Query psy3040
Match_columns 189
No_of_seqs 92 out of 107
Neff 5.5
Searched_HMMs 46136
Date Fri Aug 16 23:58:09 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy3040.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/3040hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF04388 Hamartin: Hamartin pr 100.0 1.2E-64 2.6E-69 483.7 16.5 184 1-189 36-219 (668)
2 PF12717 Cnd1: non-SMC mitotic 95.0 0.26 5.7E-06 39.9 9.3 105 20-130 7-117 (178)
3 PF08167 RIX1: rRNA processing 91.4 1.4 3.1E-05 35.4 8.2 96 31-127 21-125 (165)
4 PF12755 Vac14_Fab1_bd: Vacuol 85.4 5 0.00011 29.9 7.0 77 49-128 2-78 (97)
5 PF10363 DUF2435: Protein of u 82.1 15 0.00032 27.1 8.3 71 47-124 17-87 (92)
6 PF03224 V-ATPase_H_N: V-ATPas 81.0 11 0.00023 33.1 8.4 103 22-125 46-157 (312)
7 PF12460 MMS19_C: RNAPII trans 78.3 8.9 0.00019 35.1 7.3 76 49-126 339-414 (415)
8 cd00020 ARM Armadillo/beta-cat 74.8 10 0.00022 26.8 5.5 56 46-103 62-117 (120)
9 cd00020 ARM Armadillo/beta-cat 72.8 13 0.00028 26.2 5.6 61 47-109 21-81 (120)
10 PF10508 Proteasom_PSMB: Prote 71.1 19 0.00041 34.0 7.7 95 19-118 137-241 (503)
11 PF10521 DUF2454: Protein of u 70.8 9.4 0.0002 33.2 5.3 88 36-125 124-223 (282)
12 PF08167 RIX1: rRNA processing 69.0 58 0.0013 26.1 9.3 75 51-127 89-164 (165)
13 PF14500 MMS19_N: Dos2-interac 69.0 33 0.00071 29.9 8.2 75 47-125 96-170 (262)
14 PF11701 UNC45-central: Myosin 64.6 17 0.00037 29.0 5.2 89 34-128 6-96 (157)
15 KOG0212|consensus 62.5 64 0.0014 31.9 9.4 95 24-125 319-426 (675)
16 PF13251 DUF4042: Domain of un 61.6 10 0.00022 31.5 3.5 59 49-107 2-70 (182)
17 KOG1248|consensus 61.3 55 0.0012 34.6 9.2 127 18-157 755-897 (1176)
18 PF12348 CLASP_N: CLASP N term 58.9 26 0.00057 28.5 5.5 77 48-126 22-102 (228)
19 PF05004 IFRD: Interferon-rela 58.5 83 0.0018 27.9 9.0 55 36-90 45-100 (309)
20 PF10508 Proteasom_PSMB: Prote 57.7 71 0.0015 30.2 8.8 73 34-108 76-150 (503)
21 KOG2160|consensus 57.0 28 0.0006 32.0 5.7 79 36-115 125-205 (342)
22 PF12348 CLASP_N: CLASP N term 56.0 77 0.0017 25.7 7.9 107 5-112 95-212 (228)
23 PF13513 HEAT_EZ: HEAT-like re 54.3 9.1 0.0002 24.5 1.6 52 47-101 1-52 (55)
24 PF14225 MOR2-PAG1_C: Cell mor 50.9 1.2E+02 0.0025 26.6 8.5 88 14-127 144-237 (262)
25 PF11919 DUF3437: Domain of un 50.7 20 0.00043 26.5 3.2 38 91-128 3-40 (90)
26 PF07425 Pardaxin: Pardaxin; 49.3 8.9 0.00019 23.0 0.9 17 67-84 5-21 (33)
27 PF12783 Sec7_N: Guanine nucle 46.3 67 0.0015 25.3 5.8 76 48-125 37-121 (168)
28 KOG1517|consensus 44.5 22 0.00048 37.4 3.3 45 46-91 483-527 (1387)
29 cd00256 VATPase_H VATPase_H, r 41.9 1.2E+02 0.0025 28.7 7.4 84 24-109 46-133 (429)
30 PF01602 Adaptin_N: Adaptin N 37.8 2E+02 0.0042 26.3 8.2 98 20-127 98-201 (526)
31 PHA02559 59 59 protein; Provis 37.3 35 0.00077 29.3 3.0 47 26-75 48-94 (216)
32 PF10441 Urb2: Urb2/Npa2 famil 36.9 1.3E+02 0.0028 25.1 6.5 38 111-153 148-185 (223)
33 PF12717 Cnd1: non-SMC mitotic 36.8 1E+02 0.0022 24.6 5.6 62 47-115 2-63 (178)
34 PF08993 T4_Gp59_N: T4 gene Gp 34.8 13 0.00029 28.0 0.1 47 26-75 35-81 (94)
35 PTZ00429 beta-adaptin; Provisi 33.8 2.1E+02 0.0046 28.9 8.2 85 40-129 145-234 (746)
36 KOG1243|consensus 33.8 3.8E+02 0.0083 27.0 9.8 116 12-133 302-422 (690)
37 PF04499 SAPS: SIT4 phosphatas 31.9 3.1E+02 0.0067 26.1 8.7 80 8-104 11-90 (475)
38 PF11935 DUF3453: Domain of un 31.3 2.7E+02 0.0058 23.7 7.5 74 47-120 57-159 (239)
39 KOG2171|consensus 31.2 2.3E+02 0.005 30.0 8.1 104 24-128 371-485 (1075)
40 PF07944 DUF1680: Putative gly 30.2 37 0.00081 32.2 2.3 26 5-30 130-155 (520)
41 PF10274 ParcG: Parkin co-regu 30.2 99 0.0021 25.9 4.5 75 48-128 53-134 (183)
42 PF03378 CAS_CSE1: CAS/CSE pro 29.4 3.1E+02 0.0067 25.7 8.2 107 20-129 139-254 (435)
43 PF08578 DUF1765: Protein of u 28.8 2.4E+02 0.0053 21.5 6.3 79 68-156 42-120 (126)
44 PF11916 Vac14_Fig4_bd: Vacuol 27.8 76 0.0016 26.6 3.4 42 68-110 129-170 (182)
45 PF07814 WAPL: Wings apart-lik 26.9 1.2E+02 0.0027 27.3 5.0 68 35-105 18-92 (361)
46 KOG2032|consensus 25.8 4.7E+02 0.01 25.6 8.6 78 46-129 230-310 (533)
47 PF00790 VHS: VHS domain; Int 25.5 2.5E+02 0.0054 21.6 5.9 60 30-89 37-98 (140)
48 PF11398 DUF2813: Protein of u 24.8 68 0.0015 29.6 2.9 69 5-75 209-286 (373)
49 cd03569 VHS_Hrs_Vps27p VHS dom 24.7 3.5E+02 0.0075 21.2 7.2 71 30-101 36-109 (142)
50 PF13646 HEAT_2: HEAT repeats; 23.3 2.4E+02 0.0051 18.8 7.2 82 8-101 3-87 (88)
51 PF10487 Nup188: Nucleoporin s 22.7 70 0.0015 33.0 2.8 50 22-71 869-922 (931)
52 KOG1824|consensus 22.5 3.5E+02 0.0077 28.7 7.5 98 21-124 157-260 (1233)
53 KOG3264|consensus 21.8 87 0.0019 26.8 2.7 35 2-39 98-132 (221)
54 KOG2171|consensus 21.5 9.1E+02 0.02 25.8 10.3 122 3-127 117-256 (1075)
55 PF12331 DUF3636: Protein of u 20.1 1.4E+02 0.003 24.3 3.5 37 49-86 110-146 (149)
No 1
>PF04388 Hamartin: Hamartin protein; InterPro: IPR007483 This family includes the hamartin protein which is thought to function as a tumour suppressor. The hamartin protein interacts with the tuberin protein IPR003913 from INTERPRO. Tuberous sclerosis complex (TSC) is an autosomal dominant disorder and is characterised by the presence of hamartomas in many organs, such as brain, skin, heart, lung, and kidney. It is caused by mutation in either TSC1 or TSC2 tumour suppressor genes. TSC1 encodes a protein, hamartin, containing two coiled-coil regions, which have been shown to mediate binding to tuberin. The TSC2 gene codes for tuberin IPR003913 from INTERPRO. These two proteins function within the same pathway(s) regulating cell cycle, cell growth, adhesion, and vesicular trafficking [].
Probab=100.00 E-value=1.2e-64 Score=483.69 Aligned_cols=184 Identities=52% Similarity=1.004 Sum_probs=180.8
Q ss_pred CchhhhhHHHHHHhccCcHHHHHHHHhhcCCCchhHHHHHHhhccCCchHhhHHHHHHHHHhcCCCchhhhccChhHHHH
Q psy3040 1 KEPWLVNGLVDYFLASNSLRAVDVLVIIREPHDKFLFDRVAETLRSPSTRLGALTLLGHIVQRQPTWLYKIMSHPTLMKD 80 (189)
Q Consensus 1 ~~~~l~~~lvdy~~~t~s~~~~~iL~~~g~~~pk~l~~~ln~~~~~~~~Rl~~L~LL~~~v~~qp~~l~~I~~t~~L~~~ 80 (189)
|||||||+|||||++|||++|++||+++++||+|+||++||+||++|++|+++|+|||+|||+||+|+|+|++|| ||++
T Consensus 36 ~~~~l~~~l~~y~~~t~s~~~~~il~~~~~P~~K~~~~~l~~~~~~~~~Rl~~L~Ll~~~v~~qp~~l~~i~~t~-Lf~~ 114 (668)
T PF04388_consen 36 REPWLVNGLVDYYLSTNSQRALEILVGVQEPHDKHLFDKLNDYFVKPSYRLQALTLLGHFVRSQPPWLYKILQTP-LFKS 114 (668)
T ss_pred chHHHHHHHHHHHhhcCcHHHHHHHHhcCCccHHHHHHHHHHHHcCchhHHHHHHHHHHHHhcCCchHHHHhcCh-hHHH
Confidence 789999999999999999999999999999999999999999999999999999999999999999999999999 9999
Q ss_pred HHHHhccCccHHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHhcccccCCCCCCccchhhhHHhHHHHHHHHHhcc
Q psy3040 81 LLKILKTESDMVEVISALLVLNILLPIIPGLIGSHLTDIFEVFSRLAAWNSDNPRQLASSHVLHLQVALYALFYQLYGMF 160 (189)
Q Consensus 81 LLkcL~~D~s~~vv~~al~~LimLLP~ip~~l~~~Lp~Lf~If~Rl~~W~~~~~~~~~e~~l~hl~~~~~~lFt~LYGly 160 (189)
|||||++|+|++++++|+++|+||||+||+++++|||+||+||+|+++|+.+++++++|++++|++.+++.|||+|||||
T Consensus 115 LLk~L~~D~~~~~~~~al~~LimlLP~ip~~l~~~L~~Lf~If~Rl~~W~~~~~~~~~~~~~~~l~~~~~~lFt~LYGly 194 (668)
T PF04388_consen 115 LLKCLQFDTSITVVSSALLVLIMLLPHIPSSLGPHLPDLFNIFGRLLSWERKNPGSVPEVYLIHLQASVYALFTRLYGLY 194 (668)
T ss_pred HHHHHhhcccHHHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHHHcccCCCCCccccccccchhhHHHHHHHHHhcc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cchHHHHHHHHHhhhccCCcccccccccC
Q psy3040 161 PCTFLSYLKQEYNMRCDNVNACNVFNHTI 189 (189)
Q Consensus 161 P~NFl~fLR~~y~~k~~~~~~~~~f~~~~ 189 (189)
||||++|||++|+++ +| .++|+|+|
T Consensus 195 P~NF~~flr~~y~~~-~~---~~~~~~~i 219 (668)
T PF04388_consen 195 PCNFLSFLRQHYSSK-EN---FDIFQEVI 219 (668)
T ss_pred cchHHHHHHHHHhcc-cC---hhhHHHHH
Confidence 999999999999998 88 88899875
No 2
>PF12717 Cnd1: non-SMC mitotic condensation complex subunit 1
Probab=94.95 E-value=0.26 Score=39.88 Aligned_cols=105 Identities=17% Similarity=0.166 Sum_probs=81.4
Q ss_pred HHHHHHHhhcCCCch---hHHHHHHhhccCC--chHhhHHHHHHHHHhcCCCchhhhccChhHHHHHHHHhccCccHHHH
Q psy3040 20 RAVDVLVIIREPHDK---FLFDRVAETLRSP--STRLGALTLLGHIVQRQPTWLYKIMSHPTLMKDLLKILKTESDMVEV 94 (189)
Q Consensus 20 ~~~~iL~~~g~~~pk---~l~~~ln~~~~~~--~~Rl~~L~LL~~~v~~qp~~l~~I~~t~~L~~~LLkcL~~D~s~~vv 94 (189)
|+.-++.....++|. .+...+-.++..+ .-|..|+..|.+++....- -.+.. +|..+++|+ .|.+..+-
T Consensus 7 n~i~~l~DL~~r~~~~ve~~~~~l~~~L~D~~~~VR~~al~~Ls~Li~~d~i----k~k~~-l~~~~l~~l-~D~~~~Ir 80 (178)
T PF12717_consen 7 NAIIALGDLCIRYPNLVEPYLPNLYKCLRDEDPLVRKTALLVLSHLILEDMI----KVKGQ-LFSRILKLL-VDENPEIR 80 (178)
T ss_pred HHHHHHHHHHHhCcHHHHhHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCce----eehhh-hhHHHHHHH-cCCCHHHH
Confidence 455566666666665 5666777777754 6899999999999886433 33455 889999998 89999999
Q ss_pred HHHHHHHHHHhcc-cccchhhhHHHHHHHHHHHhccc
Q psy3040 95 ISALLVLNILLPI-IPGLIGSHLTDIFEVFSRLAAWN 130 (189)
Q Consensus 95 ~~al~~LimLLP~-ip~~l~~~Lp~Lf~If~Rl~~W~ 130 (189)
..|..++.-+.-. -|+.+.+++|++...+.....|.
T Consensus 81 ~~A~~~~~e~~~~~~~~~i~~~~~e~i~~l~~~~~~~ 117 (178)
T PF12717_consen 81 SLARSFFSELLKKRNPNIIYNNFPELISSLNNCYEHP 117 (178)
T ss_pred HHHHHHHHHHHHhccchHHHHHHHHHHHHHhCccccc
Confidence 9999999998888 88999999999988776655554
No 3
>PF08167 RIX1: rRNA processing/ribosome biogenesis
Probab=91.45 E-value=1.4 Score=35.42 Aligned_cols=96 Identities=22% Similarity=0.315 Sum_probs=73.0
Q ss_pred CCchhHHHHHHhhccC--CchHhhHHHHHHHHHhcCCCchhhhccChhHHHHHHHHhccCccHHHHHHHHHHHHHHhccc
Q psy3040 31 PHDKFLFDRVAETLRS--PSTRLGALTLLGHIVQRQPTWLYKIMSHPTLMKDLLKILKTESDMVEVISALLVLNILLPII 108 (189)
Q Consensus 31 ~~pk~l~~~ln~~~~~--~~~Rl~~L~LL~~~v~~qp~~l~~I~~t~~L~~~LLkcL~~D~s~~vv~~al~~LimLLP~i 108 (189)
..=..+.++++..+++ +..|-.++.|++..++..+ |---+.+..+.+..+++.|+.+.+..+..+|+.++..++-.+
T Consensus 21 ~~l~~l~~ri~~LL~s~~~~~rw~G~~Ll~~~~~~~~-~e~l~~~~~~W~~~Ll~~L~~~~~~~~~~~ai~~L~~l~~~~ 99 (165)
T PF08167_consen 21 SALHKLVTRINSLLQSKSAYSRWAGLCLLKVTVEQCS-WEILLSHGSQWLRALLSILEKPDPPSVLEAAIITLTRLFDLI 99 (165)
T ss_pred HHHHHHHHHHHHHhCCCChhhHHHHHHHHHHHHHHhh-HHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHh
Confidence 3446788999999998 7899999999999988654 333323333489999999999999999999999888887665
Q ss_pred ccc-------hhhhHHHHHHHHHHHh
Q psy3040 109 PGL-------IGSHLTDIFEVFSRLA 127 (189)
Q Consensus 109 p~~-------l~~~Lp~Lf~If~Rl~ 127 (189)
-.. ..+.+|.+..-+..+.
T Consensus 100 ~~~p~l~Rei~tp~l~~~i~~ll~l~ 125 (165)
T PF08167_consen 100 RGKPTLTREIATPNLPKFIQSLLQLL 125 (165)
T ss_pred cCCCchHHHHhhccHHHHHHHHHHHH
Confidence 543 3467777776666654
No 4
>PF12755 Vac14_Fab1_bd: Vacuolar 14 Fab1-binding region
Probab=85.39 E-value=5 Score=29.87 Aligned_cols=77 Identities=21% Similarity=0.239 Sum_probs=59.3
Q ss_pred hHhhHHHHHHHHHhcCCCchhhhccChhHHHHHHHHhccCccHHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHhc
Q psy3040 49 TRLGALTLLGHIVQRQPTWLYKIMSHPTLMKDLLKILKTESDMVEVISALLVLNILLPIIPGLIGSHLTDIFEVFSRLAA 128 (189)
Q Consensus 49 ~Rl~~L~LL~~~v~~qp~~l~~I~~t~~L~~~LLkcL~~D~s~~vv~~al~~LimLLP~ip~~l~~~Lp~Lf~If~Rl~~ 128 (189)
+|..+|+=|.++...=+..+.+..++ +++.+|+|+. |.|.-|=-.|.-+|..+.=.....+-++++++|+...|+..
T Consensus 2 ~R~ggli~Laa~ai~l~~~~~~~l~~--Il~pVL~~~~-D~d~rVRy~AcEaL~ni~k~~~~~~l~~f~~IF~~L~kl~~ 78 (97)
T PF12755_consen 2 YRKGGLIGLAAVAIALGKDISKYLDE--ILPPVLKCFD-DQDSRVRYYACEALYNISKVARGEILPYFNEIFDALCKLSA 78 (97)
T ss_pred chhHHHHHHHHHHHHchHhHHHHHHH--HHHHHHHHcC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 57778888887766666665444432 7888888864 88888888888888888877777788899999999999764
No 5
>PF10363 DUF2435: Protein of unknown function (DUF2435)
Probab=82.14 E-value=15 Score=27.14 Aligned_cols=71 Identities=20% Similarity=0.294 Sum_probs=52.5
Q ss_pred CchHhhHHHHHHHHHhcCCCchhhhccChhHHHHHHHHhccCccHHHHHHHHHHHHHHhcccccchhhhHHHHHHHHH
Q psy3040 47 PSTRLGALTLLGHIVQRQPTWLYKIMSHPTLMKDLLKILKTESDMVEVISALLVLNILLPIIPGLIGSHLTDIFEVFS 124 (189)
Q Consensus 47 ~~~Rl~~L~LL~~~v~~qp~~l~~I~~t~~L~~~LLkcL~~D~s~~vv~~al~~LimLLP~ip~~l~~~Lp~Lf~If~ 124 (189)
++-|-.+|.+|.++|+++. ..+.+-+ -.-.++.....|.|+-+--.|+-++..|.-..|.. .+|.|.+.|.
T Consensus 17 ~PvRa~gL~~L~~Li~~~~---~~~~~~~-~il~l~l~~L~d~DsyVYL~aI~~L~~La~~~p~~---vl~~L~~~y~ 87 (92)
T PF10363_consen 17 PPVRAHGLVLLRKLIESKS---EPVIDIP-KILDLFLSQLKDEDSYVYLNAIKGLAALADRHPDE---VLPILLDEYA 87 (92)
T ss_pred cchHHHHHHHHHHHHHcCC---cchhhHH-HHHHHHHHHcCCCCchHHHHHHHHHHHHHHHChHH---HHHHHHHHHh
Confidence 5799999999999999887 4444555 44445566677888888888988888887777763 4555555554
No 6
>PF03224 V-ATPase_H_N: V-ATPase subunit H; InterPro: IPR004908 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 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: 0046961 proton-transporting ATPase activity, rotational mechanism, 0015991 ATP hydrolysis coupled proton transport, 0000221 vacuolar proton-transporting V-type ATPase, V1 domain; PDB: 1HO8_A.
Probab=81.01 E-value=11 Score=33.10 Aligned_cols=103 Identities=17% Similarity=0.212 Sum_probs=61.7
Q ss_pred HHHHHhhcCCCchhHHHHHHhhccCCchHhhHHHHHHHHHhcCCCchhhhccCh-----hHHHHHHHHhccCccHHHHHH
Q psy3040 22 VDVLVIIREPHDKFLFDRVAETLRSPSTRLGALTLLGHIVQRQPTWLYKIMSHP-----TLMKDLLKILKTESDMVEVIS 96 (189)
Q Consensus 22 ~~iL~~~g~~~pk~l~~~ln~~~~~~~~Rl~~L~LL~~~v~~qp~~l~~I~~t~-----~L~~~LLkcL~~D~s~~vv~~ 96 (189)
.+++..-|+..-+-|++.++..-.+++..--+|++++.+++..|.....+.+.. ..|..+++.+..+ |..+...
T Consensus 46 ~~~~~~~~~~~~~~~l~lL~~~~~~~d~v~yvL~li~dll~~~~~~~~~~~~~~~~~~~~~~~~fl~ll~~~-D~~i~~~ 124 (312)
T PF03224_consen 46 RELLEEDGDQYASLFLNLLNKLSSNDDTVQYVLTLIDDLLSDDPSRVELFLELAKQDDSDPYSPFLKLLDRN-DSFIQLK 124 (312)
T ss_dssp ----------------HHHHHH---HHHHHHHHHHHHHHHH-SSSSHHHHHHHHH-TTH--HHHHHHH-S-S-SHHHHHH
T ss_pred HHHHHhchhhHHHHHHHHHHHccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHhcccccchhHHHHHHHhcCC-CHHHHHH
Confidence 347777788888888888888867788999999999999999998865555422 1688899955555 8888899
Q ss_pred HHHHHHHHhcccccchh----hhHHHHHHHHHH
Q psy3040 97 ALLVLNILLPIIPGLIG----SHLTDIFEVFSR 125 (189)
Q Consensus 97 al~~LimLLP~ip~~l~----~~Lp~Lf~If~R 125 (189)
|..+++.++..-+.... ..++.+|.....
T Consensus 125 a~~iLt~Ll~~~~~~~~~~~~~~l~~ll~~L~~ 157 (312)
T PF03224_consen 125 AAFILTSLLSQGPKRSEKLVKEALPKLLQWLSS 157 (312)
T ss_dssp HHHHHHHHHTSTTT--HHHHHHHHHHHHHHHH-
T ss_pred HHHHHHHHHHcCCccccchHHHHHHHHHHHHHH
Confidence 99999999999887655 467777666554
No 7
>PF12460 MMS19_C: RNAPII transcription regulator C-terminal; InterPro: IPR024687 This domain, approximately 60 amino acids in length, is found in the N-terminal region of MMS19 proteins. MMS19 is required for both nucleotide excision repair (NER) and RNA polymerase II (RNAP II) transcription [].
Probab=78.31 E-value=8.9 Score=35.06 Aligned_cols=76 Identities=25% Similarity=0.340 Sum_probs=63.2
Q ss_pred hHhhHHHHHHHHHhcCCCchhhhccChhHHHHHHHHhccCccHHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHH
Q psy3040 49 TRLGALTLLGHIVQRQPTWLYKIMSHPTLMKDLLKILKTESDMVEVISALLVLNILLPIIPGLIGSHLTDIFEVFSRL 126 (189)
Q Consensus 49 ~Rl~~L~LL~~~v~~qp~~l~~I~~t~~L~~~LLkcL~~D~s~~vv~~al~~LimLLP~ip~~l~~~Lp~Lf~If~Rl 126 (189)
.|-.-|+-|++++++=|..+..=--.. |++=|+.+|..++. .+..+++.++.+++-.-|..+.+|+.+|...+.++
T Consensus 339 ~k~~yL~ALs~ll~~vP~~vl~~~l~~-LlPLLlqsL~~~~~-~v~~s~L~tL~~~l~~~~~~i~~hl~sLI~~LL~l 414 (415)
T PF12460_consen 339 IKSNYLTALSHLLKNVPKSVLLPELPT-LLPLLLQSLSLPDA-DVLLSSLETLKMILEEAPELISEHLSSLIPRLLKL 414 (415)
T ss_pred hHHHHHHHHHHHHhhCCHHHHHHHHHH-HHHHHHHHhCCCCH-HHHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHHhc
Confidence 477789999999998887775444444 99999999976655 48889999999999999999999999998877665
No 8
>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=74.80 E-value=10 Score=26.78 Aligned_cols=56 Identities=13% Similarity=0.020 Sum_probs=43.5
Q ss_pred CCchHhhHHHHHHHHHhcCCCchhhhccChhHHHHHHHHhccCccHHHHHHHHHHHHH
Q psy3040 46 SPSTRLGALTLLGHIVQRQPTWLYKIMSHPTLMKDLLKILKTESDMVEVISALLVLNI 103 (189)
Q Consensus 46 ~~~~Rl~~L~LL~~~v~~qp~~l~~I~~t~~L~~~LLkcL~~D~s~~vv~~al~~Lim 103 (189)
.+.-|..++..|+.+.+..+.-..++.+.. +.+.+++++..+ +..+...|+.++.-
T Consensus 62 ~~~v~~~a~~~L~~l~~~~~~~~~~~~~~g-~l~~l~~~l~~~-~~~~~~~a~~~l~~ 117 (120)
T cd00020 62 DEEVVKAALWALRNLAAGPEDNKLIVLEAG-GVPKLVNLLDSS-NEDIQKNATGALSN 117 (120)
T ss_pred CHHHHHHHHHHHHHHccCcHHHHHHHHHCC-ChHHHHHHHhcC-CHHHHHHHHHHHHH
Confidence 456788899999999988777777888888 999999998765 55666666655543
No 9
>cd00020 ARM Armadillo/beta-catenin-like repeats. An approximately 40 amino acid long tandemly repeated sequence motif first identified in the Drosophila segment polarity gene armadillo; these repeats were also found in the mammalian armadillo homolog beta-catenin, the junctional plaque protein plakoglobin, the adenomatous polyposis coli (APC) tumor suppressor protein, and a number of other proteins. ARM has been implicated in mediating protein-protein interactions, but no common features among the target proteins recognized by the ARM repeats have been identified; related to the HEAT domain; three consecutive copies of the repeat are represented by this alignment model.
Probab=72.77 E-value=13 Score=26.23 Aligned_cols=61 Identities=18% Similarity=0.120 Sum_probs=51.3
Q ss_pred CchHhhHHHHHHHHHhcCCCchhhhccChhHHHHHHHHhccCccHHHHHHHHHHHHHHhcccc
Q psy3040 47 PSTRLGALTLLGHIVQRQPTWLYKIMSHPTLMKDLLKILKTESDMVEVISALLVLNILLPIIP 109 (189)
Q Consensus 47 ~~~Rl~~L~LL~~~v~~qp~~l~~I~~t~~L~~~LLkcL~~D~s~~vv~~al~~LimLLP~ip 109 (189)
++.|..++..++.+....|.....+.+.. .++.+++++.. .+..+...|+.+|.-+.-.-+
T Consensus 21 ~~~~~~a~~~l~~l~~~~~~~~~~~~~~~-~i~~l~~~l~~-~~~~v~~~a~~~L~~l~~~~~ 81 (120)
T cd00020 21 ENVQREAAWALSNLSAGNNDNIQAVVEAG-GLPALVQLLKS-EDEEVVKAALWALRNLAAGPE 81 (120)
T ss_pred HHHHHHHHHHHHHHhcCCHHHHHHHHHCC-ChHHHHHHHhC-CCHHHHHHHHHHHHHHccCcH
Confidence 46899999999999888899999999999 99999999874 577888888888887765543
No 10
>PF10508 Proteasom_PSMB: Proteasome non-ATPase 26S subunit; InterPro: IPR019538 The 26S proteasome is an enzymatic complex that degrades ubiquitinated proteins in eukaryotic cells. 26S proteasome non-ATPase regulatory subunit 5 is one of a number of chaperones that are involved in the assembly of the proteasome. The chaperones dissociate before 26S proteasome formation is complete [].; GO: 0044183 protein binding involved in protein folding
Probab=71.07 E-value=19 Score=34.03 Aligned_cols=95 Identities=20% Similarity=0.191 Sum_probs=68.5
Q ss_pred HHHHHHHHhhcCCCchhH--------HHHHHhhccC--CchHhhHHHHHHHHHhcCCCchhhhccChhHHHHHHHHhccC
Q psy3040 19 LRAVDVLVIIREPHDKFL--------FDRVAETLRS--PSTRLGALTLLGHIVQRQPTWLYKIMSHPTLMKDLLKILKTE 88 (189)
Q Consensus 19 ~~~~~iL~~~g~~~pk~l--------~~~ln~~~~~--~~~Rl~~L~LL~~~v~~qp~~l~~I~~t~~L~~~LLkcL~~D 88 (189)
+.|.++|.+..+. +..+ .+.|.+.+.+ ...|.+++-++..+.+..+.....+.++. +++.++++|+-
T Consensus 137 ~~A~~~L~~l~~~-~~~~~~l~~~~~~~~L~~l~~~~~~~vR~Rv~el~v~i~~~S~~~~~~~~~sg-ll~~ll~eL~~- 213 (503)
T PF10508_consen 137 KAAIKALKKLASH-PEGLEQLFDSNLLSKLKSLMSQSSDIVRCRVYELLVEIASHSPEAAEAVVNSG-LLDLLLKELDS- 213 (503)
T ss_pred HHHHHHHHHHhCC-chhHHHHhCcchHHHHHHHHhccCHHHHHHHHHHHHHHHhcCHHHHHHHHhcc-HHHHHHHHhcC-
Confidence 4556677777653 3333 6677887877 34899999999999998899999999999 99999999987
Q ss_pred ccHHHHHHHHHHHHHHhcccccchhhhHHH
Q psy3040 89 SDMVEVISALLVLNILLPIIPGLIGSHLTD 118 (189)
Q Consensus 89 ~s~~vv~~al~~LimLLP~ip~~l~~~Lp~ 118 (189)
.|+-+-..++-++..|-= ..+.-.||.+
T Consensus 214 dDiLvqlnalell~~La~--~~~g~~yL~~ 241 (503)
T PF10508_consen 214 DDILVQLNALELLSELAE--TPHGLQYLEQ 241 (503)
T ss_pred ccHHHHHHHHHHHHHHHc--ChhHHHHHHh
Confidence 666666666655555532 3334444443
No 11
>PF10521 DUF2454: Protein of unknown function (DUF2454); InterPro: IPR018870 Putative protein of unknown function; subunit of the ASTRA complex which is part of the chromatin remodeling machinery; similar to Schizosaccharomyces pombe (Fission yeast) Tti2p; may interact with Rsm23p [].
Probab=70.79 E-value=9.4 Score=33.24 Aligned_cols=88 Identities=15% Similarity=0.169 Sum_probs=59.6
Q ss_pred HHHHHHhhccCCchHhhHHHHHHHHHhcCCCch-hhhccCh--h-HHHHHHHHhc-------cCccHHHHHHHHHHHHHH
Q psy3040 36 LFDRVAETLRSPSTRLGALTLLGHIVQRQPTWL-YKIMSHP--T-LMKDLLKILK-------TESDMVEVISALLVLNIL 104 (189)
Q Consensus 36 l~~~ln~~~~~~~~Rl~~L~LL~~~v~~qp~~l-~~I~~t~--~-L~~~LLkcL~-------~D~s~~vv~~al~~LimL 104 (189)
.++.+|++ .++.|.+.+.+|.+++.+-|.-. ..+.+|. + +.+.+.+||. .|.+..++..|.-++..|
T Consensus 124 iL~llDD~--~~~~K~~G~~lL~~ll~~~~~~~~~~L~~tGl~~v~~~al~~~L~~LP~~tp~~~s~~Ll~~ay~~L~~L 201 (282)
T PF10521_consen 124 ILNLLDDY--SPEIKIQGCQLLHHLLEKVPAAEWDILRRTGLFSVFEDALFPCLYYLPPITPEDESLELLQAAYPALLSL 201 (282)
T ss_pred HHHHhcCC--CHHHHHHHHHHHHHHHHhCChhhhHHHHHcChHHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHHHHHH
Confidence 57788888 88999999999999999766655 1233332 1 2334666776 388889999999999999
Q ss_pred hcccccch-hhhHHHHHHHHHH
Q psy3040 105 LPIIPGLI-GSHLTDIFEVFSR 125 (189)
Q Consensus 105 LP~ip~~l-~~~Lp~Lf~If~R 125 (189)
++.....- ...-..+..+...
T Consensus 202 ~~~~~~~~~~~r~~~l~~~l~e 223 (282)
T PF10521_consen 202 LKTQENDDSNPRSTWLDKILRE 223 (282)
T ss_pred HHhhccCCcccchHHHHHHHHH
Confidence 88764321 1333444444443
No 12
>PF08167 RIX1: rRNA processing/ribosome biogenesis
Probab=69.02 E-value=58 Score=26.06 Aligned_cols=75 Identities=24% Similarity=0.248 Sum_probs=54.5
Q ss_pred hhHHHHHHHHHhcCCCchhhhccChhHHHHHHHHh-ccCccHHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHh
Q psy3040 51 LGALTLLGHIVQRQPTWLYKIMSHPTLMKDLLKIL-KTESDMVEVISALLVLNILLPIIPGLIGSHLTDIFEVFSRLA 127 (189)
Q Consensus 51 l~~L~LL~~~v~~qp~~l~~I~~t~~L~~~LLkcL-~~D~s~~vv~~al~~LimLLP~ip~~l~~~Lp~Lf~If~Rl~ 127 (189)
..+|+-+-..++..|...-+++ || -...++..+ +...+..+...++-+|..++++-|+...++-..+-.+...+.
T Consensus 89 i~~L~~l~~~~~~~p~l~Rei~-tp-~l~~~i~~ll~l~~~~~~~~~~l~~L~~ll~~~ptt~rp~~~ki~~~l~~ll 164 (165)
T PF08167_consen 89 IITLTRLFDLIRGKPTLTREIA-TP-NLPKFIQSLLQLLQDSSCPETALDALATLLPHHPTTFRPFANKIESALLSLL 164 (165)
T ss_pred HHHHHHHHHHhcCCCchHHHHh-hc-cHHHHHHHHHHHHhccccHHHHHHHHHHHHHHCCccccchHHHHHHHHHHHh
Confidence 4556666666677777766665 66 555555544 444447788899999999999999999999988887766543
No 13
>PF14500 MMS19_N: Dos2-interacting transcription regulator of RNA-Pol-II
Probab=68.99 E-value=33 Score=29.86 Aligned_cols=75 Identities=21% Similarity=0.410 Sum_probs=63.0
Q ss_pred CchHhhHHHHHHHHHhcCCCchhhhccChhHHHHHHHHhccCccHHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHH
Q psy3040 47 PSTRLGALTLLGHIVQRQPTWLYKIMSHPTLMKDLLKILKTESDMVEVISALLVLNILLPIIPGLIGSHLTDIFEVFSR 125 (189)
Q Consensus 47 ~~~Rl~~L~LL~~~v~~qp~~l~~I~~t~~L~~~LLkcL~~D~s~~vv~~al~~LimLLP~ip~~l~~~Lp~Lf~If~R 125 (189)
.++|...+.++..++.++..-+... ... ....++.+..-+.|+-.+..+--.+-.++-..+ ++++..++|+++.-
T Consensus 96 q~~R~~~~~ll~~l~~~~~~~l~~~-~~~-fv~~~i~~~~gEkDPRnLl~~F~l~~~i~~~~~--~~~~~e~lFd~~~c 170 (262)
T PF14500_consen 96 QSTRYAVYQLLDSLLENHREALQSM-GDD-FVYGFIQLIDGEKDPRNLLLSFKLLKVILQEFD--ISEFAEDLFDVFSC 170 (262)
T ss_pred HHHHHHHHHHHHHHHHHhHHHHHhc-hhH-HHHHHHHHhccCCCHHHHHHHHHHHHHHHHhcc--cchhHHHHHHHhhh
Confidence 5699999999999999987777333 356 888999999999999999888777777777777 49999999999874
No 14
>PF11701 UNC45-central: Myosin-binding striated muscle assembly central; InterPro: IPR024660 The UNC-45 or small muscle protein 1 of Caenorhabditis elegans is expressed in two forms from different genomic positions in mammals: as a general tissue protein (UNC-45a) and as a specific form (UNC-45b) expressed only in striated and skeletal muscle. Myofibril formation requires both UNC-45 forms, consistent with the fact that the cytoskeleton is necessary for the development and maintenance of organised myofibrils []. Rng3 (Ring assembly protein 3), the homologue in Schizosaccharomyces pombe, is crucial for cell shape, normal actin cytoskeleton, and contractile ring assembly, and is essential for assembly of the myosin II-containing progenitors of the contractile ring. Widespread defects in the cytoskeleton are found in null mutants of all three fungal proteins []. Mammalian Unc45 is found to act as a specific chaperone during the folding of myosin and the assembly of striated muscle by forming a stable complex with the general chaperone Hsp90 []. All members carry up to three amino-terminal tetratricopeptide repeat (TPR) and a UCS domain at the C terminus that contains a number of Arm repeats. ; PDB: 3OPB_A 3NOW_A.
Probab=64.60 E-value=17 Score=28.97 Aligned_cols=89 Identities=20% Similarity=0.256 Sum_probs=61.5
Q ss_pred hhHHHHHHhhccCCchHhhHHHHHHHHHhcCCCchhhhccChhHHHHHHHHhccCccHHHHHHHHHHHHHHhcccccchh
Q psy3040 34 KFLFDRVAETLRSPSTRLGALTLLGHIVQRQPTWLYKIMSHPTLMKDLLKILKTESDMVEVISALLVLNILLPIIPGLIG 113 (189)
Q Consensus 34 k~l~~~ln~~~~~~~~Rl~~L~LL~~~v~~qp~~l~~I~~t~~L~~~LLkcL~~D~s~~vv~~al~~LimLLP~ip~~l~ 113 (189)
+-++..++..-..++.|-.++..+..+....+.- -+. .+...++.+..+.+.-....|+.++.+++|..|....
T Consensus 6 ~~lL~~L~~~~~~~~~r~~a~v~l~k~l~~~~~~-----~~~-~~~~~i~~~~~~~~~d~~i~~~~~l~~lfp~~~dv~~ 79 (157)
T PF11701_consen 6 DTLLTSLDMLRQPEEVRSHALVILSKLLDAAREE-----FKE-KISDFIESLLDEGEMDSLIIAFSALTALFPGPPDVGS 79 (157)
T ss_dssp CHHHHHHHCTTTSCCHHHHHHHHHHHHHHHHHHH-----HHH-HHHHHHHHHHCCHHCCHHHHHHHHHHHHCTTTHHHHH
T ss_pred HHHHHHhcccCCCHhHHHHHHHHHHHHHHHhHHH-----HHH-HHHHHHHHHHccccchhHHHHHHHHHHHhCCCHHHHH
Confidence 4456666666667889999999999996333322 234 5666666666666666888899999999999998755
Q ss_pred hhH--HHHHHHHHHHhc
Q psy3040 114 SHL--TDIFEVFSRLAA 128 (189)
Q Consensus 114 ~~L--p~Lf~If~Rl~~ 128 (189)
+.+ ..+.+....++.
T Consensus 80 ~l~~~eg~~~~l~~~~~ 96 (157)
T PF11701_consen 80 ELFLSEGFLESLLPLAS 96 (157)
T ss_dssp HHCCTTTHHHHHHHHHH
T ss_pred HHHhhhhHHHHHHHHHh
Confidence 332 245555555555
No 15
>KOG0212|consensus
Probab=62.54 E-value=64 Score=31.88 Aligned_cols=95 Identities=21% Similarity=0.301 Sum_probs=68.9
Q ss_pred HHHhhcCCCch------hHHHHHHhhccC--CchHhhHHHHHHHHHhcCCCchhhhccChhHHHHHHHHhccCccHHHHH
Q psy3040 24 VLVIIREPHDK------FLFDRVAETLRS--PSTRLGALTLLGHIVQRQPTWLYKIMSHPTLMKDLLKILKTESDMVEVI 95 (189)
Q Consensus 24 iL~~~g~~~pk------~l~~~ln~~~~~--~~~Rl~~L~LL~~~v~~qp~~l~~I~~t~~L~~~LLkcL~~D~s~~vv~ 95 (189)
++.-++++..+ ...+-+..++.. -++|+.+|.-+.++-++.|..+-.- .++ +|++|||.|. |+|..|+.
T Consensus 319 l~~l~s~~~~~~~id~~~ii~vl~~~l~~~~~~tri~~L~Wi~~l~~~~p~ql~~h-~~~-if~tLL~tLs-d~sd~vvl 395 (675)
T KOG0212|consen 319 LLKLVSSERLKEEIDYGSIIEVLTKYLSDDREETRIAVLNWIILLYHKAPGQLLVH-NDS-IFLTLLKTLS-DRSDEVVL 395 (675)
T ss_pred HHHHHhhhhhccccchHHHHHHHHHHhhcchHHHHHHHHHHHHHHHhhCcchhhhh-ccH-HHHHHHHhhc-CchhHHHH
Confidence 33444555555 455566666664 4699999999999999999987643 345 9999999986 77777887
Q ss_pred HHHHHHHHHhcccccc-----hhhhHHHHHHHHHH
Q psy3040 96 SALLVLNILLPIIPGL-----IGSHLTDIFEVFSR 125 (189)
Q Consensus 96 ~al~~LimLLP~ip~~-----l~~~Lp~Lf~If~R 125 (189)
.++.++. .|+++ .-+++..|.+.|.+
T Consensus 396 ~~L~lla----~i~~s~~~~~~~~fl~sLL~~f~e 426 (675)
T KOG0212|consen 396 LALSLLA----SICSSSNSPNLRKFLLSLLEMFKE 426 (675)
T ss_pred HHHHHHH----HHhcCcccccHHHHHHHHHHHHhh
Confidence 7866554 34433 56888999998885
No 16
>PF13251 DUF4042: Domain of unknown function (DUF4042)
Probab=61.62 E-value=10 Score=31.54 Aligned_cols=59 Identities=19% Similarity=0.153 Sum_probs=44.8
Q ss_pred hHhhHHHHHHHHHhc-C-----CCchhhhccC----hhHHHHHHHHhccCccHHHHHHHHHHHHHHhcc
Q psy3040 49 TRLGALTLLGHIVQR-Q-----PTWLYKIMSH----PTLMKDLLKILKTESDMVEVISALLVLNILLPI 107 (189)
Q Consensus 49 ~Rl~~L~LL~~~v~~-q-----p~~l~~I~~t----~~L~~~LLkcL~~D~s~~vv~~al~~LimLLP~ 107 (189)
-|..||.+|..++++ . ..|-.-+-++ .+--.+|+.|+..|.+.-+=..|+.++..+|=.
T Consensus 2 vR~~Al~~L~al~k~~~~r~l~~yW~~llP~~~~~~~~~~~sLlt~il~Dp~~kvR~aA~~~l~~lL~g 70 (182)
T PF13251_consen 2 VRQAALQCLQALAKSTDKRSLFGYWPALLPDSVLQGRPATPSLLTCILKDPSPKVRAAAASALAALLEG 70 (182)
T ss_pred hhHHHHHHHHHHHHhcCCceeHhhHHHHCCCCCCcCCCCCcchhHHHHcCCchhHHHHHHHHHHHHHHc
Confidence 489999999999998 2 2343333333 114567999999999999999999999998855
No 17
>KOG1248|consensus
Probab=61.31 E-value=55 Score=34.57 Aligned_cols=127 Identities=20% Similarity=0.241 Sum_probs=86.0
Q ss_pred cHHHHHHHHhhc----------CC---CchhHHHHHHhhccCCchHhhH--HHHHHHHHhcCCCchhhhccChhHHHHHH
Q psy3040 18 SLRAVDVLVIIR----------EP---HDKFLFDRVAETLRSPSTRLGA--LTLLGHIVQRQPTWLYKIMSHPTLMKDLL 82 (189)
Q Consensus 18 s~~~~~iL~~~g----------~~---~pk~l~~~ln~~~~~~~~Rl~~--L~LL~~~v~~qp~~l~~I~~t~~L~~~LL 82 (189)
.+++.++|...| +| .-.+|+..|.+-+..-++|..+ ++-+++++..+...+....=+. +++.+-
T Consensus 755 R~~Af~lL~~i~~i~~~~d~g~e~~~~~lnefl~~Isagl~gd~~~~~as~Ivai~~il~e~~~~ld~~~l~~-li~~V~ 833 (1176)
T KOG1248|consen 755 RRNAFALLVFIGAIQSSLDDGNEPASAILNEFLSIISAGLVGDSTRVVASDIVAITHILQEFKNILDDETLEK-LISMVC 833 (1176)
T ss_pred HhhHHHHHHHHHHHHhhhcccccchHHHHHHHHHHHHhhhcccHHHHHHHHHHHHHHHHHHHhccccHHHHHH-HHHHHH
Confidence 456666666666 11 2235555555555555565544 6778888888877766665555 666655
Q ss_pred HHhccCccHHHHHHHHHHHHHHhcccccc-hhhhHHHHHHHHHHHhcccccCCCCCCccchhhhHHhHHHHHHHHH
Q psy3040 83 KILKTESDMVEVISALLVLNILLPIIPGL-IGSHLTDIFEVFSRLAAWNSDNPRQLASSHVLHLQVALYALFYQLY 157 (189)
Q Consensus 83 kcL~~D~s~~vv~~al~~LimLLP~ip~~-l~~~Lp~Lf~If~Rl~~W~~~~~~~~~e~~l~hl~~~~~~lFt~LY 157 (189)
-+| ..++.-++.+|+-.+.++.=.+|-. +.+|+|.|+.-..| |-.+.. .|.+..+..||.+|=
T Consensus 834 ~~L-~s~sreI~kaAI~fikvlv~~~pe~~l~~~~~~LL~sll~---ls~d~k--------~~~r~Kvr~LlekLi 897 (1176)
T KOG1248|consen 834 LYL-ASNSREIAKAAIGFIKVLVYKFPEECLSPHLEELLPSLLA---LSHDHK--------IKVRKKVRLLLEKLI 897 (1176)
T ss_pred HHH-hcCCHHHHHHHHHHHHHHHHcCCHHHHhhhHHHHHHHHHH---HHHhhh--------HHHHHHHHHHHHHHH
Confidence 555 4778889999999999999999966 66888888877777 655432 266666667776653
No 18
>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=58.94 E-value=26 Score=28.54 Aligned_cols=77 Identities=14% Similarity=0.165 Sum_probs=48.7
Q ss_pred chHhhHHHHHHHHHhcC-C-CchhhhccC--hhHHHHHHHHhccCccHHHHHHHHHHHHHHhcccccchhhhHHHHHHHH
Q psy3040 48 STRLGALTLLGHIVQRQ-P-TWLYKIMSH--PTLMKDLLKILKTESDMVEVISALLVLNILLPIIPGLIGSHLTDIFEVF 123 (189)
Q Consensus 48 ~~Rl~~L~LL~~~v~~q-p-~~l~~I~~t--~~L~~~LLkcL~~D~s~~vv~~al~~LimLLP~ip~~l~~~Lp~Lf~If 123 (189)
+.|.++|.=|-.++..+ + .....+.+. . +..-+.+++. |..+.++..|+.++..+..+....+.++...++...
T Consensus 22 ~~r~~al~~L~~l~~~~~~~~~~~~~~~~l~~-~~~~i~~~l~-d~Rs~v~~~A~~~l~~l~~~l~~~~~~~~~~~l~~L 99 (228)
T PF12348_consen 22 EERVEALQKLRSLIKGNAPEDFPPDFVECLRQ-LLDAIIKQLS-DLRSKVSKTACQLLSDLARQLGSHFEPYADILLPPL 99 (228)
T ss_dssp HHHHHHHHHHHHHHHH-B-----HHHHHHHH----HHHHH-S--HH---HHHHHHHHHHHHHHHHGGGGHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHcCCccccHHHHHHHHHH-hHHHHHHHHh-hhHHHHHHHHHHHHHHHHHHHhHhHHHHHHHHHHHH
Confidence 47999999999998887 1 111111110 2 3344555555 777889999999999999999999888888888776
Q ss_pred HHH
Q psy3040 124 SRL 126 (189)
Q Consensus 124 ~Rl 126 (189)
.+.
T Consensus 100 l~~ 102 (228)
T PF12348_consen 100 LKK 102 (228)
T ss_dssp HHG
T ss_pred HHH
Confidence 654
No 19
>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=58.54 E-value=83 Score=27.94 Aligned_cols=55 Identities=27% Similarity=0.187 Sum_probs=38.8
Q ss_pred HHHHHHhhc-cCCchHhhHHHHHHHHHhcCCCchhhhccChhHHHHHHHHhccCcc
Q psy3040 36 LFDRVAETL-RSPSTRLGALTLLGHIVQRQPTWLYKIMSHPTLMKDLLKILKTESD 90 (189)
Q Consensus 36 l~~~ln~~~-~~~~~Rl~~L~LL~~~v~~qp~~l~~I~~t~~L~~~LLkcL~~D~s 90 (189)
+.+.|+.-- ++.+.|..+|.-+.+.++++...=..--...+|...++||++.-.+
T Consensus 45 L~~~Id~l~eK~~~~Re~aL~~l~~~l~~~~~~d~v~~~~~tL~~~~~k~lkkg~~ 100 (309)
T PF05004_consen 45 LKEAIDLLTEKSSSTREAALEALIRALSSRYLPDFVEDRRETLLDALLKSLKKGKS 100 (309)
T ss_pred HHHHHHHHHhcCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHHhccCCH
Confidence 344444433 2577999999999999998765433333344589999999988654
No 20
>PF10508 Proteasom_PSMB: Proteasome non-ATPase 26S subunit; InterPro: IPR019538 The 26S proteasome is an enzymatic complex that degrades ubiquitinated proteins in eukaryotic cells. 26S proteasome non-ATPase regulatory subunit 5 is one of a number of chaperones that are involved in the assembly of the proteasome. The chaperones dissociate before 26S proteasome formation is complete [].; GO: 0044183 protein binding involved in protein folding
Probab=57.72 E-value=71 Score=30.18 Aligned_cols=73 Identities=18% Similarity=0.213 Sum_probs=54.2
Q ss_pred hhHHHHHHhhccCCchHhhHH--HHHHHHHhcCCCchhhhccChhHHHHHHHHhccCccHHHHHHHHHHHHHHhccc
Q psy3040 34 KFLFDRVAETLRSPSTRLGAL--TLLGHIVQRQPTWLYKIMSHPTLMKDLLKILKTESDMVEVISALLVLNILLPII 108 (189)
Q Consensus 34 k~l~~~ln~~~~~~~~Rl~~L--~LL~~~v~~qp~~l~~I~~t~~L~~~LLkcL~~D~s~~vv~~al~~LimLLP~i 108 (189)
..+...+...+..|+..++.+ .-++..++....-...+.++. ++..++.|| .|.|..+-..|+.+|..+..+-
T Consensus 76 ~~~~~~L~~gL~h~~~~Vr~l~l~~l~~~~~~~~~~~~~~~~~~-l~~~i~~~L-~~~d~~Va~~A~~~L~~l~~~~ 150 (503)
T PF10508_consen 76 PQYQPFLQRGLTHPSPKVRRLALKQLGRIARHSEGAAQLLVDNE-LLPLIIQCL-RDPDLSVAKAAIKALKKLASHP 150 (503)
T ss_pred HHHHHHHHHHhcCCCHHHHHHHHHHHHHHhcCCHHHHHHhcCcc-HHHHHHHHH-cCCcHHHHHHHHHHHHHHhCCc
Confidence 445666677777776555544 557888776666566777888 999999999 5778888888888888887653
No 21
>KOG2160|consensus
Probab=57.04 E-value=28 Score=31.97 Aligned_cols=79 Identities=19% Similarity=0.160 Sum_probs=66.2
Q ss_pred HHHHHHhhccCCc--hHhhHHHHHHHHHhcCCCchhhhccChhHHHHHHHHhccCccHHHHHHHHHHHHHHhcccccchh
Q psy3040 36 LFDRVAETLRSPS--TRLGALTLLGHIVQRQPTWLYKIMSHPTLMKDLLKILKTESDMVEVISALLVLNILLPIIPGLIG 113 (189)
Q Consensus 36 l~~~ln~~~~~~~--~Rl~~L~LL~~~v~~qp~~l~~I~~t~~L~~~LLkcL~~D~s~~vv~~al~~LimLLP~ip~~l~ 113 (189)
.+..+..++..++ =|-.|...+|..+|..|.---.+.+.. -+..|++-|..|.+.++-+.|+.++.-+|=+.+.-..
T Consensus 125 gl~~ll~~l~~~~~~lR~~Aa~Vigt~~qNNP~~Qe~v~E~~-~L~~Ll~~ls~~~~~~~r~kaL~AissLIRn~~~g~~ 203 (342)
T KOG2160|consen 125 GLVPLLGYLENSDAELRELAARVIGTAVQNNPKSQEQVIELG-ALSKLLKILSSDDPNTVRTKALFAISSLIRNNKPGQD 203 (342)
T ss_pred CHHHHHHHhcCCcHHHHHHHHHHHHHHHhcCHHHHHHHHHcc-cHHHHHHHHccCCCchHHHHHHHHHHHHHhcCcHHHH
Confidence 3444455666544 688899999999999999999999999 9999999999999999999999999999988776544
Q ss_pred hh
Q psy3040 114 SH 115 (189)
Q Consensus 114 ~~ 115 (189)
.+
T Consensus 204 ~f 205 (342)
T KOG2160|consen 204 EF 205 (342)
T ss_pred HH
Confidence 33
No 22
>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=56.04 E-value=77 Score=25.75 Aligned_cols=107 Identities=21% Similarity=0.179 Sum_probs=61.9
Q ss_pred hhhHHHHHHhccC---cHHHHHHHHhhcCCCc--hhH-HHHHHhhccC--CchHhhHHHHHHHHHhcCCCchhhhccChh
Q psy3040 5 LVNGLVDYFLASN---SLRAVDVLVIIREPHD--KFL-FDRVAETLRS--PSTRLGALTLLGHIVQRQPTWLYKIMSHPT 76 (189)
Q Consensus 5 l~~~lvdy~~~t~---s~~~~~iL~~~g~~~p--k~l-~~~ln~~~~~--~~~Rl~~L~LL~~~v~~qp~~l~~I~~t~~ 76 (189)
++..|++-..+++ +..+.+.|..+-+.-+ ... ...+...... |.-|..++..+..++.+.+.-...+..+.
T Consensus 95 ~l~~Ll~~~~~~~~~i~~~a~~~L~~i~~~~~~~~~~~~~~l~~~~~~Kn~~vR~~~~~~l~~~l~~~~~~~~~l~~~~- 173 (228)
T PF12348_consen 95 LLPPLLKKLGDSKKFIREAANNALDAIIESCSYSPKILLEILSQGLKSKNPQVREECAEWLAIILEKWGSDSSVLQKSA- 173 (228)
T ss_dssp HHHHHHHGGG---HHHHHHHHHHHHHHHTTS-H--HHHHHHHHHHTT-S-HHHHHHHHHHHHHHHTT-----GGG--HH-
T ss_pred HHHHHHHHHccccHHHHHHHHHHHHHHHHHCCcHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHccchHhhhcccc-
Confidence 5566666655543 2345555555555544 344 7777777764 66899999999999999993333333333
Q ss_pred HHHHHHHHh---ccCccHHHHHHHHHHHHHHhcccccch
Q psy3040 77 LMKDLLKIL---KTESDMVEVISALLVLNILLPIIPGLI 112 (189)
Q Consensus 77 L~~~LLkcL---~~D~s~~vv~~al~~LimLLP~ip~~l 112 (189)
.++.+.+.+ ..|.+..|=..|--++.++-=++|..-
T Consensus 174 ~~~~l~~~l~~~l~D~~~~VR~~Ar~~~~~l~~~~~~~a 212 (228)
T PF12348_consen 174 FLKQLVKALVKLLSDADPEVREAARECLWALYSHFPERA 212 (228)
T ss_dssp HHHHHHHHHHHHHTSS-HHHHHHHHHHHHHHHHHH-HHH
T ss_pred hHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHCCHhh
Confidence 333444433 569999999999988888866655543
No 23
>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=54.31 E-value=9.1 Score=24.48 Aligned_cols=52 Identities=25% Similarity=0.336 Sum_probs=35.8
Q ss_pred CchHhhHHHHHHHHHhcCCCchhhhccChhHHHHHHHHhccCccHHHHHHHHHHH
Q psy3040 47 PSTRLGALTLLGHIVQRQPTWLYKIMSHPTLMKDLLKILKTESDMVEVISALLVL 101 (189)
Q Consensus 47 ~~~Rl~~L~LL~~~v~~qp~~l~~I~~t~~L~~~LLkcL~~D~s~~vv~~al~~L 101 (189)
|..|..+..-||.+.+..+...-. .... +++.|.++|+-|.+ .|=..|..+|
T Consensus 1 p~vR~~A~~aLg~l~~~~~~~~~~-~~~~-~~~~L~~~L~d~~~-~VR~~A~~aL 52 (55)
T PF13513_consen 1 PRVRRAAAWALGRLAEGCPELLQP-YLPE-LLPALIPLLQDDDD-SVRAAAAWAL 52 (55)
T ss_dssp HHHHHHHHHHHHCTTTTTHHHHHH-HHHH-HHHHHHHHTTSSSH-HHHHHHHHHH
T ss_pred CHHHHHHHHHHhhHhcccHHHHHH-HHHH-HHHHHHHHHcCCCH-HHHHHHHHHH
Confidence 346888888998876665555544 4455 88999998865555 6666666555
No 24
>PF14225 MOR2-PAG1_C: Cell morphogenesis C-terminal
Probab=50.93 E-value=1.2e+02 Score=26.56 Aligned_cols=88 Identities=24% Similarity=0.378 Sum_probs=63.8
Q ss_pred hccCcHHHHHHHHhhcCCC---chhHHHHHHhhccC---CchHhhHHHHHHHHHhcCCCchhhhccChhHHHHHHHHhcc
Q psy3040 14 LASNSLRAVDVLVIIREPH---DKFLFDRVAETLRS---PSTRLGALTLLGHIVQRQPTWLYKIMSHPTLMKDLLKILKT 87 (189)
Q Consensus 14 ~~t~s~~~~~iL~~~g~~~---pk~l~~~ln~~~~~---~~~Rl~~L~LL~~~v~~qp~~l~~I~~t~~L~~~LLkcL~~ 87 (189)
-+.+-.++.+|+..|.+.+ .++|+..+-.++.. |++-.+++++|..++.+.++|+.. +
T Consensus 144 ~~~~~~~La~il~~ya~~~fr~~~dfl~~v~~~l~~~f~P~~~~~~l~~Ll~lL~n~~~w~~~----~------------ 207 (262)
T PF14225_consen 144 EAQGLPNLARILSSYAKGRFRDKDDFLSQVVSYLREAFFPDHEFQILTFLLGLLENGPPWLRR----K------------ 207 (262)
T ss_pred HhCCCccHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhCCcHHHHH----H------------
Confidence 3345666777777776654 45677777677764 788999999999999988888643 2
Q ss_pred CccHHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHh
Q psy3040 88 ESDMVEVISALLVLNILLPIIPGLIGSHLTDIFEVFSRLA 127 (189)
Q Consensus 88 D~s~~vv~~al~~LimLLP~ip~~l~~~Lp~Lf~If~Rl~ 127 (189)
.+-+|-.++|++... .++-+|+.....|+.
T Consensus 208 ---------~L~iL~~ll~~~d~~-~~~~~dlispllrlL 237 (262)
T PF14225_consen 208 ---------TLQILKVLLPHVDMR-SPHGADLISPLLRLL 237 (262)
T ss_pred ---------HHHHHHHHhccccCC-CCcchHHHHHHHHHh
Confidence 444556677777766 338889999999886
No 25
>PF11919 DUF3437: Domain of unknown function (DUF3437); InterPro: IPR021843 This presumed domain is functionally uncharacterised. This domain is found in eukaryotes. This domain is typically between 142 to 163 amino acids in length. ; PDB: 3L5Q_6 1VSY_5.
Probab=50.74 E-value=20 Score=26.52 Aligned_cols=38 Identities=21% Similarity=0.281 Sum_probs=28.4
Q ss_pred HHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHhc
Q psy3040 91 MVEVISALLVLNILLPIIPGLIGSHLTDIFEVFSRLAA 128 (189)
Q Consensus 91 ~~vv~~al~~LimLLP~ip~~l~~~Lp~Lf~If~Rl~~ 128 (189)
.....+|++.|..++=-.|..+++++|+++..++|.+.
T Consensus 3 ~~~rH~~VLGL~Alv~a~Py~vP~w~P~~l~~La~~~~ 40 (90)
T PF11919_consen 3 LRRRHAAVLGLSALVLAFPYDVPPWMPEVLEELARHAN 40 (90)
T ss_dssp -HHHHHHHHHHHHHHTT-S--SS-HHHHHHHHHHTTSS
T ss_pred HHHHHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHhC
Confidence 34567899999999999999999999999999887665
No 26
>PF07425 Pardaxin: Pardaxin; InterPro: IPR009990 This family consists of several Pardaxin proteins. Pardaxin, a 33-amino-acid pore-forming polypeptide toxin isolated from the Red Sea Moses sole Pardachirus marmoratus, has a helix-hinge-helix structure. This is a common structural motif found both in antibacterial peptides that can act selectively on bacterial membranes (e.g., cecropin), and in cytotoxic peptides that can lyse both mammalian and bacterial cells (e.g., melittin). Pardaxin possesses a high antibacterial activity with a significantly reduced haemolytic activity towards human red blood cells compared with melittin []. Pardaxin has also been found to have a shark repellent action [].; GO: 0005576 extracellular region; PDB: 1XC0_A 2KNS_A.
Probab=49.31 E-value=8.9 Score=23.03 Aligned_cols=17 Identities=47% Similarity=0.675 Sum_probs=14.3
Q ss_pred chhhhccChhHHHHHHHH
Q psy3040 67 WLYKIMSHPTLMKDLLKI 84 (189)
Q Consensus 67 ~l~~I~~t~~L~~~LLkc 84 (189)
-++||+++| ||+++|..
T Consensus 5 lipkiissp-lfktllsa 21 (33)
T PF07425_consen 5 LIPKIISSP-LFKTLLSA 21 (33)
T ss_dssp CHHHHCCTT-TCHHHHHH
T ss_pred hhhHHHccH-HHHHHHHH
Confidence 368999999 99999864
No 27
>PF12783 Sec7_N: Guanine nucleotide exchange factor in Golgi transport N-terminal
Probab=46.30 E-value=67 Score=25.32 Aligned_cols=76 Identities=20% Similarity=0.228 Sum_probs=55.1
Q ss_pred chHhhHHHHHHHHHhcCCCc---------hhhhccChhHHHHHHHHhccCccHHHHHHHHHHHHHHhcccccchhhhHHH
Q psy3040 48 STRLGALTLLGHIVQRQPTW---------LYKIMSHPTLMKDLLKILKTESDMVEVISALLVLNILLPIIPGLIGSHLTD 118 (189)
Q Consensus 48 ~~Rl~~L~LL~~~v~~qp~~---------l~~I~~t~~L~~~LLkcL~~D~s~~vv~~al~~LimLLP~ip~~l~~~Lp~ 118 (189)
..|.-+|-++-+++...++. +-.+++.. +.+.+++.+..+. .++...++.++..++-..-..++.-+..
T Consensus 37 ~~k~l~LeLl~~iL~~~~~~f~~~~~~~~l~~~lk~~-l~~~Ll~~~~~~~-~~i~~~slri~~~l~~~~~~~Lk~ele~ 114 (168)
T PF12783_consen 37 RSKLLSLELLESILENHGSVFRSSEEHPSLINLLKDD-LCPALLKNLSSSD-FPIFSRSLRIFLTLLSRFRSHLKLELEV 114 (168)
T ss_pred HHHHHHHHHHHHHHHhCHHHHhCCcchHHHHHHHHHH-HHHHHHHHHhhhh-hHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 36777777777766655433 33566777 8999999998866 9999999999999997777666666655
Q ss_pred HHHHHHH
Q psy3040 119 IFEVFSR 125 (189)
Q Consensus 119 Lf~If~R 125 (189)
+|.....
T Consensus 115 ~l~~i~~ 121 (168)
T PF12783_consen 115 FLSHIIL 121 (168)
T ss_pred HHHHHHH
Confidence 5554443
No 28
>KOG1517|consensus
Probab=44.48 E-value=22 Score=37.39 Aligned_cols=45 Identities=27% Similarity=0.307 Sum_probs=37.9
Q ss_pred CCchHhhHHHHHHHHHhcCCCchhhhccChhHHHHHHHHhccCccH
Q psy3040 46 SPSTRLGALTLLGHIVQRQPTWLYKIMSHPTLMKDLLKILKTESDM 91 (189)
Q Consensus 46 ~~~~Rl~~L~LL~~~v~~qp~~l~~I~~t~~L~~~LLkcL~~D~s~ 91 (189)
..-||++||.||+.|+--.|=-++.-+.-. +|+=+||.||..+..
T Consensus 483 SQvHRlRAL~LL~RFLDlGpWAV~LaLsVG-IFPYVLKLLQS~a~E 527 (1387)
T KOG1517|consen 483 SQVHRLRALVLLARFLDLGPWAVDLALSVG-IFPYVLKLLQSSARE 527 (1387)
T ss_pred HHHHHHHHHHHHHHHhccchhhhhhhhccc-hHHHHHHHhccchHh
Confidence 456999999999999998666688888888 999999999865443
No 29
>cd00256 VATPase_H VATPase_H, regulatory vacuolar ATP synthase subunit H (Vma13p); activation component of the peripheral V1 complex of V-ATPase, a heteromultimeric enzyme which uses ATP to actively transport protons into organelles and extracellular compartments. The topology is that of a superhelical spiral, in part the geometry is similar to superhelices composed of armadillo repeat motifs, as found in importins for example.
Probab=41.92 E-value=1.2e+02 Score=28.71 Aligned_cols=84 Identities=15% Similarity=0.164 Sum_probs=62.2
Q ss_pred HHHhhcCCCchhHHHHHHhhccCCchHhhHHHHHHHHHhcCCCchhhhccC----hhHHHHHHHHhccCccHHHHHHHHH
Q psy3040 24 VLVIIREPHDKFLFDRVAETLRSPSTRLGALTLLGHIVQRQPTWLYKIMSH----PTLMKDLLKILKTESDMVEVISALL 99 (189)
Q Consensus 24 iL~~~g~~~pk~l~~~ln~~~~~~~~Rl~~L~LL~~~v~~qp~~l~~I~~t----~~L~~~LLkcL~~D~s~~vv~~al~ 99 (189)
.+.+-|+...+-|++.++. ..++++.--+|+|+..+++..|+....+.++ +..+...++.|..| |..+...|..
T Consensus 46 ~~~~~~~~y~~~~l~ll~~-~~~~d~vqyvL~Li~dll~~~~~~~~~f~~~~~~~~~~~~~fl~lL~~~-d~~i~~~a~~ 123 (429)
T cd00256 46 ILDVLSGQYVKTFVNLLSQ-IDKDDTVRYVLTLIDDMLQEDDTRVKLFHDDALLKKKTWEPFFNLLNRQ-DQFIVHMSFS 123 (429)
T ss_pred HhcccHHHHHHHHHHHHhc-cCcHHHHHHHHHHHHHHHHhchHHHHHHHHHhhccccchHHHHHHHcCC-chhHHHHHHH
Confidence 4444555666677777755 6678899999999999999999877666654 33788888877655 6677777888
Q ss_pred HHHHHhcccc
Q psy3040 100 VLNILLPIIP 109 (189)
Q Consensus 100 ~LimLLP~ip 109 (189)
+++.++..=+
T Consensus 124 iLt~l~~~~~ 133 (429)
T cd00256 124 ILAKLACFGL 133 (429)
T ss_pred HHHHHHhcCc
Confidence 8888876533
No 30
>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=37.78 E-value=2e+02 Score=26.29 Aligned_cols=98 Identities=22% Similarity=0.266 Sum_probs=60.7
Q ss_pred HHHHHHHhhcCCCchhHHHH----HHhhccC--CchHhhHHHHHHHHHhcCCCchhhhccChhHHHHHHHHhccCccHHH
Q psy3040 20 RAVDVLVIIREPHDKFLFDR----VAETLRS--PSTRLGALTLLGHIVQRQPTWLYKIMSHPTLMKDLLKILKTESDMVE 93 (189)
Q Consensus 20 ~~~~iL~~~g~~~pk~l~~~----ln~~~~~--~~~Rl~~L~LL~~~v~~qp~~l~~I~~t~~L~~~LLkcL~~D~s~~v 93 (189)
.|+..|.+.+ ..+.... +.+.+.. |.-|-.|+.-+.++.+..|.-... . +++.+.+.| .|.|..|
T Consensus 98 lAL~~l~~i~---~~~~~~~l~~~v~~ll~~~~~~VRk~A~~~l~~i~~~~p~~~~~----~-~~~~l~~lL-~d~~~~V 168 (526)
T PF01602_consen 98 LALRTLSNIR---TPEMAEPLIPDVIKLLSDPSPYVRKKAALALLKIYRKDPDLVED----E-LIPKLKQLL-SDKDPSV 168 (526)
T ss_dssp HHHHHHHHH----SHHHHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCHCCHHG----G-HHHHHHHHT-THSSHHH
T ss_pred HHHhhhhhhc---ccchhhHHHHHHHHHhcCCchHHHHHHHHHHHHHhccCHHHHHH----H-HHHHHhhhc-cCCcchh
Confidence 3555666665 4444443 4444443 457888999999999987764432 2 334444444 8999999
Q ss_pred HHHHHHHHHHHhcccccchhhhHHHHHHHHHHHh
Q psy3040 94 VISALLVLNILLPIIPGLIGSHLTDIFEVFSRLA 127 (189)
Q Consensus 94 v~~al~~LimLLP~ip~~l~~~Lp~Lf~If~Rl~ 127 (189)
+.+|+.++..+ =.-+......++.++....++.
T Consensus 169 ~~~a~~~l~~i-~~~~~~~~~~~~~~~~~L~~~l 201 (526)
T PF01602_consen 169 VSAALSLLSEI-KCNDDSYKSLIPKLIRILCQLL 201 (526)
T ss_dssp HHHHHHHHHHH-HCTHHHHTTHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHH-ccCcchhhhhHHHHHHHhhhcc
Confidence 99999888887 1112222266777777776653
No 31
>PHA02559 59 59 protein; Provisional
Probab=37.32 E-value=35 Score=29.34 Aligned_cols=47 Identities=19% Similarity=0.333 Sum_probs=39.9
Q ss_pred HhhcCCCchhHHHHHHhhccCCchHhhHHHHHHHHHhcCCCchhhhccCh
Q psy3040 26 VIIREPHDKFLFDRVAETLRSPSTRLGALTLLGHIVQRQPTWLYKIMSHP 75 (189)
Q Consensus 26 ~~~g~~~pk~l~~~ln~~~~~~~~Rl~~L~LL~~~v~~qp~~l~~I~~t~ 75 (189)
.++.++++|.||++|.+-+... =-+..+++.||..+..|+..|++..
T Consensus 48 ~aF~KR~DkyfFeKLA~Kf~l~---El~~iflsNfvanp~~wigdi~~~d 94 (216)
T PHA02559 48 AAFNKRRDKYFFEKLAEKYTLK---ELYDIFLSNFVANPDAWIGDISDAD 94 (216)
T ss_pred HHHHhhhhHHHHHHHHHHccHH---HHHHHHHHHHHhCCcceeeecccch
Confidence 4678999999999999999843 2345899999999999999998875
No 32
>PF10441 Urb2: Urb2/Npa2 family; InterPro: IPR018849 This entry represents a conserved domain found towards the C terminus of proteins involved in ribosome biogenesis, such as the Urb2 protein from yeast [].
Probab=36.93 E-value=1.3e+02 Score=25.08 Aligned_cols=38 Identities=21% Similarity=0.263 Sum_probs=25.6
Q ss_pred chhhhHHHHHHHHHHHhcccccCCCCCCccchhhhHHhHHHHH
Q psy3040 111 LIGSHLTDIFEVFSRLAAWNSDNPRQLASSHVLHLQVALYALF 153 (189)
Q Consensus 111 ~l~~~Lp~Lf~If~Rl~~W~~~~~~~~~e~~l~hl~~~~~~lF 153 (189)
.++.|+|-+..-|.++..... ++.+.=.++.|+++.+|
T Consensus 148 ~~~kh~~~lL~~Yi~~~~~~~-----l~~~vr~~L~pGiy~l~ 185 (223)
T PF10441_consen 148 SLRKHAPYLLANYISLQLKYT-----LPPEVREALMPGIYALF 185 (223)
T ss_pred HHHhHHHHHHHHHHHHHhcCC-----CCHHHHHHHHHHHHHHH
Confidence 377999999999999877654 33222335666666555
No 33
>PF12717 Cnd1: non-SMC mitotic condensation complex subunit 1
Probab=36.75 E-value=1e+02 Score=24.64 Aligned_cols=62 Identities=31% Similarity=0.394 Sum_probs=47.6
Q ss_pred CchHhhHHHHHHHHHhcCCCchhhhccChhHHHHHHHHhccCccHHHHHHHHHHHHHHhcccccchhhh
Q psy3040 47 PSTRLGALTLLGHIVQRQPTWLYKIMSHPTLMKDLLKILKTESDMVEVISALLVLNILLPIIPGLIGSH 115 (189)
Q Consensus 47 ~~~Rl~~L~LL~~~v~~qp~~l~~I~~t~~L~~~LLkcL~~D~s~~vv~~al~~LimLLP~ip~~l~~~ 115 (189)
|.-|.-++..+|.+..+.|.-+- | ..+.+.+||. |.++.|=..|+.++.-|+=.=.-+....
T Consensus 2 ~~vR~n~i~~l~DL~~r~~~~ve-----~-~~~~l~~~L~-D~~~~VR~~al~~Ls~Li~~d~ik~k~~ 63 (178)
T PF12717_consen 2 PSVRNNAIIALGDLCIRYPNLVE-----P-YLPNLYKCLR-DEDPLVRKTALLVLSHLILEDMIKVKGQ 63 (178)
T ss_pred HHHHHHHHHHHHHHHHhCcHHHH-----h-HHHHHHHHHC-CCCHHHHHHHHHHHHHHHHcCceeehhh
Confidence 45688999999999999886553 3 5667778876 8889999999999999886544444433
No 34
>PF08993 T4_Gp59_N: T4 gene Gp59 loader of gp41 DNA helicase; InterPro: IPR015085 The Bacteriophage T4 gene 59 helicase assembly protein is required for recombination-dependent DNA replication, which is the predominant mode of DNA replication in the late stage of T4 infection. T4 gene 59 helicase assembly protein accelerates the loading of the T4 gene 41 helicase during DNA synthesis by the T4 replication system in vitro. T4 gene 59 helicase assembly protein binds to both T4 gene 41 helicase and T4 gene 32 single-stranded DNA binding protein, and to single and double-stranded DNA. The structure of T4 gene 59 helicase assembly protein reveals a novel alpha-helical bundle fold with two domains of similar size. Surface residues are predominantly basic (pI 9.37) with clusters of acidic residues but exposed hydrophobic residues suggest sites for potential contact with DNA and with other protein molecules [].; PDB: 1C1K_A.
Probab=34.84 E-value=13 Score=28.00 Aligned_cols=47 Identities=13% Similarity=0.309 Sum_probs=34.5
Q ss_pred HhhcCCCchhHHHHHHhhccCCchHhhHHHHHHHHHhcCCCchhhhccCh
Q psy3040 26 VIIREPHDKFLFDRVAETLRSPSTRLGALTLLGHIVQRQPTWLYKIMSHP 75 (189)
Q Consensus 26 ~~~g~~~pk~l~~~ln~~~~~~~~Rl~~L~LL~~~v~~qp~~l~~I~~t~ 75 (189)
.+|.+++++.||++|.+-+...+ -...+++.||..+..|+-.|++..
T Consensus 35 ~sf~kR~DryfF~KLA~k~~~~E---l~~~fvaNfv~n~~~wig~i~~~d 81 (94)
T PF08993_consen 35 KSFEKRRDRYFFEKLARKFTLKE---LYEYFVANFVANPDGWIGEISDED 81 (94)
T ss_dssp HHHHH-S-HHHHHHHHHH--HHH---HHHHHHHHHHH-HHHHSS-GGGTT
T ss_pred HHHHHhhhHHHHHHHHHHccHHH---HHHHHHHHHhhCCcchhhhhccch
Confidence 57889999999999999888643 677889999999999999997653
No 35
>PTZ00429 beta-adaptin; Provisional
Probab=33.84 E-value=2.1e+02 Score=28.89 Aligned_cols=85 Identities=15% Similarity=0.212 Sum_probs=53.0
Q ss_pred HHhhccC--CchHhhHHHHHHHHHhcCCCchhhhccChhHHHHHHHHhccCccHHHHHHHHHHHHHHhcccccch---hh
Q psy3040 40 VAETLRS--PSTRLGALTLLGHIVQRQPTWLYKIMSHPTLMKDLLKILKTESDMVEVISALLVLNILLPIIPGLI---GS 114 (189)
Q Consensus 40 ln~~~~~--~~~Rl~~L~LL~~~v~~qp~~l~~I~~t~~L~~~LLkcL~~D~s~~vv~~al~~LimLLP~ip~~l---~~ 114 (189)
+.+++.. |-=|-.|..=+.++.+..|.- +.+.. +.+.|.+ +..|.|..|+..|+.+|.-+-..-|..+ .+
T Consensus 145 lkk~L~D~~pYVRKtAalai~Kly~~~pel---v~~~~-~~~~L~~-LL~D~dp~Vv~nAl~aL~eI~~~~~~~l~l~~~ 219 (746)
T PTZ00429 145 LRRAVADPDPYVRKTAAMGLGKLFHDDMQL---FYQQD-FKKDLVE-LLNDNNPVVASNAAAIVCEVNDYGSEKIESSNE 219 (746)
T ss_pred HHHHhcCCCHHHHHHHHHHHHHHHhhCccc---ccccc-hHHHHHH-HhcCCCccHHHHHHHHHHHHHHhCchhhHHHHH
Confidence 3444443 345666666666666666632 23344 5566555 5569999999999999998876665433 45
Q ss_pred hHHHHHHHHHHHhcc
Q psy3040 115 HLTDIFEVFSRLAAW 129 (189)
Q Consensus 115 ~Lp~Lf~If~Rl~~W 129 (189)
++..|.+....+.-|
T Consensus 220 ~~~~Ll~~L~e~~EW 234 (746)
T PTZ00429 220 WVNRLVYHLPECNEW 234 (746)
T ss_pred HHHHHHHHhhcCChH
Confidence 555555555444455
No 36
>KOG1243|consensus
Probab=33.78 E-value=3.8e+02 Score=27.01 Aligned_cols=116 Identities=13% Similarity=0.163 Sum_probs=79.8
Q ss_pred HHhccCcHHHHHHHHhhcCCCch-----hHHHHHHhhccCCchHhhHHHHHHHHHhcCCCchhhhccChhHHHHHHHHhc
Q psy3040 12 YFLASNSLRAVDVLVIIREPHDK-----FLFDRVAETLRSPSTRLGALTLLGHIVQRQPTWLYKIMSHPTLMKDLLKILK 86 (189)
Q Consensus 12 y~~~t~s~~~~~iL~~~g~~~pk-----~l~~~ln~~~~~~~~Rl~~L~LL~~~v~~qp~~l~~I~~t~~L~~~LLkcL~ 86 (189)
+-+.+..+..+.-|.+.|+-.++ .+...|-..|+.++ |--=+.||.++-.==+.--..+++.. .|+++..-+
T Consensus 302 ~~~g~a~~~~ltpl~k~~k~ld~~eyq~~i~p~l~kLF~~~D-r~iR~~LL~~i~~~i~~Lt~~~~~d~-I~phv~~G~- 378 (690)
T KOG1243|consen 302 LEFGDAASDFLTPLFKLGKDLDEEEYQVRIIPVLLKLFKSPD-RQIRLLLLQYIEKYIDHLTKQILNDQ-IFPHVALGF- 378 (690)
T ss_pred hhccccchhhhhHHHHhhhhccccccccchhhhHHHHhcCcc-hHHHHHHHHhHHHHhhhcCHHhhcch-hHHHHHhhc-
Confidence 34455667777777777765544 46666767777653 33333444444332223345788899 999887654
Q ss_pred cCccHHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHhcccccC
Q psy3040 87 TESDMVEVISALLVLNILLPIIPGLIGSHLTDIFEVFSRLAAWNSDN 133 (189)
Q Consensus 87 ~D~s~~vv~~al~~LimLLP~ip~~l~~~Lp~Lf~If~Rl~~W~~~~ 133 (189)
.|+|.++..-.+.++..|.|..... .-=-++...|+|+.. |+.+
T Consensus 379 ~DTn~~Lre~Tlksm~~La~kL~~~--~Ln~Ellr~~ar~q~-d~~~ 422 (690)
T KOG1243|consen 379 LDTNATLREQTLKSMAVLAPKLSKR--NLNGELLRYLARLQP-DEHG 422 (690)
T ss_pred ccCCHHHHHHHHHHHHHHHhhhchh--hhcHHHHHHHHhhCc-cccC
Confidence 5999999999999999999998776 333678899999988 6554
No 37
>PF04499 SAPS: SIT4 phosphatase-associated protein; InterPro: IPR007587 The SAPS family consists of proteins that associate with the SIT4 phosphatase protein []. This association is required for SIT4's role in G1 cyclin transcription and for bud formation in yeast.
Probab=31.86 E-value=3.1e+02 Score=26.06 Aligned_cols=80 Identities=18% Similarity=0.223 Sum_probs=59.0
Q ss_pred HHHHHHhccCcHHHHHHHHhhcCCCchhHHHHHHhhccCCchHhhHHHHHHHHHhcCCCchhhhccChhHHHHHHHHhcc
Q psy3040 8 GLVDYFLASNSLRAVDVLVIIREPHDKFLFDRVAETLRSPSTRLGALTLLGHIVQRQPTWLYKIMSHPTLMKDLLKILKT 87 (189)
Q Consensus 8 ~lvdy~~~t~s~~~~~iL~~~g~~~pk~l~~~ln~~~~~~~~Rl~~L~LL~~~v~~qp~~l~~I~~t~~L~~~LLkcL~~ 87 (189)
.+++| +++...-+..+|...+-+.-.+|+-++=. ..+++.+-..+-.|.. .. |++.|+..|..
T Consensus 11 e~l~F-ik~~~~~v~~llkHI~~~~ImDlLLklIs-~d~~~~~~~ilewL~~--------------q~-LI~~Li~~L~p 73 (475)
T PF04499_consen 11 EMLEF-IKSQPNFVDNLLKHIDTPAIMDLLLKLIS-TDKPESPTGILEWLAE--------------QN-LIPRLIDLLSP 73 (475)
T ss_pred HHHHH-HHhCccHHHHHHHhcCCcHHHHHHHHHHc-cCcccchHHHHHHHHH--------------hC-HHHHHHHHhCC
Confidence 45666 67778888888888888888888888766 5667777777766655 34 99999999987
Q ss_pred CccHHHHHHHHHHHHHH
Q psy3040 88 ESDMVEVISALLVLNIL 104 (189)
Q Consensus 88 D~s~~vv~~al~~LimL 104 (189)
+.+..+-+.|--+|.-+
T Consensus 74 ~~~~~~q~naa~~L~aI 90 (475)
T PF04499_consen 74 SYSSDVQSNAADFLKAI 90 (475)
T ss_pred CCCHHHHHHHHHHHHHH
Confidence 77777666665554444
No 38
>PF11935 DUF3453: Domain of unknown function (DUF3453); InterPro: IPR021850 This presumed domain is functionally uncharacterised. This domain is found in eukaryotes. This domain is typically between 239 to 261 amino acids in length. ; PDB: 3ODS_A 3ODR_A 3O2Q_A 3O2T_A 3O2S_A 3GS3_A.
Probab=31.34 E-value=2.7e+02 Score=23.66 Aligned_cols=74 Identities=19% Similarity=0.337 Sum_probs=45.9
Q ss_pred CchHhhHHHHHHHHHhcCCCchh---------------hh-ccCh------------hHHHHHHHHhccCc-cHHHHHHH
Q psy3040 47 PSTRLGALTLLGHIVQRQPTWLY---------------KI-MSHP------------TLMKDLLKILKTES-DMVEVISA 97 (189)
Q Consensus 47 ~~~Rl~~L~LL~~~v~~qp~~l~---------------~I-~~t~------------~L~~~LLkcL~~D~-s~~vv~~a 97 (189)
+.-|+.++-++-.+|..|.+-.- .+ .+|| .+++.|++.+..+. +...+++.
T Consensus 57 ~gvk~~~iKFle~vIl~qs~~~~~~~~~~~~~~d~SL~~vp~~Hp~l~~~~Le~Ea~~lL~~Ll~~l~~~~i~~~~~~a~ 136 (239)
T PF11935_consen 57 PGVKLAAIKFLERVILVQSPGSSDSPPRRGSPNDFSLSSVPPNHPLLNPQQLEAEANGLLDRLLDVLQSPHISSPLLTAI 136 (239)
T ss_dssp HHHHHHHHHHHHHHHHHTS---TTS---GGGTTS--GGGS-TT-SSS-HHHHHHHHHHHHHHHHHHHC-TT--HHHHHHH
T ss_pred chHHHHHHHHHHHHHHhcCCCCCCCccccccccCCCHHHcCCCCCcCCHHHHHHHHHHHHHHHHHHHhhcccchHHHHHH
Confidence 45788888888887765543321 11 1111 37888999999999 77788888
Q ss_pred HHHHHHHhcccccchhhhHHHHH
Q psy3040 98 LLVLNILLPIIPGLIGSHLTDIF 120 (189)
Q Consensus 98 l~~LimLLP~ip~~l~~~Lp~Lf 120 (189)
+.+|..+.=+=|...+..++.|.
T Consensus 137 insL~~Iak~RP~~~~~Il~~ll 159 (239)
T PF11935_consen 137 INSLSNIAKQRPQFMSRILPALL 159 (239)
T ss_dssp HHHHHHHHHHSGGGHHHHHHHHH
T ss_pred HHHHHHHHHHhhHHHHHHHHHHH
Confidence 88877776666665555554443
No 39
>KOG2171|consensus
Probab=31.15 E-value=2.3e+02 Score=30.00 Aligned_cols=104 Identities=17% Similarity=0.200 Sum_probs=75.2
Q ss_pred HHHhhcCCCchhHHHHHH-------hhccCCc--hHhhHHHHHHHHHhcCCCchhhhccChhHHHHHHHHhccCccHHHH
Q psy3040 24 VLVIIREPHDKFLFDRVA-------ETLRSPS--TRLGALTLLGHIVQRQPTWLYKIMSHPTLMKDLLKILKTESDMVEV 94 (189)
Q Consensus 24 iL~~~g~~~pk~l~~~ln-------~~~~~~~--~Rl~~L~LL~~~v~~qp~~l~~I~~t~~L~~~LLkcL~~D~s~~vv 94 (189)
.|...++-.++..-..++ ..+..|+ -|..|+..+|++-..=++.+-|-.+.. +..-|+..+....++.|-
T Consensus 371 Als~i~EGc~~~m~~~l~~Il~~Vl~~l~DphprVr~AA~naigQ~stdl~p~iqk~~~e~-l~~aL~~~ld~~~~~rV~ 449 (1075)
T KOG2171|consen 371 ALSVIAEGCSDVMIGNLPKILPIVLNGLNDPHPRVRYAALNAIGQMSTDLQPEIQKKHHER-LPPALIALLDSTQNVRVQ 449 (1075)
T ss_pred HHHHHHcccHHHHHHHHHHHHHHHHhhcCCCCHHHHHHHHHHHHhhhhhhcHHHHHHHHHh-ccHHHHHHhcccCchHHH
Confidence 344445554444433333 3444444 788899999999777777777777777 777777777777777888
Q ss_pred HHHHHHHHHHhcccccc-hhhhHHHHHH-HHHHHhc
Q psy3040 95 ISALLVLNILLPIIPGL-IGSHLTDIFE-VFSRLAA 128 (189)
Q Consensus 95 ~~al~~LimLLP~ip~~-l~~~Lp~Lf~-If~Rl~~ 128 (189)
.-|..+++-+.=-.+.+ +.+||+.|++ -+..+..
T Consensus 450 ahAa~al~nf~E~~~~~~l~pYLd~lm~~~l~~L~~ 485 (1075)
T KOG2171|consen 450 AHAAAALVNFSEECDKSILEPYLDGLMEKKLLLLLQ 485 (1075)
T ss_pred HHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHHHhc
Confidence 88888888888877765 7899999999 7777654
No 40
>PF07944 DUF1680: Putative glycosyl hydrolase of unknown function (DUF1680); InterPro: IPR012878 The members of this family are sequences derived from hypothetical bacterial and eukaryotic proteins of unknown function. One member of this family is annotated as a possible arabinosidase, but no references were found to back this.
Probab=30.21 E-value=37 Score=32.15 Aligned_cols=26 Identities=38% Similarity=0.721 Sum_probs=23.6
Q ss_pred hhhHHHHHHhccCcHHHHHHHHhhcC
Q psy3040 5 LVNGLVDYFLASNSLRAVDVLVIIRE 30 (189)
Q Consensus 5 l~~~lvdy~~~t~s~~~~~iL~~~g~ 30 (189)
++.+++|||-.||++++++++.++++
T Consensus 130 ll~gl~~~y~~tG~~~~L~v~~k~ad 155 (520)
T PF07944_consen 130 LLEGLIDYYEATGNERALDVATKLAD 155 (520)
T ss_pred HHHHHHHHHHHHCcHHHHHHHHHHHH
Confidence 77899999999999999999997754
No 41
>PF10274 ParcG: Parkin co-regulated protein; InterPro: IPR019399 This family of proteins is transcribed anti-sense along the DNA to the Parkin gene product and the two appear to be transcribed under the same promoter. The protein has predicted alpha-helical and beta-sheet domains which suggest its function is in the ubiquitin/proteasome system []. Mutations in parkin are the genetic cause of early-onset and autosomal recessive juvenile parkinsonism.
Probab=30.15 E-value=99 Score=25.88 Aligned_cols=75 Identities=17% Similarity=0.196 Sum_probs=51.8
Q ss_pred chHhhHHHHHHHHHhc-CCCchhhhccChhHHHHH---HHHhccCccHHHHHHHHHHHHHH---hcccccchhhhHHHHH
Q psy3040 48 STRLGALTLLGHIVQR-QPTWLYKIMSHPTLMKDL---LKILKTESDMVEVISALLVLNIL---LPIIPGLIGSHLTDIF 120 (189)
Q Consensus 48 ~~Rl~~L~LL~~~v~~-qp~~l~~I~~t~~L~~~L---LkcL~~D~s~~vv~~al~~LimL---LP~ip~~l~~~Lp~Lf 120 (189)
++|.-|..=.-+++.+ .+.- |. | +.+.| +|......|..++..+|.+|..| -+.+...+.+|+..|.
T Consensus 53 Py~flA~~g~~dll~~~~~~k---il--P-vlPqLI~plk~AL~tr~~~V~~~~L~~Lq~Lv~~~~~vG~aLvPyyrqLL 126 (183)
T PF10274_consen 53 PYRFLARQGIKDLLERGGGEK---IL--P-VLPQLIIPLKRALNTRDPEVFCATLKALQQLVTSSDMVGEALVPYYRQLL 126 (183)
T ss_pred cHHHHHHHHHHHHHHhcchhH---HH--H-HHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHH
Confidence 4677777777777776 2222 11 1 23333 33445567778888888888888 9999999999999999
Q ss_pred HHHHHHhc
Q psy3040 121 EVFSRLAA 128 (189)
Q Consensus 121 ~If~Rl~~ 128 (189)
-++....+
T Consensus 127 p~ln~f~~ 134 (183)
T PF10274_consen 127 PVLNLFKN 134 (183)
T ss_pred HHHHHHHh
Confidence 99885444
No 42
>PF03378 CAS_CSE1: CAS/CSE protein, C-terminus; InterPro: IPR005043 Mammalian cellular apoptosis susceptibility (CAS) proteins and the yeast chromosome-segregation protein, CSE1 are homologous []. CAS is involved in both cellular apoptosis and proliferation [, ]. Apoptosis is inhibited in CAS-depleted cells, while the expression of CAS correlates to the degree of cellular proliferation. Like CSE1, it is essential for the mitotic checkpoint in the cell cycle (CAS depletion blocks the cell in the G2 phase), and has been shown to be associated with the microtubule network and the mitotic spindle [], as is the protein MEK, which is thought to regulate the intracellular localization (predominantly nuclear vs. predominantly cytosolic) of CAS. In the nucleus, CAS acts as a nuclear transport factor in the importin pathway []. The importin pathway mediates the nuclear transport of several proteins that are necessary for mitosis and further progression. CAS is therefore thought to affect the cell cycle through its effect on the nuclear transport of these proteins []. Since apoptosis also requires the nuclear import of several proteins (such as P53 and transcription factors), it has been suggested that CAS also enables apoptosis by facilitating the nuclear import of at least a subset of these essential proteins []. This entry represents the C-terminal portion of these proteins. Structural studies of the yeast CSE1 protein indicate that this domain binds to both the transport-orchestrating protein RanGTP and the cargo molecule that is being exported [].; GO: 0005515 protein binding; PDB: 1Z3H_B 1WA5_C.
Probab=29.44 E-value=3.1e+02 Score=25.71 Aligned_cols=107 Identities=16% Similarity=0.274 Sum_probs=63.0
Q ss_pred HHHHHHHhhcC--CCchhHHHHHHhhcc----CCchHhhHHH-HHHHHHhcCCCchhhhccChhHHHHHHHHhccCccHH
Q psy3040 20 RAVDVLVIIRE--PHDKFLFDRVAETLR----SPSTRLGALT-LLGHIVQRQPTWLYKIMSHPTLMKDLLKILKTESDMV 92 (189)
Q Consensus 20 ~~~~iL~~~g~--~~pk~l~~~ln~~~~----~~~~Rl~~L~-LL~~~v~~qp~~l~~I~~t~~L~~~LLkcL~~D~s~~ 92 (189)
++...|+..+. +-|..|...+...+. ....-.++|+ ||..|+++.|..+..=-+-.+++.=-=|++....+.
T Consensus 139 QIla~Lle~~~~~~~p~~y~~L~~~Ll~p~lWe~~gniPalvrLL~a~i~k~~~~i~~~~~l~~iLgvFQkLi~sk~~D- 217 (435)
T PF03378_consen 139 QILAQLLELRPSSPLPDAYKQLFPPLLSPALWERRGNIPALVRLLQAYIKKDPSFIVANNQLEPILGVFQKLIASKAND- 217 (435)
T ss_dssp HHHHHHHHHSS--S--TTTGGGHHHHTSGGGGGSTTTHHHHHHHHHHHHHHHGGG----S-CHHHHHHHHHHHT-TTCH-
T ss_pred HHHHHHHHcCCCCCCcHHHHHHHHHHcCcchhccCCCcCcHHHHHHHHHHhCchhhcchhhHHHHHHHHHHHHCCCCcc-
Confidence 35555666665 455555555544444 2345667777 999999999998832222221333333555444333
Q ss_pred HHHHHHHHHHHHhccccc-chhhhHHHHHHHH-HHHhcc
Q psy3040 93 EVISALLVLNILLPIIPG-LIGSHLTDIFEVF-SRLAAW 129 (189)
Q Consensus 93 vv~~al~~LimLLP~ip~-~l~~~Lp~Lf~If-~Rl~~W 129 (189)
.-|.-.|-.++-++|. .+.+|++.+|.+. .|+...
T Consensus 218 --~~gF~LL~~iv~~~p~~~l~~yl~~I~~lll~RLq~s 254 (435)
T PF03378_consen 218 --HYGFDLLESIVENLPPEALEPYLKQIFTLLLTRLQSS 254 (435)
T ss_dssp --HHHHHHHHHHHHHS-HHHHGGGHHHHHHHHHHHHHHC
T ss_pred --hHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHhhC
Confidence 3377788888888887 5899999999865 577664
No 43
>PF08578 DUF1765: Protein of unknown function (DUF1765); InterPro: IPR013887 This entry represents a conserved region found in hypothetical proteins from fungi, mycetozoa and entamoebidae.
Probab=28.77 E-value=2.4e+02 Score=21.48 Aligned_cols=79 Identities=14% Similarity=0.169 Sum_probs=55.2
Q ss_pred hhhhccChhHHHHHHHHhccCccHHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHhcccccCCCCCCccchhhhHH
Q psy3040 68 LYKIMSHPTLMKDLLKILKTESDMVEVISALLVLNILLPIIPGLIGSHLTDIFEVFSRLAAWNSDNPRQLASSHVLHLQV 147 (189)
Q Consensus 68 l~~I~~t~~L~~~LLkcL~~D~s~~vv~~al~~LimLLP~ip~~l~~~Lp~Lf~If~Rl~~W~~~~~~~~~e~~l~hl~~ 147 (189)
+....+-+ .+-+.++.+..-.++.+..-++..|--..|.+|....+.+....+....=..|. ....|..|
T Consensus 42 ~~~~~dw~-fwl~~i~~ml~s~n~~~~~r~l~fLyn~w~~~~~~~~~~~~~~~~~Ll~~~~f~---------~lF~HW~~ 111 (126)
T PF08578_consen 42 LPDFFDWD-FWLDGIRMMLESDNVQSEIRALSFLYNIWDLFPSESRRKISLCLDWLLSEKWFF---------KLFLHWSP 111 (126)
T ss_pred CCcccCHH-HHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcChhHHHHHHHHHHHHcCchHHH---------HHHhcCCH
Confidence 66677888 888888888778888899999999999999999987776642222111100011 12347777
Q ss_pred hHHHHHHHH
Q psy3040 148 ALYALFYQL 156 (189)
Q Consensus 148 ~~~~lFt~L 156 (189)
.|+.||++|
T Consensus 112 ~VR~~f~~L 120 (126)
T PF08578_consen 112 MVRSYFHRL 120 (126)
T ss_pred HHHHHHHHH
Confidence 888888876
No 44
>PF11916 Vac14_Fig4_bd: Vacuolar protein 14 C-terminal Fig4p binding; InterPro: IPR021841 This presumed domain is functionally uncharacterised. This domain is found in eukaryotes. This domain is typically between 211 to 243 amino acids in length. This domain is found associated with PF02985 from PFAM.
Probab=27.80 E-value=76 Score=26.62 Aligned_cols=42 Identities=21% Similarity=0.264 Sum_probs=32.0
Q ss_pred hhhhccChhHHHHHHHHhccCccHHHHHHHHHHHHHHhccccc
Q psy3040 68 LYKIMSHPTLMKDLLKILKTESDMVEVISALLVLNILLPIIPG 110 (189)
Q Consensus 68 l~~I~~t~~L~~~LLkcL~~D~s~~vv~~al~~LimLLP~ip~ 110 (189)
+-+..++| .|..+=--|.....-.-+.-++..|.|+||+-++
T Consensus 129 LVqLlESP-iF~~lRlqLLep~~~p~L~k~LygLlMlLPQs~a 170 (182)
T PF11916_consen 129 LVQLLESP-IFTYLRLQLLEPEKYPYLYKCLYGLLMLLPQSSA 170 (182)
T ss_pred HHHHHhhh-hHHHHHHHhCCcccCHHHHHHHHHHHHHCCChHH
Confidence 44678899 8888766665555557788899999999997654
No 45
>PF07814 WAPL: Wings apart-like protein regulation of heterochromatin; InterPro: IPR022771 This entry contains sequences expressed in eukaryotic organisms (metazoa, fungi, plants) bearing high similarity to the WAPL conserved region of D. melanogaster wings apart-like protein. This protein is involved in the regulation of heterochromatin structure []. hWAPL (Q7Z5K2 from SWISSPROT), the human homologue, is found to play a role in the development of cervical carcinogenesis, and is thought to have similar functions to Drosophila wapl protein []. Malfunction of the hWAPL pathway is thought to activate an apoptotic pathway that consequently leads to cell death []. This entry includes proteins from metazoa, fungi and plants.
Probab=26.92 E-value=1.2e+02 Score=27.34 Aligned_cols=68 Identities=26% Similarity=0.263 Sum_probs=42.7
Q ss_pred hHHHHHHhhcc------CCchH-hhHHHHHHHHHhcCCCchhhhccChhHHHHHHHHhccCccHHHHHHHHHHHHHHh
Q psy3040 35 FLFDRVAETLR------SPSTR-LGALTLLGHIVQRQPTWLYKIMSHPTLMKDLLKILKTESDMVEVISALLVLNILL 105 (189)
Q Consensus 35 ~l~~~ln~~~~------~~~~R-l~~L~LL~~~v~~qp~~l~~I~~t~~L~~~LLkcL~~D~s~~vv~~al~~LimLL 105 (189)
+|-|.++..|. ....| ..++.|.... . .|.+..++-.|. +.+.++|++.-..+..+...+..++..++
T Consensus 18 rf~Dev~ylld~l~~~~~~s~Rr~sll~La~K~-~-~~~Fr~~~ra~g-~~~~l~~~l~~~~~d~~~~l~~a~i~~~l 92 (361)
T PF07814_consen 18 RFADEVEYLLDGLESSSSSSVRRSSLLELASKC-A-DPQFRRQFRAHG-LVKRLFKALSDAPDDDILALATAAILYVL 92 (361)
T ss_pred hHHHHHHHHHhhcccCCCccHHHHHHHHHHHHh-C-CHHHHHHHHHcC-cHHHHHHHhccccchHHHHHHHHHHHHHH
Confidence 45555555544 12344 5555555555 3 689999999999 99999999966555544444444444443
No 46
>KOG2032|consensus
Probab=25.81 E-value=4.7e+02 Score=25.55 Aligned_cols=78 Identities=14% Similarity=0.066 Sum_probs=65.4
Q ss_pred CCchHhhHHHHHHHHHhcCCCchhhhccChhHHHHHHHHh---ccCccHHHHHHHHHHHHHHhcccccchhhhHHHHHHH
Q psy3040 46 SPSTRLGALTLLGHIVQRQPTWLYKIMSHPTLMKDLLKIL---KTESDMVEVISALLVLNILLPIIPGLIGSHLTDIFEV 122 (189)
Q Consensus 46 ~~~~Rl~~L~LL~~~v~~qp~~l~~I~~t~~L~~~LLkcL---~~D~s~~vv~~al~~LimLLP~ip~~l~~~Lp~Lf~I 122 (189)
++..|.+....++++++..--| +|+ +.+|++-.+ ..|.|..+=..|+..|+...--.|.....|-+.+.+.
T Consensus 230 ~~~~ritd~Af~ael~~~~~l~-----~~~-lL~s~~~~la~ka~dp~a~~r~~a~r~L~~~as~~P~kv~th~~~~lda 303 (533)
T KOG2032|consen 230 KENGRITDIAFFAELKRPKELD-----KTG-LLGSVLLSLANKATDPSAKSRGMACRGLGNTASGAPDKVRTHKTTQLDA 303 (533)
T ss_pred cccchHHHHHHHHHHhCccccc-----ccc-cHHHHHHHHHHhccCchhHHHHHHHHHHHHHhccCcHHHHHhHHHHHHH
Confidence 3568999999999997765444 788 999998888 5688889999999999999999999999999999988
Q ss_pred HHHHhcc
Q psy3040 123 FSRLAAW 129 (189)
Q Consensus 123 f~Rl~~W 129 (189)
..|-+.=
T Consensus 304 ii~gL~D 310 (533)
T KOG2032|consen 304 IIRGLYD 310 (533)
T ss_pred HHHHHhc
Confidence 8876543
No 47
>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=25.52 E-value=2.5e+02 Score=21.61 Aligned_cols=60 Identities=22% Similarity=0.330 Sum_probs=41.4
Q ss_pred CCCchhHHHHHHhhccC--CchHhhHHHHHHHHHhcCCCchhhhccChhHHHHHHHHhccCc
Q psy3040 30 EPHDKFLFDRVAETLRS--PSTRLGALTLLGHIVQRQPTWLYKIMSHPTLMKDLLKILKTES 89 (189)
Q Consensus 30 ~~~pk~l~~~ln~~~~~--~~~Rl~~L~LL~~~v~~qp~~l~~I~~t~~L~~~LLkcL~~D~ 89 (189)
...+++-...|...+.. |..-+.||+||-..|..-++..|.-+.+..+++.+.+.++.-.
T Consensus 37 ~~~~kea~~~l~krl~~~~~~vq~~aL~lld~lvkNcg~~f~~ev~~~~fl~~l~~l~~~~~ 98 (140)
T PF00790_consen 37 PDGAKEAARALRKRLKHGNPNVQLLALTLLDALVKNCGPRFHREVASKEFLDELVKLIKSKK 98 (140)
T ss_dssp TTHHHHHHHHHHHHHTTSSHHHHHHHHHHHHHHHHHSHHHHHHHHTSHHHHHHHHHHHHHTT
T ss_pred CccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHcCCHHHHHHHhHHHHHHHHHHHHccCC
Confidence 34555555556555654 5678899999999999987777766555537777777665433
No 48
>PF11398 DUF2813: Protein of unknown function (DUF2813); InterPro: IPR022602 This entry contains YbjD from Escherichia coli (strain K12), which is a conserved protein with a nucleotide triphosphate binding domain.
Probab=24.81 E-value=68 Score=29.63 Aligned_cols=69 Identities=17% Similarity=0.177 Sum_probs=41.1
Q ss_pred hhhHHHHHHhccCc------HHHHHHHHhhcCCCchhHHHHHHhhccCCc---hHhhHHHHHHHHHhcCCCchhhhccCh
Q psy3040 5 LVNGLVDYFLASNS------LRAVDVLVIIREPHDKFLFDRVAETLRSPS---TRLGALTLLGHIVQRQPTWLYKIMSHP 75 (189)
Q Consensus 5 l~~~lvdy~~~t~s------~~~~~iL~~~g~~~pk~l~~~ln~~~~~~~---~Rl~~L~LL~~~v~~qp~~l~~I~~t~ 75 (189)
-+++||++|+...+ ++..+....-+ ..-...+-++..+.++. .|+..+.+++.+++...+.-..=..+|
T Consensus 209 am~~Ll~hyf~~~~~~~~~~~~~~~~~~~~~--~~~~~l~~l~~~i~~~~~~~~rl~Ll~l~~a~l~a~g~~~l~~~arP 286 (373)
T PF11398_consen 209 AMQQLLEHYFSFQSSSRANPRRIRDISFDPQ--VLWRSLDSLNQLIAQPGSRSRRLILLGLFSALLQAKGPVELDRDARP 286 (373)
T ss_pred HHHHHHHhhcccccccccccchhhhhccccc--ccccccccHHHhhccCCCchHHHHHHHHHHHHHHhCCccccCCCCcc
Confidence 46889999987422 23333333222 22233667788887654 666677777888887766543334444
No 49
>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=24.70 E-value=3.5e+02 Score=21.23 Aligned_cols=71 Identities=23% Similarity=0.302 Sum_probs=47.0
Q ss_pred CCCchhHHHHHHhhcc--CCchHhhHHHHHHHHHhcCCCchhh-hccChhHHHHHHHHhccCccHHHHHHHHHHH
Q psy3040 30 EPHDKFLFDRVAETLR--SPSTRLGALTLLGHIVQRQPTWLYK-IMSHPTLMKDLLKILKTESDMVEVISALLVL 101 (189)
Q Consensus 30 ~~~pk~l~~~ln~~~~--~~~~Rl~~L~LL~~~v~~qp~~l~~-I~~t~~L~~~LLkcL~~D~s~~vv~~al~~L 101 (189)
+..|++=...|-..+. +|..=+.||.||-..|..=....|. |++-. +.+.+.+.+.-.++..|-.-.+..+
T Consensus 36 ~~~~k~a~ral~krl~~~n~~vql~AL~LLe~~vkNCG~~fh~evas~~-fl~~l~~l~~~~~~~~Vk~kil~li 109 (142)
T cd03569 36 DVQPKYAMRALKKRLLSKNPNVQLYALLLLESCVKNCGTHFHDEVASRE-FMDELKDLIKTTKNEEVRQKILELI 109 (142)
T ss_pred CCCHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHHCCHHHHHHHhhHH-HHHHHHHHHcccCCHHHHHHHHHHH
Confidence 3455555555555555 4557788999999999986776665 55555 8888888887655555554444333
No 50
>PF13646 HEAT_2: HEAT repeats; PDB: 1OYZ_A 3FGA_A 2PF4_C 2IAE_A 3B2A_A.
Probab=23.32 E-value=2.4e+02 Score=18.85 Aligned_cols=82 Identities=22% Similarity=0.250 Sum_probs=51.0
Q ss_pred HHHHHHhccCcHHH-HHHHHhhcCCCchhHHHHHHhhccC--CchHhhHHHHHHHHHhcCCCchhhhccChhHHHHHHHH
Q psy3040 8 GLVDYFLASNSLRA-VDVLVIIREPHDKFLFDRVAETLRS--PSTRLGALTLLGHIVQRQPTWLYKIMSHPTLMKDLLKI 84 (189)
Q Consensus 8 ~lvdy~~~t~s~~~-~~iL~~~g~~~pk~l~~~ln~~~~~--~~~Rl~~L~LL~~~v~~qp~~l~~I~~t~~L~~~LLkc 84 (189)
.|++...+..+..+ .++.-..|+-.+.+....+-+.+.. +.-|..+..-||.+ .+.. .++.|.+.
T Consensus 3 ~L~~~l~~~~~~~vr~~a~~~L~~~~~~~~~~~L~~~l~d~~~~vr~~a~~aL~~i-----------~~~~-~~~~L~~~ 70 (88)
T PF13646_consen 3 ALLQLLQNDPDPQVRAEAARALGELGDPEAIPALIELLKDEDPMVRRAAARALGRI-----------GDPE-AIPALIKL 70 (88)
T ss_dssp HHHHHHHTSSSHHHHHHHHHHHHCCTHHHHHHHHHHHHTSSSHHHHHHHHHHHHCC-----------HHHH-THHHHHHH
T ss_pred HHHHHHhcCCCHHHHHHHHHHHHHcCCHhHHHHHHHHHcCCCHHHHHHHHHHHHHh-----------CCHH-HHHHHHHH
Confidence 44555534443332 2344444555566777777777765 44788888888876 2344 88889999
Q ss_pred hccCccHHHHHHHHHHH
Q psy3040 85 LKTESDMVEVISALLVL 101 (189)
Q Consensus 85 L~~D~s~~vv~~al~~L 101 (189)
++.|.+..+=..|+.+|
T Consensus 71 l~~~~~~~vr~~a~~aL 87 (88)
T PF13646_consen 71 LQDDDDEVVREAAAEAL 87 (88)
T ss_dssp HTC-SSHHHHHHHHHHH
T ss_pred HcCCCcHHHHHHHHhhc
Confidence 98888777656665554
No 51
>PF10487 Nup188: Nucleoporin subcomplex protein binding to Pom34; InterPro: IPR018864 This is one of the many peptides that make up the nucleoporin complex (NPC), and is found across eukaryotes []. The Nup188 subcomplex (Nic96p-Nup188p-Nup192p-Pom152p) is one of at least six that make up the NPC, and as such is symmetrically localised on both faces of the NPC at the nuclear end, being integrally bound to the C terminus of Pom34p [].
Probab=22.70 E-value=70 Score=32.96 Aligned_cols=50 Identities=16% Similarity=0.252 Sum_probs=39.8
Q ss_pred HHHHHhhcCCCchhHHH----HHHhhccCCchHhhHHHHHHHHHhcCCCchhhh
Q psy3040 22 VDVLVIIREPHDKFLFD----RVAETLRSPSTRLGALTLLGHIVQRQPTWLYKI 71 (189)
Q Consensus 22 ~~iL~~~g~~~pk~l~~----~ln~~~~~~~~Rl~~L~LL~~~v~~qp~~l~~I 71 (189)
-.+|.-.|.++.+.|++ .+++-+...+-|..+..+++.+|++||.|+-..
T Consensus 869 PSLL~~LG~~~s~~fl~~ll~~L~~p~~d~~l~~aIw~F~saiv~~~QqgLa~l 922 (931)
T PF10487_consen 869 PSLLGHLGSEHSKSFLDSLLSDLDNPFEDYNLKVAIWEFFSAIVEKQQQGLAIL 922 (931)
T ss_pred CcHHHHcCChhHHHHHHHHHHHhCCccCCHHHHHHHHHHHHHHHccChhHHHHH
Confidence 45666677887888775 566677778889999999999999999997643
No 52
>KOG1824|consensus
Probab=22.54 E-value=3.5e+02 Score=28.72 Aligned_cols=98 Identities=26% Similarity=0.276 Sum_probs=71.3
Q ss_pred HHHHHHhhcCCCchhHHHHHHhhcc----C--CchHhhHHHHHHHHHhcCCCchhhhccChhHHHHHHHHhccCccHHHH
Q psy3040 21 AVDVLVIIREPHDKFLFDRVAETLR----S--PSTRLGALTLLGHIVQRQPTWLYKIMSHPTLMKDLLKILKTESDMVEV 94 (189)
Q Consensus 21 ~~~iL~~~g~~~pk~l~~~ln~~~~----~--~~~Rl~~L~LL~~~v~~qp~~l~~I~~t~~L~~~LLkcL~~D~s~~vv 94 (189)
+.+++.++|.--|. |=..+..++. . ..-|-.|.+.+||+...-+..+|+ . +..+|+|-|-..++.+.+
T Consensus 157 l~d~lsr~g~ll~~-fh~~il~~l~~ql~s~R~aVrKkai~~l~~la~~~~~~ly~----~-li~~Ll~~L~~~~q~~~~ 230 (1233)
T KOG1824|consen 157 LADVLSRFGTLLPN-FHLSILKCLLPQLQSPRLAVRKKAITALGHLASSCNRDLYV----E-LIEHLLKGLSNRTQMSAT 230 (1233)
T ss_pred HHHHHHhhcccCcc-hHHHHHHHHhhcccChHHHHHHHHHHHHHHHHHhcCHHHHH----H-HHHHHHhccCCCCchHHH
Confidence 46788889988776 5445554444 2 236889999999999999988886 3 777889999888888877
Q ss_pred HHHHHHHHHHhcccccchhhhHHHHHHHHH
Q psy3040 95 ISALLVLNILLPIIPGLIGSHLTDIFEVFS 124 (189)
Q Consensus 95 ~~al~~LimLLP~ip~~l~~~Lp~Lf~If~ 124 (189)
-+-+-+|..+.=..-..++.|++.+--..+
T Consensus 231 rt~Iq~l~~i~r~ag~r~~~h~~~ivp~v~ 260 (1233)
T KOG1824|consen 231 RTYIQCLAAICRQAGHRFGSHLDKIVPLVA 260 (1233)
T ss_pred HHHHHHHHHHHHHhcchhhcccchhhHHHH
Confidence 777777777666555556666666555444
No 53
>KOG3264|consensus
Probab=21.81 E-value=87 Score=26.82 Aligned_cols=35 Identities=23% Similarity=0.234 Sum_probs=30.8
Q ss_pred chhhhhHHHHHHhccCcHHHHHHHHhhcCCCchhHHHH
Q psy3040 2 EPWLVNGLVDYFLASNSLRAVDVLVIIREPHDKFLFDR 39 (189)
Q Consensus 2 ~~~l~~~lvdy~~~t~s~~~~~iL~~~g~~~pk~l~~~ 39 (189)
-|.||..++| ..-|+|+.+.+-+.|-+.+.||+++
T Consensus 98 ~ptlVRn~id---~~~S~n~l~~~~~lG~rlDhEy~ak 132 (221)
T KOG3264|consen 98 RPTLVRNCID---SAVSKNALRFLYELGFRLDHEYLAK 132 (221)
T ss_pred ccHHHHHHHH---HHHhhhHHHHHHHhcccccHHHHhh
Confidence 3679999999 5789999999999999999988875
No 54
>KOG2171|consensus
Probab=21.47 E-value=9.1e+02 Score=25.78 Aligned_cols=122 Identities=28% Similarity=0.329 Sum_probs=84.2
Q ss_pred hhhhhHHHHHHhccCcH---HHHHHHHh----hc---CCCchhHHHHHHhhccCCch--HhhHHHHHHHHHhcCC---Cc
Q psy3040 3 PWLVNGLVDYFLASNSL---RAVDVLVI----IR---EPHDKFLFDRVAETLRSPST--RLGALTLLGHIVQRQP---TW 67 (189)
Q Consensus 3 ~~l~~~lvdy~~~t~s~---~~~~iL~~----~g---~~~pk~l~~~ln~~~~~~~~--Rl~~L~LL~~~v~~qp---~~ 67 (189)
|-|++.|+++=.+.+++ .+..||.+ +| .+|-.++...+++++..|+. |..|+.-+++|+.-.+ .-
T Consensus 117 Pell~~L~q~~~S~~~~~rE~al~il~s~~~~~~~~~~~~~~~l~~lf~q~~~d~s~~vr~~a~rA~~a~~~~~~~~~~~ 196 (1075)
T KOG2171|consen 117 PELLQFLFQSTKSPNPSLRESALLILSSLPETFGNTLQPHLDDLLRLFSQTMTDPSSPVRVAAVRALGAFAEYLENNKSE 196 (1075)
T ss_pred HHHHHHHHHHhcCCCcchhHHHHHHHHhhhhhhccccchhHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHhccchHH
Confidence 34888888887666553 23334433 23 34566889999999998764 6777888888887664 22
Q ss_pred hhhhccChhHHHHHHHHh---ccCccHHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHh
Q psy3040 68 LYKIMSHPTLMKDLLKIL---KTESDMVEVISALLVLNILLPIIPGLIGSHLTDIFEVFSRLA 127 (189)
Q Consensus 68 l~~I~~t~~L~~~LLkcL---~~D~s~~vv~~al~~LimLLP~ip~~l~~~Lp~Lf~If~Rl~ 127 (189)
.++... +.++++..+ .-+.+.-..-.++-+++-++=..|..++++|-+++.+-.-++
T Consensus 197 ~~~~~~---llP~~l~vl~~~i~~~d~~~a~~~l~~l~El~e~~pk~l~~~l~~ii~~~l~Ia 256 (1075)
T KOG2171|consen 197 VDKFRD---LLPSLLNVLQEVIQDGDDDAAKSALEALIELLESEPKLLRPHLSQIIQFSLEIA 256 (1075)
T ss_pred HHHHHH---HhHHHHHHhHhhhhccchHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHHh
Confidence 333332 555555555 335555666788899999999999999999999998776543
No 55
>PF12331 DUF3636: Protein of unknown function (DUF3636) ; InterPro: IPR022093 This domain family is found in eukaryotes, and is approximately 160 amino acids in length.
Probab=20.13 E-value=1.4e+02 Score=24.31 Aligned_cols=37 Identities=32% Similarity=0.431 Sum_probs=30.7
Q ss_pred hHhhHHHHHHHHHhcCCCchhhhccChhHHHHHHHHhc
Q psy3040 49 TRLGALTLLGHIVQRQPTWLYKIMSHPTLMKDLLKILK 86 (189)
Q Consensus 49 ~Rl~~L~LL~~~v~~qp~~l~~I~~t~~L~~~LLkcL~ 86 (189)
=|+++|.+|-.|-+ .|.=.-.+++|+.-+.-|.+||.
T Consensus 110 lRl~aL~~L~~fa~-s~~G~~~LA~h~~Ai~RLv~~L~ 146 (149)
T PF12331_consen 110 LRLEALRTLTSFAF-SPFGALQLASHPTAIPRLVRALH 146 (149)
T ss_pred HHHHHHHHHHHHHc-CcHHHHHHHhCchhHHHHHHHHH
Confidence 59999999999955 45567799999988888888874
Done!