53.99 Aligned_cols=36 Identities=25% Similarity=0.372 Sum_probs=32.0
Q ss_pred CCCCCHHHHHHHHHhCC-hHHHHHHhhhcccccccCC
Q 040130 41 TGDLPDDCLAYIFQFLG-SGDRKRCSLVCKRWLRVDG 76 (147)
Q Consensus 41 ~~~LP~elL~~If~~L~-~~dl~~~s~VCk~W~~~~~ 76 (147)
+.+||+|+|..|.++|+ ..|+.+.+.||+.|+.+..
T Consensus 4 Ws~Lp~dll~~i~~~l~~~~d~~~~~~vC~sWr~a~~ 40 (373)
T PLN03215 4 WSTLPEELLHMIAGRLFSNVELKRFRSICRSWRSSVS 40 (373)
T ss_pred hhhCCHHHHHHHHhhCCcHHHHHHHHhhhhhHHHhcc
Confidence 34699999999999996 7899999999999998664
No 15
>KOG2120 consensus SCF ubiquitin ligase, Skp2 component [Posttranslational modification, protein turnover, chaperones]
Probab=96.25 E-value=0.0022 Score=53.27 Aligned_cols=47 Identities=26% Similarity=0.408 Sum_probs=26.2
Q ss_pred hHHHhhcCccceeeceeccCCCCcccHHHHHHHHHhCCCCcEEeccCCCCC
Q 040130 94 LPSVFSRFDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGCREI 144 (147)
Q Consensus 94 l~~l~~r~~~L~~L~L~c~~~c~~itD~~L~~la~~cp~L~~L~L~~C~~v 144 (147)
+..+.+||++|.+|||+ .|..++|..+.++-+ ++.|++|.|+.|..+
T Consensus 305 ~~tL~~rcp~l~~LDLS---D~v~l~~~~~~~~~k-f~~L~~lSlsRCY~i 351 (419)
T KOG2120|consen 305 LSTLVRRCPNLVHLDLS---DSVMLKNDCFQEFFK-FNYLQHLSLSRCYDI 351 (419)
T ss_pred HHHHHHhCCceeeeccc---cccccCchHHHHHHh-cchheeeehhhhcCC
Confidence 34455666666666666 455566633333333 666666666666554
No 16
>KOG3864 consensus Uncharacterized conserved protein [Function unknown]
Probab=95.21 E-value=0.0089 Score=46.83 Aligned_cols=47 Identities=21% Similarity=0.192 Sum_probs=39.5
Q ss_pred hHHHhhcCccceeeceeccCCCCcccHHHHHHHHHhCCCCcEEeccCCCCC
Q 040130 94 LPSVFSRFDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGCREI 144 (147)
Q Consensus 94 l~~l~~r~~~L~~L~L~c~~~c~~itD~~L~~la~~cp~L~~L~L~~C~~v 144 (147)
+.++..-+++|+.|+|+ +|..|||.+|..|.+ .++|+.|.|.+=..|
T Consensus 143 L~~l~~~~~~L~~L~ls---gC~rIT~~GL~~L~~-lknLr~L~l~~l~~v 189 (221)
T KOG3864|consen 143 LERLGGLAPSLQDLDLS---GCPRITDGGLACLLK-LKNLRRLHLYDLPYV 189 (221)
T ss_pred HHHhcccccchheeecc---CCCeechhHHHHHHH-hhhhHHHHhcCchhh
Confidence 55566667999999999 899999999999988 899999988764433
No 17
>PF12799 LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_A 1XEU_A 2OMX_A 2OMU_A 2UZY_A 2WQU_D 1D0B_A 2WQW_A 1OTO_A 2WQV_B ....
Probab=94.96 E-value=0.016 Score=34.05 Aligned_cols=38 Identities=24% Similarity=0.270 Sum_probs=27.0
Q ss_pred ccceeeceeccCCCCcccHHHHHHHHHhCCCCcEEeccCCCCCCC
Q 040130 102 DSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGCREITD 146 (147)
Q Consensus 102 ~~L~~L~L~c~~~c~~itD~~L~~la~~cp~L~~L~L~~C~~vtD 146 (147)
++|++|+|+ ...|++ +......|++|+.|+|+++ +++|
T Consensus 1 ~~L~~L~l~----~N~i~~--l~~~l~~l~~L~~L~l~~N-~i~~ 38 (44)
T PF12799_consen 1 KNLEELDLS----NNQITD--LPPELSNLPNLETLNLSNN-PISD 38 (44)
T ss_dssp TT-SEEEET----SSS-SS--HGGHGTTCTTSSEEEETSS-CCSB
T ss_pred CcceEEEcc----CCCCcc--cCchHhCCCCCCEEEecCC-CCCC
Confidence 478899998 556774 4453457999999999998 5664
No 18
>PF13516 LRR_6: Leucine Rich repeat; PDB: 3RGZ_A 3RJ0_A 3RIZ_A 3RGX_A 1DFJ_I 2BNH_A 3VQ1_A 3VQ2_A 2Z64_A 2OMX_A ....
Probab=94.36 E-value=0.037 Score=27.97 Aligned_cols=24 Identities=13% Similarity=0.181 Sum_probs=17.0
Q ss_pred CccceeeceeccCCCCcccHHHHHHHHH
Q 040130 101 FDSVTKLALRCDRKSISLDDDALVLISL 128 (147)
Q Consensus 101 ~~~L~~L~L~c~~~c~~itD~~L~~la~ 128 (147)
+++|++|+|+ ...|+|+++..|++
T Consensus 1 ~~~L~~L~l~----~n~i~~~g~~~l~~ 24 (24)
T PF13516_consen 1 NPNLETLDLS----NNQITDEGASALAN 24 (24)
T ss_dssp -TT-SEEE-T----SSBEHHHHHHHHHH
T ss_pred CCCCCEEEcc----CCcCCHHHHHHhCC
Confidence 4688999998 45599999998874
No 19
>KOG0274 consensus Cdc4 and related F-box and WD-40 proteins [General function prediction only]
Probab=94.24 E-value=0.015 Score=51.28 Aligned_cols=40 Identities=30% Similarity=0.520 Sum_probs=36.8
Q ss_pred cCCCCCCCCCHHHHHHHHHhCChHHHHHHhhhcccccccC
Q 040130 36 KARDFTGDLPDDCLAYIFQFLGSGDRKRCSLVCKRWLRVD 75 (147)
Q Consensus 36 ~~~~~~~~LP~elL~~If~~L~~~dl~~~s~VCk~W~~~~ 75 (147)
..++++..||.|+..+||.||+.++++.+++||+.|+.+.
T Consensus 103 ~~~dfi~~lp~el~~~il~~Ld~~~l~~~~~v~~~w~~~~ 142 (537)
T KOG0274|consen 103 GQRDFLSLLPSELSLHILSFLDGRDLLAVRQVCRNWNKLL 142 (537)
T ss_pred cccchhhcccchhcccccccCCHHHhhhhhhhcchhhhhh
Confidence 4578888999999999999999999999999999998865
No 20
>cd00116 LRR_RI Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond to structural units consisting of a beta strand (LxxLxLxxN/CxL conserved pattern) and an alpha helix. This alignment contains 12 strands corresponding to 11 full repeats, consistent with the extent observed in the subfamily acting as Ran GTPase Activating Proteins (RanGAP1).
Probab=92.96 E-value=0.17 Score=40.11 Aligned_cols=41 Identities=20% Similarity=0.197 Sum_probs=23.8
Q ss_pred HhhcCccceeeceeccCCCCcccHHHHHHHHHhC----CCCcEEeccCC
Q 040130 97 VFSRFDSVTKLALRCDRKSISLDDDALVLISLRC----QKLTRLKLRGC 141 (147)
Q Consensus 97 l~~r~~~L~~L~L~c~~~c~~itD~~L~~la~~c----p~L~~L~L~~C 141 (147)
....+++|++|+++ ...++|.++..++..+ +.|++|++++|
T Consensus 216 ~~~~~~~L~~L~ls----~n~l~~~~~~~l~~~~~~~~~~L~~L~l~~n 260 (319)
T cd00116 216 TLASLKSLEVLNLG----DNNLTDAGAAALASALLSPNISLLTLSLSCN 260 (319)
T ss_pred HhcccCCCCEEecC----CCcCchHHHHHHHHHHhccCCCceEEEccCC
Confidence 34445556666665 2346666666666554 46666666665
No 21
>PF13013 F-box-like_2: F-box-like domain
Probab=91.88 E-value=0.16 Score=35.89 Aligned_cols=29 Identities=28% Similarity=0.337 Sum_probs=26.7
Q ss_pred CCCCCHHHHHHHHHhCChHHHHHHhhhcc
Q 040130 41 TGDLPDDCLAYIFQFLGSGDRKRCSLVCK 69 (147)
Q Consensus 41 ~~~LP~elL~~If~~L~~~dl~~~s~VCk 69 (147)
+.+||+||+..||.+.+..++......|+
T Consensus 22 l~DLP~ELl~~I~~~C~~~~l~~l~~~~~ 50 (109)
T PF13013_consen 22 LLDLPWELLQLIFDYCNDPILLALSRTCR 50 (109)
T ss_pred hhhChHHHHHHHHhhcCcHHHHHHHHHHH
Confidence 66799999999999999999988888888
No 22
>smart00368 LRR_RI Leucine rich repeat, ribonuclease inhibitor type.
Probab=89.73 E-value=0.43 Score=25.11 Aligned_cols=25 Identities=20% Similarity=0.223 Sum_probs=21.5
Q ss_pred ccceeeceeccCCCCcccHHHHHHHHHhC
Q 040130 102 DSVTKLALRCDRKSISLDDDALVLISLRC 130 (147)
Q Consensus 102 ~~L~~L~L~c~~~c~~itD~~L~~la~~c 130 (147)
++|++|+|+ .+.++|++...|++..
T Consensus 2 ~~L~~LdL~----~N~i~~~G~~~L~~~L 26 (28)
T smart00368 2 PSLRELDLS----NNKLGDEGARALAEAL 26 (28)
T ss_pred CccCEEECC----CCCCCHHHHHHHHHHh
Confidence 578999998 7889999999998754
No 23
>KOG3665 consensus ZYG-1-like serine/threonine protein kinases [General function prediction only]
Probab=89.48 E-value=0.44 Score=43.52 Aligned_cols=49 Identities=16% Similarity=0.269 Sum_probs=39.9
Q ss_pred hchHHHhhcCccceeeceeccCCCCcccHHHHHHHHHhCCCCcEEeccCCCCCC
Q 040130 92 SSLPSVFSRFDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGCREIT 145 (147)
Q Consensus 92 ~~l~~l~~r~~~L~~L~L~c~~~c~~itD~~L~~la~~cp~L~~L~L~~C~~vt 145 (147)
.+...+...+|+|++|.++ ...+.+..+..+-..+|||..|+++++ +++
T Consensus 138 ~W~~kig~~LPsL~sL~i~----~~~~~~~dF~~lc~sFpNL~sLDIS~T-nI~ 186 (699)
T KOG3665|consen 138 GWPKKIGTMLPSLRSLVIS----GRQFDNDDFSQLCASFPNLRSLDISGT-NIS 186 (699)
T ss_pred cHHHHHhhhCcccceEEec----CceecchhHHHHhhccCccceeecCCC-Ccc
Confidence 4567788889999999998 556666668889999999999999996 444
No 24
>PF13504 LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OOK_G 1QYY_G 1SQ0_B 1P9A_G 1GWB_A 1P8V_A 1M0Z_A 1U0N_D ....
Probab=88.52 E-value=0.36 Score=22.60 Aligned_cols=14 Identities=36% Similarity=0.503 Sum_probs=8.8
Q ss_pred CCCcEEeccCCCCCC
Q 040130 131 QKLTRLKLRGCREIT 145 (147)
Q Consensus 131 p~L~~L~L~~C~~vt 145 (147)
++|+.|+|++|. ++
T Consensus 1 ~~L~~L~l~~n~-L~ 14 (17)
T PF13504_consen 1 PNLRTLDLSNNR-LT 14 (17)
T ss_dssp TT-SEEEETSS---S
T ss_pred CccCEEECCCCC-CC
Confidence 578888988885 54
No 25
>cd00116 LRR_RI Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond to structural units consisting of a beta strand (LxxLxLxxN/CxL conserved pattern) and an alpha helix. This alignment contains 12 strands corresponding to 11 full repeats, consistent with the extent observed in the subfamily acting as Ran GTPase Activating Proteins (RanGAP1).
Probab=85.78 E-value=1.2 Score=35.28 Aligned_cols=38 Identities=18% Similarity=0.160 Sum_probs=21.0
Q ss_pred cCccceeeceeccCCCCcccHHHHHHHHH---hCCCCcEEeccCC
Q 040130 100 RFDSVTKLALRCDRKSISLDDDALVLISL---RCQKLTRLKLRGC 141 (147)
Q Consensus 100 r~~~L~~L~L~c~~~c~~itD~~L~~la~---~cp~L~~L~L~~C 141 (147)
.+++|++|+|+ ...+++.++..++. .+++|++|++++|
T Consensus 191 ~~~~L~~L~L~----~n~i~~~~~~~l~~~~~~~~~L~~L~ls~n 231 (319)
T cd00116 191 ANCNLEVLDLN----NNGLTDEGASALAETLASLKSLEVLNLGDN 231 (319)
T ss_pred hCCCCCEEecc----CCccChHHHHHHHHHhcccCCCCEEecCCC
Confidence 33466666665 23455555444433 4556777777665
No 26
>KOG3926 consensus F-box proteins [Amino acid transport and metabolism]
Probab=85.65 E-value=0.27 Score=40.20 Aligned_cols=54 Identities=15% Similarity=0.239 Sum_probs=39.3
Q ss_pred CCCCcccccCCCCCCCCCHHHHHHHHHhCC-hHHHHHHhhhcccccccC--CCcceee
Q 040130 28 VEFSDELDKARDFTGDLPDDCLAYIFQFLG-SGDRKRCSLVCKRWLRVD--GGSRYRL 82 (147)
Q Consensus 28 ~~~~~~~~~~~~~~~~LP~elL~~If~~L~-~~dl~~~s~VCk~W~~~~--~~~~~~l 82 (147)
+.+++..+.+.... +||.|++..|+..|+ ..|+.++++|-...+.+. ..+|+.+
T Consensus 190 iqi~~~~~~~ltl~-dLP~e~vl~Il~rlsDh~dL~s~aqa~etl~~l~~e~~iWkkL 246 (332)
T KOG3926|consen 190 IQITEPDPAGLTLH-DLPLECVLNILLRLSDHRDLESLAQAWETLAKLSEERRIWKKL 246 (332)
T ss_pred hcccCCCcCCCCcc-cchHHHHHHHHHHccCcchHHHHHHhhHHHHHHHHHHHHHHHH
Confidence 34444445455555 599999999999997 799999999977765543 4566655
No 27
>KOG2982 consensus Uncharacterized conserved protein [Function unknown]
Probab=84.34 E-value=0.9 Score=38.11 Aligned_cols=47 Identities=23% Similarity=0.282 Sum_probs=36.9
Q ss_pred hHHHhhcCccceeeceeccCCCCcccH-HHHHHHHHhCCCCcEEeccCCCCCC
Q 040130 94 LPSVFSRFDSVTKLALRCDRKSISLDD-DALVLISLRCQKLTRLKLRGCREIT 145 (147)
Q Consensus 94 l~~l~~r~~~L~~L~L~c~~~c~~itD-~~L~~la~~cp~L~~L~L~~C~~vt 145 (147)
+..+...+..+++|||. .+.|+| +.+.+|.++.|+|+.||| +|..++
T Consensus 63 ~~~~~~~~~~v~elDL~----~N~iSdWseI~~ile~lP~l~~LNl-s~N~L~ 110 (418)
T KOG2982|consen 63 VMLFGSSVTDVKELDLT----GNLISDWSEIGAILEQLPALTTLNL-SCNSLS 110 (418)
T ss_pred HHHHHHHhhhhhhhhcc----cchhccHHHHHHHHhcCccceEeec-cCCcCC
Confidence 55667778888899987 778888 788888899999999998 455543
No 28
>PF13855 LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RFS_A 3G39_A 3VQ2_A 3VQ1_B 2Z64_A 2Z66_C 3FXI_A 2Z63_A ....
Probab=84.08 E-value=0.074 Score=32.64 Aligned_cols=42 Identities=19% Similarity=0.138 Sum_probs=28.5
Q ss_pred HHhhcCccceeeceeccCCCCcccHHHHHHHHHhCCCCcEEeccCCC
Q 040130 96 SVFSRFDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGCR 142 (147)
Q Consensus 96 ~l~~r~~~L~~L~L~c~~~c~~itD~~L~~la~~cp~L~~L~L~~C~ 142 (147)
..+..+++|+.|+|+ ...++.-.- .....+++|++|++++|.
T Consensus 19 ~~f~~l~~L~~L~l~----~N~l~~i~~-~~f~~l~~L~~L~l~~N~ 60 (61)
T PF13855_consen 19 DSFSNLPNLETLDLS----NNNLTSIPP-DAFSNLPNLRYLDLSNNN 60 (61)
T ss_dssp TTTTTGTTESEEEET----SSSESEEET-TTTTTSTTESEEEETSSS
T ss_pred HHHcCCCCCCEeEcc----CCccCccCH-HHHcCCCCCCEEeCcCCc
Confidence 355677999999998 333431111 124579999999999873
No 29
>PF09372 PRANC: PRANC domain; InterPro: IPR018272 This presumed domain is found at the C terminus of a variety of Pox virus proteins. The PRANC (Pox proteins Repeats of ANkyrin, C-terminal) domain is also found on its own in some proteins []. The function of this domain is unknown, but it appears to be related to the F-box domain and may play a similar role.
Probab=83.50 E-value=1.3 Score=29.92 Aligned_cols=27 Identities=22% Similarity=0.342 Sum_probs=22.9
Q ss_pred CCCCCCCCHHHHHHHHHhCChHHHHHH
Q 040130 38 RDFTGDLPDDCLAYIFQFLGSGDRKRC 64 (147)
Q Consensus 38 ~~~~~~LP~elL~~If~~L~~~dl~~~ 64 (147)
...|..||.|+...|+++|+..|+...
T Consensus 69 ~~~w~~LP~EIk~~Il~~L~~~dL~~l 95 (97)
T PF09372_consen 69 NNYWNILPIEIKYKILEYLSNKDLKKL 95 (97)
T ss_pred CCchhhCCHHHHHHHHHcCCHHHHHHH
Confidence 356678999999999999999998753
No 30
>PF00560 LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Leucine-rich repeats (LRR) consist of 2-45 motifs of 20-30 amino acids in length that generally folds into an arc or horseshoe shape []. LRRs occur in proteins ranging from viruses to eukaryotes, and appear to provide a structural framework for the formation of protein-protein interactions [, ].Proteins containing LRRs include tyrosine kinase receptors, cell-adhesion molecules, virulence factors, and extracellular matrix-binding glycoproteins, and are involved in a variety of biological processes, including signal transduction, cell adhesion, DNA repair, recombination, transcription, RNA processing, disease resistance, apoptosis, and the immune response []. Sequence analyses of LRR proteins suggested the existence of several different subfamilies of LRRs. The significance of this classification is that repeats from different subfamilies never occur simultaneously and have most probably evolved independently. It is, however, now clear that all major classes of LRR have curved horseshoe structures with a parallel beta sheet on the concave side and mostly helical elements on the convex side. At least six families of LRR proteins, characterised by different lengths and consensus sequences of the repeats, have been identified. Eleven-residue segments of the LRRs (LxxLxLxxN/CxL), corresponding to the beta-strand and adjacent loop regions, are conserved in LRR proteins, whereas the remaining parts of the repeats (herein termed variable) may be very different. Despite the differences, each of the variable parts contains two half-turns at both ends and a "linear" segment (as the chain follows a linear path overall), usually formed by a helix, in the middle. The concave face and the adjacent loops are the most common protein interaction surfaces on LRR proteins. 3D structure of some LRR proteins-ligand complexes show that the concave surface of LRR domain is ideal for interaction with alpha-helix, thus supporting earlier conclusions that the elongated and curved LRR structure provides an outstanding framework for achieving diverse protein-protein interactions []. Molecular modeling suggests that the conserved pattern LxxLxL, which is shorter than the previously proposed LxxLxLxxN/CxL is sufficient to impart the characteristic horseshoe curvature to proteins with 20- to 30-residue repeats []. ; GO: 0005515 protein binding; PDB: 4ECO_B 2A0Z_A 3ULU_A 1ZIW_A 3ULV_A 1DCE_C 1LTX_A 3J0A_B 3A79_B 4FCG_A ....
Probab=78.73 E-value=0.76 Score=22.66 Aligned_cols=13 Identities=38% Similarity=0.570 Sum_probs=9.8
Q ss_pred CCcEEeccCCCCCC
Q 040130 132 KLTRLKLRGCREIT 145 (147)
Q Consensus 132 ~L~~L~L~~C~~vt 145 (147)
+|++|+|++| +++
T Consensus 1 ~L~~Ldls~n-~l~ 13 (22)
T PF00560_consen 1 NLEYLDLSGN-NLT 13 (22)
T ss_dssp TESEEEETSS-EES
T ss_pred CccEEECCCC-cCE
Confidence 5788888888 554
No 31
>KOG2739 consensus Leucine-rich acidic nuclear protein [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=77.74 E-value=1.1 Score=36.20 Aligned_cols=19 Identities=26% Similarity=0.468 Sum_probs=10.5
Q ss_pred HHHHHHHhCCCCcEEeccC
Q 040130 122 ALVLISLRCQKLTRLKLRG 140 (147)
Q Consensus 122 ~L~~la~~cp~L~~L~L~~ 140 (147)
+|..++..||+|++|+|++
T Consensus 82 ~l~vl~e~~P~l~~l~ls~ 100 (260)
T KOG2739|consen 82 GLEVLAEKAPNLKVLNLSG 100 (260)
T ss_pred cceehhhhCCceeEEeecC
Confidence 4555555555555555554
No 32
>KOG3207 consensus Beta-tubulin folding cofactor E [Posttranslational modification, protein turnover, chaperones]
Probab=77.41 E-value=1.8 Score=37.79 Aligned_cols=17 Identities=18% Similarity=0.307 Sum_probs=8.6
Q ss_pred hHHHhhcCccceeecee
Q 040130 94 LPSVFSRFDSVTKLALR 110 (147)
Q Consensus 94 l~~l~~r~~~L~~L~L~ 110 (147)
+..++.++++|++|+|+
T Consensus 164 v~~i~eqLp~Le~LNls 180 (505)
T KOG3207|consen 164 VLKIAEQLPSLENLNLS 180 (505)
T ss_pred HHHHHHhcccchhcccc
Confidence 33445555555555554
No 33
>KOG1909 consensus Ran GTPase-activating protein [RNA processing and modification; Nuclear structure; Signal transduction mechanisms]
Probab=76.64 E-value=3 Score=35.38 Aligned_cols=21 Identities=24% Similarity=0.060 Sum_probs=11.4
Q ss_pred cCCCCCCCCCHHHHHHHHHhC
Q 040130 36 KARDFTGDLPDDCLAYIFQFL 56 (147)
Q Consensus 36 ~~~~~~~~LP~elL~~If~~L 56 (147)
.+++.+.+-+...+..+|+..
T Consensus 164 ~~rNrlen~ga~~~A~~~~~~ 184 (382)
T KOG1909|consen 164 CGRNRLENGGATALAEAFQSH 184 (382)
T ss_pred eeccccccccHHHHHHHHHhc
Confidence 344555555555566666554
No 34
>KOG3207 consensus Beta-tubulin folding cofactor E [Posttranslational modification, protein turnover, chaperones]
Probab=74.37 E-value=2.3 Score=37.15 Aligned_cols=36 Identities=25% Similarity=0.263 Sum_probs=28.3
Q ss_pred CccceeeceeccCCCCcccHHHHHHHHHhCCCCcEEeccC
Q 040130 101 FDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRG 140 (147)
Q Consensus 101 ~~~L~~L~L~c~~~c~~itD~~L~~la~~cp~L~~L~L~~ 140 (147)
+++|+.|.|+ ..+++-..+..++..||+|+.|.|..
T Consensus 196 l~~lK~L~l~----~CGls~k~V~~~~~~fPsl~~L~L~~ 231 (505)
T KOG3207|consen 196 LSHLKQLVLN----SCGLSWKDVQWILLTFPSLEVLYLEA 231 (505)
T ss_pred hhhhheEEec----cCCCCHHHHHHHHHhCCcHHHhhhhc
Confidence 4567777777 44678888889999999998888865
No 35
>PF06881 Elongin_A: RNA polymerase II transcription factor SIII (Elongin) subunit A; InterPro: IPR010684 This family represents a conserved region within RNA polymerase II transcription factor SIII (Elongin) subunit A. In mammals, the Elongin complex activates elongation by RNA polymerase II by suppressing transient pausing of the polymerase at many sites within transcription units. Elongin is a heterotrimer composed of A, B, and C subunits of 110, 18, and 15 kilodaltons, respectively. Subunit A has been shown to function as the transcriptionally active component of Elongin [].; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus, 0016021 integral to membrane
Probab=67.36 E-value=4 Score=28.31 Aligned_cols=43 Identities=16% Similarity=0.099 Sum_probs=35.3
Q ss_pred CCCCCCHHHHHHHHHhCChHHHHHHhhhcccccccCCCcceee
Q 040130 40 FTGDLPDDCLAYIFQFLGSGDRKRCSLVCKRWLRVDGGSRYRL 82 (147)
Q Consensus 40 ~~~~LP~elL~~If~~L~~~dl~~~s~VCk~W~~~~~~~~~~l 82 (147)
.++++|.+++.-|+.+++..+|..+..-|.........+|+++
T Consensus 3 dvG~~py~ll~piL~~~~~~QL~~iE~~np~l~~~tdeLW~~~ 45 (109)
T PF06881_consen 3 DVGDVPYHLLRPILEKCSPEQLRRIEDNNPHLIEDTDELWKKL 45 (109)
T ss_pred ccCCCCHHHHHHHHccCCHHHHHHHHHhCCCcchhhHHHHHHH
Confidence 4567999999999999999999999999877655555667654
No 36
>PF14580 LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQD_A.
Probab=62.68 E-value=5.2 Score=30.28 Aligned_cols=14 Identities=21% Similarity=0.313 Sum_probs=0.0
Q ss_pred CCHHHHHHHHHhCC
Q 040130 44 LPDDCLAYIFQFLG 57 (147)
Q Consensus 44 LP~elL~~If~~L~ 57 (147)
|..+.+.+|..+..
T Consensus 4 lt~~~i~~~~~~~n 17 (175)
T PF14580_consen 4 LTANMIEQIAQYNN 17 (175)
T ss_dssp --------------
T ss_pred cccccccccccccc
Confidence 45566666776665
No 37
>PHA03100 ankyrin repeat protein; Provisional
Probab=61.71 E-value=8.6 Score=32.51 Aligned_cols=30 Identities=20% Similarity=0.165 Sum_probs=24.3
Q ss_pred CCCCCCCHHHHHHHHHhCChHHHHHHhhhc
Q 040130 39 DFTGDLPDDCLAYIFQFLGSGDRKRCSLVC 68 (147)
Q Consensus 39 ~~~~~LP~elL~~If~~L~~~dl~~~s~VC 68 (147)
..|..||.||...|++||+..|+.....-+
T Consensus 446 ~~w~~lP~Eik~~Il~~l~~~dl~~~~~~~ 475 (480)
T PHA03100 446 TYWNILPIEIKYKILEYLSNRDLKSLIENF 475 (480)
T ss_pred CchhhCcHHHHHHHHHhCCHHHHHHHHhhh
Confidence 356679999999999999999987655443
No 38
>KOG1909 consensus Ran GTPase-activating protein [RNA processing and modification; Nuclear structure; Signal transduction mechanisms]
Probab=59.84 E-value=10 Score=32.16 Aligned_cols=44 Identities=20% Similarity=0.329 Sum_probs=27.9
Q ss_pred hHHHhhcCccceeeceeccCCCCcccHHHHHHHHH---hCCCCcEEeccCC
Q 040130 94 LPSVFSRFDSVTKLALRCDRKSISLDDDALVLISL---RCQKLTRLKLRGC 141 (147)
Q Consensus 94 l~~l~~r~~~L~~L~L~c~~~c~~itD~~L~~la~---~cp~L~~L~L~~C 141 (147)
+..-+.+|++|+.|||+ -+..+-++-..+|+ ..++|++|++.+|
T Consensus 205 l~eal~~~~~LevLdl~----DNtft~egs~~LakaL~s~~~L~El~l~dc 251 (382)
T KOG1909|consen 205 LAEALEHCPHLEVLDLR----DNTFTLEGSVALAKALSSWPHLRELNLGDC 251 (382)
T ss_pred HHHHHHhCCcceeeecc----cchhhhHHHHHHHHHhcccchheeeccccc
Confidence 33445667777777776 44555655555554 4556777777777
No 39
>PHA02875 ankyrin repeat protein; Provisional
Probab=54.77 E-value=10 Score=31.57 Aligned_cols=26 Identities=19% Similarity=0.183 Sum_probs=21.8
Q ss_pred CCCCCCCHHHHHHHHHhCChHHHHHH
Q 040130 39 DFTGDLPDDCLAYIFQFLGSGDRKRC 64 (147)
Q Consensus 39 ~~~~~LP~elL~~If~~L~~~dl~~~ 64 (147)
..|..||.|+...|+++|+..||..+
T Consensus 385 ~~w~~LP~Eik~~Il~~l~~~dL~~~ 410 (413)
T PHA02875 385 SKWNILPHEIKYLILEKIGNKDIDIA 410 (413)
T ss_pred cchhcCcHHHHHHHHHHhccchhhhh
Confidence 44567999999999999999888653
No 40
>PLN00113 leucine-rich repeat receptor-like protein kinase; Provisional
Probab=54.77 E-value=13 Score=34.62 Aligned_cols=44 Identities=18% Similarity=0.144 Sum_probs=25.5
Q ss_pred hHHHhhcCccceeeceeccCCCCcccHHHHHHHHHhCCCCcEEeccCC
Q 040130 94 LPSVFSRFDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGC 141 (147)
Q Consensus 94 l~~l~~r~~~L~~L~L~c~~~c~~itD~~L~~la~~cp~L~~L~L~~C 141 (147)
+...+..+++|+.|+|+ ...++..--..+...+.+|++|+|+++
T Consensus 85 ~~~~~~~l~~L~~L~Ls----~n~~~~~ip~~~~~~l~~L~~L~Ls~n 128 (968)
T PLN00113 85 ISSAIFRLPYIQTINLS----NNQLSGPIPDDIFTTSSSLRYLNLSNN 128 (968)
T ss_pred CChHHhCCCCCCEEECC----CCccCCcCChHHhccCCCCCEEECcCC
Confidence 34455677888888887 233332222233445667777777665
No 41
>KOG3665 consensus ZYG-1-like serine/threonine protein kinases [General function prediction only]
Probab=54.07 E-value=4.1 Score=37.36 Aligned_cols=47 Identities=15% Similarity=0.252 Sum_probs=28.6
Q ss_pred HhhhcccccccCC---CcceeeeccchhhhhhchHHHhhcCccceeecee
Q 040130 64 CSLVCKRWLRVDG---GSRYRLSLNAQSEILSSLPSVFSRFDSVTKLALR 110 (147)
Q Consensus 64 ~s~VCk~W~~~~~---~~~~~l~l~~~~~~~~~l~~l~~r~~~L~~L~L~ 110 (147)
.......|..-.+ -..+++.+....-..+.+..++..|+||..||++
T Consensus 132 ~~~~s~~W~~kig~~LPsL~sL~i~~~~~~~~dF~~lc~sFpNL~sLDIS 181 (699)
T KOG3665|consen 132 SELFSNGWPKKIGTMLPSLRSLVISGRQFDNDDFSQLCASFPNLRSLDIS 181 (699)
T ss_pred cchhhccHHHHHhhhCcccceEEecCceecchhHHHHhhccCccceeecC
Confidence 4445667733221 1234555554333334577889999999999998
No 42
>PHA02989 ankyrin repeat protein; Provisional
Probab=50.61 E-value=13 Score=31.91 Aligned_cols=28 Identities=21% Similarity=0.188 Sum_probs=23.7
Q ss_pred CCCCCCCHHHHHHHHHhCChHHHHHHhh
Q 040130 39 DFTGDLPDDCLAYIFQFLGSGDRKRCSL 66 (147)
Q Consensus 39 ~~~~~LP~elL~~If~~L~~~dl~~~s~ 66 (147)
..|..||.|+...|+.+|+..|+.....
T Consensus 457 ~~w~~LP~Eik~~Il~~L~~~dl~~i~~ 484 (494)
T PHA02989 457 NYWMYLPIEIQINILEYLTFSDFKTILK 484 (494)
T ss_pred cHHHhCCHHHHHHHHHcCCHHHHHHHHh
Confidence 4566799999999999999999876554
No 43
>PF07723 LRR_2: Leucine Rich Repeat; InterPro: IPR013101 Leucine-rich repeats (LRR) consist of 2-45 motifs of 20-30 amino acids in length that generally folds into an arc or horseshoe shape []. LRRs occur in proteins ranging from viruses to eukaryotes, and appear to provide a structural framework for the formation of protein-protein interactions [, ].Proteins containing LRRs include tyrosine kinase receptors, cell-adhesion molecules, virulence factors, and extracellular matrix-binding glycoproteins, and are involved in a variety of biological processes, including signal transduction, cell adhesion, DNA repair, recombination, transcription, RNA processing, disease resistance, apoptosis, and the immune response []. Sequence analyses of LRR proteins suggested the existence of several different subfamilies of LRRs. The significance of this classification is that repeats from different subfamilies never occur simultaneously and have most probably evolved independently. It is, however, now clear that all major classes of LRR have curved horseshoe structures with a parallel beta sheet on the concave side and mostly helical elements on the convex side. At least six families of LRR proteins, characterised by different lengths and consensus sequences of the repeats, have been identified. Eleven-residue segments of the LRRs (LxxLxLxxN/CxL), corresponding to the beta-strand and adjacent loop regions, are conserved in LRR proteins, whereas the remaining parts of the repeats (herein termed variable) may be very different. Despite the differences, each of the variable parts contains two half-turns at both ends and a "linear" segment (as the chain follows a linear path overall), usually formed by a helix, in the middle. The concave face and the adjacent loops are the most common protein interaction surfaces on LRR proteins. 3D structure of some LRR proteins-ligand complexes show that the concave surface of LRR domain is ideal for interaction with alpha-helix, thus supporting earlier conclusions that the elongated and curved LRR structure provides an outstanding framework for achieving diverse protein-protein interactions []. Molecular modeling suggests that the conserved pattern LxxLxL, which is shorter than the previously proposed LxxLxLxxN/CxL is sufficient to impart the characteristic horseshoe curvature to proteins with 20- to 30-residue repeats []. This entry includes some LRRs that fail to be detected by IPR001611 from INTERPRO [, ].
Probab=50.04 E-value=12 Score=19.23 Aligned_cols=25 Identities=24% Similarity=0.377 Sum_probs=15.9
Q ss_pred ceeeceeccCCCCcccHHHHHHHHHhCC
Q 040130 104 VTKLALRCDRKSISLDDDALVLISLRCQ 131 (147)
Q Consensus 104 L~~L~L~c~~~c~~itD~~L~~la~~cp 131 (147)
|+.|.|. ....-++.++..+..+||
T Consensus 2 LKtL~L~---~v~f~~~~~l~~LlS~CP 26 (26)
T PF07723_consen 2 LKTLHLD---SVVFSDEDSLERLLSGCP 26 (26)
T ss_pred CeEEEee---EEEECChhHHHHhhccCc
Confidence 6677776 222234557888888776
No 44
>KOG2739 consensus Leucine-rich acidic nuclear protein [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=45.73 E-value=11 Score=30.54 Aligned_cols=44 Identities=20% Similarity=0.297 Sum_probs=31.7
Q ss_pred hHHHhhcCccceeeceeccCCCCcccH-HHHHHHHHhCCCCcEEeccCCC
Q 040130 94 LPSVFSRFDSVTKLALRCDRKSISLDD-DALVLISLRCQKLTRLKLRGCR 142 (147)
Q Consensus 94 l~~l~~r~~~L~~L~L~c~~~c~~itD-~~L~~la~~cp~L~~L~L~~C~ 142 (147)
+.-++..+++|+.|+|+ .++|.+ +++..+++ .++|..|++.+|.
T Consensus 83 l~vl~e~~P~l~~l~ls----~Nki~~lstl~pl~~-l~nL~~Ldl~n~~ 127 (260)
T KOG2739|consen 83 LEVLAEKAPNLKVLNLS----GNKIKDLSTLRPLKE-LENLKSLDLFNCS 127 (260)
T ss_pred ceehhhhCCceeEEeec----CCccccccccchhhh-hcchhhhhcccCC
Confidence 44566677999999998 455553 56666655 7788899998885
No 45
>PLN03210 Resistant to P. syringae 6; Provisional
Probab=42.92 E-value=22 Score=34.32 Aligned_cols=16 Identities=25% Similarity=0.540 Sum_probs=7.9
Q ss_pred hCCCCcEEeccCCCCC
Q 040130 129 RCQKLTRLKLRGCREI 144 (147)
Q Consensus 129 ~cp~L~~L~L~~C~~v 144 (147)
.+++|+.|++++|..+
T Consensus 679 ~L~~L~~L~L~~c~~L 694 (1153)
T PLN03210 679 YLNKLEDLDMSRCENL 694 (1153)
T ss_pred ccCCCCEEeCCCCCCc
Confidence 3455555555555433
No 46
>PLN03210 Resistant to P. syringae 6; Provisional
Probab=42.42 E-value=15 Score=35.46 Aligned_cols=43 Identities=16% Similarity=0.357 Sum_probs=25.1
Q ss_pred hhcCccceeeceeccCCCCcccHHHHHHHHHhCCCCcEEeccCCCCCC
Q 040130 98 FSRFDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGCREIT 145 (147)
Q Consensus 98 ~~r~~~L~~L~L~c~~~c~~itD~~L~~la~~cp~L~~L~L~~C~~vt 145 (147)
...+++|+.|+|+ +|..+.. +..-...+++|+.|++++|..++
T Consensus 865 i~~l~~L~~L~L~---~C~~L~~--l~~~~~~L~~L~~L~l~~C~~L~ 907 (1153)
T PLN03210 865 IEKFSNLSFLDMN---GCNNLQR--VSLNISKLKHLETVDFSDCGALT 907 (1153)
T ss_pred HhcCCCCCEEECC---CCCCcCc--cCcccccccCCCeeecCCCcccc
Confidence 3455666677666 5655543 22223456677777777776654
No 47
>PHA03095 ankyrin-like protein; Provisional
Probab=42.41 E-value=25 Score=29.56 Aligned_cols=23 Identities=26% Similarity=0.442 Sum_probs=20.4
Q ss_pred CCCCHHHHHHHHHhCChHHHHHH
Q 040130 42 GDLPDDCLAYIFQFLGSGDRKRC 64 (147)
Q Consensus 42 ~~LP~elL~~If~~L~~~dl~~~ 64 (147)
..||.||...|++||+..|+...
T Consensus 443 ~~lP~Ei~~~Il~~l~~~dl~~~ 465 (471)
T PHA03095 443 CALPPEIVMRILDFLPDDDLRNL 465 (471)
T ss_pred CCCCHHHHHHHHHhCCHHHHHHH
Confidence 57999999999999999998653
No 48
>PHA02878 ankyrin repeat protein; Provisional
Probab=41.40 E-value=25 Score=30.04 Aligned_cols=25 Identities=20% Similarity=0.264 Sum_probs=21.7
Q ss_pred CCCCCCCHHHHHHHHHhCChHHHHH
Q 040130 39 DFTGDLPDDCLAYIFQFLGSGDRKR 63 (147)
Q Consensus 39 ~~~~~LP~elL~~If~~L~~~dl~~ 63 (147)
..|..||.|+...|+.+|+-.||..
T Consensus 445 ~~w~~lP~Eik~~Il~~l~~~dl~~ 469 (477)
T PHA02878 445 YMWNRLPLEIKHYIMELLDDASLCN 469 (477)
T ss_pred CcHhhCCHHHHHHHHHHcCcHHHHH
Confidence 4566799999999999999999864
No 49
>PHA02798 ankyrin-like protein; Provisional
Probab=40.94 E-value=24 Score=30.33 Aligned_cols=25 Identities=16% Similarity=0.185 Sum_probs=21.5
Q ss_pred CCCCCCCCHHHHHHHHHhCChHHHH
Q 040130 38 RDFTGDLPDDCLAYIFQFLGSGDRK 62 (147)
Q Consensus 38 ~~~~~~LP~elL~~If~~L~~~dl~ 62 (147)
...|..||.||...|+.+|+..|+.
T Consensus 461 ~~~w~~lP~Eik~~Il~~L~~~dl~ 485 (489)
T PHA02798 461 LSYWNYIPNEIKFKIINNLSNNDIL 485 (489)
T ss_pred cchhhhCCHHHHHHHHHcCChHHHH
Confidence 3556789999999999999988875
No 50
>KOG4194 consensus Membrane glycoprotein LIG-1 [Signal transduction mechanisms]
Probab=30.87 E-value=14 Score=33.93 Aligned_cols=42 Identities=19% Similarity=0.275 Sum_probs=22.6
Q ss_pred hcCccceeeceec-------------cC--CCCcccHHHHHHHHH----hCCCCcEEeccC
Q 040130 99 SRFDSVTKLALRC-------------DR--KSISLDDDALVLISL----RCQKLTRLKLRG 140 (147)
Q Consensus 99 ~r~~~L~~L~L~c-------------~~--~c~~itD~~L~~la~----~cp~L~~L~L~~ 140 (147)
+.+++|++|+|+. ++ .-..+++-.+.+|++ +..+|++|+|.+
T Consensus 314 sftqkL~~LdLs~N~i~~l~~~sf~~L~~Le~LnLs~Nsi~~l~e~af~~lssL~~LdLr~ 374 (873)
T KOG4194|consen 314 SFTQKLKELDLSSNRITRLDEGSFRVLSQLEELNLSHNSIDHLAEGAFVGLSSLHKLDLRS 374 (873)
T ss_pred hhcccceeEeccccccccCChhHHHHHHHhhhhcccccchHHHHhhHHHHhhhhhhhcCcC
Confidence 3457788888872 11 111233444444443 566788887754
No 51
>PLN03150 hypothetical protein; Provisional
Probab=30.51 E-value=32 Score=30.93 Aligned_cols=13 Identities=31% Similarity=0.396 Sum_probs=8.6
Q ss_pred hCCCCcEEeccCC
Q 040130 129 RCQKLTRLKLRGC 141 (147)
Q Consensus 129 ~cp~L~~L~L~~C 141 (147)
.+++|+.|+|+++
T Consensus 488 ~L~~L~~L~Ls~N 500 (623)
T PLN03150 488 QLTSLRILNLNGN 500 (623)
T ss_pred cCCCCCEEECcCC
Confidence 4667777777665
No 52
>PF08004 DUF1699: Protein of unknown function (DUF1699); InterPro: IPR012546 This family contains many archaeal proteins which have very conserved sequences.
Probab=28.91 E-value=71 Score=23.21 Aligned_cols=21 Identities=14% Similarity=0.442 Sum_probs=12.9
Q ss_pred ccHHHHHHHHHhCCCCcEEec
Q 040130 118 LDDDALVLISLRCQKLTRLKL 138 (147)
Q Consensus 118 itD~~L~~la~~cp~L~~L~L 138 (147)
-+|..+..+.+.||+|+.+.+
T Consensus 28 PSN~Dif~Lv~~CP~lk~iqi 48 (131)
T PF08004_consen 28 PSNKDIFSLVERCPNLKAIQI 48 (131)
T ss_pred CcchHHHHHHHhCCCCeEEeC
Confidence 355566666666666666554
No 53
>KOG2123 consensus Uncharacterized conserved protein [Function unknown]
Probab=28.82 E-value=11 Score=31.61 Aligned_cols=36 Identities=19% Similarity=0.138 Sum_probs=16.8
Q ss_pred hcCccceeeceeccCCCCcccHHHHHHHHHhCCCCcEEec
Q 040130 99 SRFDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKL 138 (147)
Q Consensus 99 ~r~~~L~~L~L~c~~~c~~itD~~L~~la~~cp~L~~L~L 138 (147)
.+|.+|++|-|+ -+.|.|-.--.-.++.|+|+.|+|
T Consensus 60 ~rCtrLkElYLR----kN~I~sldEL~YLknlpsLr~LWL 95 (388)
T KOG2123|consen 60 QRCTRLKELYLR----KNCIESLDELEYLKNLPSLRTLWL 95 (388)
T ss_pred HHHHHHHHHHHH----hcccccHHHHHHHhcCchhhhHhh
Confidence 456666666665 222333322233344555555544
No 54
>KOG0618 consensus Serine/threonine phosphatase 2C containing leucine-rich repeats, similar to SCN circadian oscillatory protein (SCOP) [Signal transduction mechanisms]
Probab=26.56 E-value=35 Score=32.74 Aligned_cols=36 Identities=22% Similarity=0.191 Sum_probs=26.4
Q ss_pred ccceeeceeccCCCCcccHHHHHHHHHhCCCCcEEeccCCC
Q 040130 102 DSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGCR 142 (147)
Q Consensus 102 ~~L~~L~L~c~~~c~~itD~~L~~la~~cp~L~~L~L~~C~ 142 (147)
+.|+.+||+ |++++.-.+..... -|+|++|+|++=.
T Consensus 452 ~qL~~lDlS----~N~L~~~~l~~~~p-~p~LkyLdlSGN~ 487 (1081)
T KOG0618|consen 452 PQLKVLDLS----CNNLSEVTLPEALP-SPNLKYLDLSGNT 487 (1081)
T ss_pred CcceEEecc----cchhhhhhhhhhCC-CcccceeeccCCc
Confidence 557888888 77777666555544 3899999998744
No 55
>KOG2502 consensus Tub family proteins [General function prediction only]
Probab=26.47 E-value=88 Score=26.53 Aligned_cols=37 Identities=19% Similarity=0.482 Sum_probs=29.5
Q ss_pred CCCCCCCHHHHHHHHHhCChH--------HHHHHhhhcccccccC
Q 040130 39 DFTGDLPDDCLAYIFQFLGSG--------DRKRCSLVCKRWLRVD 75 (147)
Q Consensus 39 ~~~~~LP~elL~~If~~L~~~--------dl~~~s~VCk~W~~~~ 75 (147)
..+..||.|+|..|+.+.+.. ...+++-||+.|+...
T Consensus 43 ~~~~~l~~~~L~d~~~r~eese~~wp~r~~vvs~~~~~~~~r~~~ 87 (355)
T KOG2502|consen 43 SLWAALPPELLSDVLKRDEESEDTWPSRRNVVSCAGVCDKWREIS 87 (355)
T ss_pred chhhcCCHhHHHHHhhhccccccccccccccccccchhhhhhhhc
Confidence 345579999999999999742 3467999999998854
No 56
>KOG3763 consensus mRNA export factor TAP/MEX67 [RNA processing and modification]
Probab=26.19 E-value=65 Score=29.07 Aligned_cols=45 Identities=27% Similarity=0.269 Sum_probs=33.1
Q ss_pred chHHHhhcCccceeeceeccCCCCcccHHHHHHHHHhCCCCcEEeccC
Q 040130 93 SLPSVFSRFDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRG 140 (147)
Q Consensus 93 ~l~~l~~r~~~L~~L~L~c~~~c~~itD~~L~~la~~cp~L~~L~L~~ 140 (147)
.+..+-..++.+.+++|+ +..-..=+++..|++..|+|+.|+|++
T Consensus 209 ~L~~~~~n~p~i~sl~ls---nNrL~~Ld~~sslsq~apklk~L~LS~ 253 (585)
T KOG3763|consen 209 VLKHIEENFPEILSLSLS---NNRLYHLDALSSLSQIAPKLKTLDLSH 253 (585)
T ss_pred HHHHhhcCCcceeeeecc---cchhhchhhhhHHHHhcchhheeeccc
Confidence 344566678889999987 222223357778999999999999987
No 57
>COG5238 RNA1 Ran GTPase-activating protein (RanGAP) involved in mRNA processing and transport [Signal transduction mechanisms / RNA processing and modification]
Probab=23.79 E-value=52 Score=27.57 Aligned_cols=39 Identities=18% Similarity=0.219 Sum_probs=21.0
Q ss_pred hcCccceeeceeccCCCCcccHHHHHHHHH---hCCCCcEEeccCC
Q 040130 99 SRFDSVTKLALRCDRKSISLDDDALVLISL---RCQKLTRLKLRGC 141 (147)
Q Consensus 99 ~r~~~L~~L~L~c~~~c~~itD~~L~~la~---~cp~L~~L~L~~C 141 (147)
.++.+|+.|||. -+..|-.+-..+|. ..++|++|++..|
T Consensus 211 ~y~~~LevLDlq----DNtft~~gS~~La~al~~W~~lrEL~lnDC 252 (388)
T COG5238 211 FYSHSLEVLDLQ----DNTFTLEGSRYLADALCEWNLLRELRLNDC 252 (388)
T ss_pred HHhCcceeeecc----ccchhhhhHHHHHHHhcccchhhhccccch
Confidence 345666666665 34444444444443 3445666666666
No 58
>PHA02876 ankyrin repeat protein; Provisional
Probab=22.76 E-value=60 Score=29.11 Aligned_cols=25 Identities=20% Similarity=0.368 Sum_probs=21.5
Q ss_pred CCCCCCCHHHHHHHHHhCChHHHHH
Q 040130 39 DFTGDLPDDCLAYIFQFLGSGDRKR 63 (147)
Q Consensus 39 ~~~~~LP~elL~~If~~L~~~dl~~ 63 (147)
..|..||.|+-..|+++|+-.||..
T Consensus 654 ~~w~~lP~eik~~Il~~l~~~dl~~ 678 (682)
T PHA02876 654 SDWSKLPPDIKLSILEFIDNNELRK 678 (682)
T ss_pred cchhhCCHHHHHHHHHHhhhhHHHH
Confidence 3556799999999999999998864
No 59
>PLN00113 leucine-rich repeat receptor-like protein kinase; Provisional
Probab=22.67 E-value=56 Score=30.41 Aligned_cols=13 Identities=31% Similarity=0.457 Sum_probs=6.9
Q ss_pred hhcCccceeecee
Q 040130 98 FSRFDSVTKLALR 110 (147)
Q Consensus 98 ~~r~~~L~~L~L~ 110 (147)
+..+.+|+.|+|+
T Consensus 160 ~~~l~~L~~L~L~ 172 (968)
T PLN00113 160 IGSFSSLKVLDLG 172 (968)
T ss_pred HhcCCCCCEEECc
Confidence 3444555555555
No 60
>PLN03150 hypothetical protein; Provisional
Probab=21.06 E-value=61 Score=29.18 Aligned_cols=43 Identities=16% Similarity=0.174 Sum_probs=28.7
Q ss_pred hHHHhhcCccceeeceeccCCCCcccHHHHHHHHHhCCCCcEEeccCC
Q 040130 94 LPSVFSRFDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGC 141 (147)
Q Consensus 94 l~~l~~r~~~L~~L~L~c~~~c~~itD~~L~~la~~cp~L~~L~L~~C 141 (147)
+..-+..+.+|+.|+|+ ...++.. +-.....+++|+.|+|+++
T Consensus 434 ip~~i~~L~~L~~L~Ls----~N~l~g~-iP~~~~~l~~L~~LdLs~N 476 (623)
T PLN03150 434 IPNDISKLRHLQSINLS----GNSIRGN-IPPSLGSITSLEVLDLSYN 476 (623)
T ss_pred CCHHHhCCCCCCEEECC----CCcccCc-CChHHhCCCCCCEEECCCC
Confidence 34445677899999998 3333321 1122356899999999987
Done!