Query 020465
Match_columns 326
No_of_seqs 225 out of 1305
Neff 6.2
Searched_HMMs 46136
Date Fri Mar 29 02:36:00 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/020465.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/020465hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4341 F-box protein containi 99.9 4.3E-22 9.4E-27 194.2 5.9 183 27-218 73-255 (483)
2 KOG2120 SCF ubiquitin ligase, 99.8 1.8E-21 3.9E-26 183.7 7.0 187 25-220 97-328 (419)
3 KOG4341 F-box protein containi 99.5 2.7E-15 5.9E-20 146.9 2.5 186 40-236 176-375 (483)
4 KOG1947 Leucine rich repeat pr 99.4 6.2E-13 1.4E-17 131.0 8.4 193 28-225 174-371 (482)
5 PF12937 F-box-like: F-box-lik 99.2 1.7E-11 3.7E-16 85.7 2.7 46 26-72 1-46 (47)
6 KOG1947 Leucine rich repeat pr 99.0 2.7E-10 5.8E-15 112.3 6.3 149 80-236 175-324 (482)
7 smart00256 FBOX A Receptor for 98.6 4.1E-08 9E-13 65.4 3.1 40 29-69 1-40 (41)
8 KOG2120 SCF ubiquitin ligase, 98.4 2.3E-07 4.9E-12 88.8 5.3 133 78-218 220-376 (419)
9 PF00646 F-box: F-box domain; 98.3 2.4E-07 5.3E-12 64.3 1.0 42 27-69 4-45 (48)
10 cd00116 LRR_RI Leucine-rich re 98.2 1.1E-05 2.4E-10 75.7 10.1 118 94-216 108-232 (319)
11 cd00116 LRR_RI Leucine-rich re 98.2 8.2E-06 1.8E-10 76.6 9.0 143 67-217 139-290 (319)
12 KOG3864 Uncharacterized conser 97.9 1.1E-05 2.4E-10 73.4 3.4 82 79-167 112-193 (221)
13 smart00367 LRR_CC Leucine-rich 97.5 7.6E-05 1.6E-09 45.7 2.7 24 149-172 1-24 (26)
14 smart00367 LRR_CC Leucine-rich 97.4 0.00017 3.7E-09 44.1 2.8 19 119-137 1-19 (26)
15 KOG3864 Uncharacterized conser 97.4 0.00022 4.7E-09 65.1 4.5 72 95-172 102-173 (221)
16 KOG3665 ZYG-1-like serine/thre 97.1 0.0008 1.7E-08 71.8 6.6 108 94-214 122-229 (699)
17 KOG2997 F-box protein FBX9 [Ge 97.0 0.00051 1.1E-08 66.3 2.9 45 27-72 108-157 (366)
18 KOG0281 Beta-TrCP (transducin 96.6 0.00051 1.1E-08 66.9 0.1 49 24-73 73-125 (499)
19 KOG1909 Ran GTPase-activating 96.4 0.011 2.3E-07 58.1 7.8 78 94-174 213-293 (382)
20 KOG3665 ZYG-1-like serine/thre 96.0 0.04 8.6E-07 59.1 10.2 55 79-136 134-188 (699)
21 PLN03215 ascorbic acid mannose 95.7 0.0084 1.8E-07 59.5 3.2 38 25-62 3-41 (373)
22 KOG1909 Ran GTPase-activating 95.4 0.084 1.8E-06 52.0 9.0 26 150-176 241-266 (382)
23 PF14580 LRR_9: Leucine-rich r 95.0 0.026 5.7E-07 50.3 3.9 134 80-231 4-143 (175)
24 PF13516 LRR_6: Leucine Rich r 94.6 0.035 7.5E-07 32.9 2.4 22 150-172 2-23 (24)
25 PLN03210 Resistant to P. syrin 94.3 0.032 7E-07 62.8 3.5 62 94-164 778-839 (1153)
26 PF13516 LRR_6: Leucine Rich r 94.2 0.031 6.8E-07 33.1 1.7 18 119-137 1-18 (24)
27 KOG3207 Beta-tubulin folding c 93.5 0.099 2.1E-06 52.9 4.7 35 119-158 196-230 (505)
28 KOG0274 Cdc4 and related F-box 92.6 0.046 1E-06 56.8 1.0 50 22-71 104-153 (537)
29 PF12799 LRR_4: Leucine Rich r 92.1 0.13 2.9E-06 35.3 2.5 13 148-160 22-34 (44)
30 KOG3207 Beta-tubulin folding c 90.7 0.079 1.7E-06 53.6 0.3 116 87-218 140-259 (505)
31 PF13855 LRR_8: Leucine rich r 90.6 0.077 1.7E-06 38.2 0.0 59 94-160 1-59 (61)
32 PF12799 LRR_4: Leucine Rich r 90.6 0.28 6.1E-06 33.6 2.9 38 94-135 1-38 (44)
33 COG5238 RNA1 Ran GTPase-activa 90.4 1.8 3.8E-05 42.0 8.9 72 117-190 182-253 (388)
34 PLN00113 leucine-rich repeat r 90.1 0.4 8.6E-06 52.6 5.0 16 201-216 208-223 (968)
35 PF08274 PhnA_Zn_Ribbon: PhnA 89.7 0.17 3.7E-06 32.3 1.1 28 279-315 1-28 (30)
36 PF06689 zf-C4_ClpX: ClpX C4-t 89.6 0.067 1.5E-06 36.5 -0.9 33 281-316 2-34 (41)
37 PLN03210 Resistant to P. syrin 88.6 0.51 1.1E-05 53.4 4.6 40 118-164 632-671 (1153)
38 KOG4308 LRR-containing protein 86.1 0.3 6.6E-06 50.2 0.9 135 79-217 126-274 (478)
39 PF14634 zf-RING_5: zinc-RING 84.5 0.56 1.2E-05 32.0 1.4 36 253-288 1-44 (44)
40 PF13855 LRR_8: Leucine rich r 84.4 0.16 3.4E-06 36.6 -1.6 35 120-160 1-35 (61)
41 smart00368 LRR_RI Leucine rich 83.5 1.5 3.3E-05 27.0 3.0 17 120-137 2-18 (28)
42 smart00368 LRR_RI Leucine rich 83.4 1.7 3.7E-05 26.8 3.2 25 150-175 2-26 (28)
43 PLN00113 leucine-rich repeat r 82.3 1.5 3.4E-05 48.0 4.5 108 94-217 93-200 (968)
44 KOG2739 Leucine-rich acidic nu 82.3 0.6 1.3E-05 44.2 1.0 80 94-179 65-146 (260)
45 KOG4308 LRR-containing protein 82.1 0.34 7.3E-06 49.8 -0.7 114 96-217 89-216 (478)
46 PF13013 F-box-like_2: F-box-l 80.1 2.2 4.7E-05 35.3 3.6 32 25-56 21-52 (109)
47 PF14580 LRR_9: Leucine-rich r 77.6 2.1 4.6E-05 38.1 3.0 59 95-160 65-123 (175)
48 KOG2739 Leucine-rich acidic nu 72.5 1.1 2.3E-05 42.6 -0.3 59 94-160 43-101 (260)
49 KOG1859 Leucine-rich repeat pr 71.6 1.1 2.4E-05 48.3 -0.4 33 119-159 186-218 (1096)
50 KOG2982 Uncharacterized conser 68.9 4.2 9.1E-05 39.9 2.8 82 85-175 63-145 (418)
51 KOG0320 Predicted E3 ubiquitin 64.6 4 8.6E-05 36.7 1.6 38 251-288 131-175 (187)
52 KOG3926 F-box proteins [Amino 60.6 3.8 8.3E-05 39.3 0.9 45 26-71 202-247 (332)
53 PF07723 LRR_2: Leucine Rich R 60.0 6.2 0.00013 24.1 1.4 26 95-120 1-26 (26)
54 KOG0618 Serine/threonine phosp 59.9 4.6 0.0001 44.7 1.4 57 94-160 359-417 (1081)
55 KOG4194 Membrane glycoprotein 58.0 14 0.00031 39.4 4.5 106 45-159 100-230 (873)
56 PF13920 zf-C3HC4_3: Zinc fing 57.7 3.8 8.3E-05 28.4 0.3 38 253-290 4-47 (50)
57 PF09372 PRANC: PRANC domain; 57.2 11 0.00023 29.9 2.8 27 23-49 69-95 (97)
58 PF13504 LRR_7: Leucine rich r 56.4 8.6 0.00019 21.0 1.5 10 121-130 2-11 (17)
59 PF00560 LRR_1: Leucine Rich R 48.6 8.5 0.00018 22.2 0.7 9 152-160 2-10 (22)
60 PF00037 Fer4: 4Fe-4S binding 47.4 7.4 0.00016 23.1 0.3 15 238-252 5-19 (24)
61 PF12760 Zn_Tnp_IS1595: Transp 46.3 22 0.00048 24.4 2.7 45 264-315 2-46 (46)
62 PF05605 zf-Di19: Drought indu 45.0 9.9 0.00022 26.9 0.8 33 280-314 2-39 (54)
63 KOG3735 Tropomodulin and leiom 45.0 70 0.0015 31.7 6.7 99 79-181 184-285 (353)
64 PLN03150 hypothetical protein; 44.5 26 0.00056 37.1 4.1 59 94-160 442-500 (623)
65 KOG0618 Serine/threonine phosp 44.1 26 0.00057 39.1 4.1 25 78-104 369-393 (1081)
66 COG5238 RNA1 Ran GTPase-activa 44.1 1E+02 0.0023 30.2 7.6 58 114-174 86-143 (388)
67 PF12800 Fer4_4: 4Fe-4S bindin 43.6 16 0.00035 20.0 1.3 11 250-260 3-13 (17)
68 TIGR00686 phnA alkylphosphonat 42.5 15 0.00032 30.4 1.5 26 279-313 1-26 (109)
69 TIGR02494 PFLE_PFLC glycyl-rad 42.1 13 0.00028 35.1 1.3 14 239-252 82-95 (295)
70 PRK10220 hypothetical protein; 39.9 19 0.00042 29.8 1.8 30 279-317 2-32 (111)
71 PHA00626 hypothetical protein 39.4 11 0.00025 27.5 0.3 15 304-318 21-35 (59)
72 smart00154 ZnF_AN1 AN1-like Zi 38.9 15 0.00032 24.7 0.8 17 281-297 13-29 (39)
73 COG2824 PhnA Uncharacterized Z 37.7 18 0.00039 29.9 1.3 26 279-313 2-27 (112)
74 cd00162 RING RING-finger (Real 36.4 20 0.00044 22.8 1.2 23 267-289 17-44 (45)
75 PF01428 zf-AN1: AN1-like Zinc 36.1 13 0.00029 25.2 0.3 18 281-298 14-31 (43)
76 PRK15386 type III secretion pr 35.2 29 0.00063 35.4 2.6 56 94-164 52-108 (426)
77 PF06881 Elongin_A: RNA polyme 31.9 22 0.00048 28.9 0.9 43 25-70 3-45 (109)
78 PF09788 Tmemb_55A: Transmembr 31.9 25 0.00054 33.3 1.4 33 283-315 123-166 (256)
79 KOG2123 Uncharacterized conser 31.8 18 0.00039 35.4 0.4 67 80-158 4-71 (388)
80 PRK15387 E3 ubiquitin-protein 31.6 23 0.00049 38.9 1.2 11 206-216 343-353 (788)
81 COG0143 MetG Methionyl-tRNA sy 31.0 21 0.00045 37.7 0.7 28 237-264 141-171 (558)
82 COG1144 Pyruvate:ferredoxin ox 29.5 27 0.00058 28.0 1.0 47 209-259 31-84 (91)
83 KOG3763 mRNA export factor TAP 29.4 92 0.002 32.9 5.1 92 84-181 209-306 (585)
84 KOG1859 Leucine-rich repeat pr 29.1 9.7 0.00021 41.5 -2.0 32 94-129 187-218 (1096)
85 KOG4658 Apoptotic ATPase [Sign 27.8 43 0.00094 37.3 2.6 38 94-134 571-608 (889)
86 COG1571 Predicted DNA-binding 27.8 34 0.00073 34.8 1.6 31 279-318 349-379 (421)
87 KOG2982 Uncharacterized conser 27.3 52 0.0011 32.6 2.7 60 95-159 46-106 (418)
88 COG1997 RPL43A Ribosomal prote 26.1 49 0.0011 26.4 1.9 32 278-317 33-64 (89)
89 KOG4194 Membrane glycoprotein 26.0 98 0.0021 33.4 4.6 60 94-159 125-206 (873)
90 KOG2123 Uncharacterized conser 25.9 27 0.00058 34.2 0.5 97 106-218 3-101 (388)
91 PF14570 zf-RING_4: RING/Ubox 25.6 26 0.00057 24.8 0.3 24 267-290 19-47 (48)
92 KOG2593 Transcription initiati 24.5 33 0.00071 34.9 0.8 35 279-314 127-161 (436)
93 KOG4658 Apoptotic ATPase [Sign 24.3 43 0.00093 37.3 1.8 59 94-160 545-605 (889)
94 PRK11595 DNA utilization prote 23.6 58 0.0013 29.9 2.2 34 249-289 6-43 (227)
95 PF13746 Fer4_18: 4Fe-4S diclu 23.5 36 0.00077 25.5 0.7 16 237-252 48-63 (69)
96 PRK08222 hydrogenase 4 subunit 23.2 37 0.0008 30.2 0.9 53 237-291 71-125 (181)
97 KOG4579 Leucine-rich repeat (L 23.0 22 0.00047 31.4 -0.7 47 107-160 60-110 (177)
98 PRK09335 30S ribosomal protein 20.9 40 0.00086 27.3 0.5 11 249-259 21-31 (95)
99 KOG3735 Tropomodulin and leiom 20.5 1E+02 0.0022 30.6 3.3 82 78-162 209-295 (353)
100 PF08271 TF_Zn_Ribbon: TFIIB z 20.4 69 0.0015 21.5 1.5 14 302-315 15-28 (43)
101 CHL00014 ndhI NADH dehydrogena 20.3 41 0.00089 29.4 0.5 23 238-262 98-120 (167)
No 1
>KOG4341 consensus F-box protein containing LRR [General function prediction only]
Probab=99.85 E-value=4.3e-22 Score=194.18 Aligned_cols=183 Identities=16% Similarity=0.191 Sum_probs=135.4
Q ss_pred CCCCHHHHHHHHccCChHHHHHHhhcCHHhhhhhccCCCCceeeeecCCCCCCCCHHHHHHHHhhcCCCccEEecCCCCC
Q 020465 27 PRPPHEALFLALAYLPLFELLAMSVVCLSLRDAVNKDILPWLNIIVDRPLNRRLSDEILMKITSKANGRLTTLALINCVR 106 (326)
Q Consensus 27 ~~LP~E~Ll~IfsyL~~~dLl~~s~VCr~Wr~lv~~dp~LW~~ldL~~~l~~~itD~~L~~l~~~~~~~L~~L~Ls~C~~ 106 (326)
..||+|++++||+||+.+.++++++||+.|+.. +.|..-|++||+... .+.+....+..+++++++.|+.|+|.||..
T Consensus 73 ~~LPpEl~lkvFS~LDtksl~r~a~~c~~~n~~-AlD~~~~q~idL~t~-~rDv~g~VV~~~~~Rcgg~lk~LSlrG~r~ 150 (483)
T KOG4341|consen 73 RSLPPELLLKVFSMLDTKSLCRAAQCCTMWNKL-ALDGSCWQHIDLFTF-QRDVDGGVVENMISRCGGFLKELSLRGCRA 150 (483)
T ss_pred ccCCHHHHHHHHHHHhHHHHHHHHHHHHHhhhh-hhccccceeeehhcc-hhcCCCcceehHhhhhcccccccccccccc
Confidence 469999999999999999999999999999999 899999999999621 122334455666666667777777777777
Q ss_pred CCHHHHHHHHHhCCCccEEEeCCCCCCCHHHHHHHHHHHHhcCCCCCeeeccCccccchHHHHHHHHhcccCcchhhhhc
Q 020465 107 ITNAGLQRVIEKNPFIKKLYIPGCTGLSPQGVIEAVEKLSENDHTLEILHISGVYNITKEHLRTLHSHLKLNSSRQNEQK 186 (326)
Q Consensus 107 ITD~gL~~v~~~cp~L~~L~Ls~C~~ITd~gi~~~L~~L~~~C~~Lk~L~LsgC~~lTd~~l~~La~~l~~~~~l~~l~~ 186 (326)
+-|..+...+..||++++|+|.+|..+||.. +..++++|++|++|+|..|.++||..|+.+++.+++++.+ ++
T Consensus 151 v~~sslrt~~~~CpnIehL~l~gc~~iTd~s----~~sla~~C~~l~~l~L~~c~~iT~~~Lk~la~gC~kL~~l---Nl 223 (483)
T KOG4341|consen 151 VGDSSLRTFASNCPNIEHLALYGCKKITDSS----LLSLARYCRKLRHLNLHSCSSITDVSLKYLAEGCRKLKYL---NL 223 (483)
T ss_pred CCcchhhHHhhhCCchhhhhhhcceeccHHH----HHHHHHhcchhhhhhhcccchhHHHHHHHHHHhhhhHHHh---hh
Confidence 7777777777777777777777777777777 6667777777777777777777777777777777666433 55
Q ss_pred cCCcccccCCccccccCCCCceeeecCCCCCC
Q 020465 187 RQPILYHKARHYPVLVNRENDHSIDVEICPSC 218 (326)
Q Consensus 187 ~~~~~~~~~gl~~l~~~c~~Lr~lDL~~Cp~c 218 (326)
.|+.-.+..|+.++.++|..++++.+.+|-..
T Consensus 224 Swc~qi~~~gv~~~~rG~~~l~~~~~kGC~e~ 255 (483)
T KOG4341|consen 224 SWCPQISGNGVQALQRGCKELEKLSLKGCLEL 255 (483)
T ss_pred ccCchhhcCcchHHhccchhhhhhhhcccccc
Confidence 55555555666666677777666666666553
No 2
>KOG2120 consensus SCF ubiquitin ligase, Skp2 component [Posttranslational modification, protein turnover, chaperones]
Probab=99.84 E-value=1.8e-21 Score=183.73 Aligned_cols=187 Identities=19% Similarity=0.211 Sum_probs=139.2
Q ss_pred CCCCCCHHHHHHHHccCChHHHHHHhhcCHHhhhhhccCCCCceeeeecC-CCC-------------------CCCCHHH
Q 020465 25 EEPRPPHEALFLALAYLPLFELLAMSVVCLSLRDAVNKDILPWLNIIVDR-PLN-------------------RRLSDEI 84 (326)
Q Consensus 25 ~~~~LP~E~Ll~IfsyL~~~dLl~~s~VCr~Wr~lv~~dp~LW~~ldL~~-~l~-------------------~~itD~~ 84 (326)
.+..+|||+++.||+.|..+||++++.|||+|+++ +.|..+|..+|+.. ++. ..+.+..
T Consensus 97 ~~~slpDEill~IFs~L~kk~LL~~~~VC~Rfyr~-~~de~lW~~lDl~~r~i~p~~l~~l~~rgV~v~Rlar~~~~~pr 175 (419)
T KOG2120|consen 97 SWDSLPDEILLGIFSCLCKKELLKVSGVCKRFYRL-ASDESLWQTLDLTGRNIHPDVLGRLLSRGVIVFRLARSFMDQPR 175 (419)
T ss_pred CcccCCHHHHHHHHHhccHHHHHHHHHHHHHHhhc-cccccceeeeccCCCccChhHHHHHHhCCeEEEEcchhhhcCch
Confidence 36789999999999999999999999999999999 89999999999862 111 1122333
Q ss_pred HHHHHhhcCCCccEEecCCCC------------------------CCCHHHHHHHHHhCCCccEEEeCCCCCCCHHHHHH
Q 020465 85 LMKITSKANGRLTTLALINCV------------------------RITNAGLQRVIEKNPFIKKLYIPGCTGLSPQGVIE 140 (326)
Q Consensus 85 L~~l~~~~~~~L~~L~Ls~C~------------------------~ITD~gL~~v~~~cp~L~~L~Ls~C~~ITd~gi~~ 140 (326)
|...+..+..+||+|||++.. .+.|.-...+| .|.+|++|||++|.++|..|
T Consensus 176 lae~~~~frsRlq~lDLS~s~it~stl~~iLs~C~kLk~lSlEg~~LdD~I~~~iA-kN~~L~~lnlsm~sG~t~n~--- 251 (419)
T KOG2120|consen 176 LAEHFSPFRSRLQHLDLSNSVITVSTLHGILSQCSKLKNLSLEGLRLDDPIVNTIA-KNSNLVRLNLSMCSGFTENA--- 251 (419)
T ss_pred hhhhhhhhhhhhHHhhcchhheeHHHHHHHHHHHHhhhhccccccccCcHHHHHHh-ccccceeeccccccccchhH---
Confidence 444444444567777776641 33333333333 47899999999999999999
Q ss_pred HHHHHHhcCCCCCeeeccCccccchHHHHHHHHhcccCcchhhhhccC-CcccccCCccccccCCCCceeeecCCCCCCc
Q 020465 141 AVEKLSENDHTLEILHISGVYNITKEHLRTLHSHLKLNSSRQNEQKRQ-PILYHKARHYPVLVNRENDHSIDVEICPSCS 219 (326)
Q Consensus 141 ~L~~L~~~C~~Lk~L~LsgC~~lTd~~l~~La~~l~~~~~l~~l~~~~-~~~~~~~gl~~l~~~c~~Lr~lDL~~Cp~c~ 219 (326)
++.+.++|..|.+|||+||...++. +.++..+.+...+ .|+..+ -+.+.+..+..+++.|+++..+||..|...+
T Consensus 252 -~~ll~~scs~L~~LNlsWc~l~~~~-Vtv~V~hise~l~--~LNlsG~rrnl~~sh~~tL~~rcp~l~~LDLSD~v~l~ 327 (419)
T KOG2120|consen 252 -LQLLLSSCSRLDELNLSWCFLFTEK-VTVAVAHISETLT--QLNLSGYRRNLQKSHLSTLVRRCPNLVHLDLSDSVMLK 327 (419)
T ss_pred -HHHHHHhhhhHhhcCchHhhccchh-hhHHHhhhchhhh--hhhhhhhHhhhhhhHHHHHHHhCCceeeeccccccccC
Confidence 8889999999999999999766665 7777777766544 344332 2344444556678999999999999999765
Q ss_pred c
Q 020465 220 E 220 (326)
Q Consensus 220 ~ 220 (326)
+
T Consensus 328 ~ 328 (419)
T KOG2120|consen 328 N 328 (419)
T ss_pred c
Confidence 5
No 3
>KOG4341 consensus F-box protein containing LRR [General function prediction only]
Probab=99.53 E-value=2.7e-15 Score=146.91 Aligned_cols=186 Identities=17% Similarity=0.180 Sum_probs=135.9
Q ss_pred cCChHHHHHHhhcCHHhhhhhccCC-CCceeeeecC-------------CCCCCCCHHHHHHHHhhcCCCccEEecCCCC
Q 020465 40 YLPLFELLAMSVVCLSLRDAVNKDI-LPWLNIIVDR-------------PLNRRLSDEILMKITSKANGRLTTLALINCV 105 (326)
Q Consensus 40 yL~~~dLl~~s~VCr~Wr~lv~~dp-~LW~~ldL~~-------------~l~~~itD~~L~~l~~~~~~~L~~L~Ls~C~ 105 (326)
|+.-..+..++++|+.|+.+ ...+ ..|..+-|.. .|...|+++.+..+.+.+ ..++.+.+.||.
T Consensus 176 ~iTd~s~~sla~~C~~l~~l-~L~~c~~iT~~~Lk~la~gC~kL~~lNlSwc~qi~~~gv~~~~rG~-~~l~~~~~kGC~ 253 (483)
T KOG4341|consen 176 KITDSSLLSLARYCRKLRHL-NLHSCSSITDVSLKYLAEGCRKLKYLNLSWCPQISGNGVQALQRGC-KELEKLSLKGCL 253 (483)
T ss_pred eccHHHHHHHHHhcchhhhh-hhcccchhHHHHHHHHHHhhhhHHHhhhccCchhhcCcchHHhccc-hhhhhhhhcccc
Confidence 67778889999999999999 7776 5555544420 112344555555555543 235555555555
Q ss_pred CCCHHHHHHHHHhCCCccEEEeCCCCCCCHHHHHHHHHHHHhcCCCCCeeeccCccccchHHHHHHHHhcccCcchhhhh
Q 020465 106 RITNAGLQRVIEKNPFIKKLYIPGCTGLSPQGVIEAVEKLSENDHTLEILHISGVYNITKEHLRTLHSHLKLNSSRQNEQ 185 (326)
Q Consensus 106 ~ITD~gL~~v~~~cp~L~~L~Ls~C~~ITd~gi~~~L~~L~~~C~~Lk~L~LsgC~~lTd~~l~~La~~l~~~~~l~~l~ 185 (326)
.+.++.|..++..++-+.+||+..|..+||++ +..++.+|..|+.|..++|.++||..+.+|+++++.+..+ -
T Consensus 254 e~~le~l~~~~~~~~~i~~lnl~~c~~lTD~~----~~~i~~~c~~lq~l~~s~~t~~~d~~l~aLg~~~~~L~~l---~ 326 (483)
T KOG4341|consen 254 ELELEALLKAAAYCLEILKLNLQHCNQLTDED----LWLIACGCHALQVLCYSSCTDITDEVLWALGQHCHNLQVL---E 326 (483)
T ss_pred cccHHHHHHHhccChHhhccchhhhccccchH----HHHHhhhhhHhhhhcccCCCCCchHHHHHHhcCCCceEEE---e
Confidence 55566666666666666666666676777777 6667788999999999999999999999999998877654 3
Q ss_pred ccCCcccccCCccccccCCCCceeeecCCCCCCccchhhccccccccCCCC
Q 020465 186 KRQPILYHKARHYPVLVNRENDHSIDVEICPSCSEVRMVFDCSKQLCKGKP 236 (326)
Q Consensus 186 ~~~~~~~~~~gl~~l~~~c~~Lr~lDL~~Cp~c~~~~Lv~dCp~~~C~~~~ 236 (326)
+..++.+++.|+..+.++|+.||.+|++.|-..++..+.. ++..|+.++
T Consensus 327 l~~c~~fsd~~ft~l~rn~~~Le~l~~e~~~~~~d~tL~s--ls~~C~~lr 375 (483)
T KOG4341|consen 327 LSGCQQFSDRGFTMLGRNCPHLERLDLEECGLITDGTLAS--LSRNCPRLR 375 (483)
T ss_pred ccccchhhhhhhhhhhcCChhhhhhcccccceehhhhHhh--hccCCchhc
Confidence 5667778999999999999999999999999998886533 366666666
No 4
>KOG1947 consensus Leucine rich repeat proteins, some proteins contain F-box [General function prediction only]
Probab=99.39 E-value=6.2e-13 Score=131.00 Aligned_cols=193 Identities=19% Similarity=0.231 Sum_probs=131.8
Q ss_pred CCCHHHHHHHHccCChHHHH---HHhhcCHHhhhhhccCCCCceeeeecCC-CCCCCCHHHHHHHHhhcCCCccEEecCC
Q 020465 28 RPPHEALFLALAYLPLFELL---AMSVVCLSLRDAVNKDILPWLNIIVDRP-LNRRLSDEILMKITSKANGRLTTLALIN 103 (326)
Q Consensus 28 ~LP~E~Ll~IfsyL~~~dLl---~~s~VCr~Wr~lv~~dp~LW~~ldL~~~-l~~~itD~~L~~l~~~~~~~L~~L~Ls~ 103 (326)
.....++..+++..+....+ .+..+-..+...+...-..++.+++... ............++..+ .+|++|+|++
T Consensus 174 ~~~~~~~~~l~~~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~-~~L~~l~l~~ 252 (482)
T KOG1947|consen 174 LLLDKILLRLLSSCPLLKRLSLSGCSKITDDSLDALALKCPNLEELDLSGCCLLITLSPLLLLLLLSIC-RKLKSLDLSG 252 (482)
T ss_pred cccHHHHHHHHhhCchhhHhhhcccccCChhhHHHHHhhCchhheecccCcccccccchhHhhhhhhhc-CCcCccchhh
Confidence 44455555555543333333 2333333332222444455566666431 11122233344466665 7999999999
Q ss_pred CCCCCHHHHHHHHHhCCCccEEEeCCCCCCCHHHHHHHHHHHHhcCCCCCeeeccCccccchHHHHHHHHhcccCcchhh
Q 020465 104 CVRITNAGLQRVIEKNPFIKKLYIPGCTGLSPQGVIEAVEKLSENDHTLEILHISGVYNITKEHLRTLHSHLKLNSSRQN 183 (326)
Q Consensus 104 C~~ITD~gL~~v~~~cp~L~~L~Ls~C~~ITd~gi~~~L~~L~~~C~~Lk~L~LsgC~~lTd~~l~~La~~l~~~~~l~~ 183 (326)
|..|||.|+..++..||+|+.|++.+|..+|++| +.++++.|++|++|+|++|..++|.++..++.+++....+..
T Consensus 253 ~~~isd~~l~~l~~~c~~L~~L~l~~c~~lt~~g----l~~i~~~~~~L~~L~l~~c~~~~d~~l~~~~~~c~~l~~l~~ 328 (482)
T KOG1947|consen 253 CGLVTDIGLSALASRCPNLETLSLSNCSNLTDEG----LVSIAERCPSLRELDLSGCHGLTDSGLEALLKNCPNLRELKL 328 (482)
T ss_pred hhccCchhHHHHHhhCCCcceEccCCCCccchhH----HHHHHHhcCcccEEeeecCccchHHHHHHHHHhCcchhhhhh
Confidence 9999999999999999999999999999999999 899999999999999999999999999999998877665422
Q ss_pred hhccCCcccccCCccccccCC-CCceeeecCCCCCCccchhhc
Q 020465 184 EQKRQPILYHKARHYPVLVNR-ENDHSIDVEICPSCSEVRMVF 225 (326)
Q Consensus 184 l~~~~~~~~~~~gl~~l~~~c-~~Lr~lDL~~Cp~c~~~~Lv~ 225 (326)
.....+..++..++....... ++++.+++..||..++..+.+
T Consensus 329 ~~~~~c~~l~~~~l~~~~~~~~d~~~~~~~~~~~~l~~~~l~~ 371 (482)
T KOG1947|consen 329 LSLNGCPSLTDLSLSGLLTLTSDDLAELILRSCPKLTDLSLSY 371 (482)
T ss_pred hhcCCCccHHHHHHHHhhccCchhHhHHHHhcCCCcchhhhhh
Confidence 223333445544444444445 477888888888777766643
No 5
>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=99.16 E-value=1.7e-11 Score=85.65 Aligned_cols=46 Identities=28% Similarity=0.459 Sum_probs=39.7
Q ss_pred CCCCCHHHHHHHHccCChHHHHHHhhcCHHhhhhhccCCCCceeeee
Q 020465 26 EPRPPHEALFLALAYLPLFELLAMSVVCLSLRDAVNKDILPWLNIIV 72 (326)
Q Consensus 26 ~~~LP~E~Ll~IfsyL~~~dLl~~s~VCr~Wr~lv~~dp~LW~~ldL 72 (326)
+..||+|++..||+||+..|++++++|||+|+++ +.++.+|+++.+
T Consensus 1 i~~LP~Eil~~If~~L~~~dl~~~~~vcr~w~~~-~~~~~lW~~~~~ 46 (47)
T PF12937_consen 1 ISSLPDEILLEIFSYLDPRDLLRLSLVCRRWRRI-ANDNSLWRRLCL 46 (47)
T ss_dssp CCCS-HHHHHHHHTTS-HHHHHHHTTSSHHHHHH-HTCCCHHHHHC-
T ss_pred ChHhHHHHHHHHHhcCCHHHHHHHHHHHHHHHHH-HCChhhhhhhcc
Confidence 3579999999999999999999999999999999 677799998875
No 6
>KOG1947 consensus Leucine rich repeat proteins, some proteins contain F-box [General function prediction only]
Probab=99.04 E-value=2.7e-10 Score=112.32 Aligned_cols=149 Identities=19% Similarity=0.219 Sum_probs=117.7
Q ss_pred CCHHHHHHHHhhcCCCccEEecCCCCCCCHHHHHHHHHhCCCccEEEeCC-CCCCCHHHHHHHHHHHHhcCCCCCeeecc
Q 020465 80 LSDEILMKITSKANGRLTTLALINCVRITNAGLQRVIEKNPFIKKLYIPG-CTGLSPQGVIEAVEKLSENDHTLEILHIS 158 (326)
Q Consensus 80 itD~~L~~l~~~~~~~L~~L~Ls~C~~ITD~gL~~v~~~cp~L~~L~Ls~-C~~ITd~gi~~~L~~L~~~C~~Lk~L~Ls 158 (326)
+++..+..+... .++|+.|.+.+|..++|.++..++..+|+|+.|++++ |..+++.+.. ...++..|++|++|+++
T Consensus 175 ~~~~~~~~l~~~-~~~L~~l~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~--~~~~~~~~~~L~~l~l~ 251 (482)
T KOG1947|consen 175 LLDKILLRLLSS-CPLLKRLSLSGCSKITDDSLDALALKCPNLEELDLSGCCLLITLSPLL--LLLLLSICRKLKSLDLS 251 (482)
T ss_pred ccHHHHHHHHhh-CchhhHhhhcccccCChhhHHHHHhhCchhheecccCcccccccchhH--hhhhhhhcCCcCccchh
Confidence 455666666665 3799999999999999999999999999999999998 5666666532 33477889999999999
Q ss_pred CccccchHHHHHHHHhcccCcchhhhhccCCcccccCCccccccCCCCceeeecCCCCCCccchhhccccccccCCCC
Q 020465 159 GVYNITKEHLRTLHSHLKLNSSRQNEQKRQPILYHKARHYPVLVNRENDHSIDVEICPSCSEVRMVFDCSKQLCKGKP 236 (326)
Q Consensus 159 gC~~lTd~~l~~La~~l~~~~~l~~l~~~~~~~~~~~gl~~l~~~c~~Lr~lDL~~Cp~c~~~~Lv~dCp~~~C~~~~ 236 (326)
+|..+||.++++++..++.+..+ ....+..+++.|+..++..|+.|+.+||.+|...++..+... ...|+.++
T Consensus 252 ~~~~isd~~l~~l~~~c~~L~~L---~l~~c~~lt~~gl~~i~~~~~~L~~L~l~~c~~~~d~~l~~~--~~~c~~l~ 324 (482)
T KOG1947|consen 252 GCGLVTDIGLSALASRCPNLETL---SLSNCSNLTDEGLVSIAERCPSLRELDLSGCHGLTDSGLEAL--LKNCPNLR 324 (482)
T ss_pred hhhccCchhHHHHHhhCCCcceE---ccCCCCccchhHHHHHHHhcCcccEEeeecCccchHHHHHHH--HHhCcchh
Confidence 99889999999999988776544 444455478889999999999999999999999877655444 22255444
No 7
>smart00256 FBOX A Receptor for Ubiquitination Targets.
Probab=98.58 E-value=4.1e-08 Score=65.44 Aligned_cols=40 Identities=28% Similarity=0.290 Sum_probs=37.2
Q ss_pred CCHHHHHHHHccCChHHHHHHhhcCHHhhhhhccCCCCcee
Q 020465 29 PPHEALFLALAYLPLFELLAMSVVCLSLRDAVNKDILPWLN 69 (326)
Q Consensus 29 LP~E~Ll~IfsyL~~~dLl~~s~VCr~Wr~lv~~dp~LW~~ 69 (326)
||+|++..||.||+..|+.++++|||+|+.+ ..++.+|+.
T Consensus 1 lP~~ll~~I~~~l~~~d~~~~~~vc~~~~~~-~~~~~~~~~ 40 (41)
T smart00256 1 LPDEILEEILSKLPPKDLLRLRKVSRRWRSL-IDSHDFWFK 40 (41)
T ss_pred CCHHHHHHHHHcCCHHHHHHHHHHHHHHHHH-hcChhhhhc
Confidence 7999999999999999999999999999999 677888864
No 8
>KOG2120 consensus SCF ubiquitin ligase, Skp2 component [Posttranslational modification, protein turnover, chaperones]
Probab=98.44 E-value=2.3e-07 Score=88.80 Aligned_cols=133 Identities=19% Similarity=0.188 Sum_probs=90.5
Q ss_pred CCCCHHHHHHHHhhcCCCccEEecCCCCCCCHHHHHHHHHhCCCccEEEeCCCCCCCHHHHHHH----------------
Q 020465 78 RRLSDEILMKITSKANGRLTTLALINCVRITNAGLQRVIEKNPFIKKLYIPGCTGLSPQGVIEA---------------- 141 (326)
Q Consensus 78 ~~itD~~L~~l~~~~~~~L~~L~Ls~C~~ITD~gL~~v~~~cp~L~~L~Ls~C~~ITd~gi~~~---------------- 141 (326)
.+++|.....+|.. .+|+.|+|++|..+|..|+..+.++|..|.+|||+.|.-.++. |-.+
T Consensus 220 ~~LdD~I~~~iAkN--~~L~~lnlsm~sG~t~n~~~ll~~scs~L~~LNlsWc~l~~~~-Vtv~V~hise~l~~LNlsG~ 296 (419)
T KOG2120|consen 220 LRLDDPIVNTIAKN--SNLVRLNLSMCSGFTENALQLLLSSCSRLDELNLSWCFLFTEK-VTVAVAHISETLTQLNLSGY 296 (419)
T ss_pred cccCcHHHHHHhcc--ccceeeccccccccchhHHHHHHHhhhhHhhcCchHhhccchh-hhHHHhhhchhhhhhhhhhh
Confidence 35778888888886 6899999999999999999999999999999999999755544 2211
Q ss_pred --------HHHHHhcCCCCCeeeccCccccchHHHHHHHHhcccCcchhhhhccCCcccccCCccccccCCCCceeeecC
Q 020465 142 --------VEKLSENDHTLEILHISGVYNITKEHLRTLHSHLKLNSSRQNEQKRQPILYHKARHYPVLVNRENDHSIDVE 213 (326)
Q Consensus 142 --------L~~L~~~C~~Lk~L~LsgC~~lTd~~l~~La~~l~~~~~l~~l~~~~~~~~~~~gl~~l~~~c~~Lr~lDL~ 213 (326)
+..+++.||+|.+|+||++.-+++..+.++.+ ++.+.+ +.+.++..+...-++ .+..-+.|..+|+-
T Consensus 297 rrnl~~sh~~tL~~rcp~l~~LDLSD~v~l~~~~~~~~~k-f~~L~~---lSlsRCY~i~p~~~~-~l~s~psl~yLdv~ 371 (419)
T KOG2120|consen 297 RRNLQKSHLSTLVRRCPNLVHLDLSDSVMLKNDCFQEFFK-FNYLQH---LSLSRCYDIIPETLL-ELNSKPSLVYLDVF 371 (419)
T ss_pred HhhhhhhHHHHHHHhCCceeeeccccccccCchHHHHHHh-cchhee---eehhhhcCCChHHee-eeccCcceEEEEec
Confidence 44466777888888888777777755555432 222221 122233222222222 34677888888888
Q ss_pred CCCCC
Q 020465 214 ICPSC 218 (326)
Q Consensus 214 ~Cp~c 218 (326)
+|.-=
T Consensus 372 g~vsd 376 (419)
T KOG2120|consen 372 GCVSD 376 (419)
T ss_pred cccCc
Confidence 87643
No 9
>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=98.28 E-value=2.4e-07 Score=64.32 Aligned_cols=42 Identities=29% Similarity=0.343 Sum_probs=34.1
Q ss_pred CCCCHHHHHHHHccCChHHHHHHhhcCHHhhhhhccCCCCcee
Q 020465 27 PRPPHEALFLALAYLPLFELLAMSVVCLSLRDAVNKDILPWLN 69 (326)
Q Consensus 27 ~~LP~E~Ll~IfsyL~~~dLl~~s~VCr~Wr~lv~~dp~LW~~ 69 (326)
.+||+|++..||+||+..|++++++|||+|+++ ..++.+|..
T Consensus 4 ~~LP~~il~~Il~~l~~~~~~~l~~vsk~~~~~-~~~~~~~~~ 45 (48)
T PF00646_consen 4 SDLPDEILQEILSYLDPKDLLRLSLVSKRWRSL-VDSPRLWKK 45 (48)
T ss_dssp HHS-HHHHHHHHHTS-HHHHHHHCTT-HHHHHH-HTTHHHHHH
T ss_pred HHCCHHHHHHHHHHCcHHHHHHHHHHhhHHHHH-HcCCCccHH
Confidence 469999999999999999999999999999999 566666653
No 10
>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=98.17 E-value=1.1e-05 Score=75.66 Aligned_cols=118 Identities=17% Similarity=0.157 Sum_probs=71.3
Q ss_pred CCccEEecCCCCCCCHHHHHHHHH---hC-CCccEEEeCCCCCCCHHHHHHHHHHHHhcCCCCCeeeccCccccchHHHH
Q 020465 94 GRLTTLALINCVRITNAGLQRVIE---KN-PFIKKLYIPGCTGLSPQGVIEAVEKLSENDHTLEILHISGVYNITKEHLR 169 (326)
Q Consensus 94 ~~L~~L~Ls~C~~ITD~gL~~v~~---~c-p~L~~L~Ls~C~~ITd~gi~~~L~~L~~~C~~Lk~L~LsgC~~lTd~~l~ 169 (326)
++|++|+|++| ++++.++..+.. .+ ++|++|+|++|. ++..++..... ....+++|++|+++++ +++++++.
T Consensus 108 ~~L~~L~ls~~-~~~~~~~~~l~~~l~~~~~~L~~L~L~~n~-l~~~~~~~~~~-~~~~~~~L~~L~l~~n-~l~~~~~~ 183 (319)
T cd00116 108 SSLQELKLNNN-GLGDRGLRLLAKGLKDLPPALEKLVLGRNR-LEGASCEALAK-ALRANRDLKELNLANN-GIGDAGIR 183 (319)
T ss_pred CcccEEEeeCC-ccchHHHHHHHHHHHhCCCCceEEEcCCCc-CCchHHHHHHH-HHHhCCCcCEEECcCC-CCchHHHH
Confidence 45888888887 477766665433 44 777888888874 66555322222 2245677888888876 67777777
Q ss_pred HHHHhcccCcchhhhhccCCcccccCC---ccccccCCCCceeeecCCCC
Q 020465 170 TLHSHLKLNSSRQNEQKRQPILYHKAR---HYPVLVNRENDHSIDVEICP 216 (326)
Q Consensus 170 ~La~~l~~~~~l~~l~~~~~~~~~~~g---l~~l~~~c~~Lr~lDL~~Cp 216 (326)
.++..+.....++.+.+....+.+ .+ +...+..++.|+.|||..|+
T Consensus 184 ~l~~~l~~~~~L~~L~L~~n~i~~-~~~~~l~~~~~~~~~L~~L~ls~n~ 232 (319)
T cd00116 184 ALAEGLKANCNLEVLDLNNNGLTD-EGASALAETLASLKSLEVLNLGDNN 232 (319)
T ss_pred HHHHHHHhCCCCCEEeccCCccCh-HHHHHHHHHhcccCCCCEEecCCCc
Confidence 777666644444444444433221 11 11223456778888888774
No 11
>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=98.16 E-value=8.2e-06 Score=76.59 Aligned_cols=143 Identities=22% Similarity=0.213 Sum_probs=87.8
Q ss_pred ceeeeecCCCCCCCCHHHHHHHHhhc--CCCccEEecCCCCCCCHHHHHHHHH---hCCCccEEEeCCCCCCCHHHHHHH
Q 020465 67 WLNIIVDRPLNRRLSDEILMKITSKA--NGRLTTLALINCVRITNAGLQRVIE---KNPFIKKLYIPGCTGLSPQGVIEA 141 (326)
Q Consensus 67 W~~ldL~~~l~~~itD~~L~~l~~~~--~~~L~~L~Ls~C~~ITD~gL~~v~~---~cp~L~~L~Ls~C~~ITd~gi~~~ 141 (326)
.+.+++.. ..+++..+..++... ..+|+.|+|+++ .++++++..+.. .+++|+.|+|++| .+++.++...
T Consensus 139 L~~L~L~~---n~l~~~~~~~~~~~~~~~~~L~~L~l~~n-~l~~~~~~~l~~~l~~~~~L~~L~L~~n-~i~~~~~~~l 213 (319)
T cd00116 139 LEKLVLGR---NRLEGASCEALAKALRANRDLKELNLANN-GIGDAGIRALAEGLKANCNLEVLDLNNN-GLTDEGASAL 213 (319)
T ss_pred ceEEEcCC---CcCCchHHHHHHHHHHhCCCcCEEECcCC-CCchHHHHHHHHHHHhCCCCCEEeccCC-ccChHHHHHH
Confidence 44555532 345544444333221 257999999987 688888877654 4458999999988 5787773222
Q ss_pred HHHHHhcCCCCCeeeccCccccchHHHHHHHHhccc-CcchhhhhccCCcccccCCcc---ccccCCCCceeeecCCCCC
Q 020465 142 VEKLSENDHTLEILHISGVYNITKEHLRTLHSHLKL-NSSRQNEQKRQPILYHKARHY---PVLVNRENDHSIDVEICPS 217 (326)
Q Consensus 142 L~~L~~~C~~Lk~L~LsgC~~lTd~~l~~La~~l~~-~~~l~~l~~~~~~~~~~~gl~---~l~~~c~~Lr~lDL~~Cp~ 217 (326)
......+++|++|+++++ .+++..+..++..+.. ...++.+......+.+ .|.. ..+.....|+.+|++.+..
T Consensus 214 -~~~~~~~~~L~~L~ls~n-~l~~~~~~~l~~~~~~~~~~L~~L~l~~n~i~~-~~~~~l~~~~~~~~~L~~l~l~~N~l 290 (319)
T cd00116 214 -AETLASLKSLEVLNLGDN-NLTDAGAAALASALLSPNISLLTLSLSCNDITD-DGAKDLAEVLAEKESLLELDLRGNKF 290 (319)
T ss_pred -HHHhcccCCCCEEecCCC-cCchHHHHHHHHHHhccCCCceEEEccCCCCCc-HHHHHHHHHHhcCCCccEEECCCCCC
Confidence 222346788999999987 6888888888776643 1222334444443322 1222 2234457789999987664
No 12
>KOG3864 consensus Uncharacterized conserved protein [Function unknown]
Probab=97.85 E-value=1.1e-05 Score=73.42 Aligned_cols=82 Identities=21% Similarity=0.319 Sum_probs=68.0
Q ss_pred CCCHHHHHHHHhhcCCCccEEecCCCCCCCHHHHHHHHHhCCCccEEEeCCCCCCCHHHHHHHHHHHHhcCCCCCeeecc
Q 020465 79 RLSDEILMKITSKANGRLTTLALINCVRITNAGLQRVIEKNPFIKKLYIPGCTGLSPQGVIEAVEKLSENDHTLEILHIS 158 (326)
Q Consensus 79 ~itD~~L~~l~~~~~~~L~~L~Ls~C~~ITD~gL~~v~~~cp~L~~L~Ls~C~~ITd~gi~~~L~~L~~~C~~Lk~L~Ls 158 (326)
.|..++|.++-.- .+|+.|.+.+|.++.|.+|..+..-.|+|+.|+|++|.+||+.| |.-|. ..++|+.|.|.
T Consensus 112 ~I~~eGle~L~~l--~~i~~l~l~~ck~~dD~~L~~l~~~~~~L~~L~lsgC~rIT~~G----L~~L~-~lknLr~L~l~ 184 (221)
T KOG3864|consen 112 SIMYEGLEHLRDL--RSIKSLSLANCKYFDDWCLERLGGLAPSLQDLDLSGCPRITDGG----LACLL-KLKNLRRLHLY 184 (221)
T ss_pred hHHHHHHHHHhcc--chhhhheeccccchhhHHHHHhcccccchheeeccCCCeechhH----HHHHH-HhhhhHHHHhc
Confidence 4566677777543 68999999999999999999999999999999999999999999 54443 45799999999
Q ss_pred CccccchHH
Q 020465 159 GVYNITKEH 167 (326)
Q Consensus 159 gC~~lTd~~ 167 (326)
+...+..-.
T Consensus 185 ~l~~v~~~e 193 (221)
T KOG3864|consen 185 DLPYVANLE 193 (221)
T ss_pred CchhhhchH
Confidence 887776543
No 13
>smart00367 LRR_CC Leucine-rich repeat - CC (cysteine-containing) subfamily.
Probab=97.54 E-value=7.6e-05 Score=45.72 Aligned_cols=24 Identities=42% Similarity=0.477 Sum_probs=12.1
Q ss_pred CCCCCeeeccCccccchHHHHHHH
Q 020465 149 DHTLEILHISGVYNITKEHLRTLH 172 (326)
Q Consensus 149 C~~Lk~L~LsgC~~lTd~~l~~La 172 (326)
|++|++|+|++|.+|||.++.+|+
T Consensus 1 c~~L~~L~l~~C~~itD~gl~~l~ 24 (26)
T smart00367 1 CPNLRELDLSGCTNITDEGLQALA 24 (26)
T ss_pred CCCCCEeCCCCCCCcCHHHHHHHh
Confidence 345555555555555555554444
No 14
>smart00367 LRR_CC Leucine-rich repeat - CC (cysteine-containing) subfamily.
Probab=97.37 E-value=0.00017 Score=44.13 Aligned_cols=19 Identities=32% Similarity=0.819 Sum_probs=10.1
Q ss_pred CCCccEEEeCCCCCCCHHH
Q 020465 119 NPFIKKLYIPGCTGLSPQG 137 (326)
Q Consensus 119 cp~L~~L~Ls~C~~ITd~g 137 (326)
||+|++|+|++|.+|||.|
T Consensus 1 c~~L~~L~l~~C~~itD~g 19 (26)
T smart00367 1 CPNLRELDLSGCTNITDEG 19 (26)
T ss_pred CCCCCEeCCCCCCCcCHHH
Confidence 3455555555555555555
No 15
>KOG3864 consensus Uncharacterized conserved protein [Function unknown]
Probab=97.36 E-value=0.00022 Score=65.08 Aligned_cols=72 Identities=24% Similarity=0.307 Sum_probs=65.0
Q ss_pred CccEEecCCCCCCCHHHHHHHHHhCCCccEEEeCCCCCCCHHHHHHHHHHHHhcCCCCCeeeccCccccchHHHHHHH
Q 020465 95 RLTTLALINCVRITNAGLQRVIEKNPFIKKLYIPGCTGLSPQGVIEAVEKLSENDHTLEILHISGVYNITKEHLRTLH 172 (326)
Q Consensus 95 ~L~~L~Ls~C~~ITD~gL~~v~~~cp~L~~L~Ls~C~~ITd~gi~~~L~~L~~~C~~Lk~L~LsgC~~lTd~~l~~La 172 (326)
.++.++-+++ .|+-+||..+- ..+.|+.|.+.+|.++.|.+ |+.|+.--++|+.|+|++|+.|||.++.-|.
T Consensus 102 ~IeaVDAsds-~I~~eGle~L~-~l~~i~~l~l~~ck~~dD~~----L~~l~~~~~~L~~L~lsgC~rIT~~GL~~L~ 173 (221)
T KOG3864|consen 102 KIEAVDASDS-SIMYEGLEHLR-DLRSIKSLSLANCKYFDDWC----LERLGGLAPSLQDLDLSGCPRITDGGLACLL 173 (221)
T ss_pred eEEEEecCCc-hHHHHHHHHHh-ccchhhhheeccccchhhHH----HHHhcccccchheeeccCCCeechhHHHHHH
Confidence 5778888887 79999998765 68999999999999999999 9999998899999999999999999997774
No 16
>KOG3665 consensus ZYG-1-like serine/threonine protein kinases [General function prediction only]
Probab=97.13 E-value=0.0008 Score=71.78 Aligned_cols=108 Identities=19% Similarity=0.166 Sum_probs=77.6
Q ss_pred CCccEEecCCCCCCCHHHHHHHHHhCCCccEEEeCCCCCCCHHHHHHHHHHHHhcCCCCCeeeccCccccchHHHHHHHH
Q 020465 94 GRLTTLALINCVRITNAGLQRVIEKNPFIKKLYIPGCTGLSPQGVIEAVEKLSENDHTLEILHISGVYNITKEHLRTLHS 173 (326)
Q Consensus 94 ~~L~~L~Ls~C~~ITD~gL~~v~~~cp~L~~L~Ls~C~~ITd~gi~~~L~~L~~~C~~Lk~L~LsgC~~lTd~~l~~La~ 173 (326)
.+|++|+++|-..++......+...+|.|+.|.++|=. +..+- +..+..+-|+|..||+|++ +|++- .
T Consensus 122 ~nL~~LdI~G~~~~s~~W~~kig~~LPsL~sL~i~~~~-~~~~d----F~~lc~sFpNL~sLDIS~T-nI~nl------~ 189 (699)
T KOG3665|consen 122 QNLQHLDISGSELFSNGWPKKIGTMLPSLRSLVISGRQ-FDNDD----FSQLCASFPNLRSLDISGT-NISNL------S 189 (699)
T ss_pred HhhhhcCccccchhhccHHHHHhhhCcccceEEecCce-ecchh----HHHHhhccCccceeecCCC-CccCc------H
Confidence 58999999998888888889999999999999999964 44444 5567788999999999998 77763 2
Q ss_pred hcccCcchhhhhccCCcccccCCccccccCCCCceeeecCC
Q 020465 174 HLKLNSSRQNEQKRQPILYHKARHYPVLVNRENDHSIDVEI 214 (326)
Q Consensus 174 ~l~~~~~l~~l~~~~~~~~~~~gl~~l~~~c~~Lr~lDL~~ 214 (326)
.++.++.++.|.+..--|-+..-+. .+-+..+|+.|||+.
T Consensus 190 GIS~LknLq~L~mrnLe~e~~~~l~-~LF~L~~L~vLDIS~ 229 (699)
T KOG3665|consen 190 GISRLKNLQVLSMRNLEFESYQDLI-DLFNLKKLRVLDISR 229 (699)
T ss_pred HHhccccHHHHhccCCCCCchhhHH-HHhcccCCCeeeccc
Confidence 2233344444455544343322222 234688899999984
No 17
>KOG2997 consensus F-box protein FBX9 [General function prediction only]
Probab=96.96 E-value=0.00051 Score=66.25 Aligned_cols=45 Identities=24% Similarity=0.376 Sum_probs=40.0
Q ss_pred CCCCHHHHHHHHcc-----CChHHHHHHhhcCHHhhhhhccCCCCceeeee
Q 020465 27 PRPPHEALFLALAY-----LPLFELLAMSVVCLSLRDAVNKDILPWLNIIV 72 (326)
Q Consensus 27 ~~LP~E~Ll~Ifsy-----L~~~dLl~~s~VCr~Wr~lv~~dp~LW~~ldL 72 (326)
..||+|+|+.||.. |++++|-.++.|||.|+.+ +.+|.+|+.--+
T Consensus 108 ~~LPdEvLm~I~~~vv~~~~d~rsL~~~s~vCr~F~~~-~R~~~lwR~aC~ 157 (366)
T KOG2997|consen 108 SVLPDEVLMRIFRWVVSSLLDLRSLEQLSLVCRGFYKC-ARDPELWRLACL 157 (366)
T ss_pred hhCCHHHHHHHHHHHHhhhcchhhHHHhHhhHHHHHHH-HcChHHHHHHHH
Confidence 47999999999986 5789999999999999999 899999997544
No 18
>KOG0281 consensus Beta-TrCP (transducin repeats containing)/Slimb proteins [Function unknown]
Probab=96.62 E-value=0.00051 Score=66.94 Aligned_cols=49 Identities=22% Similarity=0.310 Sum_probs=43.4
Q ss_pred CCCCCCC----HHHHHHHHccCChHHHHHHhhcCHHhhhhhccCCCCceeeeec
Q 020465 24 EEEPRPP----HEALFLALAYLPLFELLAMSVVCLSLRDAVNKDILPWLNIIVD 73 (326)
Q Consensus 24 ~~~~~LP----~E~Ll~IfsyL~~~dLl~~s~VCr~Wr~lv~~dp~LW~~ldL~ 73 (326)
+-+..|| +++...||+||+..+|+.+..|||+|+++ -.||.+|+.+...
T Consensus 73 DFi~~lP~~gl~hi~e~ilsyld~~sLc~celv~k~W~r~-l~dg~~WKkLie~ 125 (499)
T KOG0281|consen 73 DFITALPEQGLDHIAENILSYLDALSLCACELVCKEWKRV-LSDGMLWKKLIER 125 (499)
T ss_pred HHHHhcccccHHHHHHHHHHhcchhhhhHHHHHHHHHHHH-hccchHHHHHHHH
Confidence 3445799 99999999999999999999999999999 6799999988653
No 19
>KOG1909 consensus Ran GTPase-activating protein [RNA processing and modification; Nuclear structure; Signal transduction mechanisms]
Probab=96.43 E-value=0.011 Score=58.07 Aligned_cols=78 Identities=27% Similarity=0.436 Sum_probs=37.7
Q ss_pred CCccEEecCCCCCCCHHHHHHHHH---hCCCccEEEeCCCCCCCHHHHHHHHHHHHhcCCCCCeeeccCccccchHHHHH
Q 020465 94 GRLTTLALINCVRITNAGLQRVIE---KNPFIKKLYIPGCTGLSPQGVIEAVEKLSENDHTLEILHISGVYNITKEHLRT 170 (326)
Q Consensus 94 ~~L~~L~Ls~C~~ITD~gL~~v~~---~cp~L~~L~Ls~C~~ITd~gi~~~L~~L~~~C~~Lk~L~LsgC~~lTd~~l~~ 170 (326)
++|+.|||..- ..|-+|-.++++ .+|+|+.|+++.|- +.++|..+.++++.+..|+|+.|++.++ .||.++..+
T Consensus 213 ~~LevLdl~DN-tft~egs~~LakaL~s~~~L~El~l~dcl-l~~~Ga~a~~~al~~~~p~L~vl~l~gN-eIt~da~~~ 289 (382)
T KOG1909|consen 213 PHLEVLDLRDN-TFTLEGSVALAKALSSWPHLRELNLGDCL-LENEGAIAFVDALKESAPSLEVLELAGN-EITRDAALA 289 (382)
T ss_pred Ccceeeecccc-hhhhHHHHHHHHHhcccchheeecccccc-cccccHHHHHHHHhccCCCCceeccCcc-hhHHHHHHH
Confidence 45555555543 233333333333 33455555555552 4555555555555555555555555555 445444444
Q ss_pred HHHh
Q 020465 171 LHSH 174 (326)
Q Consensus 171 La~~ 174 (326)
++..
T Consensus 290 la~~ 293 (382)
T KOG1909|consen 290 LAAC 293 (382)
T ss_pred HHHH
Confidence 4433
No 20
>KOG3665 consensus ZYG-1-like serine/threonine protein kinases [General function prediction only]
Probab=96.01 E-value=0.04 Score=59.06 Aligned_cols=55 Identities=18% Similarity=0.182 Sum_probs=42.6
Q ss_pred CCCHHHHHHHHhhcCCCccEEecCCCCCCCHHHHHHHHHhCCCccEEEeCCCCCCCHH
Q 020465 79 RLSDEILMKITSKANGRLTTLALINCVRITNAGLQRVIEKNPFIKKLYIPGCTGLSPQ 136 (326)
Q Consensus 79 ~itD~~L~~l~~~~~~~L~~L~Ls~C~~ITD~gL~~v~~~cp~L~~L~Ls~C~~ITd~ 136 (326)
.++..-..++.... |+|++|++.|=....|+ |.++..++|||..||+|++ +|++-
T Consensus 134 ~~s~~W~~kig~~L-PsL~sL~i~~~~~~~~d-F~~lc~sFpNL~sLDIS~T-nI~nl 188 (699)
T KOG3665|consen 134 LFSNGWPKKIGTML-PSLRSLVISGRQFDNDD-FSQLCASFPNLRSLDISGT-NISNL 188 (699)
T ss_pred hhhccHHHHHhhhC-cccceEEecCceecchh-HHHHhhccCccceeecCCC-CccCc
Confidence 34555566777775 79999999996555555 9999999999999999997 46543
No 21
>PLN03215 ascorbic acid mannose pathway regulator 1; Provisional
Probab=95.68 E-value=0.0084 Score=59.50 Aligned_cols=38 Identities=26% Similarity=0.355 Sum_probs=34.5
Q ss_pred CCCCCCHHHHHHHHccC-ChHHHHHHhhcCHHhhhhhcc
Q 020465 25 EEPRPPHEALFLALAYL-PLFELLAMSVVCLSLRDAVNK 62 (326)
Q Consensus 25 ~~~~LP~E~Ll~IfsyL-~~~dLl~~s~VCr~Wr~lv~~ 62 (326)
.+.+||.|+|..|...| ...|+++.+.||++||.++..
T Consensus 3 ~Ws~Lp~dll~~i~~~l~~~~d~~~~~~vC~sWr~a~~~ 41 (373)
T PLN03215 3 DWSTLPEELLHMIAGRLFSNVELKRFRSICRSWRSSVSG 41 (373)
T ss_pred ChhhCCHHHHHHHHhhCCcHHHHHHHHhhhhhHHHhccc
Confidence 46789999999999999 578999999999999999764
No 22
>KOG1909 consensus Ran GTPase-activating protein [RNA processing and modification; Nuclear structure; Signal transduction mechanisms]
Probab=95.41 E-value=0.084 Score=51.96 Aligned_cols=26 Identities=19% Similarity=0.199 Sum_probs=11.9
Q ss_pred CCCCeeeccCccccchHHHHHHHHhcc
Q 020465 150 HTLEILHISGVYNITKEHLRTLHSHLK 176 (326)
Q Consensus 150 ~~Lk~L~LsgC~~lTd~~l~~La~~l~ 176 (326)
++|++|++++| .+.+.+-.+++.++.
T Consensus 241 ~~L~El~l~dc-ll~~~Ga~a~~~al~ 266 (382)
T KOG1909|consen 241 PHLRELNLGDC-LLENEGAIAFVDALK 266 (382)
T ss_pred chheeeccccc-ccccccHHHHHHHHh
Confidence 34445555555 444444444444433
No 23
>PF14580 LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQD_A.
Probab=95.01 E-value=0.026 Score=50.34 Aligned_cols=134 Identities=13% Similarity=0.149 Sum_probs=38.0
Q ss_pred CCHHHHHHHHhhc-CCCccEEecCCCCCCCHHHHHHHHHhCCCccEEEeCCCCCCC-HHHHHHHHHHHHhcCCCCCeeec
Q 020465 80 LSDEILMKITSKA-NGRLTTLALINCVRITNAGLQRVIEKNPFIKKLYIPGCTGLS-PQGVIEAVEKLSENDHTLEILHI 157 (326)
Q Consensus 80 itD~~L~~l~~~~-~~~L~~L~Ls~C~~ITD~gL~~v~~~cp~L~~L~Ls~C~~IT-d~gi~~~L~~L~~~C~~Lk~L~L 157 (326)
+|-+.+..+++.- +-+++.|+|.+. .|+. ++.+.....+|+.|+|+++. |+ -+| +. ..++|++|++
T Consensus 4 lt~~~i~~~~~~~n~~~~~~L~L~~n-~I~~--Ie~L~~~l~~L~~L~Ls~N~-I~~l~~----l~----~L~~L~~L~L 71 (175)
T PF14580_consen 4 LTANMIEQIAQYNNPVKLRELNLRGN-QIST--IENLGATLDKLEVLDLSNNQ-ITKLEG----LP----GLPRLKTLDL 71 (175)
T ss_dssp -----------------------------------S--TT-TT--EEE-TTS---S--TT------------TT--EEE-
T ss_pred cccccccccccccccccccccccccc-cccc--ccchhhhhcCCCEEECCCCC-CccccC----cc----Chhhhhhccc
Confidence 4445555554431 136788888886 4543 33444456788888888874 43 334 32 3478888888
Q ss_pred cCccccchHHHHHHHHhcccCcchhhhhccCCcccccCCccccccCCCCceeeecCCCCCCccc----hhhccccccc
Q 020465 158 SGVYNITKEHLRTLHSHLKLNSSRQNEQKRQPILYHKARHYPVLVNRENDHSIDVEICPSCSEV----RMVFDCSKQL 231 (326)
Q Consensus 158 sgC~~lTd~~l~~La~~l~~~~~l~~l~~~~~~~~~~~gl~~l~~~c~~Lr~lDL~~Cp~c~~~----~Lv~dCp~~~ 231 (326)
++= .|++-. +.+...++.+. .+.+....+..-..+ .-+..++.|+.++|.+-|-+... .+++.+|+.+
T Consensus 72 ~~N-~I~~i~-~~l~~~lp~L~---~L~L~~N~I~~l~~l-~~L~~l~~L~~L~L~~NPv~~~~~YR~~vi~~lP~Lk 143 (175)
T PF14580_consen 72 SNN-RISSIS-EGLDKNLPNLQ---ELYLSNNKISDLNEL-EPLSSLPKLRVLSLEGNPVCEKKNYRLFVIYKLPSLK 143 (175)
T ss_dssp -SS----S-C-HHHHHH-TT-----EEE-TTS---SCCCC-GGGGG-TT--EEE-TT-GGGGSTTHHHHHHHH-TT-S
T ss_pred CCC-CCCccc-cchHHhCCcCC---EEECcCCcCCChHHh-HHHHcCCCcceeeccCCcccchhhHHHHHHHHcChhh
Confidence 754 344310 12333344432 233333333332223 23467899999999999987442 2466666544
No 24
>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=94.56 E-value=0.035 Score=32.94 Aligned_cols=22 Identities=36% Similarity=0.363 Sum_probs=9.5
Q ss_pred CCCCeeeccCccccchHHHHHHH
Q 020465 150 HTLEILHISGVYNITKEHLRTLH 172 (326)
Q Consensus 150 ~~Lk~L~LsgC~~lTd~~l~~La 172 (326)
++|++|+|+++. |+++++++|+
T Consensus 2 ~~L~~L~l~~n~-i~~~g~~~l~ 23 (24)
T PF13516_consen 2 PNLETLDLSNNQ-ITDEGASALA 23 (24)
T ss_dssp TT-SEEE-TSSB-EHHHHHHHHH
T ss_pred CCCCEEEccCCc-CCHHHHHHhC
Confidence 445555555542 5555544443
No 25
>PLN03210 Resistant to P. syringae 6; Provisional
Probab=94.35 E-value=0.032 Score=62.81 Aligned_cols=62 Identities=26% Similarity=0.284 Sum_probs=38.5
Q ss_pred CCccEEecCCCCCCCHHHHHHHHHhCCCccEEEeCCCCCCCHHHHHHHHHHHHhcCCCCCeeeccCccccc
Q 020465 94 GRLTTLALINCVRITNAGLQRVIEKNPFIKKLYIPGCTGLSPQGVIEAVEKLSENDHTLEILHISGVYNIT 164 (326)
Q Consensus 94 ~~L~~L~Ls~C~~ITD~gL~~v~~~cp~L~~L~Ls~C~~ITd~gi~~~L~~L~~~C~~Lk~L~LsgC~~lT 164 (326)
++|+.|+|+++..+.. +-.-..++++|+.|+|++|..++.-. .. .+.++|++|+|++|..++
T Consensus 778 ~sL~~L~Ls~n~~l~~--lP~si~~L~~L~~L~Ls~C~~L~~LP------~~-~~L~sL~~L~Ls~c~~L~ 839 (1153)
T PLN03210 778 PSLTRLFLSDIPSLVE--LPSSIQNLHKLEHLEIENCINLETLP------TG-INLESLESLDLSGCSRLR 839 (1153)
T ss_pred ccchheeCCCCCCccc--cChhhhCCCCCCEEECCCCCCcCeeC------CC-CCccccCEEECCCCCccc
Confidence 4677888877754433 11224467888888888887654211 00 145678888888886654
No 26
>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=94.18 E-value=0.031 Score=33.14 Aligned_cols=18 Identities=22% Similarity=0.506 Sum_probs=8.9
Q ss_pred CCCccEEEeCCCCCCCHHH
Q 020465 119 NPFIKKLYIPGCTGLSPQG 137 (326)
Q Consensus 119 cp~L~~L~Ls~C~~ITd~g 137 (326)
|++|++|+|++|. |+++|
T Consensus 1 ~~~L~~L~l~~n~-i~~~g 18 (24)
T PF13516_consen 1 NPNLETLDLSNNQ-ITDEG 18 (24)
T ss_dssp -TT-SEEE-TSSB-EHHHH
T ss_pred CCCCCEEEccCCc-CCHHH
Confidence 3556666666653 66666
No 27
>KOG3207 consensus Beta-tubulin folding cofactor E [Posttranslational modification, protein turnover, chaperones]
Probab=93.52 E-value=0.099 Score=52.89 Aligned_cols=35 Identities=29% Similarity=0.404 Sum_probs=17.2
Q ss_pred CCCccEEEeCCCCCCCHHHHHHHHHHHHhcCCCCCeeecc
Q 020465 119 NPFIKKLYIPGCTGLSPQGVIEAVEKLSENDHTLEILHIS 158 (326)
Q Consensus 119 cp~L~~L~Ls~C~~ITd~gi~~~L~~L~~~C~~Lk~L~Ls 158 (326)
.++|++|.|++| ++|... +..++..+|+|+.|.|.
T Consensus 196 l~~lK~L~l~~C-Gls~k~----V~~~~~~fPsl~~L~L~ 230 (505)
T KOG3207|consen 196 LSHLKQLVLNSC-GLSWKD----VQWILLTFPSLEVLYLE 230 (505)
T ss_pred hhhhheEEeccC-CCCHHH----HHHHHHhCCcHHHhhhh
Confidence 345555555555 355444 33444445555555444
No 28
>KOG0274 consensus Cdc4 and related F-box and WD-40 proteins [General function prediction only]
Probab=92.60 E-value=0.046 Score=56.84 Aligned_cols=50 Identities=22% Similarity=0.261 Sum_probs=41.9
Q ss_pred CCCCCCCCCHHHHHHHHccCChHHHHHHhhcCHHhhhhhccCCCCceeee
Q 020465 22 INEEEPRPPHEALFLALAYLPLFELLAMSVVCLSLRDAVNKDILPWLNII 71 (326)
Q Consensus 22 ~~~~~~~LP~E~Ll~IfsyL~~~dLl~~s~VCr~Wr~lv~~dp~LW~~ld 71 (326)
+.+....||.|+..+||.||+.++++.+++||+.|+.+...+...|+...
T Consensus 104 ~~dfi~~lp~el~~~il~~Ld~~~l~~~~~v~~~w~~~~~~~~~~~~~~~ 153 (537)
T KOG0274|consen 104 QRDFLSLLPSELSLHILSFLDGRDLLAVRQVCRNWNKLLDDDKVWWRMCR 153 (537)
T ss_pred ccchhhcccchhcccccccCCHHHhhhhhhhcchhhhhhhccchhhhhhh
Confidence 44566789999999999999999999999999999999555666665543
No 29
>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=92.12 E-value=0.13 Score=35.28 Aligned_cols=13 Identities=38% Similarity=0.376 Sum_probs=6.7
Q ss_pred cCCCCCeeeccCc
Q 020465 148 NDHTLEILHISGV 160 (326)
Q Consensus 148 ~C~~Lk~L~LsgC 160 (326)
++++|+.|++++.
T Consensus 22 ~l~~L~~L~l~~N 34 (44)
T PF12799_consen 22 NLPNLETLNLSNN 34 (44)
T ss_dssp TCTTSSEEEETSS
T ss_pred CCCCCCEEEecCC
Confidence 4455555555554
No 30
>KOG3207 consensus Beta-tubulin folding cofactor E [Posttranslational modification, protein turnover, chaperones]
Probab=90.71 E-value=0.079 Score=53.55 Aligned_cols=116 Identities=9% Similarity=-0.001 Sum_probs=73.4
Q ss_pred HHHhhcCCCccEEecCCCCCCCHHHHHHHHHhCCCccEEEeCCCCC--CCHHHHHHHHHHHHhcCCCCCeeeccCccccc
Q 020465 87 KITSKANGRLTTLALINCVRITNAGLQRVIEKNPFIKKLYIPGCTG--LSPQGVIEAVEKLSENDHTLEILHISGVYNIT 164 (326)
Q Consensus 87 ~l~~~~~~~L~~L~Ls~C~~ITD~gL~~v~~~cp~L~~L~Ls~C~~--ITd~gi~~~L~~L~~~C~~Lk~L~LsgC~~lT 164 (326)
..+..+ ++++.|+|++--.-.-..+..+++..|+|+.|+|+.=.- .++.- .. ..-+.||.|.|++| +++
T Consensus 140 ~~~k~~-~~v~~LdLS~NL~~nw~~v~~i~eqLp~Le~LNls~Nrl~~~~~s~----~~---~~l~~lK~L~l~~C-Gls 210 (505)
T KOG3207|consen 140 EYSKIL-PNVRDLDLSRNLFHNWFPVLKIAEQLPSLENLNLSSNRLSNFISSN----TT---LLLSHLKQLVLNSC-GLS 210 (505)
T ss_pred hhhhhC-CcceeecchhhhHHhHHHHHHHHHhcccchhcccccccccCCcccc----ch---hhhhhhheEEeccC-CCC
Confidence 444443 688888888754445567778888888888888875211 11111 11 13468999999999 899
Q ss_pred hHHHHHHHHhcccCcchhhhhccCC--cccccCCccccccCCCCceeeecCCCCCC
Q 020465 165 KEHLRTLHSHLKLNSSRQNEQKRQP--ILYHKARHYPVLVNRENDHSIDVEICPSC 218 (326)
Q Consensus 165 d~~l~~La~~l~~~~~l~~l~~~~~--~~~~~~gl~~l~~~c~~Lr~lDL~~Cp~c 218 (326)
-.++..++...+....+ .+... .+... .-.+...-|.+|||+.=+.+
T Consensus 211 ~k~V~~~~~~fPsl~~L---~L~~N~~~~~~~----~~~~i~~~L~~LdLs~N~li 259 (505)
T KOG3207|consen 211 WKDVQWILLTFPSLEVL---YLEANEIILIKA----TSTKILQTLQELDLSNNNLI 259 (505)
T ss_pred HHHHHHHHHhCCcHHHh---hhhcccccceec----chhhhhhHHhhccccCCccc
Confidence 88999988888776544 22111 11110 01245667899999987764
No 31
>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=90.58 E-value=0.077 Score=38.20 Aligned_cols=59 Identities=20% Similarity=0.211 Sum_probs=39.2
Q ss_pred CCccEEecCCCCCCCHHHHHHHHHhCCCccEEEeCCCCCCCHHHHHHHHHHHHhcCCCCCeeeccCc
Q 020465 94 GRLTTLALINCVRITNAGLQRVIEKNPFIKKLYIPGCTGLSPQGVIEAVEKLSENDHTLEILHISGV 160 (326)
Q Consensus 94 ~~L~~L~Ls~C~~ITD~gL~~v~~~cp~L~~L~Ls~C~~ITd~gi~~~L~~L~~~C~~Lk~L~LsgC 160 (326)
++|+.|+|+++ +|+.-. .....+.++|++|+|++. .++.-. ...-.+.++|++|+++++
T Consensus 1 p~L~~L~l~~n-~l~~i~-~~~f~~l~~L~~L~l~~N-~l~~i~-----~~~f~~l~~L~~L~l~~N 59 (61)
T PF13855_consen 1 PNLESLDLSNN-KLTEIP-PDSFSNLPNLETLDLSNN-NLTSIP-----PDAFSNLPNLRYLDLSNN 59 (61)
T ss_dssp TTESEEEETSS-TESEEC-TTTTTTGTTESEEEETSS-SESEEE-----TTTTTTSTTESEEEETSS
T ss_pred CcCcEEECCCC-CCCccC-HHHHcCCCCCCEeEccCC-ccCccC-----HHHHcCCCCCCEEeCcCC
Confidence 47899999998 554311 123346799999999976 354221 011257889999999986
No 32
>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=90.57 E-value=0.28 Score=33.62 Aligned_cols=38 Identities=26% Similarity=0.340 Sum_probs=29.3
Q ss_pred CCccEEecCCCCCCCHHHHHHHHHhCCCccEEEeCCCCCCCH
Q 020465 94 GRLTTLALINCVRITNAGLQRVIEKNPFIKKLYIPGCTGLSP 135 (326)
Q Consensus 94 ~~L~~L~Ls~C~~ITD~gL~~v~~~cp~L~~L~Ls~C~~ITd 135 (326)
++|+.|+|++. +|++ +.....++|+|+.|+|+++ +|++
T Consensus 1 ~~L~~L~l~~N-~i~~--l~~~l~~l~~L~~L~l~~N-~i~~ 38 (44)
T PF12799_consen 1 KNLEELDLSNN-QITD--LPPELSNLPNLETLNLSNN-PISD 38 (44)
T ss_dssp TT-SEEEETSS-S-SS--HGGHGTTCTTSSEEEETSS-CCSB
T ss_pred CcceEEEccCC-CCcc--cCchHhCCCCCCEEEecCC-CCCC
Confidence 47999999997 7886 4455678999999999998 5764
No 33
>COG5238 RNA1 Ran GTPase-activating protein (RanGAP) involved in mRNA processing and transport [Signal transduction mechanisms / RNA processing and modification]
Probab=90.39 E-value=1.8 Score=41.98 Aligned_cols=72 Identities=22% Similarity=0.194 Sum_probs=46.0
Q ss_pred HhCCCccEEEeCCCCCCCHHHHHHHHHHHHhcCCCCCeeeccCccccchHHHHHHHHhcccCcchhhhhccCCc
Q 020465 117 EKNPFIKKLYIPGCTGLSPQGVIEAVEKLSENDHTLEILHISGVYNITKEHLRTLHSHLKLNSSRQNEQKRQPI 190 (326)
Q Consensus 117 ~~cp~L~~L~Ls~C~~ITd~gi~~~L~~L~~~C~~Lk~L~LsgC~~lTd~~l~~La~~l~~~~~l~~l~~~~~~ 190 (326)
+...+|+.+.+.. .+|-++||...+-.=+.++++|+.|+|..= .+|..+=..||.+++..+-+.+++...+.
T Consensus 182 ~sh~~lk~vki~q-NgIrpegv~~L~~~gl~y~~~LevLDlqDN-tft~~gS~~La~al~~W~~lrEL~lnDCl 253 (388)
T COG5238 182 ESHENLKEVKIQQ-NGIRPEGVTMLAFLGLFYSHSLEVLDLQDN-TFTLEGSRYLADALCEWNLLRELRLNDCL 253 (388)
T ss_pred HhhcCceeEEeee-cCcCcchhHHHHHHHHHHhCcceeeecccc-chhhhhHHHHHHHhcccchhhhccccchh
Confidence 3345677777765 467788844332222357888888888864 46666667777777777665555555443
No 34
>PLN00113 leucine-rich repeat receptor-like protein kinase; Provisional
Probab=90.11 E-value=0.4 Score=52.58 Aligned_cols=16 Identities=13% Similarity=-0.124 Sum_probs=11.8
Q ss_pred ccCCCCceeeecCCCC
Q 020465 201 LVNRENDHSIDVEICP 216 (326)
Q Consensus 201 ~~~c~~Lr~lDL~~Cp 216 (326)
+.....|+.++|..+.
T Consensus 208 l~~l~~L~~L~L~~n~ 223 (968)
T PLN00113 208 LGQMKSLKWIYLGYNN 223 (968)
T ss_pred HcCcCCccEEECcCCc
Confidence 3567788888888775
No 35
>PF08274 PhnA_Zn_Ribbon: PhnA Zinc-Ribbon ; InterPro: IPR013987 The PhnA protein family includes the uncharacterised Escherichia coli protein PhnA and its homologues. The E. coli phnA gene is part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage []. The protein is not related to the characterised phosphonoacetate hydrolase designated PhnA []. This entry represents the N-terminal domain of PhnA, which is predicted to form a zinc-ribbon.; PDB: 2AKL_A.
Probab=89.71 E-value=0.17 Score=32.30 Aligned_cols=28 Identities=32% Similarity=0.747 Sum_probs=14.6
Q ss_pred cCCCCCCCCcchhccccCCcccCCCCCceeecccccc
Q 020465 279 QLPKCNLCNKPYCRQHANLGSNSSCSSGFICDICQYQ 315 (326)
Q Consensus 279 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 315 (326)
++|||..|+-.|-- .|...|+|+.|.++
T Consensus 1 ~~p~Cp~C~se~~y---------~D~~~~vCp~C~~e 28 (30)
T PF08274_consen 1 TLPKCPLCGSEYTY---------EDGELLVCPECGHE 28 (30)
T ss_dssp -S---TTT-----E---------E-SSSEEETTTTEE
T ss_pred CCCCCCCCCCccee---------ccCCEEeCCccccc
Confidence 58999999887752 56689999999754
No 36
>PF06689 zf-C4_ClpX: ClpX C4-type zinc finger; InterPro: IPR010603 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The ClpX heat shock protein of Escherichia coli is a member of the universally conserved Hsp100 family of proteins, and possesses a putative zinc finger motif of the C4 type []. This presumed zinc binding domain (ZBD) is found at the N terminus of the ClpX protein. ClpX is an ATPase which functions both as a substrate specificity component of the ClpXP protease and as a molecular chaperone. ZBD is a member of the treble clef zinc finger family, a motif known to facilitate protein-ligand, protein-DNA, and protein-protein interactions and forms a constitutive dimer that is essential for the degradation of some, but not all, ClpX substrates []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0016887 ATPase activity, 0046983 protein dimerization activity, 0006200 ATP catabolic process, 0019538 protein metabolic process; PDB: 2DS8_B 2DS6_B 2DS5_A 1OVX_A 2DS7_A.
Probab=89.59 E-value=0.067 Score=36.47 Aligned_cols=33 Identities=24% Similarity=0.624 Sum_probs=20.1
Q ss_pred CCCCCCCcchhccccCCcccCCCCCceeeccccccc
Q 020465 281 PKCNLCNKPYCRQHANLGSNSSCSSGFICDICQYQN 316 (326)
Q Consensus 281 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 316 (326)
++|+||+||.= ..+..+..+. +.|||+.|...-
T Consensus 2 ~~CSFCgr~~~--~v~~li~g~~-~~~IC~~Cv~~~ 34 (41)
T PF06689_consen 2 KRCSFCGRPES--EVGRLISGPN-GAYICDECVEQA 34 (41)
T ss_dssp -B-TTT--BTT--TSSSEEEES--SEEEEHHHHHHH
T ss_pred CCccCCCCCHH--HHhceecCCC-CcEECHHHHHHH
Confidence 57999999964 4445555565 799999996543
No 37
>PLN03210 Resistant to P. syringae 6; Provisional
Probab=88.55 E-value=0.51 Score=53.37 Aligned_cols=40 Identities=18% Similarity=0.238 Sum_probs=20.0
Q ss_pred hCCCccEEEeCCCCCCCHHHHHHHHHHHHhcCCCCCeeeccCccccc
Q 020465 118 KNPFIKKLYIPGCTGLSPQGVIEAVEKLSENDHTLEILHISGVYNIT 164 (326)
Q Consensus 118 ~cp~L~~L~Ls~C~~ITd~gi~~~L~~L~~~C~~Lk~L~LsgC~~lT 164 (326)
..++|+.|+|+++..++.-. .+ ...++|++|+|++|..++
T Consensus 632 ~l~~Lk~L~Ls~~~~l~~ip------~l-s~l~~Le~L~L~~c~~L~ 671 (1153)
T PLN03210 632 SLTGLRNIDLRGSKNLKEIP------DL-SMATNLETLKLSDCSSLV 671 (1153)
T ss_pred cCCCCCEEECCCCCCcCcCC------cc-ccCCcccEEEecCCCCcc
Confidence 45566666666654333221 11 234566666666665443
No 38
>KOG4308 consensus LRR-containing protein [Function unknown]
Probab=86.11 E-value=0.3 Score=50.16 Aligned_cols=135 Identities=19% Similarity=0.158 Sum_probs=80.4
Q ss_pred CCCHHHHHHHHhhc--C-CCccEEecCCCCCCCHHHHHHHHH---hCCCccEEEeCCCCCCCHHHHHHHHHHHHh---cC
Q 020465 79 RLSDEILMKITSKA--N-GRLTTLALINCVRITNAGLQRVIE---KNPFIKKLYIPGCTGLSPQGVIEAVEKLSE---ND 149 (326)
Q Consensus 79 ~itD~~L~~l~~~~--~-~~L~~L~Ls~C~~ITD~gL~~v~~---~cp~L~~L~Ls~C~~ITd~gi~~~L~~L~~---~C 149 (326)
.++|+....+.... + ..|+.|++..| .+|++|...+++ .++.|+.|+++.+.. -+.|....-+++.. .-
T Consensus 126 ~l~~~g~~~l~~~l~~~~~~l~~L~l~~c-~l~~~g~~~l~~~L~~~~~l~~l~l~~n~l-~~~g~~~l~~~l~~~~~~~ 203 (478)
T KOG4308|consen 126 NLGDEGARLLCEGLRLPQCLLQTLELVSC-SLTSEGAAPLAAVLEKNEHLTELDLSLNGL-IELGLLVLSQALESAASPL 203 (478)
T ss_pred CCccHhHHHHHhhcccchHHHHHHHhhcc-cccccchHHHHHHHhcccchhHHHHHhccc-chhhhHHHhhhhhhhhccc
Confidence 35566665554421 1 35666777776 566666655443 356677777777643 35564433333332 45
Q ss_pred CCCCeeeccCccccchHHHHHHHHhcccCcc-hhhhhccCCcccccCCccccc---cCC-CCceeeecCCCCC
Q 020465 150 HTLEILHISGVYNITKEHLRTLHSHLKLNSS-RQNEQKRQPILYHKARHYPVL---VNR-ENDHSIDVEICPS 217 (326)
Q Consensus 150 ~~Lk~L~LsgC~~lTd~~l~~La~~l~~~~~-l~~l~~~~~~~~~~~gl~~l~---~~c-~~Lr~lDL~~Cp~ 217 (326)
.++++|++++| .+|......++..+..... ..+++..... ..+.|+..+. ... ..++.+|+..|..
T Consensus 204 ~~le~L~L~~~-~~t~~~c~~l~~~l~~~~~~~~el~l~~n~-l~d~g~~~L~~~l~~~~~~l~~l~l~~nsi 274 (478)
T KOG4308|consen 204 SSLETLKLSRC-GVTSSSCALLDEVLASGESLLRELDLASNK-LGDVGVEKLLPCLSVLSETLRVLDLSRNSI 274 (478)
T ss_pred ccHHHHhhhhc-CcChHHHHHHHHHHhccchhhHHHHHHhcC-cchHHHHHHHHHhcccchhhhhhhhhcCCc
Confidence 77999999998 7888888888888877766 3444443322 2223443333 233 5568888888775
No 39
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=84.52 E-value=0.56 Score=31.98 Aligned_cols=36 Identities=31% Similarity=0.870 Sum_probs=27.9
Q ss_pred ccCccCCCCchhh----hhhhhhhchHhhhcCC----CCCCCCc
Q 020465 253 ECGGCIQPEEMED----AVCNDMLCSDCWLQLP----KCNLCNK 288 (326)
Q Consensus 253 ~cg~c~~~~~~~e----~~~~~~~c~~c~~~~~----~~~~~~~ 288 (326)
+|+.|.+.-..++ +.|.-++|.+|..++. +|++|+|
T Consensus 1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~~~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLKGKSVKCPICRK 44 (44)
T ss_pred CCcCcCccccCCCCeEEcccCCHHHHHHHHhhcCCCCCCcCCCC
Confidence 5777777652222 6899999999999998 8888875
No 40
>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=84.38 E-value=0.16 Score=36.58 Aligned_cols=35 Identities=23% Similarity=0.203 Sum_probs=25.0
Q ss_pred CCccEEEeCCCCCCCHHHHHHHHHHHHhcCCCCCeeeccCc
Q 020465 120 PFIKKLYIPGCTGLSPQGVIEAVEKLSENDHTLEILHISGV 160 (326)
Q Consensus 120 p~L~~L~Ls~C~~ITd~gi~~~L~~L~~~C~~Lk~L~LsgC 160 (326)
|+|++|+|+++ +++.-. ...-.+.++|++|+|++.
T Consensus 1 p~L~~L~l~~n-~l~~i~-----~~~f~~l~~L~~L~l~~N 35 (61)
T PF13855_consen 1 PNLESLDLSNN-KLTEIP-----PDSFSNLPNLETLDLSNN 35 (61)
T ss_dssp TTESEEEETSS-TESEEC-----TTTTTTGTTESEEEETSS
T ss_pred CcCcEEECCCC-CCCccC-----HHHHcCCCCCCEeEccCC
Confidence 78999999998 455322 112246789999999976
No 41
>smart00368 LRR_RI Leucine rich repeat, ribonuclease inhibitor type.
Probab=83.55 E-value=1.5 Score=27.02 Aligned_cols=17 Identities=24% Similarity=0.499 Sum_probs=10.6
Q ss_pred CCccEEEeCCCCCCCHHH
Q 020465 120 PFIKKLYIPGCTGLSPQG 137 (326)
Q Consensus 120 p~L~~L~Ls~C~~ITd~g 137 (326)
++|++|+|++. .++++|
T Consensus 2 ~~L~~LdL~~N-~i~~~G 18 (28)
T smart00368 2 PSLRELDLSNN-KLGDEG 18 (28)
T ss_pred CccCEEECCCC-CCCHHH
Confidence 45666666664 366666
No 42
>smart00368 LRR_RI Leucine rich repeat, ribonuclease inhibitor type.
Probab=83.45 E-value=1.7 Score=26.79 Aligned_cols=25 Identities=28% Similarity=0.343 Sum_probs=15.2
Q ss_pred CCCCeeeccCccccchHHHHHHHHhc
Q 020465 150 HTLEILHISGVYNITKEHLRTLHSHL 175 (326)
Q Consensus 150 ~~Lk~L~LsgC~~lTd~~l~~La~~l 175 (326)
++|++|+|++. .+++++..+|++.+
T Consensus 2 ~~L~~LdL~~N-~i~~~G~~~L~~~L 26 (28)
T smart00368 2 PSLRELDLSNN-KLGDEGARALAEAL 26 (28)
T ss_pred CccCEEECCCC-CCCHHHHHHHHHHh
Confidence 45666666655 56666666666544
No 43
>PLN00113 leucine-rich repeat receptor-like protein kinase; Provisional
Probab=82.34 E-value=1.5 Score=47.98 Aligned_cols=108 Identities=12% Similarity=0.064 Sum_probs=61.2
Q ss_pred CCccEEecCCCCCCCHHHHHHHHHhCCCccEEEeCCCCCCCHHHHHHHHHHHHhcCCCCCeeeccCccccchHHHHHHHH
Q 020465 94 GRLTTLALINCVRITNAGLQRVIEKNPFIKKLYIPGCTGLSPQGVIEAVEKLSENDHTLEILHISGVYNITKEHLRTLHS 173 (326)
Q Consensus 94 ~~L~~L~Ls~C~~ITD~gL~~v~~~cp~L~~L~Ls~C~~ITd~gi~~~L~~L~~~C~~Lk~L~LsgC~~lTd~~l~~La~ 173 (326)
++|+.|+|+++ +++..--..+...+++|++|+|+++. ++..- . ....++|++|+|+++ .++...-..+ .
T Consensus 93 ~~L~~L~Ls~n-~~~~~ip~~~~~~l~~L~~L~Ls~n~-l~~~~-----p--~~~l~~L~~L~Ls~n-~~~~~~p~~~-~ 161 (968)
T PLN00113 93 PYIQTINLSNN-QLSGPIPDDIFTTSSSLRYLNLSNNN-FTGSI-----P--RGSIPNLETLDLSNN-MLSGEIPNDI-G 161 (968)
T ss_pred CCCCEEECCCC-ccCCcCChHHhccCCCCCEEECcCCc-ccccc-----C--ccccCCCCEEECcCC-cccccCChHH-h
Confidence 68999999987 34432222344578899999999874 33210 0 023578999999987 3433211222 2
Q ss_pred hcccCcchhhhhccCCcccccCCccccccCCCCceeeecCCCCC
Q 020465 174 HLKLNSSRQNEQKRQPILYHKARHYPVLVNRENDHSIDVEICPS 217 (326)
Q Consensus 174 ~l~~~~~l~~l~~~~~~~~~~~gl~~l~~~c~~Lr~lDL~~Cp~ 217 (326)
.+.. ++.+.+....+... +-..+.+...|+.|||..+..
T Consensus 162 ~l~~---L~~L~L~~n~l~~~--~p~~~~~l~~L~~L~L~~n~l 200 (968)
T PLN00113 162 SFSS---LKVLDLGGNVLVGK--IPNSLTNLTSLEFLTLASNQL 200 (968)
T ss_pred cCCC---CCEEECccCccccc--CChhhhhCcCCCeeeccCCCC
Confidence 2233 23334433332211 112245788899999998863
No 44
>KOG2739 consensus Leucine-rich acidic nuclear protein [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=82.30 E-value=0.6 Score=44.23 Aligned_cols=80 Identities=21% Similarity=0.287 Sum_probs=52.0
Q ss_pred CCccEEecCCCCCCCHHHHHHHHHhCCCccEEEeCCCCCCCHHHHHHHHHHHHhcCCCCCeeeccCcc--ccchHHHHHH
Q 020465 94 GRLTTLALINCVRITNAGLQRVIEKNPFIKKLYIPGCTGLSPQGVIEAVEKLSENDHTLEILHISGVY--NITKEHLRTL 171 (326)
Q Consensus 94 ~~L~~L~Ls~C~~ITD~gL~~v~~~cp~L~~L~Ls~C~~ITd~gi~~~L~~L~~~C~~Lk~L~LsgC~--~lTd~~l~~L 171 (326)
++||.|.|+.-+.--..||..+++.+|+|++|+|++ .+|.+ ++.++.+ +.-.+|+.|++..|. +++|. =+.+
T Consensus 65 p~LkkL~lsdn~~~~~~~l~vl~e~~P~l~~l~ls~-Nki~~---lstl~pl-~~l~nL~~Ldl~n~~~~~l~dy-re~v 138 (260)
T KOG2739|consen 65 PKLKKLELSDNYRRVSGGLEVLAEKAPNLKVLNLSG-NKIKD---LSTLRPL-KELENLKSLDLFNCSVTNLDDY-REKV 138 (260)
T ss_pred chhhhhcccCCcccccccceehhhhCCceeEEeecC-Ccccc---ccccchh-hhhcchhhhhcccCCccccccH-HHHH
Confidence 588889887765455678889999999999999988 45554 1223333 234679999999884 34432 2334
Q ss_pred HHhcccCc
Q 020465 172 HSHLKLNS 179 (326)
Q Consensus 172 a~~l~~~~ 179 (326)
...++.++
T Consensus 139 f~ll~~L~ 146 (260)
T KOG2739|consen 139 FLLLPSLK 146 (260)
T ss_pred HHHhhhhc
Confidence 44444443
No 45
>KOG4308 consensus LRR-containing protein [Function unknown]
Probab=82.13 E-value=0.34 Score=49.80 Aligned_cols=114 Identities=19% Similarity=0.230 Sum_probs=62.8
Q ss_pred ccEEecCCCCCCCHHHHHHHHHh---CCCccEEEeCCCCCCCHHHHHHHHHHHHhcC----CCCCeeeccCccccchHHH
Q 020465 96 LTTLALINCVRITNAGLQRVIEK---NPFIKKLYIPGCTGLSPQGVIEAVEKLSEND----HTLEILHISGVYNITKEHL 168 (326)
Q Consensus 96 L~~L~Ls~C~~ITD~gL~~v~~~---cp~L~~L~Ls~C~~ITd~gi~~~L~~L~~~C----~~Lk~L~LsgC~~lTd~~l 168 (326)
+.+|.|.+| .+.|.|++.+++. ++.|++|++++. .++++| +..+...- ..|+.|++..| .+|+++-
T Consensus 89 l~~L~L~~~-~l~~~~~~~l~~~l~t~~~L~~L~l~~n-~l~~~g----~~~l~~~l~~~~~~l~~L~l~~c-~l~~~g~ 161 (478)
T KOG4308|consen 89 LLHLSLANN-RLGDRGAEELAQALKTLPTLGQLDLSGN-NLGDEG----ARLLCEGLRLPQCLLQTLELVSC-SLTSEGA 161 (478)
T ss_pred HHHhhhhhC-ccccchHHHHHHHhcccccHhHhhcccC-CCccHh----HHHHHhhcccchHHHHHHHhhcc-cccccch
Confidence 667777776 5666676666554 466777777775 366776 34443322 34555667666 6677776
Q ss_pred HHHHHhcccCcchhhhhccCCcccccCCcccc-------ccCCCCceeeecCCCCC
Q 020465 169 RTLHSHLKLNSSRQNEQKRQPILYHKARHYPV-------LVNRENDHSIDVEICPS 217 (326)
Q Consensus 169 ~~La~~l~~~~~l~~l~~~~~~~~~~~gl~~l-------~~~c~~Lr~lDL~~Cp~ 217 (326)
..|++.+....++..++.....+.. .|...+ ++...+++.+.+..|-.
T Consensus 162 ~~l~~~L~~~~~l~~l~l~~n~l~~-~g~~~l~~~l~~~~~~~~~le~L~L~~~~~ 216 (478)
T KOG4308|consen 162 APLAAVLEKNEHLTELDLSLNGLIE-LGLLVLSQALESAASPLSSLETLKLSRCGV 216 (478)
T ss_pred HHHHHHHhcccchhHHHHHhcccch-hhhHHHhhhhhhhhcccccHHHHhhhhcCc
Confidence 6676666664444344433322221 221111 12355566666666653
No 46
>PF13013 F-box-like_2: F-box-like domain
Probab=80.15 E-value=2.2 Score=35.32 Aligned_cols=32 Identities=31% Similarity=0.277 Sum_probs=28.2
Q ss_pred CCCCCCHHHHHHHHccCChHHHHHHhhcCHHh
Q 020465 25 EEPRPPHEALFLALAYLPLFELLAMSVVCLSL 56 (326)
Q Consensus 25 ~~~~LP~E~Ll~IfsyL~~~dLl~~s~VCr~W 56 (326)
...+||.|++..||.|-+..+++.+.+.|+..
T Consensus 21 tl~DLP~ELl~~I~~~C~~~~l~~l~~~~~~~ 52 (109)
T PF13013_consen 21 TLLDLPWELLQLIFDYCNDPILLALSRTCRAY 52 (109)
T ss_pred chhhChHHHHHHHHhhcCcHHHHHHHHHHHHH
Confidence 46779999999999999999999998888833
No 47
>PF14580 LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQD_A.
Probab=77.58 E-value=2.1 Score=38.14 Aligned_cols=59 Identities=29% Similarity=0.437 Sum_probs=15.8
Q ss_pred CccEEecCCCCCCCHHHHHHHHHhCCCccEEEeCCCCCCCHHHHHHHHHHHHhcCCCCCeeeccCc
Q 020465 95 RLTTLALINCVRITNAGLQRVIEKNPFIKKLYIPGCTGLSPQGVIEAVEKLSENDHTLEILHISGV 160 (326)
Q Consensus 95 ~L~~L~Ls~C~~ITD~gL~~v~~~cp~L~~L~Ls~C~~ITd~gi~~~L~~L~~~C~~Lk~L~LsgC 160 (326)
+|+.|+|++- .|++-+ ..+...+|+|++|+|++ .+|.+-+- +..+ ..+++|++|+|.|-
T Consensus 65 ~L~~L~L~~N-~I~~i~-~~l~~~lp~L~~L~L~~-N~I~~l~~---l~~L-~~l~~L~~L~L~~N 123 (175)
T PF14580_consen 65 RLKTLDLSNN-RISSIS-EGLDKNLPNLQELYLSN-NKISDLNE---LEPL-SSLPKLRVLSLEGN 123 (175)
T ss_dssp T--EEE--SS----S-C-HHHHHH-TT--EEE-TT-S---SCCC---CGGG-GG-TT--EEE-TT-
T ss_pred hhhhcccCCC-CCCccc-cchHHhCCcCCEEECcC-CcCCChHH---hHHH-HcCCCcceeeccCC
Confidence 4555555543 343321 11223455566666554 23433221 2222 24555666665554
No 48
>KOG2739 consensus Leucine-rich acidic nuclear protein [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=72.53 E-value=1.1 Score=42.60 Aligned_cols=59 Identities=31% Similarity=0.351 Sum_probs=38.6
Q ss_pred CCccEEecCCCCCCCHHHHHHHHHhCCCccEEEeCCCCCCCHHHHHHHHHHHHhcCCCCCeeeccCc
Q 020465 94 GRLTTLALINCVRITNAGLQRVIEKNPFIKKLYIPGCTGLSPQGVIEAVEKLSENDHTLEILHISGV 160 (326)
Q Consensus 94 ~~L~~L~Ls~C~~ITD~gL~~v~~~cp~L~~L~Ls~C~~ITd~gi~~~L~~L~~~C~~Lk~L~LsgC 160 (326)
..|+.|++.++.-.|-.++ -..|+|++|.++.=..--..| |..+++.+|+|++|++++=
T Consensus 43 ~~le~ls~~n~gltt~~~~----P~Lp~LkkL~lsdn~~~~~~~----l~vl~e~~P~l~~l~ls~N 101 (260)
T KOG2739|consen 43 VELELLSVINVGLTTLTNF----PKLPKLKKLELSDNYRRVSGG----LEVLAEKAPNLKVLNLSGN 101 (260)
T ss_pred cchhhhhhhccceeecccC----CCcchhhhhcccCCccccccc----ceehhhhCCceeEEeecCC
Confidence 3566666555533322222 135789999997642223346 7888999999999999975
No 49
>KOG1859 consensus Leucine-rich repeat proteins [General function prediction only]
Probab=71.58 E-value=1.1 Score=48.34 Aligned_cols=33 Identities=15% Similarity=0.110 Sum_probs=18.8
Q ss_pred CCCccEEEeCCCCCCCHHHHHHHHHHHHhcCCCCCeeeccC
Q 020465 119 NPFIKKLYIPGCTGLSPQGVIEAVEKLSENDHTLEILHISG 159 (326)
Q Consensus 119 cp~L~~L~Ls~C~~ITd~gi~~~L~~L~~~C~~Lk~L~Lsg 159 (326)
.|.|+.|||+. .++++-. ..+.|++||||+|+.
T Consensus 186 l~ale~LnLsh-Nk~~~v~-------~Lr~l~~LkhLDlsy 218 (1096)
T KOG1859|consen 186 LPALESLNLSH-NKFTKVD-------NLRRLPKLKHLDLSY 218 (1096)
T ss_pred HHHhhhhccch-hhhhhhH-------HHHhccccccccccc
Confidence 35666777765 3344322 124567777777773
No 50
>KOG2982 consensus Uncharacterized conserved protein [Function unknown]
Probab=68.91 E-value=4.2 Score=39.91 Aligned_cols=82 Identities=20% Similarity=0.350 Sum_probs=54.0
Q ss_pred HHHHHhhcCCCccEEecCCCCCCCH-HHHHHHHHhCCCccEEEeCCCCCCCHHHHHHHHHHHHhcCCCCCeeeccCcccc
Q 020465 85 LMKITSKANGRLTTLALINCVRITN-AGLQRVIEKNPFIKKLYIPGCTGLSPQGVIEAVEKLSENDHTLEILHISGVYNI 163 (326)
Q Consensus 85 L~~l~~~~~~~L~~L~Ls~C~~ITD-~gL~~v~~~cp~L~~L~Ls~C~~ITd~gi~~~L~~L~~~C~~Lk~L~LsgC~~l 163 (326)
+..++..+ ..++.|+|.+- .|+| +-+..+.++.|.|+.|||+ |..++.. +..+-.--.+|+.|-|+|- ++
T Consensus 63 ~~~~~~~~-~~v~elDL~~N-~iSdWseI~~ile~lP~l~~LNls-~N~L~s~-----I~~lp~p~~nl~~lVLNgT-~L 133 (418)
T KOG2982|consen 63 VMLFGSSV-TDVKELDLTGN-LISDWSEIGAILEQLPALTTLNLS-CNSLSSD-----IKSLPLPLKNLRVLVLNGT-GL 133 (418)
T ss_pred HHHHHHHh-hhhhhhhcccc-hhccHHHHHHHHhcCccceEeecc-CCcCCCc-----cccCcccccceEEEEEcCC-CC
Confidence 45555554 58999999885 7777 6677899999999999995 5555432 2233223468899988876 34
Q ss_pred chHHHHHHHHhc
Q 020465 164 TKEHLRTLHSHL 175 (326)
Q Consensus 164 Td~~l~~La~~l 175 (326)
+=...+...+.+
T Consensus 134 ~w~~~~s~l~~l 145 (418)
T KOG2982|consen 134 SWTQSTSSLDDL 145 (418)
T ss_pred Chhhhhhhhhcc
Confidence 433444443333
No 51
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=64.61 E-value=4 Score=36.71 Aligned_cols=38 Identities=26% Similarity=0.678 Sum_probs=31.2
Q ss_pred ccccCccCCCCchhh---hhhhhhhchHhhhc----CCCCCCCCc
Q 020465 251 CAECGGCIQPEEMED---AVCNDMLCSDCWLQ----LPKCNLCNK 288 (326)
Q Consensus 251 c~~cg~c~~~~~~~e---~~~~~~~c~~c~~~----~~~~~~~~~ 288 (326)
++.||-|.++-+.++ |-|+-++|..|-+- .-||+.|+|
T Consensus 131 ~~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~alk~~~~CP~C~k 175 (187)
T KOG0320|consen 131 TYKCPICLDSVSEKVPVSTKCGHVFCSQCIKDALKNTNKCPTCRK 175 (187)
T ss_pred ccCCCceecchhhccccccccchhHHHHHHHHHHHhCCCCCCccc
Confidence 378899999866665 78999999999865 468999987
No 52
>KOG3926 consensus F-box proteins [Amino acid transport and metabolism]
Probab=60.64 E-value=3.8 Score=39.27 Aligned_cols=45 Identities=16% Similarity=0.169 Sum_probs=38.9
Q ss_pred CCCCCHHHHHHHHccC-ChHHHHHHhhcCHHhhhhhccCCCCceeee
Q 020465 26 EPRPPHEALFLALAYL-PLFELLAMSVVCLSLRDAVNKDILPWLNII 71 (326)
Q Consensus 26 ~~~LP~E~Ll~IfsyL-~~~dLl~~s~VCr~Wr~lv~~dp~LW~~ld 71 (326)
.-+||.|+++.|+..| +.+||..+++|=.....+ ..+..+|+.+-
T Consensus 202 l~dLP~e~vl~Il~rlsDh~dL~s~aqa~etl~~l-~~e~~iWkkLc 247 (332)
T KOG3926|consen 202 LHDLPLECVLNILLRLSDHRDLESLAQAWETLAKL-SEERRIWKKLC 247 (332)
T ss_pred cccchHHHHHHHHHHccCcchHHHHHHhhHHHHHH-HHHHHHHHHHH
Confidence 4589999999999988 589999999999999998 55888998763
No 53
>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=60.01 E-value=6.2 Score=24.08 Aligned_cols=26 Identities=31% Similarity=0.386 Sum_probs=15.6
Q ss_pred CccEEecCCCCCCCHHHHHHHHHhCC
Q 020465 95 RLTTLALINCVRITNAGLQRVIEKNP 120 (326)
Q Consensus 95 ~L~~L~Ls~C~~ITD~gL~~v~~~cp 120 (326)
+|++|.|.....-.+++++.++.+||
T Consensus 1 sLKtL~L~~v~f~~~~~l~~LlS~CP 26 (26)
T PF07723_consen 1 SLKTLHLDSVVFSDEDSLERLLSGCP 26 (26)
T ss_pred CCeEEEeeEEEECChhHHHHhhccCc
Confidence 36666666654444446666666665
No 54
>KOG0618 consensus Serine/threonine phosphatase 2C containing leucine-rich repeats, similar to SCN circadian oscillatory protein (SCOP) [Signal transduction mechanisms]
Probab=59.95 E-value=4.6 Score=44.70 Aligned_cols=57 Identities=23% Similarity=0.271 Sum_probs=39.5
Q ss_pred CCccEEecCCCCCCCHHHHHHHHHhCCCccEEEeCCC--CCCCHHHHHHHHHHHHhcCCCCCeeeccCc
Q 020465 94 GRLTTLALINCVRITNAGLQRVIEKNPFIKKLYIPGC--TGLSPQGVIEAVEKLSENDHTLEILHISGV 160 (326)
Q Consensus 94 ~~L~~L~Ls~C~~ITD~gL~~v~~~cp~L~~L~Ls~C--~~ITd~gi~~~L~~L~~~C~~Lk~L~LsgC 160 (326)
..|+.|.|.+- .+||..+- +..+.++|+.|+|++= ..+++.. +. +...|++|+|||=
T Consensus 359 ~~Lq~LylanN-~Ltd~c~p-~l~~~~hLKVLhLsyNrL~~fpas~----~~----kle~LeeL~LSGN 417 (1081)
T KOG0618|consen 359 AALQELYLANN-HLTDSCFP-VLVNFKHLKVLHLSYNRLNSFPASK----LR----KLEELEELNLSGN 417 (1081)
T ss_pred HHHHHHHHhcC-cccccchh-hhccccceeeeeecccccccCCHHH----Hh----chHHhHHHhcccc
Confidence 35666666663 68887764 5567899999999984 2344544 33 3357999999985
No 55
>KOG4194 consensus Membrane glycoprotein LIG-1 [Signal transduction mechanisms]
Probab=58.00 E-value=14 Score=39.36 Aligned_cols=106 Identities=16% Similarity=0.105 Sum_probs=52.6
Q ss_pred HHHHHhhcCHHhhhhhccCCCC------ceeeeecCCCCCCCCHHHHHHHHh-------------------hcCCCccEE
Q 020465 45 ELLAMSVVCLSLRDAVNKDILP------WLNIIVDRPLNRRLSDEILMKITS-------------------KANGRLTTL 99 (326)
Q Consensus 45 dLl~~s~VCr~Wr~lv~~dp~L------W~~ldL~~~l~~~itD~~L~~l~~-------------------~~~~~L~~L 99 (326)
++..+..|.-.-+.+ ..-|.+ -.+++|...+=..++.+.|.++.. ....+|++|
T Consensus 100 nl~nLq~v~l~~N~L-t~IP~f~~~sghl~~L~L~~N~I~sv~se~L~~l~alrslDLSrN~is~i~~~sfp~~~ni~~L 178 (873)
T KOG4194|consen 100 NLPNLQEVNLNKNEL-TRIPRFGHESGHLEKLDLRHNLISSVTSEELSALPALRSLDLSRNLISEIPKPSFPAKVNIKKL 178 (873)
T ss_pred cCCcceeeeeccchh-hhcccccccccceeEEeeeccccccccHHHHHhHhhhhhhhhhhchhhcccCCCCCCCCCceEE
Confidence 444455565554555 333332 334455433334567777766642 011356666
Q ss_pred ecCCCCCCCHHHHHHHHHhCCCccEEEeCCCCCCCHHHHHHHHHHHHhcCCCCCeeeccC
Q 020465 100 ALINCVRITNAGLQRVIEKNPFIKKLYIPGCTGLSPQGVIEAVEKLSENDHTLEILHISG 159 (326)
Q Consensus 100 ~Ls~C~~ITD~gL~~v~~~cp~L~~L~Ls~C~~ITd~gi~~~L~~L~~~C~~Lk~L~Lsg 159 (326)
+|++- .||+-+.-....-+ +|..|.|+. .++|.-- .+. -++.++|+.|+|..
T Consensus 179 ~La~N-~It~l~~~~F~~ln-sL~tlkLsr-NrittLp----~r~-Fk~L~~L~~LdLnr 230 (873)
T KOG4194|consen 179 NLASN-RITTLETGHFDSLN-SLLTLKLSR-NRITTLP----QRS-FKRLPKLESLDLNR 230 (873)
T ss_pred eeccc-cccccccccccccc-hheeeeccc-CcccccC----HHH-hhhcchhhhhhccc
Confidence 66653 56654444333323 555566655 2344332 111 23467788887763
No 56
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=57.71 E-value=3.8 Score=28.41 Aligned_cols=38 Identities=29% Similarity=0.845 Sum_probs=26.2
Q ss_pred ccCccCCC-Cchhhhhhhhh-hchHhhhcC----CCCCCCCcch
Q 020465 253 ECGGCIQP-EEMEDAVCNDM-LCSDCWLQL----PKCNLCNKPY 290 (326)
Q Consensus 253 ~cg~c~~~-~~~~e~~~~~~-~c~~c~~~~----~~~~~~~~~~ 290 (326)
.|.-|.+. .+.-=.-|.-. +|.+|+..+ .+|+.|.+|.
T Consensus 4 ~C~iC~~~~~~~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i 47 (50)
T PF13920_consen 4 ECPICFENPRDVVLLPCGHLCFCEECAERLLKRKKKCPICRQPI 47 (50)
T ss_dssp B-TTTSSSBSSEEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-
T ss_pred CCccCCccCCceEEeCCCChHHHHHHhHHhcccCCCCCcCChhh
Confidence 45556554 22222468878 999999988 9999999874
No 57
>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=57.20 E-value=11 Score=29.92 Aligned_cols=27 Identities=26% Similarity=0.215 Sum_probs=23.7
Q ss_pred CCCCCCCCHHHHHHHHccCChHHHHHH
Q 020465 23 NEEEPRPPHEALFLALAYLPLFELLAM 49 (326)
Q Consensus 23 ~~~~~~LP~E~Ll~IfsyL~~~dLl~~ 49 (326)
...+..||.|+-..||+||+-.||..+
T Consensus 69 ~~~w~~LP~EIk~~Il~~L~~~dL~~l 95 (97)
T PF09372_consen 69 NNYWNILPIEIKYKILEYLSNKDLKKL 95 (97)
T ss_pred CCchhhCCHHHHHHHHHcCCHHHHHHH
Confidence 467889999999999999999998653
No 58
>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=56.36 E-value=8.6 Score=20.97 Aligned_cols=10 Identities=10% Similarity=0.185 Sum_probs=4.6
Q ss_pred CccEEEeCCC
Q 020465 121 FIKKLYIPGC 130 (326)
Q Consensus 121 ~L~~L~Ls~C 130 (326)
+|+.|+|++|
T Consensus 2 ~L~~L~l~~n 11 (17)
T PF13504_consen 2 NLRTLDLSNN 11 (17)
T ss_dssp T-SEEEETSS
T ss_pred ccCEEECCCC
Confidence 4555555554
No 59
>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=48.55 E-value=8.5 Score=22.16 Aligned_cols=9 Identities=56% Similarity=0.766 Sum_probs=4.1
Q ss_pred CCeeeccCc
Q 020465 152 LEILHISGV 160 (326)
Q Consensus 152 Lk~L~LsgC 160 (326)
|++|+|+++
T Consensus 2 L~~Ldls~n 10 (22)
T PF00560_consen 2 LEYLDLSGN 10 (22)
T ss_dssp ESEEEETSS
T ss_pred ccEEECCCC
Confidence 444444444
No 60
>PF00037 Fer4: 4Fe-4S binding domain; InterPro: IPR001450 This superfamily includes proteins containing domains which bind to iron-sulphur clusters. Members include bacterial ferredoxins, various dehydrogenases, and various reductases. Structure of the domain is an alpha-antiparallel beta sandwich. Ferredoxins are iron-sulphur proteins that mediate electron transfer in a range of metabolic reactions; they fall into several subgroups according to the nature of their iron-sulphur cluster(s) [, ]. One group, originally found in bacteria, has been termed "bacterial-type", in which the active centre is a 4Fe-4S cluster. 4Fe-4S ferredoxins may in turn be subdivided into further groups, based on their sequence properties. Most contain at least one conserved domain, including four Cys residues that bind to a 4Fe-4S centre. ; GO: 0009055 electron carrier activity, 0051536 iron-sulfur cluster binding; PDB: 1DUR_A 1H98_A 1BD6_A 1BQX_A 1BWE_A 1BC6_A 3BK7_A 1FCA_A 1FDN_A 2FDN_A ....
Probab=47.39 E-value=7.4 Score=23.13 Aligned_cols=15 Identities=33% Similarity=1.028 Sum_probs=10.0
Q ss_pred CcCCCCccccccccc
Q 020465 238 ARCCRGCYHCIPRCA 252 (326)
Q Consensus 238 ~~~Cr~c~~ci~rc~ 252 (326)
...|.||+.|+..|.
T Consensus 5 ~~~C~~Cg~C~~~CP 19 (24)
T PF00037_consen 5 PDKCIGCGRCVEACP 19 (24)
T ss_dssp TTTSSS-THHHHHST
T ss_pred hHHCCCcchhhhhcc
Confidence 346888888887775
No 61
>PF12760 Zn_Tnp_IS1595: Transposase zinc-ribbon domain; InterPro: IPR024442 This zinc binding domain is found in a range of transposase proteins such as ISSPO8, ISSOD11, ISRSSP2 etc. It may be a zinc-binding beta ribbon domain that could bind DNA.
Probab=46.28 E-value=22 Score=24.36 Aligned_cols=45 Identities=18% Similarity=0.438 Sum_probs=33.5
Q ss_pred hhhhhhhhhchHhhhcCCCCCCCCcchhccccCCcccCCCCCceeecccccc
Q 020465 264 EDAVCNDMLCSDCWLQLPKCNLCNKPYCRQHANLGSNSSCSSGFICDICQYQ 315 (326)
Q Consensus 264 ~e~~~~~~~c~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 315 (326)
.|..|.++|=.--|..-+.|+.|+..-. . +.+. ...|.|..|.+|
T Consensus 2 ~e~~c~~~l~~~RW~~g~~CP~Cg~~~~---~--~~~~--~~~~~C~~C~~q 46 (46)
T PF12760_consen 2 DEEACREYLEEIRWPDGFVCPHCGSTKH---Y--RLKT--RGRYRCKACRKQ 46 (46)
T ss_pred CHHHHHHHHHHhcCCCCCCCCCCCCeee---E--EeCC--CCeEECCCCCCc
Confidence 3678999999999999999999986511 1 1111 378999999764
No 62
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=45.00 E-value=9.9 Score=26.93 Aligned_cols=33 Identities=24% Similarity=0.507 Sum_probs=23.9
Q ss_pred CCCCCCCCcchhc-----cccCCcccCCCCCceeeccccc
Q 020465 280 LPKCNLCNKPYCR-----QHANLGSNSSCSSGFICDICQY 314 (326)
Q Consensus 280 ~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~ 314 (326)
...|++|+| +-. .|-...+.... ..++|++|..
T Consensus 2 ~f~CP~C~~-~~~~~~L~~H~~~~H~~~~-~~v~CPiC~~ 39 (54)
T PF05605_consen 2 SFTCPYCGK-GFSESSLVEHCEDEHRSES-KNVVCPICSS 39 (54)
T ss_pred CcCCCCCCC-ccCHHHHHHHHHhHCcCCC-CCccCCCchh
Confidence 357999999 765 45555566555 6899999975
No 63
>KOG3735 consensus Tropomodulin and leiomodulin [Cytoskeleton]
Probab=44.97 E-value=70 Score=31.71 Aligned_cols=99 Identities=24% Similarity=0.252 Sum_probs=68.0
Q ss_pred CCCHHHHHHHHhhcCCCccEEecCCCCCCCHHHHHHHHH---hCCCccEEEeCCCCCCCHHHHHHHHHHHHhcCCCCCee
Q 020465 79 RLSDEILMKITSKANGRLTTLALINCVRITNAGLQRVIE---KNPFIKKLYIPGCTGLSPQGVIEAVEKLSENDHTLEIL 155 (326)
Q Consensus 79 ~itD~~L~~l~~~~~~~L~~L~Ls~C~~ITD~gL~~v~~---~cp~L~~L~Ls~C~~ITd~gi~~~L~~L~~~C~~Lk~L 155 (326)
...+..+..+-.. -+.++..+|.+-.+|+..-+...++ .+.+.+...|.+- +.++. +...+..+.+.++.|++|
T Consensus 184 t~~e~~leri~~n-d~~l~evnlnn~~~ip~e~lk~~~eal~~nt~vk~Fsla~t-r~~d~-vA~a~a~ml~~n~sl~sl 260 (353)
T KOG3735|consen 184 TDVESSLERIKEN-DTGLTEVNLNNIRRIPIETLKQFSEALKNNTHVKKFSLANT-RSSDP-VAFAIAEMLKENKSLTSL 260 (353)
T ss_pred chHHHHHHHHhcC-CCCceeeeccccccCCHHHHHHHHHHHhcCchhhhhhhhcc-cCCch-hHHHHHHHHhhcchhhhe
Confidence 3456677777554 5789999999988888877765544 4566777777764 33322 222244455678888888
Q ss_pred eccCccccchHHHHHHHHhcccCcch
Q 020465 156 HISGVYNITKEHLRTLHSHLKLNSSR 181 (326)
Q Consensus 156 ~LsgC~~lTd~~l~~La~~l~~~~~l 181 (326)
|+.+- .||..++-+|...+....++
T Consensus 261 nvesn-FItg~gi~a~~~al~~n~tl 285 (353)
T KOG3735|consen 261 NVESN-FITGLGIMALLRALQSNKSL 285 (353)
T ss_pred ecccc-ccccHHHHHHHHHHhccchh
Confidence 88876 58888888888777777766
No 64
>PLN03150 hypothetical protein; Provisional
Probab=44.47 E-value=26 Score=37.15 Aligned_cols=59 Identities=17% Similarity=0.189 Sum_probs=34.5
Q ss_pred CCccEEecCCCCCCCHHHHHHHHHhCCCccEEEeCCCCCCCHHHHHHHHHHHHhcCCCCCeeeccCc
Q 020465 94 GRLTTLALINCVRITNAGLQRVIEKNPFIKKLYIPGCTGLSPQGVIEAVEKLSENDHTLEILHISGV 160 (326)
Q Consensus 94 ~~L~~L~Ls~C~~ITD~gL~~v~~~cp~L~~L~Ls~C~~ITd~gi~~~L~~L~~~C~~Lk~L~LsgC 160 (326)
.+|+.|+|+++ .++. .+-.....+++|+.|+|++. +++..- -..+ .+.++|++|+|++.
T Consensus 442 ~~L~~L~Ls~N-~l~g-~iP~~~~~l~~L~~LdLs~N-~lsg~i----P~~l-~~L~~L~~L~Ls~N 500 (623)
T PLN03150 442 RHLQSINLSGN-SIRG-NIPPSLGSITSLEVLDLSYN-SFNGSI----PESL-GQLTSLRILNLNGN 500 (623)
T ss_pred CCCCEEECCCC-cccC-cCChHHhCCCCCCEEECCCC-CCCCCC----chHH-hcCCCCCEEECcCC
Confidence 57888888876 3332 11122456778888888876 343211 1112 35678888888876
No 65
>KOG0618 consensus Serine/threonine phosphatase 2C containing leucine-rich repeats, similar to SCN circadian oscillatory protein (SCOP) [Signal transduction mechanisms]
Probab=44.11 E-value=26 Score=39.06 Aligned_cols=25 Identities=20% Similarity=0.193 Sum_probs=14.8
Q ss_pred CCCCHHHHHHHHhhcCCCccEEecCCC
Q 020465 78 RRLSDEILMKITSKANGRLTTLALINC 104 (326)
Q Consensus 78 ~~itD~~L~~l~~~~~~~L~~L~Ls~C 104 (326)
..+||+.+-.+... .+|+.|+|++-
T Consensus 369 N~Ltd~c~p~l~~~--~hLKVLhLsyN 393 (1081)
T KOG0618|consen 369 NHLTDSCFPVLVNF--KHLKVLHLSYN 393 (1081)
T ss_pred Ccccccchhhhccc--cceeeeeeccc
Confidence 34555555444332 57888888775
No 66
>COG5238 RNA1 Ran GTPase-activating protein (RanGAP) involved in mRNA processing and transport [Signal transduction mechanisms / RNA processing and modification]
Probab=44.05 E-value=1e+02 Score=30.17 Aligned_cols=58 Identities=12% Similarity=0.118 Sum_probs=32.2
Q ss_pred HHHHhCCCccEEEeCCCCCCCHHHHHHHHHHHHhcCCCCCeeeccCccccchHHHHHHHHh
Q 020465 114 RVIEKNPFIKKLYIPGCTGLSPQGVIEAVEKLSENDHTLEILHISGVYNITKEHLRTLHSH 174 (326)
Q Consensus 114 ~v~~~cp~L~~L~Ls~C~~ITd~gi~~~L~~L~~~C~~Lk~L~LsgC~~lTd~~l~~La~~ 174 (326)
.++.+||+|++.+||.=. ++.+..-. |..+..+-..|+||.++++ ++...+-..|+.+
T Consensus 86 ~aLlkcp~l~~v~LSDNA-fg~~~~e~-L~d~is~~t~l~HL~l~Nn-GlGp~aG~rigka 143 (388)
T COG5238 86 KALLKCPRLQKVDLSDNA-FGSEFPEE-LGDLISSSTDLVHLKLNNN-GLGPIAGGRIGKA 143 (388)
T ss_pred HHHhcCCcceeeeccccc-cCcccchH-HHHHHhcCCCceeEEeecC-CCCccchhHHHHH
Confidence 344567777777777532 33222111 3333345567777777777 5666555555544
No 67
>PF12800 Fer4_4: 4Fe-4S binding domain; InterPro: IPR001450 This superfamily includes proteins containing domains which bind to iron-sulphur clusters. Members include bacterial ferredoxins, various dehydrogenases, and various reductases. Structure of the domain is an alpha-antiparallel beta sandwich. Ferredoxins are iron-sulphur proteins that mediate electron transfer in a range of metabolic reactions; they fall into several subgroups according to the nature of their iron-sulphur cluster(s) [, ]. One group, originally found in bacteria, has been termed "bacterial-type", in which the active centre is a 4Fe-4S cluster. 4Fe-4S ferredoxins may in turn be subdivided into further groups, based on their sequence properties. Most contain at least one conserved domain, including four Cys residues that bind to a 4Fe-4S centre. ; GO: 0009055 electron carrier activity, 0051536 iron-sulfur cluster binding; PDB: 1BD6_A 1BQX_A 1BWE_A 1BC6_A.
Probab=43.60 E-value=16 Score=20.01 Aligned_cols=11 Identities=45% Similarity=1.416 Sum_probs=5.9
Q ss_pred cccccCccCCC
Q 020465 250 RCAECGGCIQP 260 (326)
Q Consensus 250 rc~~cg~c~~~ 260 (326)
+|..||.|++.
T Consensus 3 ~C~~C~~C~~~ 13 (17)
T PF12800_consen 3 RCIGCGSCVDV 13 (17)
T ss_dssp CCTTSSSSTTT
T ss_pred cCCCCchHHhh
Confidence 45555655554
No 68
>TIGR00686 phnA alkylphosphonate utilization operon protein PhnA. The protein family includes an uncharacterized member designated phnA in Escherichia coli, part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage. This protein is not related to the characterized phosphonoacetate hydrolase designated PhnA by Kulakova, et al. (2001, 1997).
Probab=42.48 E-value=15 Score=30.41 Aligned_cols=26 Identities=35% Similarity=0.809 Sum_probs=20.2
Q ss_pred cCCCCCCCCcchhccccCCcccCCCCCceeecccc
Q 020465 279 QLPKCNLCNKPYCRQHANLGSNSSCSSGFICDICQ 313 (326)
Q Consensus 279 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 313 (326)
++|.|+.|+--|- .+|..-|+|+.|.
T Consensus 1 ~lp~CP~C~seyt---------Y~dg~~~iCpeC~ 26 (109)
T TIGR00686 1 DLPPCPKCNSEYT---------YHDGTQLICPSCL 26 (109)
T ss_pred CCCcCCcCCCcce---------EecCCeeECcccc
Confidence 4799999987775 3455789999993
No 69
>TIGR02494 PFLE_PFLC glycyl-radical enzyme activating protein family. This subset of the radical-SAM family (pfam04055) includes a number of probable activating proteins acting on different enzymes all requiring an amino-acid-centered radical. The closest relatives to this family are the pyruvate-formate lyase activating enzyme (PflA, 1.97.1.4, TIGR02493) and the anaerobic ribonucleotide reductase activating enzyme (TIGR02491). Included within this subfamily are activators of hydroxyphenyl acetate decarboxylase (HdpA, ), benzylsuccinate synthase (BssD, ), gycerol dehydratase (DhaB2, ) as well as enzymes annotated in E. coli as activators of different isozymes of pyruvate-formate lyase (PFLC and PFLE) however, these appear to lack characterization and may activate enzymes with distinctive functions. Most of the sequence-level variability between these forms is concentrated within an N-terminal domain which follows a conserved group of three cysteines and contains a variable pattern of 0
Probab=42.07 E-value=13 Score=35.13 Aligned_cols=14 Identities=29% Similarity=0.885 Sum_probs=7.5
Q ss_pred cCCCCccccccccc
Q 020465 239 RCCRGCYHCIPRCA 252 (326)
Q Consensus 239 ~~Cr~c~~ci~rc~ 252 (326)
..|.+|+.|+..|.
T Consensus 82 ~~C~~Cg~C~~~CP 95 (295)
T TIGR02494 82 EKCTHCGKCTEACP 95 (295)
T ss_pred hhcCchhHhhccCc
Confidence 44555555555554
No 70
>PRK10220 hypothetical protein; Provisional
Probab=39.89 E-value=19 Score=29.79 Aligned_cols=30 Identities=33% Similarity=0.724 Sum_probs=22.1
Q ss_pred cCCCCCCCCcchhccccCCcccCCCCCceeeccc-ccccc
Q 020465 279 QLPKCNLCNKPYCRQHANLGSNSSCSSGFICDIC-QYQNQ 317 (326)
Q Consensus 279 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~ 317 (326)
++|.|+.|+--|- .+|..-|+|+.| +|-++
T Consensus 2 ~lP~CP~C~seyt---------Y~d~~~~vCpeC~hEW~~ 32 (111)
T PRK10220 2 SLPHCPKCNSEYT---------YEDNGMYICPECAHEWND 32 (111)
T ss_pred CCCcCCCCCCcce---------EcCCCeEECCcccCcCCc
Confidence 5899999987664 455578999999 44433
No 71
>PHA00626 hypothetical protein
Probab=39.43 E-value=11 Score=27.53 Aligned_cols=15 Identities=33% Similarity=0.890 Sum_probs=11.5
Q ss_pred CCceeeccccccccc
Q 020465 304 SSGFICDICQYQNQK 318 (326)
Q Consensus 304 ~~~~~~~~~~~~~~~ 318 (326)
|..|.|+.|.|...|
T Consensus 21 snrYkCkdCGY~ft~ 35 (59)
T PHA00626 21 SDDYVCCDCGYNDSK 35 (59)
T ss_pred CcceEcCCCCCeech
Confidence 478999999886544
No 72
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=38.92 E-value=15 Score=24.68 Aligned_cols=17 Identities=29% Similarity=0.727 Sum_probs=14.2
Q ss_pred CCCCCCCcchhccccCC
Q 020465 281 PKCNLCNKPYCRQHANL 297 (326)
Q Consensus 281 ~~~~~~~~~~~~~~~~~ 297 (326)
.+|..|++-||..|-..
T Consensus 13 f~C~~C~~~FC~~HR~~ 29 (39)
T smart00154 13 FKCRHCGNLFCGEHRLP 29 (39)
T ss_pred eECCccCCccccccCCc
Confidence 46999999999998654
No 73
>COG2824 PhnA Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]
Probab=37.73 E-value=18 Score=29.86 Aligned_cols=26 Identities=35% Similarity=0.797 Sum_probs=20.3
Q ss_pred cCCCCCCCCcchhccccCCcccCCCCCceeecccc
Q 020465 279 QLPKCNLCNKPYCRQHANLGSNSSCSSGFICDICQ 313 (326)
Q Consensus 279 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 313 (326)
++|.|+.||--|- ..|.+.|+|+.|.
T Consensus 2 ~lp~cp~c~sEyt---------Yed~~~~~cpec~ 27 (112)
T COG2824 2 SLPPCPKCNSEYT---------YEDGGQLICPECA 27 (112)
T ss_pred CCCCCCccCCceE---------EecCceEeCchhc
Confidence 6899999988774 3345789999993
No 74
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=36.44 E-value=20 Score=22.81 Aligned_cols=23 Identities=30% Similarity=0.895 Sum_probs=17.0
Q ss_pred hhhhhhchHhhh-----cCCCCCCCCcc
Q 020465 267 VCNDMLCSDCWL-----QLPKCNLCNKP 289 (326)
Q Consensus 267 ~~~~~~c~~c~~-----~~~~~~~~~~~ 289 (326)
.|.-.+|.+|+. ...+|+.|+++
T Consensus 17 ~C~H~~c~~C~~~~~~~~~~~Cp~C~~~ 44 (45)
T cd00162 17 PCGHVFCRSCIDKWLKSGKNTCPLCRTP 44 (45)
T ss_pred CCCChhcHHHHHHHHHhCcCCCCCCCCc
Confidence 388889999986 25667777654
No 75
>PF01428 zf-AN1: AN1-like Zinc finger; InterPro: IPR000058 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the AN1-type zinc finger domain, which has a dimetal (zinc)-bound alpha/beta fold. This domain was first identified as a zinc finger at the C terminus of AN1 Q91889 from SWISSPROT, a ubiquitin-like protein in Xenopus laevis []. The AN1-type zinc finger contains six conserved cysteines and two histidines that could potentially coordinate 2 zinc atoms. Certain stress-associated proteins (SAP) contain AN1 domain, often in combination with A20 zinc finger domains (SAP8) or C2H2 domains (SAP16) []. For example, the human protein Znf216 has an A20 zinc-finger at the N terminus and an AN1 zinc-finger at the C terminus, acting to negatively regulate the NFkappaB activation pathway and to interact with components of the immune response like RIP, IKKgamma and TRAF6. The interact of Znf216 with IKK-gamma and RIP is mediated by the A20 zinc-finger domain, while its interaction with TRAF6 is mediated by the AN1 zinc-finger domain; therefore, both zinc-finger domains are involved in regulating the immune response []. The AN1 zinc finger domain is also found in proteins containing a ubiquitin-like domain, which are involved in the ubiquitination pathway []. Proteins containing an AN1-type zinc finger include: Ascidian posterior end mark 6 (pem-6) protein []. Human AWP1 protein (associated with PRK1), which is expressed during early embryogenesis []. Human immunoglobulin mu binding protein 2 (SMUBP-2), mutations in which cause muscular atrophy with respiratory distress type 1 []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 1WFP_A 1WYS_A 1WG2_A 1WFH_A 1X4W_A 1WFE_A 1WFL_A 1X4V_A.
Probab=36.15 E-value=13 Score=25.17 Aligned_cols=18 Identities=33% Similarity=0.750 Sum_probs=12.3
Q ss_pred CCCCCCCcchhccccCCc
Q 020465 281 PKCNLCNKPYCRQHANLG 298 (326)
Q Consensus 281 ~~~~~~~~~~~~~~~~~~ 298 (326)
.+|..|++.||..|-...
T Consensus 14 ~~C~~C~~~FC~~Hr~~e 31 (43)
T PF01428_consen 14 FKCKHCGKSFCLKHRLPE 31 (43)
T ss_dssp EE-TTTS-EE-TTTHSTT
T ss_pred eECCCCCcccCccccCcc
Confidence 489999999999997654
No 76
>PRK15386 type III secretion protein GogB; Provisional
Probab=35.17 E-value=29 Score=35.35 Aligned_cols=56 Identities=20% Similarity=0.297 Sum_probs=33.8
Q ss_pred CCccEEecCCCCCCCHHHHHHHHHhCC-CccEEEeCCCCCCCHHHHHHHHHHHHhcCCCCCeeeccCccccc
Q 020465 94 GRLTTLALINCVRITNAGLQRVIEKNP-FIKKLYIPGCTGLSPQGVIEAVEKLSENDHTLEILHISGVYNIT 164 (326)
Q Consensus 94 ~~L~~L~Ls~C~~ITD~gL~~v~~~cp-~L~~L~Ls~C~~ITd~gi~~~L~~L~~~C~~Lk~L~LsgC~~lT 164 (326)
.++++|++++| .|+.- - ..| +|++|++++|..++.-- ..+ -++|++|+|++|.+++
T Consensus 52 ~~l~~L~Is~c-~L~sL-----P-~LP~sLtsL~Lsnc~nLtsLP-----~~L---P~nLe~L~Ls~Cs~L~ 108 (426)
T PRK15386 52 RASGRLYIKDC-DIESL-----P-VLPNELTEITIENCNNLTTLP-----GSI---PEGLEKLTVCHCPEIS 108 (426)
T ss_pred cCCCEEEeCCC-CCccc-----C-CCCCCCcEEEccCCCCcccCC-----chh---hhhhhheEccCccccc
Confidence 57888888888 44431 1 233 58888888887653321 011 1467777777775543
No 77
>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=31.93 E-value=22 Score=28.93 Aligned_cols=43 Identities=14% Similarity=0.010 Sum_probs=33.1
Q ss_pred CCCCCCHHHHHHHHccCChHHHHHHhhcCHHhhhhhccCCCCceee
Q 020465 25 EEPRPPHEALFLALAYLPLFELLAMSVVCLSLRDAVNKDILPWLNI 70 (326)
Q Consensus 25 ~~~~LP~E~Ll~IfsyL~~~dLl~~s~VCr~Wr~lv~~dp~LW~~l 70 (326)
..+++|.+++.-||...+...|.++..-+...... +..+|+.+
T Consensus 3 dvG~~py~ll~piL~~~~~~QL~~iE~~np~l~~~---tdeLW~~~ 45 (109)
T PF06881_consen 3 DVGDVPYHLLRPILEKCSPEQLRRIEDNNPHLIED---TDELWKKL 45 (109)
T ss_pred ccCCCCHHHHHHHHccCCHHHHHHHHHhCCCcchh---hHHHHHHH
Confidence 56789999999999999999999998877554333 33466654
No 78
>PF09788 Tmemb_55A: Transmembrane protein 55A; InterPro: IPR019178 Members of this family catalyse the hydrolysis of the 4-position phosphate of phosphatidylinositol 4,5-bisphosphate, in the reaction: 1-phosphatidyl-myo-inositol 4,5-bisphosphate + H(2)O = 1-phosphatidyl-1D-myo-inositol 5-phosphate + phosphate.
Probab=31.92 E-value=25 Score=33.33 Aligned_cols=33 Identities=30% Similarity=0.661 Sum_probs=25.0
Q ss_pred CCCCCcchhccccCCccc-----------CCCCCceeecccccc
Q 020465 283 CNLCNKPYCRQHANLGSN-----------SSCSSGFICDICQYQ 315 (326)
Q Consensus 283 ~~~~~~~~~~~~~~~~~~-----------~~~~~~~~~~~~~~~ 315 (326)
.=-|-||+|||+-|+.-. .|.+.-|+|.+|++.
T Consensus 123 rIaCPRp~CkRiI~L~~~~~~p~~~~~~~~p~~~rv~CghC~~~ 166 (256)
T PF09788_consen 123 RIACPRPNCKRIINLGPSHQGPVTPPVPTQPGSCRVICGHCSNT 166 (256)
T ss_pred cccCCCCCCcceEEeCCccCCCCCCCCCCCCCceeEECCCCCCc
Confidence 346889999999998876 234566999999653
No 79
>KOG2123 consensus Uncharacterized conserved protein [Function unknown]
Probab=31.83 E-value=18 Score=35.37 Aligned_cols=67 Identities=16% Similarity=0.283 Sum_probs=42.3
Q ss_pred CCHHHHHHHHhhc-CCCccEEecCCCCCCCHHHHHHHHHhCCCccEEEeCCCCCCCHHHHHHHHHHHHhcCCCCCeeecc
Q 020465 80 LSDEILMKITSKA-NGRLTTLALINCVRITNAGLQRVIEKNPFIKKLYIPGCTGLSPQGVIEAVEKLSENDHTLEILHIS 158 (326)
Q Consensus 80 itD~~L~~l~~~~-~~~L~~L~Ls~C~~ITD~gL~~v~~~cp~L~~L~Ls~C~~ITd~gi~~~L~~L~~~C~~Lk~L~Ls 158 (326)
+|...+..-+... -.+.+.|+.=|| .|+|- .|.++.|.|+.|.||- ..|+. |..+ ..|.+|++|-|.
T Consensus 4 LTe~mV~~raK~sdl~~vkKLNcwg~-~L~DI---sic~kMp~lEVLsLSv-NkIss------L~pl-~rCtrLkElYLR 71 (388)
T KOG2123|consen 4 LTESMVYIRAKCSDLENVKKLNCWGC-GLDDI---SICEKMPLLEVLSLSV-NKISS------LAPL-QRCTRLKELYLR 71 (388)
T ss_pred HHHHHHHHHHHhhHHHHhhhhcccCC-CccHH---HHHHhcccceeEEeec-ccccc------chhH-HHHHHHHHHHHH
Confidence 4444444333321 136778888888 68885 4567888999988874 34443 2222 478888888776
No 80
>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional
Probab=31.60 E-value=23 Score=38.92 Aligned_cols=11 Identities=9% Similarity=-0.030 Sum_probs=6.8
Q ss_pred CceeeecCCCC
Q 020465 206 NDHSIDVEICP 216 (326)
Q Consensus 206 ~Lr~lDL~~Cp 216 (326)
+|+.|||....
T Consensus 343 ~Lq~LdLS~N~ 353 (788)
T PRK15387 343 GLQELSVSDNQ 353 (788)
T ss_pred ccceEecCCCc
Confidence 56666766644
No 81
>COG0143 MetG Methionyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=30.96 E-value=21 Score=37.68 Aligned_cols=28 Identities=29% Similarity=0.648 Sum_probs=23.9
Q ss_pred CCcCCCCccccccc---ccccCccCCCCchh
Q 020465 237 PARCCRGCYHCIPR---CAECGGCIQPEEME 264 (326)
Q Consensus 237 ~~~~Cr~c~~ci~r---c~~cg~c~~~~~~~ 264 (326)
-.+.|..|+...+| |++||+..++.+..
T Consensus 141 v~g~cp~cg~~~arGD~Ce~Cg~~~~P~~l~ 171 (558)
T COG0143 141 VEGTCPKCGGEDARGDQCENCGRTLDPTELI 171 (558)
T ss_pred eeccCCCcCccccCcchhhhccCcCCchhcC
Confidence 45678899999998 99999999998754
No 82
>COG1144 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, delta subunit [Energy production and conversion]
Probab=29.49 E-value=27 Score=28.03 Aligned_cols=47 Identities=21% Similarity=0.528 Sum_probs=34.2
Q ss_pred eeecCCCCCCccchhhccccccccCCCC-C------CcCCCCcccccccccccCccCC
Q 020465 209 SIDVEICPSCSEVRMVFDCSKQLCKGKP-P------ARCCRGCYHCIPRCAECGGCIQ 259 (326)
Q Consensus 209 ~lDL~~Cp~c~~~~Lv~dCp~~~C~~~~-~------~~~Cr~c~~ci~rc~~cg~c~~ 259 (326)
.+|-+.|-+|.+-- ..||-......+ + --+|.||++|..-|.. .+|+
T Consensus 31 v~d~~kCi~C~~C~--~yCPe~~i~~~~~~~~~~idYdyCKGCGICa~vCP~--kaI~ 84 (91)
T COG1144 31 VVDEDKCINCKLCW--LYCPEPAILEEEGGYKVRIDYDYCKGCGICANVCPV--KAIE 84 (91)
T ss_pred EEcccccccCceeE--EECCchheeeccCCccceeEcccccCceechhhCCh--hheE
Confidence 57888888876643 367777666666 2 2369999999999988 6665
No 83
>KOG3763 consensus mRNA export factor TAP/MEX67 [RNA processing and modification]
Probab=29.39 E-value=92 Score=32.89 Aligned_cols=92 Identities=16% Similarity=0.173 Sum_probs=56.4
Q ss_pred HHHHHHhhcCCCccEEecCCCCCCCHHHHHHHHHhCCCccEEEeCCCC-CCCHHHHHHHHHHHHhcCCCCCeeeccC---
Q 020465 84 ILMKITSKANGRLTTLALINCVRITNAGLQRVIEKNPFIKKLYIPGCT-GLSPQGVIEAVEKLSENDHTLEILHISG--- 159 (326)
Q Consensus 84 ~L~~l~~~~~~~L~~L~Ls~C~~ITD~gL~~v~~~cp~L~~L~Ls~C~-~ITd~gi~~~L~~L~~~C~~Lk~L~Lsg--- 159 (326)
+|..+..+. +.+.+|+|++-.-..-+++..+++..|+|+.|+|++=. .+.++-= +.. -.-..|++|-+.|
T Consensus 209 ~L~~~~~n~-p~i~sl~lsnNrL~~Ld~~sslsq~apklk~L~LS~N~~~~~~~~e---l~K--~k~l~Leel~l~GNPl 282 (585)
T KOG3763|consen 209 VLKHIEENF-PEILSLSLSNNRLYHLDALSSLSQIAPKLKTLDLSHNHSKISSESE---LDK--LKGLPLEELVLEGNPL 282 (585)
T ss_pred HHHHhhcCC-cceeeeecccchhhchhhhhHHHHhcchhheeecccchhhhcchhh---hhh--hcCCCHHHeeecCCcc
Confidence 344444554 68889998887655557888899999999999999841 2222110 111 1335677777776
Q ss_pred ccccchH--HHHHHHHhcccCcch
Q 020465 160 VYNITKE--HLRTLHSHLKLNSSR 181 (326)
Q Consensus 160 C~~lTd~--~l~~La~~l~~~~~l 181 (326)
|...++. -+.+|.+..+.+..+
T Consensus 283 c~tf~~~s~yv~~i~~~FPKL~~L 306 (585)
T KOG3763|consen 283 CTTFSDRSEYVSAIRELFPKLLRL 306 (585)
T ss_pred ccchhhhHHHHHHHHHhcchheee
Confidence 3333333 356666666666554
No 84
>KOG1859 consensus Leucine-rich repeat proteins [General function prediction only]
Probab=29.15 E-value=9.7 Score=41.53 Aligned_cols=32 Identities=22% Similarity=0.290 Sum_probs=24.0
Q ss_pred CCccEEecCCCCCCCHHHHHHHHHhCCCccEEEeCC
Q 020465 94 GRLTTLALINCVRITNAGLQRVIEKNPFIKKLYIPG 129 (326)
Q Consensus 94 ~~L~~L~Ls~C~~ITD~gL~~v~~~cp~L~~L~Ls~ 129 (326)
+.|++|+|+.- ++++-. .++.+|.|++|+|++
T Consensus 187 ~ale~LnLshN-k~~~v~---~Lr~l~~LkhLDlsy 218 (1096)
T KOG1859|consen 187 PALESLNLSHN-KFTKVD---NLRRLPKLKHLDLSY 218 (1096)
T ss_pred HHhhhhccchh-hhhhhH---HHHhccccccccccc
Confidence 35888998875 555533 567899999999985
No 85
>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]
Probab=27.84 E-value=43 Score=37.28 Aligned_cols=38 Identities=21% Similarity=0.260 Sum_probs=21.9
Q ss_pred CCccEEecCCCCCCCHHHHHHHHHhCCCccEEEeCCCCCCC
Q 020465 94 GRLTTLALINCVRITNAGLQRVIEKNPFIKKLYIPGCTGLS 134 (326)
Q Consensus 94 ~~L~~L~Ls~C~~ITD~gL~~v~~~cp~L~~L~Ls~C~~IT 134 (326)
+.|+.|||+++..++. |-..+...-+|+.|+|++. +|+
T Consensus 571 ~~LrVLDLs~~~~l~~--LP~~I~~Li~LryL~L~~t-~I~ 608 (889)
T KOG4658|consen 571 PLLRVLDLSGNSSLSK--LPSSIGELVHLRYLDLSDT-GIS 608 (889)
T ss_pred cceEEEECCCCCccCc--CChHHhhhhhhhcccccCC-Ccc
Confidence 6788888888665432 2222333456666666654 344
No 86
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=27.76 E-value=34 Score=34.82 Aligned_cols=31 Identities=26% Similarity=0.588 Sum_probs=22.7
Q ss_pred cCCCCCCCCcchhccccCCcccCCCCCceeeccccccccc
Q 020465 279 QLPKCNLCNKPYCRQHANLGSNSSCSSGFICDICQYQNQK 318 (326)
Q Consensus 279 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 318 (326)
.-|+|+.|++ .-.|-+.++|.|+.|.+.-..
T Consensus 349 ~~p~Cp~Cg~---------~m~S~G~~g~rC~kCg~~~~~ 379 (421)
T COG1571 349 VNPVCPRCGG---------RMKSAGRNGFRCKKCGTRARE 379 (421)
T ss_pred cCCCCCccCC---------chhhcCCCCcccccccccCCc
Confidence 4799999886 334555569999999876543
No 87
>KOG2982 consensus Uncharacterized conserved protein [Function unknown]
Probab=27.33 E-value=52 Score=32.57 Aligned_cols=60 Identities=23% Similarity=0.212 Sum_probs=44.9
Q ss_pred CccEEecCCCCCCCHHH-HHHHHHhCCCccEEEeCCCCCCCHHHHHHHHHHHHhcCCCCCeeeccC
Q 020465 95 RLTTLALINCVRITNAG-LQRVIEKNPFIKKLYIPGCTGLSPQGVIEAVEKLSENDHTLEILHISG 159 (326)
Q Consensus 95 ~L~~L~Ls~C~~ITD~g-L~~v~~~cp~L~~L~Ls~C~~ITd~gi~~~L~~L~~~C~~Lk~L~Lsg 159 (326)
-+.-|.|.+| .|..+| +..++..+..+++|+|.+ ..|++=. .+-+|.++.|.|+.|||+.
T Consensus 46 a~ellvln~~-~id~~gd~~~~~~~~~~v~elDL~~-N~iSdWs---eI~~ile~lP~l~~LNls~ 106 (418)
T KOG2982|consen 46 ALELLVLNGS-IIDNEGDVMLFGSSVTDVKELDLTG-NLISDWS---EIGAILEQLPALTTLNLSC 106 (418)
T ss_pred chhhheecCC-CCCcchhHHHHHHHhhhhhhhhccc-chhccHH---HHHHHHhcCccceEeeccC
Confidence 3456777887 454444 567888999999999988 5677643 2556778999999999984
No 88
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=26.15 E-value=49 Score=26.43 Aligned_cols=32 Identities=13% Similarity=0.367 Sum_probs=23.8
Q ss_pred hcCCCCCCCCcchhccccCCcccCCCCCceeecccccccc
Q 020465 278 LQLPKCNLCNKPYCRQHANLGSNSSCSSGFICDICQYQNQ 317 (326)
Q Consensus 278 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 317 (326)
.+.+.|++|.|+--+|- .++...|..|.+.-+
T Consensus 33 ~~~~~Cp~C~~~~VkR~--------a~GIW~C~kCg~~fA 64 (89)
T COG1997 33 RAKHVCPFCGRTTVKRI--------ATGIWKCRKCGAKFA 64 (89)
T ss_pred hcCCcCCCCCCcceeee--------ccCeEEcCCCCCeec
Confidence 46788999999865543 348999999976544
No 89
>KOG4194 consensus Membrane glycoprotein LIG-1 [Signal transduction mechanisms]
Probab=25.97 E-value=98 Score=33.38 Aligned_cols=60 Identities=22% Similarity=0.283 Sum_probs=33.9
Q ss_pred CCccEEecCCCC--CCCHHHHHHHHH--------------------hCCCccEEEeCCCCCCCHHHHHHHHHHHHhcCCC
Q 020465 94 GRLTTLALINCV--RITNAGLQRVIE--------------------KNPFIKKLYIPGCTGLSPQGVIEAVEKLSENDHT 151 (326)
Q Consensus 94 ~~L~~L~Ls~C~--~ITD~gL~~v~~--------------------~cp~L~~L~Ls~C~~ITd~gi~~~L~~L~~~C~~ 151 (326)
++|+.|+|.+-. .||.+.|.++.. +-++|++|+|++ .+||+-+ ...+. +..+
T Consensus 125 ghl~~L~L~~N~I~sv~se~L~~l~alrslDLSrN~is~i~~~sfp~~~ni~~L~La~-N~It~l~----~~~F~-~lns 198 (873)
T KOG4194|consen 125 GHLEKLDLRHNLISSVTSEELSALPALRSLDLSRNLISEIPKPSFPAKVNIKKLNLAS-NRITTLE----TGHFD-SLNS 198 (873)
T ss_pred cceeEEeeeccccccccHHHHHhHhhhhhhhhhhchhhcccCCCCCCCCCceEEeecc-ccccccc----ccccc-ccch
Confidence 578888887652 466666654321 014678888877 4566654 22222 1235
Q ss_pred CCeeeccC
Q 020465 152 LEILHISG 159 (326)
Q Consensus 152 Lk~L~Lsg 159 (326)
|-.|.|+.
T Consensus 199 L~tlkLsr 206 (873)
T KOG4194|consen 199 LLTLKLSR 206 (873)
T ss_pred heeeeccc
Confidence 66666664
No 90
>KOG2123 consensus Uncharacterized conserved protein [Function unknown]
Probab=25.87 E-value=27 Score=34.21 Aligned_cols=97 Identities=22% Similarity=0.221 Sum_probs=57.2
Q ss_pred CCCHHHHHHHHHh--CCCccEEEeCCCCCCCHHHHHHHHHHHHhcCCCCCeeeccCccccchHHHHHHHHhcccCcchhh
Q 020465 106 RITNAGLQRVIEK--NPFIKKLYIPGCTGLSPQGVIEAVEKLSENDHTLEILHISGVYNITKEHLRTLHSHLKLNSSRQN 183 (326)
Q Consensus 106 ~ITD~gL~~v~~~--cp~L~~L~Ls~C~~ITd~gi~~~L~~L~~~C~~Lk~L~LsgC~~lTd~~l~~La~~l~~~~~l~~ 183 (326)
++|.+.+..-++. ..+.+|||.-|| +++|-. |.+..+.|+.|.||-= .|+. ++.+ ..|.++ .+
T Consensus 3 kLTe~mV~~raK~sdl~~vkKLNcwg~-~L~DIs-------ic~kMp~lEVLsLSvN-kIss--L~pl-~rCtrL---kE 67 (388)
T KOG2123|consen 3 KLTESMVYIRAKCSDLENVKKLNCWGC-GLDDIS-------ICEKMPLLEVLSLSVN-KISS--LAPL-QRCTRL---KE 67 (388)
T ss_pred hHHHHHHHHHHHhhHHHHhhhhcccCC-CccHHH-------HHHhcccceeEEeecc-cccc--chhH-HHHHHH---HH
Confidence 4677666655542 357899999999 588877 3456789999988721 2332 2222 222222 23
Q ss_pred hhccCCcccccCCccccccCCCCceeeecCCCCCC
Q 020465 184 EQKRQPILYHKARHYPVLVNRENDHSIDVEICPSC 218 (326)
Q Consensus 184 l~~~~~~~~~~~gl~~l~~~c~~Lr~lDL~~Cp~c 218 (326)
+.+.+..+-+-.-+ ..+++.+.||.|=|+.=|=|
T Consensus 68 lYLRkN~I~sldEL-~YLknlpsLr~LWL~ENPCc 101 (388)
T KOG2123|consen 68 LYLRKNCIESLDEL-EYLKNLPSLRTLWLDENPCC 101 (388)
T ss_pred HHHHhcccccHHHH-HHHhcCchhhhHhhccCCcc
Confidence 33333222221111 23578889999988887766
No 91
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=25.61 E-value=26 Score=24.78 Aligned_cols=24 Identities=29% Similarity=0.923 Sum_probs=12.1
Q ss_pred hhhhhhchHhhhcCC-----CCCCCCcch
Q 020465 267 VCNDMLCSDCWLQLP-----KCNLCNKPY 290 (326)
Q Consensus 267 ~~~~~~c~~c~~~~~-----~~~~~~~~~ 290 (326)
-|.--.|.+||...- +|+-|-+||
T Consensus 19 ~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 19 ECGFQICRFCYHDILENEGGRCPGCREPY 47 (48)
T ss_dssp TTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred cCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence 477788999997655 588888887
No 92
>KOG2593 consensus Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=24.50 E-value=33 Score=34.92 Aligned_cols=35 Identities=23% Similarity=0.338 Sum_probs=24.8
Q ss_pred cCCCCCCCCcchhccccCCcccCCCCCceeeccccc
Q 020465 279 QLPKCNLCNKPYCRQHANLGSNSSCSSGFICDICQY 314 (326)
Q Consensus 279 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 314 (326)
+--+|++|+|-|=.=-++.-.+.-. +.|.|..|++
T Consensus 127 ~~Y~Cp~C~kkyt~Lea~~L~~~~~-~~F~C~~C~g 161 (436)
T KOG2593|consen 127 AGYVCPNCQKKYTSLEALQLLDNET-GEFHCENCGG 161 (436)
T ss_pred ccccCCccccchhhhHHHHhhcccC-ceEEEecCCC
Confidence 4567888888886555555555444 8999999965
No 93
>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]
Probab=24.27 E-value=43 Score=37.31 Aligned_cols=59 Identities=20% Similarity=0.203 Sum_probs=32.6
Q ss_pred CCccEEecCCCCCCCHHHHHHHHHhCCCccEEEeCCCCCCCH--HHHHHHHHHHHhcCCCCCeeeccCc
Q 020465 94 GRLTTLALINCVRITNAGLQRVIEKNPFIKKLYIPGCTGLSP--QGVIEAVEKLSENDHTLEILHISGV 160 (326)
Q Consensus 94 ~~L~~L~Ls~C~~ITD~gL~~v~~~cp~L~~L~Ls~C~~ITd--~gi~~~L~~L~~~C~~Lk~L~LsgC 160 (326)
+.|++|-+.+-..--..+--......|.|+.|||+++..++. +. +. ..-+|+.|+|++.
T Consensus 545 ~~L~tLll~~n~~~l~~is~~ff~~m~~LrVLDLs~~~~l~~LP~~----I~----~Li~LryL~L~~t 605 (889)
T KOG4658|consen 545 PKLRTLLLQRNSDWLLEISGEFFRSLPLLRVLDLSGNSSLSKLPSS----IG----ELVHLRYLDLSDT 605 (889)
T ss_pred CccceEEEeecchhhhhcCHHHHhhCcceEEEECCCCCccCcCChH----Hh----hhhhhhcccccCC
Confidence 456666665532100111122356789999999999866442 22 11 2235677777665
No 94
>PRK11595 DNA utilization protein GntX; Provisional
Probab=23.57 E-value=58 Score=29.86 Aligned_cols=34 Identities=26% Similarity=0.506 Sum_probs=21.6
Q ss_pred ccccccCccCCCCchhhhhhhhhhchHhhhcCCC----CCCCCcc
Q 020465 249 PRCAECGGCIQPEEMEDAVCNDMLCSDCWLQLPK----CNLCNKP 289 (326)
Q Consensus 249 ~rc~~cg~c~~~~~~~e~~~~~~~c~~c~~~~~~----~~~~~~~ 289 (326)
+||.-||.=+. ..+ ..+|.+|+..++. |.-|.+|
T Consensus 6 ~~C~~C~~~~~---~~~----~~lC~~C~~~l~~~~~~C~~Cg~~ 43 (227)
T PRK11595 6 GLCWLCRMPLA---LSH----WGICSVCSRALRTLKTCCPQCGLP 43 (227)
T ss_pred CcCccCCCccC---CCC----CcccHHHHhhCCcccCcCccCCCc
Confidence 56888875332 122 2489999988753 7777665
No 95
>PF13746 Fer4_18: 4Fe-4S dicluster domain
Probab=23.49 E-value=36 Score=25.47 Aligned_cols=16 Identities=31% Similarity=0.872 Sum_probs=14.3
Q ss_pred CCcCCCCccccccccc
Q 020465 237 PARCCRGCYHCIPRCA 252 (326)
Q Consensus 237 ~~~~Cr~c~~ci~rc~ 252 (326)
+.+.|-||+.|+..|.
T Consensus 48 ~~~~CVgCgrCv~~CP 63 (69)
T PF13746_consen 48 GEGDCVGCGRCVRVCP 63 (69)
T ss_pred CCccCCCcChHhhhcC
Confidence 7889999999999885
No 96
>PRK08222 hydrogenase 4 subunit H; Validated
Probab=23.24 E-value=37 Score=30.25 Aligned_cols=53 Identities=26% Similarity=0.532 Sum_probs=31.1
Q ss_pred CCcCCCCcccccccccccCccCCC-Cchhhhhhh-hhhchHhhhcCCCCCCCCcchh
Q 020465 237 PARCCRGCYHCIPRCAECGGCIQP-EEMEDAVCN-DMLCSDCWLQLPKCNLCNKPYC 291 (326)
Q Consensus 237 ~~~~Cr~c~~ci~rc~~cg~c~~~-~~~~e~~~~-~~~c~~c~~~~~~~~~~~~~~~ 291 (326)
....|.+|+.|+.-|.+ +.|.. .+++.+.=. +-+-..=-..+.+|..|++|+=
T Consensus 71 ~~~~C~~Cg~C~~~CPt--~AI~~~~~~~~~~~~~~~l~~~~~~~~~~C~~Cg~~f~ 125 (181)
T PRK08222 71 YLGRCIYCGRCEEVCPT--RAIQLTNNFELTVTNKADLYTRATFHLQRCSRCERPFA 125 (181)
T ss_pred ccCcCcCCCCcccccCc--CeEEeccceeeeccchhhhheecccccCcCcccCCccC
Confidence 45678888888888876 45653 334322100 0010111135889999999986
No 97
>KOG4579 consensus Leucine-rich repeat (LRR) protein associated with apoptosis in muscle tissue [General function prediction only]
Probab=22.96 E-value=22 Score=31.44 Aligned_cols=47 Identities=19% Similarity=0.233 Sum_probs=25.7
Q ss_pred CCHHHHH----HHHHhCCCccEEEeCCCCCCCHHHHHHHHHHHHhcCCCCCeeeccCc
Q 020465 107 ITNAGLQ----RVIEKNPFIKKLYIPGCTGLSPQGVIEAVEKLSENDHTLEILHISGV 160 (326)
Q Consensus 107 ITD~gL~----~v~~~cp~L~~L~Ls~C~~ITd~gi~~~L~~L~~~C~~Lk~L~LsgC 160 (326)
++|.+|+ .+....|-++.|||+. ..|++-- .+ + ...+.|+.||++.=
T Consensus 60 ls~N~fk~fp~kft~kf~t~t~lNl~~-neisdvP----eE-~-Aam~aLr~lNl~~N 110 (177)
T KOG4579|consen 60 LSDNGFKKFPKKFTIKFPTATTLNLAN-NEISDVP----EE-L-AAMPALRSLNLRFN 110 (177)
T ss_pred cccchhhhCCHHHhhccchhhhhhcch-hhhhhch----HH-H-hhhHHhhhcccccC
Confidence 3445565 4455566677777765 3455443 22 2 23466777777653
No 98
>PRK09335 30S ribosomal protein S26e; Provisional
Probab=20.85 E-value=40 Score=27.30 Aligned_cols=11 Identities=27% Similarity=0.896 Sum_probs=9.5
Q ss_pred ccccccCccCC
Q 020465 249 PRCAECGGCIQ 259 (326)
Q Consensus 249 ~rc~~cg~c~~ 259 (326)
-||.+||+|+-
T Consensus 21 V~C~nCgr~vP 31 (95)
T PRK09335 21 VQCDNCGRRVP 31 (95)
T ss_pred EEeCCCCCcCc
Confidence 48999999975
No 99
>KOG3735 consensus Tropomodulin and leiomodulin [Cytoskeleton]
Probab=20.48 E-value=1e+02 Score=30.58 Aligned_cols=82 Identities=18% Similarity=0.326 Sum_probs=58.8
Q ss_pred CCCCHHHHHHHHh--hcCCCccEEecCCCCCCCH---HHHHHHHHhCCCccEEEeCCCCCCCHHHHHHHHHHHHhcCCCC
Q 020465 78 RRLSDEILMKITS--KANGRLTTLALINCVRITN---AGLQRVIEKNPFIKKLYIPGCTGLSPQGVIEAVEKLSENDHTL 152 (326)
Q Consensus 78 ~~itD~~L~~l~~--~~~~~L~~L~Ls~C~~ITD---~gL~~v~~~cp~L~~L~Ls~C~~ITd~gi~~~L~~L~~~C~~L 152 (326)
..|+.+.+..++. +.+...+...|.+= ..+| .++..+++-|+.|+.|++.+ ..||..||+++++++- .-..|
T Consensus 209 ~~ip~e~lk~~~eal~~nt~vk~Fsla~t-r~~d~vA~a~a~ml~~n~sl~slnves-nFItg~gi~a~~~al~-~n~tl 285 (353)
T KOG3735|consen 209 RRIPIETLKQFSEALKNNTHVKKFSLANT-RSSDPVAFAIAEMLKENKSLTSLNVES-NFITGLGIMALLRALQ-SNKSL 285 (353)
T ss_pred ccCCHHHHHHHHHHHhcCchhhhhhhhcc-cCCchhHHHHHHHHhhcchhhheeccc-cccccHHHHHHHHHHh-ccchh
Confidence 4677888877754 23456666667663 4444 56677888999999999998 4699999988877764 45678
Q ss_pred CeeeccCccc
Q 020465 153 EILHISGVYN 162 (326)
Q Consensus 153 k~L~LsgC~~ 162 (326)
.+|.+.+=+.
T Consensus 286 ~el~~dnqrq 295 (353)
T KOG3735|consen 286 TELKNDNQRQ 295 (353)
T ss_pred hHhhhhhHHh
Confidence 8887765433
No 100
>PF08271 TF_Zn_Ribbon: TFIIB zinc-binding; InterPro: IPR013137 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger motif found in transcription factor IIB (TFIIB). In eukaryotes the initiation of transcription of protein encoding genes by the polymerase II complexe (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least seven different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, and -IIH []. TFIIB and TFIID are responsible for promoter recognition and interaction with pol II; together with Pol II, they form a minimal initiation complex capable of transcription under certain conditions. The TATA box of a Pol II promoter is bound in the initiation complex by the TBP subunit of TFIID, which bends the DNA around the C-terminal domain of TFIIB whereas the N-terminal zinc finger of TFIIB interacts with Pol II [, ]. The TFIIB zinc finger adopts a zinc ribbon fold characterised by two beta-hairpins forming two structurally similar zinc-binding sub-sites []. The zinc finger contacts the rbp1 subunit of Pol II through its dock domain, a conserved region of about 70 amino acids located close to the polymerase active site []. In the Pol II complex this surface is located near the RNA exit groove. Interestingly this sequence is best conserved in the three polymerases that utilise a TFIIB-like general transcription factor (Pol II, Pol III, and archaeal RNA polymerase) but not in Pol I []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1VD4_A 1PFT_A 3K1F_M 3K7A_M 1RO4_A 1RLY_A 1DL6_A.
Probab=20.38 E-value=69 Score=21.50 Aligned_cols=14 Identities=14% Similarity=0.451 Sum_probs=9.9
Q ss_pred CCCCceeecccccc
Q 020465 302 SCSSGFICDICQYQ 315 (326)
Q Consensus 302 ~~~~~~~~~~~~~~ 315 (326)
+..+.++|..|..+
T Consensus 15 ~~~g~~vC~~CG~V 28 (43)
T PF08271_consen 15 PERGELVCPNCGLV 28 (43)
T ss_dssp TTTTEEEETTT-BB
T ss_pred CCCCeEECCCCCCE
Confidence 34588999999654
No 101
>CHL00014 ndhI NADH dehydrogenase subunit I
Probab=20.31 E-value=41 Score=29.45 Aligned_cols=23 Identities=26% Similarity=0.714 Sum_probs=16.3
Q ss_pred CcCCCCcccccccccccCccCCCCc
Q 020465 238 ARCCRGCYHCIPRCAECGGCIQPEE 262 (326)
Q Consensus 238 ~~~Cr~c~~ci~rc~~cg~c~~~~~ 262 (326)
...|-+|+.|+..|.. +.|.-.+
T Consensus 98 ~~~C~~Cg~C~~~CP~--~AI~~~~ 120 (167)
T CHL00014 98 FGVCIFCGNCVEYCPT--NCLSMTE 120 (167)
T ss_pred CCcCcCccchHhhcCc--CceecCC
Confidence 3568888888888885 5565433
Done!