Query psy3857
Match_columns 349
No_of_seqs 224 out of 738
Neff 7.0
Searched_HMMs 46136
Date Fri Aug 16 19:13:32 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy3857.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/3857hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1087|consensus 100.0 1.3E-61 2.9E-66 481.2 32.6 270 15-290 1-277 (470)
2 KOG1086|consensus 100.0 1.4E-54 3.1E-59 415.3 19.5 276 11-293 5-303 (594)
3 cd03565 VHS_Tom1 VHS domain fa 100.0 8.4E-46 1.8E-50 317.6 17.6 140 15-156 1-141 (141)
4 cd03569 VHS_Hrs_Vps27p VHS dom 100.0 2.1E-44 4.7E-49 309.2 18.1 140 13-157 2-141 (142)
5 cd03568 VHS_STAM VHS domain fa 100.0 2.8E-44 6.2E-49 308.9 17.6 138 16-158 1-138 (144)
6 cd03567 VHS_GGA VHS domain fam 100.0 8.6E-43 1.9E-47 297.6 17.1 134 15-154 1-137 (139)
7 smart00288 VHS Domain present 100.0 1.9E-40 4E-45 282.2 16.5 133 16-152 1-133 (133)
8 PF00790 VHS: VHS domain; Int 100.0 1.1E-39 2.4E-44 279.8 15.6 137 12-152 2-140 (140)
9 KOG2199|consensus 100.0 1.9E-37 4.1E-42 295.2 24.0 268 15-291 8-368 (462)
10 cd03561 VHS VHS domain family; 100.0 2.9E-38 6.3E-43 268.7 16.6 132 16-150 1-133 (133)
11 cd00197 VHS_ENTH_ANTH VHS, ENT 99.9 2.2E-25 4.8E-30 184.7 13.7 111 16-129 1-114 (115)
12 KOG1818|consensus 99.9 2.7E-24 5.9E-29 218.2 11.5 159 13-175 6-165 (634)
13 PF03127 GAT: GAT domain; Int 99.9 4.7E-22 1E-26 161.1 9.7 93 200-292 3-95 (100)
14 PF01417 ENTH: ENTH domain; I 97.9 0.00012 2.5E-09 61.5 10.5 110 14-127 2-118 (125)
15 cd03572 ENTH_epsin_related ENT 97.8 0.00043 9.4E-09 58.0 11.8 77 18-97 4-80 (122)
16 smart00273 ENTH Epsin N-termin 97.7 0.00097 2.1E-08 56.0 12.6 79 14-94 1-79 (127)
17 cd03571 ENTH_epsin ENTH domain 97.6 0.0015 3.1E-08 54.9 12.1 110 15-128 1-116 (123)
18 cd03562 CID CID (CTD-Interacti 97.5 0.00058 1.3E-08 56.1 8.2 107 16-132 4-110 (114)
19 cd03564 ANTH_AP180_CALM ANTH d 97.2 0.0029 6.4E-08 52.4 9.2 77 17-96 2-78 (117)
20 KOG2056|consensus 97.1 0.005 1.1E-07 59.7 11.4 131 12-149 19-153 (336)
21 KOG0251|consensus 95.8 0.075 1.6E-06 54.5 10.7 82 15-98 23-104 (491)
22 smart00582 RPR domain present 94.9 0.16 3.4E-06 41.9 8.2 80 48-131 28-108 (121)
23 PF07651 ANTH: ANTH domain; I 93.0 0.4 8.6E-06 45.4 7.8 80 14-96 2-81 (280)
24 KOG2374|consensus 92.0 3 6.5E-05 42.6 12.6 138 15-158 7-152 (661)
25 PF12210 Hrs_helical: Hepatocy 89.3 1.9 4.1E-05 34.4 6.9 55 210-264 4-58 (96)
26 KOG2057|consensus 86.6 5.9 0.00013 38.5 9.7 110 15-126 23-139 (499)
27 PF12348 CLASP_N: CLASP N term 83.9 17 0.00036 32.9 11.3 78 50-133 129-209 (228)
28 KOG2160|consensus 82.5 5.8 0.00013 38.9 7.9 68 60-133 132-199 (342)
29 PF12348 CLASP_N: CLASP N term 76.6 20 0.00043 32.3 9.2 97 28-132 16-125 (228)
30 PF08167 RIX1: rRNA processing 73.3 41 0.00089 29.3 10.0 73 50-126 19-93 (165)
31 PF06160 EzrA: Septation ring 71.0 79 0.0017 33.3 13.1 102 52-159 143-249 (560)
32 PF11841 DUF3361: Domain of un 66.6 26 0.00057 30.8 7.1 109 16-129 16-130 (160)
33 PF12717 Cnd1: non-SMC mitotic 66.2 91 0.002 27.3 11.3 87 35-132 8-94 (178)
34 cd00020 ARM Armadillo/beta-cat 62.4 31 0.00068 26.8 6.5 69 52-127 49-117 (120)
35 KOG1293|consensus 62.2 45 0.00097 35.5 8.9 105 38-151 442-552 (678)
36 PF04818 CTD_bind: RNA polymer 55.2 44 0.00095 24.1 5.6 52 75-130 4-59 (64)
37 PF13646 HEAT_2: HEAT repeats; 55.1 74 0.0016 23.5 7.2 57 55-128 2-58 (88)
38 smart00229 RasGEFN Guanine nuc 54.5 1.2E+02 0.0025 24.7 10.9 105 15-126 9-124 (127)
39 PRK04778 septation ring format 52.3 3.1E+02 0.0066 28.9 14.7 103 51-159 146-253 (569)
40 KOG0151|consensus 51.5 2.1E+02 0.0045 31.1 11.7 113 15-136 435-559 (877)
41 PF06812 ImpA-rel_N: ImpA-rela 50.3 83 0.0018 22.7 6.4 58 32-92 1-59 (62)
42 PF00618 RasGEF_N: RasGEF N-te 49.5 62 0.0013 25.4 6.2 47 89-135 32-90 (104)
43 PRK01005 V-type ATP synthase s 49.1 94 0.002 28.4 8.0 87 70-156 64-164 (207)
44 KOG2071|consensus 48.5 31 0.00066 36.3 5.1 82 43-131 31-112 (579)
45 PF13646 HEAT_2: HEAT repeats; 47.3 1.1E+02 0.0025 22.5 10.8 86 17-125 2-87 (88)
46 cd00020 ARM Armadillo/beta-cat 46.7 1E+02 0.0022 23.7 7.1 72 53-131 8-79 (120)
47 PF07197 DUF1409: Protein of u 44.9 27 0.00057 24.7 2.8 29 78-108 6-37 (51)
48 PF07106 TBPIP: Tat binding pr 42.9 2.2E+02 0.0048 24.6 10.4 59 202-260 80-138 (169)
49 KOG1077|consensus 41.9 1.6E+02 0.0035 32.0 9.2 94 19-125 79-173 (938)
50 PF02854 MIF4G: MIF4G domain; 41.7 2E+02 0.0043 24.7 8.8 87 37-126 108-204 (209)
51 PRK09458 pspB phage shock prot 41.0 37 0.00081 26.0 3.3 26 232-257 36-61 (75)
52 PF11698 V-ATPase_H_C: V-ATPas 40.3 1.7E+02 0.0036 24.4 7.4 75 48-129 39-114 (119)
53 PF01602 Adaptin_N: Adaptin N 39.2 1.5E+02 0.0033 30.0 8.7 79 39-131 66-144 (526)
54 PF06667 PspB: Phage shock pro 37.5 41 0.00089 25.7 3.1 26 232-257 36-61 (75)
55 COG4477 EzrA Negative regulato 37.4 1.7E+02 0.0037 30.6 8.4 121 31-161 118-254 (570)
56 COG5209 RCD1 Uncharacterized p 36.8 94 0.002 29.2 5.9 71 73-149 164-234 (315)
57 cd06224 REM Guanine nucleotide 36.3 1.9E+02 0.0042 22.9 7.3 47 89-135 27-84 (122)
58 KOG2035|consensus 35.4 1.7E+02 0.0036 28.5 7.5 69 23-96 241-313 (351)
59 KOG2021|consensus 34.5 4E+02 0.0086 29.4 10.7 105 16-125 5-114 (980)
60 PF13513 HEAT_EZ: HEAT-like re 33.6 1.5E+02 0.0033 20.0 5.6 52 69-125 1-52 (55)
61 PF01602 Adaptin_N: Adaptin N 33.3 2E+02 0.0044 29.1 8.5 102 19-129 118-220 (526)
62 PF12783 Sec7_N: Guanine nucle 32.7 3.2E+02 0.0069 23.4 10.3 81 54-146 75-156 (168)
63 smart00229 RasGEFN Guanine nuc 32.2 98 0.0021 25.1 5.0 47 89-135 35-89 (127)
64 COG1059 Thermostable 8-oxoguan 31.0 1.4E+02 0.0031 27.0 5.9 70 29-108 35-110 (210)
65 smart00543 MIF4G Middle domain 30.2 2.9E+02 0.0064 23.6 8.0 67 37-107 101-170 (200)
66 PF06012 DUF908: Domain of Unk 29.8 3.9E+02 0.0084 26.0 9.4 95 36-130 195-297 (329)
67 PF14726 RTTN_N: Rotatin, an a 28.5 3.1E+02 0.0067 22.0 7.1 69 49-126 27-96 (98)
68 PF00618 RasGEF_N: RasGEF N-te 28.5 2.3E+02 0.0051 22.0 6.4 76 15-94 6-95 (104)
69 PF03670 UPF0184: Uncharacteri 28.1 1.8E+02 0.0039 22.7 5.3 51 210-262 28-78 (83)
70 PF11707 Npa1: Ribosome 60S bi 27.7 1.5E+02 0.0032 28.9 6.1 66 36-110 46-113 (330)
71 cd08779 Death_PIDD Death Domai 27.6 1.4E+02 0.003 23.1 4.8 37 114-152 38-74 (86)
72 cd08306 Death_FADD Fas-associa 27.2 1.8E+02 0.0039 22.5 5.3 71 78-153 4-74 (86)
73 smart00509 TFS2N Domain in the 26.2 2.7E+02 0.0059 20.9 6.0 20 113-132 54-73 (75)
74 TIGR02976 phageshock_pspB phag 25.8 83 0.0018 24.0 3.1 26 232-257 36-61 (75)
75 KOG3219|consensus 25.7 1.3E+02 0.0028 27.3 4.7 38 116-155 148-185 (195)
76 smart00549 TAFH TAF homology. 25.0 1.4E+02 0.003 23.8 4.2 33 97-131 6-38 (92)
77 PF08388 GIIM: Group II intron 24.8 2.9E+02 0.0062 20.3 6.2 39 97-135 2-42 (80)
78 PF09869 DUF2096: Uncharacteri 24.8 4.9E+02 0.011 23.0 8.8 57 211-271 24-80 (169)
79 PF07531 TAFH: NHR1 homology t 24.6 1.1E+02 0.0025 24.5 3.7 33 97-131 7-39 (96)
80 PF11864 DUF3384: Domain of un 24.4 6.8E+02 0.015 25.5 10.5 95 33-130 8-117 (464)
81 KOG1077|consensus 24.3 2.4E+02 0.0051 30.8 7.0 75 47-130 324-398 (938)
82 PF06798 PrkA: PrkA serine pro 24.0 89 0.0019 29.5 3.6 77 49-132 38-117 (254)
83 PF02985 HEAT: HEAT repeat; I 23.7 1.8E+02 0.0038 17.5 4.4 29 55-86 3-31 (31)
84 KOG4535|consensus 23.7 70 0.0015 33.2 3.0 52 32-86 123-181 (728)
85 PF14523 Syntaxin_2: Syntaxin- 23.7 3.5E+02 0.0076 20.9 8.9 82 208-289 3-92 (102)
86 PF08579 RPM2: Mitochondrial r 23.6 60 0.0013 27.1 2.0 24 136-159 39-62 (120)
87 PF05004 IFRD: Interferon-rela 23.4 6.7E+02 0.015 24.1 12.3 103 16-123 45-153 (309)
88 KOG1820|consensus 23.3 4.4E+02 0.0096 29.3 9.1 93 34-133 354-446 (815)
89 PF10458 Val_tRNA-synt_C: Valy 23.0 2.7E+02 0.006 20.2 5.4 25 202-226 5-29 (66)
90 PF14555 UBA_4: UBA-like domai 21.8 1.9E+02 0.0042 19.1 4.0 24 263-286 14-38 (43)
91 cd08319 Death_RAIDD Death doma 21.8 2.5E+02 0.0054 21.7 5.2 37 114-153 38-74 (83)
92 PF11573 Med23: Mediator compl 21.6 4.5E+02 0.0098 30.9 9.1 102 38-158 49-157 (1341)
93 cd08777 Death_RIP1 Death Domai 21.5 1.3E+02 0.0028 23.4 3.5 70 79-152 5-75 (86)
94 COG4010 Uncharacterized protei 21.4 5.5E+02 0.012 22.3 7.6 50 212-263 25-74 (170)
95 cd06224 REM Guanine nucleotide 21.3 4.1E+02 0.009 20.9 10.7 72 16-91 2-86 (122)
96 PTZ00429 beta-adaptin; Provisi 21.1 7.3E+02 0.016 27.3 10.3 72 31-107 232-307 (746)
97 PF07637 PSD5: Protein of unkn 21.0 2.9E+02 0.0062 20.0 5.1 47 16-62 7-53 (64)
98 PF03962 Mnd1: Mnd1 family; I 20.8 6.1E+02 0.013 22.6 10.7 83 201-285 69-155 (188)
99 PF12783 Sec7_N: Guanine nucle 20.7 4.2E+02 0.0091 22.6 7.1 63 68-133 35-105 (168)
100 KOG4523|consensus 20.5 2.5E+02 0.0055 23.7 5.1 55 36-93 14-68 (157)
101 PF11426 Tn7_TnsC_Int: Tn7 tra 20.4 66 0.0014 22.4 1.5 14 143-156 26-39 (48)
102 PF09712 PHA_synth_III_E: Poly 20.4 2.7E+02 0.0058 26.8 6.2 93 49-148 188-281 (293)
103 PF04826 Arm_2: Armadillo-like 20.1 5.2E+02 0.011 24.2 8.0 92 53-152 55-146 (254)
104 PF12333 Ipi1_N: Rix1 complex 20.0 2E+02 0.0044 22.9 4.5 41 67-108 23-63 (102)
105 KOG4508|consensus 20.0 3.4E+02 0.0074 27.5 6.7 102 39-152 379-510 (522)
No 1
>KOG1087|consensus
Probab=100.00 E-value=1.3e-61 Score=481.19 Aligned_cols=270 Identities=39% Similarity=0.648 Sum_probs=237.8
Q ss_pred cHHHHHHHhcCCCCCCcCHHHHHHHHHHHhcCCCCHHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhcCchhHHHHh
Q psy3857 15 PVGSKIEMATDPTLASENWALNMEICDIINETEDGPKDAIKAIRKRLQQYAGKDYTVIMYTLTVLETCVKNCNRRFHILV 94 (349)
Q Consensus 15 ~~~~~I~~AT~~~~~~~dw~~~l~icD~In~~~~~~~eA~ral~krl~~~~~~n~~~~l~AL~LLd~~vkNcG~~Fh~~i 94 (349)
+++.+|+|||++.+.+|||++||+|||+||.+..+++||+|+|+|||+ + +++++|++||+|||+||||||+.||.+|
T Consensus 1 ~v~~~IdkAT~~~l~~pDWa~NleIcD~IN~~~~~~~eAvralkKRi~-~--k~s~vq~lALtlLE~cvkNCG~~fh~~V 77 (470)
T KOG1087|consen 1 SVGKLIDKATSESLAEPDWALNLEICDLINSTEGGPKEAVRALKKRLN-S--KNSKVQLLALTLLETCVKNCGYSFHLQV 77 (470)
T ss_pred ChHHHHHHhhcccccCccHHHHHHHHHHHhcCccCcHHHHHHHHHHhc-c--CCcHHHHHHHHHHHHHHHhhhHHHHHHH
Confidence 378999999999999999999999999999999999999999999999 6 9999999999999999999999999999
Q ss_pred hcHHHHHHHHHHhCCCCCCChhHHHHHHHHHHHHHHHhcC-CCCchhHHHHHHHHHhcCCCCCCCccccCCCCCCCCCCc
Q psy3857 95 CSKDFIQELYKLIGPKNEPPIIVQDKVLSLIQSWADAFKD-IPNLEGVNQIYQELRSKGIEFPMTDLDAMAPIITPKKSK 173 (349)
Q Consensus 95 ~~k~Fl~eL~kl~~~k~~~~~~Vk~kil~li~~W~~~f~~-~~~l~~i~~~y~~Lk~~G~~fP~~~~~~~~p~~tp~~s~ 173 (349)
++++||++||++++.+. ++..||+|||.||++|+++|++ +..++.+..+|++|+++||.||..+.+..+++.+|.+..
T Consensus 78 a~k~fL~emVk~~k~~~-~~~~Vr~kiL~LI~~W~~af~~~~~~~~~~~~~y~~l~~~G~~FP~r~~~sl~~~~pp~~~~ 156 (470)
T KOG1087|consen 78 ASKEFLNEMVKRPKNKP-RDLKVREKILELIDTWQQAFCGPDGYLPDYYQIYDELRRKGVEFPQRDEESLAVLTPPAVLR 156 (470)
T ss_pred HHHHHHHHHHhccccCC-cchhHHHHHHHHHHHHHHHccCCCCcchhHHHHHHHHHHcCCcCCCCccccccccCCCCCCC
Confidence 99999999999996542 5789999999999999999997 888999999999999999999999988888777765433
Q ss_pred cccCCCCCcCCCCCC------CCCCCCCCCCChHHHHhHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHH
Q psy3857 174 EVASSHPVQRSKVPM------GAAGDHDERLTPEQVTKLHKDLEVVQANMAVFNEMLNTLIPGQEHSSDIELITELHATC 247 (349)
Q Consensus 174 ~~~~~~~~~~s~~p~------~~~~~~~~~~~~e~~~kl~~el~~v~~n~~lL~emL~~~~p~~~~~~d~e~i~eL~~~c 247 (349)
...+...++ ..|. ...+...+..++++..++.++|++++++++||+|||.+++|++....+.|++.+|+.+|
T Consensus 157 ~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~seLe~~~~~~~ll~emL~~v~p~~~e~~~~el~~~L~~qc 234 (470)
T KOG1087|consen 157 PAPEPQEQS--GPPNEANASMKSMAGYPTEATPEVSTLSLSELESVKGKADLLSEMLNAVDPSDEEAAKDELLVDLVEQC 234 (470)
T ss_pred CCCCchhhc--CCccccccccccccccchhhhhhhhhhhHHHHHHHHHHHHHHHHHHhccCCCCcchhHHHHHHHHHHHH
Confidence 211111011 1011 11122233455678899999999999999999999999999999888999999999999
Q ss_pred HHHHHHHHHHHhhcCcHHHHHHHHhhhHHHHHHHHHHHHHhhh
Q psy3857 248 KAMQERIVQLISKYSQEDFITELLQVNDQLNNLFLRFNRYESN 290 (349)
Q Consensus 248 k~~q~~i~~li~~~~dee~l~~LL~~ND~L~~al~~Y~~~~~~ 290 (349)
|.+|+||++||+++.||++|.++|++||+|+++|.+|+++.+|
T Consensus 235 r~~q~rv~~Li~~~~DE~ll~~lL~lND~L~~vL~~ye~~~~g 277 (470)
T KOG1087|consen 235 RSKQRRVMHLIEETSDEELLCELLKLNDELQRVLERYERIASG 277 (470)
T ss_pred HHHHHHHHHHHHHhccHHHHHHHHHHhHHHHHHHHHHHHHhcc
Confidence 9999999999999999999999999999999999999999987
No 2
>KOG1086|consensus
Probab=100.00 E-value=1.4e-54 Score=415.29 Aligned_cols=276 Identities=28% Similarity=0.431 Sum_probs=239.5
Q ss_pred CCCCcHHHHHHHhcCCCCCCcCHHHHHHHHHHHhcCCCCHHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhcCchhH
Q psy3857 11 PFASPVGSKIEMATDPTLASENWALNMEICDIINETEDGPKDAIKAIRKRLQQYAGKDYTVIMYTLTVLETCVKNCNRRF 90 (349)
Q Consensus 11 p~st~~~~~I~~AT~~~~~~~dw~~~l~icD~In~~~~~~~eA~ral~krl~~~~~~n~~~~l~AL~LLd~~vkNcG~~F 90 (349)
|-. +++.||+|||++++.++||..|..|||.||++++||..|++.|.+||+ + +..+++++||++||+||+|||.+|
T Consensus 5 p~~-sle~wlnrATdp~~~eedw~ai~~fceqinkdp~gp~lAv~LlaHKiq-S--Pqe~EAl~altvLe~cmkncGekf 80 (594)
T KOG1086|consen 5 PVE-SLEYWLNRATDPSNDEEDWKAIDGFCEQINKDPEGPLLAVRLLAHKIQ-S--PQEWEALQALTVLEYCMKNCGEKF 80 (594)
T ss_pred Ccc-cHHHHHHhccCccchHHHHHHHHHHHHHHhcCCCCchhHHHHHHhhcC-C--hhHHHHHHHHHHHHHHHHhhhHHH
Confidence 444 599999999999999999999999999999999999999999999999 6 999999999999999999999999
Q ss_pred HHHhhcHHHHHHHHHHhCCCCC---CChhHHHHHHHHHHHHHHHhcCCCCchhHHHHHHHHHhcCCC--CCCCccc-cCC
Q psy3857 91 HILVCSKDFIQELYKLIGPKNE---PPIIVQDKVLSLIQSWADAFKDIPNLEGVNQIYQELRSKGIE--FPMTDLD-AMA 164 (349)
Q Consensus 91 h~~i~~k~Fl~eL~kl~~~k~~---~~~~Vk~kil~li~~W~~~f~~~~~l~~i~~~y~~Lk~~G~~--fP~~~~~-~~~ 164 (349)
|.+|++++|||||+|+++|||. +...||.||+++++.|+.+|++ ..+|+++|++||++||+ .|..+.+ ...
T Consensus 81 H~evgkfrFLNELIkvvsPKYlG~~tSekvKtkiIelLfsWtv~lpe---~~KikdaYqmLKkqgIik~DP~lp~d~~~~ 157 (594)
T KOG1086|consen 81 HEEVGKFRFLNELIKVVSPKYLGSRTSEKVKTKIIELLFSWTVSLPE---EPKIKDAYQMLKKQGIIKSDPKLPVDETPV 157 (594)
T ss_pred HHHHHHHHHHHHHHHHhCchhcchhhhHHHHHHHHHHHhhheecCcc---cchHHHHHHHHHhcCcccCCCCCCCCCccC
Confidence 9999999999999999999985 4578999999999999999954 45699999999999996 6777665 333
Q ss_pred CCCC--CCCCc-cccCCCCCc----CCCCCC-CCCCCCCC--CCChH-----HHHhHHHHHHHHHHHHHHHHHHHHhcCC
Q psy3857 165 PIIT--PKKSK-EVASSHPVQ----RSKVPM-GAAGDHDE--RLTPE-----QVTKLHKDLEVVQANMAVFNEMLNTLIP 229 (349)
Q Consensus 165 p~~t--p~~s~-~~~~~~~~~----~s~~p~-~~~~~~~~--~~~~e-----~~~kl~~el~~v~~n~~lL~emL~~~~p 229 (349)
|..+ |.+++ ++|++++.+ .|.+|+ .+++|..| ++++| ++.|+.+.|++|.+|+++|.||+..+..
T Consensus 158 p~ppP~pkssvFddEEksklL~rLLkSn~PeDLqaANkLIK~lVkeee~k~eKiskR~~aleev~n~vk~l~em~l~~s~ 237 (594)
T KOG1086|consen 158 PAPPPRPKSSVFDDEEKSKLLARLLKSNHPEDLQAANKLIKTLVKEEEHKLEKISKRVKALEEVNNNVKLLEEMLLDYSQ 237 (594)
T ss_pred CCCCCCCCccccCcHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 3333 44555 778887754 366776 67777776 45543 4788999999999999999999998875
Q ss_pred CCCCCCcHH-HHHHHHHHHHHHHHHHHHHHhh-cCcHHHHHHHHhhhHHHHHHHHHHHHHhhhhhh
Q psy3857 230 GQEHSSDIE-LITELHATCKAMQERIVQLISK-YSQEDFITELLQVNDQLNNLFLRFNRYESNREA 293 (349)
Q Consensus 230 ~~~~~~d~e-~i~eL~~~ck~~q~~i~~li~~-~~dee~l~~LL~~ND~L~~al~~Y~~~~~~~~~ 293 (349)
++....|+| +++++|++|.++|+.+++|+.+ .+||+.|+++|++||.|++++..|+..+.|+..
T Consensus 238 eg~a~pd~E~~lq~v~~~ce~lr~tlfrlaset~dnD~aL~eILqanD~ltrvi~~ykt~~~G~~~ 303 (594)
T KOG1086|consen 238 EGNASPDNELLLQEVYNRCEQLRPTLFRLASETEDNDPALAEILQANDNLTRVINLYKTPKEGNVA 303 (594)
T ss_pred CCCCCCcHHHHHHHHHHHHHHHHHHHHHhhcccccCcHHHHHHHhhhhhHHhhhhhcccccccccc
Confidence 554445677 9999999999999999999999 567899999999999999999999999887754
No 3
>cd03565 VHS_Tom1 VHS domain family, Tom1 subfamily; The VHS domain is an essential part of Tom1 (Target of myb1 - retroviral oncogene) protein. The VHS domain has a superhelical structure similar to the structure of the ARM repeats and is present at the very N-termini of proteins. It is a right-handed superhelix of eight alpha helices. The VHS domain has been found in a number of proteins, some of which have been implicated in intracellular trafficking and sorting. The VHS domain of the Tom1 protein is essential for the negative regulation of Interleukin-1 and Tumor Necrosis Factor-induced signaling pathways.
Probab=100.00 E-value=8.4e-46 Score=317.60 Aligned_cols=140 Identities=67% Similarity=1.138 Sum_probs=134.6
Q ss_pred cHHHHHHHhcCCCCCCcCHHHHHHHHHHHhcCCCCHHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhcCchhHHHHh
Q psy3857 15 PVGSKIEMATDPTLASENWALNMEICDIINETEDGPKDAIKAIRKRLQQYAGKDYTVIMYTLTVLETCVKNCNRRFHILV 94 (349)
Q Consensus 15 ~~~~~I~~AT~~~~~~~dw~~~l~icD~In~~~~~~~eA~ral~krl~~~~~~n~~~~l~AL~LLd~~vkNcG~~Fh~~i 94 (349)
|++++|++||++.++++||++|++|||+||++..+|++|+|+|+|||++ ++||+++++||+|||+||||||.+||.+|
T Consensus 1 ~~~~~IekATse~l~~~dw~~ileicD~In~~~~~~k~a~ralkkRl~~--~~n~~v~l~aL~LLe~~vkNCG~~fh~ei 78 (141)
T cd03565 1 PVGQLIEKATDGSLQSEDWGLNMEICDIINETEDGPKDAVRALKKRLNG--NKNHKEVMLTLTVLETCVKNCGHRFHVLV 78 (141)
T ss_pred CHhHHHHHHcCcCCCCcCHHHHHHHHHHHhCCCCcHHHHHHHHHHHHcc--CCCHHHHHHHHHHHHHHHHHccHHHHHHH
Confidence 4789999999999999999999999999999999999999999999983 38999999999999999999999999999
Q ss_pred hcHHHHHH-HHHHhCCCCCCChhHHHHHHHHHHHHHHHhcCCCCchhHHHHHHHHHhcCCCCC
Q psy3857 95 CSKDFIQE-LYKLIGPKNEPPIIVQDKVLSLIQSWADAFKDIPNLEGVNQIYQELRSKGIEFP 156 (349)
Q Consensus 95 ~~k~Fl~e-L~kl~~~k~~~~~~Vk~kil~li~~W~~~f~~~~~l~~i~~~y~~Lk~~G~~fP 156 (349)
++++|+++ |+++++++++++..||+||+++|++|+.+|+++|+|++|.++|++|+++||.||
T Consensus 79 ask~Fl~e~L~~~i~~~~~~~~~Vk~kil~li~~W~~~f~~~~~l~~i~~~y~~L~~~G~~FP 141 (141)
T cd03565 79 AKKDFIKDVLVKLINPKNNPPTIVQEKVLALIQAWADAFRGSPDLTGVVEVYEELKKKGIEFP 141 (141)
T ss_pred HHHHhhhHHHHHHHcccCCCcHHHHHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHcCCCCC
Confidence 99999999 999998877677899999999999999999999999999999999999999998
No 4
>cd03569 VHS_Hrs_Vps27p VHS domain family, Hrs and Vps27p subfamily; composed of Hrs (Hepatocyte growth factor-regulated tyrosine kinase substrate) and its yeast homolog Vps27p (vacuolar protein sorting). The VHS domain, an essential part of Hrs/Vps27p, has a superhelical structure similar to the structure of ARM (Armadillo) repeats and is present at the N-termini of proteins. Hrs also contains a FYVE (Fab1p, YOTB, Vac1p, and EEA1) zinc finger domain C-terminal to VHS, as well as two coiled-coil domains. Hrs has been proposed to play a role in at least three vesicle trafficking events: exocytosis, endocytosis, and endosome to lysosome trafficking. Hrs is involved in promoting rapid recycling of endocytosed signaling receptors to the plasma membrane.
Probab=100.00 E-value=2.1e-44 Score=309.23 Aligned_cols=140 Identities=41% Similarity=0.653 Sum_probs=134.9
Q ss_pred CCcHHHHHHHhcCCCCCCcCHHHHHHHHHHHhcCCCCHHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhcCchhHHH
Q psy3857 13 ASPVGSKIEMATDPTLASENWALNMEICDIINETEDGPKDAIKAIRKRLQQYAGKDYTVIMYTLTVLETCVKNCNRRFHI 92 (349)
Q Consensus 13 st~~~~~I~~AT~~~~~~~dw~~~l~icD~In~~~~~~~eA~ral~krl~~~~~~n~~~~l~AL~LLd~~vkNcG~~Fh~ 92 (349)
.++++.+|++||++.+.++||+.|++|||+||+++.+|++|+|+|+|||+ + +||++|++||+|||+||||||.+||.
T Consensus 2 ~~~~~~~I~kATs~~l~~~dw~~ileicD~In~~~~~~k~a~ral~krl~-~--~n~~vql~AL~LLe~~vkNCG~~fh~ 78 (142)
T cd03569 2 VSEFDELIEKATSELLGEPDLASILEICDMIRSKDVQPKYAMRALKKRLL-S--KNPNVQLYALLLLESCVKNCGTHFHD 78 (142)
T ss_pred cchHHHHHHHHcCcccCccCHHHHHHHHHHHhCCCCCHHHHHHHHHHHHc-C--CChHHHHHHHHHHHHHHHHCCHHHHH
Confidence 35799999999999999999999999999999999999999999999999 6 99999999999999999999999999
Q ss_pred HhhcHHHHHHHHHHhCCCCCCChhHHHHHHHHHHHHHHHhcCCCCchhHHHHHHHHHhcCCCCCC
Q psy3857 93 LVCSKDFIQELYKLIGPKNEPPIIVQDKVLSLIQSWADAFKDIPNLEGVNQIYQELRSKGIEFPM 157 (349)
Q Consensus 93 ~i~~k~Fl~eL~kl~~~k~~~~~~Vk~kil~li~~W~~~f~~~~~l~~i~~~y~~Lk~~G~~fP~ 157 (349)
+|++++|+++|++++++ .++..||+|++++|+.|+.+|+++|+++.|.++|++|+++||.||+
T Consensus 79 evas~~fl~~l~~l~~~--~~~~~Vk~kil~li~~W~~~f~~~~~l~~i~~~y~~L~~~G~~FP~ 141 (142)
T cd03569 79 EVASREFMDELKDLIKT--TKNEEVRQKILELIQAWALAFRNKPQLKYVVDTYQILKAEGHKFPE 141 (142)
T ss_pred HHhhHHHHHHHHHHHcc--cCCHHHHHHHHHHHHHHHHHhCCCcccHHHHHHHHHHHHcCCCCCC
Confidence 99999999999999976 4678999999999999999999999999999999999999999996
No 5
>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=100.00 E-value=2.8e-44 Score=308.90 Aligned_cols=138 Identities=41% Similarity=0.733 Sum_probs=132.7
Q ss_pred HHHHHHHhcCCCCCCcCHHHHHHHHHHHhcCCCCHHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhcCchhHHHHhh
Q psy3857 16 VGSKIEMATDPTLASENWALNMEICDIINETEDGPKDAIKAIRKRLQQYAGKDYTVIMYTLTVLETCVKNCNRRFHILVC 95 (349)
Q Consensus 16 ~~~~I~~AT~~~~~~~dw~~~l~icD~In~~~~~~~eA~ral~krl~~~~~~n~~~~l~AL~LLd~~vkNcG~~Fh~~i~ 95 (349)
++.+|++||++.++++||++|++|||+||+++.+|++|+|+|+|||+ + +||++|++||+|||+||||||.+||.+|+
T Consensus 1 ~e~~iekATse~l~~~dw~~il~icD~I~~~~~~~k~a~ral~KRl~-~--~n~~v~l~AL~LLe~~vkNCG~~fh~eva 77 (144)
T cd03568 1 FDDLVEKATDEKLTSENWGLILDVCDKVKSDENGAKDCLKAIMKRLN-H--KDPNVQLRALTLLDACAENCGKRFHQEVA 77 (144)
T ss_pred ChHHHHHHcCccCCCcCHHHHHHHHHHHhcCCccHHHHHHHHHHHHc-C--CCHHHHHHHHHHHHHHHHHCCHHHHHHHh
Confidence 46899999999999999999999999999999999999999999999 6 99999999999999999999999999999
Q ss_pred cHHHHHHHHHHhCCCCCCChhHHHHHHHHHHHHHHHhcCCCCchhHHHHHHHHHhcCCCCCCC
Q psy3857 96 SKDFIQELYKLIGPKNEPPIIVQDKVLSLIQSWADAFKDIPNLEGVNQIYQELRSKGIEFPMT 158 (349)
Q Consensus 96 ~k~Fl~eL~kl~~~k~~~~~~Vk~kil~li~~W~~~f~~~~~l~~i~~~y~~Lk~~G~~fP~~ 158 (349)
+++|+++|+++++++ ++..||+||+++|+.|+..|+++++++.|.++|+.|+.+||.||..
T Consensus 78 sk~Fl~eL~kl~~~~--~~~~Vk~kil~li~~W~~~f~~~~~l~~i~~~y~~L~~~G~~f~~~ 138 (144)
T cd03568 78 SRDFTQELKKLINDR--VHPTVKEKLREVVKQWADEFKNDPSLSLMSDLYKKLKNEGPDLVTP 138 (144)
T ss_pred hHHHHHHHHHHhccc--CCHHHHHHHHHHHHHHHHHhCCCcccHHHHHHHHHHHHcCCCCCCC
Confidence 999999999999876 6789999999999999999999999999999999999999999843
No 6
>cd03567 VHS_GGA VHS domain family, GGA subfamily; GGA (Golgi-localized, Gamma-ear-containing, Arf-binding) comprise a subfamily of ubiquitously expressed, monomeric, motif-binding cargo/clathrin adaptor proteins. The VHS domain has a superhelical structure similar to the structure of the ARM (Armadillo) repeats and is present at the N-termini of proteins. GGA proteins have a multidomain structure consisting of an N-terminal VHS domain linked by a short proline-rich linker to a GAT (GGA and TOM) domain, which is followed by a long flexible linker to the C-terminal appendage, GAE (gamma-adaptin ear) domain. The VHS domain of GGA proteins binds to the acidic-cluster dileucine (DxxLL) motif found on the cytoplasmic tails of cargo proteins trafficked between the trans-Golgi network and the endosomal system.
Probab=100.00 E-value=8.6e-43 Score=297.58 Aligned_cols=134 Identities=31% Similarity=0.594 Sum_probs=126.3
Q ss_pred cHHHHHHHhcCCCCCCcCHHHHHHHHHHHhcCCCCHHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhcCchhHHHHh
Q psy3857 15 PVGSKIEMATDPTLASENWALNMEICDIINETEDGPKDAIKAIRKRLQQYAGKDYTVIMYTLTVLETCVKNCNRRFHILV 94 (349)
Q Consensus 15 ~~~~~I~~AT~~~~~~~dw~~~l~icD~In~~~~~~~eA~ral~krl~~~~~~n~~~~l~AL~LLd~~vkNcG~~Fh~~i 94 (349)
+++.+|++||++.+.+|||++|++|||+||+++.+|++|+++|+|||+ | +||++|++||+|||+||||||++||.+|
T Consensus 1 ~~~~~iekAT~~~l~~~dw~~ileicD~In~~~~~~k~a~rai~krl~-~--~n~~v~l~AL~LLe~~vkNCG~~fh~ev 77 (139)
T cd03567 1 SLEAWLNKATNPSNREEDWEAIQAFCEQINKEPEGPQLAVRLLAHKIQ-S--PQEKEALQALTVLEACMKNCGERFHSEV 77 (139)
T ss_pred CHHHHHHHHcCccCCCCCHHHHHHHHHHHHcCCccHHHHHHHHHHHHc-C--CCHHHHHHHHHHHHHHHHHcCHHHHHHH
Confidence 488999999999999999999999999999999999999999999999 6 9999999999999999999999999999
Q ss_pred hcHHHHHHHHHHhCCCC---CCChhHHHHHHHHHHHHHHHhcCCCCchhHHHHHHHHHhcCCC
Q psy3857 95 CSKDFIQELYKLIGPKN---EPPIIVQDKVLSLIQSWADAFKDIPNLEGVNQIYQELRSKGIE 154 (349)
Q Consensus 95 ~~k~Fl~eL~kl~~~k~---~~~~~Vk~kil~li~~W~~~f~~~~~l~~i~~~y~~Lk~~G~~ 154 (349)
++++|+++|++++++++ .++..||+||+++|+.|+.+|+++| .|.++|++||++||.
T Consensus 78 as~~Fl~el~kl~~~k~~~~~~~~~Vk~kil~li~~W~~~f~~~p---~~~~~Y~~Lk~~G~i 137 (139)
T cd03567 78 GKFRFLNELIKLVSPKYLGSRTSEKVKTKIIELLYSWTLELPHEP---KIKEAYDMLKKQGII 137 (139)
T ss_pred HhHHHHHHHHHHhccccCCCCCCHHHHHHHHHHHHHHHHHhcccc---hHHHHHHHHHHCCCc
Confidence 99999999999998764 3678999999999999999997554 589999999999985
No 7
>smart00288 VHS Domain present in VPS-27, Hrs and STAM. Unpublished observations. Domain of unknown function.
Probab=100.00 E-value=1.9e-40 Score=282.17 Aligned_cols=133 Identities=49% Similarity=0.882 Sum_probs=127.0
Q ss_pred HHHHHHHhcCCCCCCcCHHHHHHHHHHHhcCCCCHHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhcCchhHHHHhh
Q psy3857 16 VGSKIEMATDPTLASENWALNMEICDIINETEDGPKDAIKAIRKRLQQYAGKDYTVIMYTLTVLETCVKNCNRRFHILVC 95 (349)
Q Consensus 16 ~~~~I~~AT~~~~~~~dw~~~l~icD~In~~~~~~~eA~ral~krl~~~~~~n~~~~l~AL~LLd~~vkNcG~~Fh~~i~ 95 (349)
++.+|++||++.++++||+.|++|||+||+++.+|++|+|+|+|||+ | +||++|++||+|||+||+|||.+||.+|+
T Consensus 1 ~~~~i~kATs~~l~~~dw~~~l~icD~i~~~~~~~k~a~r~l~krl~-~--~n~~v~l~AL~lLe~~vkNcg~~f~~ev~ 77 (133)
T smart00288 1 VERLIDKATSPSLLEEDWELILEICDLINSTPDGPKDAVRLLKKRLN-N--KNPHVALLALTLLDACVKNCGSKFHLEVA 77 (133)
T ss_pred ChhHHHHHcCcCCCCcCHHHHHHHHHHHhCCCccHHHHHHHHHHHHc-C--CCHHHHHHHHHHHHHHHHHCCHHHHHHHH
Confidence 46899999999999999999999999999999999999999999999 6 99999999999999999999999999999
Q ss_pred cHHHHHHHHHHhCCCCCCChhHHHHHHHHHHHHHHHhcCCCCchhHHHHHHHHHhcC
Q psy3857 96 SKDFIQELYKLIGPKNEPPIIVQDKVLSLIQSWADAFKDIPNLEGVNQIYQELRSKG 152 (349)
Q Consensus 96 ~k~Fl~eL~kl~~~k~~~~~~Vk~kil~li~~W~~~f~~~~~l~~i~~~y~~Lk~~G 152 (349)
+++|+++|++++++++. ...|++||+++|+.|+.+|+++|+++.|.++|+.|+++|
T Consensus 78 s~~fl~~L~~l~~~~~~-~~~Vk~kil~li~~W~~~f~~~~~~~~i~~~y~~L~~~g 133 (133)
T smart00288 78 SKEFLNELVKLIKPKYP-LPLVKKRILELIQEWADAFKNDPDLSQIVDVYDLLKKKG 133 (133)
T ss_pred hHHHHHHHHHHHcCCCC-cHHHHHHHHHHHHHHHHHHcCCCCchHHHHHHHHHHHCc
Confidence 99999999999987753 334999999999999999999999999999999999998
No 8
>PF00790 VHS: VHS domain; InterPro: IPR002014 The VHS domain is a ~140 residues long domain, whose name is derived from its occurrence in VPS-27, Hrs and STAM. Based on regions surrounding the domain, VHS-proteins can be divided into 4 groups []: STAM/EAST/Hbp which all share the domain composition VHS-SH3-ITAM and carry one or two ubiquitin-interacting motifs Proteins with a FYVE domain (IPR000306 from INTERPRO) C-terminal to VHS which also carry one or two ubiquitin-interacting motifs GGA proteins with a domain composition VHS-GAT (GGA and Tom1) homology domain VHS domain alone or in combination with domains other than those listed above The VHS domain is always found at the N- terminus of proteins suggesting that such topology is important for function. The domain is considered to have a general membrane targeting/cargo recognition role in vesicular trafficking []. Resolution of the crystal structure of the VHS domain of Drosophila Hrs and human Tom1 revealed that it consists of eight helices arranged in a double-layer superhelix []. The existence of conserved patches of residues on the domain surface suggests that VHS domains may be involved in protein-protein recognition and docking. Overall, sequence similarity is low (approx 25%) amongst domain family members.; GO: 0006886 intracellular protein transport; PDB: 1X5B_A 2L0T_B 1DVP_A 3LDZ_C 3ZYQ_A 4AVX_A 3G2U_A 3G2W_A 1UJJ_A 3G2V_A ....
Probab=100.00 E-value=1.1e-39 Score=279.77 Aligned_cols=137 Identities=45% Similarity=0.736 Sum_probs=126.8
Q ss_pred CCCcHHHHHHHhcCCCCCCcCHHHHHHHHHHHhcCCCCHHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhcCchhHH
Q psy3857 12 FASPVGSKIEMATDPTLASENWALNMEICDIINETEDGPKDAIKAIRKRLQQYAGKDYTVIMYTLTVLETCVKNCNRRFH 91 (349)
Q Consensus 12 ~st~~~~~I~~AT~~~~~~~dw~~~l~icD~In~~~~~~~eA~ral~krl~~~~~~n~~~~l~AL~LLd~~vkNcG~~Fh 91 (349)
++++++.+|++||++.+.++||+.|++|||.||+.+.+|++|+++|+|||+ + +||++|++||+|||+||||||.+||
T Consensus 2 ~~~~~~~li~kATs~~~~~~Dw~~~l~icD~i~~~~~~~kea~~~l~krl~-~--~~~~vq~~aL~lld~lvkNcg~~f~ 78 (140)
T PF00790_consen 2 PSSSITELIEKATSESLPSPDWSLILEICDLINSSPDGAKEAARALRKRLK-H--GNPNVQLLALTLLDALVKNCGPRFH 78 (140)
T ss_dssp CCSHHHHHHHHHT-TTSSS--HHHHHHHHHHHHTSTTHHHHHHHHHHHHHT-T--SSHHHHHHHHHHHHHHHHHSHHHHH
T ss_pred CCChHHHHHHHHhCcCCCCCCHHHHHHHHHHHHcCCccHHHHHHHHHHHHh-C--CCHHHHHHHHHHHHHHHHcCCHHHH
Confidence 457999999999999999999999999999999999999999999999999 6 9999999999999999999999999
Q ss_pred HHhhcHHHHHHHHHHhCCCCCCChh--HHHHHHHHHHHHHHHhcCCCCchhHHHHHHHHHhcC
Q psy3857 92 ILVCSKDFIQELYKLIGPKNEPPII--VQDKVLSLIQSWADAFKDIPNLEGVNQIYQELRSKG 152 (349)
Q Consensus 92 ~~i~~k~Fl~eL~kl~~~k~~~~~~--Vk~kil~li~~W~~~f~~~~~l~~i~~~y~~Lk~~G 152 (349)
.+|++++|+++|++++.++. .+.. ||+|++++|+.|+.+|++++++..|.++|+.||++|
T Consensus 79 ~ev~~~~fl~~l~~l~~~~~-~~~~~~Vk~k~l~ll~~W~~~f~~~~~~~~i~~~y~~Lk~~G 140 (140)
T PF00790_consen 79 REVASKEFLDELVKLIKSKK-TDPETPVKEKILELLQEWAEAFKSDPELSLIQDTYKRLKRKG 140 (140)
T ss_dssp HHHTSHHHHHHHHHHHHHTT-THHHSHHHHHHHHHHHHHHHHTTTSTTGHHHHHHHHHHHHTT
T ss_pred HHHhHHHHHHHHHHHHccCC-CCchhHHHHHHHHHHHHHHHHHCCCCCchHHHHHHHHHHHCc
Confidence 99999999999999997653 2333 999999999999999999999999999999999998
No 9
>KOG2199|consensus
Probab=100.00 E-value=1.9e-37 Score=295.18 Aligned_cols=268 Identities=29% Similarity=0.465 Sum_probs=202.8
Q ss_pred cHHHHHHHhcCCCCCCcCHHHHHHHHHHHhcCCCCHHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhcCchhHHHHh
Q psy3857 15 PVGSKIEMATDPTLASENWALNMEICDIINETEDGPKDAIKAIRKRLQQYAGKDYTVIMYTLTVLETCVKNCNRRFHILV 94 (349)
Q Consensus 15 ~~~~~I~~AT~~~~~~~dw~~~l~icD~In~~~~~~~eA~ral~krl~~~~~~n~~~~l~AL~LLd~~vkNcG~~Fh~~i 94 (349)
+++..|+|||++.++.+||++||+|||+|+++++|+|+++++|.|||. + ++|||+++||+||++||+|||++||++|
T Consensus 8 ~~e~~v~KAT~e~nT~enW~~IlDvCD~v~~~~~~~kd~lk~i~KRln-~--~dphV~L~AlTLlda~~~NCg~~~r~EV 84 (462)
T KOG2199|consen 8 PFEQDVEKATDEKNTSENWSLILDVCDKVGSDPDGGKDCLKAIMKRLN-H--KDPHVVLQALTLLDACVANCGKRFRLEV 84 (462)
T ss_pred hHHHHHHHhcCcccccccHHHHHHHHHhhcCCCcccHHHHHHHHHHhc-C--CCcchHHHHHHHHHHHHHhcchHHHHHH
Confidence 588899999999999999999999999999999999999999999999 5 9999999999999999999999999999
Q ss_pred hcHHHHHHHHHHhCCCCCCChhHHHHHHHHHHHHHHHhcCCCCchhHHHHHHHHHhcCCCCCCCccc----cCCCCCCCC
Q psy3857 95 CSKDFIQELYKLIGPKNEPPIIVQDKVLSLIQSWADAFKDIPNLEGVNQIYQELRSKGIEFPMTDLD----AMAPIITPK 170 (349)
Q Consensus 95 ~~k~Fl~eL~kl~~~k~~~~~~Vk~kil~li~~W~~~f~~~~~l~~i~~~y~~Lk~~G~~fP~~~~~----~~~p~~tp~ 170 (349)
+++.|.++|.+++..+ .+..|++|+..++.+|++.|+.||.|..|.++|..||+.||.|+..+.- ++.. .+-.
T Consensus 85 sSr~F~~el~al~~~~--~h~kV~~k~~~lv~eWsee~K~Dp~lsLi~~l~~klk~~g~~f~~~~~k~~k~a~~~-~~v~ 161 (462)
T KOG2199|consen 85 SSRDFTTELRALIESK--AHPKVCEKMRDLVKEWSEEFKKDPSLSLISALYKKLKEEGITFLVAGSKPEKHAMST-NTVS 161 (462)
T ss_pred hhhhHHHHHHHHHhhc--ccHHHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHcCCCcccCCCchhHHHhhc-cccc
Confidence 9999999999999754 4679999999999999999999999999999999999999999765421 1111 0000
Q ss_pred CCcccc--------------CCCC-----C---cCC-----CCCC-------------------CCCCCC----------
Q psy3857 171 KSKEVA--------------SSHP-----V---QRS-----KVPM-------------------GAAGDH---------- 194 (349)
Q Consensus 171 ~s~~~~--------------~~~~-----~---~~s-----~~p~-------------------~~~~~~---------- 194 (349)
.-.++| .+.+ . .|+ ..|. ....+.
T Consensus 162 ~k~EeEdiaKAi~lSL~E~~~Q~k~a~~~tst~yPs~qk~nqapa~~l~s~~~~rkVRALYDFeAaE~nELsFkaGdIIt 241 (462)
T KOG2199|consen 162 SKQEEEDIAKAIELSLKEQEKQKKLAETETSTLYPSHQKQNQAPASQLNSQTVVRKVRALYDFEAAEDNELSFKAGDIIT 241 (462)
T ss_pred ccccHHHHHHHHHhhHHHHhhchhhccCCccccCccccccccCchhhccCCccchhhhhhhcccccCCCccceecCcEEE
Confidence 000110 0000 0 000 0000 000000
Q ss_pred ----------------CC-------------CCChHHHH----hHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCcHHHHH
Q psy3857 195 ----------------DE-------------RLTPEQVT----KLHKDLEVVQANMAVFNEMLNTLIPGQEHSSDIELIT 241 (349)
Q Consensus 195 ----------------~~-------------~~~~e~~~----kl~~el~~v~~n~~lL~emL~~~~p~~~~~~d~e~i~ 241 (349)
-+ ..+.++.. .....+.+-...+.-|-++|.+.+|.+... |.+-|.
T Consensus 242 VLd~s~~~WWKG~~~~~~GlFPsnfVT~~le~~~~ee~~~~~~~~E~~vfi~e~~iDrlL~~L~~~dPtd~~~-D~~~l~ 320 (462)
T KOG2199|consen 242 VLDDSDPNWWKGENHRGIGLFPSNFVTADLEEPKIEEQEQKQKNKEAIVFIDEDKIDRLLQVLHEADPTDEVQ-DDDDLL 320 (462)
T ss_pred EcccCCcchhccccCCcccccchhhhhhhhcccchhhhhhhhcCcceeeeccHHHHHHHHHHHhhcCCCCccC-CCHHHH
Confidence 00 11111111 011123344567777889999999976655 445678
Q ss_pred HHHHHHHHHHHHHHHHHhhcCcHHHHHHHHhhhHHHHHHHHHHHHHhhhh
Q psy3857 242 ELHATCKAMQERIVQLISKYSQEDFITELLQVNDQLNNLFLRFNRYESNR 291 (349)
Q Consensus 242 eL~~~ck~~q~~i~~li~~~~dee~l~~LL~~ND~L~~al~~Y~~~~~~~ 291 (349)
.||..|-.|+|.|-+.++.++-. -++|.++|..|..|+.-|+.+....
T Consensus 321 ~le~~~~~mgPlid~~Le~idrk--~~eL~~Ln~~l~~Al~lY~kLm~~~ 368 (462)
T KOG2199|consen 321 DLEAAVHQMGPLIDRKLEKIDRK--HEELSQLNVKLLDALRLYNKLMNEA 368 (462)
T ss_pred HHHHHHHHhhhHHHHHHHHHHhh--HHHHHHHHHHHHHHHHHHHHHHhhC
Confidence 99999999999999999998644 2377889999999999999887655
No 10
>cd03561 VHS VHS domain family; The VHS domain is present in Vps27 (Vacuolar Protein Sorting), Hrs (Hepatocyte growth factor-regulated tyrosine kinase substrate) and STAM (Signal Transducing Adaptor Molecule). It has a superhelical structure similar to that of the ARM (Armadillo) repeats and is present at the N-termini of proteins involved in intracellular membrane trafficking. There are four general groups of VHS domain containing proteins based on their association with other domains. The first group consists of proteins of the STAM/EAST/Hbp family which has the domain composition VHS-SH3-ITAM. The second consists of proteins with a FYVE domain C-terminal to VHS. The third consists of GGA proteins with a domain composition VHS-GAT (GGA and TOM)-GAE (gamma-adaptin ear) domain. The fourth consists of proteins with a VHS domain alone or with domains other than those mentioned above. In GGA proteins, VHS domains are involved in cargo recognition in trans-Golgi, thereby having a general me
Probab=100.00 E-value=2.9e-38 Score=268.73 Aligned_cols=132 Identities=41% Similarity=0.733 Sum_probs=125.5
Q ss_pred HHHHHHHhcCCCCCCcCHHHHHHHHHHHhcCCCCHHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhcCchhHHHHhh
Q psy3857 16 VGSKIEMATDPTLASENWALNMEICDIINETEDGPKDAIKAIRKRLQQYAGKDYTVIMYTLTVLETCVKNCNRRFHILVC 95 (349)
Q Consensus 16 ~~~~I~~AT~~~~~~~dw~~~l~icD~In~~~~~~~eA~ral~krl~~~~~~n~~~~l~AL~LLd~~vkNcG~~Fh~~i~ 95 (349)
++.+|++||++.+.++||+.+++|||.||+.+.+|++|+|+|+|||+ + +||++|++||.|||+||+|||++||.+|+
T Consensus 1 v~~~I~kATs~~~~~~D~~~il~icd~I~~~~~~~k~a~raL~krl~-~--~n~~vql~AL~lLd~~vkNcg~~f~~~i~ 77 (133)
T cd03561 1 VTSLIERATSPSLEEPDWALNLELCDLINLKPNGPKEAARAIRKKIK-Y--GNPHVQLLALTLLELLVKNCGKPFHLQVA 77 (133)
T ss_pred ChHHHHHHcCcccCCccHHHHHHHHHHHhCCCCCHHHHHHHHHHHHc-C--CCHHHHHHHHHHHHHHHHhCChHHHHHHh
Confidence 46899999999999999999999999999999999999999999999 6 99999999999999999999999999999
Q ss_pred cHHHHHHHHHHhCCCCCCChhHHHHHHHHHHHHHHHhcCC-CCchhHHHHHHHHHh
Q psy3857 96 SKDFIQELYKLIGPKNEPPIIVQDKVLSLIQSWADAFKDI-PNLEGVNQIYQELRS 150 (349)
Q Consensus 96 ~k~Fl~eL~kl~~~k~~~~~~Vk~kil~li~~W~~~f~~~-~~l~~i~~~y~~Lk~ 150 (349)
+++|+++|++++.++..++..||+|++++|+.|+..|+++ +++++|.++|+.||+
T Consensus 78 s~~fl~~l~~l~~~~~~~~~~Vk~kil~ll~~W~~~f~~~~~~~~~~~~~y~~lk~ 133 (133)
T cd03561 78 DKEFLLELVKIAKNSPKYDPKVREKALELILAWSESFGGHSEDLPGIEDAYKLLKR 133 (133)
T ss_pred hHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHHHHHhcCCCccchHHHHHHHHHhC
Confidence 9999999999998753467899999999999999999987 999999999999984
No 11
>cd00197 VHS_ENTH_ANTH VHS, ENTH and ANTH domain superfamily; composed of proteins containing a VHS, ENTH or ANTH domain. The VHS domain is present in Vps27 (Vacuolar Protein Sorting), Hrs (Hepatocyte growth factor-regulated tyrosine kinase substrate) and STAM (Signal Transducing Adaptor Molecule). It is located at the N-termini of proteins involved in intracellular membrane trafficking. The epsin N-terminal homology (ENTH) domain is an evolutionarily conserved protein module found primarily in proteins that participate in clathrin-mediated endocytosis. A set of proteins previously designated as harboring an ENTH domain in fact contains a highly similar, yet unique module referred to as an AP180 N-terminal homology (ANTH) domain. VHS, ENTH and ANTH domains are structurally similar and are composed of a superhelix of eight alpha helices. ENTH adnd ANTH (E/ANTH) domains bind both inositol phospholipids and proteins and contribute to the nucleation and formation of clathrin coats on membra
Probab=99.93 E-value=2.2e-25 Score=184.70 Aligned_cols=111 Identities=45% Similarity=0.746 Sum_probs=101.7
Q ss_pred HHHHHHHhcCCCCCCcCHHHHHHHHHHHhcCCCCHHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhcCchhHHHHhh
Q psy3857 16 VGSKIEMATDPTLASENWALNMEICDIINETEDGPKDAIKAIRKRLQQYAGKDYTVIMYTLTVLETCVKNCNRRFHILVC 95 (349)
Q Consensus 16 ~~~~I~~AT~~~~~~~dw~~~l~icD~In~~~~~~~eA~ral~krl~~~~~~n~~~~l~AL~LLd~~vkNcG~~Fh~~i~ 95 (349)
++.+|++||++.+.+|+|..+++|||.++..+.++++++++|+|||+ + +||++++.||.|||+||||||.+||.+|+
T Consensus 1 ~~~~v~~AT~~~~~~p~~~~i~~i~d~~~~~~~~~~~~~~~l~kRl~-~--~~~~~~lkaL~lLe~lvkN~g~~f~~~i~ 77 (115)
T cd00197 1 FEKTVEKATSNENMGPDWPLIMEICDLINETNVGPKEAVDAIKKRIN-N--KNPHVVLKALTLLEYCVKNCGERFHQEVA 77 (115)
T ss_pred ChHHHHHHcCCCCCCCCHHHHHHHHHHHHCCCccHHHHHHHHHHHhc-C--CcHHHHHHHHHHHHHHHHHccHHHHHHHH
Confidence 36789999999999999999999999999998999999999999999 5 89999999999999999999999999999
Q ss_pred cHHHHHHHHHHhCCC---CCCChhHHHHHHHHHHHHH
Q psy3857 96 SKDFIQELYKLIGPK---NEPPIIVQDKVLSLIQSWA 129 (349)
Q Consensus 96 ~k~Fl~eL~kl~~~k---~~~~~~Vk~kil~li~~W~ 129 (349)
++.|+.+|++...++ ...+..||++++++++.|+
T Consensus 78 ~~~~~~~l~~~~~~~~~~~~~~~~Vr~k~~~l~~~w~ 114 (115)
T cd00197 78 SNDFAVELLKFDKSKLLGDDVSTNVREKAIELVQLWA 114 (115)
T ss_pred HhHHHHHHHHhhccccccCCCChHHHHHHHHHHHHHh
Confidence 999999998863222 2346899999999999997
No 12
>KOG1818|consensus
Probab=99.91 E-value=2.7e-24 Score=218.24 Aligned_cols=159 Identities=32% Similarity=0.518 Sum_probs=146.2
Q ss_pred CCcHHHHHHHhcCCCCCCcCHHHHHHHHHHHhcCCCCHHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhcCchhHHH
Q psy3857 13 ASPVGSKIEMATDPTLASENWALNMEICDIINETEDGPKDAIKAIRKRLQQYAGKDYTVIMYTLTVLETCVKNCNRRFHI 92 (349)
Q Consensus 13 st~~~~~I~~AT~~~~~~~dw~~~l~icD~In~~~~~~~eA~ral~krl~~~~~~n~~~~l~AL~LLd~~vkNcG~~Fh~ 92 (349)
++.+..+|++||+..+-+.||..|++|||+|.+....|+.++|.|+|||+ + .||+++..+|.|+|.||||||..||.
T Consensus 6 ~~~~~~l~~~at~~~~~~~~~e~~~e~~d~ir~~~~~~k~slr~~~~~i~-h--~np~~~~~~~~~~d~cvkn~G~gv~~ 82 (634)
T KOG1818|consen 6 SSAFKRLIEKATSETLGSGDWEAILEISDMIRSGGVPPKPSLRGIKKRID-H--ENPNVQLFTLKLTDHCVKNCGHGVHC 82 (634)
T ss_pred chHHHhhhhhhhhhhhcCcchhhhhhHHHHHHhcCCCCchhHHHHHHHHh-c--cCCCcccchhhhHHHHHhcCCcchhH
Confidence 35689999999999999999999999999999999999999999999999 5 99999999999999999999999999
Q ss_pred HhhcHHHHHHHHHHhCCCCCCChhHHHHHHHHHHHHHHHhcCCCCchhHHHHHHHHHhcCCCCCCCccc-cCCCCCCCCC
Q psy3857 93 LVCSKDFIQELYKLIGPKNEPPIIVQDKVLSLIQSWADAFKDIPNLEGVNQIYQELRSKGIEFPMTDLD-AMAPIITPKK 171 (349)
Q Consensus 93 ~i~~k~Fl~eL~kl~~~k~~~~~~Vk~kil~li~~W~~~f~~~~~l~~i~~~y~~Lk~~G~~fP~~~~~-~~~p~~tp~~ 171 (349)
+|++++||+.|..++.... +...|+.+++++|+.|+.+|+..+.+..+.++|+.|+..|+.||+.+.. ++.-..+++.
T Consensus 83 ei~tre~m~~~~~~l~~~~-~~e~v~~~~l~~~q~wa~af~~~~~~~~v~~t~~~lk~~g~~Fpe~~e~d~mf~~~~~pd 161 (634)
T KOG1818|consen 83 EIATREFMDLLKSLLESQR-IHEEVKNKILELIQNWAAAFRNSSKYSYVLDTYQKLKGGGHVFPELDENDAMFDAETAPD 161 (634)
T ss_pred HHHHHHHHHHHHhhhcccc-ccchHHHHHHHHHHHHHHHccCchHHHHHHHHHHHHhcCCccccccccchhhhcccCCcc
Confidence 9999999999999997543 6789999999999999999999999999999999999999999998743 3666667777
Q ss_pred Cccc
Q psy3857 172 SKEV 175 (349)
Q Consensus 172 s~~~ 175 (349)
|++.
T Consensus 162 W~D~ 165 (634)
T KOG1818|consen 162 WIDS 165 (634)
T ss_pred cccc
Confidence 7754
No 13
>PF03127 GAT: GAT domain; InterPro: IPR004152 The GAT domain is responsible for binding of GGA proteins to several members of the ARF family including ARF1 [] and ARF3. The GAT domain stabilises membrane bound ARF1 in its GTP bound state, by interfering with GAP proteins [].; GO: 0006886 intracellular protein transport, 0005622 intracellular; PDB: 1YD8_H 1WR6_C 1WRD_A 1O3X_A 1J2J_B 1NWM_X 1X79_A 1OXZ_A 1NAF_A.
Probab=99.87 E-value=4.7e-22 Score=161.07 Aligned_cols=93 Identities=45% Similarity=0.709 Sum_probs=87.0
Q ss_pred hHHHHhHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHHHHHHHHHHHhhcCcHHHHHHHHhhhHHHHH
Q psy3857 200 PEQVTKLHKDLEVVQANMAVFNEMLNTLIPGQEHSSDIELITELHATCKAMQERIVQLISKYSQEDFITELLQVNDQLNN 279 (349)
Q Consensus 200 ~e~~~kl~~el~~v~~n~~lL~emL~~~~p~~~~~~d~e~i~eL~~~ck~~q~~i~~li~~~~dee~l~~LL~~ND~L~~ 279 (349)
+++.+|+.++|++|++|+.||++||+++.|++...++.++++|||.+|++|||+|++||+.+.|+++|++||++||+|++
T Consensus 3 ~e~~~k~~~~l~~v~~~~~lL~emL~~~~~~~~~~~~~el~~eL~~~ck~~r~~i~~li~~~~dee~l~~lL~~ND~L~~ 82 (100)
T PF03127_consen 3 PEQVSKRRSELEKVKNNAKLLNEMLDNYDPGEESSSDNELIQELYESCKSMRPRIQRLIEEVEDEELLGELLQANDELNQ 82 (100)
T ss_dssp HCTHHHHHHHHHHHHHHHHHHHHHHHHTTTTTSTHHHHHHHHHHHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCccchHHHHHHHHHHHHHHHHHHHHHhhcCcHHHHHHHHHHHHHHHH
Confidence 46788999999999999999999999999998877777999999999999999999999999888899999999999999
Q ss_pred HHHHHHHHhhhhh
Q psy3857 280 LFLRFNRYESNRE 292 (349)
Q Consensus 280 al~~Y~~~~~~~~ 292 (349)
||.+|+++.++..
T Consensus 83 ~l~~Y~~l~~~~~ 95 (100)
T PF03127_consen 83 ALERYDRLVKGQQ 95 (100)
T ss_dssp HHHHHHHHHCCC-
T ss_pred HHHHHHHHHcCcc
Confidence 9999999998764
No 14
>PF01417 ENTH: ENTH domain; InterPro: IPR001026 The ENTH (Epsin N-terminal homology) domain is approximately 150 amino acids in length and is always found located at the N-termini of proteins. The domain forms a compact globular structure, composed of 9 alpha-helices connected by loops of varying length. The general topology is determined by three helical hairpins that are stacked consecutively with a right hand twist []. An N-terminal helix folds back, forming a deep basic groove that forms the binding pocket for the Ins(1,4,5)P3 ligand []. The ligand is coordinated by residues from surrounding alpha-helices and all three phosphates are multiply coordinated. The coordination of Ins(1,4,5)P3 suggests that ENTH is specific for particular head groups. Proteins containing this domain have been found to bind PtdIns(4,5)P2 and PtdIns(1,4,5)P3 suggesting that the domain may be a membrane interacting module. The main function of proteins containing this domain appears to be to act as accessory clathrin adaptors in endocytosis, Epsin is able to recruit and promote clathrin polymerisation on a lipid monolayer, but may have additional roles in signalling and actin regulation []. Epsin causes a strong degree of membrane curvature and tubulation, even fragmentation of membranes with a high PtdIns(4,5)P2 content. Epsin binding to membranes facilitates their deformation by insertion of the N-terminal helix into the outer leaflet of the bilayer, pushing the head groups apart. This would reduce the energy needed to curve the membrane into a vesicle, making it easier for the clathrin cage to fix and stabilise the curved membrane. This points to a pioneering role for epsin in vesicle budding as it provides both a driving force and a link between membrane invagination and clathrin polymerisation. ; PDB: 1H0A_A 1EYH_A 1EDU_A 2QY7_B 1XGW_A 2V8S_E 1VDY_A 2DCP_A 1INZ_A 3ONL_B ....
Probab=97.92 E-value=0.00012 Score=61.47 Aligned_cols=110 Identities=25% Similarity=0.296 Sum_probs=76.7
Q ss_pred CcHHHHHHHhcCCCCCCcCHHHHHHHHHHHhcCCCCHHHHHHHHHHHh-hhcCCCCHHHHHHHHHHHHHHHhcCchhHHH
Q psy3857 14 SPVGSKIEMATDPTLASENWALNMEICDIINETEDGPKDAIKAIRKRL-QQYAGKDYTVIMYTLTVLETCVKNCNRRFHI 92 (349)
Q Consensus 14 t~~~~~I~~AT~~~~~~~dw~~~l~icD~In~~~~~~~eA~ral~krl-~~~~~~n~~~~l~AL~LLd~~vkNcG~~Fh~ 92 (349)
|+++.+|.+||+...-.|.-....+||..-... ......+..|.||| . ..+++.++.+-||.||+.|++||...|-.
T Consensus 2 s~~e~~v~eAT~~d~~gp~~~~l~eIa~~t~~~-~~~~~I~~~l~kRL~~-~~~k~wr~~~KaL~ll~yLl~nG~~~~~~ 79 (125)
T PF01417_consen 2 SELELKVREATSNDPWGPPGKLLAEIAQLTYNS-KDCQEIMDVLWKRLSK-SDGKNWRHVYKALTLLEYLLKNGSERFVD 79 (125)
T ss_dssp -HHHHHHHHHTSSSSSS--HHHHHHHHHHTTSC-HHHHHHHHHHHHHHHS-STSSGHHHHHHHHHHHHHHHHHS-HHHHH
T ss_pred CHHHHHHHHHcCCCCCCcCHHHHHHHHHHHhcc-ccHHHHHHHHHHHHHh-cCCcchhHHHHHHHHHHHHHHHCCHHHHH
Confidence 379999999999986666666777788776655 68889999999999 2 22489999999999999999999999988
Q ss_pred HhhcHHHHHHHHHHh-----CCCCC-CChhHHHHHHHHHHH
Q psy3857 93 LVCSKDFIQELYKLI-----GPKNE-PPIIVQDKVLSLIQS 127 (349)
Q Consensus 93 ~i~~k~Fl~eL~kl~-----~~k~~-~~~~Vk~kil~li~~ 127 (349)
.+- +=...+..+. .++.. .-..||+++-+++..
T Consensus 80 ~~~--~~~~~I~~l~~f~~~d~~g~d~~~~VR~~A~~i~~l 118 (125)
T PF01417_consen 80 ELR--DHIDIIRELQDFQYVDPKGKDQGQNVREKAKEILEL 118 (125)
T ss_dssp HHH--HTHHHHHGGGG---BBTTSTBHHHHHHHHHHHHHHH
T ss_pred HHH--HHHHHHhhcceeeccCCCCccHHHHHHHHHHHHHHH
Confidence 773 2222333221 12111 114588877766654
No 15
>cd03572 ENTH_epsin_related ENTH domain, Epsin Related family; composed of hypothetical proteins containing an ENTH-like domain. The epsin N-terminal homology (ENTH) domain is an evolutionarily conserved protein module found primarily in proteins that participate in clathrin-mediated endocytosis. A set of proteins previously designated as harboring an ENTH domain in fact contains a highly similar, yet unique module referred to as an AP180 N-terminal homology (ANTH) domain. ENTH and ANTH (E/ANTH) domains are structurally similar to the VHS domain and are composed of a superhelix of eight alpha helices. E/ANTH domains bind both inositol phospholipids and proteins and contribute to the nucleation and formation of clathrin coats on membranes. ENTH domains also function in the development of membrane curvature through lipid remodeling during the formation of clathrin-coated vesicles. E/ANTH-bearing proteins have recently been shown to function with adaptor protein-1 and GGA adaptors at the t
Probab=97.79 E-value=0.00043 Score=57.95 Aligned_cols=77 Identities=17% Similarity=0.161 Sum_probs=67.7
Q ss_pred HHHHHhcCCCCCCcCHHHHHHHHHHHhcCCCCHHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhcCchhHHHHhhcH
Q psy3857 18 SKIEMATDPTLASENWALNMEICDIINETEDGPKDAIKAIRKRLQQYAGKDYTVIMYTLTVLETCVKNCNRRFHILVCSK 97 (349)
Q Consensus 18 ~~I~~AT~~~~~~~dw~~~l~icD~In~~~~~~~eA~ral~krl~~~~~~n~~~~l~AL~LLd~~vkNcG~~Fh~~i~~k 97 (349)
.+|.+||+.....+--.+.-+||.+...+.+...+.+..|-|||+ . ++|+|-+-||.+|+.|+.+++..|.+.+-+.
T Consensus 4 ~ll~~ATsdd~~p~pgy~~~Eia~~t~~s~~~~~ei~d~L~kRL~-~--~~~hVK~K~Lrilk~l~~~G~~~f~~~~~~~ 80 (122)
T cd03572 4 SLLSKATSDDDEPTPGYLYEEIAKLTRKSVGSCQELLEYLLKRLK-R--SSPHVKLKVLKIIKHLCEKGNSDFKRELQRN 80 (122)
T ss_pred HHHHHHhcCCCCCCchHHHHHHHHHHHcCHHHHHHHHHHHHHHhc-C--CCCcchHHHHHHHHHHHhhCCHHHHHHHHHh
Confidence 579999998766666566779999999988899999999999999 5 7899999999999999999999999887654
No 16
>smart00273 ENTH Epsin N-terminal homology (ENTH) domain.
Probab=97.69 E-value=0.00097 Score=55.98 Aligned_cols=79 Identities=18% Similarity=0.188 Sum_probs=69.7
Q ss_pred CcHHHHHHHhcCCCCCCcCHHHHHHHHHHHhcCCCCHHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhcCchhHHHH
Q psy3857 14 SPVGSKIEMATDPTLASENWALNMEICDIINETEDGPKDAIKAIRKRLQQYAGKDYTVIMYTLTVLETCVKNCNRRFHIL 93 (349)
Q Consensus 14 t~~~~~I~~AT~~~~~~~dw~~~l~icD~In~~~~~~~eA~ral~krl~~~~~~n~~~~l~AL~LLd~~vkNcG~~Fh~~ 93 (349)
++++..|.+||+.....|.-..+-+|+......+....+.+.+|.+||..+ ++..+++-||.||+.|++|+...|-.+
T Consensus 1 ~~~e~~V~kAT~~~~~~p~~k~~~~I~~~t~~~~~~~~~i~~~l~~Rl~~~--~~w~~v~KsL~llh~ll~~G~~~~~~~ 78 (127)
T smart00273 1 SDLEVKVRKATNNDEWGPKGKHLREIIQGTHNEKSSFAEIMAVLWRRLNDT--KNWRVVYKALILLHYLLRNGSPRVILE 78 (127)
T ss_pred CHHHHHHHHhcCCCCCCcCHHHHHHHHHHHccCHhhHHHHHHHHHHHHhCc--ccHHHHHHHHHHHHHHHhcCCHHHHHH
Confidence 368899999999988888889999999998877788999999999999943 589999999999999999998877655
Q ss_pred h
Q psy3857 94 V 94 (349)
Q Consensus 94 i 94 (349)
+
T Consensus 79 ~ 79 (127)
T smart00273 79 A 79 (127)
T ss_pred H
Confidence 4
No 17
>cd03571 ENTH_epsin ENTH domain, Epsin family; The epsin (Eps15 interactor) N-terminal homology (ENTH) domain is an evolutionarily conserved protein module found primarily in proteins that participate in clathrin-mediated endocytosis. A set of proteins previously designated as harboring an ENTH domain in fact contains a highly similar, yet unique module referred to as an AP180 N-terminal homology (ANTH) domain. ENTH and ANTH (E/ANTH) domains are structurally similar to the VHS domain and are composed of a superhelix of eight alpha helices. E/ANTH domains bind both inositol phospholipids and proteins and contribute to the nucleation and formation of clathrin coats on membranes. ENTH domains also function in the development of membrane curvature through lipid remodeling during the formation of clathrin-coated vesicles. E/ANTH-bearing proteins have recently been shown to function with adaptor protein-1 and GGA adaptors at the trans-Golgi network, which suggests that E/ANTH domains are univ
Probab=97.59 E-value=0.0015 Score=54.94 Aligned_cols=110 Identities=20% Similarity=0.197 Sum_probs=79.9
Q ss_pred cHHHHHHHhcCCCCCCcCHHHHHHHHHHHhcCCCCHHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhcCchhHHHHh
Q psy3857 15 PVGSKIEMATDPTLASENWALNMEICDIINETEDGPKDAIKAIRKRLQQYAGKDYTVIMYTLTVLETCVKNCNRRFHILV 94 (349)
Q Consensus 15 ~~~~~I~~AT~~~~~~~dw~~~l~icD~In~~~~~~~eA~ral~krl~~~~~~n~~~~l~AL~LLd~~vkNcG~~Fh~~i 94 (349)
+++.+|..||+...-.|.=..+-+||+.--. ...-.+.+..|.|||.. .+++-+.++-||+|||.|++|+...|-.++
T Consensus 1 ~~e~~vreATs~d~wGp~~~~m~eIa~~t~~-~~~~~~Im~~l~kRL~~-~~k~WR~vyKaL~lleyLl~nGse~vv~~~ 78 (123)
T cd03571 1 EAELKVREATSNDPWGPSGTLMAEIARATYN-YVEFQEIMSMLWKRLND-KGKNWRHVYKALTLLEYLLKNGSERVVDDA 78 (123)
T ss_pred CHHHHHHHHcCCCCCCCCHHHHHHHHHHhCC-HHHHHHHHHHHHHHHHh-ccccHHHHHHHHHHHHHHHHhCCHHHHHHH
Confidence 3678899999988777777788888888544 35778999999999984 357999999999999999999999888776
Q ss_pred hcHHHHHHHHHH--h---CCCC-CCChhHHHHHHHHHHHH
Q psy3857 95 CSKDFIQELYKL--I---GPKN-EPPIIVQDKVLSLIQSW 128 (349)
Q Consensus 95 ~~k~Fl~eL~kl--~---~~k~-~~~~~Vk~kil~li~~W 128 (349)
-+.-+ .|..+ | .+.. +--..||+|.-+++..-
T Consensus 79 r~~~~--~i~~L~~F~~~d~~g~d~G~~VR~ka~~i~~Ll 116 (123)
T cd03571 79 RENLY--IIRTLKDFQYIDENGKDQGINVREKAKEILELL 116 (123)
T ss_pred HHhHH--HHHhhccceeeCCCCCchhHHHHHHHHHHHHHh
Confidence 43322 22222 1 1111 11256888877776543
No 18
>cd03562 CID CID (CTD-Interacting Domain) domain family; CID is present in several RNA-processing factors such as Pcf11 and Nrd1. Pcf11 is a conserved and essential subunit of the yeast cleavage factor IA, which is required for polyadenylation-dependent 3'-RNA processing and transcription termination. Nrd1 is implicated in polyadenylation-independent 3'-RNA processing. CID binds tightly to the carboxy-terminal domain (CTD) of RNA polymerase (Pol) II. During transcription, Pol II synthesizes eukaryotic messenger RNA. Transcription is coupled to RNA processing through the CTD, which consists of up to 52 repeats of the sequence Tyr 1-Ser 2-Pro 3-Thr 4-Ser 5-Pro 6-Ser 7. CID contains eight alpha-helices in a right-handed superhelical arrangement, which closely resembles that of the VHS domains and ARM (Armadillo) repeat proteins, except for its two amino-terminal helices.
Probab=97.48 E-value=0.00058 Score=56.13 Aligned_cols=107 Identities=15% Similarity=0.191 Sum_probs=78.4
Q ss_pred HHHHHHHhcCCCCCCcCHHHHHHHHHHHhcCCCCHHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhcCchhHHHHhh
Q psy3857 16 VGSKIEMATDPTLASENWALNMEICDIINETEDGPKDAIKAIRKRLQQYAGKDYTVIMYTLTVLETCVKNCNRRFHILVC 95 (349)
Q Consensus 16 ~~~~I~~AT~~~~~~~dw~~~l~icD~In~~~~~~~eA~ral~krl~~~~~~n~~~~l~AL~LLd~~vkNcG~~Fh~~i~ 95 (349)
+...+.+.|.-.. .-..|-.+...+......+++.|.+|.++|+ . ..|...+.+|-|+|.+++|||.+-...++
T Consensus 4 ~~~~l~~L~~~~~---S~~~I~~lt~~a~~~~~~a~~iv~~i~~~i~-~--~~~~~KL~~LYL~dsIvkn~~~~~~~~~~ 77 (114)
T cd03562 4 YNALLEKLTFNKN---SQPSIQTLTKLAIENRKHAKEIVEIIEKHIK-K--CPPEQKLPLLYLLDSIVKNVGRKYKEFFS 77 (114)
T ss_pred HHHHHHHHHcCcc---cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-h--CCcccchHHHHHHHHHHHHcccchHHHHH
Confidence 4455566665542 3344555556655555688899999999999 4 78889999999999999999999777655
Q ss_pred cHHHHHHHHHHhCCCCCCChhHHHHHHHHHHHHHHHh
Q psy3857 96 SKDFIQELYKLIGPKNEPPIIVQDKVLSLIQSWADAF 132 (349)
Q Consensus 96 ~k~Fl~eL~kl~~~k~~~~~~Vk~kil~li~~W~~~f 132 (349)
. .|.+-+...+. ..+..+|+++..++..|.+.+
T Consensus 78 ~-~~~~~f~~~~~---~~~~~~r~kl~rl~~iW~~~~ 110 (114)
T cd03562 78 E-FLVPLFLDAYE---KVDEKTRKKLERLLNIWEERF 110 (114)
T ss_pred H-HHHHHHHHHHH---hCCHHHHHHHHHHHHHccCCC
Confidence 3 33444545553 246789999999999998765
No 19
>cd03564 ANTH_AP180_CALM ANTH domain family; composed of adaptor protein 180 (AP180), clathrin assembly lymphoid myeloid leukemia protein (CALM) and similar proteins. A set of proteins previously designated as harboring an ENTH domain in fact contains a highly similar, yet unique module referred to as an AP180 N-terminal homology (ANTH) domain. AP180 and CALM play important roles in clathrin-mediated endocytosis. AP180 is a brain-specific clathrin-binding protein which stimulates clathrin assembly during the recycling of synaptic vesicles. The ANTH domain is structurally similar to the VHS domain and is composed of a superhelix of eight alpha helices. ANTH domains bind both inositol phospholipids and proteins, and contribute to the nucleation and formation of clathrin coats on membranes. ANTH-bearing proteins have recently been shown to function with adaptor protein-1 and GGA adaptors at the trans-Golgi network, which suggests that the ANTH domain is a universal component of the machine
Probab=97.19 E-value=0.0029 Score=52.37 Aligned_cols=77 Identities=16% Similarity=0.146 Sum_probs=69.4
Q ss_pred HHHHHHhcCCCCCCcCHHHHHHHHHHHhcCCCCHHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhcCchhHHHHhhc
Q psy3857 17 GSKIEMATDPTLASENWALNMEICDIINETEDGPKDAIKAIRKRLQQYAGKDYTVIMYTLTVLETCVKNCNRRFHILVCS 96 (349)
Q Consensus 17 ~~~I~~AT~~~~~~~dw~~~l~icD~In~~~~~~~eA~ral~krl~~~~~~n~~~~l~AL~LLd~~vkNcG~~Fh~~i~~ 96 (349)
+..|-+||+.....|+-..+-.|......+.....+.+.+|.+|+. . +|+.+++-||.||..|++++...|..++..
T Consensus 2 ~~aV~kAT~~~~~~pk~k~v~~ii~~t~~~~~~~~~~~~~l~~Rl~-~--~~w~v~~K~LillH~llr~G~~~~~~~~~~ 78 (117)
T cd03564 2 EKAVKKATSHDEAPPKDKHVRKIIAGTSSSPASIPSFASALSRRLL-D--RNWVVVLKALILLHRLLREGHPSFLQELLS 78 (117)
T ss_pred chHHHhhcCCCCCCCChHHHHHHHHHHcCCCCCHHHHHHHHHHHHc-c--CcHHHHHHHHHHHHHHHhcCCHHHHHHHHH
Confidence 4578999999988899999999999888778899999999999999 4 899999999999999999999888877654
No 20
>KOG2056|consensus
Probab=97.13 E-value=0.005 Score=59.74 Aligned_cols=131 Identities=20% Similarity=0.196 Sum_probs=96.3
Q ss_pred CCCcHHHHHHHhcCCCCCCcCHHHHHHHHHHHhcCCCCHHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhcCchhHH
Q psy3857 12 FASPVGSKIEMATDPTLASENWALNMEICDIINETEDGPKDAIKAIRKRLQQYAGKDYTVIMYTLTVLETCVKNCNRRFH 91 (349)
Q Consensus 12 ~st~~~~~I~~AT~~~~~~~dw~~~l~icD~In~~~~~~~eA~ral~krl~~~~~~n~~~~l~AL~LLd~~vkNcG~~Fh 91 (349)
|+ +.+..|-.||+...-.|.-.++.+|++.--. ...-.+.+-.|.||++. +|+|-+.++-||+|||.||+|+..+|-
T Consensus 19 y~-~~e~kVrdAT~nd~wGPs~~lm~eIA~~ty~-~~e~~eIm~vi~kRl~d-~gknWR~VyKaLtlleyLl~~GSErv~ 95 (336)
T KOG2056|consen 19 YS-EAELKVRDATSNDPWGPSGTLMAEIAQATYN-FVEYQEIMDVLWKRLND-SGKNWRHVYKALTLLEYLLKNGSERVV 95 (336)
T ss_pred ch-HHHHHHHhccccccCCCchHHHHHHHHHhcC-HHHHHHHHHHHHHHHhh-ccchHHHHHHHHHHHHHHHhcCcHHHH
Confidence 66 6889999999998888888899999876432 34678899999999995 589999999999999999999999888
Q ss_pred HHhhcHHHHHHHHHHhC---CCC-CCChhHHHHHHHHHHHHHHHhcCCCCchhHHHHHHHHH
Q psy3857 92 ILVCSKDFIQELYKLIG---PKN-EPPIIVQDKVLSLIQSWADAFKDIPNLEGVNQIYQELR 149 (349)
Q Consensus 92 ~~i~~k~Fl~eL~kl~~---~k~-~~~~~Vk~kil~li~~W~~~f~~~~~l~~i~~~y~~Lk 149 (349)
.++-..-++-++.+-+. +.. ..-..|++|+-+++....+. ..|...+..-...+
T Consensus 96 ~~~ren~~~I~tL~~Fq~iD~~G~dqG~nVRkkak~l~~LL~D~----erLkeeR~~a~~~r 153 (336)
T KOG2056|consen 96 DETRENIYTIETLKDFQYIDEDGKDQGLNVRKKAKELLSLLEDD----ERLKEERKKARKTR 153 (336)
T ss_pred HHHHhhhHHHHHHhhceeeCCCCccchHHHHHHHHHHHHHhccH----HHHHHHHHHHHHHh
Confidence 77655555555444442 111 12357899988888776543 34544555444444
No 21
>KOG0251|consensus
Probab=95.79 E-value=0.075 Score=54.52 Aligned_cols=82 Identities=16% Similarity=0.204 Sum_probs=75.9
Q ss_pred cHHHHHHHhcCCCCCCcCHHHHHHHHHHHhcCCCCHHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhcCchhHHHHh
Q psy3857 15 PVGSKIEMATDPTLASENWALNMEICDIINETEDGPKDAIKAIRKRLQQYAGKDYTVIMYTLTVLETCVKNCNRRFHILV 94 (349)
Q Consensus 15 ~~~~~I~~AT~~~~~~~dw~~~l~icD~In~~~~~~~eA~ral~krl~~~~~~n~~~~l~AL~LLd~~vkNcG~~Fh~~i 94 (349)
.++..|-|||+.....|+-..+-.|--.+++.+.....++.+|-+||++. +|--|++-||.|+--+++.+...|+.++
T Consensus 23 ~l~~AV~KATsh~~~ppk~k~l~~Il~~ts~~~~~i~~~v~aLs~Rl~~T--rnW~VAlKsLIliH~ll~~G~~~f~~~l 100 (491)
T KOG0251|consen 23 DLEKAVVKATSHDDMPPKDKYLDEILSATSSSPASIPSCVHALSERLNKT--RNWTVALKALILIHRLLKEGDPSFEQEL 100 (491)
T ss_pred hHHHHHHhhccCCCCCccHHHHHHHHHHhcCCcccHHHHHHHHHHHhCCC--cceeehHHHHHHHHHHHhcCcHHHHHHH
Confidence 68999999999999999999999999999999899999999999999954 6999999999999999999999999998
Q ss_pred hcHH
Q psy3857 95 CSKD 98 (349)
Q Consensus 95 ~~k~ 98 (349)
...-
T Consensus 101 ~~~~ 104 (491)
T KOG0251|consen 101 LSRN 104 (491)
T ss_pred Hhcc
Confidence 7765
No 22
>smart00582 RPR domain present in proteins, which are involved in regulation of nuclear pre-mRNA.
Probab=94.93 E-value=0.16 Score=41.87 Aligned_cols=80 Identities=13% Similarity=0.185 Sum_probs=54.6
Q ss_pred CCHHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhcCchhHHHHhhcHHHHHHHHHHhCCC-CCCChhHHHHHHHHHH
Q psy3857 48 DGPKDAIKAIRKRLQQYAGKDYTVIMYTLTVLETCVKNCNRRFHILVCSKDFIQELYKLIGPK-NEPPIIVQDKVLSLIQ 126 (349)
Q Consensus 48 ~~~~eA~ral~krl~~~~~~n~~~~l~AL~LLd~~vkNcG~~Fh~~i~~k~Fl~eL~kl~~~k-~~~~~~Vk~kil~li~ 126 (349)
..+.+.+..|.++++ . ..+..-+..|-|++.+++||+.++-..+. ..|...+...+..- ...+..+++++..++.
T Consensus 28 ~~a~~Iv~~i~~~~~-~--~~~~~kL~~LYlindIl~n~~~~~~~~f~-~~~~~~~~~~~~~~~~~~~~~~~~ki~kll~ 103 (121)
T smart00582 28 SHAKEIVELWEKYIK-K--APPPRKLPLLYLLDSIVQNSKRKYGSEFG-DELGPVFQDALRDVLGAANDETKKKIRRLLN 103 (121)
T ss_pred HHHHHHHHHHHHHHH-h--CCccceehhHHhHHHHHHHHhhccHHHHH-HHHHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence 466789999999999 4 56667778888999999999776432221 23433333332110 0123689999999999
Q ss_pred HHHHH
Q psy3857 127 SWADA 131 (349)
Q Consensus 127 ~W~~~ 131 (349)
.|.+.
T Consensus 104 iW~~~ 108 (121)
T smart00582 104 IWEER 108 (121)
T ss_pred HHhcC
Confidence 99873
No 23
>PF07651 ANTH: ANTH domain; InterPro: IPR011417 AP180 is an endocytotic accessory protein that has been implicated in the formation of clathrin-coated pits. The domain is involved in phosphatidylinositol 4,5-bisphosphate binding and is a universal adaptor for nucleation of clathrin coats [, ].; GO: 0005543 phospholipid binding; PDB: 1HX8_A 3ZYM_A 1HFA_A 1HG2_A 3ZYL_B 3ZYK_A 1HG5_A 1HF8_A.
Probab=92.97 E-value=0.4 Score=45.36 Aligned_cols=80 Identities=16% Similarity=0.135 Sum_probs=62.0
Q ss_pred CcHHHHHHHhcCCCCCCcCHHHHHHHHHHHhcCCCCHHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhcCchhHHHH
Q psy3857 14 SPVGSKIEMATDPTLASENWALNMEICDIINETEDGPKDAIKAIRKRLQQYAGKDYTVIMYTLTVLETCVKNCNRRFHIL 93 (349)
Q Consensus 14 t~~~~~I~~AT~~~~~~~dw~~~l~icD~In~~~~~~~eA~ral~krl~~~~~~n~~~~l~AL~LLd~~vkNcG~~Fh~~ 93 (349)
+.++..|-|||+....-|+-..+-.|.-.... +.....++.+|.+|+... +|+.+++-||.|+-.|++-+...|-.+
T Consensus 2 ~~l~~av~KAT~~~~~ppk~Khv~~il~~t~~-~~~~~~~~~~l~~Rl~~~--~~w~V~~K~Lil~H~llr~G~~~~~~~ 78 (280)
T PF07651_consen 2 SDLEKAVIKATSHDEAPPKEKHVREILSATSS-PESVAFLFWALSRRLPLT--RNWIVALKALILLHRLLRDGHPSFLQE 78 (280)
T ss_dssp -HHHHHHHHHT-SSS---HHHHHHHHHHHCST-TS-HHHHHHHHHHHCTSS---SHHHHHHHHHHHHHHHHHS-CHHHHH
T ss_pred hHHHHHHHHHcCCCCCCCCHHHHHHHHHHhcC-CccHHHHHHHHHHHcccc--ccHHHHHHHHHHHHHHHHcCchHHHHH
Confidence 35788999999998888888888888777776 678899999999999943 699999999999999999987777766
Q ss_pred hhc
Q psy3857 94 VCS 96 (349)
Q Consensus 94 i~~ 96 (349)
+..
T Consensus 79 ~~~ 81 (280)
T PF07651_consen 79 LLR 81 (280)
T ss_dssp HHH
T ss_pred HHH
Confidence 654
No 24
>KOG2374|consensus
Probab=91.97 E-value=3 Score=42.64 Aligned_cols=138 Identities=14% Similarity=0.263 Sum_probs=98.0
Q ss_pred cHHHHHHHhcCCCCCCcCHHHHHHHHHHHhcCCCCHHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhcCchhHHHHh
Q psy3857 15 PVGSKIEMATDPTLASENWALNMEICDIINETEDGPKDAIKAIRKRLQQYAGKDYTVIMYTLTVLETCVKNCNRRFHILV 94 (349)
Q Consensus 15 ~~~~~I~~AT~~~~~~~dw~~~l~icD~In~~~~~~~eA~ral~krl~~~~~~n~~~~l~AL~LLd~~vkNcG~~Fh~~i 94 (349)
.|-.+|+.+|...-++-|--..-+|--.+..+.+..+-+.+.|..-+.+ .-..+-+++|-+.+.|.--. +-|...|
T Consensus 7 kl~~lIeelT~sg~~~~~p~~~k~lkkiv~~sdee~~~~~~~L~~~~~~---~h~~vR~l~lqii~elF~rs-~~FR~li 82 (661)
T KOG2374|consen 7 KLIGLIEELTKSGAQEVDPRLLKALKKIVRYSDEEVRLSSQTLMELMRH---NHSQVRYLTLQIIDELFMRS-KLFRTLI 82 (661)
T ss_pred HHHHHHHHHhhcCCcccChHHHHHHHHHHhccHHHHHHHHHHHHHHHhh---cCchHHHHHHHHHHHHHHhh-HHHHHHH
Confidence 5788999999998888787777777777777776788999999988884 34557889999999887763 6777766
Q ss_pred hc--HHHHHHHHHHhCCCCCC-C----hhHHHHHHHHHHHHHHHhcCCCCchhHHHHHHHHHh-cCCCCCCC
Q psy3857 95 CS--KDFIQELYKLIGPKNEP-P----IIVQDKVLSLIQSWADAFKDIPNLEGVNQIYQELRS-KGIEFPMT 158 (349)
Q Consensus 95 ~~--k~Fl~eL~kl~~~k~~~-~----~~Vk~kil~li~~W~~~f~~~~~l~~i~~~y~~Lk~-~G~~fP~~ 158 (349)
-. .+||.-.+..=.....| | ..++.+.++.|..|-..|. ..+..++=.|.-||. +.+.||..
T Consensus 83 i~n~~efLeL~~gt~p~~PLP~p~~~a~~Lr~~ai~~~e~Wnekfg--~~yk~l~lg~~~Lk~tkkvdf~d~ 152 (661)
T KOG2374|consen 83 IENLDEFLELSIGTRPNLPLPAPPAVATTLRSKAIEFLEKWNEKFG--FHYKELRLGFDYLKNTKKVDFPDL 152 (661)
T ss_pred HhCHHHHHHHhhcCCCCCCCCCChHHHHHHHHHHHHHHHHHHHHHh--HHHHHHHHHHHHHhccccccCcch
Confidence 53 24555443321111011 2 4578999999999999885 234455666777765 45678875
No 25
>PF12210 Hrs_helical: Hepatocyte growth factor-regulated tyrosine kinase substrate; InterPro: IPR024641 This domain comprises the helical region of hepatocyte growth factor-regulated tyrosine kinase substrate (HRS). It is approximately 100 amino acids in length. Hrs, together with signal transducing adaptor molecule (STAM), forms the ESCRT-0 complex, which sorts ubiquitinated cell surface receptors to lysosomes for degradation []. ; PDB: 3F1I_H.
Probab=89.26 E-value=1.9 Score=34.42 Aligned_cols=55 Identities=11% Similarity=0.237 Sum_probs=40.0
Q ss_pred HHHHHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHHHHHHHHHHHhhcCcH
Q psy3857 210 LEVVQANMAVFNEMLNTLIPGQEHSSDIELITELHATCKAMQERIVQLISKYSQE 264 (349)
Q Consensus 210 l~~v~~n~~lL~emL~~~~p~~~~~~d~e~i~eL~~~ck~~q~~i~~li~~~~de 264 (349)
+..++..+.+|.+-+.....-+.+...+..++.||.++-.|+|+++++|++.++.
T Consensus 4 ~~~l~~~v~if~nRmksns~RGrsIanDsaVqsLF~~lt~mH~~LL~~i~~~ee~ 58 (96)
T PF12210_consen 4 CNTLRSSVEIFVNRMKSNSSRGRSIANDSAVQSLFQTLTAMHPQLLKYIQEQEEK 58 (96)
T ss_dssp HHHHHHHHHHHHHHHHHHHHTT--GGG-HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHhHhcCCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4456777777777666554333445677899999999999999999999986543
No 26
>KOG2057|consensus
Probab=86.57 E-value=5.9 Score=38.53 Aligned_cols=110 Identities=15% Similarity=0.149 Sum_probs=67.0
Q ss_pred cHHHHHHHhcCCCCCCcCHHHHHHHHHHHhcCC-CCHHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhcCchhHHHH
Q psy3857 15 PVGSKIEMATDPTLASENWALNMEICDIINETE-DGPKDAIKAIRKRLQQYAGKDYTVIMYTLTVLETCVKNCNRRFHIL 93 (349)
Q Consensus 15 ~~~~~I~~AT~~~~~~~dw~~~l~icD~In~~~-~~~~eA~ral~krl~~~~~~n~~~~l~AL~LLd~~vkNcG~~Fh~~ 93 (349)
.++..|..||++.--.|-=.++-+||+.-...- +.--+....|-.|+-.....+-+.++-+|.||+.|++|+..+|-.+
T Consensus 23 e~e~~VREATNdDPWGPsG~lMgeIaeaTfmry~EdFpelmnmL~qRMLedNK~~WRRVYKSLiLLaYLikNGSER~Vqe 102 (499)
T KOG2057|consen 23 EAEMDVREATNDDPWGPSGPLMGEIAEATFMRYMEDFPELMNMLFQRMLEDNKDAWRRVYKSLILLAYLIKNGSERFVQE 102 (499)
T ss_pred HHHHHHHhhccCCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhcccHHHHHH
Confidence 456667777776544444456778888766531 2233444444444432222445678889999999999999999875
Q ss_pred hhcHHHHHHHHHHhCCCCC------CChhHHHHHHHHHH
Q psy3857 94 VCSKDFIQELYKLIGPKNE------PPIIVQDKVLSLIQ 126 (349)
Q Consensus 94 i~~k~Fl~eL~kl~~~k~~------~~~~Vk~kil~li~ 126 (349)
. ++-.=+|.+|-+-++- --..+++|+.+++.
T Consensus 103 A--REh~YdLR~LEnYhfiDEhGKDQGINIR~kVKeilE 139 (499)
T KOG2057|consen 103 A--REHAYDLRRLENYHFIDEHGKDQGINIRHKVKEILE 139 (499)
T ss_pred H--HHHHHHHHhhhhccchhhhCccccccHHHHHHHHHH
Confidence 4 3445556666432221 12357777777664
No 27
>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=83.86 E-value=17 Score=32.86 Aligned_cols=78 Identities=15% Similarity=0.167 Sum_probs=54.0
Q ss_pred HHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhcCc---hhHHHHhhcHHHHHHHHHHhCCCCCCChhHHHHHHHHHH
Q psy3857 50 PKDAIKAIRKRLQQYAGKDYTVIMYTLTVLETCVKNCN---RRFHILVCSKDFIQELYKLIGPKNEPPIIVQDKVLSLIQ 126 (349)
Q Consensus 50 ~~eA~ral~krl~~~~~~n~~~~l~AL~LLd~~vkNcG---~~Fh~~i~~k~Fl~eL~kl~~~k~~~~~~Vk~kil~li~ 126 (349)
++-....|..-++ + +||.+-..++..|..++..+| ..+.....-+.+...|++.+. ++...||+-...++.
T Consensus 129 ~~~~~~~l~~~~~-~--Kn~~vR~~~~~~l~~~l~~~~~~~~~l~~~~~~~~l~~~l~~~l~---D~~~~VR~~Ar~~~~ 202 (228)
T PF12348_consen 129 PKILLEILSQGLK-S--KNPQVREECAEWLAIILEKWGSDSSVLQKSAFLKQLVKALVKLLS---DADPEVREAARECLW 202 (228)
T ss_dssp -HHHHHHHHHHTT----S-HHHHHHHHHHHHHHHTT-----GGG--HHHHHHHHHHHHHHHT---SS-HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHh-C--CCHHHHHHHHHHHHHHHHHccchHhhhcccchHHHHHHHHHHHCC---CCCHHHHHHHHHHHH
Confidence 4444777777777 5 999999999999999999999 445443333567777777775 456799999999998
Q ss_pred HHHHHhc
Q psy3857 127 SWADAFK 133 (349)
Q Consensus 127 ~W~~~f~ 133 (349)
.+...|+
T Consensus 203 ~l~~~~~ 209 (228)
T PF12348_consen 203 ALYSHFP 209 (228)
T ss_dssp HHHHHH-
T ss_pred HHHHHCC
Confidence 8888774
No 28
>KOG2160|consensus
Probab=82.47 E-value=5.8 Score=38.94 Aligned_cols=68 Identities=25% Similarity=0.261 Sum_probs=58.5
Q ss_pred HhhhcCCCCHHHHHHHHHHHHHHHhcCchhHHHHhhcHHHHHHHHHHhCCCCCCChhHHHHHHHHHHHHHHHhc
Q psy3857 60 RLQQYAGKDYTVIMYTLTVLETCVKNCNRRFHILVCSKDFIQELYKLIGPKNEPPIIVQDKVLSLIQSWADAFK 133 (349)
Q Consensus 60 rl~~~~~~n~~~~l~AL~LLd~~vkNcG~~Fh~~i~~k~Fl~eL~kl~~~k~~~~~~Vk~kil~li~~W~~~f~ 133 (349)
.++ + +++.+-.+|..++-+||.| .++.+.+|-...|+..|.++++ + ..+..|+.|+|..|..--..|+
T Consensus 132 ~l~-~--~~~~lR~~Aa~Vigt~~qN-NP~~Qe~v~E~~~L~~Ll~~ls-~-~~~~~~r~kaL~AissLIRn~~ 199 (342)
T KOG2160|consen 132 YLE-N--SDAELRELAARVIGTAVQN-NPKSQEQVIELGALSKLLKILS-S-DDPNTVRTKALFAISSLIRNNK 199 (342)
T ss_pred Hhc-C--CcHHHHHHHHHHHHHHHhc-CHHHHHHHHHcccHHHHHHHHc-c-CCCchHHHHHHHHHHHHHhcCc
Confidence 787 5 8999999999999999999 5788888888889999999997 3 3567899999999888876664
No 29
>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=76.57 E-value=20 Score=32.34 Aligned_cols=97 Identities=16% Similarity=0.271 Sum_probs=62.5
Q ss_pred CCCcCHHHHH----HHHHHHhcC--CCCHHHHHH-------HHHHHhhhcCCCCHHHHHHHHHHHHHHHhcCchhHHHHh
Q psy3857 28 LASENWALNM----EICDIINET--EDGPKDAIK-------AIRKRLQQYAGKDYTVIMYTLTVLETCVKNCNRRFHILV 94 (349)
Q Consensus 28 ~~~~dw~~~l----~icD~In~~--~~~~~eA~r-------al~krl~~~~~~n~~~~l~AL~LLd~~vkNcG~~Fh~~i 94 (349)
..+.||..-. .+-..++.. ...+..-+. .|.+.+. + .+..++..|+.++..|...+|..|...+
T Consensus 16 ~~~~~W~~r~~al~~L~~l~~~~~~~~~~~~~~~~l~~~~~~i~~~l~-d--~Rs~v~~~A~~~l~~l~~~l~~~~~~~~ 92 (228)
T PF12348_consen 16 ESESDWEERVEALQKLRSLIKGNAPEDFPPDFVECLRQLLDAIIKQLS-D--LRSKVSKTACQLLSDLARQLGSHFEPYA 92 (228)
T ss_dssp HT-SSHHHHHHHHHHHHHHHHH-B-----HHHHHHHH---HHHHH-S--H--H---HHHHHHHHHHHHHHHHGGGGHHHH
T ss_pred CCccCHHHHHHHHHHHHHHHHcCCccccHHHHHHHHHHhHHHHHHHHh-h--hHHHHHHHHHHHHHHHHHHHhHhHHHHH
Confidence 3567997644 444555554 234444333 5557888 5 7889999999999999999999998764
Q ss_pred hcHHHHHHHHHHhCCCCCCChhHHHHHHHHHHHHHHHh
Q psy3857 95 CSKDFIQELYKLIGPKNEPPIIVQDKVLSLIQSWADAF 132 (349)
Q Consensus 95 ~~k~Fl~eL~kl~~~k~~~~~~Vk~kil~li~~W~~~f 132 (349)
..|+..|.+++.. +...|++.+...+..+....
T Consensus 93 --~~~l~~Ll~~~~~---~~~~i~~~a~~~L~~i~~~~ 125 (228)
T PF12348_consen 93 --DILLPPLLKKLGD---SKKFIREAANNALDAIIESC 125 (228)
T ss_dssp --HHHHHHHHHGGG------HHHHHHHHHHHHHHHTTS
T ss_pred --HHHHHHHHHHHcc---ccHHHHHHHHHHHHHHHHHC
Confidence 5788889888853 23578888888888887654
No 30
>PF08167 RIX1: rRNA processing/ribosome biogenesis
Probab=73.30 E-value=41 Score=29.29 Aligned_cols=73 Identities=15% Similarity=0.265 Sum_probs=49.0
Q ss_pred HHHHHHHHHHHhhhc-CCCCHHHHHHHHHHHHHHHhcCchh-HHHHhhcHHHHHHHHHHhCCCCCCChhHHHHHHHHHH
Q psy3857 50 PKDAIKAIRKRLQQY-AGKDYTVIMYTLTVLETCVKNCNRR-FHILVCSKDFIQELYKLIGPKNEPPIIVQDKVLSLIQ 126 (349)
Q Consensus 50 ~~eA~ral~krl~~~-~~~n~~~~l~AL~LLd~~vkNcG~~-Fh~~i~~k~Fl~eL~kl~~~k~~~~~~Vk~kil~li~ 126 (349)
.+.++..++.||.+. .++++..-..++.|+...+.+||.. |-.. + ..|+..|.+++... .+..+++-++..+.
T Consensus 19 ~~~~l~~l~~ri~~LL~s~~~~~rw~G~~Ll~~~~~~~~~e~l~~~-~-~~W~~~Ll~~L~~~--~~~~~~~~ai~~L~ 93 (165)
T PF08167_consen 19 SKSALHKLVTRINSLLQSKSAYSRWAGLCLLKVTVEQCSWEILLSH-G-SQWLRALLSILEKP--DPPSVLEAAIITLT 93 (165)
T ss_pred CHHHHHHHHHHHHHHhCCCChhhHHHHHHHHHHHHHHhhHHHHHHH-H-HHHHHHHHHHHcCC--CCHHHHHHHHHHHH
Confidence 455666666655421 2378999999999999999999654 4332 2 58999999999642 24456555444433
No 31
>PF06160 EzrA: Septation ring formation regulator, EzrA ; InterPro: IPR010379 During the bacterial cell cycle, the tubulin-like cell-division protein FtsZ polymerises into a ring structure that establishes the location of the nascent division site. EzrA modulates the frequency and position of FtsZ ring formation [].; GO: 0000921 septin ring assembly, 0005940 septin ring, 0016021 integral to membrane
Probab=71.04 E-value=79 Score=33.28 Aligned_cols=102 Identities=16% Similarity=0.270 Sum_probs=59.9
Q ss_pred HHHHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhcCchhHHHHh---hcHHHHHH--HHHHhCCCCCCChhHHHHHHHHHH
Q psy3857 52 DAIKAIRKRLQQYAGKDYTVIMYTLTVLETCVKNCNRRFHILV---CSKDFIQE--LYKLIGPKNEPPIIVQDKVLSLIQ 126 (349)
Q Consensus 52 eA~ral~krl~~~~~~n~~~~l~AL~LLd~~vkNcG~~Fh~~i---~~k~Fl~e--L~kl~~~k~~~~~~Vk~kil~li~ 126 (349)
+--+.++|.|. .+...--.|+.-|+..+.+-...|..-. .+-+|+.. ++.-+......=....++|=.++.
T Consensus 143 ~~y~~lrk~ll----~~~~~~G~a~~~Le~~L~~ie~~F~~f~~lt~~GD~~~A~eil~~l~~~~~~l~~~~e~IP~l~~ 218 (560)
T PF06160_consen 143 EKYRELRKELL----AHSFSYGPAIEELEKQLENIEEEFSEFEELTENGDYLEAREILEKLKEETDELEEIMEDIPKLYK 218 (560)
T ss_pred HHHHHHHHHHH----HhhhhhchhHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHhHHHHH
Confidence 33445555554 2344455677778888877777665422 11123322 211111110001234466777777
Q ss_pred HHHHHhcCCCCchhHHHHHHHHHhcCCCCCCCc
Q psy3857 127 SWADAFKDIPNLEGVNQIYQELRSKGIEFPMTD 159 (349)
Q Consensus 127 ~W~~~f~~~~~l~~i~~~y~~Lk~~G~~fP~~~ 159 (349)
.-...|+ ..+..+.+.|+.|+.+||.|+..+
T Consensus 219 ~l~~~~P--~ql~eL~~gy~~m~~~gy~l~~~~ 249 (560)
T PF06160_consen 219 ELQKEFP--DQLEELKEGYREMEEEGYYLEHLD 249 (560)
T ss_pred HHHHHhH--HHHHHHHHHHHHHHHCCCCCCCCC
Confidence 7777785 357789999999999999998764
No 32
>PF11841 DUF3361: Domain of unknown function (DUF3361)
Probab=66.62 E-value=26 Score=30.77 Aligned_cols=109 Identities=18% Similarity=0.229 Sum_probs=69.5
Q ss_pred HHHHHHHhcCC-CCCCcCHHHHH-HHHHHHhcC----CCCHHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhcCchh
Q psy3857 16 VGSKIEMATDP-TLASENWALNM-EICDIINET----EDGPKDAIKAIRKRLQQYAGKDYTVIMYTLTVLETCVKNCNRR 89 (349)
Q Consensus 16 ~~~~I~~AT~~-~~~~~dw~~~l-~icD~In~~----~~~~~eA~ral~krl~~~~~~n~~~~l~AL~LLd~~vkNcG~~ 89 (349)
+.++|+..|.. ...++-.+..+ .++++.... +.-...-++-|...++.+ ..++++...||..||.+|.|. +.
T Consensus 16 L~~~iE~g~~~~~~~~~~La~~L~af~eLMeHg~vsWd~l~~~FI~Kia~~Vn~~-~~d~~i~q~sLaILEs~Vl~S-~~ 93 (160)
T PF11841_consen 16 LIKMIEEGTEIQPCKGEILAYALTAFVELMEHGIVSWDTLSDSFIKKIASYVNSS-AMDASILQRSLAILESIVLNS-PK 93 (160)
T ss_pred HHHHHHcCCccCcchHHHHHHHHHHHHHHHhcCcCchhhccHHHHHHHHHHHccc-cccchHHHHHHHHHHHHHhCC-HH
Confidence 55566666641 11122222222 344554432 223344566777777743 247999999999999999986 45
Q ss_pred HHHHhhcHHHHHHHHHHhCCCCCCChhHHHHHHHHHHHHH
Q psy3857 90 FHILVCSKDFIQELYKLIGPKNEPPIIVQDKVLSLIQSWA 129 (349)
Q Consensus 90 Fh~~i~~k~Fl~eL~kl~~~k~~~~~~Vk~kil~li~~W~ 129 (349)
.+..|..+==+..|++.+.. ++..++...+.+|-+.-
T Consensus 94 ly~~V~~evt~~~Li~hLq~---~~~~iq~naiaLinAL~ 130 (160)
T PF11841_consen 94 LYQLVEQEVTLESLIRHLQV---SNQEIQTNAIALINALF 130 (160)
T ss_pred HHHHHhccCCHHHHHHHHHc---CCHHHHHHHHHHHHHHH
Confidence 55568776667778888853 56789999999987763
No 33
>PF12717 Cnd1: non-SMC mitotic condensation complex subunit 1
Probab=66.18 E-value=91 Score=27.26 Aligned_cols=87 Identities=13% Similarity=0.049 Sum_probs=68.8
Q ss_pred HHHHHHHHHhcCCCCHHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhcCchhHHHHhhcHHHHHHHHHHhCCCCCCC
Q psy3857 35 LNMEICDIINETEDGPKDAIKAIRKRLQQYAGKDYTVIMYTLTVLETCVKNCNRRFHILVCSKDFIQELYKLIGPKNEPP 114 (349)
Q Consensus 35 ~~l~icD~In~~~~~~~eA~ral~krl~~~~~~n~~~~l~AL~LLd~~vkNcG~~Fh~~i~~k~Fl~eL~kl~~~k~~~~ 114 (349)
.+.-+||+.-.-+.-..--+..|.+.|+ . ++|.+-..||.+|--|+.+.--++..+ ++-.+.+++. ++.
T Consensus 8 ~i~~l~DL~~r~~~~ve~~~~~l~~~L~-D--~~~~VR~~al~~Ls~Li~~d~ik~k~~-----l~~~~l~~l~---D~~ 76 (178)
T PF12717_consen 8 AIIALGDLCIRYPNLVEPYLPNLYKCLR-D--EDPLVRKTALLVLSHLILEDMIKVKGQ-----LFSRILKLLV---DEN 76 (178)
T ss_pred HHHHHHHHHHhCcHHHHhHHHHHHHHHC-C--CCHHHHHHHHHHHHHHHHcCceeehhh-----hhHHHHHHHc---CCC
Confidence 5667899988877766778889999999 5 999999999999999999976666643 3455555663 356
Q ss_pred hhHHHHHHHHHHHHHHHh
Q psy3857 115 IIVQDKVLSLIQSWADAF 132 (349)
Q Consensus 115 ~~Vk~kil~li~~W~~~f 132 (349)
+.|+......+.++...-
T Consensus 77 ~~Ir~~A~~~~~e~~~~~ 94 (178)
T PF12717_consen 77 PEIRSLARSFFSELLKKR 94 (178)
T ss_pred HHHHHHHHHHHHHHHHhc
Confidence 789999999998887763
No 34
>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=62.44 E-value=31 Score=26.80 Aligned_cols=69 Identities=14% Similarity=0.164 Sum_probs=52.4
Q ss_pred HHHHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhcCchhHHHHhhcHHHHHHHHHHhCCCCCCChhHHHHHHHHHHH
Q psy3857 52 DAIKAIRKRLQQYAGKDYTVIMYTLTVLETCVKNCNRRFHILVCSKDFIQELYKLIGPKNEPPIIVQDKVLSLIQS 127 (349)
Q Consensus 52 eA~ral~krl~~~~~~n~~~~l~AL~LLd~~vkNcG~~Fh~~i~~k~Fl~eL~kl~~~k~~~~~~Vk~kil~li~~ 127 (349)
.++..|.+-|. + .++.++..|+..|-.+..+++. -...+....++..|++++... +..|++.++.++..
T Consensus 49 ~~i~~l~~~l~-~--~~~~v~~~a~~~L~~l~~~~~~-~~~~~~~~g~l~~l~~~l~~~---~~~~~~~a~~~l~~ 117 (120)
T cd00020 49 GGLPALVQLLK-S--EDEEVVKAALWALRNLAAGPED-NKLIVLEAGGVPKLVNLLDSS---NEDIQKNATGALSN 117 (120)
T ss_pred CChHHHHHHHh-C--CCHHHHHHHHHHHHHHccCcHH-HHHHHHHCCChHHHHHHHhcC---CHHHHHHHHHHHHH
Confidence 56778888888 5 8999999999999999998753 333344456899999998643 46788887777654
No 35
>KOG1293|consensus
Probab=62.23 E-value=45 Score=35.54 Aligned_cols=105 Identities=19% Similarity=0.308 Sum_probs=78.7
Q ss_pred HHHHHHhcCCCCHHH------HHHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhcCchhHHHHhhcHHHHHHHHHHhCCCC
Q psy3857 38 EICDIINETEDGPKD------AIKAIRKRLQQYAGKDYTVIMYTLTVLETCVKNCNRRFHILVCSKDFIQELYKLIGPKN 111 (349)
Q Consensus 38 ~icD~In~~~~~~~e------A~ral~krl~~~~~~n~~~~l~AL~LLd~~vkNcG~~Fh~~i~~k~Fl~eL~kl~~~k~ 111 (349)
.||.+|-. -..+|. -+..|-+.+. . ..+++--.++-+|.-+|-||...|..+.-++=|.+-|.-+++
T Consensus 442 ai~NlVme-fs~~kskfl~~ngId~l~s~~~-~--~~~n~r~~~~~~Lr~l~f~~de~~k~~~~~ki~a~~i~~l~n--- 514 (678)
T KOG1293|consen 442 AICNLVME-FSNLKSKFLRNNGIDILESMLT-D--PDFNSRANSLWVLRHLMFNCDEEEKFQLLAKIPANLILDLIN--- 514 (678)
T ss_pred HHHHHHhh-cccHHHHHHHcCcHHHHHHHhc-C--CCchHHHHHHHHHHHHHhcchHHHHHHHHHHhhHHHHHHHHh---
Confidence 46777654 223332 3566777777 4 889999999999999999999999999998888888888886
Q ss_pred CCChhHHHHHHHHHHHHHHHhcCCCCchhHHHHHHHHHhc
Q psy3857 112 EPPIIVQDKVLSLIQSWADAFKDIPNLEGVNQIYQELRSK 151 (349)
Q Consensus 112 ~~~~~Vk~kil~li~~W~~~f~~~~~l~~i~~~y~~Lk~~ 151 (349)
++...|++.++.+++...-.-+ .....+.+.|.+...+
T Consensus 515 d~d~~Vqeq~fqllRNl~c~~~--~svdfll~~~~~~ld~ 552 (678)
T KOG1293|consen 515 DPDWAVQEQCFQLLRNLTCNSR--KSVDFLLEKFKDVLDK 552 (678)
T ss_pred CCCHHHHHHHHHHHHHhhcCcH--HHHHHHHHhhhHHHHH
Confidence 3567899999999999875432 2344577777666544
No 36
>PF04818 CTD_bind: RNA polymerase II-binding domain.; InterPro: IPR006903 This entry represents a conserved region found in a number of uncharacterised eukaryotic proteins.; PDB: 2L0I_A 2KM4_A 3D9I_B 3D9N_B 3D9O_A 3D9P_B 3D9K_A 3D9M_A 3D9J_A 3D9L_A ....
Probab=55.16 E-value=44 Score=24.06 Aligned_cols=52 Identities=17% Similarity=0.296 Sum_probs=32.0
Q ss_pred HHHHHHHHHhcCchh----HHHHhhcHHHHHHHHHHhCCCCCCChhHHHHHHHHHHHHHH
Q psy3857 75 TLTVLETCVKNCNRR----FHILVCSKDFIQELYKLIGPKNEPPIIVQDKVLSLIQSWAD 130 (349)
Q Consensus 75 AL~LLd~~vkNcG~~----Fh~~i~~k~Fl~eL~kl~~~k~~~~~~Vk~kil~li~~W~~ 130 (349)
-|=|++..++||..+ |-..+. .++..+..-+.. ..+.++++++..++..|.+
T Consensus 4 ~lYl~ndI~q~sk~k~~~~f~~~F~--~~l~~~~~~~~~--~~~~~~~~kv~rll~iW~~ 59 (64)
T PF04818_consen 4 LLYLANDILQNSKRKNPDEFAPAFS--PVLPDAFAHAYK--NVDPEVRKKVQRLLNIWEE 59 (64)
T ss_dssp HHHHHHHHHHHHHHHTTHCHHHHHH--CCHHHHHHHHCC--CS-HHHHHHHHHHHHHHHH
T ss_pred eeehHHHHHHHhhhcChHHHHHHHH--HHHHHHHHHHHh--cCCHHHHHHHHHHHHHhhC
Confidence 456888888888543 332221 233333333321 2368999999999999976
No 37
>PF13646 HEAT_2: HEAT repeats; PDB: 1OYZ_A 3FGA_A 2PF4_C 2IAE_A 3B2A_A.
Probab=55.11 E-value=74 Score=23.54 Aligned_cols=57 Identities=18% Similarity=0.109 Sum_probs=42.0
Q ss_pred HHHHHHhhhcCCCCHHHHHHHHHHHHHHHhcCchhHHHHhhcHHHHHHHHHHhCCCCCCChhHHHHHHHHHHHH
Q psy3857 55 KAIRKRLQQYAGKDYTVIMYTLTVLETCVKNCNRRFHILVCSKDFIQELYKLIGPKNEPPIIVQDKVLSLIQSW 128 (349)
Q Consensus 55 ral~krl~~~~~~n~~~~l~AL~LLd~~vkNcG~~Fh~~i~~k~Fl~eL~kl~~~k~~~~~~Vk~kil~li~~W 128 (349)
..|.+.|..+ +++.+...|+.+|. ++.+.+.+..|+.+++. +...||..+...+..-
T Consensus 2 ~~L~~~l~~~--~~~~vr~~a~~~L~------------~~~~~~~~~~L~~~l~d---~~~~vr~~a~~aL~~i 58 (88)
T PF13646_consen 2 PALLQLLQND--PDPQVRAEAARALG------------ELGDPEAIPALIELLKD---EDPMVRRAAARALGRI 58 (88)
T ss_dssp HHHHHHHHTS--SSHHHHHHHHHHHH------------CCTHHHHHHHHHHHHTS---SSHHHHHHHHHHHHCC
T ss_pred HHHHHHHhcC--CCHHHHHHHHHHHH------------HcCCHhHHHHHHHHHcC---CCHHHHHHHHHHHHHh
Confidence 4677788424 89999999888887 34456888999999943 4568888887777643
No 38
>smart00229 RasGEFN Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal motif. A subset of guanine nucleotide exchange factor for Ras-like small GTPases appear to possess this domain N-terminal to the RasGef (Cdc25-like) domain. The recent crystal structureof Sos shows that this domain is alpha-helical and plays a "purely structural role" (Nature 394, 337-343).
Probab=54.51 E-value=1.2e+02 Score=24.69 Aligned_cols=105 Identities=13% Similarity=-0.003 Sum_probs=65.6
Q ss_pred cHHHHHHHhcCCCCCCcCHHHHHHHHHHHhcCCCCHHHHHHHHHHHhhhcCCCCH-----------HHHHHHHHHHHHHH
Q psy3857 15 PVGSKIEMATDPTLASENWALNMEICDIINETEDGPKDAIKAIRKRLQQYAGKDY-----------TVIMYTLTVLETCV 83 (349)
Q Consensus 15 ~~~~~I~~AT~~~~~~~dw~~~l~icD~In~~~~~~~eA~ral~krl~~~~~~n~-----------~~~l~AL~LLd~~v 83 (349)
.+..+|+..|+.... .|-..+-.+.=.-+ .-..|.+-+..|..|.. . ..+ ..+.+.+.++-.-|
T Consensus 9 tl~~Li~~L~~~~~~-~d~~f~~~Flltyr-~F~tp~~ll~~L~~rf~-~--~~~~~~~~~~~~~~~~~~rv~~~l~~Wv 83 (127)
T smart00229 9 TLEKLIEHLTEAFDK-ADPFFVETFLLTYR-SFITTQELLQLLLYRYN-A--IPPESWVERKVNPLRVKNRVLNILRHWV 83 (127)
T ss_pred cHHHHHHHHcCCCcC-CCHHHHHHHHHHhh-hhCCHHHHHHHHHHHhC-C--CCcHHHHHHHhhHHHHHHHHHHHHHHHH
Confidence 489999999998652 33322222211111 13578888888888887 3 222 26677888999999
Q ss_pred hcCchhHHHHhhcHHHHHHHHHHhCCCCCCChhHHHHHHHHHH
Q psy3857 84 KNCNRRFHILVCSKDFIQELYKLIGPKNEPPIIVQDKVLSLIQ 126 (349)
Q Consensus 84 kNcG~~Fh~~i~~k~Fl~eL~kl~~~k~~~~~~Vk~kil~li~ 126 (349)
.|+...|..+-.-..++.+++..+... .-.....++.+++.
T Consensus 84 ~~~~~dF~~~~~l~~~l~~f~~~~~~~--~~~~~~~~l~~~~~ 124 (127)
T smart00229 84 ENYWQDFEDDPKLILRLLEFLDLVDQE--KGPGLVTSLQELLQ 124 (127)
T ss_pred HHCCcccccCHHHHHHHHHHHHHHhhC--cCCCHHHHHHHHHH
Confidence 999988988765566777766665322 11234455555443
No 39
>PRK04778 septation ring formation regulator EzrA; Provisional
Probab=52.32 E-value=3.1e+02 Score=28.90 Aligned_cols=103 Identities=19% Similarity=0.294 Sum_probs=58.1
Q ss_pred HHHHHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhcCchhHHHHh---hcHHHHHH--HHHHhCCCCCCChhHHHHHHHHH
Q psy3857 51 KDAIKAIRKRLQQYAGKDYTVIMYTLTVLETCVKNCNRRFHILV---CSKDFIQE--LYKLIGPKNEPPIIVQDKVLSLI 125 (349)
Q Consensus 51 ~eA~ral~krl~~~~~~n~~~~l~AL~LLd~~vkNcG~~Fh~~i---~~k~Fl~e--L~kl~~~k~~~~~~Vk~kil~li 125 (349)
++--+.++|.|. .+.+.---|+.-||..+.+-...|-.-. .+-+|+.. +..-+......=....++|=.++
T Consensus 146 ~~~y~~~rk~ll----~~~~~~G~a~~~le~~l~~~e~~f~~f~~l~~~Gd~~~A~e~l~~l~~~~~~l~~~~~~iP~l~ 221 (569)
T PRK04778 146 KDLYRELRKSLL----ANRFSFGPALDELEKQLENLEEEFSQFVELTESGDYVEAREILDQLEEELAALEQIMEEIPELL 221 (569)
T ss_pred HHHHHHHHHHHH----hcCccccchHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333445555554 2333444567778888777766665421 11123322 11111110000022345555667
Q ss_pred HHHHHHhcCCCCchhHHHHHHHHHhcCCCCCCCc
Q psy3857 126 QSWADAFKDIPNLEGVNQIYQELRSKGIEFPMTD 159 (349)
Q Consensus 126 ~~W~~~f~~~~~l~~i~~~y~~Lk~~G~~fP~~~ 159 (349)
..-...|+ .++.-+.+.|+.|+.+||.|+..+
T Consensus 222 ~~~~~~~P--~ql~el~~gy~~m~~~gy~~~~~~ 253 (569)
T PRK04778 222 KELQTELP--DQLQELKAGYRELVEEGYHLDHLD 253 (569)
T ss_pred HHHHHHhh--HHHHHHHHHHHHHHHcCCCCCCCC
Confidence 77777774 357789999999999999998764
No 40
>KOG0151|consensus
Probab=51.47 E-value=2.1e+02 Score=31.10 Aligned_cols=113 Identities=14% Similarity=0.162 Sum_probs=60.3
Q ss_pred cHHHHHHHhcCCCCCCcCHHHHHHHHHHHhcCCCCHHHHHHHHHHHhhhcCCCCH--HHHHHHHHHHHHHHhcCchhHHH
Q psy3857 15 PVGSKIEMATDPTLASENWALNMEICDIINETEDGPKDAIKAIRKRLQQYAGKDY--TVIMYTLTVLETCVKNCNRRFHI 92 (349)
Q Consensus 15 ~~~~~I~~AT~~~~~~~dw~~~l~icD~In~~~~~~~eA~ral~krl~~~~~~n~--~~~l~AL~LLd~~vkNcG~~Fh~ 92 (349)
.|+.+|.-.|-+.. ..+-.|-+| |+ ..+++-|.+.+|.+-|. . .++ ..-+.=|.|+--..-||..+...
T Consensus 435 klE~liR~LTpEk~---sIg~aM~Fa--le-nA~aa~EI~eci~eSlt-~--~~t~~~kKiarLyLvsDIL~N~sarv~n 505 (877)
T KOG0151|consen 435 KLEDLIRGLTPEKS---SIGDAMVFA--LE-NADAAGEIVECITESLT-N--KETPLPKKIARLYLVSDILHNSSARVAN 505 (877)
T ss_pred HHHHHHHhcCcccc---hHHHHHHHH--Hh-hhhhHHHHHHHHHHHHh-c--cCCcchhHHHHHHHHHHHHhhhhhhhhH
Confidence 35555655555543 333334444 21 13466777777777776 3 222 12223355666677788766433
Q ss_pred HhhcH-HHHHHHHHHhC---------CCCCCChhHHHHHHHHHHHHHHHhcCCC
Q psy3857 93 LVCSK-DFIQELYKLIG---------PKNEPPIIVQDKVLSLIQSWADAFKDIP 136 (349)
Q Consensus 93 ~i~~k-~Fl~eL~kl~~---------~k~~~~~~Vk~kil~li~~W~~~f~~~~ 136 (349)
...=+ .|=..|-+++. +.+-.....|+|++..|+.|.++|-...
T Consensus 506 as~YR~~FEa~L~~Ifd~l~~~yr~I~gRIkaE~fkqRV~kVirvWedW~ifpe 559 (877)
T KOG0151|consen 506 ASAYRKSFEATLEDIFDDLNDLYRSIGGRIKAEAFKQRVMKVIRVWEDWAIFPE 559 (877)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhccchhhHHHHHHHHHHHHHHHHHHHhCcH
Confidence 22111 22222333332 1112345689999999999999986543
No 41
>PF06812 ImpA-rel_N: ImpA-related N-terminal; InterPro: IPR010657 This entry represents a conserved region located towards the N-terminal end of ImpA and related proteins. ImpA is an inner membrane protein, which has been suggested to be involved with proteins that are exported and associated with colony variations in Actinobacillus actinomycetemcomitans []. Note that many members are hypothetical proteins.
Probab=50.28 E-value=83 Score=22.66 Aligned_cols=58 Identities=16% Similarity=0.162 Sum_probs=46.8
Q ss_pred CHHHHHHHHHHHh-cCCCCHHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhcCchhHHH
Q psy3857 32 NWALNMEICDIIN-ETEDGPKDAIKAIRKRLQQYAGKDYTVIMYTLTVLETCVKNCNRRFHI 92 (349)
Q Consensus 32 dw~~~l~icD~In-~~~~~~~eA~ral~krl~~~~~~n~~~~l~AL~LLd~~vkNcG~~Fh~ 92 (349)
||..+.+.|..+= ++.-.-+-|+-.+.-.++ . .-..--..++.+|..|+.+.....|.
T Consensus 1 DW~~v~~~~~~lL~~~sKDlrv~~~l~~a~~~-~--~g~~gl~~gl~ll~~ll~~~W~~l~P 59 (62)
T PF06812_consen 1 DWDKVEELALELLSEQSKDLRVAVWLTEALLR-L--EGLAGLAEGLELLADLLENYWDSLHP 59 (62)
T ss_pred CHHHHHHHHHHHHHHcCchHHHHHHHHHHHHH-c--cChhHHHHHHHHHHHHHHHCCcccCC
Confidence 7999999997766 555678888888888887 4 67777888999999999988877764
No 42
>PF00618 RasGEF_N: RasGEF N-terminal motif; InterPro: IPR000651 The crystal structure of the guanine nucleotide exchange factor (GEF) region of human Sos1 complexes with Ras has been solved []. The structure consists of two distinct alpha helical structural domains: the N-terminal domain which seems to have a purely structural role and the C-terminal domain which is sufficient for catalytic activity and contains all residues that interact with Ras. A main feature of the catalytic domain is the protrusion of a helical hairpin important for the nucleotide-exchange mechanism. The N-terminal domain is likely to be important for the stability and correct placement of the hairpin structure. This entry represents a domain found in several GEF for Ras-like small GTPases which lies N-terminal to the RasGef (Cdc25-like) domain. ; GO: 0005085 guanyl-nucleotide exchange factor activity, 0051056 regulation of small GTPase mediated signal transduction, 0005622 intracellular; PDB: 3CF6_E 2BYV_E 1NVW_S 1BKD_S 1XDV_A 2II0_A 1NVU_S 1NVX_S 1NVV_S 1XD4_B ....
Probab=49.55 E-value=62 Score=25.35 Aligned_cols=47 Identities=13% Similarity=0.344 Sum_probs=31.0
Q ss_pred hHHHHhhcHHHHHHHHHHhCC--CCCCC----------hhHHHHHHHHHHHHHHHhcCC
Q psy3857 89 RFHILVCSKDFIQELYKLIGP--KNEPP----------IIVQDKVLSLIQSWADAFKDI 135 (349)
Q Consensus 89 ~Fh~~i~~k~Fl~eL~kl~~~--k~~~~----------~~Vk~kil~li~~W~~~f~~~ 135 (349)
.|+.-+...++++.|+.++.. ..... ..+|.||+.+|..|-+.+..+
T Consensus 32 Tyr~F~tp~~Ll~~L~~ry~~~~~~~~~~~~~~~~~~~~~i~~rv~~~l~~Wi~~~~~d 90 (104)
T PF00618_consen 32 TYRSFTTPEELLDKLIQRYNIPPPNGLSQDESWDQDSQEPIRLRVLNVLKYWIENYPDD 90 (104)
T ss_dssp HHHHCS-HHHHHHHHHHHHT---SSS-HHHHT-HHHHHHHHHHHHHHHHHHHHHHHCCC
T ss_pred HhHhhCCHHHHHHHHHHHhcccCCccccccchhhhhhhHHHHHHHHHHHHHHHHHChHh
Confidence 455555667788888887731 11111 138889999999999998753
No 43
>PRK01005 V-type ATP synthase subunit E; Provisional
Probab=49.07 E-value=94 Score=28.39 Aligned_cols=87 Identities=14% Similarity=0.101 Sum_probs=59.4
Q ss_pred HHHHHHHHHHHHHHhcCchhHHHHhhcHHHHHHHHHHhCCCCCCChhHHHHHHHHHHHHHHHh---------cCCCC---
Q psy3857 70 TVIMYTLTVLETCVKNCNRRFHILVCSKDFIQELYKLIGPKNEPPIIVQDKVLSLIQSWADAF---------KDIPN--- 137 (349)
Q Consensus 70 ~~~l~AL~LLd~~vkNcG~~Fh~~i~~k~Fl~eL~kl~~~k~~~~~~Vk~kil~li~~W~~~f---------~~~~~--- 137 (349)
.+.-++.+-++.-++++--....+|...-|-..+.+++..-...|..+++.|++++..|.... ...-+
T Consensus 64 ~ek~r~~s~a~l~~R~~~l~aKqevi~~vf~~a~~~lv~~~~~d~~~l~~lI~~~v~~~~~~~~~~~~~~~i~~~~~~~~ 143 (207)
T PRK01005 64 QKLKQGESALVQAGKRSLESLKQAVENKIFRESLGEWLEHVLTDPEVSAKLIQALVQAIEAQGISGNLTAYIGKHVSARA 143 (207)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHhhcccccccchhhhhcCCHHH
Confidence 344477788888888887788888888788888888885443345567889999999998751 11111
Q ss_pred ch-h-HHHHHHHHHhcCCCCC
Q psy3857 138 LE-G-VNQIYQELRSKGIEFP 156 (349)
Q Consensus 138 l~-~-i~~~y~~Lk~~G~~fP 156 (349)
+. + ....-+.|+++||.|-
T Consensus 144 ~~~~~~~~~~~~l~~~gv~~~ 164 (207)
T PRK01005 144 VNELLGKEVTKKLKEKGVSVG 164 (207)
T ss_pred HHHHHHHHHHHHHHHcCeEEe
Confidence 11 1 2233667788998874
No 44
>KOG2071|consensus
Probab=48.54 E-value=31 Score=36.27 Aligned_cols=82 Identities=12% Similarity=0.171 Sum_probs=59.7
Q ss_pred HhcCCCCHHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhcCchhHHHHhhcHHHHHHHHHHhCCCCCCChhHHHHHH
Q psy3857 43 INETEDGPKDAIKAIRKRLQQYAGKDYTVIMYTLTVLETCVKNCNRRFHILVCSKDFIQELYKLIGPKNEPPIIVQDKVL 122 (349)
Q Consensus 43 In~~~~~~~eA~ral~krl~~~~~~n~~~~l~AL~LLd~~vkNcG~~Fh~~i~~k~Fl~eL~kl~~~k~~~~~~Vk~kil 122 (349)
.+...-.++..|-+|-++|. . +-|...+.++-++|..+||-|.+....++ +.........+. ..+++.+.++.
T Consensus 31 a~En~~~a~~iv~~iE~hi~-k--cpp~~kL~~~y~~dsi~knvg~py~~~fs-~~l~a~f~~~~~---~vd~r~r~~l~ 103 (579)
T KOG2071|consen 31 AEENLPFAKSIVSAIEAHIA-K--CPPSQKLPVMYLLDSIVKNVGSPYTTAFS-RNLVATFICAFT---KVDERTRTSLF 103 (579)
T ss_pred hhhcccccHHHHHHHHHHHh-h--CCcccccchhhhhHHHHhhcCCcchhhhh-hhHHHHHHHHHh---hccccccchhH
Confidence 33334578888999999999 4 89999999999999999999998655333 233333333331 13456788899
Q ss_pred HHHHHHHHH
Q psy3857 123 SLIQSWADA 131 (349)
Q Consensus 123 ~li~~W~~~ 131 (349)
.++..|...
T Consensus 104 ~~~~tw~~~ 112 (579)
T KOG2071|consen 104 KLRATWDLD 112 (579)
T ss_pred hhHHhhccC
Confidence 999999933
No 45
>PF13646 HEAT_2: HEAT repeats; PDB: 1OYZ_A 3FGA_A 2PF4_C 2IAE_A 3B2A_A.
Probab=47.32 E-value=1.1e+02 Score=22.49 Aligned_cols=86 Identities=17% Similarity=0.192 Sum_probs=61.0
Q ss_pred HHHHHHhcCCCCCCcCHHHHHHHHHHHhcCCCCHHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhcCchhHHHHhhc
Q psy3857 17 GSKIEMATDPTLASENWALNMEICDIINETEDGPKDAIKAIRKRLQQYAGKDYTVIMYTLTVLETCVKNCNRRFHILVCS 96 (349)
Q Consensus 17 ~~~I~~AT~~~~~~~dw~~~l~icD~In~~~~~~~eA~ral~krl~~~~~~n~~~~l~AL~LLd~~vkNcG~~Fh~~i~~ 96 (349)
..+++.... ++||..-...+..+.. -+..+++..|.+.++ + .++.+...|+.-|..+ ++
T Consensus 2 ~~L~~~l~~----~~~~~vr~~a~~~L~~--~~~~~~~~~L~~~l~-d--~~~~vr~~a~~aL~~i------------~~ 60 (88)
T PF13646_consen 2 PALLQLLQN----DPDPQVRAEAARALGE--LGDPEAIPALIELLK-D--EDPMVRRAAARALGRI------------GD 60 (88)
T ss_dssp HHHHHHHHT----SSSHHHHHHHHHHHHC--CTHHHHHHHHHHHHT-S--SSHHHHHHHHHHHHCC------------HH
T ss_pred HHHHHHHhc----CCCHHHHHHHHHHHHH--cCCHhHHHHHHHHHc-C--CCHHHHHHHHHHHHHh------------CC
Confidence 344555533 3578777778888873 467799999999998 5 9999999999887643 46
Q ss_pred HHHHHHHHHHhCCCCCCChhHHHHHHHHH
Q psy3857 97 KDFIQELYKLIGPKNEPPIIVQDKVLSLI 125 (349)
Q Consensus 97 k~Fl~eL~kl~~~k~~~~~~Vk~kil~li 125 (349)
.+.+..|.+++... ....|+..+...|
T Consensus 61 ~~~~~~L~~~l~~~--~~~~vr~~a~~aL 87 (88)
T PF13646_consen 61 PEAIPALIKLLQDD--DDEVVREAAAEAL 87 (88)
T ss_dssp HHTHHHHHHHHTC---SSHHHHHHHHHHH
T ss_pred HHHHHHHHHHHcCC--CcHHHHHHHHhhc
Confidence 77888888888532 3456777665543
No 46
>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=46.67 E-value=1e+02 Score=23.70 Aligned_cols=72 Identities=17% Similarity=0.051 Sum_probs=54.0
Q ss_pred HHHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhcCchhHHHHhhcHHHHHHHHHHhCCCCCCChhHHHHHHHHHHHHHHH
Q psy3857 53 AIKAIRKRLQQYAGKDYTVIMYTLTVLETCVKNCNRRFHILVCSKDFIQELYKLIGPKNEPPIIVQDKVLSLIQSWADA 131 (349)
Q Consensus 53 A~ral~krl~~~~~~n~~~~l~AL~LLd~~vkNcG~~Fh~~i~~k~Fl~eL~kl~~~k~~~~~~Vk~kil~li~~W~~~ 131 (349)
.+..|.+.++ + .++.+...|+..|..+..+.. .-...+.+.+++..|.+++.. ....|+...+..+..+...
T Consensus 8 ~i~~l~~~l~-~--~~~~~~~~a~~~l~~l~~~~~-~~~~~~~~~~~i~~l~~~l~~---~~~~v~~~a~~~L~~l~~~ 79 (120)
T cd00020 8 GLPALVSLLS-S--SDENVQREAAWALSNLSAGNN-DNIQAVVEAGGLPALVQLLKS---EDEEVVKAALWALRNLAAG 79 (120)
T ss_pred ChHHHHHHHH-c--CCHHHHHHHHHHHHHHhcCCH-HHHHHHHHCCChHHHHHHHhC---CCHHHHHHHHHHHHHHccC
Confidence 5667778887 5 789999999999999888742 223334445888899999864 3568999988888888654
No 47
>PF07197 DUF1409: Protein of unknown function (DUF1409); InterPro: IPR010811 This represents a short conserved region (approximately 50 residues long), sometimes repeated, within a number of hypothetical Oryza sativa proteins of unknown function.
Probab=44.90 E-value=27 Score=24.74 Aligned_cols=29 Identities=28% Similarity=0.375 Sum_probs=20.4
Q ss_pred HHHHHHhcCch---hHHHHhhcHHHHHHHHHHhC
Q psy3857 78 VLETCVKNCNR---RFHILVCSKDFIQELYKLIG 108 (349)
Q Consensus 78 LLd~~vkNcG~---~Fh~~i~~k~Fl~eL~kl~~ 108 (349)
=||.+|-|||. +||. +....-+++.+++.
T Consensus 6 sld~lv~~cg~IrarleE--~qa~i~~e~~~l~~ 37 (51)
T PF07197_consen 6 SLDLLVVDCGSIRARLEE--IQAQIPDELAKLAT 37 (51)
T ss_pred hHHHHHhccchHHHHHHH--HHHHhhHHHHHhcC
Confidence 47999999995 3442 34566677888875
No 48
>PF07106 TBPIP: Tat binding protein 1(TBP-1)-interacting protein (TBPIP); InterPro: IPR010776 This family consists of several eukaryotic TBP-1 interacting protein (TBPIP) sequences. TBP-1 has been demonstrated to interact with the human immunodeficiency virus type 1 (HIV-1) viral protein Tat, then modulate the essential replication process of HIV. In addition, TBP-1 has been shown to be a component of the 26S proteasome, a basic multiprotein complex that degrades ubiquitinated proteins in an ATP-dependent fashion. Human TBPIP interacts with human TBP-1 then modulates the inhibitory action of human TBP-1 on HIV-Tat-mediated transactivation [].
Probab=42.88 E-value=2.2e+02 Score=24.62 Aligned_cols=59 Identities=19% Similarity=0.296 Sum_probs=44.4
Q ss_pred HHHhHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHHHHHHHHHHHhh
Q psy3857 202 QVTKLHKDLEVVQANMAVFNEMLNTLIPGQEHSSDIELITELHATCKAMQERIVQLISK 260 (349)
Q Consensus 202 ~~~kl~~el~~v~~n~~lL~emL~~~~p~~~~~~d~e~i~eL~~~ck~~q~~i~~li~~ 260 (349)
++..+..++..++..++-|..=|..+...-...+=.+.+.+|-..|+.++.++..+-+.
T Consensus 80 ei~~L~~el~~l~~~~k~l~~eL~~L~~~~t~~el~~~i~~l~~e~~~l~~kL~~l~~~ 138 (169)
T PF07106_consen 80 EIKELREELAELKKEVKSLEAELASLSSEPTNEELREEIEELEEEIEELEEKLEKLRSG 138 (169)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 47888899999999999888888877532211112245778999999999999988875
No 49
>KOG1077|consensus
Probab=41.91 E-value=1.6e+02 Score=32.01 Aligned_cols=94 Identities=21% Similarity=0.319 Sum_probs=63.7
Q ss_pred HHHHhcCCCCCCcCHHHHHHHHHHHhcCCCCHHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhcCchhHHHHhhcHH
Q psy3857 19 KIEMATDPTLASENWALNMEICDIINETEDGPKDAIKAIRKRLQQYAGKDYTVIMYTLTVLETCVKNCNRRFHILVCSKD 98 (349)
Q Consensus 19 ~I~~AT~~~~~~~dw~~~l~icD~In~~~~~~~eA~ral~krl~~~~~~n~~~~l~AL~LLd~~vkNcG~~Fh~~i~~k~ 98 (349)
.|+=..+....|--.+ -+-|.=++|.+.+--+.++..|++-|. + +||.-+.+||. ||-|-|.+=-. ..
T Consensus 79 aV~LLss~kysEKqIG-Yl~is~L~n~n~dl~klvin~iknDL~-s--rn~~fv~LAL~----~I~niG~re~~----ea 146 (938)
T KOG1077|consen 79 AVNLLSSNKYSEKQIG-YLFISLLLNENSDLMKLVINSIKNDLS-S--RNPTFVCLALH----CIANIGSREMA----EA 146 (938)
T ss_pred HHHHhhcCCccHHHHh-HHHHHHHHhcchHHHHHHHHHHHhhhh-c--CCcHHHHHHHH----HHHhhccHhHH----HH
Confidence 3444444444443333 344666888888899999999999999 6 99999999996 78887765322 35
Q ss_pred HHHHHHHHhCCCCCCChhHHHHH-HHHH
Q psy3857 99 FIQELYKLIGPKNEPPIIVQDKV-LSLI 125 (349)
Q Consensus 99 Fl~eL~kl~~~k~~~~~~Vk~ki-l~li 125 (349)
|-+++-|++-... ...-||++. |.++
T Consensus 147 ~~~DI~KlLvS~~-~~~~vkqkaALclL 173 (938)
T KOG1077|consen 147 FADDIPKLLVSGS-SMDYVKQKAALCLL 173 (938)
T ss_pred hhhhhHHHHhCCc-chHHHHHHHHHHHH
Confidence 7778888874332 334677765 4443
No 50
>PF02854 MIF4G: MIF4G domain; InterPro: IPR003890 This entry represents an MIF4G-like domain. MIF4G domains share a common structure but can differ in sequence. This entry is designated "type 3", and is found in nuclear cap-binding proteins, eIF4G, and UPF2. 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. Nonsense-mediated mRNA decay (NMD) in eukaryotes involves UPF1, UPF2 and UPF3 to accelerate the decay rate of two unique classes of transcripts: (1) nonsense mRNAs that arise through errors in gene expression, and (2) naturally occurring transcripts that lack coding errors but have built-in features that target them for accelerated decay (error-free mRNAs). NMD can trigger decay during any round of translation and can target CBC-bound or eIF-4E-bound transcripts []. UPF2 contains MIF4G domains, while UPF3 contains an RNP domain []. ; GO: 0005515 protein binding, 0016070 RNA metabolic process; PDB: 3FEY_A 3FEX_A 1H6K_C 1H2V_C 1H2U_A 1H2T_C 1N54_A 1N52_A 1HU3_A 3RK6_A ....
Probab=41.65 E-value=2e+02 Score=24.68 Aligned_cols=87 Identities=17% Similarity=0.115 Sum_probs=53.2
Q ss_pred HHHHHHHhcCCCCHHHHHHHHHHHhhhcCCCCH----HHHHHHHHHHHHHHhcCchhHHHHhhcHHHHHH----HHHHhC
Q psy3857 37 MEICDIINETEDGPKDAIKAIRKRLQQYAGKDY----TVIMYTLTVLETCVKNCNRRFHILVCSKDFIQE----LYKLIG 108 (349)
Q Consensus 37 l~icD~In~~~~~~~eA~ral~krl~~~~~~n~----~~~l~AL~LLd~~vkNcG~~Fh~~i~~k~Fl~e----L~kl~~ 108 (349)
.=||++.+..--..+.....+..-+. . ... ......+.++=.++++||..+...=..+..+++ +...+.
T Consensus 108 ~fl~eL~~~~vv~~~~i~~~l~~ll~-~--~~~~~~~~~~~~~ie~~~~lL~~~G~~l~~~~~~~~~l~~~~~~~~~~~~ 184 (209)
T PF02854_consen 108 RFLAELFNFGVVSEKIIFDILRELLS-D--GTDECQPPPDEENIECLCTLLKTCGKKLENSEESPKALDEIFERLQKYAN 184 (209)
T ss_dssp HHHHHHHHTTSSCHHHHHHHHHHHHH-H--TSHHCCHHTCHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHH
T ss_pred hHHHhhHhhccccchhHHHHHHHHHh-c--ccccccCCCcHhHHHHHHHHHHHHHHHHhcCCCchhHHHHHHHHHHHHHH
Confidence 34788888877677777666666665 3 333 344566777777888899999822233444544 444443
Q ss_pred CC--CCCChhHHHHHHHHHH
Q psy3857 109 PK--NEPPIIVQDKVLSLIQ 126 (349)
Q Consensus 109 ~k--~~~~~~Vk~kil~li~ 126 (349)
.+ ...+.+++-.+.+++.
T Consensus 185 ~~~~~~~~~r~~~~l~~l~~ 204 (209)
T PF02854_consen 185 SKKDPNLSSRIRFMLEDLIE 204 (209)
T ss_dssp HCHSSSSSHHHHHHHHHHHH
T ss_pred hhcccCCCHHHHHHHHHHHH
Confidence 32 2346677776666654
No 51
>PRK09458 pspB phage shock protein B; Provisional
Probab=41.03 E-value=37 Score=25.97 Aligned_cols=26 Identities=23% Similarity=0.362 Sum_probs=21.3
Q ss_pred CCCCcHHHHHHHHHHHHHHHHHHHHH
Q psy3857 232 EHSSDIELITELHATCKAMQERIVQL 257 (349)
Q Consensus 232 ~~~~d~e~i~eL~~~ck~~q~~i~~l 257 (349)
.+.+|...+++|+++.++|+.||..+
T Consensus 36 Ls~~d~~~L~~L~~~A~rm~~RI~tL 61 (75)
T PRK09458 36 LSQEEQQRLAQLTEKAERMRERIQAL 61 (75)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34556778999999999999999654
No 52
>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=40.28 E-value=1.7e+02 Score=24.45 Aligned_cols=75 Identities=13% Similarity=0.093 Sum_probs=45.6
Q ss_pred CCHHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhcCchhHHHHhh-cHHHHHHHHHHhCCCCCCChhHHHHHHHHHH
Q psy3857 48 DGPKDAIKAIRKRLQQYAGKDYTVIMYTLTVLETCVKNCNRRFHILVC-SKDFIQELYKLIGPKNEPPIIVQDKVLSLIQ 126 (349)
Q Consensus 48 ~~~~eA~ral~krl~~~~~~n~~~~l~AL~LLd~~vkNcG~~Fh~~i~-~k~Fl~eL~kl~~~k~~~~~~Vk~kil~li~ 126 (349)
++--+.++.|.+-|..+ .++.+.--|..=+-.+|+... ..+.|. .-..-..+..++. +++++||...|..+|
T Consensus 39 ~~~~~llk~L~~lL~~s--~d~~~laVac~Dig~~vr~~p--~gr~ii~~lg~K~~vM~Lm~---h~d~eVr~eAL~avQ 111 (119)
T PF11698_consen 39 ENNFELLKKLIKLLDKS--DDPTTLAVACHDIGEFVRHYP--NGRNIIEKLGAKERVMELMN---HEDPEVRYEALLAVQ 111 (119)
T ss_dssp SGGGHHHHHHHHHH-SH--HHHHHHHHHHHHHHHHHHH-G--GGHHHHHHHSHHHHHHHHTS----SSHHHHHHHHHHHH
T ss_pred HcccHHHHHHHHHHccC--CCcceeehhhcchHHHHHHCh--hHHHHHHhcChHHHHHHHhc---CCCHHHHHHHHHHHH
Confidence 45557778888888534 566666666666777888752 222222 1122233556664 356899999999998
Q ss_pred HHH
Q psy3857 127 SWA 129 (349)
Q Consensus 127 ~W~ 129 (349)
.|-
T Consensus 112 klm 114 (119)
T PF11698_consen 112 KLM 114 (119)
T ss_dssp HHH
T ss_pred HHH
Confidence 773
No 53
>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=39.18 E-value=1.5e+02 Score=30.02 Aligned_cols=79 Identities=15% Similarity=0.140 Sum_probs=46.8
Q ss_pred HHHHHhcCCCCHHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhcCchhHHHHhhcHHHHHHHHHHhCCCCCCChhHH
Q psy3857 39 ICDIINETEDGPKDAIKAIRKRLQQYAGKDYTVIMYTLTVLETCVKNCNRRFHILVCSKDFIQELYKLIGPKNEPPIIVQ 118 (349)
Q Consensus 39 icD~In~~~~~~~eA~ral~krl~~~~~~n~~~~l~AL~LLd~~vkNcG~~Fh~~i~~k~Fl~eL~kl~~~k~~~~~~Vk 118 (349)
+.-+....++...-++..|+|-++ + +||.+..+||..|-.+. . .+++ ..+...+.+++.. +.+.||
T Consensus 66 l~~~~~~~~~~~~l~~n~l~kdl~-~--~n~~~~~lAL~~l~~i~---~----~~~~-~~l~~~v~~ll~~---~~~~VR 131 (526)
T PF01602_consen 66 LSLYLHEDPELLILIINSLQKDLN-S--PNPYIRGLALRTLSNIR---T----PEMA-EPLIPDVIKLLSD---PSPYVR 131 (526)
T ss_dssp HHHHTTTSHHHHHHHHHHHHHHHC-S--SSHHHHHHHHHHHHHH----S----HHHH-HHHHHHHHHHHHS---SSHHHH
T ss_pred HHHHhhcchhHHHHHHHHHHHhhc-C--CCHHHHHHHHhhhhhhc---c----cchh-hHHHHHHHHHhcC---CchHHH
Confidence 334444445567778899999998 5 89999988887665543 1 1111 2345555555542 234666
Q ss_pred HHHHHHHHHHHHH
Q psy3857 119 DKVLSLIQSWADA 131 (349)
Q Consensus 119 ~kil~li~~W~~~ 131 (349)
++++-.+..-...
T Consensus 132 k~A~~~l~~i~~~ 144 (526)
T PF01602_consen 132 KKAALALLKIYRK 144 (526)
T ss_dssp HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhcc
Confidence 6665555555444
No 54
>PF06667 PspB: Phage shock protein B; InterPro: IPR009554 This family consists of several bacterial phage shock protein B (PspB) sequences. The phage shock protein (psp) operon is induced in response to heat, ethanol, osmotic shock and infection by filamentous bacteriophages []. Expression of the operon requires the alternative sigma factor sigma54 and the transcriptional activator PspF. In addition, PspA plays a negative regulatory role, and the integral-membrane proteins PspB and PspC play a positive one [].; GO: 0006355 regulation of transcription, DNA-dependent, 0009271 phage shock
Probab=37.49 E-value=41 Score=25.73 Aligned_cols=26 Identities=31% Similarity=0.368 Sum_probs=21.5
Q ss_pred CCCCcHHHHHHHHHHHHHHHHHHHHH
Q psy3857 232 EHSSDIELITELHATCKAMQERIVQL 257 (349)
Q Consensus 232 ~~~~d~e~i~eL~~~ck~~q~~i~~l 257 (349)
.+.+|...+++|+.+.++|+.||..+
T Consensus 36 Ls~~d~~~L~~L~~~a~rm~eRI~tL 61 (75)
T PF06667_consen 36 LSEEDEQRLQELYEQAERMEERIETL 61 (75)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45567788999999999999999654
No 55
>COG4477 EzrA Negative regulator of septation ring formation [Cell division and chromosome partitioning]
Probab=37.41 E-value=1.7e+02 Score=30.63 Aligned_cols=121 Identities=12% Similarity=0.239 Sum_probs=73.7
Q ss_pred cCHHHHH-HHHHHHhcCCCC------HHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhcCchhHHHHhhc-------
Q psy3857 31 ENWALNM-EICDIINETEDG------PKDAIKAIRKRLQQYAGKDYTVIMYTLTVLETCVKNCNRRFHILVCS------- 96 (349)
Q Consensus 31 ~dw~~~l-~icD~In~~~~~------~~eA~ral~krl~~~~~~n~~~~l~AL~LLd~~vkNcG~~Fh~~i~~------- 96 (349)
.|...|+ +|.+++.+...+ +++--.-+++.+- .|.+.---|+..||.=+.|-...|..-+.-
T Consensus 118 ~~i~~il~~l~~Lv~sEekN~~~i~~~~ely~elr~~vl----~n~~~~Ge~~~~lEk~Le~i~~~l~qf~~lt~~Gd~i 193 (570)
T COG4477 118 EDIEQILEDLNELVESEEKNSEEIDHVLELYEELRRDVL----ANRHQYGEAAPELEKKLENIEEELSQFVELTSSGDYI 193 (570)
T ss_pred HHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHH----HhhhhhhhhhHHHHHHHHHHHHHHHHHHHhccCCChh
Confidence 4555554 366777665433 3344455666665 466666677888888888776666553311
Q ss_pred --HHHHHHHHHHhCCCCCCChhHHHHHHHHHHHHHHHhcCCCCchhHHHHHHHHHhcCCCCCCCccc
Q psy3857 97 --KDFIQELYKLIGPKNEPPIIVQDKVLSLIQSWADAFKDIPNLEGVNQIYQELRSKGIEFPMTDLD 161 (349)
Q Consensus 97 --k~Fl~eL~kl~~~k~~~~~~Vk~kil~li~~W~~~f~~~~~l~~i~~~y~~Lk~~G~~fP~~~~~ 161 (349)
.+.+.+.-+-+. -=....++|=.+|..-...++ ..+...+..|+.|+.+||.||....+
T Consensus 194 eA~evl~~~ee~~~----~L~~~~e~IP~L~~e~~~~lP--~ql~~Lk~Gyr~m~~~gY~l~~~~id 254 (570)
T COG4477 194 EAREVLEEAEEHMI----ALRSIMERIPSLLAELQTELP--GQLQDLKAGYRDMKEEGYHLEHVNID 254 (570)
T ss_pred HHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHhhch--HHHHHHHHHHHHHHHccCCcccccHH
Confidence 112211111110 002345677777777777775 35788999999999999999987644
No 56
>COG5209 RCD1 Uncharacterized protein involved in cell differentiation/sexual development [General function prediction only]
Probab=36.78 E-value=94 Score=29.22 Aligned_cols=71 Identities=14% Similarity=0.186 Sum_probs=46.0
Q ss_pred HHHHHHHHHHHhcCchhHHHHhhcHHHHHHHHHHhCCCCCCChhHHHHHHHHHHHHHHHhcCCCCchhHHHHHHHHH
Q psy3857 73 MYTLTVLETCVKNCNRRFHILVCSKDFIQELYKLIGPKNEPPIIVQDKVLSLIQSWADAFKDIPNLEGVNQIYQELR 149 (349)
Q Consensus 73 l~AL~LLd~~vkNcG~~Fh~~i~~k~Fl~eL~kl~~~k~~~~~~Vk~kil~li~~W~~~f~~~~~l~~i~~~y~~Lk 149 (349)
+-+|.++.++|||...-.|.++-+-+.+--+.|+.... .+.-+.+. |.-+..-+.+|..+.+|.++|+..-
T Consensus 164 ltsLGVIgaLvkNdsq~vi~fLltTeivPLcLrIme~g----SElSktva--ifI~qkil~dDvGLqYiCqT~eRFy 234 (315)
T COG5209 164 LTSLGVIGALVKNDSQYVIKFLLTTEIVPLCLRIMELG----SELSKTVA--IFIFQKILGDDVGLQYICQTFERFY 234 (315)
T ss_pred ehHHHHHHHHHhCCCHHHHHHHHhhhHHHHHHHHHHhh----hHHHHHHH--HHHHHHHhccchhHHHHHHHHHHHH
Confidence 35889999999999999998777766666666666422 12222221 2222333467777888888887654
No 57
>cd06224 REM Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal domain (RasGef_N), also called REM domain (Ras exchanger motif). This domain is common in nucleotide exchange factors for Ras-like small GTPases and is typically found immediately N-terminal to the RasGef (Cdc25-like) domain. REM contacts the GTPase and is assumed to participate in the catalytic activity of the exchange factor. Proteins with the REM domain include Sos1 and Sos2, which relay signals from tyrosine-kinase mediated signalling to Ras, RasGRP1-4, RasGRF1,2, CNrasGEF, and RAP-specific nucleotide exchange factors, to name a few.
Probab=36.28 E-value=1.9e+02 Score=22.92 Aligned_cols=47 Identities=9% Similarity=0.295 Sum_probs=31.2
Q ss_pred hHHHHhhcHHHHHHHHHHhCCCCC-----------CChhHHHHHHHHHHHHHHHhcCC
Q psy3857 89 RFHILVCSKDFIQELYKLIGPKNE-----------PPIIVQDKVLSLIQSWADAFKDI 135 (349)
Q Consensus 89 ~Fh~~i~~k~Fl~eL~kl~~~k~~-----------~~~~Vk~kil~li~~W~~~f~~~ 135 (349)
+|+.-+...++++.|+..+..... ....+|.+|+.+|..|-+.+..+
T Consensus 27 TyrsF~s~~~ll~~L~~rf~~~~~~~~~~~~~~~~~~~~~~~~v~~~l~~Wv~~~~~d 84 (122)
T cd06224 27 TYRSFTTPTELLEKLIERYEIAPPENLEYNDWDKKKSKPIRLRVLNVLRTWVENYPYD 84 (122)
T ss_pred HhhhhCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHhCCCc
Confidence 344444556677777777642210 02458999999999999998754
No 58
>KOG2035|consensus
Probab=35.39 E-value=1.7e+02 Score=28.54 Aligned_cols=69 Identities=17% Similarity=0.309 Sum_probs=46.5
Q ss_pred hcCCCCCCcCHH-HHHHHHHHHhcCCCCHH-HHHHH-HHHHhhhcCCCC-HHHHHHHHHHHHHHHhcCchhHHHHhhc
Q psy3857 23 ATDPTLASENWA-LNMEICDIINETEDGPK-DAIKA-IRKRLQQYAGKD-YTVIMYTLTVLETCVKNCNRRFHILVCS 96 (349)
Q Consensus 23 AT~~~~~~~dw~-~~l~icD~In~~~~~~~-eA~ra-l~krl~~~~~~n-~~~~l~AL~LLd~~vkNcG~~Fh~~i~~ 96 (349)
|++...+.+||. .+.++++.|-.+....+ ..+|. |-.-|. + +- |++++. .||+.|+.||....+.++..
T Consensus 241 a~~~~i~~~dWe~~i~e~a~~i~~eQs~~~L~~vR~~LYeLL~-~--CIPP~~Ilk--~Ll~~Ll~~~d~~~k~~~~~ 313 (351)
T KOG2035|consen 241 ANSQVIPKPDWEIYIQEIARVILKEQSPAKLLEVRGRLYELLS-H--CIPPNTILK--ELLEELLLKCDTQLKLEVIQ 313 (351)
T ss_pred ccCCCCCCccHHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHh-c--cCChHHHHH--HHHHHHHhcCCchhHHHHHH
Confidence 445567789997 57789998887654333 33443 555555 3 44 444443 68899999999998888764
No 59
>KOG2021|consensus
Probab=34.53 E-value=4e+02 Score=29.43 Aligned_cols=105 Identities=15% Similarity=0.208 Sum_probs=69.2
Q ss_pred HHHHHHHhcCCCCCCcCHHHHHHHHHHHhcCCCCHHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHHHHh---cCchhHHH
Q psy3857 16 VGSKIEMATDPTLASENWALNMEICDIINETEDGPKDAIKAIRKRLQQYAGKDYTVIMYTLTVLETCVK---NCNRRFHI 92 (349)
Q Consensus 16 ~~~~I~~AT~~~~~~~dw~~~l~icD~In~~~~~~~eA~ral~krl~~~~~~n~~~~l~AL~LLd~~vk---NcG~~Fh~ 92 (349)
+++.|.-+-++.-...--....+.|..|++++++-+.++.++..+- .++++...+|..|.-.|+ |-...-..
T Consensus 5 iEqav~a~ndp~vdsa~KqqA~~y~~qiKsSp~aw~Icie~l~~~t-----s~d~vkf~clqtL~e~vrekyne~nl~el 79 (980)
T KOG2021|consen 5 IEQAVNAVNDPRVDSATKQQAIEYLNQIKSSPNAWEICIELLINET-----SNDLVKFYCLQTLIELVREKYNEANLNEL 79 (980)
T ss_pred HHHHHHhhCCCcccHHHHHHHHHHHHhhcCCccHHHHHHHHHHhhc-----ccchhhhhhHHHHHHHHHHhhccCCHHHH
Confidence 4555555555533222224688999999999999999999887664 479999999999998887 32345666
Q ss_pred HhhcHHHHHHHHH-HhCCCC-CCChhHHHHHHHHH
Q psy3857 93 LVCSKDFIQELYK-LIGPKN-EPPIIVQDKVLSLI 125 (349)
Q Consensus 93 ~i~~k~Fl~eL~k-l~~~k~-~~~~~Vk~kil~li 125 (349)
+.-++....=+.- ++.++. ..|.-|+.|+.+++
T Consensus 80 qlvR~sv~swlk~qvl~ne~~~~p~fi~Nk~aqvl 114 (980)
T KOG2021|consen 80 QLVRFSVTSWLKFQVLGNEQTKLPDFIMNKIAQVL 114 (980)
T ss_pred HHHHHHHHHHHHHHHhCcccCCCChHHHHHHHHHH
Confidence 6665554444332 344442 23567887775544
No 60
>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=33.59 E-value=1.5e+02 Score=20.04 Aligned_cols=52 Identities=12% Similarity=0.086 Sum_probs=35.7
Q ss_pred HHHHHHHHHHHHHHHhcCchhHHHHhhcHHHHHHHHHHhCCCCCCChhHHHHHHHHH
Q psy3857 69 YTVIMYTLTVLETCVKNCNRRFHILVCSKDFIQELYKLIGPKNEPPIIVQDKVLSLI 125 (349)
Q Consensus 69 ~~~~l~AL~LLd~~vkNcG~~Fh~~i~~k~Fl~eL~kl~~~k~~~~~~Vk~kil~li 125 (349)
|.+...|+..|-.+..+|+..+...+ .+.+..|..++.. +...||......|
T Consensus 1 p~vR~~A~~aLg~l~~~~~~~~~~~~--~~~~~~L~~~L~d---~~~~VR~~A~~aL 52 (55)
T PF13513_consen 1 PRVRRAAAWALGRLAEGCPELLQPYL--PELLPALIPLLQD---DDDSVRAAAAWAL 52 (55)
T ss_dssp HHHHHHHHHHHHCTTTTTHHHHHHHH--HHHHHHHHHHTTS---SSHHHHHHHHHHH
T ss_pred CHHHHHHHHHHhhHhcccHHHHHHHH--HHHHHHHHHHHcC---CCHHHHHHHHHHH
Confidence 45566777777778888887776633 4677778888842 3458988776544
No 61
>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=33.26 E-value=2e+02 Score=29.06 Aligned_cols=102 Identities=20% Similarity=0.263 Sum_probs=64.7
Q ss_pred HHHHhcCCCCCCcCHHHHHHHHHHHhcCCCCHHH-HHHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhcCchhHHHHhhcH
Q psy3857 19 KIEMATDPTLASENWALNMEICDIINETEDGPKD-AIKAIRKRLQQYAGKDYTVIMYTLTVLETCVKNCNRRFHILVCSK 97 (349)
Q Consensus 19 ~I~~AT~~~~~~~dw~~~l~icD~In~~~~~~~e-A~ral~krl~~~~~~n~~~~l~AL~LLd~~vkNcG~~Fh~~i~~k 97 (349)
.|.+.-....+---...++.++...+..++.... .+..|.+.+. . +++.++..|+.++..| +.-...+. .+ -.
T Consensus 118 ~v~~ll~~~~~~VRk~A~~~l~~i~~~~p~~~~~~~~~~l~~lL~-d--~~~~V~~~a~~~l~~i-~~~~~~~~-~~-~~ 191 (526)
T PF01602_consen 118 DVIKLLSDPSPYVRKKAALALLKIYRKDPDLVEDELIPKLKQLLS-D--KDPSVVSAALSLLSEI-KCNDDSYK-SL-IP 191 (526)
T ss_dssp HHHHHHHSSSHHHHHHHHHHHHHHHHHCHCCHHGGHHHHHHHHTT-H--SSHHHHHHHHHHHHHH-HCTHHHHT-TH-HH
T ss_pred HHHHHhcCCchHHHHHHHHHHHHHhccCHHHHHHHHHHHHhhhcc-C--CcchhHHHHHHHHHHH-ccCcchhh-hh-HH
Confidence 3444444333333445688899999988887777 5999999998 5 8999999999999999 32222222 11 12
Q ss_pred HHHHHHHHHhCCCCCCChhHHHHHHHHHHHHH
Q psy3857 98 DFIQELYKLIGPKNEPPIIVQDKVLSLIQSWA 129 (349)
Q Consensus 98 ~Fl~eL~kl~~~k~~~~~~Vk~kil~li~~W~ 129 (349)
.+...|.+++. .+.+-++.+++.++..+.
T Consensus 192 ~~~~~L~~~l~---~~~~~~q~~il~~l~~~~ 220 (526)
T PF01602_consen 192 KLIRILCQLLS---DPDPWLQIKILRLLRRYA 220 (526)
T ss_dssp HHHHHHHHHHT---CCSHHHHHHHHHHHTTST
T ss_pred HHHHHhhhccc---ccchHHHHHHHHHHHhcc
Confidence 44455555542 234556666766666543
No 62
>PF12783 Sec7_N: Guanine nucleotide exchange factor in Golgi transport N-terminal
Probab=32.73 E-value=3.2e+02 Score=23.41 Aligned_cols=81 Identities=12% Similarity=0.297 Sum_probs=56.2
Q ss_pred HHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhcCchhHHHHhhcHHHHHHHHH-HhCCCCCCChhHHHHHHHHHHHHHHHh
Q psy3857 54 IKAIRKRLQQYAGKDYTVIMYTLTVLETCVKNCNRRFHILVCSKDFIQELYK-LIGPKNEPPIIVQDKVLSLIQSWADAF 132 (349)
Q Consensus 54 ~ral~krl~~~~~~n~~~~l~AL~LLd~~vkNcG~~Fh~~i~~k~Fl~eL~k-l~~~k~~~~~~Vk~kil~li~~W~~~f 132 (349)
..+|-+-+. + .++.+..+++.++-.++.+-+..+-.|+ .-|+..+.. ++.++. ++..-|..+++.+..+-.
T Consensus 75 ~~~Ll~~~~-~--~~~~i~~~slri~~~l~~~~~~~Lk~el--e~~l~~i~~~il~~~~-~~~~~k~~~Le~l~~l~~-- 146 (168)
T PF12783_consen 75 CPALLKNLS-S--SDFPIFSRSLRIFLTLLSRFRSHLKLEL--EVFLSHIILRILESDN-SSLWQKELALEILRELCK-- 146 (168)
T ss_pred HHHHHHHHh-h--hhhHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHccCC-CcHHHHHHHHHHHHHHHh--
Confidence 344555555 3 6699999999999999988666555555 579999777 666553 244567778888887754
Q ss_pred cCCCCchhHHHHHH
Q psy3857 133 KDIPNLEGVNQIYQ 146 (349)
Q Consensus 133 ~~~~~l~~i~~~y~ 146 (349)
+|. .+.++|.
T Consensus 147 --~p~--~l~~lf~ 156 (168)
T PF12783_consen 147 --DPQ--FLVDLFV 156 (168)
T ss_pred --Chh--HHHHHHH
Confidence 344 4777775
No 63
>smart00229 RasGEFN Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal motif. A subset of guanine nucleotide exchange factor for Ras-like small GTPases appear to possess this domain N-terminal to the RasGef (Cdc25-like) domain. The recent crystal structureof Sos shows that this domain is alpha-helical and plays a "purely structural role" (Nature 394, 337-343).
Probab=32.17 E-value=98 Score=25.12 Aligned_cols=47 Identities=15% Similarity=0.444 Sum_probs=30.8
Q ss_pred hHHHHhhcHHHHHHHHHHhCCCCC--------CChhHHHHHHHHHHHHHHHhcCC
Q psy3857 89 RFHILVCSKDFIQELYKLIGPKNE--------PPIIVQDKVLSLIQSWADAFKDI 135 (349)
Q Consensus 89 ~Fh~~i~~k~Fl~eL~kl~~~k~~--------~~~~Vk~kil~li~~W~~~f~~~ 135 (349)
.|+.-+...++++.|...+..... ....+|.+|+.+|..|-+.+..|
T Consensus 35 tyr~F~tp~~ll~~L~~rf~~~~~~~~~~~~~~~~~~~~rv~~~l~~Wv~~~~~d 89 (127)
T smart00229 35 TYRSFITTQELLQLLLYRYNAIPPESWVERKVNPLRVKNRVLNILRHWVENYWQD 89 (127)
T ss_pred HhhhhCCHHHHHHHHHHHhCCCCcHHHHHHHhhHHHHHHHHHHHHHHHHHHCCcc
Confidence 344444556777887777642100 11248899999999999998653
No 64
>COG1059 Thermostable 8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]
Probab=30.99 E-value=1.4e+02 Score=27.03 Aligned_cols=70 Identities=14% Similarity=0.210 Sum_probs=43.3
Q ss_pred CCcCHHHHHHHHHH-HhcCCCCHHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhcCchhHHHHhh-----cHHHHHH
Q psy3857 29 ASENWALNMEICDI-INETEDGPKDAIKAIRKRLQQYAGKDYTVIMYTLTVLETCVKNCNRRFHILVC-----SKDFIQE 102 (349)
Q Consensus 29 ~~~dw~~~l~icD~-In~~~~~~~eA~ral~krl~~~~~~n~~~~l~AL~LLd~~vkNcG~~Fh~~i~-----~k~Fl~e 102 (349)
..++|=.-+.+|=+ .|++..++-.|.+.|.+-+- + .+ ..=|.--.++||++|+..=+ .++++..
T Consensus 35 ~~e~lf~ELsFCILTANsSA~~~~~~q~~lG~gfl-y--~~-------~eEL~e~Lk~~g~Rf~n~raeyIVeaR~~~~~ 104 (210)
T COG1059 35 TKEDLFKELSFCILTANSSATMGLRAQNELGDGFL-Y--LS-------EEELREKLKEVGYRFYNVRAEYIVEAREKFDD 104 (210)
T ss_pred cHHHHHHHHHHHhccccchHHHHHHHHHHhccccc-c--CC-------HHHHHHHHHHhcchhcccchHHHHHHHHHHHH
Confidence 34567666666655 45555666666666776665 4 33 33455666889999997533 3455556
Q ss_pred HHHHhC
Q psy3857 103 LYKLIG 108 (349)
Q Consensus 103 L~kl~~ 108 (349)
+..+++
T Consensus 105 lk~~v~ 110 (210)
T COG1059 105 LKIIVK 110 (210)
T ss_pred HHHHHh
Confidence 666664
No 65
>smart00543 MIF4G Middle domain of eukaryotic initiation factor 4G (eIF4G). Also occurs in NMD2p and CBP80. The domain is rich in alpha-helices and may contain multiple alpha-helical repeats. In eIF4G, this domain binds eIF4A, eIF3, RNA and DNA. Ponting (TiBS) "Novel eIF4G domain homologues (in press)
Probab=30.18 E-value=2.9e+02 Score=23.64 Aligned_cols=67 Identities=10% Similarity=0.132 Sum_probs=43.0
Q ss_pred HHHHHHHhcCCCCHHHHHHHHHHHhhhcCCCCH---HHHHHHHHHHHHHHhcCchhHHHHhhcHHHHHHHHHHh
Q psy3857 37 MEICDIINETEDGPKDAIKAIRKRLQQYAGKDY---TVIMYTLTVLETCVKNCNRRFHILVCSKDFIQELYKLI 107 (349)
Q Consensus 37 l~icD~In~~~~~~~eA~ral~krl~~~~~~n~---~~~l~AL~LLd~~vkNcG~~Fh~~i~~k~Fl~eL~kl~ 107 (349)
.=||++.+..-.........|+.-+. . .++ ......+.++=.++..||+.+-.. ..+.+++++...+
T Consensus 101 ~fl~eL~~~~~i~~~~i~~~l~~ll~-~--~~~~~~~~~~~~ve~l~~lL~~~G~~l~~~-~~~~~~~~~l~~l 170 (200)
T smart00543 101 RFLGELYNFQVLTSKIILELLKELLN-D--LTKLDPPRSDFSVECLLSLLPTCGKDLERE-KSPKLLDEILERL 170 (200)
T ss_pred HHHHHHHHcccCcHHHHHHHHHHHHh-c--cCCCCCCCcHHHHHHHHHHHHHhhHHHcCc-ccHHHHHHHHHHH
Confidence 34688888877777777777777776 3 222 133467777778888899988742 3345555544433
No 66
>PF06012 DUF908: Domain of Unknown Function (DUF908); InterPro: IPR010309 This is a domain of unknown function found at the N terminus of a family of E3 ubiquitin protein ligases, including yeast TOM1, many of which appear to play a role in mRNA transcription and processing. This domain is found in association with and immediately N-terminal to another domain of unknown function: IPR010314 from INTERPRO.
Probab=29.77 E-value=3.9e+02 Score=25.95 Aligned_cols=95 Identities=18% Similarity=0.310 Sum_probs=59.2
Q ss_pred HHHHHHHHhcCCCCHHHHHHHHHHHhhhc---CCCCHHHHHHHHHHHHHHHhcC---chhHHHHhhcH--HHHHHHHHHh
Q psy3857 36 NMEICDIINETEDGPKDAIKAIRKRLQQY---AGKDYTVIMYTLTVLETCVKNC---NRRFHILVCSK--DFIQELYKLI 107 (349)
Q Consensus 36 ~l~icD~In~~~~~~~eA~ral~krl~~~---~~~n~~~~l~AL~LLd~~vkNc---G~~Fh~~i~~k--~Fl~eL~kl~ 107 (349)
..+|+|.+-....-|.+---.+..||.-- +....+.++..+.|+-..+-+| ...|...+-.. +|+++|+.++
T Consensus 195 ~~~i~~~~~~~~~iP~~~~f~ll~riR~A~af~~~~~R~~~l~iRllAi~~l~~~~~~~~~~~~~l~~dp~l~~eL~eLi 274 (329)
T PF06012_consen 195 LQQILDKLMEDYNIPKESRFELLHRIRVAKAFSSSSYRRQLLQIRLLAIANLVYIHPESQFSSKLLEQDPELVNELVELI 274 (329)
T ss_pred HHHHHHHHhhhcCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHhhCCCHHHHHHHHhcChHHHHHHHHHh
Confidence 45666665555445665544444444300 0134466666666766655533 33566656444 4999999999
Q ss_pred CCCCCCChhHHHHHHHHHHHHHH
Q psy3857 108 GPKNEPPIIVQDKVLSLIQSWAD 130 (349)
Q Consensus 108 ~~k~~~~~~Vk~kil~li~~W~~ 130 (349)
.+....+..||.-++.++..-..
T Consensus 275 ~~~~~v~~~i~~~Al~~L~ai~~ 297 (329)
T PF06012_consen 275 SPEEKVPMDIQTAALRALEAISH 297 (329)
T ss_pred CCCCCCCHHHHHHHHHHHHHHHh
Confidence 88766678898888888877665
No 67
>PF14726 RTTN_N: Rotatin, an armadillo repeat protein, centriole functioning
Probab=28.51 E-value=3.1e+02 Score=21.96 Aligned_cols=69 Identities=10% Similarity=0.110 Sum_probs=52.0
Q ss_pred CHHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhcC-chhHHHHhhcHHHHHHHHHHhCCCCCCChhHHHHHHHHHH
Q psy3857 49 GPKDAIKAIRKRLQQYAGKDYTVIMYTLTVLETCVKNC-NRRFHILVCSKDFIQELYKLIGPKNEPPIIVQDKVLSLIQ 126 (349)
Q Consensus 49 ~~~eA~ral~krl~~~~~~n~~~~l~AL~LLd~~vkNc-G~~Fh~~i~~k~Fl~eL~kl~~~k~~~~~~Vk~kil~li~ 126 (349)
.++.-.+.|-.=++ + ..+-..-.+|.||--+++.- |...-..++..+|+..|.+.+. ...+..|-+++.
T Consensus 27 ~~~~Ll~~LleWFn-f--~~~~~~~~VL~Ll~~L~~~~~a~~~l~~iG~~~fL~klr~~~~------~~~~~~id~il~ 96 (98)
T PF14726_consen 27 KERLLLKQLLEWFN-F--PPVPMKEEVLALLLRLLKSPYAAQILRDIGAVRFLSKLRPNVE------PNLQAEIDEILD 96 (98)
T ss_pred cHHHHHHHHHHHhC-C--CCCccHHHHHHHHHHHHhCcHHHHHHHHccHHHHHHHHHhcCC------HHHHHHHHHHHh
Confidence 56777777777787 4 66668889999999999998 7778888999999888885553 345555555543
No 68
>PF00618 RasGEF_N: RasGEF N-terminal motif; InterPro: IPR000651 The crystal structure of the guanine nucleotide exchange factor (GEF) region of human Sos1 complexes with Ras has been solved []. The structure consists of two distinct alpha helical structural domains: the N-terminal domain which seems to have a purely structural role and the C-terminal domain which is sufficient for catalytic activity and contains all residues that interact with Ras. A main feature of the catalytic domain is the protrusion of a helical hairpin important for the nucleotide-exchange mechanism. The N-terminal domain is likely to be important for the stability and correct placement of the hairpin structure. This entry represents a domain found in several GEF for Ras-like small GTPases which lies N-terminal to the RasGef (Cdc25-like) domain. ; GO: 0005085 guanyl-nucleotide exchange factor activity, 0051056 regulation of small GTPase mediated signal transduction, 0005622 intracellular; PDB: 3CF6_E 2BYV_E 1NVW_S 1BKD_S 1XDV_A 2II0_A 1NVU_S 1NVX_S 1NVV_S 1XD4_B ....
Probab=28.49 E-value=2.3e+02 Score=21.95 Aligned_cols=76 Identities=13% Similarity=0.076 Sum_probs=46.7
Q ss_pred cHHHHHHHhcCCCCCCcCHHHHHHHHHHHhcCCCCHHHHHHHHHHHhhhcCCCC--------------HHHHHHHHHHHH
Q psy3857 15 PVGSKIEMATDPTLASENWALNMEICDIINETEDGPKDAIKAIRKRLQQYAGKD--------------YTVIMYTLTVLE 80 (349)
Q Consensus 15 ~~~~~I~~AT~~~~~~~dw~~~l~icD~In~~~~~~~eA~ral~krl~~~~~~n--------------~~~~l~AL~LLd 80 (349)
.++.+|+++|++.... |-..+-.+.=.-+ .-..|.+.+..|..|.... .. ..++.+.+.++-
T Consensus 6 tl~~Li~~L~~~~~~~-d~~f~~~FllTyr-~F~tp~~Ll~~L~~ry~~~--~~~~~~~~~~~~~~~~~~i~~rv~~~l~ 81 (104)
T PF00618_consen 6 TLEKLIERLTSSFNSD-DEEFVDTFLLTYR-SFTTPEELLDKLIQRYNIP--PPNGLSQDESWDQDSQEPIRLRVLNVLK 81 (104)
T ss_dssp -HHHHHHHHCHC-SS--HHHHHHHHHHHHH-HCS-HHHHHHHHHHHHT-----SSS-HHHHT-HHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHhcccccC-CHHHHHHHHHHhH-hhCCHHHHHHHHHHHhccc--CCccccccchhhhhhhHHHHHHHHHHHH
Confidence 5899999999983332 2233333322222 2458899999999998411 11 125667888888
Q ss_pred HHHhcCchhHHHHh
Q psy3857 81 TCVKNCNRRFHILV 94 (349)
Q Consensus 81 ~~vkNcG~~Fh~~i 94 (349)
.-+++|...|+..-
T Consensus 82 ~Wi~~~~~df~~~~ 95 (104)
T PF00618_consen 82 YWIENYPDDFRDDP 95 (104)
T ss_dssp HHHHHHCCCCHH-H
T ss_pred HHHHHChHhhCCCH
Confidence 99999988888753
No 69
>PF03670 UPF0184: Uncharacterised protein family (UPF0184); InterPro: IPR022788 This family of proteins has no known function.
Probab=28.05 E-value=1.8e+02 Score=22.74 Aligned_cols=51 Identities=14% Similarity=0.178 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHHHHHHHHHHHhhcC
Q psy3857 210 LEVVQANMAVFNEMLNTLIPGQEHSSDIELITELHATCKAMQERIVQLISKYS 262 (349)
Q Consensus 210 l~~v~~n~~lL~emL~~~~p~~~~~~d~e~i~eL~~~ck~~q~~i~~li~~~~ 262 (349)
...+...+.-|+-.|+..... ...=...+++|.+.+|+.|..++.-.....
T Consensus 28 ~~~ins~LD~Lns~LD~LE~r--nD~l~~~L~~LLesnrq~R~e~~~~~~~~~ 78 (83)
T PF03670_consen 28 YAAINSMLDQLNSCLDHLEQR--NDHLHAQLQELLESNRQIRLEFQEQLSKAP 78 (83)
T ss_pred HHHHHHHHHHHHHHHHHHHHh--hhHHHHHHHHHHHHHHHHHHHHHHHhccCC
Confidence 334444444444444444211 111234688999999999999887776543
No 70
>PF11707 Npa1: Ribosome 60S biogenesis N-terminal; InterPro: IPR021714 Npa1p is required for ribosome biogenesis and operates in the same functional environment as Rsa3p and Dbp6p during early maturation of 60S ribosomal subunits []. The protein partners of Npa1p include eight putative helicases as well as the novel Npa2p factor. Npa1p can also associate with a subset of H/ACA and C/D small nucleolar RNPs (snoRNPs) involved in the chemical modification of residues in the vicinity of the peptidyl transferase centre []. The protein has also been referred to as Urb1, and this domain at the N-terminal is one of several conserved regions along the length.
Probab=27.72 E-value=1.5e+02 Score=28.85 Aligned_cols=66 Identities=21% Similarity=0.259 Sum_probs=48.1
Q ss_pred HHHHHHHHhcCCCCHHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHHHHh-cCchhHHHHhhcHHHHH-HHHHHhCCC
Q psy3857 36 NMEICDIINETEDGPKDAIKAIRKRLQQYAGKDYTVIMYTLTVLETCVK-NCNRRFHILVCSKDFIQ-ELYKLIGPK 110 (349)
Q Consensus 36 ~l~icD~In~~~~~~~eA~ral~krl~~~~~~n~~~~l~AL~LLd~~vk-NcG~~Fh~~i~~k~Fl~-eL~kl~~~k 110 (349)
...||..|=+.. .+.|-+-|. + ..+..+.-||.||-.+|. +.|.--..-+..++|-- .|.+++.++
T Consensus 46 g~~l~~~iL~~~------~k~lyr~L~-~--~~~~~~~~~LrLL~~iv~f~~g~~a~~v~~~fd~~~~~l~kll~~~ 113 (330)
T PF11707_consen 46 GLELIRSILQNH------LKLLYRSLS-S--SKPSLTNPALRLLTAIVSFDGGALAREVLRSFDFSLKSLPKLLTPR 113 (330)
T ss_pred HHHHHHHHHHHH------HHHHHHHhC-c--CcHHHHHHHHHHHHHHHccCCHHHHHHHHHhcCCchhhHHHHhccc
Confidence 445555554321 677777777 4 678888899999999999 98877766667778875 488888654
No 71
>cd08779 Death_PIDD Death Domain of p53-induced protein with a death domain. Death domain (DD) found in PIDD (p53-induced protein with a death domain) and similar proteins. PIDD is a component of the PIDDosome complex, which is an oligomeric caspase-activating complex involved in caspase-2 activation and plays a role in mediating stress-induced apoptosis. The PIDDosome complex is composed of three components, PIDD, RAIDD and caspase-2, which interact through their DDs and DD-like domains. The DD of PIDD interacts with the DD of RAIDD, which also contains a Caspase Activation and Recruitment Domain (CARD) that interacts with the caspase-2 CARD. Autoproteolysis of PIDD determines the downstream signaling event, between pro-survival NF-kB or pro-death caspase-2 activation. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members
Probab=27.63 E-value=1.4e+02 Score=23.11 Aligned_cols=37 Identities=19% Similarity=0.434 Sum_probs=27.0
Q ss_pred ChhHHHHHHHHHHHHHHHhcCCCCchhHHHHHHHHHhcC
Q psy3857 114 PIIVQDKVLSLIQSWADAFKDIPNLEGVNQIYQELRSKG 152 (349)
Q Consensus 114 ~~~Vk~kil~li~~W~~~f~~~~~l~~i~~~y~~Lk~~G 152 (349)
|..+++++..+++.|.+.-++++. .+..+.+.|..-|
T Consensus 38 ~~dl~eq~~~mL~~W~~~~~~~~a--tv~~L~~AL~~~g 74 (86)
T cd08779 38 RDDLDEQIFDMLFSWAQRQAGDPD--AVGKLVTALEESG 74 (86)
T ss_pred ccCHHHHHHHHHHHHHHhcCCCch--HHHHHHHHHHHcC
Confidence 346999999999999998765432 3566666666655
No 72
>cd08306 Death_FADD Fas-associated Death Domain protein-protein interaction domain. Death domain (DD) found in FAS-associated via death domain (FADD). FADD is a component of the death-inducing signaling complex (DISC) and serves as an adaptor in the signaling pathway of death receptor proteins. It modulates apoptosis as well as non-apoptotic processes such as cell cycle progression, survival, innate immune signaling, and hematopoiesis. FADD contains an N-terminal DED and a C-terminal DD. Its DD interacts with the DD of the activated death receptor, FAS, and its DED recruits the initiator caspases, caspase-8 and -10, to the DISC complex via a homotypic interaction with the N-terminal DED of the caspase. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain),
Probab=27.24 E-value=1.8e+02 Score=22.49 Aligned_cols=71 Identities=15% Similarity=0.268 Sum_probs=41.8
Q ss_pred HHHHHHhcCchhHHHHhhcHHHHHHHHHHhCCCCCCChhHHHHHHHHHHHHHHHhcCCCCchhHHHHHHHHHhcCC
Q psy3857 78 VLETCVKNCNRRFHILVCSKDFIQELYKLIGPKNEPPIIVQDKVLSLIQSWADAFKDIPNLEGVNQIYQELRSKGI 153 (349)
Q Consensus 78 LLd~~vkNcG~~Fh~~i~~k~Fl~eL~kl~~~k~~~~~~Vk~kil~li~~W~~~f~~~~~l~~i~~~y~~Lk~~G~ 153 (349)
..+.+.+|-|.....-.-.-.|-+.=+..+...+ +..+++++.+++..|....... ..+..+.+.|+.-|.
T Consensus 4 ~f~~i~~~lG~~Wk~laR~LGlse~~Id~i~~~~--~~~~~eq~~~mL~~W~~~~g~~---At~~~L~~aL~~~~l 74 (86)
T cd08306 4 AFDVICENVGRDWRKLARKLGLSETKIESIEEAH--PRNLREQVRQSLREWKKIKKKE---AKVADLIKALRDCQL 74 (86)
T ss_pred HHHHHHHHHhhhHHHHHHHcCCCHHHHHHHHHHC--CCCHHHHHHHHHHHHHHhHCcc---hHHHHHHHHHHHcCc
Confidence 3556667777655542222245555333332221 3469999999999999977533 335556666665553
No 73
>smart00509 TFS2N Domain in the N-terminus of transcription elongation factor S-II (and elsewhere).
Probab=26.22 E-value=2.7e+02 Score=20.90 Aligned_cols=20 Identities=20% Similarity=0.320 Sum_probs=17.3
Q ss_pred CChhHHHHHHHHHHHHHHHh
Q psy3857 113 PPIIVQDKVLSLIQSWADAF 132 (349)
Q Consensus 113 ~~~~Vk~kil~li~~W~~~f 132 (349)
+..+|+....++|..|...+
T Consensus 54 ~~~~I~~~A~~Li~~WK~~v 73 (75)
T smart00509 54 KNEEIRKLAKKLIKSWKKLV 73 (75)
T ss_pred CcHHHHHHHHHHHHHHHHHh
Confidence 45789999999999998765
No 74
>TIGR02976 phageshock_pspB phage shock protein B. This model describes the PspB protein of the psp (phage shock protein) operon, as found in Escherichia coli and many related species. Expression of a phage protein called secretin protein IV, and a number of other stresses including ethanol, heat shock, and defects in protein secretion trigger sigma-54-dependent expression of the phage shock regulon. PspB is both a regulator and an effector protein of the phage shock response.
Probab=25.78 E-value=83 Score=24.04 Aligned_cols=26 Identities=35% Similarity=0.447 Sum_probs=21.2
Q ss_pred CCCCcHHHHHHHHHHHHHHHHHHHHH
Q psy3857 232 EHSSDIELITELHATCKAMQERIVQL 257 (349)
Q Consensus 232 ~~~~d~e~i~eL~~~ck~~q~~i~~l 257 (349)
.+.+|...+++|+...++|+.||.-|
T Consensus 36 ls~~d~~~L~~L~~~a~rm~eRI~tL 61 (75)
T TIGR02976 36 LSTDDQALLQELYAKADRLEERIDTL 61 (75)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34557788999999999999998654
No 75
>KOG3219|consensus
Probab=25.73 E-value=1.3e+02 Score=27.31 Aligned_cols=38 Identities=16% Similarity=0.299 Sum_probs=28.5
Q ss_pred hHHHHHHHHHHHHHHHhcCCCCchhHHHHHHHHHhcCCCC
Q psy3857 116 IVQDKVLSLIQSWADAFKDIPNLEGVNQIYQELRSKGIEF 155 (349)
Q Consensus 116 ~Vk~kil~li~~W~~~f~~~~~l~~i~~~y~~Lk~~G~~f 155 (349)
+|-+-++.+-..|.+.=.= .-.+|+++|+.|+.+|-.+
T Consensus 148 EvVEeAl~V~~~~~e~~PL--qP~HIREA~rrL~~qgk~~ 185 (195)
T KOG3219|consen 148 EVVEEALDVREEWGESGPL--QPKHIREAYRRLKLQGKLP 185 (195)
T ss_pred HHHHHHHHHHHHhccCCCC--CcHHHHHHHHHHHhcCCCC
Confidence 4667788889999873211 2337999999999999754
No 76
>smart00549 TAFH TAF homology. Domain in Drosophila nervy, CBFA2T1, human TAF105, human TAF130, and Drosophila TAF110. Also known as nervy homology region 1 (NHR1).
Probab=25.04 E-value=1.4e+02 Score=23.77 Aligned_cols=33 Identities=21% Similarity=0.324 Sum_probs=24.2
Q ss_pred HHHHHHHHHHhCCCCCCChhHHHHHHHHHHHHHHH
Q psy3857 97 KDFIQELYKLIGPKNEPPIIVQDKVLSLIQSWADA 131 (349)
Q Consensus 97 k~Fl~eL~kl~~~k~~~~~~Vk~kil~li~~W~~~ 131 (349)
++|+..|+++-+... +.+|-+++.++|+..-++
T Consensus 6 k~FL~tLi~ls~~~~--qpe~~~~Vr~LV~~L~~~ 38 (92)
T smart00549 6 KRFLTTLIQLSNDIS--QPEVAERVRTLVLGLVNG 38 (92)
T ss_pred HHHHHHHHHHhcCCC--cchHHHHHHHHHHHHHhC
Confidence 689999999987542 256777777777776554
No 77
>PF08388 GIIM: Group II intron, maturase-specific domain; InterPro: IPR013597 This region is found mainly in various bacterial and archaeal species, but a few members of this family are expressed by fungal and chlamydomonal species. It has been implicated in the binding of intron RNA during reverse transcription and splicing [].
Probab=24.82 E-value=2.9e+02 Score=20.33 Aligned_cols=39 Identities=13% Similarity=0.291 Sum_probs=28.7
Q ss_pred HHHHHHHHHHh-CCC-CCCChhHHHHHHHHHHHHHHHhcCC
Q psy3857 97 KDFIQELYKLI-GPK-NEPPIIVQDKVLSLIQSWADAFKDI 135 (349)
Q Consensus 97 k~Fl~eL~kl~-~~k-~~~~~~Vk~kil~li~~W~~~f~~~ 135 (349)
+.|.+.+..++ ... ..+...+-+++=..|..|+..|+..
T Consensus 2 k~~~~kik~~~~~~~~~~~~~~~i~~LN~~lrGW~nYy~~~ 42 (80)
T PF08388_consen 2 KRFRRKIKEITRRRNRGKSLEELIKKLNPILRGWANYYRIG 42 (80)
T ss_pred HHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHHHHHhhcch
Confidence 46888888888 321 2244667789999999999999743
No 78
>PF09869 DUF2096: Uncharacterized protein conserved in archaea (DUF2096); InterPro: IPR017098 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=24.78 E-value=4.9e+02 Score=23.05 Aligned_cols=57 Identities=16% Similarity=0.243 Sum_probs=39.2
Q ss_pred HHHHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHHHHHHHHHHHhhcCcHHHHHHHH
Q psy3857 211 EVVQANMAVFNEMLNTLIPGQEHSSDIELITELHATCKAMQERIVQLISKYSQEDFITELL 271 (349)
Q Consensus 211 ~~v~~n~~lL~emL~~~~p~~~~~~d~e~i~eL~~~ck~~q~~i~~li~~~~dee~l~~LL 271 (349)
+.|-.++++-+..++.|.-.... ..+.+......+-..|..++.+++ ..+++..+.|
T Consensus 24 ~ev~e~LR~a~~ii~~Y~~Dph~--~~~~L~~ae~~Ln~vQ~~L~~l~d--~~~d~~~~~l 80 (169)
T PF09869_consen 24 EEVFEDLRLANAIINYYKLDPHA--SFKELKDAEKELNSVQSILFDLCD--EGEDYRKKWL 80 (169)
T ss_pred HHHHHHHHHHHHHHHHHcCCchh--HHHHHHHHHHHHHHHHHHHHHHHh--ccHHHHHHHH
Confidence 35667778888888888643321 456677777888888999999988 4445554433
No 79
>PF07531 TAFH: NHR1 homology to TAF; InterPro: IPR003894 The TAF homology (TAFH) or Nervy homology region 1 (NHR1) domain is a domain of 95-100 amino acids present in eukaryotic proteins of the MTG/ETO family and whereof the core ~75-80 residues occur in TAF proteins. The transcription initiation TFIID complex is composed of TATA binding protein (TBP) and a number of TBP-associated factors (TAFs). The TAFH/NHR1 domain is named after fruit fly TATA-box-associated factor 110 (TAF110), human TAF105 and TAF130, and the fruit fly protein Nervy, which is a homologue of human MTG8/ETO [, ]. The human eight twenty-one (ETO or MTG8) and related myeloid transforming gene products MTGR1 and MTG16 as well as the Nervy protein contain the NHR1-4 domains. The NHR1/TAFH domain occurs in the N-terminal part of these proteins, while a MYND-type zinc finger forms the NHR4 domain []. The TAFH/NHR1 domain can be involved in protein-protein interactions, e.g in MTG8/ETO with HSP90 and Gfi-1 []. ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 2P6V_A 2KNH_A 2PP4_A 2H7B_A.
Probab=24.60 E-value=1.1e+02 Score=24.50 Aligned_cols=33 Identities=30% Similarity=0.448 Sum_probs=23.9
Q ss_pred HHHHHHHHHHhCCCCCCChhHHHHHHHHHHHHHHH
Q psy3857 97 KDFIQELYKLIGPKNEPPIIVQDKVLSLIQSWADA 131 (349)
Q Consensus 97 k~Fl~eL~kl~~~k~~~~~~Vk~kil~li~~W~~~ 131 (349)
+.||..|+++.+.+ ..++|-+++.++|+..-++
T Consensus 7 k~FL~tLi~las~~--~spev~~~Vr~LV~~L~~~ 39 (96)
T PF07531_consen 7 KNFLNTLIQLASDK--QSPEVGENVRELVQNLVDG 39 (96)
T ss_dssp HHHHHHHHHHHCCS--C-CCHHHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHhcCC--CChHHHHHHHHHHHHHHcC
Confidence 68999999999763 2346777777777776543
No 80
>PF11864 DUF3384: Domain of unknown function (DUF3384); InterPro: IPR024584 This entry represents the N-terminal domain of tuberin which is functionally uncharacterised.
Probab=24.40 E-value=6.8e+02 Score=25.49 Aligned_cols=95 Identities=16% Similarity=0.197 Sum_probs=56.8
Q ss_pred HHHHHHHHHHHhcCCCCHHHHHHHHHHHhhhcCCCCH-HHHHHHHHHHHHHHhcCch-------hHHHHhhcH-------
Q psy3857 33 WALNMEICDIINETEDGPKDAIKAIRKRLQQYAGKDY-TVIMYTLTVLETCVKNCNR-------RFHILVCSK------- 97 (349)
Q Consensus 33 w~~~l~icD~In~~~~~~~eA~ral~krl~~~~~~n~-~~~l~AL~LLd~~vkNcG~-------~Fh~~i~~k------- 97 (349)
...+-++|+.|..-+-.+-+++-...+-|-.. .+| .....|+.||..|++-.+. .|-..|...
T Consensus 8 ~~a~~~l~~~i~~~~~~~i~~iW~~~~DLi~~--~~p~e~R~~~~~ll~~~i~~~~~~~~~~R~~fF~~I~~~~~~~d~~ 85 (464)
T PF11864_consen 8 IKAAEELCESIQKYPLSSIEEIWYAAKDLIDP--NQPSEARRAALELLIACIKRQDSSSGLMRAEFFRDISDPSNDDDFD 85 (464)
T ss_pred HHHHHHHHHHHHhCCchHHHHHHHHHhhhcCC--CCCHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHhcCCCchhHH
Confidence 35677899999987766666666666666533 444 4666788999999998866 233334322
Q ss_pred HHHHHHHHHhCCCCCCChhHHHHHHHHHHHHHH
Q psy3857 98 DFIQELYKLIGPKNEPPIIVQDKVLSLIQSWAD 130 (349)
Q Consensus 98 ~Fl~eL~kl~~~k~~~~~~Vk~kil~li~~W~~ 130 (349)
-+++.|+.|-...++- ...-..+..++..|-.
T Consensus 86 ~~l~aL~~LT~~Grdi-~~~~~~i~~~L~~wl~ 117 (464)
T PF11864_consen 86 LRLEALIALTDNGRDI-DFFEYEIGPFLLSWLE 117 (464)
T ss_pred HHHHHHHHHHcCCcCc-hhcccchHHHHHHHHH
Confidence 3455555555443322 1233445555555553
No 81
>KOG1077|consensus
Probab=24.26 E-value=2.4e+02 Score=30.85 Aligned_cols=75 Identities=13% Similarity=0.213 Sum_probs=50.3
Q ss_pred CCCHHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhcCchhHHHHhhcHHHHHHHHHHhCCCCCCChhHHHHHHHHHH
Q psy3857 47 EDGPKDAIKAIRKRLQQYAGKDYTVIMYTLTVLETCVKNCNRRFHILVCSKDFIQELYKLIGPKNEPPIIVQDKVLSLIQ 126 (349)
Q Consensus 47 ~~~~~eA~ral~krl~~~~~~n~~~~l~AL~LLd~~vkNcG~~Fh~~i~~k~Fl~eL~kl~~~k~~~~~~Vk~kil~li~ 126 (349)
++.-.-|+..|.+-|. + +.++.-++||.- +++=|...|-...-++. .+.++..++. ..+..|++|++++++
T Consensus 324 ~~ll~~~~~~Lg~fls-~--rE~NiRYLaLEs---m~~L~ss~~s~davK~h-~d~Ii~sLkt--erDvSirrravDLLY 394 (938)
T KOG1077|consen 324 PELLSRAVNQLGQFLS-H--RETNIRYLALES---MCKLASSEFSIDAVKKH-QDTIINSLKT--ERDVSIRRRAVDLLY 394 (938)
T ss_pred HHHHHHHHHHHHHHhh-c--ccccchhhhHHH---HHHHHhccchHHHHHHH-HHHHHHHhcc--ccchHHHHHHHHHHH
Confidence 3455567788888888 5 888888888753 33334445544444444 7777777753 346789999999998
Q ss_pred HHHH
Q psy3857 127 SWAD 130 (349)
Q Consensus 127 ~W~~ 130 (349)
...+
T Consensus 395 ~mcD 398 (938)
T KOG1077|consen 395 AMCD 398 (938)
T ss_pred HHhc
Confidence 7654
No 82
>PF06798 PrkA: PrkA serine protein kinase C-terminal domain; InterPro: IPR010650 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases. Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. This entry is found at the C terminus of PrkA proteins - bacterial and archaeal serine kinases approximately 630 residues in length. PrkA possesses the A-motif of nucleotide-binding proteins and exhibits distant homology to eukaryotic protein kinases []. Note that many of these are hypothetical.
Probab=24.00 E-value=89 Score=29.48 Aligned_cols=77 Identities=14% Similarity=0.150 Sum_probs=52.6
Q ss_pred CHHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhcCch--hHHHHhhcHHHHHHHHHHhCCCCCCChhHHHHHHHHHH
Q psy3857 49 GPKDAIKAIRKRLQQYAGKDYTVIMYTLTVLETCVKNCNR--RFHILVCSKDFIQELYKLIGPKNEPPIIVQDKVLSLIQ 126 (349)
Q Consensus 49 ~~~eA~ral~krl~~~~~~n~~~~l~AL~LLd~~vkNcG~--~Fh~~i~~k~Fl~eL~kl~~~k~~~~~~Vk~kil~li~ 126 (349)
.|+.+.++|..-+. . ......+.++.||..|...|.. .|..+. ..+|++-|. .+.+.+ ...|++-|.+.+.
T Consensus 38 S~R~~~~~ls~a~~-~--~~~~~~i~p~~vl~~L~~~l~~~~~i~~e~-~~~y~~~l~-~v~~~Y--~~~v~~EV~~A~~ 110 (254)
T PF06798_consen 38 SPRFVIKILSNALS-S--DSEEDCINPLDVLNELEEGLKDHPSISEEE-RERYLEFLK-SVRKEY--DERVEKEVQEAFY 110 (254)
T ss_pred CHhHHHHHHHHHHH-h--CcccceecHHHHHHHHHHHhhcccccCHHH-HHHHHHHHH-HHHHHH--HHHHHHHHHHHHH
Confidence 69999999999998 3 4677889999999999999987 455555 456777544 554433 2345555555444
Q ss_pred -HHHHHh
Q psy3857 127 -SWADAF 132 (349)
Q Consensus 127 -~W~~~f 132 (349)
.+.+..
T Consensus 111 ~~~ee~~ 117 (254)
T PF06798_consen 111 YSYEEQI 117 (254)
T ss_pred HccHHHH
Confidence 444443
No 83
>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=23.74 E-value=1.8e+02 Score=17.55 Aligned_cols=29 Identities=14% Similarity=0.127 Sum_probs=23.6
Q ss_pred HHHHHHhhhcCCCCHHHHHHHHHHHHHHHhcC
Q psy3857 55 KAIRKRLQQYAGKDYTVIMYTLTVLETCVKNC 86 (349)
Q Consensus 55 ral~krl~~~~~~n~~~~l~AL~LLd~~vkNc 86 (349)
..|.+-++ . +++.|-..|..-|..++++|
T Consensus 3 p~l~~~l~-D--~~~~VR~~a~~~l~~i~~~~ 31 (31)
T PF02985_consen 3 PILLQLLN-D--PSPEVRQAAAECLGAIAEHC 31 (31)
T ss_dssp HHHHHHHT----SSHHHHHHHHHHHHHHHHTS
T ss_pred HHHHHHcC-C--CCHHHHHHHHHHHHHHHhhC
Confidence 45667777 4 89999999999999998887
No 84
>KOG4535|consensus
Probab=23.72 E-value=70 Score=33.22 Aligned_cols=52 Identities=15% Similarity=0.172 Sum_probs=38.5
Q ss_pred CHHHHH-HHHHHHhcCCC------CHHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhcC
Q psy3857 32 NWALNM-EICDIINETED------GPKDAIKAIRKRLQQYAGKDYTVIMYTLTVLETCVKNC 86 (349)
Q Consensus 32 dw~~~l-~icD~In~~~~------~~~eA~ral~krl~~~~~~n~~~~l~AL~LLd~~vkNc 86 (349)
-...++ -++.+|...+- --.+.+..|++.|+ + ++|++..-||+|++++|...
T Consensus 123 ~~tq~~kcla~lv~~~p~~~l~~~~~~~~~~~ik~~i~-~--~d~~v~vs~l~~~~~~v~t~ 181 (728)
T KOG4535|consen 123 TVTQIIKCLANLVSNAPYDRLKLSLLTKVWNQIKPYIR-H--KDVNVRVSSLTLLGAIVSTH 181 (728)
T ss_pred hHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHHHhh-c--CCCChhhHHHHHHHHHHhcC
Confidence 344443 35666666542 24577889999999 5 89999999999999999753
No 85
>PF14523 Syntaxin_2: Syntaxin-like protein; PDB: 2DNX_A.
Probab=23.67 E-value=3.5e+02 Score=20.92 Aligned_cols=82 Identities=13% Similarity=0.223 Sum_probs=41.5
Q ss_pred HHHHHHHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHHHHHHHHHHHhhc------C--cHHHHHHHHhhhHHHHH
Q psy3857 208 KDLEVVQANMAVFNEMLNTLIPGQEHSSDIELITELHATCKAMQERIVQLISKY------S--QEDFITELLQVNDQLNN 279 (349)
Q Consensus 208 ~el~~v~~n~~lL~emL~~~~p~~~~~~d~e~i~eL~~~ck~~q~~i~~li~~~------~--dee~l~~LL~~ND~L~~ 279 (349)
+-|..+.+++..|..++........++.--+-|.++...|..+-..+-..+... . +-..-...=.+..++..
T Consensus 3 ~~l~~in~~v~~l~k~~~~lGt~~Ds~~lR~~i~~~~~~~~~l~k~~~~~l~~l~~~~~~~~~~~~~k~~~~KL~~df~~ 82 (102)
T PF14523_consen 3 SNLFKINQNVSQLEKLVNQLGTPRDSQELREKIHQLIQKTNQLIKEISELLKKLNSLSSDRSNDRQQKLQREKLSRDFKE 82 (102)
T ss_dssp HHHHHHHHHHHHHHHHHHHH-SSS--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSH----HHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHhCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHH
Confidence 345677888888888888874221111111223444444444444444433331 1 11122233345677788
Q ss_pred HHHHHHHHhh
Q psy3857 280 LFLRFNRYES 289 (349)
Q Consensus 280 al~~Y~~~~~ 289 (349)
++..|+...+
T Consensus 83 ~l~~fq~~q~ 92 (102)
T PF14523_consen 83 ALQEFQKAQR 92 (102)
T ss_dssp HHHHHHHHHH
T ss_pred HHHHHHHHHH
Confidence 8888887655
No 86
>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends. Rpm2 is a protein subunit of the yeast mitochondrial RNase P. It has the ability to act as a transcriptional activator in the nucleus, where it plays a role in defining the steady-state levels of mRNAs for some nucleus-encoded mitochondrial components. Rpm2p is also involved in maturation of Rpm1 and in translation of mitochondrial mRNAs [, , ].
Probab=23.57 E-value=60 Score=27.10 Aligned_cols=24 Identities=29% Similarity=0.653 Sum_probs=21.2
Q ss_pred CCchhHHHHHHHHHhcCCCCCCCc
Q psy3857 136 PNLEGVNQIYQELRSKGIEFPMTD 159 (349)
Q Consensus 136 ~~l~~i~~~y~~Lk~~G~~fP~~~ 159 (349)
.++..|.-+|+.||+.|+.-|+++
T Consensus 39 ~d~N~I~~lYqslkRN~i~lPsv~ 62 (120)
T PF08579_consen 39 EDYNIINPLYQSLKRNGITLPSVE 62 (120)
T ss_pred cchHHHHHHHHHHHhcCCCCCcHH
Confidence 689999999999999999777664
No 87
>PF05004 IFRD: Interferon-related developmental regulator (IFRD); InterPro: IPR007701 Interferon-related developmental regulator (IFRD1) is the human homologue of the Rattus norvegicus early response protein PC4 and its murine homologue TIS7 []. The exact function of IFRD1 is unknown but it has been shown that PC4 is necessary for muscle differentiation and that it might have a role in signal transduction. This entry also contains IFRD2 and its murine equivalent SKMc15, which are highly expressed soon after gastrulation and in the hepatic primordium, suggesting an involvement in early hematopoiesis [].
Probab=23.42 E-value=6.7e+02 Score=24.13 Aligned_cols=103 Identities=11% Similarity=0.051 Sum_probs=58.6
Q ss_pred HHHHHHHhcCCCCCCcCHHHHHHHHHHHhcCC------CCHHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhcCchh
Q psy3857 16 VGSKIEMATDPTLASENWALNMEICDIINETE------DGPKDAIKAIRKRLQQYAGKDYTVIMYTLTVLETCVKNCNRR 89 (349)
Q Consensus 16 ~~~~I~~AT~~~~~~~dw~~~l~icD~In~~~------~~~~eA~ral~krl~~~~~~n~~~~l~AL~LLd~~vkNcG~~ 89 (349)
|...|+..++-+ ..---...-.|++.+.... ...-..+.++.|-|+ . +...++.+|+.++-.++-..|..
T Consensus 45 L~~~Id~l~eK~-~~~Re~aL~~l~~~l~~~~~~d~v~~~~~tL~~~~~k~lk-k--g~~~E~~lA~~~l~Ll~ltlg~g 120 (309)
T PF05004_consen 45 LKEAIDLLTEKS-SSTREAALEALIRALSSRYLPDFVEDRRETLLDALLKSLK-K--GKSEEQALAARALALLALTLGAG 120 (309)
T ss_pred HHHHHHHHHhcC-HHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHHhc-c--CCHHHHHHHHHHHHHHhhhcCCC
Confidence 556666666544 2233334455666665542 122234667777787 4 77799999999999988886522
Q ss_pred HHHHhhcHHHHHHHHHHhCCCCCCChhHHHHHHH
Q psy3857 90 FHILVCSKDFIQELYKLIGPKNEPPIIVQDKVLS 123 (349)
Q Consensus 90 Fh~~i~~k~Fl~eL~kl~~~k~~~~~~Vk~kil~ 123 (349)
...+--=+.+...|.+++.... ....+|..++.
T Consensus 121 ~~~~ei~~~~~~~L~~~l~d~s-~~~~~R~~~~~ 153 (309)
T PF05004_consen 121 EDSEEIFEELKPVLKRILTDSS-ASPKARAACLE 153 (309)
T ss_pred ccHHHHHHHHHHHHHHHHhCCc-cchHHHHHHHH
Confidence 2221111356666777775432 22345555443
No 88
>KOG1820|consensus
Probab=23.32 E-value=4.4e+02 Score=29.28 Aligned_cols=93 Identities=15% Similarity=0.093 Sum_probs=63.5
Q ss_pred HHHHHHHHHHhcCCCCHHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhcCchhHHHHhhcHHHHHHHHHHhCCCCCC
Q psy3857 34 ALNMEICDIINETEDGPKDAIKAIRKRLQQYAGKDYTVIMYTLTVLETCVKNCNRRFHILVCSKDFIQELYKLIGPKNEP 113 (349)
Q Consensus 34 ~~~l~icD~In~~~~~~~eA~ral~krl~~~~~~n~~~~l~AL~LLd~~vkNcG~~Fh~~i~~k~Fl~eL~kl~~~k~~~ 113 (349)
+.++.+||.|-. ....-...++|.--++ + +||..-..++.+++-|++.-|..--..-.-+.....+++.++ ++
T Consensus 354 d~l~~~~d~~~n-s~~l~~~~~~I~e~lk-~--knp~~k~~~~~~l~r~~~~~~~~~~~~~t~~~l~p~~~~~~~---D~ 426 (815)
T KOG1820|consen 354 DALLKALDAILN-STPLSKMSEAILEALK-G--KNPQIKGECLLLLDRKLRKLGPKTVEKETVKTLVPHLIKHIN---DT 426 (815)
T ss_pred HHHHHHHHHHHh-cccHHHHHHHHHHHhc-C--CChhhHHHHHHHHHHHHhhcCCcCcchhhHHHHhHHHhhhcc---CC
Confidence 345667777655 3455566778888888 5 999999999999999999888411111111233344444443 45
Q ss_pred ChhHHHHHHHHHHHHHHHhc
Q psy3857 114 PIIVQDKVLSLIQSWADAFK 133 (349)
Q Consensus 114 ~~~Vk~kil~li~~W~~~f~ 133 (349)
...||.-.++.+..-..-|.
T Consensus 427 ~~~VR~Aa~e~~~~v~k~~G 446 (815)
T KOG1820|consen 427 DKDVRKAALEAVAAVMKVHG 446 (815)
T ss_pred cHHHHHHHHHHHHHHHHHhh
Confidence 67899999988888887774
No 89
>PF10458 Val_tRNA-synt_C: Valyl tRNA synthetase tRNA binding arm; InterPro: IPR019499 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry represents the C-terminal domain of Valyl-tRNA synthetase, which consists of two helices in a long alpha-hairpin. Valyl-tRNA synthetase (6.1.1.9 from EC) is an alpha monomer that belongs to class Ia.; GO: 0000166 nucleotide binding, 0004832 valine-tRNA ligase activity, 0005524 ATP binding, 0006438 valyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 1IVS_B 1GAX_B.
Probab=23.02 E-value=2.7e+02 Score=20.20 Aligned_cols=25 Identities=20% Similarity=0.484 Sum_probs=22.0
Q ss_pred HHHhHHHHHHHHHHHHHHHHHHHHh
Q psy3857 202 QVTKLHKDLEVVQANMAVFNEMLNT 226 (349)
Q Consensus 202 ~~~kl~~el~~v~~n~~lL~emL~~ 226 (349)
.+.++..+++.++..+.-+...|++
T Consensus 5 E~~rL~Kel~kl~~~i~~~~~kL~n 29 (66)
T PF10458_consen 5 EIERLEKELEKLEKEIERLEKKLSN 29 (66)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHCS
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHcC
Confidence 4788999999999999999999885
No 90
>PF14555 UBA_4: UBA-like domain; PDB: 2DAL_A 3BQ3_A 2L4E_A 2L4F_A 2DZL_A 2L2D_A 2DAM_A 1V92_A 3E21_A.
Probab=21.84 E-value=1.9e+02 Score=19.07 Aligned_cols=24 Identities=21% Similarity=0.333 Sum_probs=17.1
Q ss_pred cHHHHHHHHhhhH-HHHHHHHHHHH
Q psy3857 263 QEDFITELLQVND-QLNNLFLRFNR 286 (349)
Q Consensus 263 dee~l~~LL~~ND-~L~~al~~Y~~ 286 (349)
+++.-..+|+.|+ +|..|+..|=.
T Consensus 14 ~~~~A~~~L~~~~wdle~Av~~y~~ 38 (43)
T PF14555_consen 14 DEDVAIQYLEANNWDLEAAVNAYFD 38 (43)
T ss_dssp SHHHHHHHHHHTTT-HHHHHHHHHH
T ss_pred CHHHHHHHHHHcCCCHHHHHHHHHh
Confidence 5555667777777 99999998843
No 91
>cd08319 Death_RAIDD Death domain of RIP-associated ICH-1 homologous protein with a death domain. Death domain (DD) of RAIDD (RIP-associated ICH-1 homologous protein with a death domain), also known as CRADD (Caspase and RIP adaptor). RAIDD is an adaptor protein that together with the p53-inducible protein PIDD and caspase-2, forms the PIDDosome complex, which is required for caspase-2 activation and plays a role in mediating stress-induced apoptosis. RAIDD contains an N-terminal Caspase Activation and Recruitment Domain (CARD), which interacts with the caspase-2 CARD, and a C-terminal DD, which interacts with the DD of PIDD. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD, DED (Death Effector Domain), and PYRIN. They serve as adaptors in signaling pathways and can recruit other pr
Probab=21.80 E-value=2.5e+02 Score=21.72 Aligned_cols=37 Identities=22% Similarity=0.459 Sum_probs=28.6
Q ss_pred ChhHHHHHHHHHHHHHHHhcCCCCchhHHHHHHHHHhcCC
Q psy3857 114 PIIVQDKVLSLIQSWADAFKDIPNLEGVNQIYQELRSKGI 153 (349)
Q Consensus 114 ~~~Vk~kil~li~~W~~~f~~~~~l~~i~~~y~~Lk~~G~ 153 (349)
|..+++++.+++..|.+.... -.-+..+.+.|+.-|+
T Consensus 38 p~~l~eQv~~mL~~W~~r~G~---~ATv~~L~~aL~~~~~ 74 (83)
T cd08319 38 PHNVQSQIVEALVKWRQRFGK---KATVQSLIQSLKAVEV 74 (83)
T ss_pred CCCHHHHHHHHHHHHHHhcCC---CCcHHHHHHHHHHcCC
Confidence 346999999999999998753 3346777788887775
No 92
>PF11573 Med23: Mediator complex subunit 23; InterPro: IPR021629 Med23 is one of the subunits of the Tail portion of the Mediator complex that regulates RNA polymerase II activity. Med23 is required for heat-shock-specific gene expression, and has been shown to mediate transcriptional activation of E1A in mice.
Probab=21.60 E-value=4.5e+02 Score=30.89 Aligned_cols=102 Identities=19% Similarity=0.203 Sum_probs=65.0
Q ss_pred HHHHHHhcCC-CCHHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhcCchhHHHHhhcHHHHHHHHHHhCCCCCCChh
Q psy3857 38 EICDIINETE-DGPKDAIKAIRKRLQQYAGKDYTVIMYTLTVLETCVKNCNRRFHILVCSKDFIQELYKLIGPKNEPPII 116 (349)
Q Consensus 38 ~icD~In~~~-~~~~eA~ral~krl~~~~~~n~~~~l~AL~LLd~~vkNcG~~Fh~~i~~k~Fl~eL~kl~~~k~~~~~~ 116 (349)
+++-+.++-+ +.-..++|.+.|.+.+- .+++-.-+=+.+|++||+|.+- -.+...+++.-.- + .
T Consensus 49 ~f~~~~~~~~~Ee~~~~ik~~l~~i~~~--~~~~~~~~l~d~L~~~v~~~~i------~ar~vCe~lL~~~--~-l---- 113 (1341)
T PF11573_consen 49 KFNTMMSSMSEEEKESCIKQYLKYIHSQ--SHPRRYEFLFDLLETAVNNGII------PARLVCEELLSSE--K-L---- 113 (1341)
T ss_pred HHHHHHhcCCHHHHHHHHHHHHHHHHhc--CChhHHHHHHHHHHHHHHhCCC------ChHHHHHHHhccc--c-h----
Confidence 4666666643 46678899999999844 7888888888999999999873 3344444432111 0 0
Q ss_pred HHHHHHHHHHHHHHHhc------CCCCchhHHHHHHHHHhcCCCCCCC
Q psy3857 117 VQDKVLSLIQSWADAFK------DIPNLEGVNQIYQELRSKGIEFPMT 158 (349)
Q Consensus 117 Vk~kil~li~~W~~~f~------~~~~l~~i~~~y~~Lk~~G~~fP~~ 158 (349)
+.. --.-|.+.|+ +.-||+|+++..+-+..|--.||..
T Consensus 114 ~~~----~~~~W~~~F~lIrkiI~~VDYKGvR~Ilk~~~eK~~~iP~~ 157 (1341)
T PF11573_consen 114 FYL----NSRFWQEKFKLIRKIIHGVDYKGVREILKICLEKMQQIPSS 157 (1341)
T ss_pred hhh----hhHHHHHHHHHHHHHhcccCcHHHHHHHHHHHHHHHhcccc
Confidence 000 0122444442 3468888888888888776667764
No 93
>cd08777 Death_RIP1 Death Domain of Receptor-Interacting Protein 1. Death domain (DD) found in Receptor-Interacting Protein 1 (RIP1) and related proteins. RIP kinases serve as essential sensors of cellular stress. Vertebrates contain several types containing a homologous N-terminal kinase domain and varying C-terminal domains. RIP1 harbors a C-terminal DD, which binds death receptors (DRs) including TNF receptor 1, Fas, TNF-related apoptosis-inducing ligand receptor 1 (TRAILR1), and TRAILR2. It also interacts with other DD-containing adaptor proteins such as TRADD and FADD. RIP1 plays a crucial role in determining a cell's fate, between survival or death, following exposure to stress signals. It is important in the signaling of NF-kappaB and MAPKs, and it links DR-associated signaling to reactive oxygen species (ROS) production. Abnormal RIP1 function may result in ROS accumulation affecting inflammatory responses, innate immunity, stress responses, and cell survival. In general, DDs ar
Probab=21.47 E-value=1.3e+02 Score=23.37 Aligned_cols=70 Identities=14% Similarity=0.134 Sum_probs=40.7
Q ss_pred HHHHHhcCchhHHHHhhcHHHHHHHHHHhCCCCCCChhHHHHHHHHHHHHHHHhcC-CCCchhHHHHHHHHHhcC
Q psy3857 79 LETCVKNCNRRFHILVCSKDFIQELYKLIGPKNEPPIIVQDKVLSLIQSWADAFKD-IPNLEGVNQIYQELRSKG 152 (349)
Q Consensus 79 Ld~~vkNcG~~Fh~~i~~k~Fl~eL~kl~~~k~~~~~~Vk~kil~li~~W~~~f~~-~~~l~~i~~~y~~Lk~~G 152 (349)
|+.+..|-|.....-.-.=.|-+.=+..+...+ .+..+++++.+++..|...... .. .+..+.+.|+.-|
T Consensus 5 l~~l~~~lG~~Wk~lar~LG~s~~eI~~ie~~~-~r~~~~eq~~~mL~~W~~r~g~~~A---Tv~~L~~aL~~~~ 75 (86)
T cd08777 5 LDLLRENLGKKWKRCARKLGFTESEIEEIDHDY-ERDGLKEKVHQMLHKWKMKEGSKGA---TVGKLAQALEGCI 75 (86)
T ss_pred HHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHhc-ccCCHHHHHHHHHHHHHHccCCCCc---HHHHHHHHHHHcc
Confidence 455667777665543333346555445554332 2234789999999999987642 23 3455555555443
No 94
>COG4010 Uncharacterized protein conserved in archaea [Function unknown]
Probab=21.40 E-value=5.5e+02 Score=22.34 Aligned_cols=50 Identities=16% Similarity=0.271 Sum_probs=36.2
Q ss_pred HHHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHHHHHHHHHHHhhcCc
Q psy3857 212 VVQANMAVFNEMLNTLIPGQEHSSDIELITELHATCKAMQERIVQLISKYSQ 263 (349)
Q Consensus 212 ~v~~n~~lL~emL~~~~p~~~~~~d~e~i~eL~~~ck~~q~~i~~li~~~~d 263 (349)
.|-.++++-+-.|+.|...-..+ ...+.....-+..+|..++++++.+++
T Consensus 25 ~V~E~lRlar~~l~~Y~~DPh~s--~~~L~~~~~~Ln~~Q~~L~~lcet~~~ 74 (170)
T COG4010 25 SVTEDLRLARTSLNFYKSDPHNS--MKELKRINDMLNSIQEELLELCETVSS 74 (170)
T ss_pred HHHHHHHHHHHHHHHhccCCcch--HHHHHHHHHHHHHHHHHHHHHHhcCch
Confidence 45677888888899886322211 345666777888899999999988776
No 95
>cd06224 REM Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal domain (RasGef_N), also called REM domain (Ras exchanger motif). This domain is common in nucleotide exchange factors for Ras-like small GTPases and is typically found immediately N-terminal to the RasGef (Cdc25-like) domain. REM contacts the GTPase and is assumed to participate in the catalytic activity of the exchange factor. Proteins with the REM domain include Sos1 and Sos2, which relay signals from tyrosine-kinase mediated signalling to Ras, RasGRP1-4, RasGRF1,2, CNrasGEF, and RAP-specific nucleotide exchange factors, to name a few.
Probab=21.34 E-value=4.1e+02 Score=20.91 Aligned_cols=72 Identities=18% Similarity=0.166 Sum_probs=47.9
Q ss_pred HHHHHHHhcCCCCCCcCHHHHHHHHHHHhcCCCCHHHHHHHHHHHhhhcCCC-------------CHHHHHHHHHHHHHH
Q psy3857 16 VGSKIEMATDPTLASENWALNMEICDIINETEDGPKDAIKAIRKRLQQYAGK-------------DYTVIMYTLTVLETC 82 (349)
Q Consensus 16 ~~~~I~~AT~~~~~~~dw~~~l~icD~In~~~~~~~eA~ral~krl~~~~~~-------------n~~~~l~AL~LLd~~ 82 (349)
+.++|+++|++.. ..|-..+-.+.-.-+ .-..|.+....|..|.. .. . ...++.+.+.++-.-
T Consensus 2 l~~Li~~L~~~~~-~~d~~f~~~FllTyr-sF~s~~~ll~~L~~rf~-~~-~~~~~~~~~~~~~~~~~~~~~v~~~l~~W 77 (122)
T cd06224 2 LEALIEHLTSTFD-MPDPSFVSTFLLTYR-SFTTPTELLEKLIERYE-IA-PPENLEYNDWDKKKSKPIRLRVLNVLRTW 77 (122)
T ss_pred HHHHHHHHcCCCc-cccHHHHHHHHHHhh-hhCCHHHHHHHHHHHhC-CC-CCCcccHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6789999999876 223322222221111 13467888888888887 31 2 133677889999999
Q ss_pred HhcCchhHH
Q psy3857 83 VKNCNRRFH 91 (349)
Q Consensus 83 vkNcG~~Fh 91 (349)
|.+|...|+
T Consensus 78 v~~~~~df~ 86 (122)
T cd06224 78 VENYPYDFF 86 (122)
T ss_pred HHhCCCccc
Confidence 999999996
No 96
>PTZ00429 beta-adaptin; Provisional
Probab=21.08 E-value=7.3e+02 Score=27.28 Aligned_cols=72 Identities=13% Similarity=0.285 Sum_probs=45.4
Q ss_pred cCHHHHHHHHHHHhc-C---CCCHHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhcCchhHHHHhhcHHHHHHHHHH
Q psy3857 31 ENWALNMEICDIINE-T---EDGPKDAIKAIRKRLQQYAGKDYTVIMYTLTVLETCVKNCNRRFHILVCSKDFIQELYKL 106 (349)
Q Consensus 31 ~dw~~~l~icD~In~-~---~~~~~eA~ral~krl~~~~~~n~~~~l~AL~LLd~~vkNcG~~Fh~~i~~k~Fl~eL~kl 106 (349)
.+|+.+. |.+.+.. . .....+.+..+..+|+ | .|+-|++-|+.++=.+..+|....+.++. ++.-.-|+.+
T Consensus 232 ~EW~Qi~-IL~lL~~y~P~~~~e~~~il~~l~~~Lq-~--~N~AVVl~Aik~il~l~~~~~~~~~~~~~-~rl~~pLv~L 306 (746)
T PTZ00429 232 NEWGQLY-ILELLAAQRPSDKESAETLLTRVLPRMS-H--QNPAVVMGAIKVVANLASRCSQELIERCT-VRVNTALLTL 306 (746)
T ss_pred ChHHHHH-HHHHHHhcCCCCcHHHHHHHHHHHHHhc-C--CCHHHHHHHHHHHHHhcCcCCHHHHHHHH-HHHHHHHHHh
Confidence 4787542 3333322 1 2345567778888998 5 89999999999888887777655555443 2333445555
Q ss_pred h
Q psy3857 107 I 107 (349)
Q Consensus 107 ~ 107 (349)
.
T Consensus 307 ~ 307 (746)
T PTZ00429 307 S 307 (746)
T ss_pred h
Confidence 4
No 97
>PF07637 PSD5: Protein of unknown function (DUF1595); InterPro: IPR013043 A region of similarity shared by several Rhodopirellula baltica cytochrome-like proteins that are predicted to be secreted. These proteins also contain IPR011478 from INTERPRO, IPR013036 from INTERPRO, IPR013039 from INTERPRO and IPR013042 from INTERPRO.
Probab=21.04 E-value=2.9e+02 Score=20.03 Aligned_cols=47 Identities=13% Similarity=0.105 Sum_probs=40.3
Q ss_pred HHHHHHHhcCCCCCCcCHHHHHHHHHHHhcCCCCHHHHHHHHHHHhh
Q psy3857 16 VGSKIEMATDPTLASENWALNMEICDIINETEDGPKDAIKAIRKRLQ 62 (349)
Q Consensus 16 ~~~~I~~AT~~~~~~~dw~~~l~icD~In~~~~~~~eA~ral~krl~ 62 (349)
+.....+|-.-.+.+++....+.+.+..........+|++...+-|-
T Consensus 7 l~~Fa~rAfRRp~~~~e~~~~~~~~~~~~~~g~~~~~a~~~~l~aiL 53 (64)
T PF07637_consen 7 LRRFARRAFRRPLTDEEVDRYLALYDSARAQGEDFEEALKEALQAIL 53 (64)
T ss_pred HHHHHHHHhCCCCCHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHH
Confidence 66778899999999999999999999998887888888888777666
No 98
>PF03962 Mnd1: Mnd1 family; InterPro: IPR005647 This family of proteins includes meiotic nuclear division protein 1 (MND1) from Saccharomyces cerevisiae (Baker's yeast). The mnd1 protein forms a complex with hop2 to promote homologous chromosome pairing and meiotic double-strand break repair [].
Probab=20.78 E-value=6.1e+02 Score=22.63 Aligned_cols=83 Identities=18% Similarity=0.303 Sum_probs=50.8
Q ss_pred HHHHhHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCc----HHHHHHHHHHHHHHHHHHHHHHhhcCcHHHHHHHHhhhHH
Q psy3857 201 EQVTKLHKDLEVVQANMAVFNEMLNTLIPGQEHSSD----IELITELHATCKAMQERIVQLISKYSQEDFITELLQVNDQ 276 (349)
Q Consensus 201 e~~~kl~~el~~v~~n~~lL~emL~~~~p~~~~~~d----~e~i~eL~~~ck~~q~~i~~li~~~~dee~l~~LL~~ND~ 276 (349)
....++.++++.++..+.-|.+-|.....+.....+ .+.+.+|-..++.++..+..+- ..|.+.+..+-.....
T Consensus 69 ~~~~~l~~~~~~~~~~i~~l~~~i~~~~~~r~~~~eR~~~l~~l~~l~~~~~~l~~el~~~~--~~Dp~~i~~~~~~~~~ 146 (188)
T PF03962_consen 69 NKLEKLQKEIEELEKKIEELEEKIEEAKKGREESEEREELLEELEELKKELKELKKELEKYS--ENDPEKIEKLKEEIKI 146 (188)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHH--hcCHHHHHHHHHHHHH
Confidence 457788899999999999888888877654432111 1223444444444444444222 2366777777666666
Q ss_pred HHHHHHHHH
Q psy3857 277 LNNLFLRFN 285 (349)
Q Consensus 277 L~~al~~Y~ 285 (349)
+..++++|-
T Consensus 147 ~~~~anrwT 155 (188)
T PF03962_consen 147 AKEAANRWT 155 (188)
T ss_pred HHHHHHHHH
Confidence 666666664
No 99
>PF12783 Sec7_N: Guanine nucleotide exchange factor in Golgi transport N-terminal
Probab=20.66 E-value=4.2e+02 Score=22.62 Aligned_cols=63 Identities=17% Similarity=0.282 Sum_probs=39.1
Q ss_pred CHHHHHHHHHHHHHHHhcCchhHHH--------HhhcHHHHHHHHHHhCCCCCCChhHHHHHHHHHHHHHHHhc
Q psy3857 68 DYTVIMYTLTVLETCVKNCNRRFHI--------LVCSKDFIQELYKLIGPKNEPPIIVQDKVLSLIQSWADAFK 133 (349)
Q Consensus 68 n~~~~l~AL~LLd~~vkNcG~~Fh~--------~i~~k~Fl~eL~kl~~~k~~~~~~Vk~kil~li~~W~~~f~ 133 (349)
+.....++|.+++....|+|..|.. .+-+.+....|.+.+... ...|=.+.+.++..--..|+
T Consensus 35 ~~~~k~l~LeLl~~iL~~~~~~f~~~~~~~~l~~~lk~~l~~~Ll~~~~~~---~~~i~~~slri~~~l~~~~~ 105 (168)
T PF12783_consen 35 DERSKLLSLELLESILENHGSVFRSSEEHPSLINLLKDDLCPALLKNLSSS---DFPIFSRSLRIFLTLLSRFR 105 (168)
T ss_pred hHHHHHHHHHHHHHHHHhCHHHHhCCcchHHHHHHHHHHHHHHHHHHHhhh---hhHHHHHHHHHHHHHHHHHH
Confidence 3456679999999999999998882 112234444455555332 23455566666655545553
No 100
>KOG4523|consensus
Probab=20.50 E-value=2.5e+02 Score=23.73 Aligned_cols=55 Identities=16% Similarity=0.221 Sum_probs=47.1
Q ss_pred HHHHHHHHhcCCCCHHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhcCchhHHHH
Q psy3857 36 NMEICDIINETEDGPKDAIKAIRKRLQQYAGKDYTVIMYTLTVLETCVKNCNRRFHIL 93 (349)
Q Consensus 36 ~l~icD~In~~~~~~~eA~ral~krl~~~~~~n~~~~l~AL~LLd~~vkNcG~~Fh~~ 93 (349)
+-.||++|+--.+.|.-|...|...+. . .-|.++-+-+.||+.-..-+|..|.++
T Consensus 14 nE~iaEmik~iaNEPSl~LY~iQeHir-n--aaP~liNln~~llekS~e~g~~qeDLE 68 (157)
T KOG4523|consen 14 NERIAEMIKLIANEPSLALYRIQEHIR-N--AAPGLINLNIMLLEKSAELGGAQEDLE 68 (157)
T ss_pred HHHHHHHHHHHcCCchHHHHHHHHHHH-h--hCcchhhHHHHHHHHHHhhccchhhHH
Confidence 456999999888899999999999999 5 688899999999998888888776654
No 101
>PF11426 Tn7_TnsC_Int: Tn7 transposition regulator TnsC; InterPro: IPR021542 TnsC is a molecular switch that regulates transposition and interacts with TnsA which is a component of the transposase. The two proteins interact via the residues 504-555 on TnsC. The TnsA/TnsC interaction is very important in Tn7 transposition []. ; PDB: 1T0F_C.
Probab=20.44 E-value=66 Score=22.44 Aligned_cols=14 Identities=29% Similarity=0.797 Sum_probs=10.6
Q ss_pred HHHHHHHhcCCCCC
Q psy3857 143 QIYQELRSKGIEFP 156 (349)
Q Consensus 143 ~~y~~Lk~~G~~fP 156 (349)
++|..|+.+|+.|-
T Consensus 26 ~~y~~Lk~~Glifd 39 (48)
T PF11426_consen 26 SVYEALKQNGLIFD 39 (48)
T ss_dssp -HHHHHHHTTSB--
T ss_pred HHHHHHHHCCeeee
Confidence 68999999999884
No 102
>PF09712 PHA_synth_III_E: Poly(R)-hydroxyalkanoic acid synthase subunit (PHA_synth_III_E)
Probab=20.35 E-value=2.7e+02 Score=26.81 Aligned_cols=93 Identities=13% Similarity=0.290 Sum_probs=64.0
Q ss_pred CHHHHHHHHHHHhhhcCCCCHHHHHHHH-HHHHHHHhcCchhHHHHhhcHHHHHHHHHHhCCCCCCChhHHHHHHHHHHH
Q psy3857 49 GPKDAIKAIRKRLQQYAGKDYTVIMYTL-TVLETCVKNCNRRFHILVCSKDFIQELYKLIGPKNEPPIIVQDKVLSLIQS 127 (349)
Q Consensus 49 ~~~eA~ral~krl~~~~~~n~~~~l~AL-~LLd~~vkNcG~~Fh~~i~~k~Fl~eL~kl~~~k~~~~~~Vk~kil~li~~ 127 (349)
.-..++..+..+|... ...-...-+. .+-|.=|+.|...|-..+++.+|..-..++++ ....+|...=+++..
T Consensus 188 ~~~~a~~~~~~~l~~~--~~~g~~~~s~re~~d~Wi~~ae~~~~~~~~S~ef~~~~g~~~~----a~m~~r~~~~~~~e~ 261 (293)
T PF09712_consen 188 AWMKAFERMMEKLQER--AEEGEQIKSWREFYDIWIDAAEEAYEELFRSEEFAQAYGQLVN----ALMDLRKQQQEVVEE 261 (293)
T ss_pred HHHHHHHHHHHHHHHh--hccCCCCcCHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHH----HHHHHHHHHHHHHHH
Confidence 3456677777777421 1222222233 57788899999999999999999999999985 235788888899999
Q ss_pred HHHHhcCCCCchhHHHHHHHH
Q psy3857 128 WADAFKDIPNLEGVNQIYQEL 148 (349)
Q Consensus 128 W~~~f~~~~~l~~i~~~y~~L 148 (349)
|-..+. -|.-..|.++|+.|
T Consensus 262 ~L~~l~-lPTr~evd~l~k~l 281 (293)
T PF09712_consen 262 YLRSLN-LPTRSEVDELYKRL 281 (293)
T ss_pred HHHHCC-CCCHHHHHHHHHHH
Confidence 988763 23334466666655
No 103
>PF04826 Arm_2: Armadillo-like; InterPro: IPR006911 This entry consists of mammalian proteins of unknown function.
Probab=20.11 E-value=5.2e+02 Score=24.22 Aligned_cols=92 Identities=18% Similarity=0.057 Sum_probs=0.0
Q ss_pred HHHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhcCchhHHHHhhcHHHHHHHHHHhCCCCCCChhHHHHHHHHHHHHHHHh
Q psy3857 53 AIKAIRKRLQQYAGKDYTVIMYTLTVLETCVKNCNRRFHILVCSKDFIQELYKLIGPKNEPPIIVQDKVLSLIQSWADAF 132 (349)
Q Consensus 53 A~ral~krl~~~~~~n~~~~l~AL~LLd~~vkNcG~~Fh~~i~~k~Fl~eL~kl~~~k~~~~~~Vk~kil~li~~W~~~f 132 (349)
++-.|.+.|. + ++|++...||..|+.+ +.....+.+| +.+++.+.+.+... .....||.-.+.++..-+...
T Consensus 55 gi~lI~~lL~-~--p~~~vr~~AL~aL~Nl--s~~~en~~~I--k~~i~~Vc~~~~s~-~lns~~Q~agLrlL~nLtv~~ 126 (254)
T PF04826_consen 55 GISLIGSLLN-D--PNPSVREKALNALNNL--SVNDENQEQI--KMYIPQVCEETVSS-PLNSEVQLAGLRLLTNLTVTN 126 (254)
T ss_pred CHHHHHHHcC-C--CChHHHHHHHHHHHhc--CCChhhHHHH--HHHHHHHHHHHhcC-CCCCHHHHHHHHHHHccCCCc
Q ss_pred cCCCCchhHHHHHHHHHhcC
Q psy3857 133 KDIPNLEGVNQIYQELRSKG 152 (349)
Q Consensus 133 ~~~~~l~~i~~~y~~Lk~~G 152 (349)
.+..-+.....-.-.|-..|
T Consensus 127 ~~~~~l~~~i~~ll~LL~~G 146 (254)
T PF04826_consen 127 DYHHMLANYIPDLLSLLSSG 146 (254)
T ss_pred chhhhHHhhHHHHHHHHHcC
No 104
>PF12333 Ipi1_N: Rix1 complex component involved in 60S ribosome maturation; InterPro: IPR024679 This domain is found in IPI1, which is a component of the Rix1 complex involved in pre-rRNA-processing [, ]. It is also found in testis-expressed sequence 10 protein, a nuclear membrane protein, which is a component of the MLL1/MLL complex [].
Probab=20.01 E-value=2e+02 Score=22.89 Aligned_cols=41 Identities=10% Similarity=0.109 Sum_probs=28.9
Q ss_pred CCHHHHHHHHHHHHHHHhcCchhHHHHhhcHHHHHHHHHHhC
Q psy3857 67 KDYTVIMYTLTVLETCVKNCNRRFHILVCSKDFIQELYKLIG 108 (349)
Q Consensus 67 ~n~~~~l~AL~LLd~~vkNcG~~Fh~~i~~k~Fl~eL~kl~~ 108 (349)
-+|.++.-|+.+||.|+++|+..+-.. +-.+.++....++.
T Consensus 23 i~~~Ir~dsl~~L~~lL~~~p~~~~~~-~~~kil~~f~~ll~ 63 (102)
T PF12333_consen 23 ISPDIREDSLKFLDLLLEHAPDELCSG-GWVKILPNFLDLLG 63 (102)
T ss_pred CCHHHHHhHHHHHHHHHHHCChHhHhh-hHHHHHHHHHHHHC
Confidence 789999999999999999999872221 11234555555554
No 105
>KOG4508|consensus
Probab=20.01 E-value=3.4e+02 Score=27.48 Aligned_cols=102 Identities=16% Similarity=0.252 Sum_probs=53.6
Q ss_pred HHHHHhcCCCCHHHHHHHHHHHhhhcCCCCHHHHHHHH------------------------HHHHHHHhcCchhHHHHh
Q psy3857 39 ICDIINETEDGPKDAIKAIRKRLQQYAGKDYTVIMYTL------------------------TVLETCVKNCNRRFHILV 94 (349)
Q Consensus 39 icD~In~~~~~~~eA~ral~krl~~~~~~n~~~~l~AL------------------------~LLd~~vkNcG~~Fh~~i 94 (349)
+-++|. .+|+-|+..|.|-.+ + ..-+.-+.+| .++..-+.|| -.|-.++
T Consensus 379 lp~lVe---~Np~~A~e~L~kl~~-S--~qi~~Y~~~l~nmdmslHSmEvVnrLttav~lp~~fi~~yi~nc-is~ce~~ 451 (522)
T KOG4508|consen 379 LPSLVE---TNPKFAGEFLVKLAL-S--EQIKRYMRLLENMDMSLHSMEVVNRLTTAVILPDKFIQEYIENC-ISFCEHT 451 (522)
T ss_pred hHHHHH---cChHHHHHHHHHHhh-H--HHHHHHHHHHhcccchhHHHHHHHHHhhhhcCCHHHHHHHHHHH-HHHHHHH
Confidence 445554 588999988887766 4 4555555544 2233344566 3444445
Q ss_pred hcHHHHHHHHHHhCCCCCCChhHHHHHHHH------HHHHHHHhcCCCCchhHHHHHHHHHhcC
Q psy3857 95 CSKDFIQELYKLIGPKNEPPIIVQDKVLSL------IQSWADAFKDIPNLEGVNQIYQELRSKG 152 (349)
Q Consensus 95 ~~k~Fl~eL~kl~~~k~~~~~~Vk~kil~l------i~~W~~~f~~~~~l~~i~~~y~~Lk~~G 152 (349)
-++-.-|.||+++-- -...-+|.||+.. ++.+...| .+...-..+|+.||.-|
T Consensus 452 kdkymqnRlVRLVcv--flqsLiRnkIiNV~DlfieVqaFcief---sr~REaagLfrllkqld 510 (522)
T KOG4508|consen 452 KDKYMQNRLVRLVCV--FLQSLIRNKIINVEDLFIEVQAFCIEF---SRNREAAGLFRLLKQLD 510 (522)
T ss_pred HHHHhhhhhHHHHHH--HHHHHHHHhcccHHHHHHHHHhhhhhh---hhhHHHHHHHHHHHHhc
Confidence 444455667777521 0012234444332 34444444 23333456788777654
Done!