Query psy8503
Match_columns 421
No_of_seqs 140 out of 203
Neff 3.6
Searched_HMMs 46136
Date Fri Aug 16 20:37:06 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy8503.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/8503hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1078|consensus 100.0 3E-111 6E-116 890.5 23.8 374 1-420 327-801 (865)
2 COG5240 SEC21 Vesicle coat com 100.0 3.3E-94 7.1E-99 745.3 19.4 374 1-416 348-830 (898)
3 PF01602 Adaptin_N: Adaptin N 99.8 2.1E-19 4.5E-24 179.7 11.3 189 3-224 314-524 (526)
4 PTZ00429 beta-adaptin; Provisi 99.8 1.1E-17 2.5E-22 181.1 17.6 199 2-237 343-560 (746)
5 PF08752 COP-gamma_platf: Coat 99.7 4.6E-18 9.9E-23 153.8 7.0 65 301-367 1-73 (151)
6 KOG1078|consensus 98.9 3.4E-10 7.3E-15 123.0 1.4 186 2-225 372-566 (865)
7 KOG1061|consensus 97.4 0.00094 2E-08 73.6 10.8 189 14-238 336-541 (734)
8 PF01602 Adaptin_N: Adaptin N 97.2 0.0031 6.7E-08 64.0 11.8 186 2-222 88-294 (526)
9 KOG1062|consensus 96.8 0.014 3.1E-07 65.2 12.5 203 2-226 116-382 (866)
10 PRK09687 putative lyase; Provi 96.3 0.06 1.3E-06 53.0 12.2 86 134-223 89-187 (280)
11 PRK09687 putative lyase; Provi 96.1 0.071 1.5E-06 52.5 11.7 178 2-223 32-220 (280)
12 KOG1062|consensus 95.8 0.19 4.2E-06 56.6 14.5 187 2-224 359-581 (866)
13 PRK13800 putative oxidoreducta 95.4 0.27 5.8E-06 55.5 14.0 42 181-222 751-802 (897)
14 PRK13800 putative oxidoreducta 95.3 0.22 4.7E-06 56.2 13.0 40 183-222 725-769 (897)
15 PF12717 Cnd1: non-SMC mitotic 95.3 0.11 2.4E-06 47.3 8.7 58 172-229 25-98 (178)
16 PF10508 Proteasom_PSMB: Prote 95.1 0.26 5.7E-06 52.1 12.2 167 2-201 128-319 (503)
17 KOG1058|consensus 95.1 2.5 5.4E-05 48.1 19.8 56 359-421 816-874 (948)
18 PF13646 HEAT_2: HEAT repeats; 95.1 0.017 3.8E-07 44.9 2.6 35 184-218 43-86 (88)
19 PF13513 HEAT_EZ: HEAT-like re 94.6 0.036 7.9E-07 40.8 3.0 35 186-220 1-53 (55)
20 PF12348 CLASP_N: CLASP N term 94.3 0.98 2.1E-05 41.5 12.4 37 196-232 178-214 (228)
21 PTZ00429 beta-adaptin; Provisi 93.8 2 4.3E-05 48.4 15.9 162 2-200 114-284 (746)
22 COG1413 FOG: HEAT repeat [Ener 89.7 5.2 0.00011 38.9 11.8 179 3-225 53-243 (335)
23 cd00020 ARM Armadillo/beta-cat 89.5 0.96 2.1E-05 36.0 5.5 37 184-220 61-116 (120)
24 PF13646 HEAT_2: HEAT repeats; 89.3 0.34 7.4E-06 37.6 2.8 41 184-224 12-60 (88)
25 PF14806 Coatomer_b_Cpla: Coat 88.4 0.5 1.1E-05 42.8 3.5 56 359-421 7-65 (129)
26 PF12755 Vac14_Fab1_bd: Vacuol 88.3 0.81 1.8E-05 38.9 4.6 40 184-223 39-96 (97)
27 COG1413 FOG: HEAT repeat [Ener 86.4 28 0.0006 34.0 14.5 43 187-229 164-214 (335)
28 PF02985 HEAT: HEAT repeat; I 82.7 1.3 2.8E-05 29.7 2.6 18 184-201 12-29 (31)
29 PF12830 Nipped-B_C: Sister ch 77.3 2.2 4.8E-05 39.5 3.1 63 171-233 7-83 (187)
30 TIGR02270 conserved hypothetic 74.3 4.5 9.7E-05 42.5 4.7 81 137-224 119-207 (410)
31 cd00020 ARM Armadillo/beta-cat 72.4 44 0.00096 26.4 9.0 38 29-66 8-45 (120)
32 smart00638 LPD_N Lipoprotein N 71.0 63 0.0014 34.4 12.4 42 11-56 313-354 (574)
33 KOG1077|consensus 70.3 64 0.0014 37.3 12.5 134 118-253 461-614 (938)
34 KOG1060|consensus 67.1 33 0.00072 39.7 9.6 184 9-224 373-571 (968)
35 PLN03200 cellulose synthase-in 63.5 71 0.0015 40.6 12.1 188 8-228 33-265 (2102)
36 COG5096 Vesicle coat complex, 62.8 23 0.0005 40.5 7.4 55 359-420 662-720 (757)
37 PF12717 Cnd1: non-SMC mitotic 62.3 1.3E+02 0.0027 27.5 11.6 48 112-160 124-174 (178)
38 PLN03200 cellulose synthase-in 57.3 78 0.0017 40.2 11.1 111 113-225 624-765 (2102)
39 PF02985 HEAT: HEAT repeat; I 57.1 9.6 0.00021 25.5 2.1 21 202-222 7-27 (31)
40 COG5098 Chromosome condensatio 56.8 18 0.0004 41.5 5.3 61 174-234 973-1047(1128)
41 COG5218 YCG1 Chromosome conden 56.0 34 0.00074 38.8 7.1 97 117-217 49-192 (885)
42 cd07064 AlkD_like_1 A new stru 55.7 1.2E+02 0.0025 28.8 9.9 130 111-249 59-205 (208)
43 COG5096 Vesicle coat complex, 55.1 17 0.00036 41.6 4.8 45 184-228 104-160 (757)
44 PF11701 UNC45-central: Myosin 54.7 38 0.00081 30.7 6.2 119 2-146 17-135 (157)
45 KOG2259|consensus 54.4 11 0.00023 42.8 3.1 41 185-225 386-440 (823)
46 KOG1059|consensus 53.6 1.7E+02 0.0037 34.1 12.0 185 3-222 346-575 (877)
47 COG5099 RNA-binding protein of 53.3 55 0.0012 37.6 8.4 104 11-148 598-703 (777)
48 PF14764 SPG48: AP-5 complex s 53.2 3.4E+02 0.0074 29.7 14.6 58 14-71 248-315 (459)
49 KOG1059|consensus 52.8 1.5E+02 0.0032 34.4 11.5 72 5-76 121-192 (877)
50 KOG2171|consensus 51.3 1.3E+02 0.0027 36.1 10.9 89 25-146 290-400 (1075)
51 PF12530 DUF3730: Protein of u 50.7 90 0.002 30.0 8.4 50 26-75 80-131 (234)
52 PF08167 RIX1: rRNA processing 46.3 1.3E+02 0.0029 27.4 8.4 96 17-144 14-118 (165)
53 PF04826 Arm_2: Armadillo-like 45.3 2.9E+02 0.0063 27.4 11.1 175 1-215 62-253 (254)
54 PF06745 KaiC: KaiC; InterPro 43.8 15 0.00033 34.0 1.9 54 23-78 97-151 (226)
55 PF05763 DUF835: Protein of un 42.7 21 0.00046 32.2 2.6 63 21-88 55-117 (136)
56 KOG4224|consensus 42.6 54 0.0012 35.4 5.9 89 83-201 264-363 (550)
57 PF01347 Vitellogenin_N: Lipop 42.4 99 0.0021 33.1 8.0 44 11-56 349-392 (618)
58 KOG2023|consensus 42.0 32 0.00069 39.4 4.3 84 135-224 128-244 (885)
59 KOG1061|consensus 41.4 42 0.00092 38.3 5.2 39 110-151 61-99 (734)
60 PRK14908 glycyl-tRNA synthetas 41.0 2.8E+02 0.006 33.2 11.7 51 114-164 858-911 (1000)
61 PF08064 UME: UME (NUC010) dom 40.9 1.4E+02 0.0031 25.6 7.3 55 111-200 28-82 (107)
62 KOG1820|consensus 40.6 2E+02 0.0044 33.5 10.4 61 2-78 304-364 (815)
63 cd03568 VHS_STAM VHS domain fa 40.5 72 0.0016 29.0 5.7 76 2-78 46-132 (144)
64 PF11838 ERAP1_C: ERAP1-like C 40.3 83 0.0018 30.2 6.4 168 22-221 17-213 (324)
65 KOG0414|consensus 39.8 26 0.00056 41.8 3.4 54 173-226 999-1066(1251)
66 KOG2025|consensus 37.1 2.5E+02 0.0055 32.7 10.2 40 21-76 54-93 (892)
67 TIGR00211 glyS glycyl-tRNA syn 37.1 2.7E+02 0.006 31.7 10.6 51 114-164 543-596 (691)
68 PF12755 Vac14_Fab1_bd: Vacuol 37.0 74 0.0016 27.1 4.9 34 189-222 3-54 (97)
69 KOG2171|consensus 36.4 4E+02 0.0086 32.2 11.9 15 187-201 174-188 (1075)
70 PRK01233 glyS glycyl-tRNA synt 36.0 4E+02 0.0088 30.4 11.7 50 115-164 534-586 (682)
71 KOG1060|consensus 35.8 8.3E+02 0.018 29.1 14.9 87 103-228 362-462 (968)
72 KOG0567|consensus 35.7 39 0.00084 34.7 3.5 88 135-226 187-282 (289)
73 PF02296 Alpha_adaptin_C: Alph 35.5 31 0.00068 30.2 2.5 49 369-419 1-53 (113)
74 KOG1248|consensus 35.4 2.1E+02 0.0046 34.6 9.7 62 2-63 795-862 (1176)
75 PLN03076 ARF guanine nucleotid 35.4 7.5E+02 0.016 31.6 14.5 76 3-78 1147-1237(1780)
76 PRK04328 hypothetical protein; 34.5 29 0.00064 33.3 2.4 54 23-78 110-163 (249)
77 TIGR03877 thermo_KaiC_1 KaiC d 33.2 33 0.00072 32.5 2.5 54 23-78 108-161 (237)
78 PF12530 DUF3730: Protein of u 32.9 4.5E+02 0.0098 25.3 12.6 65 112-220 98-163 (234)
79 smart00567 EZ_HEAT E-Z type HE 32.4 36 0.00079 22.3 1.9 14 187-200 2-15 (30)
80 PF01347 Vitellogenin_N: Lipop 31.7 1.2E+02 0.0026 32.5 6.5 114 23-163 485-604 (618)
81 PF12719 Cnd3: Nuclear condens 31.6 3.3E+02 0.0072 26.8 9.2 120 25-201 23-143 (298)
82 PF00620 RhoGAP: RhoGAP domain 30.2 3.2E+02 0.007 23.3 7.9 88 20-144 25-118 (151)
83 PF04826 Arm_2: Armadillo-like 29.0 87 0.0019 31.0 4.6 70 136-223 13-82 (254)
84 PF10163 EnY2: Transcription f 28.4 92 0.002 25.9 4.0 71 61-145 14-86 (86)
85 PF05184 SapB_1: Saposin-like 28.4 1.3E+02 0.0028 20.6 4.2 31 28-60 9-39 (39)
86 PF09090 MIF4G_like_2: MIF4G l 27.4 1.7E+02 0.0036 28.6 6.3 68 4-71 47-119 (253)
87 smart00544 MA3 Domain in DAP-5 27.1 3E+02 0.0066 22.8 7.0 36 43-78 32-67 (113)
88 PF03130 HEAT_PBS: PBS lyase H 26.9 42 0.0009 22.1 1.4 14 188-201 1-14 (27)
89 PF12348 CLASP_N: CLASP N term 26.8 3.8E+02 0.0082 24.6 8.2 40 116-157 176-216 (228)
90 PF01008 IF-2B: Initiation fac 26.5 3.5E+02 0.0077 26.2 8.3 54 111-164 72-131 (282)
91 PF02847 MA3: MA3 domain; Int 26.1 3.7E+02 0.0081 22.1 10.0 38 40-78 30-67 (113)
92 PRK00979 tetrahydromethanopter 25.7 90 0.002 32.3 4.2 72 175-249 124-208 (308)
93 PF04858 TH1: TH1 protein; In 25.4 1.8E+02 0.0039 32.6 6.7 97 51-167 152-249 (584)
94 PF11698 V-ATPase_H_C: V-ATPas 25.0 1.4E+02 0.0029 27.0 4.7 21 202-222 93-113 (119)
95 PF12719 Cnd3: Nuclear condens 25.0 1.2E+02 0.0027 29.8 4.9 36 166-201 16-56 (298)
96 PF12031 DUF3518: Domain of un 24.9 1.4E+02 0.0031 30.3 5.3 22 135-156 216-237 (257)
97 TIGR03881 KaiC_arch_4 KaiC dom 23.7 63 0.0014 29.9 2.5 55 24-78 102-156 (229)
98 PF03392 OS-D: Insect pheromon 23.2 2.1E+02 0.0046 24.5 5.3 63 6-68 16-83 (95)
99 PF12765 Cohesin_HEAT: HEAT re 23.0 17 0.00036 26.6 -1.2 14 202-215 25-38 (42)
100 TIGR00511 ribulose_e2b2 ribose 22.5 6.5E+02 0.014 25.5 9.5 37 111-147 80-116 (301)
101 TIGR02270 conserved hypothetic 22.4 1E+02 0.0023 32.6 4.0 41 184-224 129-176 (410)
102 cd02890 PTase Protein prenyltr 20.4 5.7E+02 0.012 24.6 8.4 79 4-82 23-119 (286)
No 1
>KOG1078|consensus
Probab=100.00 E-value=2.8e-111 Score=890.50 Aligned_cols=374 Identities=57% Similarity=0.891 Sum_probs=348.0
Q ss_pred CCCCCchhHHHHHHHHhhccCCcchHHHHHHHHHHhhhhhcchhhHHHHHHHHHHHHhCCchhHhHHHHHHHHHhhcccc
Q psy8503 1 MISDSNRSIATLAITTLLKTGSESSVDRLMKQIATFVSEISDEFKIVVVEAIRALCLKFPRKHAVLMNFLSAMLRDEGVF 80 (421)
Q Consensus 1 LI~DsNrsiatlAittLLKTG~E~svdrL~kqI~~fmseisdefKi~vv~ai~~Lc~kfp~K~~~~l~FL~~~Lr~eGvf 80 (421)
||||+||||||+|||||||||+|+|||||||||++||+||||||||+||+|||+||.|||+||.++++||+++||++|
T Consensus 327 lItd~NrsIat~AITtLLKTG~e~sv~rLm~qI~~fv~disDeFKivvvdai~sLc~~fp~k~~~~m~FL~~~Lr~eG-- 404 (865)
T KOG1078|consen 327 LITDSNRSIATLAITTLLKTGTESSVDRLMKQISSFVSDISDEFKIVVVDAIRSLCLKFPRKHTVMMNFLSNMLREEG-- 404 (865)
T ss_pred hhcccccchhHHHHHHHHHhcchhHHHHHHHHHHHHHHhccccceEEeHHHHHHHHhhccHHHHHHHHHHHHHHHhcc--
Confidence 799999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccccceeeehhhhcccCCcceEEEEEecCcchhhHHhHHHHHHHHHhhChhhHHHHHHhhhhhcccCcchHHHHHHHHHh
Q psy8503 81 RGGIDVLVRSKLAVSADTGVTMQLTVRSTSGLEYKASIADTIITIIEENPEAKETGLAHLCEFIEDCEHTSLAVRILHLL 160 (421)
Q Consensus 81 rgg~dvL~rAkLal~~~~~vtm~l~vRs~~~~~~K~~ivd~i~~ii~~~p~~ke~~L~~LcefIEDce~~~l~~rIL~~L 160 (421)
|++||++|||+|++||++||++||.+|.|||||||||||++|++||||+|
T Consensus 405 ------------------------------g~e~K~aivd~Ii~iie~~pdsKe~~L~~LCefIEDce~~~i~~rILhlL 454 (865)
T KOG1078|consen 405 ------------------------------GFEFKRAIVDAIIDIIEENPDSKERGLEHLCEFIEDCEFTQIAVRILHLL 454 (865)
T ss_pred ------------------------------CchHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHhccchHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999
Q ss_pred cCCCCCCCCCccceeEEeeccccCchhHHHHHHHHHHHhHh--------------hhcCCCChhhhhhHHHHHHHHhhhc
Q psy8503 161 GKEGPRAKQPSKYIRFIYNRVILENATVRAAAVTAMAQFGA--------------LCQMDGDDEVRDRATYYHSILASQN 226 (421)
Q Consensus 161 G~egp~t~~P~kyIR~IyNRviLEn~~VRaAAv~aLakf~~--------------r~~~D~DDEVRDRA~~yl~il~~~~ 226 (421)
|+|||++++|++|||||||||+|||++||||||+||+|||+ ||++|.||||||||+||++.+.+.+
T Consensus 455 G~EgP~a~~Pskyir~iyNRviLEn~ivRaaAv~alaKfg~~~~~l~~sI~vllkRc~~D~DdevRdrAtf~l~~l~~~~ 534 (865)
T KOG1078|consen 455 GKEGPKAPNPSKYIRFIYNRVILENAIVRAAAVSALAKFGAQDVVLLPSILVLLKRCLNDSDDEVRDRATFYLKNLEEKD 534 (865)
T ss_pred hccCCCCCCcchhhHHHhhhhhhhhhhhHHHHHHHHHHHhcCCCCccccHHHHHHHHhcCchHHHHHHHHHHHHHhhhhh
Confidence 99999999999999999999999999999999999999996 9999999999999999999999888
Q ss_pred HHHHhhhhcCCCCCChHHHHHHHHHhccCCCCCCCccCCCCcccccCCCchhhhhccCCCCCCCCCCccchhhhhHHHHH
Q psy8503 227 KQLIQDYIIEPLMVSIPSLERALHAYNLHPSPTPFDMSSIPLSTITTSDPTEMADRLRTPSGGVASEPTAQATARVESYY 306 (421)
Q Consensus 227 ~~~~~~~i~~~~~~s~~~Le~~L~~Y~~~~~~~pfd~~svp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~ 306 (421)
..+...| +.+.++++.||++|++|+.+++.+|||+.++|..+....+......+ . . ....+..+...++++|+
T Consensus 535 ~~l~~~~--~~l~~s~~~le~~l~~y~~~~~~~~fd~~~v~~~s~~~~~~~~~~~k--~-~--~~~~~~~~~~~~~d~~~ 607 (865)
T KOG1078|consen 535 DVLNQNY--SGLFVSIPGLERSLVSYITGSFATPFDIKSVPVKSQAEEPAINLELK--Q-T--LVKAPEKEKIPKVDEYA 607 (865)
T ss_pred hhhcccc--cccccccchhHHHHHHHhhccccccchhhcchhhccccccccccccc--c-c--ccCCCcccCCCccchhH
Confidence 8888888 89999999999999999999999999999999766554332221111 0 0 12233344455677999
Q ss_pred HHHhhhccccccCCCcccccccceeE-------EEEEEeeeecceeEEEE------------------------------
Q psy8503 307 EKLSAALPEIANLPGTLFKSAAPVRR-------DLRSVFHSYAVSMRRQL------------------------------ 349 (421)
Q Consensus 307 e~L~~~ipe~~~l~G~l~kSs~pv~L-------~V~~vKHif~~hiVlQf------------------------------ 349 (421)
.+|+ ++|+|+.| ||+||||.|+.| +|+|+||+|.+|+||||
T Consensus 608 ~~l~-~i~~~~~l-gpl~kSs~~i~LTE~e~e~~v~~vKh~f~~~~V~qf~~~Ntl~d~~L~~v~vv~~~~~~~evl~~i 685 (865)
T KOG1078|consen 608 AELA-SIPEFKAL-GPLFKSSRPIELTEPEAEYVVKVVKHVFKDHVVLQFDCTNTLNDQLLENVSVVLTPTGGEEVLEKV 685 (865)
T ss_pred HHHh-ccchhhhc-CccccccCcceeccccceEEeeeeehhhccceEEEEeccCcchHHHHhhheeeecCCCCceeeeec
Confidence 9999 99999999 999999999999 99999999999999999
Q ss_pred ----------------------------------------EeeCCCC----Cc------ccceeeccccccccccCCChH
Q psy8503 350 ----------------------------------------DVHSASG----VG------LEDLEISLSDQMAKVNKPNFL 379 (421)
Q Consensus 350 ----------------------------------------dvdp~tg----~g------lEdlei~~~D~i~~~~~~nF~ 379 (421)
||||+|| || |||++++++|||||+.++||.
T Consensus 686 ~~~slpy~qp~~~~tl~~~p~~~p~~v~~sf~~tlkFtvkdcdp~TgepdedGyeDEY~LEdlevtv~D~iqkv~k~NF~ 765 (865)
T KOG1078|consen 686 PTMSLPYDQPGSAFTLVEFPKDDPWAIAEGFGNTLKFTVKDCDPNTGEPDDEGYEDEYVLEDLEVTVGDFVQKVRKSNFP 765 (865)
T ss_pred cccCCCCCCCcceEEEEEcCCCCchhhhccceeeEEEEEEecCCCCCCCCccCcccceeeeceeeehhhhhhHhhcccch
Confidence 9999999 56 999999999999999999999
Q ss_pred HHHhhhcccCCcccceeeEeccCcccHHHHHHHhhcccCCC
Q psy8503 380 ALWEEAETDESMNEMEDTFCLSKMESIQEAVASILLPFPRY 420 (421)
Q Consensus 380 ~~We~l~~~~~~~e~~~tf~L~~~~sl~~Av~~i~~~fg~~ 420 (421)
++||+++ .|.++||+||+.++|+|||++|+.++||-
T Consensus 766 aawde~~-----~e~eetF~Ls~~~tl~eAv~~Ii~~LgMq 801 (865)
T KOG1078|consen 766 AAWDELG-----FEAEETFNLSTVKSIQEAVKKIIDLLGMQ 801 (865)
T ss_pred hhHHhcC-----cchheeeeccccchHHHHHHHHHHHhCCc
Confidence 9999996 38899999999999999999999999984
No 2
>COG5240 SEC21 Vesicle coat complex COPI, gamma subunit [Intracellular trafficking and secretion]
Probab=100.00 E-value=3.3e-94 Score=745.34 Aligned_cols=374 Identities=36% Similarity=0.583 Sum_probs=334.6
Q ss_pred CCCCCchhHHHHHHHHhhccCCcchHHHHHHHHHHhhhhhcchhhHHHHHHHHHHHHhCCchhHhHHHHHHHHHhhcccc
Q psy8503 1 MISDSNRSIATLAITTLLKTGSESSVDRLMKQIATFVSEISDEFKIVVVEAIRALCLKFPRKHAVLMNFLSAMLRDEGVF 80 (421)
Q Consensus 1 LI~DsNrsiatlAittLLKTG~E~svdrL~kqI~~fmseisdefKi~vv~ai~~Lc~kfp~K~~~~l~FL~~~Lr~eGvf 80 (421)
||+|+||+|||+|||||||||+|++|||||+||++||+|+||+|||++|||+|+||++||+||..+++||++.|.+||
T Consensus 348 LIsd~Nr~IstyAITtLLKTGt~e~idrLv~~I~sfvhD~SD~FKiI~ida~rsLsl~Fp~k~~s~l~FL~~~L~~eG-- 425 (898)
T COG5240 348 LISDENRTISTYAITTLLKTGTEETIDRLVNLIPSFVHDMSDGFKIIAIDALRSLSLLFPSKKLSYLDFLGSSLLQEG-- 425 (898)
T ss_pred HhhcccccchHHHHHHHHHcCchhhHHHHHHHHHHHHHhhccCceEEeHHHHHHHHhhCcHHHHHHHHHHHHHHHhcc--
Confidence 799999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccccceeeehhhhcccCCcceEEEEEecCcchhhHHhHHHHHHHHHhhChhhHHHHHHhhhhhcccCcchHHHHHHHHHh
Q psy8503 81 RGGIDVLVRSKLAVSADTGVTMQLTVRSTSGLEYKASIADTIITIIEENPEAKETGLAHLCEFIEDCEHTSLAVRILHLL 160 (421)
Q Consensus 81 rgg~dvL~rAkLal~~~~~vtm~l~vRs~~~~~~K~~ivd~i~~ii~~~p~~ke~~L~~LcefIEDce~~~l~~rIL~~L 160 (421)
|++||+++||+|.++++.+|++||.+|..||+|||||||++|++||||+|
T Consensus 426 ------------------------------g~eFK~~~Vdaisd~~~~~p~skEraLe~LC~fIEDcey~~I~vrIL~iL 475 (898)
T COG5240 426 ------------------------------GLEFKKYMVDAISDAMENDPDSKERALEVLCTFIEDCEYHQITVRILGIL 475 (898)
T ss_pred ------------------------------cchHHHHHHHHHHHHHhhCchHHHHHHHHHHHHHhhcchhHHHHHHHHHh
Confidence 99999999999999999999999999999999999999999999999999
Q ss_pred cCCCCCCCCCccceeEEeeccccCchhHHHHHHHHHHHhHh----------------hhcCCCChhhhhhHHHHHHHHhh
Q psy8503 161 GKEGPRAKQPSKYIRFIYNRVILENATVRAAAVTAMAQFGA----------------LCQMDGDDEVRDRATYYHSILAS 224 (421)
Q Consensus 161 G~egp~t~~P~kyIR~IyNRviLEn~~VRaAAv~aLakf~~----------------r~~~D~DDEVRDRA~~yl~il~~ 224 (421)
|+|||++++|++||||||||++|||+.||+|||+||+|||+ ||++|.||||||||+|.++.++
T Consensus 476 G~EgP~a~~P~~yvrhIyNR~iLEN~ivRsaAv~aLskf~ln~~d~~~~~sv~~~lkRclnD~DdeVRdrAsf~l~~~~- 554 (898)
T COG5240 476 GREGPRAKTPGKYVRHIYNRLILENNIVRSAAVQALSKFALNISDVVSPQSVENALKRCLNDQDDEVRDRASFLLRNMR- 554 (898)
T ss_pred cccCCCCCCcchHHHHHHHHHHHhhhHHHHHHHHHHHHhccCccccccHHHHHHHHHHHhhcccHHHHHHHHHHHHhhh-
Confidence 99999999999999999999999999999999999999999 9999999999999999999997
Q ss_pred hcHHHHhhhhcCCCCCChHHHHHHHHHhccC-CCCCCCccCCCCcccccCCCchhhhhccCCCC--CCCCCCccc----h
Q psy8503 225 QNKQLIQDYIIEPLMVSIPSLERALHAYNLH-PSPTPFDMSSIPLSTITTSDPTEMADRLRTPS--GGVASEPTA----Q 297 (421)
Q Consensus 225 ~~~~~~~~~i~~~~~~s~~~Le~~L~~Y~~~-~~~~pfd~~svp~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~----~ 297 (421)
++......+..+.-.++|+||+.|.-|+.+ .+.+.||+++||+-++++.++..-..+ ++.+ .+..+.|+. -
T Consensus 555 -~~da~~pl~~sd~~~dipsle~~l~~yIse~sf~t~fdvnqv~~~tedem~a~nlk~k-ks~t~ld~te~~p~edans~ 632 (898)
T COG5240 555 -LSDACEPLFSSDELGDIPSLELELIGYISEDSFATAFDVNQVRKFTEDEMKAINLKRK-KSETTLDTTESVPKEDANSK 632 (898)
T ss_pred -hhhhhhccccccccCCcchhHHhhheeeccccccccccccccccccHhhhhhhhhhhc-cccceecccccCChhhhhcc
Confidence 444555567777778999999999999986 689999999999988876554432222 1211 011111211 1
Q ss_pred hhh-hHHHHHHHHhhhccccccCCCcccccccceeE-------EEEEEeeeecceeEEEE--------------------
Q psy8503 298 ATA-RVESYYEKLSAALPEIANLPGTLFKSAAPVRR-------DLRSVFHSYAVSMRRQL-------------------- 349 (421)
Q Consensus 298 ~~~-~~~~y~e~L~~~ipe~~~l~G~l~kSs~pv~L-------~V~~vKHif~~hiVlQf-------------------- 349 (421)
+.+ ...+|+.+|. +|.||..| |++.+||.|+.| +|++|||+|++|+|+||
T Consensus 633 a~pni~tky~d~l~-sieq~k~f-g~lvnSsr~i~LTEpeaefvVkvvKhvfkD~lVlqF~l~NtL~~i~l~n~~vv~tp 710 (898)
T COG5240 633 ADPNIKTKYADELL-SIEQIKPF-GQLVNSSREIILTEPEAEFVVKVVKHVFKDRLVLQFLLENTLEGIQLSNGIVVLTP 710 (898)
T ss_pred cCCccchhhhhhhh-hhhhhccc-cccccccCceeecCCcceeeehhhhhhhccceEEEEEeccchhheeeccceEEEcC
Confidence 111 2468999999 99999999 999999999999 99999999999999999
Q ss_pred ------------------------------------------------EeeCCCC----Cc------ccceeeccccccc
Q psy8503 350 ------------------------------------------------DVHSASG----VG------LEDLEISLSDQMA 371 (421)
Q Consensus 350 ------------------------------------------------dvdp~tg----~g------lEdlei~~~D~i~ 371 (421)
+|+|.|| +| ++++.|+.+||+.
T Consensus 711 ~~~d~~ee~i~~~qids~e~~~~~v~fk~~d~~~~eg~~~N~l~ftTkeI~~dt~epedegfqDey~id~~~i~agDfv~ 790 (898)
T COG5240 711 TGGDKKEESIKVDQIDSSEGTLSIVRFKKLDWDIEEGYVVNGLFFTTKEIEGDTSEPEDEGFQDEYSIDPFQITAGDFVR 790 (898)
T ss_pred CCccchhheeehhhhccCCCceEEEEecccccccccceEeccceEEEEeecCCCCCccccccccceeccceeeccccccc
Confidence 7788887 45 9999999999999
Q ss_pred cccCCChHHHHhhhcccCCcccceeeEeccCcccHHHHHHHhhcc
Q psy8503 372 KVNKPNFLALWEEAETDESMNEMEDTFCLSKMESIQEAVASILLP 416 (421)
Q Consensus 372 ~~~~~nF~~~We~l~~~~~~~e~~~tf~L~~~~sl~~Av~~i~~~ 416 (421)
|++.+||.+.|++++ .|.+..|.++-..+.++.|++|+.-
T Consensus 791 p~~~~nf~~~fd~l~-----~E~~~v~~~~~~~s~~~~~dki~ln 830 (898)
T COG5240 791 PVRIKNFPATFDRLK-----REITFVLQGDIYASGKKILDKILLN 830 (898)
T ss_pred chhccCCccchhccc-----hhhhheehhhHHHHHHHHHHHHHHh
Confidence 999999999999983 4667889988888899999988753
No 3
>PF01602 Adaptin_N: Adaptin N terminal region; InterPro: IPR002553 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. Clathrin coats contain both clathrin and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors []. All AP complexes are heterotetramers composed of two large subunits (adaptins), a medium subunit (mu) and a small subunit (sigma). Each subunit has a specific function. Adaptin subunits recognise and bind to clathrin through their hinge region (clathrin box), and recruit accessory proteins that modulate AP function through their C-terminal appendage domains. By contrast, GGAs are monomers composed of four domains, which have functions similar to AP subunits: an N-terminal VHS (Vps27p/Hrs/Stam) domain, a GAT (GGA and Tom1) domain, a hinge region, and a C-terminal GAE (gamma-adaptin ear) domain. The GAE domain is similar to the AP gamma-adaptin ear domain, being responsible for the recruitment of accessory proteins that regulate clathrin-mediated endocytosis []. While clathrin mediates endocytic protein transport from ER to Golgi, coatomers (COPI, COPII) primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the N-terminal domain of various adaptins from different AP clathrin adaptor complexes (including AP1, AP2, AP3 and AP4), and from the beta and gamma subunits of various coatomer (COP) adaptors. This domain has a 2-layer alpha/alpha fold that forms a right-handed superhelix, and is a member of the ARM repeat superfamily []. The N-terminal region of the various AP adaptor proteins share strong sequence identity; by contrast, the C-terminal domains of different adaptins share similar structural folds, but have little sequence identity []. It has been proposed that the N-terminal domain interacts with another uniform component of the coated vesicles. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 1W63_C 2JKR_A 2JKT_A 2XA7_A 2VGL_B 3TJZ_E.
Probab=99.80 E-value=2.1e-19 Score=179.70 Aligned_cols=189 Identities=29% Similarity=0.414 Sum_probs=172.5
Q ss_pred CCCchhHHHHHHHHhhccCCcchHHHHHHHHHHhhhhhcc-hhhHHHHHHHHHHHHhCCchhHhHHHHHHHHHhhccccc
Q psy8503 3 SDSNRSIATLAITTLLKTGSESSVDRLMKQIATFVSEISD-EFKIVVVEAIRALCLKFPRKHAVLMNFLSAMLRDEGVFR 81 (421)
Q Consensus 3 ~DsNrsiatlAittLLKTG~E~svdrL~kqI~~fmseisd-efKi~vv~ai~~Lc~kfp~K~~~~l~FL~~~Lr~eGvfr 81 (421)
+|.+.+|...|+..|.+.++++++..+++.+..|+++.+| ++|..++.+|..+|.+||......++.+.+.|+..|
T Consensus 314 ~~~d~~Ir~~~l~lL~~l~~~~n~~~Il~eL~~~l~~~~d~~~~~~~i~~I~~la~~~~~~~~~~v~~l~~ll~~~~--- 390 (526)
T PF01602_consen 314 YDDDPSIRKKALDLLYKLANESNVKEILDELLKYLSELSDPDFRRELIKAIGDLAEKFPPDAEWYVDTLLKLLEISG--- 390 (526)
T ss_dssp CSSSHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHC--HHHHHHHHHHHHHHHHHHGSSHHHHHHHHHHHHHCTG---
T ss_pred CCCChhHHHHHHHHHhhcccccchhhHHHHHHHHHHhccchhhhhhHHHHHHHHHhccCchHHHHHHHHHHhhhhcc---
Confidence 5889999999999999999999999999999999999844 599999999999999999999999999999998866
Q ss_pred cccceeeehhhhcccCCcceEEEEEecCcchhhHHhHHHHHHHHHhhChhhHHHHHHhhhhhcccCcchHHHHHHHHHhc
Q psy8503 82 GGIDVLVRSKLAVSADTGVTMQLTVRSTSGLEYKASIADTIITIIEENPEAKETGLAHLCEFIEDCEHTSLAVRILHLLG 161 (421)
Q Consensus 82 gg~dvL~rAkLal~~~~~vtm~l~vRs~~~~~~K~~ivd~i~~ii~~~p~~ke~~L~~LcefIEDce~~~l~~rIL~~LG 161 (421)
......++..+.+++...|+.++.++.+||++++|+..+.+...++.+||
T Consensus 391 ------------------------------~~~~~~~~~~i~~ll~~~~~~~~~~l~~L~~~l~~~~~~~~~~~~~wilG 440 (526)
T PF01602_consen 391 ------------------------------DYVSNEIINVIRDLLSNNPELREKILKKLIELLEDISSPEALAAAIWILG 440 (526)
T ss_dssp ------------------------------GGCHCHHHHHHHHHHHHSTTTHHHHHHHHHHHHTSSSSHHHHHHHHHHHH
T ss_pred ------------------------------ccccchHHHHHHHHhhcChhhhHHHHHHHHHHHHHhhHHHHHHHHHhhhc
Confidence 34477899999999999999999999999999999999999999999999
Q ss_pred CCCCCCCC---CccceeEEeeccccCchhHHHHHHHHHHHhHh----------------hhcC--CCChhhhhhHHHHHH
Q psy8503 162 KEGPRAKQ---PSKYIRFIYNRVILENATVRAAAVTAMAQFGA----------------LCQM--DGDDEVRDRATYYHS 220 (421)
Q Consensus 162 ~egp~t~~---P~kyIR~IyNRviLEn~~VRaAAv~aLakf~~----------------r~~~--D~DDEVRDRA~~yl~ 220 (421)
+.|....+ +..++|+++++...|++.||+.++++++|++. .+.. |.|.||||||.+|++
T Consensus 441 Ey~~~~~~~~~~~~~~~~l~~~~~~~~~~vk~~ilt~~~Kl~~~~~~~~~~~~i~~~~~~~~~~~s~~~evr~Ra~~y~~ 520 (526)
T PF01602_consen 441 EYGELIENTESAPDILRSLIENFIEESPEVKLQILTALAKLFKRNPENEVQNEILQFLLSLATEDSSDPEVRDRAREYLR 520 (526)
T ss_dssp HHCHHHTTTTHHHHHHHHHHHHHTTSHHHHHHHHHHHHHHHHHHSCSTTHHHHHHHHHHCHHHHS-SSHHHHHHHHHHHH
T ss_pred ccCCcccccccHHHHHHHHHHhhccccHHHHHHHHHHHHHHHhhCCchhhHHHHHHHHHHHhccCCCCHHHHHHHHHHHH
Confidence 99999998 99999999999999999999999999999998 3344 889999999999999
Q ss_pred HHhh
Q psy8503 221 ILAS 224 (421)
Q Consensus 221 il~~ 224 (421)
+|+.
T Consensus 521 ll~~ 524 (526)
T PF01602_consen 521 LLNS 524 (526)
T ss_dssp HHHH
T ss_pred HHcc
Confidence 9975
No 4
>PTZ00429 beta-adaptin; Provisional
Probab=99.76 E-value=1.1e-17 Score=181.12 Aligned_cols=199 Identities=21% Similarity=0.256 Sum_probs=169.7
Q ss_pred CCCCchhHHHHHHHHhhccCCcchHHHHHHHHHHhhhhhcchhhHHHHHHHHHHHHhCCchhHhHHHHHHHHHhhccccc
Q psy8503 2 ISDSNRSIATLAITTLLKTGSESSVDRLMKQIATFVSEISDEFKIVVVEAIRALCLKFPRKHAVLMNFLSAMLRDEGVFR 81 (421)
Q Consensus 2 I~DsNrsiatlAittLLKTG~E~svdrL~kqI~~fmseisdefKi~vv~ai~~Lc~kfp~K~~~~l~FL~~~Lr~eGvfr 81 (421)
.+|++. |..+++.+|++.++++||+.+++.+..|+.|+..+|+...|+||..++.|||......+++|.+.|+..+
T Consensus 343 ~~Dp~y-IK~~KLeIL~~Lane~Nv~~IL~EL~eYa~d~D~ef~r~aIrAIg~lA~k~~~~a~~cV~~Ll~ll~~~~--- 418 (746)
T PTZ00429 343 YSDPPF-VKLEKLRLLLKLVTPSVAPEILKELAEYASGVDMVFVVEVVRAIASLAIKVDSVAPDCANLLLQIVDRRP--- 418 (746)
T ss_pred cCCcHH-HHHHHHHHHHHHcCcccHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHhChHHHHHHHHHHHHHhcCCc---
Confidence 579997 8999999999999999999999999999999999999999999999999999999999999999886533
Q ss_pred cccceeeehhhhcccCCcceEEEEEecCcchhhHHhHHHHHHHHHhhChhhHHHHHHhhhhhc--ccCcchHHHHHHHHH
Q psy8503 82 GGIDVLVRSKLAVSADTGVTMQLTVRSTSGLEYKASIADTIITIIEENPEAKETGLAHLCEFI--EDCEHTSLAVRILHL 159 (421)
Q Consensus 82 gg~dvL~rAkLal~~~~~vtm~l~vRs~~~~~~K~~ivd~i~~ii~~~p~~ke~~L~~LcefI--EDce~~~l~~rIL~~ 159 (421)
+|+..+|..+.+|++..|+. ..+..||+.+ ++...+..-.-++-+
T Consensus 419 -------------------------------~~v~e~i~vik~IlrkyP~~--~il~~L~~~~~~~~i~e~~AKaaiiWI 465 (746)
T PTZ00429 419 -------------------------------ELLPQVVTAAKDIVRKYPEL--LMLDTLVTDYGADEVVEEEAKVSLLWM 465 (746)
T ss_pred -------------------------------hhHHHHHHHHHHHHHHCccH--HHHHHHHHhhcccccccHHHHHHHHHH
Confidence 47788899999999999986 3788899876 788888888898999
Q ss_pred hcCCCCCCCCCccceeEEeeccccCchhHHHHHHHHHHHhHh---------------hhcCCCCh-hhhhhHHHHHHHHh
Q psy8503 160 LGKEGPRAKQPSKYIRFIYNRVILENATVRAAAVTAMAQFGA---------------LCQMDGDD-EVRDRATYYHSILA 223 (421)
Q Consensus 160 LG~egp~t~~P~kyIR~IyNRviLEn~~VRaAAv~aLakf~~---------------r~~~D~DD-EVRDRA~~yl~il~ 223 (421)
||+.+..-.+-..++|-+-|+...|++.||.+.++|.+|+.. +|..|.|| +|||||.+|.++|.
T Consensus 466 LGEy~~~I~~a~~~L~~~i~~f~~E~~~VqlqlLta~vKlfl~~p~~~~~~l~~vL~~~t~~~~d~DVRDRA~~Y~rLLs 545 (746)
T PTZ00429 466 LGEYCDFIENGKDIIQRFIDTIMEHEQRVQLAILSAAVKMFLRDPQGMEPQLNRVLETVTTHSDDPDVRDRAFAYWRLLS 545 (746)
T ss_pred HHhhHhhHhhHHHHHHHHHhhhccCCHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHhcCCChhHHHHHHHHHHHHc
Confidence 998776655555777555599999999999999999999987 55565555 99999999999997
Q ss_pred hhc-HHHHhhhhcCC
Q psy8503 224 SQN-KQLIQDYIIEP 237 (421)
Q Consensus 224 ~~~-~~~~~~~i~~~ 237 (421)
.+. .+.+++.+..+
T Consensus 546 ~~~~~~~a~~iv~~~ 560 (746)
T PTZ00429 546 KGITVAQMKKVVHGQ 560 (746)
T ss_pred CCCcHHHHHHHHcCC
Confidence 652 23455555433
No 5
>PF08752 COP-gamma_platf: Coatomer gamma subunit appendage platform subdomain; InterPro: IPR014863 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the C-terminal appendage domain of the gamma subunit of coatomer complexes. The appendage domain of the gamma coatomer subunit has a similar overall structural fold to the appendage domain of clathrin adaptors, and can also share the same motif-based cargo recognition and accessory factor recruitment mechanisms. The coatomer gamma subunit appendage domain contains a protein-protein interaction site and a second proposed binding site that interacts with the alpha, beta, epsilon COPI subcomplex []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0005798 Golgi-associated vesicle; PDB: 1PZD_A 1R4X_A.
Probab=99.73 E-value=4.6e-18 Score=153.76 Aligned_cols=65 Identities=38% Similarity=0.563 Sum_probs=46.7
Q ss_pred hHHHHHHHHhhhccccccCCCcccccccceeE-------EEEEEeeeecceeEEEEEeeCCCC-Ccccceeeccc
Q psy8503 301 RVESYYEKLSAALPEIANLPGTLFKSAAPVRR-------DLRSVFHSYAVSMRRQLDVHSASG-VGLEDLEISLS 367 (421)
Q Consensus 301 ~~~~y~e~L~~~ipe~~~l~G~l~kSs~pv~L-------~V~~vKHif~~hiVlQfdvdp~tg-~glEdlei~~~ 367 (421)
+++.|+++|+ +||+|++| |++||||+||+| +|+|+||+|++||||||+|.++-. +-|||+.|.+.
T Consensus 1 ~~~~y~~~l~-~ipe~~~l-G~l~kSs~~v~LTE~EtEY~V~~vKHiF~~hiVlQF~v~NTL~dq~LenV~V~~~ 73 (151)
T PF08752_consen 1 KQEEYAEQLS-KIPEFANL-GPLFKSSKPVELTESETEYVVSCVKHIFAEHIVLQFNVTNTLNDQVLENVSVVLE 73 (151)
T ss_dssp -HHHHHHHHH-TSGGGTTS--S--EE-S-EE-S-TTSSEEEEEEEEE-SSEEEEEEEEEE--TTEEEEEEEEEEE
T ss_pred ChHHHHHHHH-cChhHhhc-CcccccCCCEeccCcccEEEEEEEEEEecccEEEEEEEeeccCceeeeeEEEEEe
Confidence 3689999999 99999999 999999999999 999999999999999996666554 23666555543
No 6
>KOG1078|consensus
Probab=98.90 E-value=3.4e-10 Score=123.01 Aligned_cols=186 Identities=4% Similarity=-0.224 Sum_probs=151.4
Q ss_pred CCCCchhHHHHHHHHhhccCCcchHHHHHHHHHHhhhhhcchhhHHHHHHHHHHHHhCCchhHhHHHHHHHHHhhccccc
Q psy8503 2 ISDSNRSIATLAITTLLKTGSESSVDRLMKQIATFVSEISDEFKIVVVEAIRALCLKFPRKHAVLMNFLSAMLRDEGVFR 81 (421)
Q Consensus 2 I~DsNrsiatlAittLLKTG~E~svdrL~kqI~~fmseisdefKi~vv~ai~~Lc~kfp~K~~~~l~FL~~~Lr~eGvfr 81 (421)
|.+.|+..|+.+.+.+.|||-+..++++|+| .++.....+.++.+|.-...+.|.|+|.++.+..=+....+++-|
T Consensus 372 ivvvdai~sLc~~fp~k~~~~m~FL~~~Lr~-eGg~e~K~aivd~Ii~iie~~pdsKe~~L~~LCefIEDce~~~i~--- 447 (865)
T KOG1078|consen 372 IVVVDAIRSLCLKFPRKHTVMMNFLSNMLRE-EGGFEFKRAIVDAIIDIIEENPDSKERGLEHLCEFIEDCEFTQIA--- 447 (865)
T ss_pred EEeHHHHHHHHhhccHHHHHHHHHHHHHHHh-ccCchHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHhccchHHH---
Confidence 5677899999999999999999999999999 887777788888777777778899999988877666666666655
Q ss_pred cccceeeehhhhcccCCcceEEEEEecCcchhhHHhHHHHHHHHHhhChhhHHHHHHhhhhhcccCcchHHHHHHHHHhc
Q psy8503 82 GGIDVLVRSKLAVSADTGVTMQLTVRSTSGLEYKASIADTIITIIEENPEAKETGLAHLCEFIEDCEHTSLAVRILHLLG 161 (421)
Q Consensus 82 gg~dvL~rAkLal~~~~~vtm~l~vRs~~~~~~K~~ivd~i~~ii~~~p~~ke~~L~~LcefIEDce~~~l~~rIL~~LG 161 (421)
...++.-..|.........+..+.....|||++|++|.+.....++. +|
T Consensus 448 -----------------------------~rILhlLG~EgP~a~~Pskyir~iyNRviLEn~ivRaaAv~alaKfg--~~ 496 (865)
T KOG1078|consen 448 -----------------------------VRILHLLGKEGPKAPNPSKYIRFIYNRVILENAIVRAAAVSALAKFG--AQ 496 (865)
T ss_pred -----------------------------HHHHHHHhccCCCCCCcchhhHHHhhhhhhhhhhhHHHHHHHHHHHh--cC
Confidence 56666666666655555555677888999999999999999999998 99
Q ss_pred CCCCCCCCCccceeEEeeccccCchhHHHHHHHHHHHhHh---------hhcCCCChhhhhhHHHHHHHHhhh
Q psy8503 162 KEGPRAKQPSKYIRFIYNRVILENATVRAAAVTAMAQFGA---------LCQMDGDDEVRDRATYYHSILASQ 225 (421)
Q Consensus 162 ~egp~t~~P~kyIR~IyNRviLEn~~VRaAAv~aLakf~~---------r~~~D~DDEVRDRA~~yl~il~~~ 225 (421)
.+++..+=|..|.|+++|+.-.++..++.++.....+=.. +|+.+-|+++|||+ +.-+.+.
T Consensus 497 ~~~l~~sI~vllkRc~~D~DdevRdrAtf~l~~l~~~~~~l~~~~~~l~~s~~~le~~l~~y~---~~~~~~~ 566 (865)
T KOG1078|consen 497 DVVLLPSILVLLKRCLNDSDDEVRDRATFYLKNLEEKDDVLNQNYSGLFVSIPGLERSLVSYI---TGSFATP 566 (865)
T ss_pred CCCccccHHHHHHHHhcCchHHHHHHHHHHHHHhhhhhhhhcccccccccccchhHHHHHHHh---hcccccc
Confidence 9999999999999999999988888877777766622111 89999999999999 4555443
No 7
>KOG1061|consensus
Probab=97.41 E-value=0.00094 Score=73.63 Aligned_cols=189 Identities=19% Similarity=0.363 Sum_probs=147.6
Q ss_pred HHHhhccCCcchHHHHHHHHHHhhhhhcchhhHHHHHHHHHHHHhCCchhHhHHHHHHHHHhhccccccccceeeehhhh
Q psy8503 14 ITTLLKTGSESSVDRLMKQIATFVSEISDEFKIVVVEAIRALCLKFPRKHAVLMNFLSAMLRDEGVFRGGIDVLVRSKLA 93 (421)
Q Consensus 14 ittLLKTG~E~svdrL~kqI~~fmseisdefKi~vv~ai~~Lc~kfp~K~~~~l~FL~~~Lr~eGvfrgg~dvL~rAkLa 93 (421)
+-+|-+--+.+++.+++.....|..|+.-+|=--.|+||-.+..|+++.++.+-.||- .++-+
T Consensus 336 leil~~la~~~nl~qvl~El~eYatevD~~fvrkaIraig~~aik~e~~~~cv~~lLe-ll~~~---------------- 398 (734)
T KOG1061|consen 336 LEILIELANDANLAQVLAELKEYATEVDVDFVRKAVRAIGRLAIKAEQSNDCVSILLE-LLETK---------------- 398 (734)
T ss_pred HHHHHHHhhHhHHHHHHHHHHHhhhhhCHHHHHHHHHHhhhhhhhhhhhhhhHHHHHH-HHhhc----------------
Confidence 4456666789999999999999999999999999999999999999988655544443 22111
Q ss_pred cccCCcceEEEEEecCcchhh-HHhHHHHHHHHHhhChhhHHHHHHhhhhhcccCcchHHHHHHHHHhcCCCCCCCCCcc
Q psy8503 94 VSADTGVTMQLTVRSTSGLEY-KASIADTIITIIEENPEAKETGLAHLCEFIEDCEHTSLAVRILHLLGKEGPRAKQPSK 172 (421)
Q Consensus 94 l~~~~~vtm~l~vRs~~~~~~-K~~ivd~i~~ii~~~p~~ke~~L~~LcefIEDce~~~l~~rIL~~LG~egp~t~~P~k 172 (421)
.+| .+.++-.|-++.+..|..=+.....||+-+|--+-++.-.-..-+||+.+..-+|-..
T Consensus 399 ------------------~~yvvqE~~vvi~dilRkyP~~~~~vv~~l~~~~~sl~epeak~amiWilg~y~~~i~~a~e 460 (734)
T KOG1061|consen 399 ------------------VDYVVQEAIVVIRDILRKYPNKYESVVAILCENLDSLQEPEAKAALIWILGEYAERIENALE 460 (734)
T ss_pred ------------------ccceeeehhHHHHhhhhcCCCchhhhhhhhcccccccCChHHHHHHHHHHhhhhhccCcHHH
Confidence 111 2466777888889999998999999999999999999888888899999999988888
Q ss_pred ceeEEeeccccCchhHHHHHHHHHHHhHh---------------hhcCCCCh-hhhhhHHHHHHHHhhhcHHHHhhhhcC
Q psy8503 173 YIRFIYNRVILENATVRAAAVTAMAQFGA---------------LCQMDGDD-EVRDRATYYHSILASQNKQLIQDYIIE 236 (421)
Q Consensus 173 yIR~IyNRviLEn~~VRaAAv~aLakf~~---------------r~~~D~DD-EVRDRA~~yl~il~~~~~~~~~~~i~~ 236 (421)
++|-.---.-=|.+.|+..-.+|--|+-. .|-.|+|+ ++|||+-+|.++|. .++..+++++..
T Consensus 461 lL~~f~en~~dE~~~Vql~LLta~ik~Fl~~p~~tq~~l~~vL~~~~~d~~~~dlrDr~l~Y~RlLs-~~~~~a~~v~~~ 539 (734)
T KOG1061|consen 461 LLESFLENFKDETAEVQLELLTAAIKLFLKKPTETQELLQGVLPLATADTDNPDLRDRGLIYWRLLS-EDPLIAKDVVLA 539 (734)
T ss_pred HHHHHHhhcccchHHHHHHHHHHHHHHHhcCCccHHHHHHHHHhhhhccccChhhhhhHHHHHHHhh-cCHHHHHHHHhc
Confidence 88654444445567777666666555322 67778877 99999999999998 677778877765
Q ss_pred CC
Q psy8503 237 PL 238 (421)
Q Consensus 237 ~~ 238 (421)
+.
T Consensus 540 ~k 541 (734)
T KOG1061|consen 540 EK 541 (734)
T ss_pred CC
Confidence 44
No 8
>PF01602 Adaptin_N: Adaptin N terminal region; InterPro: IPR002553 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. Clathrin coats contain both clathrin and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors []. All AP complexes are heterotetramers composed of two large subunits (adaptins), a medium subunit (mu) and a small subunit (sigma). Each subunit has a specific function. Adaptin subunits recognise and bind to clathrin through their hinge region (clathrin box), and recruit accessory proteins that modulate AP function through their C-terminal appendage domains. By contrast, GGAs are monomers composed of four domains, which have functions similar to AP subunits: an N-terminal VHS (Vps27p/Hrs/Stam) domain, a GAT (GGA and Tom1) domain, a hinge region, and a C-terminal GAE (gamma-adaptin ear) domain. The GAE domain is similar to the AP gamma-adaptin ear domain, being responsible for the recruitment of accessory proteins that regulate clathrin-mediated endocytosis []. While clathrin mediates endocytic protein transport from ER to Golgi, coatomers (COPI, COPII) primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the N-terminal domain of various adaptins from different AP clathrin adaptor complexes (including AP1, AP2, AP3 and AP4), and from the beta and gamma subunits of various coatomer (COP) adaptors. This domain has a 2-layer alpha/alpha fold that forms a right-handed superhelix, and is a member of the ARM repeat superfamily []. The N-terminal region of the various AP adaptor proteins share strong sequence identity; by contrast, the C-terminal domains of different adaptins share similar structural folds, but have little sequence identity []. It has been proposed that the N-terminal domain interacts with another uniform component of the coated vesicles. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 1W63_C 2JKR_A 2JKT_A 2XA7_A 2VGL_B 3TJZ_E.
Probab=97.24 E-value=0.0031 Score=63.97 Aligned_cols=186 Identities=20% Similarity=0.226 Sum_probs=133.9
Q ss_pred CCCCchhHHHHHHHHhhccCCcchHHHHHHHHHHhhhhhcchhhHHHHHHHHHHHHhCCchhHh-HHHHHHHHHhhcccc
Q psy8503 2 ISDSNRSIATLAITTLLKTGSESSVDRLMKQIATFVSEISDEFKIVVVEAIRALCLKFPRKHAV-LMNFLSAMLRDEGVF 80 (421)
Q Consensus 2 I~DsNrsiatlAittLLKTG~E~svdrL~kqI~~fmseisdefKi~vv~ai~~Lc~kfp~K~~~-~l~FL~~~Lr~eGvf 80 (421)
++++|.-+-.+|+++|-+.++.+.++.+++.|...+++=+..-+--.+-++..+..++|+-... +..-+.+.|.+..
T Consensus 88 l~~~n~~~~~lAL~~l~~i~~~~~~~~l~~~v~~ll~~~~~~VRk~A~~~l~~i~~~~p~~~~~~~~~~l~~lL~d~~-- 165 (526)
T PF01602_consen 88 LNSPNPYIRGLALRTLSNIRTPEMAEPLIPDVIKLLSDPSPYVRKKAALALLKIYRKDPDLVEDELIPKLKQLLSDKD-- 165 (526)
T ss_dssp HCSSSHHHHHHHHHHHHHH-SHHHHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCHCCHHGGHHHHHHHHTTHSS--
T ss_pred hcCCCHHHHHHHHhhhhhhcccchhhHHHHHHHHHhcCCchHHHHHHHHHHHHHhccCHHHHHHHHHHHHhhhccCCc--
Confidence 3688999999999999999999999999999999999888878888888999999999997655 7888888886644
Q ss_pred ccccceeeehhhhcccCCcceEEEEEecCcchhhHHhHHHHHHHHHhhChhh----HHHHHHhhhhhcccCcchHHHHHH
Q psy8503 81 RGGIDVLVRSKLAVSADTGVTMQLTVRSTSGLEYKASIADTIITIIEENPEA----KETGLAHLCEFIEDCEHTSLAVRI 156 (421)
Q Consensus 81 rgg~dvL~rAkLal~~~~~vtm~l~vRs~~~~~~K~~ivd~i~~ii~~~p~~----ke~~L~~LcefIEDce~~~l~~rI 156 (421)
..-..+.+..+..+ +.+|+. -.....+||..+.++. +-+.+.+
T Consensus 166 -------------------------------~~V~~~a~~~l~~i-~~~~~~~~~~~~~~~~~L~~~l~~~~-~~~q~~i 212 (526)
T PF01602_consen 166 -------------------------------PSVVSAALSLLSEI-KCNDDSYKSLIPKLIRILCQLLSDPD-PWLQIKI 212 (526)
T ss_dssp -------------------------------HHHHHHHHHHHHHH-HCTHHHHTTHHHHHHHHHHHHHTCCS-HHHHHHH
T ss_pred -------------------------------chhHHHHHHHHHHH-ccCcchhhhhHHHHHHHhhhcccccc-hHHHHHH
Confidence 33445555555555 444543 3445566676665544 4578889
Q ss_pred HHHhcCCCCCCCCCc---cceeEEeeccccCchhHHHHHHHHHHHhHh-------------hhcCCCChhhhhhHHHHHH
Q psy8503 157 LHLLGKEGPRAKQPS---KYIRFIYNRVILENATVRAAAVTAMAQFGA-------------LCQMDGDDEVRDRATYYHS 220 (421)
Q Consensus 157 L~~LG~egp~t~~P~---kyIR~IyNRviLEn~~VRaAAv~aLakf~~-------------r~~~D~DDEVRDRA~~yl~ 220 (421)
+++|+.-+|...... +++..+.+.+-=-++.|+-.|+.++.++.. +.+.+.|.++|==|.-.+.
T Consensus 213 l~~l~~~~~~~~~~~~~~~~i~~l~~~l~s~~~~V~~e~~~~i~~l~~~~~~~~~~~~~L~~lL~s~~~nvr~~~L~~L~ 292 (526)
T PF01602_consen 213 LRLLRRYAPMEPEDADKNRIIEPLLNLLQSSSPSVVYEAIRLIIKLSPSPELLQKAINPLIKLLSSSDPNVRYIALDSLS 292 (526)
T ss_dssp HHHHTTSTSSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHTSSSHHHHHHHHHHHH
T ss_pred HHHHHhcccCChhhhhHHHHHHHHHHHhhccccHHHHHHHHHHHHhhcchHHHHhhHHHHHHHhhcccchhehhHHHHHH
Confidence 999998887654433 678888877777777888888877776443 5555666556544443333
Q ss_pred HH
Q psy8503 221 IL 222 (421)
Q Consensus 221 il 222 (421)
.+
T Consensus 293 ~l 294 (526)
T PF01602_consen 293 QL 294 (526)
T ss_dssp HH
T ss_pred Hh
Confidence 33
No 9
>KOG1062|consensus
Probab=96.78 E-value=0.014 Score=65.20 Aligned_cols=203 Identities=21% Similarity=0.333 Sum_probs=124.8
Q ss_pred CCCCchhHHHHHHHHhhccCCcchHHHHHHHHHHhhhhhcchh--hHHHHHHHHHHHHhCCchhHhHHHHHHHHHhhc--
Q psy8503 2 ISDSNRSIATLAITTLLKTGSESSVDRLMKQIATFVSEISDEF--KIVVVEAIRALCLKFPRKHAVLMNFLSAMLRDE-- 77 (421)
Q Consensus 2 I~DsNrsiatlAittLLKTG~E~svdrL~kqI~~fmseisdef--Ki~vv~ai~~Lc~kfp~K~~~~l~FL~~~Lr~e-- 77 (421)
++.+|.-+--||.++|=..|+++.+--|..++...++- +|++ |.-+.=|.| +-.|-|.--..++.-..+.|.+.
T Consensus 116 L~s~nq~vVglAL~alg~i~s~EmardlapeVe~Ll~~-~~~~irKKA~Lca~r-~irK~P~l~e~f~~~~~~lL~ek~h 193 (866)
T KOG1062|consen 116 LNSSNQYVVGLALCALGNICSPEMARDLAPEVERLLQH-RDPYIRKKAALCAVR-FIRKVPDLVEHFVIAFRKLLCEKHH 193 (866)
T ss_pred ccCCCeeehHHHHHHhhccCCHHHhHHhhHHHHHHHhC-CCHHHHHHHHHHHHH-HHHcCchHHHHhhHHHHHHHhhcCC
Confidence 35688888999999999999999888888888877766 5554 444433333 34567776666666666777664
Q ss_pred cccccccceeeehhhhcccCCcceEEEEEecCcchhhHHhHHHHHHHHHhhChhh---HHHHHHhhhhhcccCcchHHHH
Q psy8503 78 GVFRGGIDVLVRSKLAVSADTGVTMQLTVRSTSGLEYKASIADTIITIIEENPEA---KETGLAHLCEFIEDCEHTSLAV 154 (421)
Q Consensus 78 Gvfrgg~dvL~rAkLal~~~~~vtm~l~vRs~~~~~~K~~ivd~i~~ii~~~p~~---ke~~L~~LcefIEDce~~~l~~ 154 (421)
||.-+|.-++ . .+.-+|+++..|=+..++.++.+++.+-.. .|--... |-|.--..-..
T Consensus 194 GVL~~~l~l~------~--------e~c~~~~~~l~~fr~l~~~lV~iLk~l~~~~yspeydv~g----i~dPFLQi~iL 255 (866)
T KOG1062|consen 194 GVLIAGLHLI------T--------ELCKISPDALSYFRDLVPSLVKILKQLTNSGYSPEYDVHG----ISDPFLQIRIL 255 (866)
T ss_pred ceeeeHHHHH------H--------HHHhcCHHHHHHHHHHHHHHHHHHHHHhcCCCCCccCccC----CCchHHHHHHH
Confidence 4222222211 1 000133446766666888888888654332 1111111 22322222233
Q ss_pred HHHHHhcCCCCCCCCC------------------cc-----ceeEEeeccccCchhHHHHHHHHHHHhHh----------
Q psy8503 155 RILHLLGKEGPRAKQP------------------SK-----YIRFIYNRVILENATVRAAAVTAMAQFGA---------- 201 (421)
Q Consensus 155 rIL~~LG~egp~t~~P------------------~k-----yIR~IyNRviLEn~~VRaAAv~aLakf~~---------- 201 (421)
|+|.+||+..+.+++- .- -+|-|| -|..|+..|..|+..|+||-.
T Consensus 256 rlLriLGq~d~daSd~M~DiLaqvatntdsskN~GnAILYE~V~TI~--~I~~~~~LrvlainiLgkFL~n~d~NirYva 333 (866)
T KOG1062|consen 256 RLLRILGQNDADASDLMNDILAQVATNTDSSKNAGNAILYECVRTIM--DIRSNSGLRVLAINILGKFLLNRDNNIRYVA 333 (866)
T ss_pred HHHHHhcCCCccHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHH--hccCCchHHHHHHHHHHHHhcCCccceeeee
Confidence 4445566665544221 10 112222 267899999999999999977
Q ss_pred -----------------------hhcCCCChhhhhhHH-HHHHHHhhhc
Q psy8503 202 -----------------------LCQMDGDDEVRDRAT-YYHSILASQN 226 (421)
Q Consensus 202 -----------------------r~~~D~DDEVRDRA~-~yl~il~~~~ 226 (421)
-|+.|+|+-+|.||. +...+.+++|
T Consensus 334 Ln~L~r~V~~d~~avqrHr~tIleCL~DpD~SIkrralELs~~lvn~~N 382 (866)
T KOG1062|consen 334 LNMLLRVVQQDPTAVQRHRSTILECLKDPDVSIKRRALELSYALVNESN 382 (866)
T ss_pred hhhHHhhhcCCcHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHhcccc
Confidence 899999999999998 5555555443
No 10
>PRK09687 putative lyase; Provisional
Probab=96.28 E-value=0.06 Score=52.96 Aligned_cols=86 Identities=12% Similarity=0.119 Sum_probs=54.7
Q ss_pred HHHHHhhhhhcccCcchHHHHHHHHHhcCCCCCCCCC-----ccceeEEeeccccCchhHHHHHHHHHHHhHh-------
Q psy8503 134 ETGLAHLCEFIEDCEHTSLAVRILHLLGKEGPRAKQP-----SKYIRFIYNRVILENATVRAAAVTAMAQFGA------- 201 (421)
Q Consensus 134 e~~L~~LcefIEDce~~~l~~rIL~~LG~egp~t~~P-----~kyIR~IyNRviLEn~~VRaAAv~aLakf~~------- 201 (421)
...+..|.+...+.+-+.+-......||.-++...+| ...+...+. +++.||.+|+.||++++.
T Consensus 89 ~~a~~~L~~l~~~D~d~~VR~~A~~aLG~~~~~~~~~~~~a~~~l~~~~~D----~~~~VR~~a~~aLg~~~~~~ai~~L 164 (280)
T PRK09687 89 DNVFNILNNLALEDKSACVRASAINATGHRCKKNPLYSPKIVEQSQITAFD----KSTNVRFAVAFALSVINDEAAIPLL 164 (280)
T ss_pred HHHHHHHHHHHhcCCCHHHHHHHHHHHhcccccccccchHHHHHHHHHhhC----CCHHHHHHHHHHHhccCCHHHHHHH
Confidence 4556666655333333555556666666655444433 111111121 377899999999988875
Q ss_pred -hhcCCCChhhhhhHHHHHHHHh
Q psy8503 202 -LCQMDGDDEVRDRATYYHSILA 223 (421)
Q Consensus 202 -r~~~D~DDEVRDRA~~yl~il~ 223 (421)
.++.|+|.+||..|.+.+.-+.
T Consensus 165 ~~~L~d~~~~VR~~A~~aLg~~~ 187 (280)
T PRK09687 165 INLLKDPNGDVRNWAAFALNSNK 187 (280)
T ss_pred HHHhcCCCHHHHHHHHHHHhcCC
Confidence 8888999999999988887664
No 11
>PRK09687 putative lyase; Provisional
Probab=96.12 E-value=0.071 Score=52.48 Aligned_cols=178 Identities=15% Similarity=0.089 Sum_probs=105.8
Q ss_pred CCCCchhHHHHHHHHhhccCCcchHHHHHHHHHHhhhhhcchhhHHHHHHHHHHHHhCCch-hHhHHHHHHHHHhhcccc
Q psy8503 2 ISDSNRSIATLAITTLLKTGSESSVDRLMKQIATFVSEISDEFKIVVVEAIRALCLKFPRK-HAVLMNFLSAMLRDEGVF 80 (421)
Q Consensus 2 I~DsNrsiatlAittLLKTG~E~svdrL~kqI~~fmseisdefKi~vv~ai~~Lc~kfp~K-~~~~l~FL~~~Lr~eGvf 80 (421)
+.|.|..+-.-|+-.|-+.|+++.++.+.+-. .+=+-.-+...+.++-.|. .|.+ ....+..|...+.++.
T Consensus 32 L~d~d~~vR~~A~~aL~~~~~~~~~~~l~~ll----~~~d~~vR~~A~~aLg~lg--~~~~~~~~a~~~L~~l~~~D~-- 103 (280)
T PRK09687 32 LDDHNSLKRISSIRVLQLRGGQDVFRLAIELC----SSKNPIERDIGADILSQLG--MAKRCQDNVFNILNNLALEDK-- 103 (280)
T ss_pred HhCCCHHHHHHHHHHHHhcCcchHHHHHHHHH----hCCCHHHHHHHHHHHHhcC--CCccchHHHHHHHHHHHhcCC--
Confidence 56778888888888888888888777766532 1122233334444444432 2221 1234455555544433
Q ss_pred ccccceeeehhhhcccCCcceEEEEEecCcchhhHHhHHHHHHHHHhhChhhHHHHHHhhhhhcccCcchHHHHHHHHHh
Q psy8503 81 RGGIDVLVRSKLAVSADTGVTMQLTVRSTSGLEYKASIADTIITIIEENPEAKETGLAHLCEFIEDCEHTSLAVRILHLL 160 (421)
Q Consensus 81 rgg~dvL~rAkLal~~~~~vtm~l~vRs~~~~~~K~~ivd~i~~ii~~~p~~ke~~L~~LcefIEDce~~~l~~rIL~~L 160 (421)
...-+.+.+.++=.+-..-+.--..++.+|-....|. ...+-..+..-|
T Consensus 104 ------------------------------d~~VR~~A~~aLG~~~~~~~~~~~~a~~~l~~~~~D~-~~~VR~~a~~aL 152 (280)
T PRK09687 104 ------------------------------SACVRASAINATGHRCKKNPLYSPKIVEQSQITAFDK-STNVRFAVAFAL 152 (280)
T ss_pred ------------------------------CHHHHHHHHHHHhcccccccccchHHHHHHHHHhhCC-CHHHHHHHHHHH
Confidence 3444455555554442211111123445555556665 445666666777
Q ss_pred cCCCCCCCCCccceeEEeeccccCchhHHHHHHHHHHHhHh----------hhcCCCChhhhhhHHHHHHHHh
Q psy8503 161 GKEGPRAKQPSKYIRFIYNRVILENATVRAAAVTAMAQFGA----------LCQMDGDDEVRDRATYYHSILA 223 (421)
Q Consensus 161 G~egp~t~~P~kyIR~IyNRviLEn~~VRaAAv~aLakf~~----------r~~~D~DDEVRDRA~~yl~il~ 223 (421)
|+-+. | .-|..+-.-+-=+++.||..|+.+|++++. ..+.|.|++||-.|...+.-++
T Consensus 153 g~~~~----~-~ai~~L~~~L~d~~~~VR~~A~~aLg~~~~~~~~~~~~L~~~L~D~~~~VR~~A~~aLg~~~ 220 (280)
T PRK09687 153 SVIND----E-AAIPLLINLLKDPNGDVRNWAAFALNSNKYDNPDIREAFVAMLQDKNEEIRIEAIIGLALRK 220 (280)
T ss_pred hccCC----H-HHHHHHHHHhcCCCHHHHHHHHHHHhcCCCCCHHHHHHHHHHhcCCChHHHHHHHHHHHccC
Confidence 75542 2 345555555556788999999999998752 7889999999999988776553
No 12
>KOG1062|consensus
Probab=95.81 E-value=0.19 Score=56.61 Aligned_cols=187 Identities=20% Similarity=0.298 Sum_probs=135.9
Q ss_pred CCCCchhHHHHHHHHhhccCCcchHHHHHHHHHHhhhhhcchhhHHHHHHHHHHHHhCCchhHhHHHHHHHHHhhccccc
Q psy8503 2 ISDSNRSIATLAITTLLKTGSESSVDRLMKQIATFVSEISDEFKIVVVEAIRALCLKFPRKHAVLMNFLSAMLRDEGVFR 81 (421)
Q Consensus 2 I~DsNrsiatlAittLLKTG~E~svdrL~kqI~~fmseisdefKi~vv~ai~~Lc~kfp~K~~~~l~FL~~~Lr~eGvfr 81 (421)
+.|+.-||-.=|+--+.+.-|+++|.-++|.+-.||.-..++||-.++--|-.+..||--..+-.++-+-++|...|
T Consensus 359 L~DpD~SIkrralELs~~lvn~~Nv~~mv~eLl~fL~~~d~~~k~~~as~I~~laEkfaP~k~W~idtml~Vl~~aG--- 435 (866)
T KOG1062|consen 359 LKDPDVSIKRRALELSYALVNESNVRVMVKELLEFLESSDEDFKADIASKIAELAEKFAPDKRWHIDTMLKVLKTAG--- 435 (866)
T ss_pred hcCCcHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHhcc---
Confidence 35778888888888888889999999999999999999999999999999999999995444444455666888888
Q ss_pred cccceeeehhhhcccCCcceEEEEEecCcchhhHHhHHHHHHHHHhhC-hhhHHHHHHhh----hh----hcccCcchHH
Q psy8503 82 GGIDVLVRSKLAVSADTGVTMQLTVRSTSGLEYKASIADTIITIIEEN-PEAKETGLAHL----CE----FIEDCEHTSL 152 (421)
Q Consensus 82 gg~dvL~rAkLal~~~~~vtm~l~vRs~~~~~~K~~ivd~i~~ii~~~-p~~ke~~L~~L----ce----fIEDce~~~l 152 (421)
-.-+-.++..++.+|.+- |+.-+.....| .+ .|+---+.++
T Consensus 436 ------------------------------~~V~~dv~~nll~LIa~~~~e~~~y~~~rLy~a~~~~~~~~is~e~l~qV 485 (866)
T KOG1062|consen 436 ------------------------------DFVNDDVVNNLLRLIANAFQELHEYAVLRLYLALSEDTLLDISQEPLLQV 485 (866)
T ss_pred ------------------------------cccchhhHHHHHHHHhcCCcchhhHHHHHHHHHHhhhhhhhhhhhhHHHH
Confidence 223456788888888655 44433332222 11 2333333333
Q ss_pred HHHHHHHhcC-----------CCCCCCCCccceeEEeeccccCc--hhHHHHHHHHHHHhHhh--------------hcC
Q psy8503 153 AVRILHLLGK-----------EGPRAKQPSKYIRFIYNRVILEN--ATVRAAAVTAMAQFGAL--------------CQM 205 (421)
Q Consensus 153 ~~rIL~~LG~-----------egp~t~~P~kyIR~IyNRviLEn--~~VRaAAv~aLakf~~r--------------~~~ 205 (421)
+. --||+ ++|-.-+++..+-++|+=+..-+ +++++-|+.||.|+..| +..
T Consensus 486 a~---W~IGEYGdlll~~~~~~~p~~vtesdivd~l~~v~~~~~s~~~tk~yal~Al~KLSsr~~s~~~ri~~lI~~~~~ 562 (866)
T KOG1062|consen 486 AS---WCIGEYGDLLLDGANEEEPIKVTESDIVDKLEKVLMSHSSDSTTKGYALTALLKLSSRFHSSSERIKQLISSYKS 562 (866)
T ss_pred HH---HHhhhhhHHhhcCccccCCCcCCHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHhhccccHHHHHHHHHHhcc
Confidence 33 33444 44778888998988887665443 68999999999999982 233
Q ss_pred CCChhhhhhHHHHHHHHhh
Q psy8503 206 DGDDEVRDRATYYHSILAS 224 (421)
Q Consensus 206 D~DDEVRDRA~~yl~il~~ 224 (421)
--|=|++-||.=|..+++.
T Consensus 563 s~~~elQQRa~E~~~l~~~ 581 (866)
T KOG1062|consen 563 SLDTELQQRAVEYNALFAK 581 (866)
T ss_pred cccHHHHHHHHHHHHHHHH
Confidence 4577899999999999854
No 13
>PRK13800 putative oxidoreductase/HEAT repeat-containing protein; Provisional
Probab=95.37 E-value=0.27 Score=55.45 Aligned_cols=42 Identities=33% Similarity=0.251 Sum_probs=23.5
Q ss_pred cccCchhHHHHHHHHHHHhHh----------hhcCCCChhhhhhHHHHHHHH
Q psy8503 181 VILENATVRAAAVTAMAQFGA----------LCQMDGDDEVRDRATYYHSIL 222 (421)
Q Consensus 181 viLEn~~VRaAAv~aLakf~~----------r~~~D~DDEVRDRA~~yl~il 222 (421)
+-=+++.||.+|..+|+.++. +.+.|+|.+||-.|.-.|.-+
T Consensus 751 l~D~~~~VR~~aa~aL~~~~~~~~~~~~~L~~ll~D~d~~VR~aA~~aLg~~ 802 (897)
T PRK13800 751 ATDENREVRIAVAKGLATLGAGGAPAGDAVRALTGDPDPLVRAAALAALAEL 802 (897)
T ss_pred hcCCCHHHHHHHHHHHHHhccccchhHHHHHHHhcCCCHHHHHHHHHHHHhc
Confidence 333555666666666665542 445566666666665555444
No 14
>PRK13800 putative oxidoreductase/HEAT repeat-containing protein; Provisional
Probab=95.31 E-value=0.22 Score=56.19 Aligned_cols=40 Identities=25% Similarity=0.174 Sum_probs=20.6
Q ss_pred cCchhHHHHHHHHHHHhHh-----hhcCCCChhhhhhHHHHHHHH
Q psy8503 183 LENATVRAAAVTAMAQFGA-----LCQMDGDDEVRDRATYYHSIL 222 (421)
Q Consensus 183 LEn~~VRaAAv~aLakf~~-----r~~~D~DDEVRDRA~~yl~il 222 (421)
=+++.||.+|+.+|+++.. ..+.|+|.+||-.|.--+.-+
T Consensus 725 D~d~~VR~~Av~aL~~~~~~~~l~~~l~D~~~~VR~~aa~aL~~~ 769 (897)
T PRK13800 725 DPDHRVRIEAVRALVSVDDVESVAGAATDENREVRIAVAKGLATL 769 (897)
T ss_pred CCCHHHHHHHHHHHhcccCcHHHHHHhcCCCHHHHHHHHHHHHHh
Confidence 3445555555555555432 445555555555555444444
No 15
>PF12717 Cnd1: non-SMC mitotic condensation complex subunit 1
Probab=95.25 E-value=0.11 Score=47.30 Aligned_cols=58 Identities=22% Similarity=0.320 Sum_probs=46.8
Q ss_pred cceeEEeeccccCchhHHHHHHHHHHHhHh---------------hhcCCCChhhhhhHHHHHHHHhhh-cHHH
Q psy8503 172 KYIRFIYNRVILENATVRAAAVTAMAQFGA---------------LCQMDGDDEVRDRATYYHSILASQ-NKQL 229 (421)
Q Consensus 172 kyIR~IyNRviLEn~~VRaAAv~aLakf~~---------------r~~~D~DDEVRDRA~~yl~il~~~-~~~~ 229 (421)
.|+.++|+++.=+++.||..|+..|++... +|+.|+|++||+-|.+++.-+... +++.
T Consensus 25 ~~~~~l~~~L~D~~~~VR~~al~~Ls~Li~~d~ik~k~~l~~~~l~~l~D~~~~Ir~~A~~~~~e~~~~~~~~~ 98 (178)
T PF12717_consen 25 PYLPNLYKCLRDEDPLVRKTALLVLSHLILEDMIKVKGQLFSRILKLLVDENPEIRSLARSFFSELLKKRNPNI 98 (178)
T ss_pred hHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCceeehhhhhHHHHHHHcCCCHHHHHHHHHHHHHHHHhccchH
Confidence 467777777777889999999999999776 899999999999999777655444 4443
No 16
>PF10508 Proteasom_PSMB: Proteasome non-ATPase 26S subunit; InterPro: IPR019538 The 26S proteasome is an enzymatic complex that degrades ubiquitinated proteins in eukaryotic cells. 26S proteasome non-ATPase regulatory subunit 5 is one of a number of chaperones that are involved in the assembly of the proteasome. The chaperones dissociate before 26S proteasome formation is complete [].; GO: 0044183 protein binding involved in protein folding
Probab=95.09 E-value=0.26 Score=52.11 Aligned_cols=167 Identities=19% Similarity=0.365 Sum_probs=108.1
Q ss_pred CCCCchhHHHHHHHHhhccCC-cchHHHH-----HHHHHHhhhhhcchhhHHHHHHHHHHHHhCCchhHhHHH--HHHHH
Q psy8503 2 ISDSNRSIATLAITTLLKTGS-ESSVDRL-----MKQIATFVSEISDEFKIVVVEAIRALCLKFPRKHAVLMN--FLSAM 73 (421)
Q Consensus 2 I~DsNrsiatlAittLLKTG~-E~svdrL-----~kqI~~fmseisdefKi~vv~ai~~Lc~kfp~K~~~~l~--FL~~~ 73 (421)
+.|.+-++|.-|+.+|-+.+. +...+.| +..+...|..=++.-+.=|.+.+-.++..-|.-.....+ ++...
T Consensus 128 L~~~d~~Va~~A~~~L~~l~~~~~~~~~l~~~~~~~~L~~l~~~~~~~vR~Rv~el~v~i~~~S~~~~~~~~~sgll~~l 207 (503)
T PF10508_consen 128 LRDPDLSVAKAAIKALKKLASHPEGLEQLFDSNLLSKLKSLMSQSSDIVRCRVYELLVEIASHSPEAAEAVVNSGLLDLL 207 (503)
T ss_pred HcCCcHHHHHHHHHHHHHHhCCchhHHHHhCcchHHHHHHHHhccCHHHHHHHHHHHHHHHhcCHHHHHHHHhccHHHHH
Confidence 678999999999999999864 4455556 677888887767788888999999998877776666554 77777
Q ss_pred HhhccccccccceeeehhhhcccCCcceEEEEEecCcchhhHHhHHHHHHHHHhhChh-----hHHHHHHhhhhhcccCc
Q psy8503 74 LRDEGVFRGGIDVLVRSKLAVSADTGVTMQLTVRSTSGLEYKASIADTIITIIEENPE-----AKETGLAHLCEFIEDCE 148 (421)
Q Consensus 74 Lr~eGvfrgg~dvL~rAkLal~~~~~vtm~l~vRs~~~~~~K~~ivd~i~~ii~~~p~-----~ke~~L~~LcefIEDce 148 (421)
+++=- +.| .-.|.++++.+..+.+ .|. .+..++..|++.|++.+
T Consensus 208 l~eL~----~dD--------------------------iLvqlnalell~~La~-~~~g~~yL~~~gi~~~L~~~l~~~~ 256 (503)
T PF10508_consen 208 LKELD----SDD--------------------------ILVQLNALELLSELAE-TPHGLQYLEQQGIFDKLSNLLQDSE 256 (503)
T ss_pred HHHhc----Ccc--------------------------HHHHHHHHHHHHHHHc-ChhHHHHHHhCCHHHHHHHHHhccc
Confidence 76522 133 4445566666666554 332 22345556666666665
Q ss_pred chH-----HHHHHHHHhcCCCCCCCCCc-------cceeEEeeccccCchhHHHHHHHHHHHhHh
Q psy8503 149 HTS-----LAVRILHLLGKEGPRAKQPS-------KYIRFIYNRVILENATVRAAAVTAMAQFGA 201 (421)
Q Consensus 149 ~~~-----l~~rIL~~LG~egp~t~~P~-------kyIR~IyNRviLEn~~VRaAAv~aLakf~~ 201 (421)
-.. +..-.++|.|.-.-. +|. .++..+++-+-=+++..|.+|+.||+.||.
T Consensus 257 ~dp~~~~~~l~g~~~f~g~la~~--~~~~v~~~~p~~~~~l~~~~~s~d~~~~~~A~dtlg~igs 319 (503)
T PF10508_consen 257 EDPRLSSLLLPGRMKFFGNLARV--SPQEVLELYPAFLERLFSMLESQDPTIREVAFDTLGQIGS 319 (503)
T ss_pred cCCcccchhhhhHHHHHHHHHhc--ChHHHHHHHHHHHHHHHHHhCCCChhHHHHHHHHHHHHhC
Confidence 444 222223444432111 222 344444544445789999999999999998
No 17
>KOG1058|consensus
Probab=95.07 E-value=2.5 Score=48.12 Aligned_cols=56 Identities=21% Similarity=0.444 Sum_probs=46.4
Q ss_pred ccceeeccccccccccCC--ChHHHHhhhcccCCcccceeeEec-cCcccHHHHHHHhhcccCCCC
Q psy8503 359 LEDLEISLSDQMAKVNKP--NFLALWEEAETDESMNEMEDTFCL-SKMESIQEAVASILLPFPRYC 421 (421)
Q Consensus 359 lEdlei~~~D~i~~~~~~--nF~~~We~l~~~~~~~e~~~tf~L-~~~~sl~~Av~~i~~~fg~~~ 421 (421)
|.|+-+.+.|||+|.... .|+.-|.+.+ -+.++.+ +++++|.|-..+|++---|-|
T Consensus 816 LndIhidImDYI~Pa~~~d~~FRtmW~efE-------WENKvtv~t~~~~L~e~l~~i~kstNmkc 874 (948)
T KOG1058|consen 816 LNDIHIDIMDYIKPAKCDDDEFRTMWAEFE-------WENKVTVNTTIKTLREFLGHISKSTNMKC 874 (948)
T ss_pred eccccccHHHhcCCCcCChHHHHHHHHHhh-------hcceeeeccccccHHHHHHHHHhhcCCcc
Confidence 999999999999999987 7999998863 3355666 477899999999988777766
No 18
>PF13646 HEAT_2: HEAT repeats; PDB: 1OYZ_A 3FGA_A 2PF4_C 2IAE_A 3B2A_A.
Probab=95.06 E-value=0.017 Score=44.92 Aligned_cols=35 Identities=34% Similarity=0.407 Sum_probs=23.6
Q ss_pred CchhHHHHHHHHHHHhHh--------hhc-CCCChhhhhhHHHH
Q psy8503 184 ENATVRAAAVTAMAQFGA--------LCQ-MDGDDEVRDRATYY 218 (421)
Q Consensus 184 En~~VRaAAv~aLakf~~--------r~~-~D~DDEVRDRA~~y 218 (421)
+++.||.+|+.+|+++|. +.+ +|.|+.||.-|...
T Consensus 43 ~~~~vr~~a~~aL~~i~~~~~~~~L~~~l~~~~~~~vr~~a~~a 86 (88)
T PF13646_consen 43 EDPMVRRAAARALGRIGDPEAIPALIKLLQDDDDEVVREAAAEA 86 (88)
T ss_dssp SSHHHHHHHHHHHHCCHHHHTHHHHHHHHTC-SSHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHHhCCHHHHHHHHHHHcCCCcHHHHHHHHhh
Confidence 467799999999999887 434 44455567666543
No 19
>PF13513 HEAT_EZ: HEAT-like repeat; PDB: 2Z5J_A 2OT8_B 2Z5O_A 2H4M_A 2QMR_A 1QBK_B 2Z5M_A 2Z5K_A 2Z5N_A 1GCJ_B ....
Probab=94.57 E-value=0.036 Score=40.77 Aligned_cols=35 Identities=31% Similarity=0.357 Sum_probs=29.8
Q ss_pred hhHHHHHHHHHHHhHh------------------hhcCCCChhhhhhHHHHHH
Q psy8503 186 ATVRAAAVTAMAQFGA------------------LCQMDGDDEVRDRATYYHS 220 (421)
Q Consensus 186 ~~VRaAAv~aLakf~~------------------r~~~D~DDEVRDRA~~yl~ 220 (421)
+.||.+|..+|+.++. .++.|.+++||..|...+.
T Consensus 1 p~vR~~A~~aLg~l~~~~~~~~~~~~~~~~~~L~~~L~d~~~~VR~~A~~aLg 53 (55)
T PF13513_consen 1 PRVRRAAAWALGRLAEGCPELLQPYLPELLPALIPLLQDDDDSVRAAAAWALG 53 (55)
T ss_dssp HHHHHHHHHHHHCTTTTTHHHHHHHHHHHHHHHHHHTTSSSHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHhhHhcccHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHh
Confidence 5799999999998764 8889999999999987654
No 20
>PF12348 CLASP_N: CLASP N terminal; InterPro: IPR024395 This domain is found in the N-terminal region of CLIP-associated proteins (CLASPs), which are widely conserved microtubule plus-end-tracking proteins that regulate the stability of dynamic microtubules [, ]. The domain is also found in other proteins involved in microtubule binding, including STU1, MOR1 and spindle pole body component Alp14.; PDB: 2QK2_A.
Probab=94.29 E-value=0.98 Score=41.53 Aligned_cols=37 Identities=22% Similarity=0.089 Sum_probs=22.6
Q ss_pred HHHhHhhhcCCCChhhhhhHHHHHHHHhhhcHHHHhh
Q psy8503 196 MAQFGALCQMDGDDEVRDRATYYHSILASQNKQLIQD 232 (421)
Q Consensus 196 Lakf~~r~~~D~DDEVRDRA~~yl~il~~~~~~~~~~ 232 (421)
+.+.-.+++.|.|.+||+-|.--+..|.+.-++.+..
T Consensus 178 l~~~l~~~l~D~~~~VR~~Ar~~~~~l~~~~~~~a~~ 214 (228)
T PF12348_consen 178 LVKALVKLLSDADPEVREAARECLWALYSHFPERAES 214 (228)
T ss_dssp HHHHHHHHHTSS-HHHHHHHHHHHHHHHHHH-HHH--
T ss_pred HHHHHHHHCCCCCHHHHHHHHHHHHHHHHHCCHhhcc
Confidence 3333348999999999999986666665544444443
No 21
>PTZ00429 beta-adaptin; Provisional
Probab=93.80 E-value=2 Score=48.40 Aligned_cols=162 Identities=16% Similarity=0.223 Sum_probs=100.1
Q ss_pred CCCCchhHHHHHHHHhhccCCcchHHHHHHHHHHhhhhhcchhhHHHHHHHHHHHHhCCch--hHhHHHHHHHHHhhccc
Q psy8503 2 ISDSNRSIATLAITTLLKTGSESSVDRLMKQIATFVSEISDEFKIVVVEAIRALCLKFPRK--HAVLMNFLSAMLRDEGV 79 (421)
Q Consensus 2 I~DsNrsiatlAittLLKTG~E~svdrL~kqI~~fmseisdefKi~vv~ai~~Lc~kfp~K--~~~~l~FL~~~Lr~eGv 79 (421)
++|+|.-|-.||+.||-+.+..+-++-++.-|..-++|-+---+--.+=++-.|-..+|.- ..-+++.|...|.+..
T Consensus 114 l~d~Np~IRaLALRtLs~Ir~~~i~e~l~~~lkk~L~D~~pYVRKtAalai~Kly~~~pelv~~~~~~~~L~~LL~D~d- 192 (746)
T PTZ00429 114 TTNSSPVVRALAVRTMMCIRVSSVLEYTLEPLRRAVADPDPYVRKTAAMGLGKLFHDDMQLFYQQDFKKDLVELLNDNN- 192 (746)
T ss_pred cCCCCHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhhCcccccccchHHHHHHHhcCCC-
Confidence 4688999999999999999999999999888888877766666666666666777677754 2235566666665433
Q ss_pred cccccceeeehhhhcccCCcceEEEEEecCcchhhHHhHHHHHHHHHhhChh---hHHHHHHhhhhhcccCcchHHHHHH
Q psy8503 80 FRGGIDVLVRSKLAVSADTGVTMQLTVRSTSGLEYKASIADTIITIIEENPE---AKETGLAHLCEFIEDCEHTSLAVRI 156 (421)
Q Consensus 80 frgg~dvL~rAkLal~~~~~vtm~l~vRs~~~~~~K~~ivd~i~~ii~~~p~---~ke~~L~~LcefIEDce~~~l~~rI 156 (421)
-.-..+.+-++..|.+..|+ .-...+.+||.-|-+|. .-..+.|
T Consensus 193 --------------------------------p~Vv~nAl~aL~eI~~~~~~~l~l~~~~~~~Ll~~L~e~~-EW~Qi~I 239 (746)
T PTZ00429 193 --------------------------------PVVASNAAAIVCEVNDYGSEKIESSNEWVNRLVYHLPECN-EWGQLYI 239 (746)
T ss_pred --------------------------------ccHHHHHHHHHHHHHHhCchhhHHHHHHHHHHHHHhhcCC-hHHHHHH
Confidence 22223344444444443332 11234556777776664 4556678
Q ss_pred HHHhcCCCCCCCCCccceeEEeeccc----cCchhHHHHHHHHHHHhH
Q psy8503 157 LHLLGKEGPRAKQPSKYIRFIYNRVI----LENATVRAAAVTAMAQFG 200 (421)
Q Consensus 157 L~~LG~egp~t~~P~kyIR~IyNRvi----LEn~~VRaAAv~aLakf~ 200 (421)
|.+|-+..|...+ . ...|.||+. =-|+.|--+|+.++-+++
T Consensus 240 L~lL~~y~P~~~~--e-~~~il~~l~~~Lq~~N~AVVl~Aik~il~l~ 284 (746)
T PTZ00429 240 LELLAAQRPSDKE--S-AETLLTRVLPRMSHQNPAVVMGAIKVVANLA 284 (746)
T ss_pred HHHHHhcCCCCcH--H-HHHHHHHHHHHhcCCCHHHHHHHHHHHHHhc
Confidence 8888776665422 1 223344433 256777777776666544
No 22
>COG1413 FOG: HEAT repeat [Energy production and conversion]
Probab=89.73 E-value=5.2 Score=38.94 Aligned_cols=179 Identities=25% Similarity=0.249 Sum_probs=94.1
Q ss_pred CCCchhHHHHHHHHhhccCCcchHHHHHHHHHHhhhhhcchhhHHHHHHHHHHH-HhCCchhHhHHHHHHHHHhhccccc
Q psy8503 3 SDSNRSIATLAITTLLKTGSESSVDRLMKQIATFVSEISDEFKIVVVEAIRALC-LKFPRKHAVLMNFLSAMLRDEGVFR 81 (421)
Q Consensus 3 ~DsNrsiatlAittLLKTG~E~svdrL~kqI~~fmseisdefKi~vv~ai~~Lc-~kfp~K~~~~l~FL~~~Lr~eGvfr 81 (421)
.|.+..+-.-|...|-.+|++..+.-|.+.+.+ +-..+--.|+..|. .+.|.....++.+|.+ ++.
T Consensus 53 ~~~~~~vr~~aa~~l~~~~~~~av~~l~~~l~d-------~~~~vr~~a~~aLg~~~~~~a~~~li~~l~~---d~~--- 119 (335)
T COG1413 53 EDEDLLVRLSAAVALGELGSEEAVPLLRELLSD-------EDPRVRDAAADALGELGDPEAVPPLVELLEN---DEN--- 119 (335)
T ss_pred cCCCHHHHHHHHHHHhhhchHHHHHHHHHHhcC-------CCHHHHHHHHHHHHccCChhHHHHHHHHHHc---CCc---
Confidence 455667777777778888888877766665443 22244445555553 3345566666666664 211
Q ss_pred cccceeeehhhhcccCCcceEEEEEecCcchhhHHhHHHHHHHHHh-hChhhHHHHHHhhhhhcccCcchHHHHHHHHHh
Q psy8503 82 GGIDVLVRSKLAVSADTGVTMQLTVRSTSGLEYKASIADTIITIIE-ENPEAKETGLAHLCEFIEDCEHTSLAVRILHLL 160 (421)
Q Consensus 82 gg~dvL~rAkLal~~~~~vtm~l~vRs~~~~~~K~~ivd~i~~ii~-~~p~~ke~~L~~LcefIEDce~~~l~~rIL~~L 160 (421)
--+|+.-+..-+ ...=+++ ++.++.+.. ....+ +...+ +++.. ..-..+..-|
T Consensus 120 ----~~vR~~aa~aL~-------------~~~~~~a-~~~l~~~l~~~~~~~---a~~~~----~~~~~-~~r~~a~~~l 173 (335)
T COG1413 120 ----EGVRAAAARALG-------------KLGDERA-LDPLLEALQDEDSGS---AAAAL----DAALL-DVRAAAAEAL 173 (335)
T ss_pred ----HhHHHHHHHHHH-------------hcCchhh-hHHHHHHhccchhhh---hhhhc----cchHH-HHHHHHHHHH
Confidence 112222222111 1222222 333333332 22222 11111 11211 3333344455
Q ss_pred cCCCCCCCCCccceeEEeeccccCchhHHHHHHHHHHHhHh----------hhcCCCChhhhhhHHHHHHHHhhh
Q psy8503 161 GKEGPRAKQPSKYIRFIYNRVILENATVRAAAVTAMAQFGA----------LCQMDGDDEVRDRATYYHSILASQ 225 (421)
Q Consensus 161 G~egp~t~~P~kyIR~IyNRviLEn~~VRaAAv~aLakf~~----------r~~~D~DDEVRDRA~~yl~il~~~ 225 (421)
|.-|.. +.+-.+-+++--+...||.+|..+|++++. ..+.|++.+||-++..-+..+...
T Consensus 174 ~~~~~~-----~~~~~l~~~l~~~~~~vr~~Aa~aL~~~~~~~~~~~~~l~~~~~~~~~~vr~~~~~~l~~~~~~ 243 (335)
T COG1413 174 GELGDP-----EAIPLLIELLEDEDADVRRAAASALGQLGSENVEAADLLVKALSDESLEVRKAALLALGEIGDE 243 (335)
T ss_pred HHcCCh-----hhhHHHHHHHhCchHHHHHHHHHHHHHhhcchhhHHHHHHHHhcCCCHHHHHHHHHHhcccCcc
Confidence 544332 333344456666666788888888888776 677888888888887766655433
No 23
>cd00020 ARM Armadillo/beta-catenin-like repeats. An approximately 40 amino acid long tandemly repeated sequence motif first identified in the Drosophila segment polarity gene armadillo; these repeats were also found in the mammalian armadillo homolog beta-catenin, the junctional plaque protein plakoglobin, the adenomatous polyposis coli (APC) tumor suppressor protein, and a number of other proteins. ARM has been implicated in mediating protein-protein interactions, but no common features among the target proteins recognized by the ARM repeats have been identified; related to the HEAT domain; three consecutive copies of the repeat are represented by this alignment model.
Probab=89.50 E-value=0.96 Score=36.00 Aligned_cols=37 Identities=24% Similarity=0.216 Sum_probs=25.4
Q ss_pred CchhHHHHHHHHHHHhHh-------------------hhcCCCChhhhhhHHHHHH
Q psy8503 184 ENATVRAAAVTAMAQFGA-------------------LCQMDGDDEVRDRATYYHS 220 (421)
Q Consensus 184 En~~VRaAAv~aLakf~~-------------------r~~~D~DDEVRDRA~~yl~ 220 (421)
.++.||..|+.+|+.++. +++.+.|.++|..|...+.
T Consensus 61 ~~~~v~~~a~~~L~~l~~~~~~~~~~~~~~g~l~~l~~~l~~~~~~~~~~a~~~l~ 116 (120)
T cd00020 61 EDEEVVKAALWALRNLAAGPEDNKLIVLEAGGVPKLVNLLDSSNEDIQKNATGALS 116 (120)
T ss_pred CCHHHHHHHHHHHHHHccCcHHHHHHHHHCCChHHHHHHHhcCCHHHHHHHHHHHH
Confidence 568899999999998865 5555556666665554443
No 24
>PF13646 HEAT_2: HEAT repeats; PDB: 1OYZ_A 3FGA_A 2PF4_C 2IAE_A 3B2A_A.
Probab=89.30 E-value=0.34 Score=37.63 Aligned_cols=41 Identities=27% Similarity=0.288 Sum_probs=34.5
Q ss_pred CchhHHHHHHHHHHHhHh--------hhcCCCChhhhhhHHHHHHHHhh
Q psy8503 184 ENATVRAAAVTAMAQFGA--------LCQMDGDDEVRDRATYYHSILAS 224 (421)
Q Consensus 184 En~~VRaAAv~aLakf~~--------r~~~D~DDEVRDRA~~yl~il~~ 224 (421)
+++.||..|+.+|++++. ..+.|+|..||..|...+.-+..
T Consensus 12 ~~~~vr~~a~~~L~~~~~~~~~~~L~~~l~d~~~~vr~~a~~aL~~i~~ 60 (88)
T PF13646_consen 12 PDPQVRAEAARALGELGDPEAIPALIELLKDEDPMVRRAAARALGRIGD 60 (88)
T ss_dssp SSHHHHHHHHHHHHCCTHHHHHHHHHHHHTSSSHHHHHHHHHHHHCCHH
T ss_pred CCHHHHHHHHHHHHHcCCHhHHHHHHHHHcCCCHHHHHHHHHHHHHhCC
Confidence 467888888888888876 77799999999999999887753
No 25
>PF14806 Coatomer_b_Cpla: Coatomer beta subunit appendage platform
Probab=88.42 E-value=0.5 Score=42.80 Aligned_cols=56 Identities=21% Similarity=0.472 Sum_probs=46.1
Q ss_pred ccceeeccccccccccCC--ChHHHHhhhcccCCcccceeeEecc-CcccHHHHHHHhhcccCCCC
Q psy8503 359 LEDLEISLSDQMAKVNKP--NFLALWEEAETDESMNEMEDTFCLS-KMESIQEAVASILLPFPRYC 421 (421)
Q Consensus 359 lEdlei~~~D~i~~~~~~--nF~~~We~l~~~~~~~e~~~tf~L~-~~~sl~~Av~~i~~~fg~~~ 421 (421)
|.|+.|.+-|||+|.... .|+..|.+. |-|..+++. ...+|.+=++.+++..-|.|
T Consensus 7 LNdIhIdImDyI~Pa~~~~~~FR~mW~eF-------EWENKi~V~t~~~dl~~yl~~i~k~tnM~~ 65 (129)
T PF14806_consen 7 LNDIHIDIMDYIKPATCSDEEFRSMWAEF-------EWENKISVNTNITDLREYLDHIMKSTNMKC 65 (129)
T ss_pred cccceEcHHHhcCcccCCHHHHHHHHHhh-------eeeeeEEEecCCCCHHHHHHHHHHhcCcce
Confidence 678999999999999987 899999885 334577774 44589999999998877766
No 26
>PF12755 Vac14_Fab1_bd: Vacuolar 14 Fab1-binding region
Probab=88.31 E-value=0.81 Score=38.88 Aligned_cols=40 Identities=25% Similarity=0.332 Sum_probs=35.7
Q ss_pred CchhHHHHHHHHHHHhHh------------------hhcCCCChhhhhhHHHHHHHHh
Q psy8503 184 ENATVRAAAVTAMAQFGA------------------LCQMDGDDEVRDRATYYHSILA 223 (421)
Q Consensus 184 En~~VRaAAv~aLakf~~------------------r~~~D~DDEVRDRA~~yl~il~ 223 (421)
+++.||-+|..||.+++. +...|.|+.||.-|.+.-++|+
T Consensus 39 ~d~rVRy~AcEaL~ni~k~~~~~~l~~f~~IF~~L~kl~~D~d~~Vr~~a~~Ld~llk 96 (97)
T PF12755_consen 39 QDSRVRYYACEALYNISKVARGEILPYFNEIFDALCKLSADPDENVRSAAELLDRLLK 96 (97)
T ss_pred CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCchhHHHHHHHHHHHhc
Confidence 367899999999999887 8999999999999999888775
No 27
>COG1413 FOG: HEAT repeat [Energy production and conversion]
Probab=86.35 E-value=28 Score=33.98 Aligned_cols=43 Identities=35% Similarity=0.372 Sum_probs=37.3
Q ss_pred hHHHHHHHHHHHhHh--------hhcCCCChhhhhhHHHHHHHHhhhcHHH
Q psy8503 187 TVRAAAVTAMAQFGA--------LCQMDGDDEVRDRATYYHSILASQNKQL 229 (421)
Q Consensus 187 ~VRaAAv~aLakf~~--------r~~~D~DDEVRDRA~~yl~il~~~~~~~ 229 (421)
.+|.+|+.+|++++. ..+.|.++.||-+|...+.-+...+...
T Consensus 164 ~~r~~a~~~l~~~~~~~~~~~l~~~l~~~~~~vr~~Aa~aL~~~~~~~~~~ 214 (335)
T COG1413 164 DVRAAAAEALGELGDPEAIPLLIELLEDEDADVRRAAASALGQLGSENVEA 214 (335)
T ss_pred HHHHHHHHHHHHcCChhhhHHHHHHHhCchHHHHHHHHHHHHHhhcchhhH
Confidence 699999999999998 8899999999999999998887664333
No 28
>PF02985 HEAT: HEAT repeat; InterPro: IPR000357 The HEAT repeat is a tandemly repeated, 37-47 amino acid long module occurring in a number of cytoplasmic proteins, including the four name-giving proteins huntingtin, elongation factor 3 (EF3), the 65 Kd alpha regulatory subunit of protein phosphatase 2A (PP2A) and the yeast PI3-kinase TOR1 []. Arrays of HEAT repeats consists of 3 to 36 units forming a rod-like helical structure and appear to function as protein-protein interaction surfaces. It has been noted that many HEAT repeat-containing proteins are involved in intracellular transport processes. In the crystal structure of PP2A PR65/A [], the HEAT repeats consist of pairs of antiparallel alpha helices [].; GO: 0005515 protein binding; PDB: 3FGA_A 2PF4_C 2IAE_A 2BKU_D 3EA5_B 3ND2_A 2BPT_A 2NYL_A 2NPP_D 2PKG_B ....
Probab=82.70 E-value=1.3 Score=29.74 Aligned_cols=18 Identities=22% Similarity=0.342 Sum_probs=16.1
Q ss_pred CchhHHHHHHHHHHHhHh
Q psy8503 184 ENATVRAAAVTAMAQFGA 201 (421)
Q Consensus 184 En~~VRaAAv~aLakf~~ 201 (421)
+++.||.+|+.+|+.|+.
T Consensus 12 ~~~~VR~~a~~~l~~i~~ 29 (31)
T PF02985_consen 12 PSPEVRQAAAECLGAIAE 29 (31)
T ss_dssp SSHHHHHHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHHh
Confidence 578999999999999875
No 29
>PF12830 Nipped-B_C: Sister chromatid cohesion C-terminus
Probab=77.28 E-value=2.2 Score=39.55 Aligned_cols=63 Identities=17% Similarity=0.278 Sum_probs=52.7
Q ss_pred ccceeEEeeccccCchhHHHHHHHHHHHhHh--------------hhcCCCChhhhhhHHHHHHHHhhhcHHHHhhh
Q psy8503 171 SKYIRFIYNRVILENATVRAAAVTAMAQFGA--------------LCQMDGDDEVRDRATYYHSILASQNKQLIQDY 233 (421)
Q Consensus 171 ~kyIR~IyNRviLEn~~VRaAAv~aLakf~~--------------r~~~D~DDEVRDRA~~yl~il~~~~~~~~~~~ 233 (421)
.+|+..|.+-..-.+..||-+|+.-+.-+-. -...|++..+|++|.-.++.+.++-+.++..-
T Consensus 7 Qryl~~Il~~~~~~~~~vr~~Al~~l~~il~qGLvnP~~cvp~lIAL~ts~~~~ir~~A~~~l~~l~eK~~s~v~~~ 83 (187)
T PF12830_consen 7 QRYLKNILELCLSSDDSVRLAALQVLELILRQGLVNPKQCVPTLIALETSPNPSIRSRAYQLLKELHEKHESLVESR 83 (187)
T ss_pred HHHHHHHHHHHhCCCHHHHHHHHHHHHHHHhcCCCChHHHHhHhhhhhCCCChHHHHHHHHHHHHHHHHhHHHHHHH
Confidence 4788888998888999999999998887665 66789999999999988888888777765543
No 30
>TIGR02270 conserved hypothetical protein. Members are found in Myxococcus xanthus (six members), Geobacter sulfurreducens, and Pseudomonas aeruginosa; a short protein homologous to the N-terminal region is found in Mesorhizobium loti. All sequence are from Proteobacteria. The function is unknown.
Probab=74.28 E-value=4.5 Score=42.49 Aligned_cols=81 Identities=26% Similarity=0.215 Sum_probs=58.1
Q ss_pred HHhhhhhcccCcchHHHHHHHHHhcCCCCCCCCCccceeEEeeccccCchhHHHHHHHHHHHhHh--------hhcCCCC
Q psy8503 137 LAHLCEFIEDCEHTSLAVRILHLLGKEGPRAKQPSKYIRFIYNRVILENATVRAAAVTAMAQFGA--------LCQMDGD 208 (421)
Q Consensus 137 L~~LcefIEDce~~~l~~rIL~~LG~egp~t~~P~kyIR~IyNRviLEn~~VRaAAv~aLakf~~--------r~~~D~D 208 (421)
...|...++|. ++.+-.-++..||.-+ .+|.+++.-..+ =+++.||++|+.+|++++. ..+.|.|
T Consensus 119 ~~~L~~~L~~~-~p~vR~aal~al~~r~---~~~~~~L~~~L~---d~d~~Vra~A~raLG~l~~~~a~~~L~~al~d~~ 191 (410)
T TIGR02270 119 EPWLEPLLAAS-EPPGRAIGLAALGAHR---HDPGPALEAALT---HEDALVRAAALRALGELPRRLSESTLRLYLRDSD 191 (410)
T ss_pred HHHHHHHhcCC-ChHHHHHHHHHHHhhc---cChHHHHHHHhc---CCCHHHHHHHHHHHHhhccccchHHHHHHHcCCC
Confidence 34456666665 4456666778888744 345554433322 3889999999999999876 8899999
Q ss_pred hhhhhhHHHHHHHHhh
Q psy8503 209 DEVRDRATYYHSILAS 224 (421)
Q Consensus 209 DEVRDRA~~yl~il~~ 224 (421)
++||.-|.--+..+..
T Consensus 192 ~~VR~aA~~al~~lG~ 207 (410)
T TIGR02270 192 PEVRFAALEAGLLAGS 207 (410)
T ss_pred HHHHHHHHHHHHHcCC
Confidence 9999999887776654
No 31
>cd00020 ARM Armadillo/beta-catenin-like repeats. An approximately 40 amino acid long tandemly repeated sequence motif first identified in the Drosophila segment polarity gene armadillo; these repeats were also found in the mammalian armadillo homolog beta-catenin, the junctional plaque protein plakoglobin, the adenomatous polyposis coli (APC) tumor suppressor protein, and a number of other proteins. ARM has been implicated in mediating protein-protein interactions, but no common features among the target proteins recognized by the ARM repeats have been identified; related to the HEAT domain; three consecutive copies of the repeat are represented by this alignment model.
Probab=72.35 E-value=44 Score=26.41 Aligned_cols=38 Identities=8% Similarity=0.057 Sum_probs=27.6
Q ss_pred HHHHHHHhhhhhcchhhHHHHHHHHHHHHhCCchhHhH
Q psy8503 29 LMKQIATFVSEISDEFKIVVVEAIRALCLKFPRKHAVL 66 (421)
Q Consensus 29 L~kqI~~fmseisdefKi~vv~ai~~Lc~kfp~K~~~~ 66 (421)
+++.+..++.+-+.+.|...+.++.++|...|.....+
T Consensus 8 ~i~~l~~~l~~~~~~~~~~a~~~l~~l~~~~~~~~~~~ 45 (120)
T cd00020 8 GLPALVSLLSSSDENVQREAAWALSNLSAGNNDNIQAV 45 (120)
T ss_pred ChHHHHHHHHcCCHHHHHHHHHHHHHHhcCCHHHHHHH
Confidence 44555556666667889999999999998776655544
No 32
>smart00638 LPD_N Lipoprotein N-terminal Domain.
Probab=71.00 E-value=63 Score=34.43 Aligned_cols=42 Identities=21% Similarity=0.327 Sum_probs=30.2
Q ss_pred HHHHHHhhccCCcchHHHHHHHHHHhhhhhcchhhHHHHHHHHHHH
Q psy8503 11 TLAITTLLKTGSESSVDRLMKQIATFVSEISDEFKIVVVEAIRALC 56 (421)
Q Consensus 11 tlAittLLKTG~E~svdrL~kqI~~fmseisdefKi~vv~ai~~Lc 56 (421)
.+-+..+|++-+++.+..+.+++.. .. ...+-+..||+-.-.
T Consensus 313 f~~lv~~lR~~~~e~l~~l~~~~~~-~~---~~~r~~~~Dal~~~G 354 (574)
T smart00638 313 FLRLVRLLRTLSEEQLEQLWRQLYE-KK---KKARRIFLDAVAQAG 354 (574)
T ss_pred HHHHHHHHHhCCHHHHHHHHHHHHh-CC---HHHHHHHHHHHHhcC
Confidence 3446678889999999999888865 33 566677777765543
No 33
>KOG1077|consensus
Probab=70.26 E-value=64 Score=37.28 Aligned_cols=134 Identities=18% Similarity=0.243 Sum_probs=85.6
Q ss_pred HHHHHHHHHhhChhhHHHHHHhhhhhcccCcchHHHHHHHH-HhcCCCCC-----CCCCccceeEEeeccccCchhHHHH
Q psy8503 118 IADTIITIIEENPEAKETGLAHLCEFIEDCEHTSLAVRILH-LLGKEGPR-----AKQPSKYIRFIYNRVILENATVRAA 191 (421)
Q Consensus 118 ivd~i~~ii~~~p~~ke~~L~~LcefIEDce~~~l~~rIL~-~LG~egp~-----t~~P~kyIR~IyNRviLEn~~VRaA 191 (421)
|-.-+..|+-.+|+....+-..|-||+.-..-.+=-+++=+ +||+.|-- -..|.--.--++-...+=.+.-||-
T Consensus 461 VW~RvvQiVvNnedlq~yaak~~fe~Lq~~a~hE~mVKvggyiLGEfg~LIa~~prss~~~qFsllh~K~~~~s~~tr~l 540 (938)
T KOG1077|consen 461 VWYRVVQIVVNNEDLQGYAAKRLFEYLQKPACHENMVKVGGYILGEFGNLIADDPRSSPAVQFSLLHEKLHLCSPVTRAL 540 (938)
T ss_pred HHHHhheeEecchhhhHHHHHHHHHHHhhhHHHHHHHHhhhhhhhhhhhhhcCCCCCChHHHHHHHHHHhccCChhHHHH
Confidence 44444555566777777777777777765555554555443 45665532 2234444455667778889999999
Q ss_pred HHHHHHHhHh--------------hhcCCCChhhhhhHHHHHHHHhhhcHHHHhhhhcCCCCCChHHHHHHHHHhc
Q psy8503 192 AVTAMAQFGA--------------LCQMDGDDEVRDRATYYHSILASQNKQLIQDYIIEPLMVSIPSLERALHAYN 253 (421)
Q Consensus 192 Av~aLakf~~--------------r~~~D~DDEVRDRA~~yl~il~~~~~~~~~~~i~~~~~~s~~~Le~~L~~Y~ 253 (421)
-++++.||.. ...+=-|-|+..||.=|+.+.+-......+. +.++.+ +++.=|..|-+-+
T Consensus 541 LLtTyiKl~nl~PEi~~~v~~vFq~~~n~~D~ElQqRa~EYLql~k~as~dvL~~-vleeMP-pF~er~ssll~kl 614 (938)
T KOG1077|consen 541 LLTTYIKLINLFPEIKSNVQKVFQLYSNLIDVELQQRAVEYLQLSKLASTDVLQT-VLEEMP-PFPERESSLLKKL 614 (938)
T ss_pred HHHHHHHHHhhChhhhHHHHHHHHhhcccCCHHHHHHHHHHHHHHHhccchHHHH-HHhhCC-CCccccchHHHHh
Confidence 9999999987 4444589999999999999987654444443 344433 5544444444333
No 34
>KOG1060|consensus
Probab=67.07 E-value=33 Score=39.73 Aligned_cols=184 Identities=20% Similarity=0.251 Sum_probs=99.0
Q ss_pred HHHHHHHHhhccCCcchHHHHHHHHHHhhhhhcchhhHHHHHHHHHHHHhCCchhHhHHHHHHHHHhhccccccccceee
Q psy8503 9 IATLAITTLLKTGSESSVDRLMKQIATFVSEISDEFKIVVVEAIRALCLKFPRKHAVLMNFLSAMLRDEGVFRGGIDVLV 88 (421)
Q Consensus 9 iatlAittLLKTG~E~svdrL~kqI~~fmseisdefKi~vv~ai~~Lc~kfp~K~~~~l~FL~~~Lr~eGvfrgg~dvL~ 88 (421)
+.+|=|-.|=..-||++|-.+++....|++.-..+|-..-|+||-.-..+--.=-..-|+-|-..|+... .-|++
T Consensus 373 vk~lKleiLs~La~esni~~ILrE~q~YI~s~d~~faa~aV~AiGrCA~~~~sv~~tCL~gLv~Llsshd-----e~Vv~ 447 (968)
T KOG1060|consen 373 VKILKLEILSNLANESNISEILRELQTYIKSSDRSFAAAAVKAIGRCASRIGSVTDTCLNGLVQLLSSHD-----ELVVA 447 (968)
T ss_pred HHHHHHHHHHHHhhhccHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHhhCchhhHHHHHHHHHHhccc-----chhHH
Confidence 3445555565668999999999999999998888877777777755433332333446777777776542 11333
Q ss_pred ehhhhcccCCcceEEEEEecCcchhhHHhHHHHHHHHHhhChhhHHHHHHhhhhhcccCcchHHHHHHHHHhcCCCCCCC
Q psy8503 89 RSKLAVSADTGVTMQLTVRSTSGLEYKASIADTIITIIEENPEAKETGLAHLCEFIEDCEHTSLAVRILHLLGKEGPRAK 168 (421)
Q Consensus 89 rAkLal~~~~~vtm~l~vRs~~~~~~K~~ivd~i~~ii~~~p~~ke~~L~~LcefIEDce~~~l~~rIL~~LG~egp~t~ 168 (421)
.|...+ -|-|+-.-..-.++=....+.+-.| ..|.+|-.++--..||+|= -+.++-+||..|-+.=
T Consensus 448 eaV~vI------k~Llq~~p~~h~~ii~~La~lldti--~vp~ARA~IiWLige~~e~--vpri~PDVLR~laksF---- 513 (968)
T KOG1060|consen 448 EAVVVI------KRLLQKDPAEHLEILFQLARLLDTI--LVPAARAGIIWLIGEYCEI--VPRIAPDVLRKLAKSF---- 513 (968)
T ss_pred HHHHHH------HHHHhhChHHHHHHHHHHHHHhhhh--hhhhhhceeeeeehhhhhh--cchhchHHHHHHHHhh----
Confidence 332211 0000000000111111112222111 3466666666556666554 5566667777665431
Q ss_pred CCccceeEEeeccccCchhHHHHHHHHHHHhHh---------------hhcCCCChhhhhhHHHHHHHHhh
Q psy8503 169 QPSKYIRFIYNRVILENATVRAAAVTAMAQFGA---------------LCQMDGDDEVRDRATYYHSILAS 224 (421)
Q Consensus 169 ~P~kyIR~IyNRviLEn~~VRaAAv~aLakf~~---------------r~~~D~DDEVRDRA~~yl~il~~ 224 (421)
-=|++.||.-.+.--+|.-. ..-.|..=.+||||.|+-.++..
T Consensus 514 -------------s~E~~evKlQILnL~aKLyl~~~~~~kll~~Yv~~L~~yD~sYDiRDRaRF~r~l~~~ 571 (968)
T KOG1060|consen 514 -------------SDEGDEVKLQILNLSAKLYLTNIDQTKLLVQYVFELARYDLSYDIRDRARFLRQLISP 571 (968)
T ss_pred -------------ccccchhhHHHHHhhhhheEechhhHHHHHHHHHHHhccCCCcchhHHHHHHHHHhcc
Confidence 11444444444433333222 23356666799999999887754
No 35
>PLN03200 cellulose synthase-interactive protein; Provisional
Probab=63.47 E-value=71 Score=40.60 Aligned_cols=188 Identities=18% Similarity=0.163 Sum_probs=95.0
Q ss_pred hHHHHHHHHhhccCCcchH-----HHHHHHHHHhhhhhcchhhHHHHHHHHHHHHhCCchhHhH----HHHHHHHHhhcc
Q psy8503 8 SIATLAITTLLKTGSESSV-----DRLMKQIATFVSEISDEFKIVVVEAIRALCLKFPRKHAVL----MNFLSAMLRDEG 78 (421)
Q Consensus 8 siatlAittLLKTG~E~sv-----drL~kqI~~fmseisdefKi~vv~ai~~Lc~kfp~K~~~~----l~FL~~~Lr~eG 78 (421)
--|+-.|-.|.|++.|... +-.+..+-++++.=+.+.|+-.+.++.+|+.+--.|.+++ +.-|-++| ++|
T Consensus 33 ~~Al~~Lr~Lak~~~enR~~Ia~~aGaIP~LV~lL~sg~~~vk~nAaaaL~nLS~~e~nk~~Iv~~GaIppLV~LL-~sG 111 (2102)
T PLN03200 33 ELTTARLLELAKTREEARKAIGSHSQAMPLLVSLLRSGTLGAKVNAAAVLGVLCKEEDLRVKVLLGGCIPPLLSLL-KSG 111 (2102)
T ss_pred HHHHHHHHHHHhcChHHHHHHHHccCcHHHHHHHHcCCCHHHHHHHHHHHHHHhcCHHHHHHHHHcCChHHHHHHH-HCC
Confidence 3456677778888765421 1122223333322235677777778888886522233332 23444455 344
Q ss_pred ccccccceeeehhhhcccCCcceEEEEEecCcchhhHHhHHHHHHHHHhhC--hhhH------HHHHHhhhhhcccCcch
Q psy8503 79 VFRGGIDVLVRSKLAVSADTGVTMQLTVRSTSGLEYKASIADTIITIIEEN--PEAK------ETGLAHLCEFIEDCEHT 150 (421)
Q Consensus 79 vfrgg~dvL~rAkLal~~~~~vtm~l~vRs~~~~~~K~~ivd~i~~ii~~~--p~~k------e~~L~~LcefIEDce~~ 150 (421)
+.+-|...+.+|+.+.... .+.+ +-++..|.+.+.+.--.
T Consensus 112 --------------------------------s~eaKe~AA~AL~sLS~~~~~D~~~~~I~v~~GaVp~Lv~lL~~gsk~ 159 (2102)
T PLN03200 112 --------------------------------SAEAQKAAAEAIYAVSSGGLSDHVGSKIFSTEGVVPSLWDQLQPGNKQ 159 (2102)
T ss_pred --------------------------------CHHHHHHHHHHHHHHHcCcchhhhhhhhhhhcCChHHHHHHHhCCchh
Confidence 5666666666666655322 1111 33445555555554211
Q ss_pred -----HHHHHHHHHhcCCCC-CCCC--CccceeEEeeccccCchhHHHHHHHHHHHhHh-------------------hh
Q psy8503 151 -----SLAVRILHLLGKEGP-RAKQ--PSKYIRFIYNRVILENATVRAAAVTAMAQFGA-------------------LC 203 (421)
Q Consensus 151 -----~l~~rIL~~LG~egp-~t~~--P~kyIR~IyNRviLEn~~VRaAAv~aLakf~~-------------------r~ 203 (421)
..++.+|.-|-...+ +.+. =..-+..+-+=+--+++.++.-|+.+|++++. ++
T Consensus 160 d~~L~~~Av~AL~nLs~~~en~~~~IIeaGaVp~LV~LLsS~d~~lQ~eAa~aLa~Lass~ee~~~aVIeaGaVP~LV~L 239 (2102)
T PLN03200 160 DKVVEGLLTGALRNLCGSTDGFWSATLEAGGVDILVKLLSSGNSDAQANAASLLARLMMAFESSISKVLDAGAVKQLLKL 239 (2102)
T ss_pred hHHHHHHHHHHHHHHhcCccchHHHHHHcCCHHHHHHHHcCCCHHHHHHHHHHHHHHHcCChHHHHHHHHCCCHHHHHHH
Confidence 112333333322211 1000 00111112222223567777777777777664 66
Q ss_pred cC-CCChhhhhhHHHHHHHHhhhcHH
Q psy8503 204 QM-DGDDEVRDRATYYHSILASQNKQ 228 (421)
Q Consensus 204 ~~-D~DDEVRDRA~~yl~il~~~~~~ 228 (421)
+. +.+..||..|...+..|..++++
T Consensus 240 L~sg~~~~VRE~AA~AL~nLAs~s~e 265 (2102)
T PLN03200 240 LGQGNEVSVRAEAAGALEALSSQSKE 265 (2102)
T ss_pred HccCCChHHHHHHHHHHHHHhcCCHH
Confidence 65 45669999999888777766444
No 36
>COG5096 Vesicle coat complex, various subunits [Intracellular trafficking and secretion]
Probab=62.80 E-value=23 Score=40.50 Aligned_cols=55 Identities=18% Similarity=0.093 Sum_probs=34.0
Q ss_pred ccceeeccccccccccCC--ChHHHHhhhcccCCcccceeeEecc--CcccHHHHHHHhhcccCCC
Q psy8503 359 LEDLEISLSDQMAKVNKP--NFLALWEEAETDESMNEMEDTFCLS--KMESIQEAVASILLPFPRY 420 (421)
Q Consensus 359 lEdlei~~~D~i~~~~~~--nF~~~We~l~~~~~~~e~~~tf~L~--~~~sl~~Av~~i~~~fg~~ 420 (421)
+-|.-++.++|+.|.... -|...|..-+- +.....+ ..+.+++....+..-++|-
T Consensus 662 ~~d~~~s~~~~~~~~t~~e~~~~~~~~~~e~-------e~~~~~~~n~~~~l~~~~~e~~~~~nm~ 720 (757)
T COG5096 662 LNDSINSISGFVNPRTVDEDYFRELWKMDEF-------ENKIDESSNNPKKLDDYSEEKSREDNME 720 (757)
T ss_pred cCCCccchhccccceeccccccccccccccc-------ccccCcccCCcHhHHHHHHHhhhcccCC
Confidence 344456677888876654 56677876432 2333343 4557888888877777664
No 37
>PF12717 Cnd1: non-SMC mitotic condensation complex subunit 1
Probab=62.26 E-value=1.3e+02 Score=27.52 Aligned_cols=48 Identities=21% Similarity=0.297 Sum_probs=26.4
Q ss_pred hhhHHhHHHHHHHHHhhChhhHHHHHHhhhhhcccCc---chHHHHHHHHHh
Q psy8503 112 LEYKASIADTIITIIEENPEAKETGLAHLCEFIEDCE---HTSLAVRILHLL 160 (421)
Q Consensus 112 ~~~K~~ivd~i~~ii~~~p~~ke~~L~~LcefIEDce---~~~l~~rIL~~L 160 (421)
.+-.+.|.+-+++.+.+ ++.+++....||.-+..+. ...+...++..|
T Consensus 124 ~~~~~~I~~fll~~i~~-d~~~~~l~~kl~~~~~~~~~~~~~~~~~d~~~~l 174 (178)
T PF12717_consen 124 REKRKKIYKFLLDFIDK-DKQKESLVEKLCQRFLNAVVDEDERVLRDILYCL 174 (178)
T ss_pred HHHHHHHHHHHHHHcCc-HHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHH
Confidence 34444555555555533 4556666666666666665 455555554444
No 38
>PLN03200 cellulose synthase-interactive protein; Provisional
Probab=57.27 E-value=78 Score=40.24 Aligned_cols=111 Identities=14% Similarity=0.100 Sum_probs=63.7
Q ss_pred hhHHhHHHHHHHHHhhChhhHH-----HHHHhhhhhcccCcch---HHHHHHHHHhcCCCCCCCCC-----ccceeEEee
Q psy8503 113 EYKASIADTIITIIEENPEAKE-----TGLAHLCEFIEDCEHT---SLAVRILHLLGKEGPRAKQP-----SKYIRFIYN 179 (421)
Q Consensus 113 ~~K~~ivd~i~~ii~~~p~~ke-----~~L~~LcefIEDce~~---~l~~rIL~~LG~egp~t~~P-----~kyIR~IyN 179 (421)
+=|+.-+.+|..+....++..+ .++.-|..-+..-++. +.+..+..+.. .+ +..|= ...|..+-+
T Consensus 624 ~ikk~Aa~iLsnL~a~~~d~~~avv~agaIpPLV~LLss~~~~v~keAA~AL~nL~~-~~-~~~q~~~~v~~GaV~pL~~ 701 (2102)
T PLN03200 624 ETQEKAASVLADIFSSRQDLCESLATDEIINPCIKLLTNNTEAVATQSARALAALSR-SI-KENRKVSYAAEDAIKPLIK 701 (2102)
T ss_pred HHHHHHHHHHHHHhcCChHHHHHHHHcCCHHHHHHHHhcCChHHHHHHHHHHHHHHh-CC-CHHHHHHHHHcCCHHHHHH
Confidence 3444444556565555555322 3344455555554442 23333333432 11 11111 123444455
Q ss_pred ccccCchhHHHHHHHHHHHhHh------------------hhcCCCChhhhhhHHHHHHHHhhh
Q psy8503 180 RVILENATVRAAAVTAMAQFGA------------------LCQMDGDDEVRDRATYYHSILASQ 225 (421)
Q Consensus 180 RviLEn~~VRaAAv~aLakf~~------------------r~~~D~DDEVRDRA~~yl~il~~~ 225 (421)
-+--.+..|+..|+.+|+.+.. +.+....+++|+-|...+.-|-..
T Consensus 702 LL~~~d~~v~e~Al~ALanLl~~~e~~~ei~~~~~I~~Lv~lLr~G~~~~k~~Aa~AL~~L~~~ 765 (2102)
T PLN03200 702 LAKSSSIEVAEQAVCALANLLSDPEVAAEALAEDIILPLTRVLREGTLEGKRNAARALAQLLKH 765 (2102)
T ss_pred HHhCCChHHHHHHHHHHHHHHcCchHHHHHHhcCcHHHHHHHHHhCChHHHHHHHHHHHHHHhC
Confidence 5556777888888888888876 888899999999999877666544
No 39
>PF02985 HEAT: HEAT repeat; InterPro: IPR000357 The HEAT repeat is a tandemly repeated, 37-47 amino acid long module occurring in a number of cytoplasmic proteins, including the four name-giving proteins huntingtin, elongation factor 3 (EF3), the 65 Kd alpha regulatory subunit of protein phosphatase 2A (PP2A) and the yeast PI3-kinase TOR1 []. Arrays of HEAT repeats consists of 3 to 36 units forming a rod-like helical structure and appear to function as protein-protein interaction surfaces. It has been noted that many HEAT repeat-containing proteins are involved in intracellular transport processes. In the crystal structure of PP2A PR65/A [], the HEAT repeats consist of pairs of antiparallel alpha helices [].; GO: 0005515 protein binding; PDB: 3FGA_A 2PF4_C 2IAE_A 2BKU_D 3EA5_B 3ND2_A 2BPT_A 2NYL_A 2NPP_D 2PKG_B ....
Probab=57.10 E-value=9.6 Score=25.52 Aligned_cols=21 Identities=24% Similarity=0.134 Sum_probs=17.1
Q ss_pred hhcCCCChhhhhhHHHHHHHH
Q psy8503 202 LCQMDGDDEVRDRATYYHSIL 222 (421)
Q Consensus 202 r~~~D~DDEVRDRA~~yl~il 222 (421)
.++.|++++||+-|...+.-+
T Consensus 7 ~~l~D~~~~VR~~a~~~l~~i 27 (31)
T PF02985_consen 7 QLLNDPSPEVRQAAAECLGAI 27 (31)
T ss_dssp HHHT-SSHHHHHHHHHHHHHH
T ss_pred HHcCCCCHHHHHHHHHHHHHH
Confidence 678899999999999877655
No 40
>COG5098 Chromosome condensation complex Condensin, subunit D2 [Chromatin structure and dynamics / Cell division and chromosome partitioning]
Probab=56.76 E-value=18 Score=41.50 Aligned_cols=61 Identities=23% Similarity=0.397 Sum_probs=49.8
Q ss_pred eeEEeeccccCchhHHHHHHHHHHHhHh--------------hhcCCCChhhhhhHHHHHHHHhhhcHHHHhhhh
Q psy8503 174 IRFIYNRVILENATVRAAAVTAMAQFGA--------------LCQMDGDDEVRDRATYYHSILASQNKQLIQDYI 234 (421)
Q Consensus 174 IR~IyNRviLEn~~VRaAAv~aLakf~~--------------r~~~D~DDEVRDRA~~yl~il~~~~~~~~~~~i 234 (421)
-.|+|-|+.=|++.||-.+.-+++..-. +|+.|+|-++-|-|..+..-+..++......||
T Consensus 973 t~yLyrrL~De~~~V~rtclmti~fLilagq~KVKGqlg~ma~~L~deda~Isdmar~fft~~a~KdNt~yn~fi 1047 (1128)
T COG5098 973 THYLYRRLGDEDADVRRTCLMTIHFLILAGQLKVKGQLGKMALLLTDEDAEISDMARHFFTQIAKKDNTMYNGFI 1047 (1128)
T ss_pred HHHHHHHhcchhhHHHHHHHHHHHHHHHccceeeccchhhhHhhccCCcchHHHHHHHHHHHHHhcccchhhhhH
Confidence 3478889999999999998888876544 999999999999999877777777766666555
No 41
>COG5218 YCG1 Chromosome condensation complex Condensin, subunit G [Chromatin structure and dynamics / Cell division and chromosome partitioning]
Probab=56.01 E-value=34 Score=38.76 Aligned_cols=97 Identities=27% Similarity=0.359 Sum_probs=61.3
Q ss_pred hHHHHHHHHHhhChhhHHHHHHhhhhhcc-----cCcchHHHHHHHHHhcCCCCCCCCCccceeE---------------
Q psy8503 117 SIADTIITIIEENPEAKETGLAHLCEFIE-----DCEHTSLAVRILHLLGKEGPRAKQPSKYIRF--------------- 176 (421)
Q Consensus 117 ~ivd~i~~ii~~~p~~ke~~L~~LcefIE-----Dce~~~l~~rIL~~LG~egp~t~~P~kyIR~--------------- 176 (421)
.+|..|+. ++++|..-..+|.-|..|+| |.|-..+...++..+-+. +..|-|-+||
T Consensus 49 r~vn~IL~-~Kk~~si~dRil~fl~~f~~Y~~~~dpeg~~~V~~~~~h~lRg---~eskdk~VR~r~lqila~~~d~v~e 124 (885)
T COG5218 49 RVVNTILA-CKKNPSIPDRILSFLKRFFEYDMPDDPEGEELVAGTFYHLLRG---TESKDKKVRKRSLQILALLSDVVRE 124 (885)
T ss_pred HHHHHhhc-cccCCCcHHHHHHHHHHHHHhcCCCChhhhHHHHHHHHHHHhc---ccCcchhHHHHHHHHHHHHHHhcch
Confidence 45555555 67888888899999999998 777555555555433221 1122233332
Q ss_pred ----Eeecccc--------CchhHHHHHHHHHHHhHh---------------hhcCCCChhhhhhHHH
Q psy8503 177 ----IYNRVIL--------ENATVRAAAVTAMAQFGA---------------LCQMDGDDEVRDRATY 217 (421)
Q Consensus 177 ----IyNRviL--------En~~VRaAAv~aLakf~~---------------r~~~D~DDEVRDRA~~ 217 (421)
+||-+++ --++||--||-+|.++-. -.++|+-||||.-|.+
T Consensus 125 IDe~l~N~L~ekl~~R~~DRE~~VR~eAv~~L~~~Qe~~~neen~~~n~l~~~vqnDPS~EVRr~all 192 (885)
T COG5218 125 IDEVLANGLLEKLSERLFDREKAVRREAVKVLCYYQEMELNEENRIVNLLKDIVQNDPSDEVRRLALL 192 (885)
T ss_pred HHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCcHHHHHHHHHH
Confidence 4554432 358999999999997754 4566666666654433
No 42
>cd07064 AlkD_like_1 A new structural DNA glycosylase containing HEAT-like repeats. This domain represents a new and uncharacterized structural superfamily of DNA glycosylases that form an alpha-alpha superhelix fold that are not belong to the identified five structural DNA glycosylase superfamilies (UDG, AAG/MNPG, MutM/Fpg and helix-hairpin-helix). DNA glycosylases removing alkylated base residues have been identified in all organisms investigated and may be universally present in nature. DNA glycosylases catalyze the first step in Base Excision Repair (BER) pathway by cleaving damaged DNA bases within double strand DNA to produce an abasic site. The resulting abasic site is further processed by AP endonuclease, phosphodiesterase, DNA polymerases, and DNA ligase functions to restore the DNA to an undamaged state. All glycosylase examined to date utilize a similar strategy for binding DNA and base flipping despite their structural diversity. The known structures for members of this fa
Probab=55.73 E-value=1.2e+02 Score=28.82 Aligned_cols=130 Identities=15% Similarity=0.075 Sum_probs=76.3
Q ss_pred chhhHHhHHHHHHHHHhhChhhHHHHHHhhhhhcccCcchHH----HHHHHHHhcCCCCCCCCCccceeEEeeccccCch
Q psy8503 111 GLEYKASIADTIITIIEENPEAKETGLAHLCEFIEDCEHTSL----AVRILHLLGKEGPRAKQPSKYIRFIYNRVILENA 186 (421)
Q Consensus 111 ~~~~K~~ivd~i~~ii~~~p~~ke~~L~~LcefIEDce~~~l----~~rIL~~LG~egp~t~~P~kyIR~IyNRviLEn~ 186 (421)
-.|++-..++.+....+...+. -+..+-.|+.++..=.+ +.+|++.+- .+|..+...++.=.-=||-
T Consensus 59 ~~E~r~~al~~l~~~~~~~~~~---~~~~~~~~l~~~~~Wd~vD~~~~~i~g~~~------~~~~~~~~~l~~W~~s~~~ 129 (208)
T cd07064 59 EREYQYVAIDLLRKYKKFLTPE---DLPLLEELITTKSWWDTVDSLAKVVGGILL------ADYPEFEPVMDEWSTDENF 129 (208)
T ss_pred HHHHHHHHHHHHHHHHhcCCHH---HHHHHHHHHcCCchHHHHHHHHHHHhHHHH------hCChhHHHHHHHHHcCCcH
Confidence 5677777777776655444333 24444445555544333 444444332 2233433344444444566
Q ss_pred hHHHHHHHHHHHhHh------------hhcCCCChhhhhhHHHHHHHHhhhcHHHHhhhhcCCCC-CChHHHHHHH
Q psy8503 187 TVRAAAVTAMAQFGA------------LCQMDGDDEVRDRATYYHSILASQNKQLIQDYIIEPLM-VSIPSLERAL 249 (421)
Q Consensus 187 ~VRaAAv~aLakf~~------------r~~~D~DDEVRDRA~~yl~il~~~~~~~~~~~i~~~~~-~s~~~Le~~L 249 (421)
=+|=+|+.+.-++.. .++.|+++-|+-=.--+|+-+...+++.+..||.+... ++.-++..++
T Consensus 130 W~rR~ai~~~l~~~~~~~~~~l~~~~~~~~~d~e~fI~KAiGW~LRe~~k~d~~~V~~fl~~~~~~m~~~s~rea~ 205 (208)
T cd07064 130 WLRRTAILHQLKYKEKTDTDLLFEIILANLGSKEFFIRKAIGWALREYSKTNPDWVRDFVAAHKLRLSPLSRREAL 205 (208)
T ss_pred HHHHHHHHHHHHHHHccCHHHHHHHHHHhCCChHHHHHHHHHHHHHHHhccCHHHHHHHHHHhhhhcChhHHHHHH
Confidence 666666666555544 67788888888877788887777788878888776543 4555554444
No 43
>COG5096 Vesicle coat complex, various subunits [Intracellular trafficking and secretion]
Probab=55.07 E-value=17 Score=41.55 Aligned_cols=45 Identities=20% Similarity=0.183 Sum_probs=36.2
Q ss_pred CchhHHHHHHHHHHHhHh------------hhcCCCChhhhhhHHHHHHHHhhhcHH
Q psy8503 184 ENATVRAAAVTAMAQFGA------------LCQMDGDDEVRDRATYYHSILASQNKQ 228 (421)
Q Consensus 184 En~~VRaAAv~aLakf~~------------r~~~D~DDEVRDRA~~yl~il~~~~~~ 228 (421)
.|+.+|+.|+.+|+++.. +|+.|..+.||--|.+.+.=+=+-++.
T Consensus 104 ~N~~iR~~AlR~ls~l~~~el~~~~~~~ik~~l~d~~ayVRk~Aalav~kly~ld~~ 160 (757)
T COG5096 104 PNEEIRGFALRTLSLLRVKELLGNIIDPIKKLLTDPHAYVRKTAALAVAKLYRLDKD 160 (757)
T ss_pred CCHHHHHHHHHHHHhcChHHHHHHHHHHHHHHccCCcHHHHHHHHHHHHHHHhcCHh
Confidence 478999999999998876 999999999999999766544433443
No 44
>PF11701 UNC45-central: Myosin-binding striated muscle assembly central; InterPro: IPR024660 The UNC-45 or small muscle protein 1 of Caenorhabditis elegans is expressed in two forms from different genomic positions in mammals: as a general tissue protein (UNC-45a) and as a specific form (UNC-45b) expressed only in striated and skeletal muscle. Myofibril formation requires both UNC-45 forms, consistent with the fact that the cytoskeleton is necessary for the development and maintenance of organised myofibrils []. Rng3 (Ring assembly protein 3), the homologue in Schizosaccharomyces pombe, is crucial for cell shape, normal actin cytoskeleton, and contractile ring assembly, and is essential for assembly of the myosin II-containing progenitors of the contractile ring. Widespread defects in the cytoskeleton are found in null mutants of all three fungal proteins []. Mammalian Unc45 is found to act as a specific chaperone during the folding of myosin and the assembly of striated muscle by forming a stable complex with the general chaperone Hsp90 []. All members carry up to three amino-terminal tetratricopeptide repeat (TPR) and a UCS domain at the C terminus that contains a number of Arm repeats. ; PDB: 3OPB_A 3NOW_A.
Probab=54.65 E-value=38 Score=30.73 Aligned_cols=119 Identities=17% Similarity=0.227 Sum_probs=73.1
Q ss_pred CCCCchhHHHHHHHHhhccCCcchHHHHHHHHHHhhhhhcchhhHHHHHHHHHHHHhCCchhHhHHHHHHHHHhhccccc
Q psy8503 2 ISDSNRSIATLAITTLLKTGSESSVDRLMKQIATFVSEISDEFKIVVVEAIRALCLKFPRKHAVLMNFLSAMLRDEGVFR 81 (421)
Q Consensus 2 I~DsNrsiatlAittLLKTG~E~svdrL~kqI~~fmseisdefKi~vv~ai~~Lc~kfp~K~~~~l~FL~~~Lr~eGvfr 81 (421)
.+++=|++|+++.+-+++...+..-+++-+-|...+.+-..+-++ .++..|..-||-=..+- +..+..+|+..
T Consensus 17 ~~~~~r~~a~v~l~k~l~~~~~~~~~~~~~~i~~~~~~~~~d~~i---~~~~~l~~lfp~~~dv~----~~l~~~eg~~~ 89 (157)
T PF11701_consen 17 QPEEVRSHALVILSKLLDAAREEFKEKISDFIESLLDEGEMDSLI---IAFSALTALFPGPPDVG----SELFLSEGFLE 89 (157)
T ss_dssp TSCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHCCHHH---HHHHHHHHHCTTTHHHH----HHHCCTTTHHH
T ss_pred CCHhHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHccccchhHH---HHHHHHHHHhCCCHHHH----HHHHhhhhHHH
Confidence 356779999999999998888888888888888888777777444 45555566677554442 33333444000
Q ss_pred cccceeeehhhhcccCCcceEEEEEecCcchhhHHhHHHHHHHHHhhChhhHHHHHHhhhhhccc
Q psy8503 82 GGIDVLVRSKLAVSADTGVTMQLTVRSTSGLEYKASIADTIITIIEENPEAKETGLAHLCEFIED 146 (421)
Q Consensus 82 gg~dvL~rAkLal~~~~~vtm~l~vRs~~~~~~K~~ivd~i~~ii~~~p~~ke~~L~~LcefIED 146 (421)
. =+.+-+ |..++..+..++++.+..-. -....++.+..|-.+|+|+
T Consensus 90 ~--------l~~~~~----------~~~~~~~~~~~~lell~aAc-~d~~~r~~I~~~~~~~L~~ 135 (157)
T PF11701_consen 90 S--------LLPLAS----------RKSKDRKVQKAALELLSAAC-IDKSCRTFISKNYVSWLKE 135 (157)
T ss_dssp H--------HHHHHH-----------CTS-HHHHHHHHHHHHHHT-TSHHHHHCCHHHCHHHHHH
T ss_pred H--------HHHHHh----------cccCCHHHHHHHHHHHHHHH-ccHHHHHHHHHHHHHHHHH
Confidence 0 000000 22236677777777776643 4556677777766666654
No 45
>KOG2259|consensus
Probab=54.39 E-value=11 Score=42.78 Aligned_cols=41 Identities=22% Similarity=0.225 Sum_probs=35.5
Q ss_pred chhHHHHHHHHHHHhHh--------------hhcCCCChhhhhhHHHHHHHHhhh
Q psy8503 185 NATVRAAAVTAMAQFGA--------------LCQMDGDDEVRDRATYYHSILASQ 225 (421)
Q Consensus 185 n~~VRaAAv~aLakf~~--------------r~~~D~DDEVRDRA~~yl~il~~~ 225 (421)
--.||-|||.+|.+.+. -.++|++++||--|.++++.+...
T Consensus 386 f~EVR~AAV~Sl~~La~ssP~FA~~aldfLvDMfNDE~~~VRL~ai~aL~~Is~~ 440 (823)
T KOG2259|consen 386 FYEVRRAAVASLCSLATSSPGFAVRALDFLVDMFNDEIEVVRLKAIFALTMISVH 440 (823)
T ss_pred HHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHH
Confidence 35899999999999887 567999999999999999877543
No 46
>KOG1059|consensus
Probab=53.60 E-value=1.7e+02 Score=34.06 Aligned_cols=185 Identities=17% Similarity=0.259 Sum_probs=119.3
Q ss_pred CCCchhHHHHHHHHhhccCCcchHHHHHHHHHHhhhhhcc-hhhHHHHHHHHHHHHhCCchhHhHHHHHH------HHHh
Q psy8503 3 SDSNRSIATLAITTLLKTGSESSVDRLMKQIATFVSEISD-EFKIVVVEAIRALCLKFPRKHAVLMNFLS------AMLR 75 (421)
Q Consensus 3 ~DsNrsiatlAittLLKTG~E~svdrL~kqI~~fmseisd-efKi~vv~ai~~Lc~kfp~K~~~~l~FL~------~~Lr 75 (421)
.|...||-.=|+--|--.-++.++-..+|++-..+-.-.+ .|+.-.+-.|-..|-+ +-|..+-+|=+ ..-|
T Consensus 346 ~DkD~SIRlrALdLl~gmVskkNl~eIVk~LM~~~~~ae~t~yrdell~~II~iCS~--snY~~ItdFEWYlsVlveLa~ 423 (877)
T KOG1059|consen 346 DDKDESIRLRALDLLYGMVSKKNLMEIVKTLMKHVEKAEGTNYRDELLTRIISICSQ--SNYQYITDFEWYLSVLVELAR 423 (877)
T ss_pred ccCCchhHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhccchhHHHHHHHHHHHHhhh--hhhhhhhhHHHHHHHHHHHHh
Confidence 3444555555555555555666666555555554444333 7888888888888865 44555555533 3333
Q ss_pred hccccccccceeeehhhhcccCCcceEEEEEecCcchhhHHhHHHHHHHHHhhChhhHHHHHHhhhhhcc------cCcc
Q psy8503 76 DEGVFRGGIDVLVRSKLAVSADTGVTMQLTVRSTSGLEYKASIADTIITIIEENPEAKETGLAHLCEFIE------DCEH 149 (421)
Q Consensus 76 ~eGvfrgg~dvL~rAkLal~~~~~vtm~l~vRs~~~~~~K~~ivd~i~~ii~~~p~~ke~~L~~LcefIE------Dce~ 149 (421)
-+| .+-=.-|.+-|+++.-.+|..|.....+..--|+ +|+-
T Consensus 424 l~~---------------------------------~~~G~~I~eQi~Dv~iRV~~iR~fsV~~m~~Ll~~~~~~~s~q~ 470 (877)
T KOG1059|consen 424 LEG---------------------------------TRHGSLIAEQIIDVAIRVPSIRPFSVSQMSALLDDPLLAGSAQI 470 (877)
T ss_pred ccc---------------------------------cchhhHHHHHHHHHheechhhhHhHHHHHHHHHhchhhccchhh
Confidence 344 3334667788888888889999999999888888 4444
Q ss_pred hH----HHHHHHHHhcCCCCCCCCCccceeEE-eeccccCchhHHHHHHHHHHHhHh-----------------------
Q psy8503 150 TS----LAVRILHLLGKEGPRAKQPSKYIRFI-YNRVILENATVRAAAVTAMAQFGA----------------------- 201 (421)
Q Consensus 150 ~~----l~~rIL~~LG~egp~t~~P~kyIR~I-yNRviLEn~~VRaAAv~aLakf~~----------------------- 201 (421)
.. +...+.-++|+.....+||..-+--. -+|.-+=...|.+.=|+++.|+=.
T Consensus 471 n~~l~eVL~AaaWi~GEyse~ven~~~~leamlrpr~~~lp~~iq~vyvqni~Klfc~~~~~~ee~~~~e~~~sL~~~i~ 550 (877)
T KOG1059|consen 471 NSQLCEVLYAAAWILGEYSEFVENPNDTLEAMLRPRSDLLPGHIQAVYVQNIVKLFCSWCSQFEETKDFEGIVSLVNLIL 550 (877)
T ss_pred ccchhHHHHHHHHHHHHHHHHhhCHHHHHHHHhcCccccCchHHHHHHHHHHHHHHHHHHhhcCcccchhHHHHHHHHHH
Confidence 33 44455568899988888887765432 244434456788888888877433
Q ss_pred ----hhcCCCChhhhhhHHHHHHHH
Q psy8503 202 ----LCQMDGDDEVRDRATYYHSIL 222 (421)
Q Consensus 202 ----r~~~D~DDEVRDRA~~yl~il 222 (421)
....-.|=||.+||.=.+.++
T Consensus 551 ~~l~qf~~s~d~EvQERA~~~~~li 575 (877)
T KOG1059|consen 551 SFLEQFSGSSDLEVQERASEVLELI 575 (877)
T ss_pred HHhhcccCccchhHHHHHHHHHHHH
Confidence 556778999999966444433
No 47
>COG5099 RNA-binding protein of the Puf family, translational repressor [Translation, ribosomal structure and biogenesis]
Probab=53.26 E-value=55 Score=37.59 Aligned_cols=104 Identities=15% Similarity=0.215 Sum_probs=83.1
Q ss_pred HHHHHHhhccCCcchHHHHHHHHHHhhhhh-cchhhHHHHHHHHHHHHhCCchhHhHHHHHHHHHhhccccccccceeee
Q psy8503 11 TLAITTLLKTGSESSVDRLMKQIATFVSEI-SDEFKIVVVEAIRALCLKFPRKHAVLMNFLSAMLRDEGVFRGGIDVLVR 89 (421)
Q Consensus 11 tlAittLLKTG~E~svdrL~kqI~~fmsei-sdefKi~vv~ai~~Lc~kfp~K~~~~l~FL~~~Lr~eGvfrgg~dvL~r 89 (421)
.+++-.+|+-|+++..+.++.+|..++.-+ .|-++--||..+-..+ .+|.|++++..+|.+.+.+=.
T Consensus 598 s~vvq~~le~~~~~~~~~~~~~Ii~~~~~L~~dq~GNyvvq~il~~g-~~~~k~~i~~~~l~~~v~elS----------- 665 (777)
T COG5099 598 SRVVQRCLENCNSEDKENLVEEIISNSKYLSQDQYGNYVVQHILDNG-AEPNKERIIIKLLSKRVVELS----------- 665 (777)
T ss_pred cHHHHHHHHhccHhHHHHHHHHHHHHHHhhccCCcchhhhhHHhhcC-CCcchhHHHHHHHHHHHHHHH-----------
Confidence 378889999999999999999999888776 6889999999999988 579999999999995555544
Q ss_pred hhhhcccCCcceEEEEEecCcchhhHHhHHHHHHHHHhhChhhHHHHHHhhhh-hcccCc
Q psy8503 90 SKLAVSADTGVTMQLTVRSTSGLEYKASIADTIITIIEENPEAKETGLAHLCE-FIEDCE 148 (421)
Q Consensus 90 AkLal~~~~~vtm~l~vRs~~~~~~K~~ivd~i~~ii~~~p~~ke~~L~~Lce-fIEDce 148 (421)
..+|-.-+|+-++... ..+..++.+|.++-. .+|.|-
T Consensus 666 ---------------------~~kfaSnvVeK~i~~~-~~~~~~~ril~~~~~~~~~~~~ 703 (777)
T COG5099 666 ---------------------THKFASNVVEKCIKYA-SDSFKRSRILNELTNRGIEKPG 703 (777)
T ss_pred ---------------------HHHHHHHHHHHHHhcC-CcchHHHHHHHHHhcccccCCh
Confidence 5778788888887754 233335888888777 666665
No 48
>PF14764 SPG48: AP-5 complex subunit, vesicle trafficking
Probab=53.20 E-value=3.4e+02 Score=29.71 Aligned_cols=58 Identities=17% Similarity=0.292 Sum_probs=37.0
Q ss_pred HHHhhccCCcchHHHHHHHHHHhhh------hhcchhhHHHHHHHHHHHHhCCc----hhHhHHHHHH
Q psy8503 14 ITTLLKTGSESSVDRLMKQIATFVS------EISDEFKIVVVEAIRALCLKFPR----KHAVLMNFLS 71 (421)
Q Consensus 14 ittLLKTG~E~svdrL~kqI~~fms------eisdefKi~vv~ai~~Lc~kfp~----K~~~~l~FL~ 71 (421)
.+++++.++++-+.+|+.-+-.=.. --+++-+-+..+.+-.+|.++|+ ..+-+++|++
T Consensus 248 F~vvl~~ad~sLi~~L~pvlleRs~~Lfp~~~y~~eV~rvlss~ll~lfk~~PsLvv~l~~~ilef~g 315 (459)
T PF14764_consen 248 FSVVLQDADGSLICQLLPVLLERSDALFPIPQYQAEVRRVLSSQLLALFKRHPSLVVELSKEILEFLG 315 (459)
T ss_pred HHHHHHhCCHHHHHHHHHHHHHHHHHhcCChhHHHHHHHHHHHHHHHHHHhCcHHHHHhHHHHHHHhc
Confidence 4677888998877777665432111 12344455667788889999996 3445566665
No 49
>KOG1059|consensus
Probab=52.83 E-value=1.5e+02 Score=34.45 Aligned_cols=72 Identities=18% Similarity=0.150 Sum_probs=47.0
Q ss_pred CchhHHHHHHHHhhccCCcchHHHHHHHHHHhhhhhcchhhHHHHHHHHHHHHhCCchhHhHHHHHHHHHhh
Q psy8503 5 SNRSIATLAITTLLKTGSESSVDRLMKQIATFVSEISDEFKIVVVEAIRALCLKFPRKHAVLMNFLSAMLRD 76 (421)
Q Consensus 5 sNrsiatlAittLLKTG~E~svdrL~kqI~~fmseisdefKi~vv~ai~~Lc~kfp~K~~~~l~FL~~~Lr~ 76 (421)
+|--=+++|+++|=..++-+=---|..-+-+.|+-=----+.-.|-.+-.+|+|||.--+.-.--|..-|-+
T Consensus 121 ~n~ye~giAL~GLS~fvTpdLARDLa~Dv~tLL~sskpYvRKkAIl~lykvFLkYPeAlr~~FprL~EkLeD 192 (877)
T KOG1059|consen 121 SNVYEVGLALSGLSCIVTPDLARDLADDVFTLLNSSKPYVRKKAILLLYKVFLKYPEALRPCFPRLVEKLED 192 (877)
T ss_pred CccchhhheecccccccCchhhHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHhhhHhHhhhHHHHHHhccC
Confidence 333445677777777777775555666655555543333445556677788999999877766667666655
No 50
>KOG2171|consensus
Probab=51.26 E-value=1.3e+02 Score=36.09 Aligned_cols=89 Identities=18% Similarity=0.158 Sum_probs=66.0
Q ss_pred hHHHHHHHHHHhhhhhcch----------------hhHHHHHHHHHHHHhCCchhH--hHHHHHHHHHhhccccccccce
Q psy8503 25 SVDRLMKQIATFVSEISDE----------------FKIVVVEAIRALCLKFPRKHA--VLMNFLSAMLRDEGVFRGGIDV 86 (421)
Q Consensus 25 svdrL~kqI~~fmseisde----------------fKi~vv~ai~~Lc~kfp~K~~--~~l~FL~~~Lr~eGvfrgg~dv 86 (421)
=++.|+-++-..|.|+.|+ .+..-.++|-.|..+-|.|+- .++.++..+|+.+.
T Consensus 290 ~~~~lv~~~l~~mte~~~D~ew~~~d~~ded~~~~~~~~A~~~lDrlA~~L~g~~v~p~~~~~l~~~l~S~~-------- 361 (1075)
T KOG2171|consen 290 LGHTLVPVLLAMMTEEEDDDEWSNEDDLDEDDEETPYRAAEQALDRLALHLGGKQVLPPLFEALEAMLQSTE-------- 361 (1075)
T ss_pred hhccHHHHHHHhcCCcccchhhccccccccccccCcHHHHHHHHHHHHhcCChhhehHHHHHHHHHHhcCCC--------
Confidence 4566777777888777766 899999999999999999864 46788888887655
Q ss_pred eeehhhhcccCCcceEEEEEecCcchhhHHhHHHHHHHHHhhChhhHHH----HHHhhhhhccc
Q psy8503 87 LVRSKLAVSADTGVTMQLTVRSTSGLEYKASIADTIITIIEENPEAKET----GLAHLCEFIED 146 (421)
Q Consensus 87 L~rAkLal~~~~~vtm~l~vRs~~~~~~K~~ivd~i~~ii~~~p~~ke~----~L~~LcefIED 146 (421)
..++++..-+|-.+.+.-++..+. ++.+.|-++.|
T Consensus 362 -------------------------w~~R~AaL~Als~i~EGc~~~m~~~l~~Il~~Vl~~l~D 400 (1075)
T KOG2171|consen 362 -------------------------WKERHAALLALSVIAEGCSDVMIGNLPKILPIVLNGLND 400 (1075)
T ss_pred -------------------------HHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHhhcCC
Confidence 778888888888888777765444 33344444444
No 51
>PF12530 DUF3730: Protein of unknown function (DUF3730) ; InterPro: IPR022542 This domain is found in eukaryotes, and is typically between 220 and 262 amino acids in length.
Probab=50.70 E-value=90 Score=30.00 Aligned_cols=50 Identities=26% Similarity=0.312 Sum_probs=34.0
Q ss_pred HHHHHHHHHHhhh--hhcchhhHHHHHHHHHHHHhCCchhHhHHHHHHHHHh
Q psy8503 26 VDRLMKQIATFVS--EISDEFKIVVVEAIRALCLKFPRKHAVLMNFLSAMLR 75 (421)
Q Consensus 26 vdrL~kqI~~fms--eisdefKi~vv~ai~~Lc~kfp~K~~~~l~FL~~~Lr 75 (421)
+..+..++..=-. +-..+..+..--+++.+|...|+.+.-++.-++..|.
T Consensus 80 L~~~~~r~~~~~~~~~~~~~~~i~~a~s~~~ic~~~p~~g~~ll~~ls~~L~ 131 (234)
T PF12530_consen 80 LLLLILRIPSSFSSKDEFWECLISIAASIRDICCSRPDHGVDLLPLLSGCLN 131 (234)
T ss_pred HHHHHhhcccccCCCcchHHHHHHHHHHHHHHHHhChhhHHHHHHHHHHHHh
Confidence 4555566552222 3344555666688888999999987788888888883
No 52
>PF08167 RIX1: rRNA processing/ribosome biogenesis
Probab=46.29 E-value=1.3e+02 Score=27.39 Aligned_cols=96 Identities=16% Similarity=0.215 Sum_probs=64.2
Q ss_pred hhccCCcchHHHHHHHHHHhhhhhcchhhHHHHHHHHHHHHhCC-----chhHhHHHHHHHHHhhccccccccceeeehh
Q psy8503 17 LLKTGSESSVDRLMKQIATFVSEISDEFKIVVVEAIRALCLKFP-----RKHAVLMNFLSAMLRDEGVFRGGIDVLVRSK 91 (421)
Q Consensus 17 LLKTG~E~svdrL~kqI~~fmseisdefKi~vv~ai~~Lc~kfp-----~K~~~~l~FL~~~Lr~eGvfrgg~dvL~rAk 91 (421)
++..++.+.+++++.+|.+.++.=+.+.+-.-+.-++.+|...| +.+...+.-|-+.|+...
T Consensus 14 ~~~~~~~~~l~~l~~ri~~LL~s~~~~~rw~G~~Ll~~~~~~~~~e~l~~~~~~W~~~Ll~~L~~~~------------- 80 (165)
T PF08167_consen 14 LLSAPSKSALHKLVTRINSLLQSKSAYSRWAGLCLLKVTVEQCSWEILLSHGSQWLRALLSILEKPD------------- 80 (165)
T ss_pred hhcccCHHHHHHHHHHHHHHhCCCChhhHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHcCCC-------------
Confidence 34445788999999999999998778888888888888876542 233333444444444433
Q ss_pred hhcccCCcceEEEEEecCcchhhHHhHHHHHHHHH---hhChh-hHHHHHHhhhhhc
Q psy8503 92 LAVSADTGVTMQLTVRSTSGLEYKASIADTIITII---EENPE-AKETGLAHLCEFI 144 (421)
Q Consensus 92 Lal~~~~~vtm~l~vRs~~~~~~K~~ivd~i~~ii---~~~p~-~ke~~L~~LcefI 144 (421)
+...++..+.++-.|+ ..-|+ .||.+-.+|--||
T Consensus 81 -------------------~~~~~~~ai~~L~~l~~~~~~~p~l~Rei~tp~l~~~i 118 (165)
T PF08167_consen 81 -------------------PPSVLEAAIITLTRLFDLIRGKPTLTREIATPNLPKFI 118 (165)
T ss_pred -------------------CHHHHHHHHHHHHHHHHHhcCCCchHHHHhhccHHHHH
Confidence 6777777777666655 56777 5565555555554
No 53
>PF04826 Arm_2: Armadillo-like; InterPro: IPR006911 This entry consists of mammalian proteins of unknown function.
Probab=45.32 E-value=2.9e+02 Score=27.40 Aligned_cols=175 Identities=16% Similarity=0.291 Sum_probs=93.5
Q ss_pred CCCCCchhHHHHHHHHhhc-cCCcchHHHHHHHHHHhhhh-----hcchhhHHHHHHHHHHHHhCCchhHhHHHHHHHHH
Q psy8503 1 MISDSNRSIATLAITTLLK-TGSESSVDRLMKQIATFVSE-----ISDEFKIVVVEAIRALCLKFPRKHAVLMNFLSAML 74 (421)
Q Consensus 1 LI~DsNrsiatlAittLLK-TG~E~svdrL~kqI~~fmse-----isdefKi~vv~ai~~Lc~kfp~K~~~~l~FL~~~L 74 (421)
|+.++|.++-.-|+-+|-- .++.++-+..=-.|+.-+.+ ..-+--...++++++|+... ..|..+.+.+...+
T Consensus 62 lL~~p~~~vr~~AL~aL~Nls~~~en~~~Ik~~i~~Vc~~~~s~~lns~~Q~agLrlL~nLtv~~-~~~~~l~~~i~~ll 140 (254)
T PF04826_consen 62 LLNDPNPSVREKALNALNNLSVNDENQEQIKMYIPQVCEETVSSPLNSEVQLAGLRLLTNLTVTN-DYHHMLANYIPDLL 140 (254)
T ss_pred HcCCCChHHHHHHHHHHHhcCCChhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHccCCCc-chhhhHHhhHHHHH
Confidence 4667777777767666642 23333332222222222222 22344467778888887663 33444444444333
Q ss_pred h--hccccccccceeeehhhhcccCCcceEEEEEecCcchhhHHhHHHHHHHHHhhChhhHH-----HHHHhhhhhcccC
Q psy8503 75 R--DEGVFRGGIDVLVRSKLAVSADTGVTMQLTVRSTSGLEYKASIADTIITIIEENPEAKE-----TGLAHLCEFIEDC 147 (421)
Q Consensus 75 r--~eGvfrgg~dvL~rAkLal~~~~~vtm~l~vRs~~~~~~K~~ivd~i~~ii~~~p~~ke-----~~L~~LcefIEDc 147 (421)
+ ..| +-.-|..++..+..+- ++|..-. +++.-|.-....+
T Consensus 141 ~LL~~G--------------------------------~~~~k~~vLk~L~nLS-~np~~~~~Ll~~q~~~~~~~Lf~~~ 187 (254)
T PF04826_consen 141 SLLSSG--------------------------------SEKTKVQVLKVLVNLS-ENPDMTRELLSAQVLSSFLSLFNSS 187 (254)
T ss_pred HHHHcC--------------------------------ChHHHHHHHHHHHHhc-cCHHHHHHHHhccchhHHHHHHccC
Confidence 2 245 5667777888777644 6776433 3455666677899
Q ss_pred cchHHHHHHHHHhcCCCCCCCCC-ccceeEEeeccccCchhHHHHHHHHHHHhHh---hhcCCCChhhhhhH
Q psy8503 148 EHTSLAVRILHLLGKEGPRAKQP-SKYIRFIYNRVILENATVRAAAVTAMAQFGA---LCQMDGDDEVRDRA 215 (421)
Q Consensus 148 e~~~l~~rIL~~LG~egp~t~~P-~kyIR~IyNRviLEn~~VRaAAv~aLakf~~---r~~~D~DDEVRDRA 215 (421)
+..++..++|.+...-.-.-+.+ .-+.+.=||.--|= +...--.+||. .....+|.|||+++
T Consensus 188 ~~~~~l~~~l~~~~ni~~~~~~~~~~~~~~~~~~~~L~------~~~~e~~~~~~~l~~l~~h~d~ev~~~v 253 (254)
T PF04826_consen 188 ESKENLLRVLTFFENINENIKKEAYVFVQDDFSEDSLF------SLFGESSQLAKKLQALANHPDPEVKEQV 253 (254)
T ss_pred CccHHHHHHHHHHHHHHHhhCcccceeccccCCchhHH------HHHccHHHHHHHHHHHHcCCCHHHhhhc
Confidence 99999999999887432222222 11222223332221 12222223333 33367999999875
No 54
>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical. More than one copy is sometimes found in each protein in this entry. These include KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria []. The circadian clock protein KaiC, is encoded in the kaiABC operon that controls circadian rhythms and may be universal in Cyanobacteria. Each member contains two copies of this domain, which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor. RadA/Sms is a highly conserved eubacterial protein that shares sequence similarity with both RecA strand transferase and lon protease. The RadA/Sms family are probable ATP-dependent proteases involved in both DNA repair and degradation of proteins, peptides, glycopeptides. They are classified in as non-peptidase homologues and unassigned peptidases in MEROPS peptidase family S16 (lon protease family, clan SJ). RadA/Sms is involved in recombination and recombinational repair, most likely involving the stabilisation or processing of branched DNA molecules or blocked replication forks because of its genetic redundancy with RecG and RuvABC [].; PDB: 2W0M_A 2ZTS_C 4DUG_B 3K0E_B 3K09_B 3S1A_E 3JZM_E 2GBL_B 3DVL_A 1TF7_C ....
Probab=43.77 E-value=15 Score=33.96 Aligned_cols=54 Identities=20% Similarity=0.401 Sum_probs=43.4
Q ss_pred cchHHHHHHHHHHhhhhhcchhhHHHHHHHHHH-HHhCCchhHhHHHHHHHHHhhcc
Q psy8503 23 ESSVDRLMKQIATFVSEISDEFKIVVVEAIRAL-CLKFPRKHAVLMNFLSAMLRDEG 78 (421)
Q Consensus 23 E~svdrL~kqI~~fmseisdefKi~vv~ai~~L-c~kfp~K~~~~l~FL~~~Lr~eG 78 (421)
+.+++.++++|...+.+... +.+|||++..| ....|...+..+..|.+.|++.|
T Consensus 97 ~~~~~~l~~~i~~~i~~~~~--~~vVIDsls~l~~~~~~~~~r~~l~~l~~~l~~~~ 151 (226)
T PF06745_consen 97 PNDLEELLSKIREAIEELKP--DRVVIDSLSALLLYDDPEELRRFLRALIKFLKSRG 151 (226)
T ss_dssp SCCHHHHHHHHHHHHHHHTS--SEEEEETHHHHTTSSSGGGHHHHHHHHHHHHHHTT
T ss_pred ccCHHHHHHHHHHHHHhcCC--CEEEEECHHHHhhcCCHHHHHHHHHHHHHHHHHCC
Confidence 56889999999999998877 89999999999 33334455667788888888887
No 55
>PF05763 DUF835: Protein of unknown function (DUF835); InterPro: IPR008553 The members of this archaebacterial protein entry are around 250-300 amino acid residues in length. The function of these proteins is not known.
Probab=42.68 E-value=21 Score=32.19 Aligned_cols=63 Identities=24% Similarity=0.481 Sum_probs=50.2
Q ss_pred CCcchHHHHHHHHHHhhhhhcchhhHHHHHHHHHHHHhCCchhHhHHHHHHHHHhhccccccccceee
Q psy8503 21 GSESSVDRLMKQIATFVSEISDEFKIVVVEAIRALCLKFPRKHAVLMNFLSAMLRDEGVFRGGIDVLV 88 (421)
Q Consensus 21 G~E~svdrL~kqI~~fmseisdefKi~vv~ai~~Lc~kfp~K~~~~l~FL~~~Lr~eGvfrgg~dvL~ 88 (421)
=+...+.+|...|..||.+ .+.++|++|.+.-|-+. +-...++.||. .|||--+..+|+=+++
T Consensus 55 I~Pt~L~~l~~~i~~fl~~--~~~~vViiD~lEYL~l~--NgF~~v~KFL~-~LkD~~~~~~~~lIl~ 117 (136)
T PF05763_consen 55 ISPTNLHKLLDTIVRFLKE--NGNGVVIIDGLEYLILE--NGFESVLKFLA-SLKDYALLNNGTLILV 117 (136)
T ss_pred cCchhhHHHHHHHHHHHHh--CCCcEEEEecHHHHHHH--cCHHHHHHHHH-HhHHHeeccCCEEEEE
Confidence 3556789999999999998 67789999999999886 66888889998 6787665555654444
No 56
>KOG4224|consensus
Probab=42.65 E-value=54 Score=35.44 Aligned_cols=89 Identities=20% Similarity=0.305 Sum_probs=54.7
Q ss_pred ccceeeehhhhc---ccCCcceEEEEEecCcchhhHHhHHHHHHHHHhhChhhHHHHHHhhhhhcccCcchHHHHHHHHH
Q psy8503 83 GIDVLVRSKLAV---SADTGVTMQLTVRSTSGLEYKASIADTIITIIEENPEAKETGLAHLCEFIEDCEHTSLAVRILHL 159 (421)
Q Consensus 83 g~dvL~rAkLal---~~~~~vtm~l~vRs~~~~~~K~~ivd~i~~ii~~~p~~ke~~L~~LcefIEDce~~~l~~rIL~~ 159 (421)
..+|=++|-||+ +++ -+|...||++ -+|.+|.+.+.|.--+.+...+-.+
T Consensus 264 s~kvkcqA~lALrnlasd--------------t~Yq~eiv~a-------------g~lP~lv~Llqs~~~plilasVaCI 316 (550)
T KOG4224|consen 264 SDKVKCQAGLALRNLASD--------------TEYQREIVEA-------------GSLPLLVELLQSPMGPLILASVACI 316 (550)
T ss_pred ChHHHHHHHHHHhhhccc--------------chhhhHHHhc-------------CCchHHHHHHhCcchhHHHHHHHHH
Confidence 345568888888 222 4566655543 5678888888888888777777666
Q ss_pred --h----cCCCCCCCCCccceeEEeecc--ccCchhHHHHHHHHHHHhHh
Q psy8503 160 --L----GKEGPRAKQPSKYIRFIYNRV--ILENATVRAAAVTAMAQFGA 201 (421)
Q Consensus 160 --L----G~egp~t~~P~kyIR~IyNRv--iLEn~~VRaAAv~aLakf~~ 201 (421)
+ |.|++-... .|.|-+- |+ -=||..+.++||++|-..|+
T Consensus 317 rnisihplNe~lI~da--gfl~pLV-rlL~~~dnEeiqchAvstLrnLAa 363 (550)
T KOG4224|consen 317 RNISIHPLNEVLIADA--GFLRPLV-RLLRAGDNEEIQCHAVSTLRNLAA 363 (550)
T ss_pred hhcccccCcccceecc--cchhHHH-HHHhcCCchhhhhhHHHHHHHHhh
Confidence 2 223332211 1111100 11 13788899999999999988
No 57
>PF01347 Vitellogenin_N: Lipoprotein amino terminal region; InterPro: IPR001747 This entry represents a conserved region found in several lipid transport proteins, including vitellogenin, microsomal triglyceride transfer protein and apolipoprotein B-100 []. Vitellinogen precursors provide the major egg yolk proteins that are a source of nutrients during early development of oviparous vertebrates and invertebrates. Vitellinogen precursors are multi-domain apolipoproteins that are cleaved into distinct yolk proteins. Different vitellinogen precursors exist, which are composed of variable combinations of yolk protein components; however, the cleavage sites are conserved. In vertebrates, a complete vitellinogen is composed of an N-terminal signal peptide for export, followed by four regions that can be cleaved into yolk proteins: lipovitellin-1, phosvitin, lipovitellin-2, and a von Willebrand factor type D domain (YGP40) [, ]. Microsomal triglyceride transfer protein (MTTP) is an endoplasmic reticulum lipid transfer protein involved in the biosynthesis and lipid loading of apolipoprotein B. MTTP is also involved in the late stage of CD1d trafficking in the lysosomal compartment, CD1d being the MHC I-like lipid antigen presenting molecule []. Apolipoprotein B can exist in two forms: B-100 and B-48. Apoliporotein B-100 is present on several lipoproteins, including very low-density lipoproteins (VLDL), intermediate density lipoproteins (IDL) and low density lipoproteins (LDL), and can assemble VLDL particles in the liver []. Apolipoprotein B-100 has been linked to the development of atherosclerosis.; GO: 0005319 lipid transporter activity, 0006869 lipid transport; PDB: 1LSH_A.
Probab=42.38 E-value=99 Score=33.05 Aligned_cols=44 Identities=18% Similarity=0.231 Sum_probs=25.0
Q ss_pred HHHHHHhhccCCcchHHHHHHHHHHhhhhhcchhhHHHHHHHHHHH
Q psy8503 11 TLAITTLLKTGSESSVDRLMKQIATFVSEISDEFKIVVVEAIRALC 56 (421)
Q Consensus 11 tlAittLLKTG~E~svdrL~kqI~~fmseisdefKi~vv~ai~~Lc 56 (421)
.+-+..+|++-+.+.+..+.+++..-. -....+-+.+||+-...
T Consensus 349 f~~Lv~~lr~l~~~~L~~l~~~~~~~~--~~~~~r~~~lDal~~aG 392 (618)
T PF01347_consen 349 FSRLVRLLRTLSYEDLEELYKQLKSKS--KKEQARKIFLDALPQAG 392 (618)
T ss_dssp HHHHHHHHTTS-HHHHHHHHHHHTTS-----HHHHHHHHHHHHHH-
T ss_pred HHHHHHHHhcCCHHHHHHHHHHHHhhc--cHHHHHHHHHHHHHHcC
Confidence 344556677777777777777765432 23456666777766644
No 58
>KOG2023|consensus
Probab=41.97 E-value=32 Score=39.36 Aligned_cols=84 Identities=23% Similarity=0.346 Sum_probs=54.7
Q ss_pred HHHHhhhhhcccCcch----------HHHHHHHHHhcCCCCCCCCCc-----cceeEEeeccccCchhHHHHHHHHHHHh
Q psy8503 135 TGLAHLCEFIEDCEHT----------SLAVRILHLLGKEGPRAKQPS-----KYIRFIYNRVILENATVRAAAVTAMAQF 199 (421)
Q Consensus 135 ~~L~~LcefIEDce~~----------~l~~rIL~~LG~egp~t~~P~-----kyIR~IyNRviLEn~~VRaAAv~aLakf 199 (421)
.+|..||+-++--.|+ .+.-+.-++|-.+.+ ..|- |+++|+=|. +|.+|+-|+.++-+|
T Consensus 128 elLp~L~~~L~s~d~n~~EgA~~AL~KIcEDsa~~lds~~~--~rpl~~mipkfl~f~~h~----spkiRs~A~~cvNq~ 201 (885)
T KOG2023|consen 128 ELLPQLCELLDSPDYNTCEGAFGALQKICEDSAQFLDSDVL--TRPLNIMIPKFLQFFKHP----SPKIRSHAVGCVNQF 201 (885)
T ss_pred hHHHHHHHHhcCCcccccchhHHHHHHHHhhhHHHHhhhcc--cCchHHhHHHHHHHHhCC----ChhHHHHHHhhhhhe
Confidence 4566666666544432 334445566666655 3332 566777665 999999999888776
Q ss_pred Hh------------------hhcCCCChhhhhhHHHHHHHHhh
Q psy8503 200 GA------------------LCQMDGDDEVRDRATYYHSILAS 224 (421)
Q Consensus 200 ~~------------------r~~~D~DDEVRDRA~~yl~il~~ 224 (421)
-. ..-+|+|+|||--..-.+..|-+
T Consensus 202 i~~~~qal~~~iD~Fle~lFalanD~~~eVRk~vC~alv~Lle 244 (885)
T KOG2023|consen 202 IIIQTQALYVHIDKFLEILFALANDEDPEVRKNVCRALVFLLE 244 (885)
T ss_pred eecCcHHHHHHHHHHHHHHHHHccCCCHHHHHHHHHHHHHHHH
Confidence 54 34499999999987755555543
No 59
>KOG1061|consensus
Probab=41.44 E-value=42 Score=38.31 Aligned_cols=39 Identities=21% Similarity=0.439 Sum_probs=25.7
Q ss_pred cchhhHHhHHHHHHHHHhhChhhHHHHHHhhhhhcccCcchH
Q psy8503 110 SGLEYKASIADTIITIIEENPEAKETGLAHLCEFIEDCEHTS 151 (421)
Q Consensus 110 ~~~~~K~~ivd~i~~ii~~~p~~ke~~L~~LcefIEDce~~~ 151 (421)
++.++||-+---+.......|+- ++.-.-.|+-||+-+.
T Consensus 61 ~dlelKKlvyLYl~nYa~~~P~~---a~~avnt~~kD~~d~n 99 (734)
T KOG1061|consen 61 RDLELKKLVYLYLMNYAKGKPDL---AILAVNTFLKDCEDPN 99 (734)
T ss_pred CCchHHHHHHHHHHHhhccCchH---HHhhhhhhhccCCCCC
Confidence 36888888777777777777764 3333445677776543
No 60
>PRK14908 glycyl-tRNA synthetase; Provisional
Probab=40.99 E-value=2.8e+02 Score=33.16 Aligned_cols=51 Identities=14% Similarity=0.178 Sum_probs=33.2
Q ss_pred hHHhHHHHHHHHHhhChhhHHHHHHhhhhhcccCcchHHH---HHHHHHhcCCC
Q psy8503 114 YKASIADTIITIIEENPEAKETGLAHLCEFIEDCEHTSLA---VRILHLLGKEG 164 (421)
Q Consensus 114 ~K~~ivd~i~~ii~~~p~~ke~~L~~LcefIEDce~~~l~---~rIL~~LG~eg 164 (421)
|...+|++++..-..+|---..-+..|.+|...-++..|. .||-++|.+..
T Consensus 858 ~~~dvI~AVl~~~~~~~~~~~~r~~aL~~f~~~~~~~~l~~a~kRv~NIl~k~~ 911 (1000)
T PRK14908 858 FDKDEIAAVLPDACKNPAEADKTAQALQELKSTEIFAEIAAALNRLKRILASLS 911 (1000)
T ss_pred CCHHHHHHHHccCCCCHHHHHHHHHHHHHHhcChhHHHHHHHHHHHHHHHhhcC
Confidence 3456666666532234433344577788888888877765 58899987754
No 61
>PF08064 UME: UME (NUC010) domain; InterPro: IPR012993 This domain is characteristic of UVSB PI-3 kinase, MEI-41 and ESR1 [].; GO: 0004674 protein serine/threonine kinase activity
Probab=40.94 E-value=1.4e+02 Score=25.56 Aligned_cols=55 Identities=15% Similarity=0.147 Sum_probs=40.3
Q ss_pred chhhHHhHHHHHHHHHhhChhhHHHHHHhhhhhcccCcchHHHHHHHHHhcCCCCCCCCCccceeEEeeccccCchhHHH
Q psy8503 111 GLEYKASIADTIITIIEENPEAKETGLAHLCEFIEDCEHTSLAVRILHLLGKEGPRAKQPSKYIRFIYNRVILENATVRA 190 (421)
Q Consensus 111 ~~~~K~~ivd~i~~ii~~~p~~ke~~L~~LcefIEDce~~~l~~rIL~~LG~egp~t~~P~kyIR~IyNRviLEn~~VRa 190 (421)
.+.-|+..+.+|..+|+-.++.-..++.++|-.. |..||.+.+|.
T Consensus 28 ~~~ek~~~l~si~~lI~~~~~~i~~~~pQI~a~L-----------------------------------~sal~~~~l~~ 72 (107)
T PF08064_consen 28 PIPEKKRALRSIEELIKLGGSHISSARPQIMACL-----------------------------------QSALEIPELRE 72 (107)
T ss_pred CHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHH-----------------------------------HHHhCChhhHH
Confidence 7899999999999999977777666666644332 45566777777
Q ss_pred HHHHHHHHhH
Q psy8503 191 AAVTAMAQFG 200 (421)
Q Consensus 191 AAv~aLakf~ 200 (421)
.|+++...|-
T Consensus 73 ~al~~W~~fi 82 (107)
T PF08064_consen 73 EALSCWNCFI 82 (107)
T ss_pred HHHHHHHHHH
Confidence 7777766554
No 62
>KOG1820|consensus
Probab=40.63 E-value=2e+02 Score=33.47 Aligned_cols=61 Identities=20% Similarity=0.197 Sum_probs=38.8
Q ss_pred CCCCchhHHHHHHHHhhccCCcchHHHHHHHHHHhhhhhcchhhHHHHHHHHHHHHhCCchhHhHHHHHHHHHhhcc
Q psy8503 2 ISDSNRSIATLAITTLLKTGSESSVDRLMKQIATFVSEISDEFKIVVVEAIRALCLKFPRKHAVLMNFLSAMLRDEG 78 (421)
Q Consensus 2 I~DsNrsiatlAittLLKTG~E~svdrL~kqI~~fmseisdefKi~vv~ai~~Lc~kfp~K~~~~l~FL~~~Lr~eG 78 (421)
..|+|-.++.+|..+ ++.|..= +.+.|+=.+....-.|-.++-.|...++..+.+.+...|
T Consensus 304 ~kDaN~~v~~~aa~~-------------l~~ia~~---lr~~~~~~~~~v~p~lld~lkekk~~l~d~l~~~~d~~~ 364 (815)
T KOG1820|consen 304 LKDANINVVMLAAQI-------------LELIAKK---LRPLFRKYAKNVFPSLLDRLKEKKSELRDALLKALDAIL 364 (815)
T ss_pred ccCcchhHHHHHHHH-------------HHHHHHh---cchhhHHHHHhhcchHHHHhhhccHHHHHHHHHHHHHHH
Confidence 357777777777663 3334332 333455555555666666666777788888888877777
No 63
>cd03568 VHS_STAM VHS domain family, STAM subfamily; members include STAM (Signal Transducing Adaptor Molecule), EAST (EGFR-associated protein with SH3 and TAM domains) and Hbp (Hrs-binding protein). Collectively, they are referred to as STAM. All STAMs have at their N-termini a VHS domain, which is involved in cytokine-mediated intracellular signal transduction and has a superhelical structure similar to the structure of ARM (Armadillo) repeats, followed by a SH3 (Src homology 3) domain, a well-established protein-protein interaction domain. At the C-termini of most vertebrate STAMS, an ITAM (Immunoreceptor Tyrosine-based Activation) motif is present, which mediates the binding of HRS (hepatocyte growth factor-regulated tyrosine kinase substrate) in endocytic and exocytic machineries.
Probab=40.50 E-value=72 Score=28.96 Aligned_cols=76 Identities=24% Similarity=0.390 Sum_probs=46.5
Q ss_pred CCCCchhHHHHHHHHhhccCCcchHHHHHHHHH--Hhhhh--------hcchhhHHHHHHHHHHHHhCCchhHh-HHHHH
Q psy8503 2 ISDSNRSIATLAITTLLKTGSESSVDRLMKQIA--TFVSE--------ISDEFKIVVVEAIRALCLKFPRKHAV-LMNFL 70 (421)
Q Consensus 2 I~DsNrsiatlAittLLKTG~E~svdrL~kqI~--~fmse--------isdefKi~vv~ai~~Lc~kfp~K~~~-~l~FL 70 (421)
|.+.|..++.+|++ ||.+.-+.-=++.-.+|+ .|+++ .+.+-|--+.+-|..+...|++.... .+.=+
T Consensus 46 l~~~n~~v~l~AL~-LLe~~vkNCG~~fh~evask~Fl~eL~kl~~~~~~~~Vk~kil~li~~W~~~f~~~~~l~~i~~~ 124 (144)
T cd03568 46 LNHKDPNVQLRALT-LLDACAENCGKRFHQEVASRDFTQELKKLINDRVHPTVKEKLREVVKQWADEFKNDPSLSLMSDL 124 (144)
T ss_pred HcCCCHHHHHHHHH-HHHHHHHHCCHHHHHHHhhHHHHHHHHHHhcccCCHHHHHHHHHHHHHHHHHhCCCcccHHHHHH
Confidence 45677888888775 444332222222333333 23333 45677778889999999999864332 45556
Q ss_pred HHHHhhcc
Q psy8503 71 SAMLRDEG 78 (421)
Q Consensus 71 ~~~Lr~eG 78 (421)
-+.|+.+|
T Consensus 125 y~~L~~~G 132 (144)
T cd03568 125 YKKLKNEG 132 (144)
T ss_pred HHHHHHcC
Confidence 67888888
No 64
>PF11838 ERAP1_C: ERAP1-like C-terminal domain; InterPro: IPR024571 This entry represents the uncharacterised C-terminal domain of zinc metallopeptidases belonging to MEROPS peptidase family M1 (aminopeptidase N, clan MA), with a single member characterised in Streptomyces lividans: aminopeptidase G []. The rest of the members of this family are identified as aminopeptidase N of the actinomycete-type. The spectrum of activity may differ somewhat from the aminopeptidase N clade of Escherichia coli and most other proteobacteria, which are well separated phylogenetically within the M1 family. ; PDB: 3MDJ_A 2YD0_A 3QNF_C 3RJO_A 1Z5H_A 3Q7J_A 1Z1W_A 3SE6_B.
Probab=40.30 E-value=83 Score=30.16 Aligned_cols=168 Identities=18% Similarity=0.201 Sum_probs=89.9
Q ss_pred CcchHHHHHHHHHHhhhhhcchhhHHHHHHHHHHHHhCCchhHhHHHHHHHHHhhcc---ccccccceeeehhhhcc-cC
Q psy8503 22 SESSVDRLMKQIATFVSEISDEFKIVVVEAIRALCLKFPRKHAVLMNFLSAMLRDEG---VFRGGIDVLVRSKLAVS-AD 97 (421)
Q Consensus 22 ~E~svdrL~kqI~~fmseisdefKi~vv~ai~~Lc~kfp~K~~~~l~FL~~~Lr~eG---vfrgg~dvL~rAkLal~-~~ 97 (421)
.+.+.+.|++++.+.- |+..-|+.+++-.-+|+.-=--.+..+++++...++.|- ||......|...+-.+. ++
T Consensus 17 d~~~~~~l~~~L~~~~--l~~~~R~~ll~D~~al~~~g~~~~~~~l~l~~~~~~~E~~~~vw~~~~~~l~~l~~~l~~~~ 94 (324)
T PF11838_consen 17 DEENWDALIKQLQSNH--LSPLDRAQLLDDLFALARAGRLSYSDFLDLLEYLLPNETDYVVWSTALSNLSSLRNRLYAED 94 (324)
T ss_dssp CTTHHHHHHHHHHHHG--S-HHHHHHHHHHHHHHHHTTSS-HHHHHHHHGGG-GT--SHHHHHHHHHHHHHHHHHHCSC-
T ss_pred CHHHHHHHHHHHhcCC--CCHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHhccCCCchHHHHHHHHHHHHHHHHHHhcc
Confidence 4677888888887654 888899999999999987755678888888887644433 22222222222111110 11
Q ss_pred CcceEEEEEecCcch-h-hHH---hHHHHHHHHHhhChh---------hHHHHHHhhhhhcccCcchHHHHHHHHH-hcC
Q psy8503 98 TGVTMQLTVRSTSGL-E-YKA---SIADTIITIIEENPE---------AKETGLAHLCEFIEDCEHTSLAVRILHL-LGK 162 (421)
Q Consensus 98 ~~vtm~l~vRs~~~~-~-~K~---~ivd~i~~ii~~~p~---------~ke~~L~~LcefIEDce~~~l~~rIL~~-LG~ 162 (421)
... + |++ .+++.+++-+.-.+. .+..++..+| +|.+-...+.+.+.- +..
T Consensus 95 ------------~~~~~~~~~~~~~l~~~~~~~l~~~~~~~~~~~~~~lr~~~~~~a~---~~~~~~~~a~~~~~~~~~~ 159 (324)
T PF11838_consen 95 ------------EELQEAFRKFVRRLLEPLYERLGWDPRPGEDHNDRLLRALLLSLAC---GDPECVAEARELFKAWLDG 159 (324)
T ss_dssp ------------HHHHHHHHHHHHHHHHHHHHH--SSSS--SCHHHHHHHHHHHHHHH---T-HHHHHHHHHHHHHHHHT
T ss_pred ------------HHHHHHHHHHHHHHHHHHHHHcCCCCcccccHHHHHHHHHHHHHhc---cchhHHHHHHHHHHHHhcC
Confidence 122 2 666 444555444422222 3555667777 666666666555443 332
Q ss_pred CCCC-CCCCccceeEEeeccccCchhHHHHHHHHHHHhHh---------hhcCCCChhhhhhHHHHHHH
Q psy8503 163 EGPR-AKQPSKYIRFIYNRVILENATVRAAAVTAMAQFGA---------LCQMDGDDEVRDRATYYHSI 221 (421)
Q Consensus 163 egp~-t~~P~kyIR~IyNRviLEn~~VRaAAv~aLakf~~---------r~~~D~DDEVRDRA~~yl~i 221 (421)
..+. .+- .|..|.++..+..+.|- +...+.+++.|+++...+.-
T Consensus 160 ~~~~~~~i---------------~~dlr~~v~~~~~~~g~~~~~~~l~~~~~~~~~~~~k~~~l~aLa~ 213 (324)
T PF11838_consen 160 NDSPESSI---------------PPDLRWAVYCAGVRNGDEEEWDFLWELYKNSTSPEEKRRLLSALAC 213 (324)
T ss_dssp TT-TTSTS----------------HHHHHHHHHHHTTS--HHHHHHHHHHHHTTSTHHHHHHHHHHHTT
T ss_pred Cccccccc---------------chHHHHHHHHHHHHHhhHhhHHHHHHHHhccCCHHHHHHHHHhhhc
Confidence 1111 122 34555555555554433 77777888888877655443
No 65
>KOG0414|consensus
Probab=39.77 E-value=26 Score=41.85 Aligned_cols=54 Identities=26% Similarity=0.445 Sum_probs=46.6
Q ss_pred ceeEEeeccccCchhHHHHHHHHHHHhHh--------------hhcCCCChhhhhhHHHHHHHHhhhc
Q psy8503 173 YIRFIYNRVILENATVRAAAVTAMAQFGA--------------LCQMDGDDEVRDRATYYHSILASQN 226 (421)
Q Consensus 173 yIR~IyNRviLEn~~VRaAAv~aLakf~~--------------r~~~D~DDEVRDRA~~yl~il~~~~ 226 (421)
+-.|+|=|+.=|++.||-.|+-.|+..-. +|+.|+|.++||=|..+.+-|.++.
T Consensus 999 ~T~~Ly~rL~D~~~~vRkta~lvlshLILndmiKVKGql~eMA~cl~D~~~~IsdlAk~FF~Els~k~ 1066 (1251)
T KOG0414|consen 999 WTEHLYRRLRDESPSVRKTALLVLSHLILNDMIKVKGQLSEMALCLEDPNAEISDLAKSFFKELSSKG 1066 (1251)
T ss_pred hhHHHHHHhcCccHHHHHHHHHHHHHHHHhhhhHhcccHHHHHHHhcCCcHHHHHHHHHHHHHhhhcc
Confidence 34578999999999999999999998766 9999999999999997777776653
No 66
>KOG2025|consensus
Probab=37.11 E-value=2.5e+02 Score=32.73 Aligned_cols=40 Identities=23% Similarity=0.428 Sum_probs=23.5
Q ss_pred CCcchHHHHHHHHHHhhhhhcchhhHHHHHHHHHHHHhCCchhHhHHHHHHHHHhh
Q psy8503 21 GSESSVDRLMKQIATFVSEISDEFKIVVVEAIRALCLKFPRKHAVLMNFLSAMLRD 76 (421)
Q Consensus 21 G~E~svdrL~kqI~~fmseisdefKi~vv~ai~~Lc~kfp~K~~~~l~FL~~~Lr~ 76 (421)
-+|+..||.++-...|+..++ .+|.-...+-.|+.+.||.
T Consensus 54 Kresi~dRIl~fla~fv~sl~----------------q~d~e~DlV~~~f~hlLRg 93 (892)
T KOG2025|consen 54 KRESIPDRILSFLARFVESLP----------------QLDKEEDLVAGTFYHLLRG 93 (892)
T ss_pred cCCCcHHHHHHHHHHHHHhhh----------------ccCchhhHHHHHHHHHHhc
Confidence 456667777777777766654 2233334555566666654
No 67
>TIGR00211 glyS glycyl-tRNA synthetase, tetrameric type, beta subunit. The glycyl-tRNA synthetases differ even among the eubacteria in oligomeric structure. In Escherichia coli and most others, it is a heterodimer of two alpha chains and two beta chains, encoded by tandem genes. The genes are similar, but fused, in Chlamydia trachomatis. By contrast, the glycyl-tRNA synthetases of Thermus thermophilus and of archaea and eukaryotes differ considerably; they are homodimeric, mutually similar, and not detected by this model.
Probab=37.09 E-value=2.7e+02 Score=31.72 Aligned_cols=51 Identities=18% Similarity=0.281 Sum_probs=35.1
Q ss_pred hHHhHHHHHHHHHhhChhhHHHHHHhhhhhcccCcchHHH---HHHHHHhcCCC
Q psy8503 114 YKASIADTIITIIEENPEAKETGLAHLCEFIEDCEHTSLA---VRILHLLGKEG 164 (421)
Q Consensus 114 ~K~~ivd~i~~ii~~~p~~ke~~L~~LcefIEDce~~~l~---~rIL~~LG~eg 164 (421)
|...+|++++..-..+|---..-+..|++|...-++..|. .||-.+|-++.
T Consensus 543 ~~~dvi~AVl~~~~~~~~~~~~r~~aL~~~~~~~~~~~l~~a~kRv~NIl~k~~ 596 (691)
T TIGR00211 543 IDVDVIQAVLARRETDPADFDARAQALSHFRDLPKAEALAAANKRVANILKKGN 596 (691)
T ss_pred CCHHHHHHHHccCCCCHHHHHHHHHHHHHHHcChhHHHHHHHHHHHHHHHhccc
Confidence 4566777776632223333334567789999999988887 79999998754
No 68
>PF12755 Vac14_Fab1_bd: Vacuolar 14 Fab1-binding region
Probab=36.98 E-value=74 Score=27.09 Aligned_cols=34 Identities=24% Similarity=0.214 Sum_probs=26.7
Q ss_pred HHHHHHHHHHhHh------------------hhcCCCChhhhhhHHHHHHHH
Q psy8503 189 RAAAVTAMAQFGA------------------LCQMDGDDEVRDRATYYHSIL 222 (421)
Q Consensus 189 RaAAv~aLakf~~------------------r~~~D~DDEVRDRA~~yl~il 222 (421)
|-+++-+|+.++. .|+.|+|..||-=|.-.+.-+
T Consensus 3 R~ggli~Laa~ai~l~~~~~~~l~~Il~pVL~~~~D~d~rVRy~AcEaL~ni 54 (97)
T PF12755_consen 3 RKGGLIGLAAVAIALGKDISKYLDEILPPVLKCFDDQDSRVRYYACEALYNI 54 (97)
T ss_pred hhHHHHHHHHHHHHchHhHHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHH
Confidence 6677778887765 999999999999887554433
No 69
>KOG2171|consensus
Probab=36.45 E-value=4e+02 Score=32.22 Aligned_cols=15 Identities=47% Similarity=0.651 Sum_probs=13.4
Q ss_pred hHHHHHHHHHHHhHh
Q psy8503 187 TVRAAAVTAMAQFGA 201 (421)
Q Consensus 187 ~VRaAAv~aLakf~~ 201 (421)
.||.+|+.|+.-|+.
T Consensus 174 ~vr~~a~rA~~a~~~ 188 (1075)
T KOG2171|consen 174 PVRVAAVRALGAFAE 188 (1075)
T ss_pred hHHHHHHHHHHHHHH
Confidence 399999999999886
No 70
>PRK01233 glyS glycyl-tRNA synthetase subunit beta; Validated
Probab=36.04 E-value=4e+02 Score=30.38 Aligned_cols=50 Identities=18% Similarity=0.306 Sum_probs=33.1
Q ss_pred HHhHHHHHHHHHhhChhhHHHHHHhhhhhcccCcchHHH---HHHHHHhcCCC
Q psy8503 115 KASIADTIITIIEENPEAKETGLAHLCEFIEDCEHTSLA---VRILHLLGKEG 164 (421)
Q Consensus 115 K~~ivd~i~~ii~~~p~~ke~~L~~LcefIEDce~~~l~---~rIL~~LG~eg 164 (421)
...+|++++..-...|---..-+..|.+|.+.-++..|. .||-++|-+..
T Consensus 534 ~~dvi~AVl~~~~~~~~~~~~r~~aL~~~~~~~~~~~l~~~~kRv~NIl~k~~ 586 (682)
T PRK01233 534 RYDVIDAVLALRPDDLADLDARVEALSAFRKLPEFKALAAANKRVSNILKKAE 586 (682)
T ss_pred CHHHHHHHHccCCCCHHHHHHHHHHHHHHhcChhHHHHHHHHHHHHHHHhccc
Confidence 456666666532223332333466799999988888887 79999988754
No 71
>KOG1060|consensus
Probab=35.77 E-value=8.3e+02 Score=29.12 Aligned_cols=87 Identities=20% Similarity=0.194 Sum_probs=54.5
Q ss_pred EEEEecCcchhhHHhHHHHHHHHHhhChhhHHHHHHhhhhhcccCcchHHHHHHHHHhcCCCCCCCCCccceeEEeeccc
Q psy8503 103 QLTVRSTSGLEYKASIADTIITIIEENPEAKETGLAHLCEFIEDCEHTSLAVRILHLLGKEGPRAKQPSKYIRFIYNRVI 182 (421)
Q Consensus 103 ~l~vRs~~~~~~K~~ivd~i~~ii~~~p~~ke~~L~~LcefIEDce~~~l~~rIL~~LG~egp~t~~P~kyIR~IyNRvi 182 (421)
++-||+.|...-|.-=++.+..++.+ ..--++|..|-.||-+...
T Consensus 362 sFfv~ssDp~~vk~lKleiLs~La~e--sni~~ILrE~q~YI~s~d~--------------------------------- 406 (968)
T KOG1060|consen 362 SFFVRSSDPTQVKILKLEILSNLANE--SNISEILRELQTYIKSSDR--------------------------------- 406 (968)
T ss_pred ceEeecCCHHHHHHHHHHHHHHHhhh--ccHHHHHHHHHHHHhcCch---------------------------------
Confidence 35678888888777777777776653 2233677777777766543
Q ss_pred cCchhHHHHHHHHHHHhHh--------------hhcCCCChhhhhhHHHHHHHHhhhcHH
Q psy8503 183 LENATVRAAAVTAMAQFGA--------------LCQMDGDDEVRDRATYYHSILASQNKQ 228 (421)
Q Consensus 183 LEn~~VRaAAv~aLakf~~--------------r~~~D~DDEVRDRA~~yl~il~~~~~~ 228 (421)
.+-|+||.|++.+|. ..+...|.-|-+.|..-++.|-+.++.
T Consensus 407 ----~faa~aV~AiGrCA~~~~sv~~tCL~gLv~Llsshde~Vv~eaV~vIk~Llq~~p~ 462 (968)
T KOG1060|consen 407 ----SFAAAAVKAIGRCASRIGSVTDTCLNGLVQLLSSHDELVVAEAVVVIKRLLQKDPA 462 (968)
T ss_pred ----hHHHHHHHHHHHHHHhhCchhhHHHHHHHHHHhcccchhHHHHHHHHHHHHhhChH
Confidence 144566666666665 233445666777776666666665554
No 72
>KOG0567|consensus
Probab=35.66 E-value=39 Score=34.66 Aligned_cols=88 Identities=18% Similarity=0.200 Sum_probs=66.3
Q ss_pred HHHHhhhhhcccCcchHHHHHHHHHhcCCCCCCCCCccceeEEeeccccCchhHHHHHHHHHHHhHh--------hhcCC
Q psy8503 135 TGLAHLCEFIEDCEHTSLAVRILHLLGKEGPRAKQPSKYIRFIYNRVILENATVRAAAVTAMAQFGA--------LCQMD 206 (421)
Q Consensus 135 ~~L~~LcefIEDce~~~l~~rIL~~LG~egp~t~~P~kyIR~IyNRviLEn~~VRaAAv~aLakf~~--------r~~~D 206 (421)
.+..-|.+=..| +..-.-..|--.||+-..++.-|+-.= -+ +-..|+|-||.-|--||.-||- .++.|
T Consensus 187 eaI~al~~~l~~-~SalfrhEvAfVfGQl~s~~ai~~L~k-~L--~d~~E~pMVRhEaAeALGaIa~e~~~~vL~e~~~D 262 (289)
T KOG0567|consen 187 EAINALIDGLAD-DSALFRHEVAFVFGQLQSPAAIPSLIK-VL--LDETEHPMVRHEAAEALGAIADEDCVEVLKEYLGD 262 (289)
T ss_pred HHHHHHHHhccc-chHHHHHHHHHHHhhccchhhhHHHHH-HH--HhhhcchHHHHHHHHHHHhhcCHHHHHHHHHHcCC
Confidence 344445555544 477777888888998888887775310 00 2245899999999999999998 89999
Q ss_pred CChhhhhhHHHHHHHHhhhc
Q psy8503 207 GDDEVRDRATYYHSILASQN 226 (421)
Q Consensus 207 ~DDEVRDRA~~yl~il~~~~ 226 (421)
+++-||.-+.+.+.++.-.|
T Consensus 263 ~~~vv~esc~valdm~eyen 282 (289)
T KOG0567|consen 263 EERVVRESCEVALDMLEYEN 282 (289)
T ss_pred cHHHHHHHHHHHHHHHHHhc
Confidence 99999999999988886554
No 73
>PF02296 Alpha_adaptin_C: Alpha adaptin AP2, C-terminal domain; InterPro: IPR003164 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. These vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transport []. Clathrin coats contain both clathrin (acts as a scaffold) and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors [, ]. AP (adaptor protein) complexes are found in coated vesicles and clathrin-coated pits. AP complexes connect cargo proteins and lipids to clathrin at vesicle budding sites, as well as binding accessory proteins that regulate coat assembly and disassembly (such as AP180, epsins and auxilin). There are different AP complexes in mammals. AP1 is responsible for the transport of lysosomal hydrolases between the TGN and endosomes []. AP2 associates with the plasma membrane and is responsible for endocytosis []. AP3 is responsible for protein trafficking to lysosomes and other related organelles []. AP4 is less well characterised. AP complexes are heterotetramers composed of two large subunits (adaptins), a medium subunit (mu) and a small subunit (sigma). For example, in AP1 these subunits are gamma-1-adaptin, beta-1-adaptin, mu-1 and sigma-1, while in AP2 they are alpha-adaptin, beta-2-adaptin, mu-2 and sigma-2. Each subunit has a specific function. Adaptins recognise and bind to clathrin through their hinge region (clathrin box), and recruit accessory proteins that modulate AP function through their C-terminal ear (appendage) domains. Mu recognises tyrosine-based sorting signals within the cytoplasmic domains of transmembrane cargo proteins []. One function of clathrin and AP2 complex-mediated endocytosis is to regulate the number of GABA(A) receptors available at the cell surface []. AP adaptor alpha-adaptin can be divided into a trunk domain and the C-terminal appendage domain (or ear domain), separated by a linker region. The C-terminal appendage domain regulates translocation of endocytic accessory proteins to the bud site []. This entry represents a subdomain of the appendage (ear) domain of alpha-adaptin from AP clathrin adaptor complexes. This domain has a three-layer arrangement, alpha-beta-alpha, with a bifurcated antiparallel beta-sheet []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030131 clathrin adaptor complex; PDB: 1KYF_A 1B9K_A 1QTS_A 1KYU_A 2VJ0_A 1KY6_A 1W80_A 3HS8_A 1KYD_A 1QTP_A ....
Probab=35.46 E-value=31 Score=30.21 Aligned_cols=49 Identities=18% Similarity=0.241 Sum_probs=26.7
Q ss_pred ccccccCC--ChHHHHhhhcccCCcccceeeEecc-C-cccHHHHHHHhhcccCC
Q psy8503 369 QMAKVNKP--NFLALWEEAETDESMNEMEDTFCLS-K-MESIQEAVASILLPFPR 419 (421)
Q Consensus 369 ~i~~~~~~--nF~~~We~l~~~~~~~e~~~tf~L~-~-~~sl~~Av~~i~~~fg~ 419 (421)
||+|+... +|-+.|..++..+ .|..+.|.+. . ...-.+.+.+++.-||+
T Consensus 1 F~~p~~l~~~~Ff~RWkql~~~~--~E~Q~vf~~~~~~~~~~~~~~~~~l~g~~~ 53 (113)
T PF02296_consen 1 FMEPTTLSSEDFFQRWKQLGGPP--QEAQEVFKLKDAKRPMDLESIRRKLEGFGF 53 (113)
T ss_dssp GEEE----HHHHHHHHTTT-SGG--GEEEEEEE----SS---HHHHHHHHHHHTS
T ss_pred CCCCccCCHHHHHHHHHhccCCc--cccEEEEcccccCCcccHHHHHHHHhcCCe
Confidence 45555543 8999999997543 6888999974 2 22233455666666654
No 74
>KOG1248|consensus
Probab=35.44 E-value=2.1e+02 Score=34.57 Aligned_cols=62 Identities=26% Similarity=0.494 Sum_probs=52.1
Q ss_pred CCCCchhHH--HHHHHHhhc----cCCcchHHHHHHHHHHhhhhhcchhhHHHHHHHHHHHHhCCchh
Q psy8503 2 ISDSNRSIA--TLAITTLLK----TGSESSVDRLMKQIATFVSEISDEFKIVVVEAIRALCLKFPRKH 63 (421)
Q Consensus 2 I~DsNrsia--tlAittLLK----TG~E~svdrL~kqI~~fmseisdefKi~vv~ai~~Lc~kfp~K~ 63 (421)
+.|+-+-.| .+|++++++ -++.+.+..++.++..|+..=+-+--.--|..|+.+|.+||.-+
T Consensus 795 ~gd~~~~~as~Ivai~~il~e~~~~ld~~~l~~li~~V~~~L~s~sreI~kaAI~fikvlv~~~pe~~ 862 (1176)
T KOG1248|consen 795 VGDSTRVVASDIVAITHILQEFKNILDDETLEKLISMVCLYLASNSREIAKAAIGFIKVLVYKFPEEC 862 (1176)
T ss_pred cccHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHcCCHHH
Confidence 345544444 489999986 58889999999999999999999999999999999999999743
No 75
>PLN03076 ARF guanine nucleotide exchange factor (ARF-GEF); Provisional
Probab=35.39 E-value=7.5e+02 Score=31.60 Aligned_cols=76 Identities=16% Similarity=0.238 Sum_probs=52.0
Q ss_pred CCCchhHHHHHHHHhhccCC------c----chHHHHHHHHHHhhhh-hcchhhHHHHHHHHHHHHhCC----chhHhHH
Q psy8503 3 SDSNRSIATLAITTLLKTGS------E----SSVDRLMKQIATFVSE-ISDEFKIVVVEAIRALCLKFP----RKHAVLM 67 (421)
Q Consensus 3 ~DsNrsiatlAittLLKTG~------E----~svdrL~kqI~~fmse-isdefKi~vv~ai~~Lc~kfp----~K~~~~l 67 (421)
++.|-.||.+|+..|-+... | .-=+.++|-....|.. -+.+.|=.|++.+..+-..+- .-|+.+.
T Consensus 1147 ~~~n~~va~fAidsLrQLs~kfle~eEL~~f~FQkefLkPfe~im~~s~~~eVrE~ILeCv~qmI~s~~~nIkSGWktIF 1226 (1780)
T PLN03076 1147 CSENLSIAIFAMDSLRQLSMKFLEREELANYNFQNEFMKPFVIVMRKSNAVEIRELIIRCVSQMVLSRVNNVKSGWKSMF 1226 (1780)
T ss_pred CCcchhHHHHHHHHHHHHHHHhcchhhhhchhHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHHHhhhhcCcHHHH
Confidence 46688899999998755322 1 1124566666665554 466889999999987754433 4699998
Q ss_pred HHHHHHHhhcc
Q psy8503 68 NFLSAMLRDEG 78 (421)
Q Consensus 68 ~FL~~~Lr~eG 78 (421)
+-|....+++.
T Consensus 1227 ~VLs~aa~d~~ 1237 (1780)
T PLN03076 1227 MVFTTAAYDDH 1237 (1780)
T ss_pred HHHHHHHhCcc
Confidence 88887776543
No 76
>PRK04328 hypothetical protein; Provisional
Probab=34.51 E-value=29 Score=33.34 Aligned_cols=54 Identities=22% Similarity=0.335 Sum_probs=42.2
Q ss_pred cchHHHHHHHHHHhhhhhcchhhHHHHHHHHHHHHhCCchhHhHHHHHHHHHhhcc
Q psy8503 23 ESSVDRLMKQIATFVSEISDEFKIVVVEAIRALCLKFPRKHAVLMNFLSAMLRDEG 78 (421)
Q Consensus 23 E~svdrL~kqI~~fmseisdefKi~vv~ai~~Lc~kfp~K~~~~l~FL~~~Lr~eG 78 (421)
+.+++.+++.|...+.+. ..+++|||+|..|...-|...+.++..|.+.|+.-|
T Consensus 110 ~~~~~~~~~~i~~~i~~~--~~~~vVIDSlt~l~~~~~~~~r~~~~~l~~~lk~~g 163 (249)
T PRK04328 110 PDDVRELIDVLRQAIKDI--GAKRVVIDSVSTLYLTKPAMARSIVMQLKRVLSGLG 163 (249)
T ss_pred cccHHHHHHHHHHHHHhh--CCCEEEEeChhHhhcCChHHHHHHHHHHHHHHHhCC
Confidence 457788888888887776 467999999999977666666667777888888766
No 77
>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family. Members of this family contain a single copy of the KaiC domain (pfam06745) that occurs in two copies of the circadian clock protein kinase KaiC itself. Members occur primarily in thermophilic archaea and in Thermotoga.
Probab=33.23 E-value=33 Score=32.46 Aligned_cols=54 Identities=20% Similarity=0.343 Sum_probs=41.8
Q ss_pred cchHHHHHHHHHHhhhhhcchhhHHHHHHHHHHHHhCCchhHhHHHHHHHHHhhcc
Q psy8503 23 ESSVDRLMKQIATFVSEISDEFKIVVVEAIRALCLKFPRKHAVLMNFLSAMLRDEG 78 (421)
Q Consensus 23 E~svdrL~kqI~~fmseisdefKi~vv~ai~~Lc~kfp~K~~~~l~FL~~~Lr~eG 78 (421)
..+++.++.+|...+.+. ..+.+|||++..|...-|...+.++..|.+.++..|
T Consensus 108 ~~~~~~~~~~i~~~i~~~--~~~~vVIDSls~l~~~~~~~~r~~l~~l~~~lk~~~ 161 (237)
T TIGR03877 108 PTDVRELIDVLRQAIRDI--NAKRVVIDSVTTLYITKPAMARSIVMQLKRVLSGLG 161 (237)
T ss_pred cccHHHHHHHHHHHHHHh--CCCEEEEcChhHhhcCChHHHHHHHHHHHHHHHhCC
Confidence 457888888888877765 377899999999877666666666677778888777
No 78
>PF12530 DUF3730: Protein of unknown function (DUF3730) ; InterPro: IPR022542 This domain is found in eukaryotes, and is typically between 220 and 262 amino acids in length.
Probab=32.92 E-value=4.5e+02 Score=25.26 Aligned_cols=65 Identities=29% Similarity=0.398 Sum_probs=45.2
Q ss_pred hhhHHhHHHHHHHHHhhChhhHHHHHHhhhhhc-ccCcchHHHHHHHHHhcCCCCCCCCCccceeEEeeccccCchhHHH
Q psy8503 112 LEYKASIADTIITIIEENPEAKETGLAHLCEFI-EDCEHTSLAVRILHLLGKEGPRAKQPSKYIRFIYNRVILENATVRA 190 (421)
Q Consensus 112 ~~~K~~ivd~i~~ii~~~p~~ke~~L~~LcefI-EDce~~~l~~rIL~~LG~egp~t~~P~kyIR~IyNRviLEn~~VRa 190 (421)
++..-++.-++-++++..|+.=...+..|..++ ++|.-. ++|
T Consensus 98 ~~~~i~~a~s~~~ic~~~p~~g~~ll~~ls~~L~~~~~~~-------------------------------------~~a 140 (234)
T PF12530_consen 98 WECLISIAASIRDICCSRPDHGVDLLPLLSGCLNQSCDEV-------------------------------------AQA 140 (234)
T ss_pred HHHHHHHHHHHHHHHHhChhhHHHHHHHHHHHHhccccHH-------------------------------------HHH
Confidence 344445667888899999986666777777777 555544 899
Q ss_pred HHHHHHHHhHhhhcCCCChhhhhhHHHHHH
Q psy8503 191 AAVTAMAQFGALCQMDGDDEVRDRATYYHS 220 (421)
Q Consensus 191 AAv~aLakf~~r~~~D~DDEVRDRA~~yl~ 220 (421)
.|+++|+- -| +-+|-|-......
T Consensus 141 lale~l~~---Lc----~~~vvd~~s~w~v 163 (234)
T PF12530_consen 141 LALEALAP---LC----EAEVVDFYSAWKV 163 (234)
T ss_pred HHHHHHHH---HH----HHhhccHHHHHHH
Confidence 99999987 34 5566666655433
No 79
>smart00567 EZ_HEAT E-Z type HEAT repeats. Present in subunits of cyanobacterial phycocyanin lyase, and other proteins. Probable scaffolding role.
Probab=32.44 E-value=36 Score=22.26 Aligned_cols=14 Identities=43% Similarity=0.555 Sum_probs=11.9
Q ss_pred hHHHHHHHHHHHhH
Q psy8503 187 TVRAAAVTAMAQFG 200 (421)
Q Consensus 187 ~VRaAAv~aLakf~ 200 (421)
.||.+|+.+|++++
T Consensus 2 ~vR~~aa~aLg~~~ 15 (30)
T smart00567 2 LVRHEAAFALGQLG 15 (30)
T ss_pred HHHHHHHHHHHHcC
Confidence 58999999999875
No 80
>PF01347 Vitellogenin_N: Lipoprotein amino terminal region; InterPro: IPR001747 This entry represents a conserved region found in several lipid transport proteins, including vitellogenin, microsomal triglyceride transfer protein and apolipoprotein B-100 []. Vitellinogen precursors provide the major egg yolk proteins that are a source of nutrients during early development of oviparous vertebrates and invertebrates. Vitellinogen precursors are multi-domain apolipoproteins that are cleaved into distinct yolk proteins. Different vitellinogen precursors exist, which are composed of variable combinations of yolk protein components; however, the cleavage sites are conserved. In vertebrates, a complete vitellinogen is composed of an N-terminal signal peptide for export, followed by four regions that can be cleaved into yolk proteins: lipovitellin-1, phosvitin, lipovitellin-2, and a von Willebrand factor type D domain (YGP40) [, ]. Microsomal triglyceride transfer protein (MTTP) is an endoplasmic reticulum lipid transfer protein involved in the biosynthesis and lipid loading of apolipoprotein B. MTTP is also involved in the late stage of CD1d trafficking in the lysosomal compartment, CD1d being the MHC I-like lipid antigen presenting molecule []. Apolipoprotein B can exist in two forms: B-100 and B-48. Apoliporotein B-100 is present on several lipoproteins, including very low-density lipoproteins (VLDL), intermediate density lipoproteins (IDL) and low density lipoproteins (LDL), and can assemble VLDL particles in the liver []. Apolipoprotein B-100 has been linked to the development of atherosclerosis.; GO: 0005319 lipid transporter activity, 0006869 lipid transport; PDB: 1LSH_A.
Probab=31.70 E-value=1.2e+02 Score=32.47 Aligned_cols=114 Identities=23% Similarity=0.297 Sum_probs=52.9
Q ss_pred cchHHHHHHHHHHhhhhhcchhhHHHHHHHHHHHHhCCchhHhHHHHHHHHHhhcccccccccee--eehhhhcccCCcc
Q psy8503 23 ESSVDRLMKQIATFVSEISDEFKIVVVEAIRALCLKFPRKHAVLMNFLSAMLRDEGVFRGGIDVL--VRSKLAVSADTGV 100 (421)
Q Consensus 23 E~svdrL~kqI~~fmseisdefKi~vv~ai~~Lc~kfp~K~~~~l~FL~~~Lr~eGvfrgg~dvL--~rAkLal~~~~~v 100 (421)
+.=++.|.+++..-++.=+.+-|++.+.|+.++.. |. .+..|...+.++. +.+-. ..|-.|+-
T Consensus 485 ~~~~~~l~~~l~~~~~~~~~~~~~~~LkaLgN~g~--~~----~i~~l~~~i~~~~----~~~~~~R~~Ai~Alr----- 549 (618)
T PF01347_consen 485 EKYVPYLEQELKEAVSRGDEEEKIVYLKALGNLGH--PE----SIPVLLPYIEGKE----EVPHFIRVAAIQALR----- 549 (618)
T ss_dssp GGGTHHHHHHHHHHHHTT-HHHHHHHHHHHHHHT---GG----GHHHHHTTSTTSS-----S-HHHHHHHHHTTT-----
T ss_pred HHHHHHHHHHHHHHhhccCHHHHHHHHHHhhccCC--ch----hhHHHHhHhhhcc----ccchHHHHHHHHHHH-----
Confidence 44455566666654444445677778888887752 33 3334444444442 11111 11111220
Q ss_pred eEEEEEecCcchhhHHhHHHHHHHHH---hhChhhHHHHHHhhhhhcccC-cchHHHHHHHHHhcCC
Q psy8503 101 TMQLTVRSTSGLEYKASIADTIITII---EENPEAKETGLAHLCEFIEDC-EHTSLAVRILHLLGKE 163 (421)
Q Consensus 101 tm~l~vRs~~~~~~K~~ivd~i~~ii---~~~p~~ke~~L~~LcefIEDc-e~~~l~~rIL~~LG~e 163 (421)
.. .....+.+.+.++.|. .+.+|.|=.++..|-+ | .-..+..+|...|..|
T Consensus 550 -------~~-~~~~~~~v~~~l~~I~~n~~e~~EvRiaA~~~lm~----~~P~~~~l~~i~~~l~~E 604 (618)
T PF01347_consen 550 -------RL-AKHCPEKVREILLPIFMNTTEDPEVRIAAYLILMR----CNPSPSVLQRIAQSLWNE 604 (618)
T ss_dssp -------TG-GGT-HHHHHHHHHHHHH-TTS-HHHHHHHHHHHHH----T---HHHHHHHHHHHTT-
T ss_pred -------HH-hhcCcHHHHHHHHHHhcCCCCChhHHHHHHHHHHh----cCCCHHHHHHHHHHHhhC
Confidence 00 1223445555555554 2445666666655543 5 4555666666666655
No 81
>PF12719 Cnd3: Nuclear condensing complex subunits, C-term domain
Probab=31.59 E-value=3.3e+02 Score=26.82 Aligned_cols=120 Identities=11% Similarity=0.166 Sum_probs=67.3
Q ss_pred hHHHHHHHHH-HhhhhhcchhhHHHHHHHHHHHHhCCchhHhHHHHHHHHHhhccccccccceeeehhhhcccCCcceEE
Q psy8503 25 SVDRLMKQIA-TFVSEISDEFKIVVVEAIRALCLKFPRKHAVLMNFLSAMLRDEGVFRGGIDVLVRSKLAVSADTGVTMQ 103 (421)
Q Consensus 25 svdrL~kqI~-~fmseisdefKi~vv~ai~~Lc~kfp~K~~~~l~FL~~~Lr~eGvfrgg~dvL~rAkLal~~~~~vtm~ 103 (421)
+++.|+..+- .-+.--..+-+..-++.+--.|+-.++-....+..+.+.+ +.|
T Consensus 23 ~l~~ll~~lI~P~v~~~~~~vR~~al~cLGl~~Lld~~~a~~~l~l~~~~~-~~~------------------------- 76 (298)
T PF12719_consen 23 SLESLLDSLILPAVQSSDPAVRELALKCLGLCCLLDKELAKEHLPLFLQAL-QKD------------------------- 76 (298)
T ss_pred hHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHhChHHHHHHHHHHHHHH-HhC-------------------------
Confidence 4456665543 2222223355666666666667777766666666677777 556
Q ss_pred EEEecCcchhhHHhHHHHHHHHHhhChhhHHHHHHhhhhhcccCcchHHHHHHHHHhcCCCCCCCCCccceeEEeecccc
Q psy8503 104 LTVRSTSGLEYKASIADTIITIIEENPEAKETGLAHLCEFIEDCEHTSLAVRILHLLGKEGPRAKQPSKYIRFIYNRVIL 183 (421)
Q Consensus 104 l~vRs~~~~~~K~~ivd~i~~ii~~~p~~ke~~L~~LcefIEDce~~~l~~rIL~~LG~egp~t~~P~kyIR~IyNRviL 183 (421)
.-+-|-..+.+|++++-..+ ...+...-. .. .......+++.+++-+--
T Consensus 77 -------~~~v~~~al~~l~Dll~~~g------~~~~~~~~~----~~--------------~~~~~~~l~~~l~~~l~~ 125 (298)
T PF12719_consen 77 -------DEEVKITALKALFDLLLTHG------IDIFDSESD----ND--------------ESVDSKSLLKILTKFLDS 125 (298)
T ss_pred -------CHHHHHHHHHHHHHHHHHcC------chhccchhc----cC--------------ccchHhHHHHHHHHHHhc
Confidence 67777778888888774322 111111110 00 111122333333344444
Q ss_pred CchhHHHHHHHHHHHhHh
Q psy8503 184 ENATVRAAAVTAMAQFGA 201 (421)
Q Consensus 184 En~~VRaAAv~aLakf~~ 201 (421)
+++.+|++|+.+++|+-.
T Consensus 126 ~~~~~~~~a~EGl~KLlL 143 (298)
T PF12719_consen 126 ENPELQAIAVEGLCKLLL 143 (298)
T ss_pred CCHHHHHHHHHHHHHHHh
Confidence 477899999999999776
No 82
>PF00620 RhoGAP: RhoGAP domain; InterPro: IPR000198 Members of the Rho family of small G proteins transduce signals from plasma-membrane receptors and control cell adhesion, motility and shape by actin cytoskeleton formation. Like all other GTPases, Rho proteins act as molecular switches, with an active GTP-bound form and an inactive GDP-bound form. The active conformation is promoted by guanine-nucleotide exchange factors, and the inactive state by GTPase-activating proteins (GAPs) which stimulate the intrinsic GTPase activity of small G proteins. This entry is a Rho/Rac/Cdc42-like GAP domain, that is found in a wide variety of large, multi-functional proteins []. A number of structure are known for this family [, , ]. The domain is composed of seven alpha helices. This domain is also known as the breakpoint cluster region-homology (BH) domain.; GO: 0007165 signal transduction, 0005622 intracellular; PDB: 1RGP_A 1AM4_B 1GRN_B 2NGR_B 1OW3_A 1TX4_A 3BYI_B 1XA6_A 3FK2_B 1F7C_A ....
Probab=30.24 E-value=3.2e+02 Score=23.33 Aligned_cols=88 Identities=16% Similarity=0.236 Sum_probs=49.1
Q ss_pred cCCcchHHHHHHHHHHhhh---hhcchhhHHHHHHHHHHHHhCCch---hHhHHHHHHHHHhhccccccccceeeehhhh
Q psy8503 20 TGSESSVDRLMKQIATFVS---EISDEFKIVVVEAIRALCLKFPRK---HAVLMNFLSAMLRDEGVFRGGIDVLVRSKLA 93 (421)
Q Consensus 20 TG~E~svdrL~kqI~~fms---eisdefKi~vv~ai~~Lc~kfp~K---~~~~l~FL~~~Lr~eGvfrgg~dvL~rAkLa 93 (421)
.|+.+.+++|.+++..... ...+..=..|...++......|.- ....-.|+. ..+
T Consensus 25 ~g~~~~~~~l~~~~~~~~~~~~~~~~~~~~~va~~lK~~L~~lp~pli~~~~~~~~~~-~~~------------------ 85 (151)
T PF00620_consen 25 PGSSSEVQELRNKIDSGEPPNENLENYDVHDVASLLKRFLRELPEPLIPSELYDKFIA-ASK------------------ 85 (151)
T ss_dssp S--HHHHHHHHHHHHTTTTCSTTGTTSTHHHHHHHHHHHHHHSSSTSTTHHHHHHHHH-HHT------------------
T ss_pred cCCHHHHHHHHHHHHhhhcccccccccChhhccccceeeeeccccchhhhhHHHHHhh-hhc------------------
Confidence 5899999999999987544 234444445556666666666643 111222221 111
Q ss_pred cccCCcceEEEEEecCcchhhHHhHHHHHHHHHhhChhhHHHHHHhhhhhc
Q psy8503 94 VSADTGVTMQLTVRSTSGLEYKASIADTIITIIEENPEAKETGLAHLCEFI 144 (421)
Q Consensus 94 l~~~~~vtm~l~vRs~~~~~~K~~ivd~i~~ii~~~p~~ke~~L~~LcefI 144 (421)
......-++.+..++...|......|..|+.|.
T Consensus 86 ------------------~~~~~~~~~~~~~~l~~lp~~~~~~l~~l~~~l 118 (151)
T PF00620_consen 86 ------------------SADEEEQIEAIRSLLQSLPPSNRSLLKYLIELL 118 (151)
T ss_dssp ------------------SSSHHHHHHHHHHHHTTS-HHHHHHHHHHHHHH
T ss_pred ------------------cchhhHHHHHHHHhhhccccccceeehhcccch
Confidence 111233366777777788988777777666653
No 83
>PF04826 Arm_2: Armadillo-like; InterPro: IPR006911 This entry consists of mammalian proteins of unknown function.
Probab=28.98 E-value=87 Score=31.00 Aligned_cols=70 Identities=19% Similarity=0.184 Sum_probs=38.6
Q ss_pred HHHhhhhhcccCcchHHHHHHHHHhcCCCCCCCCCccceeEEeeccccCchhHHHHHHHHHHHhHhhhcCCCChhhhhhH
Q psy8503 136 GLAHLCEFIEDCEHTSLAVRILHLLGKEGPRAKQPSKYIRFIYNRVILENATVRAAAVTAMAQFGALCQMDGDDEVRDRA 215 (421)
Q Consensus 136 ~L~~LcefIEDce~~~l~~rIL~~LG~egp~t~~P~kyIR~IyNRviLEn~~VRaAAv~aLakf~~r~~~D~DDEVRDRA 215 (421)
.+..|..+++.-+-+.+..+++..||.-.-.+.+ | ..+|-.+...+-- ..+.|++..||.+|
T Consensus 13 ~l~~Ll~lL~~t~dp~i~e~al~al~n~aaf~~n----------q-----~~Ir~~Ggi~lI~---~lL~~p~~~vr~~A 74 (254)
T PF04826_consen 13 ELQKLLCLLESTEDPFIQEKALIALGNSAAFPFN----------Q-----DIIRDLGGISLIG---SLLNDPNPSVREKA 74 (254)
T ss_pred HHHHHHHHHhcCCChHHHHHHHHHHHhhccChhH----------H-----HHHHHcCCHHHHH---HHcCCCChHHHHHH
Confidence 3455556666666677777777777765433221 1 1223222211111 67777788888777
Q ss_pred HHHHHHHh
Q psy8503 216 TYYHSILA 223 (421)
Q Consensus 216 ~~yl~il~ 223 (421)
.-.+.-|.
T Consensus 75 L~aL~Nls 82 (254)
T PF04826_consen 75 LNALNNLS 82 (254)
T ss_pred HHHHHhcC
Confidence 66555553
No 84
>PF10163 EnY2: Transcription factor e(y)2; InterPro: IPR018783 Enhancer of yellow 2 (EnY2) is a small transcription factor which is combined in a complex with the TAFII40 protein []. This protein is conserved from protozoa to humans.; PDB: 4DHX_C 3FWC_P 3M99_C 3KIK_A 3KJL_C 3FWB_C 3MHS_B 3MHH_B.
Probab=28.37 E-value=92 Score=25.88 Aligned_cols=71 Identities=20% Similarity=0.307 Sum_probs=44.7
Q ss_pred chhHhHHHHHHHHHhhccccccccceeeehhhhcccCCcceEEEEEecCcchhhHHhHHHHHHHHHh-hCh-hhHHHHHH
Q psy8503 61 RKHAVLMNFLSAMLRDEGVFRGGIDVLVRSKLAVSADTGVTMQLTVRSTSGLEYKASIADTIITIIE-ENP-EAKETGLA 138 (421)
Q Consensus 61 ~K~~~~l~FL~~~Lr~eGvfrgg~dvL~rAkLal~~~~~vtm~l~vRs~~~~~~K~~ivd~i~~ii~-~~p-~~ke~~L~ 138 (421)
..+.-+.++|...|.+.| ||....-+|+..+.=... ++..|- .+++.|..... .+| +.|+..+.
T Consensus 14 Ge~~~L~~~L~~rL~e~G-W~d~vr~~~re~i~~~g~------------~~~~~~-~l~~~i~P~Ar~~VP~~vk~ell~ 79 (86)
T PF10163_consen 14 GEYERLKELLRQRLIECG-WRDEVRQLCREIIRERGI------------DNLTFE-DLLEEITPKARAMVPDEVKKELLQ 79 (86)
T ss_dssp THHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHH-T------------TTSBHH-HHHHHHHHHHHHCS-HHHHHHHHH
T ss_pred CcHHHHHHHHHHHHHHCC-hHHHHHHHHHHHHHhhCC------------CCCCHH-HHHHHHHHHHHHHCCHHHHHHHHH
Confidence 566777788888888888 777666677766655111 133332 45555555443 566 56888888
Q ss_pred hhhhhcc
Q psy8503 139 HLCEFIE 145 (421)
Q Consensus 139 ~LcefIE 145 (421)
.+.+|+|
T Consensus 80 ~Ir~~L~ 86 (86)
T PF10163_consen 80 RIRAFLD 86 (86)
T ss_dssp HHHHHHH
T ss_pred HHHHHhC
Confidence 8888875
No 85
>PF05184 SapB_1: Saposin-like type B, region 1; InterPro: IPR007856 Synonym(s):cerebroside sulphate activator, CSAct Saposin B is a small non-enzymatic glycoprotein required for the breakdown of cerebroside sulphates (sulphatides) in lysosomes. Saposin B contains three intramolecular disulphide bridges, exists as a dimer and is remarkably heat, protease, and pH stable. The crystal structure of human saposin B reveals an unusual shell-like dimer consisting of a monolayer of alpha-helices enclosing a large hydrophobic cavity. Although the secondary structure of saposin B is similar to that of the known monomeric members of the saposin-like superfamily, the helices are repacked into a different tertiary arrangement to form the homodimer. A comparison of the two forms of the saposin B dimer suggests that extraction of target lipids from membranes involves a conformational change that facilitates access to the inner cavity [].; GO: 0006629 lipid metabolic process; PDB: 1N69_C 1QDM_C 4DDJ_A 2DOB_A 1OF9_A 2Z9A_A 1M12_A 2GTG_A 1SN6_A 2QYP_B ....
Probab=28.37 E-value=1.3e+02 Score=20.63 Aligned_cols=31 Identities=19% Similarity=0.428 Sum_probs=23.3
Q ss_pred HHHHHHHHhhhhhcchhhHHHHHHHHHHHHhCC
Q psy8503 28 RLMKQIATFVSEISDEFKIVVVEAIRALCLKFP 60 (421)
Q Consensus 28 rL~kqI~~fmseisdefKi~vv~ai~~Lc~kfp 60 (421)
.+++.+.+++. +...+=.|++++...|.++|
T Consensus 9 ~~v~~i~~~l~--~~~t~~~I~~~l~~~C~~lP 39 (39)
T PF05184_consen 9 FVVKEIEKLLK--NNKTEEEIKKALEKACNKLP 39 (39)
T ss_dssp HHHHHHHHHHH--STCHHHHHHHHHHHHHTTSC
T ss_pred HHHHHHHHHHH--cCccHHHHHHHHHHHHhhCc
Confidence 35666666664 66777788899999998877
No 86
>PF09090 MIF4G_like_2: MIF4G like; InterPro: IPR015174 This entry represents an MIF4G-like domain. MIF4G domains share a common structure but can differ in sequence. This entry is designated "type 2", and is found in nuclear cap-binding proteins and eIF4G. The MIF4G domain is a structural motif with an ARM (Armadillo) repeat-type fold, consisting of a 2-layer alpha/alpha right-handed superhelix. Proteins usually contain two or more structurally similar MIF4G domains connected by unstructured linkers. MIF4G domains are found in several proteins involved in RNA metabolism, including eIF4G (eukaryotic initiation factor 4-gamma), eIF-2b (translation initiation factor), UPF2 (regulator of nonsense transcripts 2), and nuclear cap-binding proteins (CBP80, CBC1, NCBP1), although the sequence identity between them may be low []. The nuclear cap-binding complex (CBC) is a heterodimer. Human CBC consists of a large CBP80 subunit and a small CBP20 subunit, the latter being critical for cap binding. CBP80 contains three MIF4G domains connected with long linkers, while CBP20 has an RNP (ribonucleoprotein)-type domain that associates with domains 2 and 3 of CBP80 []. The complex binds to 5'-cap of eukaryotic RNA polymerase II transcripts, such as mRNA and U snRNA. The binding is important for several mRNA nuclear maturation steps and for nonsense-mediated decay. It is also essential for nuclear export of U snRNAs in metazoans []. Eukaryotic translation initiation factor 4 gamma (eIF4G) plays a critical role in protein expression, and is at the centre of a complex regulatory network. Together with the cap-binding protein eIF4E, it recruits the small ribosomal subunit to the 5'-end of mRNA and promotes the assembly of a functional translation initiation complex, which scans along the mRNA to the translation start codon. The activity of eIF4G in translation initiation could be regulated through intra- and inter-protein interactions involving the ARM repeats []. In eIF4G, the MIF4G domain binds eIF4A, eIF3, RNA and DNA.; GO: 0016070 RNA metabolic process; PDB: 3FEY_A 3FEX_A 1H6K_C 1H2V_C 1H2U_A 1H2T_C 1N54_A 1N52_A.
Probab=27.43 E-value=1.7e+02 Score=28.56 Aligned_cols=68 Identities=19% Similarity=0.310 Sum_probs=46.2
Q ss_pred CCchhHHHHHHHHhhccCCcc--hHHHHHHHHHHhhhhh---cchhhHHHHHHHHHHHHhCCchhHhHHHHHH
Q psy8503 4 DSNRSIATLAITTLLKTGSES--SVDRLMKQIATFVSEI---SDEFKIVVVEAIRALCLKFPRKHAVLMNFLS 71 (421)
Q Consensus 4 DsNrsiatlAittLLKTG~E~--svdrL~kqI~~fmsei---sdefKi~vv~ai~~Lc~kfp~K~~~~l~FL~ 71 (421)
|.|+-+..+.++|+|..|+-| ++-.++..-.+-+..+ +++-...+++++...=...|+--.++++.|-
T Consensus 47 ~~~~~~i~v~~q~ll~~GSkS~SH~~~~lery~~~Lk~l~~~~~~~q~~il~~v~~~W~~~~q~~~li~dkll 119 (253)
T PF09090_consen 47 DFDKFVIDVFVQCLLHIGSKSFSHVLSALERYKEVLKELEAESEEAQFWILDAVFRFWKNNPQMGFLIIDKLL 119 (253)
T ss_dssp ---HHHHHHHHHHHHHHTTTSHHHHHHHHHHTHHHHHHH-TSSHHHHHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred chhhHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHhcCCceehHHHHHHH
Confidence 456778889999999999865 3333333333333444 6788999999999999888887777766553
No 87
>smart00544 MA3 Domain in DAP-5, eIF4G, MA-3 and other proteins. Highly alpha-helical. May contain repeats and/or regions similar to MIF4G domains Ponting (TIBS) "Novel eIF4G domain homologues" in press
Probab=27.06 E-value=3e+02 Score=22.75 Aligned_cols=36 Identities=19% Similarity=0.137 Sum_probs=25.9
Q ss_pred hhhHHHHHHHHHHHHhCCchhHhHHHHHHHHHhhcc
Q psy8503 43 EFKIVVVEAIRALCLKFPRKHAVLMNFLSAMLRDEG 78 (421)
Q Consensus 43 efKi~vv~ai~~Lc~kfp~K~~~~l~FL~~~Lr~eG 78 (421)
+|.-.+|..+-..|+.--++++-+..-|...|.++|
T Consensus 32 ~~~~~vv~~~i~~~le~~~~~~~~~~~Ll~~L~~~~ 67 (113)
T smart00544 32 EQHHEVVKVLLTCALEEKRTYREMYSVLLSRLCQAN 67 (113)
T ss_pred cchHHHHHHHHHHHHcCCccHHHHHHHHHHHHHHcC
Confidence 577777777777777643467777777777777776
No 88
>PF03130 HEAT_PBS: PBS lyase HEAT-like repeat; InterPro: IPR004155 These proteins contain a short bi-helical repeat that is related to HEAT. Cyanobacteria and red algae harvest light energy using macromolecular complexes known as phycobilisomes (PBS), peripherally attached to the photosynthetic membrane. The major components of PBS are the phycobiliproteins. These heterodimeric proteins are covalently attached to phycobilins: open-chain tetrapyrrole chromophores, which function as the photosynthetic light-harvesting pigments. Phycobiliproteins differ in sequence and in the nature and number of attached phycobilins to each of their subunits. These proteins include the lyase enzymes that specifically attach particular phycobilins to apophycobiliprotein subunits. The most comprehensively studied of these is the CpcE/Flyase P31967 from SWISSPROT, P31968 from SWISSPROT, which attaches phycocyanobilin (PCB) to the alpha subunit of apophycocyanin []. Similarly, MpeU/V attaches phycoerythrobilin to phycoerythrin II, while CpeY/Z is thought to be involved in phycoerythrobilin (PEB) attachment to phycoerythrin (PE) I (PEs I and II differ in sequence and in the number of attached molecules of PEB: PE I has five, PE II has six) []. All the reactions of the above lyases involve an apoprotein cysteine SH addition to a terminal delta 3,3'-double bond. Such a reaction is not possible in the case of phycoviolobilin (PVB), the phycobilin of alpha-phycoerythrocyanin (alpha-PEC). It is thought that in this case, PCB, not PVB, is first added to apo-alpha-PEC, and is then isomerized to PVB. The addition reaction has been shown to occur in the presence of either of the components of alpha-PEC-PVB lyase PecE or PecF (or both). The isomerisation reaction occurs only when both PecE and PecF components are present, i.e. the PecE/F phycobiliprotein lyase is also a phycobilin isomerase []. Another member of this family is the NblB protein, whose similarity to the phycobiliprotein lyases was previously noted []. This constitutively expressed protein is not known to have any lyase activity. It is thought to be involved in the coordination of PBS degradation with environmental nutrient limitation. It has been suggested that the similarity of NblB to the phycobiliprotein lyases is due to the ability to bind tetrapyrrole phycobilins via the common repeated motif [].; PDB: 1TE4_A.
Probab=26.88 E-value=42 Score=22.11 Aligned_cols=14 Identities=50% Similarity=0.665 Sum_probs=11.0
Q ss_pred HHHHHHHHHHHhHh
Q psy8503 188 VRAAAVTAMAQFGA 201 (421)
Q Consensus 188 VRaAAv~aLakf~~ 201 (421)
||.+|+.+|++++.
T Consensus 1 VR~~Aa~aLg~igd 14 (27)
T PF03130_consen 1 VRRAAARALGQIGD 14 (27)
T ss_dssp HHHHHHHHHGGG-S
T ss_pred CHHHHHHHHHHcCC
Confidence 78899999998774
No 89
>PF12348 CLASP_N: CLASP N terminal; InterPro: IPR024395 This domain is found in the N-terminal region of CLIP-associated proteins (CLASPs), which are widely conserved microtubule plus-end-tracking proteins that regulate the stability of dynamic microtubules [, ]. The domain is also found in other proteins involved in microtubule binding, including STU1, MOR1 and spindle pole body component Alp14.; PDB: 2QK2_A.
Probab=26.78 E-value=3.8e+02 Score=24.59 Aligned_cols=40 Identities=18% Similarity=0.390 Sum_probs=23.7
Q ss_pred HhHHHHHHHHH-hhChhhHHHHHHhhhhhcccCcchHHHHHHH
Q psy8503 116 ASIADTIITII-EENPEAKETGLAHLCEFIEDCEHTSLAVRIL 157 (421)
Q Consensus 116 ~~ivd~i~~ii-~~~p~~ke~~L~~LcefIEDce~~~l~~rIL 157 (421)
..++.+|...+ ...|+.|+.+-.-+..|..- +++-+.+++
T Consensus 176 ~~l~~~l~~~l~D~~~~VR~~Ar~~~~~l~~~--~~~~a~~~~ 216 (228)
T PF12348_consen 176 KQLVKALVKLLSDADPEVREAARECLWALYSH--FPERAESIL 216 (228)
T ss_dssp HHHHHHHHHHHTSS-HHHHHHHHHHHHHHHHH--H-HHH----
T ss_pred HHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHH--CCHhhccch
Confidence 45666666655 47889999999999888554 333344444
No 90
>PF01008 IF-2B: Initiation factor 2 subunit family; InterPro: IPR000649 Initiation factor 2 binds to Met-tRNA, GTP and the small ribosomal subunit. The eukaryotic translation initiation factor EIF-2B is a complex made up of five different subunits, alpha, beta, gamma, delta and epsilon, and catalyses the exchange of EIF-2-bound GDP for GTP. This family includes initiation factor 2B alpha, beta and delta subunits from eukaryotes; related proteins from archaebacteria and IF-2 from prokaryotes and also contains a subfamily of proteins in eukaryotes, archaeae (e.g. Pyrococcus furiosus), or eubacteria such as Bacillus subtilis and Thermotoga maritima. Many of these proteins were initially annotated as putative translation initiation factors despite the fact that there is no evidence for the requirement of an IF2 recycling factor in prokaryotic translation initiation. Recently, one of these proteins from B. subtilis has been functionally characterised as a 5-methylthioribose-1-phosphate isomerase (MTNA) []. This enzyme participates in the methionine salvage pathway catalysing the isomerisation of 5-methylthioribose-1-phosphate to 5-methylthioribulose-1-phosphate []. The methionine salvage pathway leads to the synthesis of methionine from methylthioadenosine, the end product of the spermidine and spermine anabolism in many species.; GO: 0044237 cellular metabolic process; PDB: 1VB5_A 1T5O_D 3A11_E 3VM6_C 1W2W_A 1T9K_A 3ECS_B 2YRF_A 2YVK_B 2A0U_A ....
Probab=26.54 E-value=3.5e+02 Score=26.18 Aligned_cols=54 Identities=30% Similarity=0.301 Sum_probs=41.3
Q ss_pred chhhHHhHHHHHHHHHhhChhhHHHHHHhhhhhcccCc------chHHHHHHHHHhcCCC
Q psy8503 111 GLEYKASIADTIITIIEENPEAKETGLAHLCEFIEDCE------HTSLAVRILHLLGKEG 164 (421)
Q Consensus 111 ~~~~K~~ivd~i~~ii~~~p~~ke~~L~~LcefIEDce------~~~l~~rIL~~LG~eg 164 (421)
.-+.|+.+.+.+..+++++-.+.+.+-.+..+||.|-+ |+....++|.-..+.|
T Consensus 72 ~~~~~~~l~~~i~~~~~e~~~~~~~I~~~~~~~I~~~~~ILT~~~S~~v~~~l~~a~~~~ 131 (282)
T PF01008_consen 72 FEEAKQSLLEAIDEFLDEIEQAREKIADHASELINDGDTILTHGYSSTVERFLLSAKKKG 131 (282)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-TTEEEEEES--SHHHHHHHHHHHTT
T ss_pred hHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHhccCCeEEEEeCCchHHHHHHHHHHHcC
Confidence 67899999999999999999999999999999997743 4555556555544443
No 91
>PF02847 MA3: MA3 domain; InterPro: IPR003891 This entry represents the MI domain (after MA-3 and eIF4G), it is a protein-protein interaction module of ~130 amino acids [, , ]. It appears in several translation factors and is found in: One copy in plant and animal eIF4G 1 and 2 (DAP-5/NAT1/p97) Two copies in the animal programmed cell death protein 4 (PDCD4) or MA-3 that is induced during programmed cell death and inhibits neoplastic transformation Four tandem-repeated copies in a group of uncharacterised plant proteins The MI domain consists of seven alpha-helices, which pack into a globular form. The packing arrangement consists of repeating pairs of antiparallel helices packed one upon the other such that a superhelical axis is generated perpendicular to the alpha-helical axes []. The MI domain has also been named MA3 domain.; PDB: 2ION_A 2IOL_B 2NSZ_A 3EIQ_C 2HM8_A 2KZT_B 2IOS_A 2RG8_B 2ZU6_E 3EIJ_A ....
Probab=26.06 E-value=3.7e+02 Score=22.09 Aligned_cols=38 Identities=16% Similarity=0.052 Sum_probs=26.1
Q ss_pred hcchhhHHHHHHHHHHHHhCCchhHhHHHHHHHHHhhcc
Q psy8503 40 ISDEFKIVVVEAIRALCLKFPRKHAVLMNFLSAMLRDEG 78 (421)
Q Consensus 40 isdefKi~vv~ai~~Lc~kfp~K~~~~l~FL~~~Lr~eG 78 (421)
++ .+.-.+|..+-..|+.--++++-+..-|...|...|
T Consensus 30 ~~-~~~~~vv~~~l~~~le~~~~~r~~~~~Ll~~L~~~~ 67 (113)
T PF02847_consen 30 LP-SQHHEVVKVILECALEEKKSYREYYSKLLSHLCKRK 67 (113)
T ss_dssp -G-GGHHHHHHHHHHHHHTSSHHHHHHHHHHHHHHHHTT
T ss_pred CC-ccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHhcC
Confidence 35 566677777777777665667777777777777766
No 92
>PRK00979 tetrahydromethanopterin S-methyltransferase subunit H; Provisional
Probab=25.70 E-value=90 Score=32.27 Aligned_cols=72 Identities=18% Similarity=0.243 Sum_probs=53.8
Q ss_pred eEEeeccccCchhHHHHHHHHHHHhHh-----hhcCCCChhhhhhHHHHHH--------HHhhhcHHHHhhhhcCCCCCC
Q psy8503 175 RFIYNRVILENATVRAAAVTAMAQFGA-----LCQMDGDDEVRDRATYYHS--------ILASQNKQLIQDYIIEPLMVS 241 (421)
Q Consensus 175 R~IyNRviLEn~~VRaAAv~aLakf~~-----r~~~D~DDEVRDRA~~yl~--------il~~~~~~~~~~~i~~~~~~s 241 (421)
|-|||-+.+|... .-+.++.+.+. .|.+|.+.-+.+|-....+ +++...+.=+.+.+.+++.++
T Consensus 124 R~IiNSIn~e~~~---eel~llk~yg~aavIvLa~d~~~pt~e~Rl~i~~~~~~~~~~gll~~a~~~GI~diliDplVlp 200 (308)
T PRK00979 124 RAIYNSINPSIEE---EEIEALKESDIKAAIVLAFDPMDPSVEGRLKMLEEGGKGQDKGMLPLAEEAGIERPLVDTAVTP 200 (308)
T ss_pred ceEEEeccCCCCH---HHHHHHHHhCCceEEEEEcCCCCCCHHHHHHHHHhccccchHHHHHHHHHcCCCcEEeccCCCc
Confidence 6799999999776 33788888883 7888889999999988887 565444444578888888887
Q ss_pred hHHHHHHH
Q psy8503 242 IPSLERAL 249 (421)
Q Consensus 242 ~~~Le~~L 249 (421)
++.....|
T Consensus 201 vs~~~~tl 208 (308)
T PRK00979 201 LPGSGAAI 208 (308)
T ss_pred CccHHHHH
Confidence 76544433
No 93
>PF04858 TH1: TH1 protein; InterPro: IPR006942 TH1 is a highly conserved but uncharacterised metazoan protein. No homologue has been identified in Caenorhabditis elegans []. TH1 binds specifically to A-Raf kinase [].; GO: 0045892 negative regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=25.44 E-value=1.8e+02 Score=32.56 Aligned_cols=97 Identities=23% Similarity=0.328 Sum_probs=68.9
Q ss_pred HHHHHHHhCCchhHhHHHHHHHHHhhccccccccceeeehhhhcccCCcceEEEEEecCcchhhHHhHHHHHHHHHhhCh
Q psy8503 51 AIRALCLKFPRKHAVLMNFLSAMLRDEGVFRGGIDVLVRSKLAVSADTGVTMQLTVRSTSGLEYKASIADTIITIIEENP 130 (421)
Q Consensus 51 ai~~Lc~kfp~K~~~~l~FL~~~Lr~eGvfrgg~dvL~rAkLal~~~~~vtm~l~vRs~~~~~~K~~ivd~i~~ii~~~p 130 (421)
-|-.|+.+||+ ..+|+|--+..-+.|... ++-.-+..+= . =-=|-+-+++.|-.++...+
T Consensus 152 liy~Lae~~p~--~l~L~faik~IsdaG~~~---Ei~s~~taa~--~-------------~~VF~~vl~~~i~~~~~~~~ 211 (584)
T PF04858_consen 152 LIYELAERHPD--CLFLNFAIKLISDAGYQH---EITSVSTAAQ--Q-------------FEVFSRVLKDSISRFLAAGE 211 (584)
T ss_pred HHHHHHHHCCC--CHHHHHHHHHHHHcchHH---HHHhHHHHHH--h-------------HHHHHHHHHHHHHHHHcCCc
Confidence 36677888777 678888888888888222 2222221111 1 22477889999999998777
Q ss_pred hhHHHHHHhhhhhcccCcchHH-HHHHHHHhcCCCCCC
Q psy8503 131 EAKETGLAHLCEFIEDCEHTSL-AVRILHLLGKEGPRA 167 (421)
Q Consensus 131 ~~ke~~L~~LcefIEDce~~~l-~~rIL~~LG~egp~t 167 (421)
+.-+..+..||.-+=-+||+.| +.-+|+.|+++....
T Consensus 212 d~~~~~~~~l~k~~C~sehTYlyaQ~lL~~L~~~~~~~ 249 (584)
T PF04858_consen 212 DELQEAIAELKKMCCHSEHTYLYAQALLHELSQESDGG 249 (584)
T ss_pred HHHHHHHHHHHHHhhcCCchHHHHHHHHHHHHhccccc
Confidence 7666668888888888899877 667899999987654
No 94
>PF11698 V-ATPase_H_C: V-ATPase subunit H; InterPro: IPR011987 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. V-ATPases (also known as V1V0-ATPase or vacuolar ATPase) (3.6.3.14 from EC) are found in the eukaryotic endomembrane system, and in the plasma membrane of prokaryotes and certain specialised eukaryotic cells. V-ATPases hydrolyse ATP to drive a proton pump, and are involved in a variety of vital intra- and inter-cellular processes such as receptor mediated endocytosis, protein trafficking, active transport of metabolites, homeostasis and neurotransmitter release []. V-ATPases are composed of two linked complexes: the V1 complex (subunits A-H) contains the catalytic core that hydrolyses ATP, while the V0 complex (subunits a, c, c', c'', d) forms the membrane-spanning pore. V-ATPases may have an additional role in membrane fusion through binding to t-SNARE proteins []. This entry represents the C-terminal domain of subunit H (also known as Vma13p) found in the V1 complex of V-ATPases. This subunit has a regulatory function, being responsible for activating ATPase activity and coupling ATPase activity to proton flow []. The yeast enzyme contains five motifs similar to the HEAT or Armadillo repeats seen in the importins, and can be divided into two distinct domains: a large N-terminal domain consisting of stacked alpha helices, and a smaller C-terminal alpha-helical domain with a similar superhelical topology to an armadillo repeat []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0016820 hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances, 0015991 ATP hydrolysis coupled proton transport, 0000221 vacuolar proton-transporting V-type ATPase, V1 domain; PDB: 1HO8_A.
Probab=24.98 E-value=1.4e+02 Score=26.97 Aligned_cols=21 Identities=29% Similarity=0.072 Sum_probs=16.0
Q ss_pred hhcCCCChhhhhhHHHHHHHH
Q psy8503 202 LCQMDGDDEVRDRATYYHSIL 222 (421)
Q Consensus 202 r~~~D~DDEVRDRA~~yl~il 222 (421)
..+.++|+|||-.|...+.-|
T Consensus 93 ~Lm~h~d~eVr~eAL~avQkl 113 (119)
T PF11698_consen 93 ELMNHEDPEVRYEALLAVQKL 113 (119)
T ss_dssp HHTS-SSHHHHHHHHHHHHHH
T ss_pred HHhcCCCHHHHHHHHHHHHHH
Confidence 778899999999997765543
No 95
>PF12719 Cnd3: Nuclear condensing complex subunits, C-term domain
Probab=24.97 E-value=1.2e+02 Score=29.76 Aligned_cols=36 Identities=17% Similarity=0.290 Sum_probs=21.6
Q ss_pred CCCCCccceeEEeecccc-----CchhHHHHHHHHHHHhHh
Q psy8503 166 RAKQPSKYIRFIYNRVIL-----ENATVRAAAVTAMAQFGA 201 (421)
Q Consensus 166 ~t~~P~kyIR~IyNRviL-----En~~VRaAAv~aLakf~~ 201 (421)
.+.+|...|+-+++.+|+ .++.||..|+.+|+-++.
T Consensus 16 ~~~~~~~~l~~ll~~lI~P~v~~~~~~vR~~al~cLGl~~L 56 (298)
T PF12719_consen 16 SSLSPNISLESLLDSLILPAVQSSDPAVRELALKCLGLCCL 56 (298)
T ss_pred ccCCCcchHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHH
Confidence 334444445555555553 356788888888877554
No 96
>PF12031 DUF3518: Domain of unknown function (DUF3518); InterPro: IPR021906 This presumed domain is functionally uncharacterised. This domain is found in eukaryotes. This domain is about 260 amino acids in length. This domain is found associated with PF01388 from PFAM.
Probab=24.85 E-value=1.4e+02 Score=30.26 Aligned_cols=22 Identities=36% Similarity=0.546 Sum_probs=18.3
Q ss_pred HHHHhhhhhcccCcchHHHHHH
Q psy8503 135 TGLAHLCEFIEDCEHTSLAVRI 156 (421)
Q Consensus 135 ~~L~~LcefIEDce~~~l~~rI 156 (421)
..+.+|..||||++.+...+.=
T Consensus 216 ~~i~~Li~FiE~a~~~~~~~~~ 237 (257)
T PF12031_consen 216 PCISHLIAFIEDAEQNAHQVAS 237 (257)
T ss_pred chHHHHHHHHHHHHHHHHHHHh
Confidence 5689999999999998776653
No 97
>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family. Members of this protein family are archaeal single-domain KaiC_related proteins, homologous to the Cyanobacterial circadian clock cycle protein KaiC, an autokinase/autophosphorylase that has two copies of the domain.
Probab=23.72 E-value=63 Score=29.88 Aligned_cols=55 Identities=15% Similarity=0.224 Sum_probs=41.3
Q ss_pred chHHHHHHHHHHhhhhhcchhhHHHHHHHHHHHHhCCchhHhHHHHHHHHHhhcc
Q psy8503 24 SSVDRLMKQIATFVSEISDEFKIVVVEAIRALCLKFPRKHAVLMNFLSAMLRDEG 78 (421)
Q Consensus 24 ~svdrL~kqI~~fmseisdefKi~vv~ai~~Lc~kfp~K~~~~l~FL~~~Lr~eG 78 (421)
-+++.+...+...+.+++.....+|||.+..+...-|...+.++..|...+++.|
T Consensus 102 ~~~~~~~~~i~~~~~~~~~~~~~vvIDsl~~l~~~~~~~~r~~~~~l~~~l~~~~ 156 (229)
T TIGR03881 102 LSIEELLNKVIEAKKYLGYGHARLVIDSMSAFWLDKPAMARKYSYYLKRVLNRWN 156 (229)
T ss_pred CCHHHHHHHHHHHHHhhccCceEEEecCchhhhccChHHHHHHHHHHHHHHHhCC
Confidence 4788888888888877776677899999999977667655555555666777666
No 98
>PF03392 OS-D: Insect pheromone-binding family, A10/OS-D; InterPro: IPR005055 A class of small (14-20 Kd) water-soluble proteins, called odorant binding proteins (OBPs), first discovered in the insect sensillar lymph but also in the mucus of vertebrates, is postulated to mediate the solubilisation of hydrophobic odorant molecules, and thereby to facilitate their transport to the receptor neurons. The product of a gene expressed in the olfactory system of Drosophila melanogaster (Fruit fly), OS-D, shares features common to vertebrate odorant-binding proteins, but has a primary structure unlike odorant-binding proteins []. OS-D derivatives have subsequently been found in chemosensory organs of phylogenetically distinct insects, including cockroaches, phasmids and moths, suggesting that OS-D-like proteins seem to be conserved in the insect phylum.; PDB: 1KX9_A 1N8U_A 1KX8_A 1K19_A 1N8V_A 2GVS_A 2JNT_A.
Probab=23.19 E-value=2.1e+02 Score=24.52 Aligned_cols=63 Identities=19% Similarity=0.245 Sum_probs=41.0
Q ss_pred chhHHHHHHHHhhccCCcchHHHHHHHHH-----HhhhhhcchhhHHHHHHHHHHHHhCCchhHhHHH
Q psy8503 6 NRSIATLAITTLLKTGSESSVDRLMKQIA-----TFVSEISDEFKIVVVEAIRALCLKFPRKHAVLMN 68 (421)
Q Consensus 6 NrsiatlAittLLKTG~E~svdrL~kqI~-----~fmseisdefKi~vv~ai~~Lc~kfp~K~~~~l~ 68 (421)
|+.+-.-.+-|||..|.=...-+-+|.+- +--+.=++..|..+-..++.|..++|..|..++.
T Consensus 16 N~rl~~~y~~ClldkgpCt~~~~~lK~~ipeal~t~C~KCt~kQK~~~~kv~~~l~~~~P~~w~~l~~ 83 (95)
T PF03392_consen 16 NDRLLKSYIDCLLDKGPCTPEGKELKKVIPEALKTNCAKCTPKQKENARKVIKFLKKNYPDEWEELVK 83 (95)
T ss_dssp -HHHHHHHHHHHTSSSTSHHHHHHHHHHHHHHHHCTTTTS-HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHccccCCCHHHHHHHHHHHHHHHHcCHHHHHHHHH
Confidence 45555567888888886655555555432 2333457777888888888888888888877644
No 99
>PF12765 Cohesin_HEAT: HEAT repeat associated with sister chromatid cohesion
Probab=22.96 E-value=17 Score=26.62 Aligned_cols=14 Identities=29% Similarity=0.247 Sum_probs=7.6
Q ss_pred hhcCCCChhhhhhH
Q psy8503 202 LCQMDGDDEVRDRA 215 (421)
Q Consensus 202 r~~~D~DDEVRDRA 215 (421)
+++.|++..||+=|
T Consensus 25 ~rl~D~s~~VR~aa 38 (42)
T PF12765_consen 25 RRLSDSSPSVREAA 38 (42)
T ss_pred HHhcCCChHHHHHH
Confidence 44555555555544
No 100
>TIGR00511 ribulose_e2b2 ribose-1,5-bisphosphate isomerase, e2b2 family. The delineation of this family was based originally, in part, on a discussion and neighbor-joining phylogenetic study by Kyrpides and Woese of archaeal and other proteins homologous to the alpha, beta, and delta subunits of eukaryotic initiation factor 2B (eIF-2B), a five-subunit molecule that catalyzes GTP recycling for eIF-2. Recently, Sato, et al. assigned the function ribulose-1,5 bisphosphate isomerase.
Probab=22.55 E-value=6.5e+02 Score=25.46 Aligned_cols=37 Identities=14% Similarity=0.049 Sum_probs=33.1
Q ss_pred chhhHHhHHHHHHHHHhhChhhHHHHHHhhhhhcccC
Q psy8503 111 GLEYKASIADTIITIIEENPEAKETGLAHLCEFIEDC 147 (421)
Q Consensus 111 ~~~~K~~ivd~i~~ii~~~p~~ke~~L~~LcefIEDc 147 (421)
.-+.|+.+++.+..++++.-.+.+.+-.+-.++|.|=
T Consensus 80 ~~~~k~~l~~~~~~~~~e~~~a~~~I~~~a~~~i~~g 116 (301)
T TIGR00511 80 VETLRETVIERADAFINQSDKAQERIGEIGAKRIRDG 116 (301)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCC
Confidence 4578899999999999999999999999999999873
No 101
>TIGR02270 conserved hypothetical protein. Members are found in Myxococcus xanthus (six members), Geobacter sulfurreducens, and Pseudomonas aeruginosa; a short protein homologous to the N-terminal region is found in Mesorhizobium loti. All sequence are from Proteobacteria. The function is unknown.
Probab=22.37 E-value=1e+02 Score=32.57 Aligned_cols=41 Identities=20% Similarity=0.112 Sum_probs=33.1
Q ss_pred CchhHHHHHHHHHHHhHh-------hhcCCCChhhhhhHHHHHHHHhh
Q psy8503 184 ENATVRAAAVTAMAQFGA-------LCQMDGDDEVRDRATYYHSILAS 224 (421)
Q Consensus 184 En~~VRaAAv~aLakf~~-------r~~~D~DDEVRDRA~~yl~il~~ 224 (421)
++|.||++++.++++... ..+.|+|..||-+|.--+--++.
T Consensus 129 ~~p~vR~aal~al~~r~~~~~~~L~~~L~d~d~~Vra~A~raLG~l~~ 176 (410)
T TIGR02270 129 SEPPGRAIGLAALGAHRHDPGPALEAALTHEDALVRAAALRALGELPR 176 (410)
T ss_pred CChHHHHHHHHHHHhhccChHHHHHHHhcCCCHHHHHHHHHHHHhhcc
Confidence 467899999999988754 78899999999999866655543
No 102
>cd02890 PTase Protein prenyltransferase (PTase) domain, beta subunit (alpha 6 - alpha 6 barrel fold). The protein prenyltransferase family of lipid-modifying enzymes includes protein farnesyltransferase (FTase) and geranylgeranyltransferase types I and II (GGTase-I and GGTase-II). They catalyze the carboxyl-terminal lipidation of Ras, Rab, and several other cellular signal transduction proteins, facilitating membrane associations and specific protein-protein interactions. Prenyltransferases employ a Zn2+ ion to alkylate a thiol group catalyzing the formation of thioether linkages between the C1 atom of farnesyl (15-carbon by FTase) or geranylgeranyl (20-carbon by GGTase-I, II) isoprenoid lipids and cysteine residues at or near the C-terminus of protein acceptors. FTase and GGTase-I prenylate the cysteine in the terminal sequence, "CAAX"; and GGTase-II prenylates both cysteines in the "CC" (or "CXC") terminal sequence. These enzymes are heterodimeric with both alpha and beta subunits re
Probab=20.43 E-value=5.7e+02 Score=24.62 Aligned_cols=79 Identities=22% Similarity=0.322 Sum_probs=40.7
Q ss_pred CCchhHHHH-HHHHhhccCC---cchHHHHHHHHHHhh-hhhc-------chh----hHHHHHHHHHHHHh-CCch-hHh
Q psy8503 4 DSNRSIATL-AITTLLKTGS---ESSVDRLMKQIATFV-SEIS-------DEF----KIVVVEAIRALCLK-FPRK-HAV 65 (421)
Q Consensus 4 DsNrsiatl-AittLLKTG~---E~svdrL~kqI~~fm-seis-------def----Ki~vv~ai~~Lc~k-fp~K-~~~ 65 (421)
|++|--.++ ++.+|.=.|. ...++|.++-|.+.. ++-. ++- =-..+.++.-|... ++.. -..
T Consensus 23 ~~~~~~~~y~~l~~l~ll~~~~~~~~~~~~i~~l~~~q~~~~Ggf~~~~~~~~~~~~T~~al~~l~llg~~~~~~~~~~~ 102 (286)
T cd02890 23 DASRLWLLYWILSSLDLLGEDLDDENKDEIIDFIYSCQVNEDGGFGGGPGQDPHLASTYAAVLSLAILGDDALSRIDREK 102 (286)
T ss_pred HhhHHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHhhcCCCCCCCCCCCCCccHHHHHHHHHHHHHcCccccchhhHHH
Confidence 455543343 3333333344 567788888777655 3210 111 12233333333321 2222 234
Q ss_pred HHHHHHHHHhhcccccc
Q psy8503 66 LMNFLSAMLRDEGVFRG 82 (421)
Q Consensus 66 ~l~FL~~~Lr~eGvfrg 82 (421)
+++|+.+.-+.+|-|++
T Consensus 103 ~~~~l~~~q~~dGgf~~ 119 (286)
T cd02890 103 IYKFLSSLQNPDGSFRG 119 (286)
T ss_pred HHHHHHHhcCCCCCccc
Confidence 78999998888897766
Done!