Query 000616
Match_columns 1389
No_of_seqs 215 out of 523
Neff 3.2
Searched_HMMs 46136
Date Mon Apr 1 20:49:26 2013
Command hhsearch -i /work/01045/syshi/lefta3m/000616.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/leftcdd/000616hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1904 Transcription coactiva 99.9 2.7E-23 5.8E-28 240.7 15.4 235 19-416 10-244 (496)
2 cd05834 HDGF_related The PWWP 99.9 1.1E-22 2.3E-27 188.3 8.2 81 21-106 2-82 (83)
3 cd05836 N_Pac_NP60 The PWWP do 99.9 2.3E-22 5.1E-27 187.0 8.1 84 22-108 1-86 (86)
4 PF12243 CTK3: CTD kinase subu 99.9 9.4E-22 2E-26 197.6 12.7 132 859-994 5-136 (139)
5 cd05840 SPBC215_ISWI_like The 99.9 8.7E-22 1.9E-26 185.8 8.3 85 22-106 1-92 (93)
6 cd05835 Dnmt3b_related The PWW 99.8 1.9E-21 4.2E-26 180.8 8.2 85 22-107 1-86 (87)
7 cd05838 WHSC1_related The PWWP 99.8 6.2E-21 1.3E-25 180.3 8.4 89 22-110 1-94 (95)
8 cd05162 PWWP The PWWP domain, 99.8 1.1E-20 2.3E-25 173.6 9.1 82 22-106 1-86 (87)
9 PF00855 PWWP: PWWP domain; I 99.8 6.1E-21 1.3E-25 172.6 5.2 85 22-107 1-86 (86)
10 cd05841 BS69_related The PWWP 99.8 2.4E-20 5.2E-25 173.7 7.2 77 20-106 5-82 (83)
11 cd05837 MSH6_like The PWWP dom 99.7 8.5E-18 1.8E-22 162.6 8.2 86 21-106 2-101 (110)
12 smart00293 PWWP domain with co 99.7 8.4E-18 1.8E-22 147.9 6.6 58 22-79 1-63 (63)
13 smart00582 RPR domain present 99.7 1.9E-16 4.1E-21 151.9 8.8 118 863-989 1-119 (121)
14 cd06080 MUM1_like Mutated mela 99.6 7.6E-16 1.7E-20 142.9 7.8 76 22-105 1-77 (80)
15 cd05839 BR140_related The PWWP 99.6 2.9E-15 6.2E-20 146.4 6.8 85 22-106 1-110 (111)
16 KOG0151 Predicted splicing reg 99.5 2.1E-14 4.6E-19 169.7 9.3 130 858-990 430-566 (877)
17 cd03562 CID CID (CTD-Interacti 99.0 9.3E-10 2E-14 105.6 8.5 108 864-983 4-114 (114)
18 KOG1924 RhoA GTPase effector D 98.9 2.8E-09 6E-14 128.2 9.4 46 858-907 331-376 (1102)
19 KOG0132 RNA polymerase II C-te 98.7 1.7E-08 3.6E-13 121.9 6.7 130 856-994 6-136 (894)
20 PF04818 CTD_bind: RNA polymer 98.5 7.5E-08 1.6E-12 84.9 4.3 64 914-982 1-64 (64)
21 KOG2669 Regulator of nuclear m 98.0 4.2E-05 9E-10 87.2 11.0 125 861-994 6-130 (325)
22 KOG1081 Transcription factor N 96.9 0.00043 9.3E-09 82.5 2.5 92 20-117 134-226 (463)
23 PHA03247 large tegument protei 96.4 0.064 1.4E-06 73.5 17.0 28 972-999 2409-2440(3151)
24 PHA03247 large tegument protei 96.1 0.2 4.4E-06 69.1 19.1 15 916-930 2396-2410(3151)
25 KOG1830 Wiskott Aldrich syndro 96.1 0.12 2.5E-06 61.5 14.9 16 863-878 36-51 (518)
26 KOG3671 Actin regulatory prote 95.7 0.12 2.6E-06 62.3 13.0 14 918-931 66-79 (569)
27 KOG0132 RNA polymerase II C-te 95.4 0.97 2.1E-05 57.3 19.7 82 901-984 392-486 (894)
28 KOG4368 Predicted RNA binding 95.2 0.046 9.9E-07 66.5 7.7 120 863-989 105-230 (757)
29 KOG3671 Actin regulatory prote 94.1 0.68 1.5E-05 56.3 13.5 17 896-912 80-96 (569)
30 KOG4849 mRNA cleavage factor I 92.6 1.9 4E-05 50.9 13.5 29 946-974 55-88 (498)
31 KOG1923 Rac1 GTPase effector F 89.9 1 2.2E-05 57.0 8.7 53 976-1032 165-220 (830)
32 smart00333 TUDOR Tudor domain. 89.8 0.42 9.2E-06 40.9 3.9 53 21-79 2-54 (57)
33 KOG1830 Wiskott Aldrich syndro 89.5 4.1 8.8E-05 49.2 12.6 11 1030-1040 224-234 (518)
34 COG5178 PRP8 U5 snRNP spliceos 88.5 0.3 6.5E-06 63.2 2.9 20 1135-1154 10-29 (2365)
35 smart00743 Agenet Tudor-like d 88.1 0.61 1.3E-05 40.9 3.8 52 21-78 2-56 (61)
36 KOG1923 Rac1 GTPase effector F 87.8 2 4.4E-05 54.5 9.2 14 1088-1103 238-251 (830)
37 KOG0119 Splicing factor 1/bran 87.1 8 0.00017 47.6 13.2 13 1240-1252 497-509 (554)
38 KOG4849 mRNA cleavage factor I 85.8 8.9 0.00019 45.5 12.3 10 905-914 115-124 (498)
39 KOG4672 Uncharacterized conser 85.1 24 0.00051 43.0 15.4 28 846-877 8-35 (487)
40 PRK15319 AIDA autotransporter- 84.9 1.2 2.7E-05 60.7 5.6 67 281-350 441-515 (2039)
41 KOG4672 Uncharacterized conser 84.5 14 0.0003 44.8 13.2 23 1017-1039 172-207 (487)
42 cd03561 VHS VHS domain family; 83.4 2.5 5.4E-05 42.9 6.0 89 886-980 25-115 (133)
43 KOG2071 mRNA cleavage and poly 83.2 2.6 5.6E-05 52.4 7.0 104 860-976 5-110 (579)
44 PF11717 Tudor-knot: RNA bindi 81.3 1.2 2.6E-05 39.3 2.5 52 22-76 1-54 (55)
45 COG5178 PRP8 U5 snRNP spliceos 79.5 1.4 3E-05 57.7 3.1 28 1133-1160 4-32 (2365)
46 cd04508 TUDOR Tudor domains ar 78.2 2.3 4.9E-05 35.4 3.1 47 25-77 1-48 (48)
47 PRK09752 adhesin; Provisional 74.7 2.6 5.6E-05 55.9 3.7 10 1353-1362 1122-1131(1250)
48 PF15057 DUF4537: Domain of un 70.1 8 0.00017 39.5 5.2 61 19-81 53-115 (124)
49 cd00197 VHS_ENTH_ANTH VHS, ENT 65.8 19 0.00042 35.2 6.7 76 893-976 34-114 (115)
50 PRK09752 adhesin; Provisional 65.5 5.1 0.00011 53.4 3.5 11 1042-1052 825-835 (1250)
51 KOG0119 Splicing factor 1/bran 63.7 56 0.0012 40.7 11.2 9 896-904 222-230 (554)
52 KOG0307 Vesicle coat complex C 63.6 2.7E+02 0.0058 38.0 17.7 21 404-424 220-240 (1049)
53 KOG2675 Adenylate cyclase-asso 63.5 4.7 0.0001 48.9 2.4 25 941-965 105-129 (480)
54 PRK15319 AIDA autotransporter- 63.2 5.5 0.00012 55.0 3.2 8 1044-1051 1582-1589(2039)
55 KOG1925 Rac1 GTPase effector F 62.2 7 0.00015 48.1 3.5 6 1095-1100 166-171 (817)
56 PF00790 VHS: VHS domain; Int 61.7 20 0.00042 36.8 6.2 106 864-979 6-120 (140)
57 KOG1080 Histone H3 (Lys4) meth 61.4 3.7 8E-05 54.1 1.2 95 19-113 189-297 (1005)
58 KOG2236 Uncharacterized conser 59.1 20 0.00044 44.0 6.5 8 1025-1032 248-255 (483)
59 PF04858 TH1: TH1 protein; In 58.8 79 0.0017 40.2 11.8 131 855-993 376-532 (584)
60 KOG4264 Nucleo-cytoplasmic pro 54.8 58 0.0013 40.9 9.3 20 1345-1364 657-676 (694)
61 KOG0307 Vesicle coat complex C 54.1 4E+02 0.0086 36.5 16.9 26 969-994 618-645 (1049)
62 PF08169 RBB1NT: RBB1NT (NUC16 51.1 17 0.00036 36.6 3.5 80 24-110 8-90 (96)
63 PF12348 CLASP_N: CLASP N term 50.9 93 0.002 33.3 9.3 116 860-978 92-211 (228)
64 PRK15313 autotransport protein 50.0 38 0.00082 44.9 7.3 11 1042-1052 473-483 (955)
65 KOG2893 Zn finger protein [Gen 48.9 2.9E+02 0.0063 32.2 12.9 17 1277-1294 226-242 (341)
66 TIGR01628 PABP-1234 polyadenyl 45.2 78 0.0017 38.9 8.6 7 1044-1050 314-320 (562)
67 cd03569 VHS_Hrs_Vps27p VHS dom 41.1 82 0.0018 33.0 6.9 108 863-979 4-116 (142)
68 cd03567 VHS_GGA VHS domain fam 39.4 87 0.0019 32.9 6.7 79 893-979 35-118 (139)
69 smart00288 VHS Domain present 36.0 1.1E+02 0.0024 31.5 6.8 87 886-979 25-113 (133)
70 PF01213 CAP_N: Adenylate cycl 35.9 12 0.00026 43.8 0.0 13 857-869 42-54 (312)
71 PF12868 DUF3824: Domain of un 34.2 65 0.0014 34.2 4.9 20 1249-1268 101-120 (137)
72 PF07793 DUF1631: Protein of u 34.0 3.4E+02 0.0073 34.9 12.0 140 857-1000 450-600 (729)
73 PLN00104 MYST -like histone ac 32.3 39 0.00083 41.7 3.3 57 20-76 52-112 (450)
74 PF12054 DUF3535: Domain of un 32.2 2.7E+02 0.0059 34.3 10.3 110 870-986 99-217 (441)
75 KOG2675 Adenylate cyclase-asso 31.8 33 0.00072 42.1 2.7 15 962-976 86-100 (480)
76 KOG0260 RNA polymerase II, lar 30.5 8E+02 0.017 34.5 14.3 20 966-985 1174-1193(1605)
77 cd03568 VHS_STAM VHS domain fa 29.8 1.4E+02 0.0031 31.4 6.5 94 893-994 34-129 (144)
78 cd03565 VHS_Tom1 VHS domain fa 29.2 1.5E+02 0.0033 31.0 6.6 79 893-978 35-116 (141)
79 PF01213 CAP_N: Adenylate cycl 29.1 18 0.0004 42.4 0.0 9 924-932 89-97 (312)
80 KOG1925 Rac1 GTPase effector F 28.8 70 0.0015 40.0 4.6 6 1147-1152 249-254 (817)
81 PF06003 SMN: Survival motor n 25.9 64 0.0014 37.0 3.5 59 18-81 65-124 (264)
82 KOG2391 Vacuolar sorting prote 25.1 1.2E+02 0.0025 36.7 5.4 16 1023-1040 56-71 (365)
83 cd04370 BAH BAH, or Bromo Adja 24.6 79 0.0017 30.2 3.4 42 20-63 2-47 (123)
84 PF06793 UPF0262: Uncharacteri 24.4 1.1E+02 0.0024 33.3 4.7 58 864-921 85-151 (158)
85 KOG0260 RNA polymerase II, lar 24.1 1.4E+03 0.03 32.5 14.7 14 409-422 474-490 (1605)
86 KOG1922 Rho GTPase effector BN 22.0 1.2E+02 0.0026 39.5 5.2 46 1127-1172 315-371 (833)
87 COG1157 FliI Flagellar biosynt 21.8 22 0.00047 43.5 -1.2 54 899-957 242-303 (441)
88 KOG4264 Nucleo-cytoplasmic pro 21.2 5.4E+02 0.012 33.0 9.9 6 1006-1011 300-305 (694)
89 PF03154 Atrophin-1: Atrophin- 21.0 2.3E+03 0.051 29.5 19.4 9 1054-1062 124-132 (982)
90 COG5475 Uncharacterized small 20.4 1.9E+02 0.0041 27.2 4.6 52 20-80 3-56 (60)
91 cd06224 REM Guanine nucleotide 20.4 2E+02 0.0043 27.9 5.2 31 961-991 63-96 (122)
No 1
>KOG1904 consensus Transcription coactivator [Transcription]
Probab=99.90 E-value=2.7e-23 Score=240.67 Aligned_cols=235 Identities=34% Similarity=0.463 Sum_probs=166.8
Q ss_pred cCCCccCCEEEEccCCCCCCCeeeeCCCCCCCCCCCCEEEEEEecCCCeeeeccCccccccHHHHHHhhhhcCCCcHHHH
Q 000616 19 RRQWKVGDLVLAKVKGFPAWPATVSEPEKWGYSADWKKVLVFFFGTQQIAFCNPADVEAFTEEKKQSLLTKRQGRGADFV 98 (1389)
Q Consensus 19 ~~kFk~GDLVWAKVKGYPwWPArI~dPe~~~~K~~~nkylV~FFGT~EyAWV~~kdLkPFsE~k~esfl~KrkgK~KdF~ 98 (1389)
...|++||||||||||||.|||+|.++..+..++..++|.||||||+++|||.+++|+||..++. .+..-.+...+.|+
T Consensus 10 ~~~~~~GDLV~AKlkgyp~WParI~~~~~~~~kp~pkky~V~FfGT~e~Afl~p~dlqpy~~~k~-~~g~~~k~~~k~F~ 88 (496)
T KOG1904|consen 10 AGNFKCGDLVFAKLKGYPPWPARIRNGPDGAVKPPPKKYTVFFFGTKETAFLKPKDLQPYMLNKE-KLGKPNKRVWKGFI 88 (496)
T ss_pred cCCCCCCceeeecccCCCCCcccccCcccccccCCCceeEEEEeccCcccccchhhccchhhhhh-hcccchhhhhHHHH
Confidence 46899999999999999999999999999988999999999999999999999999999999876 34422211349999
Q ss_pred HHHHHHHHHHHHHhhhcccccCCCcccccccCCCCCCccccccccccchhhccccCCCCCCCCCCCCCCCCCCCCccccc
Q 000616 99 RAVQEIIDSYEKLKKQDQVDSNSGDELTVANGGNSVNSISHLKDRTEASEATLDSQMKPSNSTAGDGLNLPTEDSPAGRQ 178 (1389)
Q Consensus 99 eAmeEAeE~~E~LK~qeq~~~~~a~e~~~a~v~~~~~s~~~~~~~t~~~~~~~~~~m~~~~~~~~~~~~~~~~~~~a~~~ 178 (1389)
+|+++|++++ +... .++...+. +. +..+.-+..
T Consensus 89 ~av~eI~~a~-----~np~-~~~~~~~~---------~~------------------------~~~~~~~~~-------- 121 (496)
T KOG1904|consen 89 EAVEEIREAF-----NNPK-SESDGIFF---------SA------------------------TATGRLLGP-------- 121 (496)
T ss_pred HHHHHHHHHh-----cCCC-ccccCccc---------cc------------------------ccccccccc--------
Confidence 9999999988 1100 11100000 00 000000000
Q ss_pred ccCCCCCCCCCCCCCcCcccccCCCccccccccccCCCccccccccCCccccccCcccchhhhhccccccccccCCCCCC
Q 000616 179 LDALPAKEPLPEQPSENLVAKATPVLTTYSSRKRSGGSRLQSTQRMAPSTRRSRSSTMVESCRLQNLMMPYNNEGKNAEG 258 (1389)
Q Consensus 179 ~~~~~~~~~~~~~p~en~~~~~~~~~~t~S~~kr~~~~~~~~~~~r~~s~rrsrSs~~~~s~r~q~~~~p~~d~gk~~g~ 258 (1389)
+++ . +.+. ..+|.|++-
T Consensus 122 -----------------------~~~--------------------~-----------~~~~-------~~~~~~~~~-- 138 (496)
T KOG1904|consen 122 -----------------------ENL--------------------F-----------VASS-------VLNDTGNSE-- 138 (496)
T ss_pred -----------------------ccc--------------------c-----------cccc-------ccccccccc--
Confidence 010 0 0000 011233111
Q ss_pred CcccccccCceeccccccCCCCCCCCCccCccccccCCccCCCCCceeeeecCccccCCCCccCCCCCcccccchhhccc
Q 000616 259 ISAKSILDGSLIRNKRTRKSPDGSECNDLDSSALMSNGSIEDNSSEIVTVESDAFSLNEGSTVDSGCKVEDSETVLECLD 338 (1389)
Q Consensus 259 ~s~~~~~d~~~~~~k~~~~S~~~s~~ddv~Ss~~~~ngs~edn~~ei~t~~sd~~slNegs~vds~~~~E~Se~~~~~~e 338 (1389)
...|..+.+.++|.+.++++. -+++..+|+..+.|.+...=+...
T Consensus 139 ----------------------------------~~~~~~~~~~s~~as~e~~~~-~~~~~~~~~~~~~d~~~~~d~~~~ 183 (496)
T KOG1904|consen 139 ----------------------------------GEPGADENNASEIATPESDNN-RPEGNGEDSSSKVDYSDSTDHFEL 183 (496)
T ss_pred ----------------------------------ccccccccccccccccccccc-CCccCccccccccccccccccccc
Confidence 223334444555666655554 678889999999998777666778
Q ss_pred cccccccccccceeeeeeccccCCCCcccccCCCCCccccCccccccccccccccCCcccCCCCCCCCCccCCCCCcc
Q 000616 339 GDEMLSKRLDFQIKAVVVKKKRKPNRKRVCNDAVDPPARINTATEVDVSTRNTCHSSENTGGNLDERDFKEDGDEHLP 416 (1389)
Q Consensus 339 ~e~~l~~~~d~~~k~vv~kkKRKpnrk~~~nd~~~p~~~~~~~~~l~~~~~~~~~~s~N~~~ns~e~~~k~DGDEHLP 416 (1389)
|..+|++++.++|.+.+.++|||..|||.|.+ +... ++.++|-..-+.++.++++|++|+|
T Consensus 184 ~~~el~~~~~~~~~~~~~r~~~kg~rkr~ts~-------------~~~~----~~~~~a~~~k~t~~~~~~~~s~krP 244 (496)
T KOG1904|consen 184 GGDELNKGKRKPIDTMVKRKKRKGTRKRKTSD-------------AEPK----VQRSQASHEKLTERPCESNGSEKRP 244 (496)
T ss_pred cchhhccccccccccccccccCcccccccccc-------------cccc----ccccccchhhccCCCcccccccccc
Confidence 89999999999999999999999999999888 1223 4477777888999999999999999
No 2
>cd05834 HDGF_related The PWWP domain is an essential part of the Hepatoma Derived Growth Factor (HDGF) family of proteins, and is necessary for DNA binding by HDGF. This family of endogenous nuclear-targeted mitogens includes HRP (HDGF-related proteins 1, 2, 3, 4, or HPR1, HPR2, HPR3, HPR4, respectively) and lens epithelium-derived growth factor, LEDGF. Members of the HDGF family have been linked to human diseases, and HDGF is a prognostic factor in several types of cancer. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes.
Probab=99.87 E-value=1.1e-22 Score=188.33 Aligned_cols=81 Identities=51% Similarity=0.835 Sum_probs=71.5
Q ss_pred CCccCCEEEEccCCCCCCCeeeeCCCCCCCCCCCCEEEEEEecCCCeeeeccCccccccHHHHHHhhhhcCCCcHHHHHH
Q 000616 21 QWKVGDLVLAKVKGFPAWPATVSEPEKWGYSADWKKVLVFFFGTQQIAFCNPADVEAFTEEKKQSLLTKRQGRGADFVRA 100 (1389)
Q Consensus 21 kFk~GDLVWAKVKGYPwWPArI~dPe~~~~K~~~nkylV~FFGT~EyAWV~~kdLkPFsE~k~esfl~KrkgK~KdF~eA 100 (1389)
+|++||||||||+|||||||+|+++... +...++|+|+|||+++|+||..++|+||++++. ++..+ .|.+.|++|
T Consensus 2 ~f~~GdlVwaK~kGyp~WPa~I~~~~~~--~~~~~~~~V~FfGt~~~a~v~~~~l~pf~~~~~-~~~~~--~k~k~F~~A 76 (83)
T cd05834 2 QFKAGDLVFAKVKGYPAWPARVDEPEDW--KPPGKKYPVYFFGTHETAFLKPEDLFPYTENKK-KFGKP--KKRKGFNEA 76 (83)
T ss_pred CCCCCCEEEEecCCCCCCCEEEeccccc--CCCCCEEEEEEeCCCCEeEECHHHceecccchh-hhccc--cchHHHHHH
Confidence 6999999999999999999999997764 455689999999999999999999999999865 45533 478999999
Q ss_pred HHHHHH
Q 000616 101 VQEIID 106 (1389)
Q Consensus 101 meEAeE 106 (1389)
|+||++
T Consensus 77 v~eie~ 82 (83)
T cd05834 77 VWEIEK 82 (83)
T ss_pred HHHHhh
Confidence 999986
No 3
>cd05836 N_Pac_NP60 The PWWP domain is an essential part of the cytokine-like nuclear factor n-pac protein, or NP60, which enhances the activity of MAP2K4 and MAP2K6 kinases to phosphorylate p38-alpha. In a variety of cell lines, NP60 has been shown to localize to the nucleus. In addition to the PWWP domain, NP60 also contains an AT-hook and a C-terminal NAD-binding domain. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding proteins, that function as transcription factors regulating a variety of developmental processes.
Probab=99.87 E-value=2.3e-22 Score=187.05 Aligned_cols=84 Identities=36% Similarity=0.674 Sum_probs=70.9
Q ss_pred CccCCEEEEccCCCCCCCeeeeCCCCCCCC--CCCCEEEEEEecCCCeeeeccCccccccHHHHHHhhhhcCCCcHHHHH
Q 000616 22 WKVGDLVLAKVKGFPAWPATVSEPEKWGYS--ADWKKVLVFFFGTQQIAFCNPADVEAFTEEKKQSLLTKRQGRGADFVR 99 (1389)
Q Consensus 22 Fk~GDLVWAKVKGYPwWPArI~dPe~~~~K--~~~nkylV~FFGT~EyAWV~~kdLkPFsE~k~esfl~KrkgK~KdF~e 99 (1389)
|++||||||||+|||||||+|+++.....+ ...+.|+|+|||+++|+||..++|+||++++. .|. +..|.+.|++
T Consensus 1 f~~GDlVwaK~~g~P~WPa~V~~~~~~~~~~~~~~~~~~V~FFG~~~~~wv~~~~l~pF~~~~~-~~~--~~~k~~~F~~ 77 (86)
T cd05836 1 LKLGDLVWAKMKGFPPWPGRIVKPPKDLKKPRGKAKCFFVFFFGSENHAWIKEENIKPYHEHKE-EMI--KLNKGARFQQ 77 (86)
T ss_pred CCCCCEEEEeCCCCCCCCEEEechhhhcccccCCCCeEEEEEeCCCCEEEECHHhCeechhhHH-HHh--cccchHHHHH
Confidence 789999999999999999999996543222 22468999999999999999999999999876 454 2457899999
Q ss_pred HHHHHHHHH
Q 000616 100 AVQEIIDSY 108 (1389)
Q Consensus 100 AmeEAeE~~ 108 (1389)
||+||++++
T Consensus 78 Av~~ie~~~ 86 (86)
T cd05836 78 AVDAIEEYI 86 (86)
T ss_pred HHHHHHHhC
Confidence 999999873
No 4
>PF12243 CTK3: CTD kinase subunit gamma CTK3
Probab=99.87 E-value=9.4e-22 Score=197.57 Aligned_cols=132 Identities=26% Similarity=0.420 Sum_probs=125.2
Q ss_pred HhhHHHHHHhhhhhhhhhhHHHHHHHHHHhhccCchHHHHHHHHHHhhccccccchhhhhhhhhHHHHhhccCCCCCCCC
Q 000616 859 AALSSFEAVLGSLTRTKESIGRATRIAIDCAKFGVSSKVVEIVARHLESESSLYRRVDLFFLVDSIMQCSRGMKGDVSGI 938 (1389)
Q Consensus 859 ~ard~Fe~mL~tLtRtKesI~rATr~AidcAk~gia~~vveiL~e~Le~Ess~~rRvdllfLvDSI~q~S~a~KG~~~~~ 938 (1389)
-+|.+|.+||++|+++++||.+||+|||+| ++..++++++|+|.|+++ ++.+|+++||+||+++++|+..+ +.+..
T Consensus 5 E~r~~F~~~L~~L~aS~qSi~kaa~fAlk~--~~~~edL~~cIle~le~~-~lN~R~nI~~fID~l~e~~~~~~-~~~~~ 80 (139)
T PF12243_consen 5 EVRMQFTQLLRRLNASQQSIQKAAQFALKN--RDMEEDLWSCILEQLEKE-NLNTRINIFYFIDSLCESSQKSK-KYNYP 80 (139)
T ss_pred HHHHHHHHHHHHcchhHHHHHHHHHHHHHc--cccHHHHHHHHHHHHhcc-chhhHHHHHHHHHHHHHHHHhcc-cccch
Confidence 367889999999999999999999999999 569999999999999997 99999999999999999998877 55789
Q ss_pred cHHHHHHHHHHHhhccCCCCcchHHHHHHHHHHHHHHHhhccCcHHHHHHhhhhcc
Q 000616 939 IPSAILTVLPRLLSAAAPPGNVAQENRRQCLKVLRLWLERRILPESIIRHHMRELD 994 (1389)
Q Consensus 939 Y~s~vQ~iLPrll~aaap~G~~a~enRrqclKVL~lW~eR~i~pe~~lr~~~~ei~ 994 (1389)
|...||.-||+|+.+++|+|+..++|+++|.|||+.|.+|++|.+.++++.+..|+
T Consensus 81 Yv~~l~~dL~~Iv~~V~P~~~~g~~N~~~~~kvL~~~~~k~~l~~~~~~~~~~~l~ 136 (139)
T PF12243_consen 81 YVSMLQRDLPRIVDAVAPPDNSGAANLKSVRKVLKNWSKKKILDPEEYEEIEASLK 136 (139)
T ss_pred hHHHHHHHHHHHHHHhCCCCCccchHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHh
Confidence 99999999999999999999999999999999999999999999999999998886
No 5
>cd05840 SPBC215_ISWI_like The PWWP domain is a component of the S. pombe hypothetical protein SPBC215, as well as ISWI complex protein 4. The ISWI (imitation switch) proteins are ATPases responsible for chromatin remodeling in eukaryotes, and SPBC215 is proposed to also bind chromatin. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes.
Probab=99.85 E-value=8.7e-22 Score=185.80 Aligned_cols=85 Identities=34% Similarity=0.543 Sum_probs=75.9
Q ss_pred CccCCEEEEccCCCCCCCeeeeCCCCCCC-------CCCCCEEEEEEecCCCeeeeccCccccccHHHHHHhhhhcCCCc
Q 000616 22 WKVGDLVLAKVKGFPAWPATVSEPEKWGY-------SADWKKVLVFFFGTQQIAFCNPADVEAFTEEKKQSLLTKRQGRG 94 (1389)
Q Consensus 22 Fk~GDLVWAKVKGYPwWPArI~dPe~~~~-------K~~~nkylV~FFGT~EyAWV~~kdLkPFsE~k~esfl~KrkgK~ 94 (1389)
|++||||||||+|||||||+|++++..+. +...+.|+|+|||+++|+||..++|+||+++.+..|+.+.++|.
T Consensus 1 f~~GDlVwaK~~GyPwWPA~V~~~~~~p~~~l~~~~~~~~~~~~V~FFg~~~~~Wv~~~~l~pl~~~~~~~~l~~~~~k~ 80 (93)
T cd05840 1 FQPGDRVLAKVKGFPAWPAIVVPEEMLPDSVLKGKKKKNKRTYPVMFFPDGDYYWVPNKDLKPLTEEKIAKFLKKPKRKD 80 (93)
T ss_pred CCCCCEEEEeCCCCCCCCEEECChHHCCHHHHhcccCCCCCeEEEEEeCCCcEEEEChhhcccCCHHHHHHHhhcCCCCC
Confidence 78999999999999999999999765432 23467899999999999999999999999999989998888899
Q ss_pred HHHHHHHHHHHH
Q 000616 95 ADFVRAVQEIID 106 (1389)
Q Consensus 95 KdF~eAmeEAeE 106 (1389)
+.|.+||+.|.+
T Consensus 81 k~l~~ay~~A~~ 92 (93)
T cd05840 81 KELIKAYKAAKD 92 (93)
T ss_pred HHHHHHHHHhcC
Confidence 999999999974
No 6
>cd05835 Dnmt3b_related The PWWP domain is an essential component of DNA methyltransferase 3 B (Dnmt3b) which is responsible for establishing DNA methylation patterns during embryogenesis and gametogenesis. In tumorigenesis, DNA methylation by Dnmt3b is known to play a role in the inactivation of tumor suppressor genes. In addition, a point mutation in the PWWP domain of Dnmt3b has been identified in patients with ICF syndrome (immunodeficiency, centromeric instability, and facial anomalies), a rare autosomal recessive disorder characterized by hypomethylation of classical satellite DNA. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes.
Probab=99.85 E-value=1.9e-21 Score=180.83 Aligned_cols=85 Identities=25% Similarity=0.393 Sum_probs=72.0
Q ss_pred CccCCEEEEccCCCCCCCeeeeCCCCCCC-CCCCCEEEEEEecCCCeeeeccCccccccHHHHHHhhhhcCCCcHHHHHH
Q 000616 22 WKVGDLVLAKVKGFPAWPATVSEPEKWGY-SADWKKVLVFFFGTQQIAFCNPADVEAFTEEKKQSLLTKRQGRGADFVRA 100 (1389)
Q Consensus 22 Fk~GDLVWAKVKGYPwWPArI~dPe~~~~-K~~~nkylV~FFGT~EyAWV~~kdLkPFsE~k~esfl~KrkgK~KdF~eA 100 (1389)
|.+||||||||+|||||||+|+++..... ....++++|+|||+++|+||.+++|+||.++.. .|....+.|.+.|++|
T Consensus 1 f~vGDlVWaK~kg~pwWP~~V~~~~~~~~~~~~~~~~~V~fFGs~~~a~v~~~~l~pf~e~~~-~f~~~~~~k~~~f~~A 79 (87)
T cd05835 1 FNVGDLVWGKIKGFPWWPGRVVSITVTSKRPPVVGMRWVTWFGSGTFSEVSVDKLSPFSEFFK-AFSRYNRKKKGLYKKA 79 (87)
T ss_pred CCCCCEEEEecCCCCCCCeEEechhhcccccCCCCeEEEEEeCCCCEeEECHHHCcChhHhHH-HHhhhhhhhhHHHHHH
Confidence 78999999999999999999999754432 345678999999999999999999999999876 3433444578999999
Q ss_pred HHHHHHH
Q 000616 101 VQEIIDS 107 (1389)
Q Consensus 101 meEAeE~ 107 (1389)
|+||++.
T Consensus 80 i~eA~e~ 86 (87)
T cd05835 80 IYEALEV 86 (87)
T ss_pred HHHHHHc
Confidence 9999874
No 7
>cd05838 WHSC1_related The PWWP domain was first identified in the WHSC1 (Wolf-Hirschhorn syndrome candidate 1) protein, a protein implicated in Wolf-Hirschhorn syndrome (WHS). When translocated, WHSC1 plays a role in lymphoid multiple myeloma (MM) disease, also known as plasmacytoma. WHCS1 proteins typically contain two copies of the PWWP domain. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes.
Probab=99.83 E-value=6.2e-21 Score=180.29 Aligned_cols=89 Identities=24% Similarity=0.337 Sum_probs=71.9
Q ss_pred CccCCEEEEccCCCCCCCeeeeCCCCCCC-----CCCCCEEEEEEecCCCeeeeccCccccccHHHHHHhhhhcCCCcHH
Q 000616 22 WKVGDLVLAKVKGFPAWPATVSEPEKWGY-----SADWKKVLVFFFGTQQIAFCNPADVEAFTEEKKQSLLTKRQGRGAD 96 (1389)
Q Consensus 22 Fk~GDLVWAKVKGYPwWPArI~dPe~~~~-----K~~~nkylV~FFGT~EyAWV~~kdLkPFsE~k~esfl~KrkgK~Kd 96 (1389)
+.+||||||||+|||||||+|+++...+. +...+.|+|+|||+++|+||..++|+||+++....+...++.+.+.
T Consensus 1 ~~~GdlVWaK~~g~pwWPa~V~~~~~~p~~~~~~~~~~~~~~V~Ffgs~~y~Wv~~~~l~pf~e~~~~~~~~~~~~~~~~ 80 (95)
T cd05838 1 PLYGDIVWAKLGNFRWWPAIICDPREVPPNIQVLRHCIGEFCVMFFGTHDYYWVHRGRVFPYQEGDKGFKEQTKSYLAKR 80 (95)
T ss_pred CCcCCEEEEECCCCCCCCeEEcChhhcChhHhhccCCCCeEEEEEeCCCCEEEeccccccchhhhhhhhhhhhhhhhHHH
Confidence 46899999999999999999999765432 2345789999999999999999999999988653222112246789
Q ss_pred HHHHHHHHHHHHHH
Q 000616 97 FVRAVQEIIDSYEK 110 (1389)
Q Consensus 97 F~eAmeEAeE~~E~ 110 (1389)
|++||+||.++++.
T Consensus 81 f~~AleEA~~~~~~ 94 (95)
T cd05838 81 FRKALEEASLAFKG 94 (95)
T ss_pred HHHHHHHHHHHhhc
Confidence 99999999998764
No 8
>cd05162 PWWP The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes. The function of the PWWP domain is still not known precisely; however, based on the fact that other regions of PWWP-domain proteins are responsible for nuclear localization and DNA-binding, is likely that the PWWP domain acts as a site for protein-protein binding interactions, influencing chromatin remodeling and thereby regulating transcriptional processes. Some PWWP-domain proteins have been linked to cancer or other diseases; some are known to function as growth factors.
Probab=99.83 E-value=1.1e-20 Score=173.64 Aligned_cols=82 Identities=39% Similarity=0.679 Sum_probs=71.2
Q ss_pred CccCCEEEEccCCCCCCCeeeeCCCCCCC----CCCCCEEEEEEecCCCeeeeccCccccccHHHHHHhhhhcCCCcHHH
Q 000616 22 WKVGDLVLAKVKGFPAWPATVSEPEKWGY----SADWKKVLVFFFGTQQIAFCNPADVEAFTEEKKQSLLTKRQGRGADF 97 (1389)
Q Consensus 22 Fk~GDLVWAKVKGYPwWPArI~dPe~~~~----K~~~nkylV~FFGT~EyAWV~~kdLkPFsE~k~esfl~KrkgK~KdF 97 (1389)
|++||||||||+|||||||+|+++..... +...+.|+|+|||+++|+||..++|+||+++.+. . .++.|.+.|
T Consensus 1 f~~GdlVwaK~~g~pwWPa~V~~~~~~~~~~~~~~~~~~~~V~Ffg~~~~~wv~~~~l~pf~~~~~~-~--~~~~k~~~f 77 (87)
T cd05162 1 FRPGDLVWAKMKGYPWWPALVVDPPKDSKKAKKKAKEGKVLVLFFGDKTFAWVGAERLKPFTEHKES-E--AKQSKRKGF 77 (87)
T ss_pred CCCCCEEEEeCCCCCCCCEEEccccccchhhhccCCCCEEEEEEeCCCcEEEeCccceeeccchHHh-h--ccCCccHHH
Confidence 78999999999999999999999776542 3445789999999999999999999999998865 2 345688999
Q ss_pred HHHHHHHHH
Q 000616 98 VRAVQEIID 106 (1389)
Q Consensus 98 ~eAmeEAeE 106 (1389)
++||++|++
T Consensus 78 ~~A~~eA~~ 86 (87)
T cd05162 78 KKAYDEALE 86 (87)
T ss_pred HHHHHHHHh
Confidence 999999986
No 9
>PF00855 PWWP: PWWP domain; InterPro: IPR000313 Upon characterisation of WHSC1, a gene mapping to the Wolf-Hirschhornsyndrome critical region and at its C terminus similar to the Drosophila melanogaster ASH1/trithorax group proteins, a novel protein domain designated PWWP domain was identified []. The PWWP domain is named after a conserved Pro-Trp-Trp-Pro motif. It is present in proteins of nuclear origin and plays a role in cell growth and differentiation. Due to its position, the composition of amino acids close to the PWWP motif and the pattern of other domains present it has been suggested that the domain is involved in protein-protein interactions [].; PDB: 3LYI_B 2L89_A 2NLU_A 1RI0_A 1KHC_A 3QKJ_C 2DAQ_A 1N27_A 3PFS_B 3QJ6_A ....
Probab=99.82 E-value=6.1e-21 Score=172.58 Aligned_cols=85 Identities=35% Similarity=0.679 Sum_probs=70.5
Q ss_pred CccCCEEEEccCCCCCCCeeeeCCCCCCC-CCCCCEEEEEEecCCCeeeeccCccccccHHHHHHhhhhcCCCcHHHHHH
Q 000616 22 WKVGDLVLAKVKGFPAWPATVSEPEKWGY-SADWKKVLVFFFGTQQIAFCNPADVEAFTEEKKQSLLTKRQGRGADFVRA 100 (1389)
Q Consensus 22 Fk~GDLVWAKVKGYPwWPArI~dPe~~~~-K~~~nkylV~FFGT~EyAWV~~kdLkPFsE~k~esfl~KrkgK~KdF~eA 100 (1389)
|++||||||||+|||||||+|+++..... +...+.|+|+|||+++|+||..++|++|++.. +.+..+.+.|.+.|++|
T Consensus 1 f~~GdlVWaK~~g~pwWPa~V~~~~~~~~~~~~~~~~~V~Ffg~~~~~wv~~~~i~~f~~~~-~~~~~~~~~k~~~~~~A 79 (86)
T PF00855_consen 1 FRPGDLVWAKLKGYPWWPARVCDPDEKSKKKRKDGHVLVRFFGDNDYAWVKPSNIKPFSEFK-EKLKKKKKKKRKSFRKA 79 (86)
T ss_dssp -STTEEEEEEETTSEEEEEEEEECCHCTSCSSSSTEEEEEETTTTEEEEEEGGGEEECCHHH-HHHHHHHHHHSHHHHHH
T ss_pred CCCCCEEEEEeCCCCCCceEEeecccccccCCCCCEEEEEecCCCCEEEECHHHhhChhhhH-HHHHHhhccchHHHHHH
Confidence 78999999999999999999999764433 34567899999999999999999999999655 45554433467899999
Q ss_pred HHHHHHH
Q 000616 101 VQEIIDS 107 (1389)
Q Consensus 101 meEAeE~ 107 (1389)
|+||+++
T Consensus 80 i~eA~~~ 86 (86)
T PF00855_consen 80 IEEAEEA 86 (86)
T ss_dssp HHHHHHH
T ss_pred HHHHHhC
Confidence 9999975
No 10
>cd05841 BS69_related The PWWP domain is part of BS69 protein, a nuclear protein that specifically binds adenoviral E1A and Epstein-Barr viral EBNA2 proteins, suppressing their transactivation functions. BS69 is a multi-domain protein, containing bromo, PHD, PWWP, and MYND domains. The specific role of the PWWP domain within BS69 is not clearly identified, but BS69 functions in chromatin remodeling, consistent with other PWWP-containing proteins. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes.
Probab=99.81 E-value=2.4e-20 Score=173.68 Aligned_cols=77 Identities=34% Similarity=0.510 Sum_probs=67.2
Q ss_pred CCCccCCEEEEccCCCCCCCeeeeCCCCCCCCCCCCEEEEEEec-CCCeeeeccCccccccHHHHHHhhhhcCCCcHHHH
Q 000616 20 RQWKVGDLVLAKVKGFPAWPATVSEPEKWGYSADWKKVLVFFFG-TQQIAFCNPADVEAFTEEKKQSLLTKRQGRGADFV 98 (1389)
Q Consensus 20 ~kFk~GDLVWAKVKGYPwWPArI~dPe~~~~K~~~nkylV~FFG-T~EyAWV~~kdLkPFsE~k~esfl~KrkgK~KdF~ 98 (1389)
..+++||||||||+|||||||+|+.... ++|+|+||| ++++|||+.++|++|+++.. .+..+ .|++.|+
T Consensus 5 pc~~p~dLVwAK~kGyp~WPAkV~~~~~-------~~~~V~FFG~t~~~a~v~~~~i~~~~~~~~-~~~~~--~k~~~f~ 74 (83)
T cd05841 5 PCRPPHELVWAKLKGFPYWPAKVMRVED-------NQVDVRFFGGQHDRAWIPSNNIQPISTEIP-QQLVK--KRSRGFN 74 (83)
T ss_pred ccCCCCCEEEEeCCCCCCCCEEEeecCC-------CeEEEEEcCCCCCeEEEehHHeeehhhhhh-hhccc--cccHHHH
Confidence 3689999999999999999999998643 799999999 99999999999999998864 34433 3678999
Q ss_pred HHHHHHHH
Q 000616 99 RAVQEIID 106 (1389)
Q Consensus 99 eAmeEAeE 106 (1389)
+||+||+.
T Consensus 75 ~A~~Eie~ 82 (83)
T cd05841 75 KAMDELEL 82 (83)
T ss_pred HHHHHHHh
Confidence 99999986
No 11
>cd05837 MSH6_like The PWWP domain is present in MSH6, a mismatch repair protein homologous to bacterial MutS. The PWWP domain of histone-lysine N-methyltransferase, also known as Nuclear SET domain-containing protein 3, is also included. Mutations in MSH6 have been linked to increased cancer susceptibility, particularly in hereditary nonpolyposis colorectal cancer in humans. The role of the PWWP domain in MSH6 is not clear; MSH6 orthologs found in S. cerevisiae, Caenorhabditis elegans and Arabidopsis thaliana lack the PWWP domain. Histone methyltransferases (HMTases) induce the posttranslational methylation of lysine residues in histones and play a role in apoptosis. In the HMTase Whistle, the PWWP domain is necessary for HMTase activity. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain pro
Probab=99.72 E-value=8.5e-18 Score=162.65 Aligned_cols=86 Identities=29% Similarity=0.454 Sum_probs=63.2
Q ss_pred CCccCCEEEEccCCCCCCCeeeeCCCCCC-------CCCCCCEEEEEEecC-CCeeeeccCccccccHHHHHH--hhhh-
Q 000616 21 QWKVGDLVLAKVKGFPAWPATVSEPEKWG-------YSADWKKVLVFFFGT-QQIAFCNPADVEAFTEEKKQS--LLTK- 89 (1389)
Q Consensus 21 kFk~GDLVWAKVKGYPwWPArI~dPe~~~-------~K~~~nkylV~FFGT-~EyAWV~~kdLkPFsE~k~es--fl~K- 89 (1389)
.|++||||||||+|||||||+|++....+ .+...+.|+|+|||+ ++|+||+.++|+||++.+... ...+
T Consensus 2 ~~~~GdlVWaK~~g~PwWPa~V~~~~~~~~~~~~~~~~~~~~~~~V~FFG~~~~~aWv~~~~l~pf~~~~~~~~~~~~~~ 81 (110)
T cd05837 2 KYQVGDLVWAKVSGYPWWPCMVCSDPLLGTYTKTKRNKRKPRQYHVQFFGDNPERAWISEKSLKPFKGSKQFESEKGEKF 81 (110)
T ss_pred CCCCCCEEEEeCCCCCCCCEEEecccccchhhhhhhccCCCCeEEEEEcCCCCCEEEecHHHccccCCchhhhhhhhhhh
Confidence 69999999999999999999999744432 124467899999997 599999999999999887532 1111
Q ss_pred --cCCC-cHHHHHHHHHHHH
Q 000616 90 --RQGR-GADFVRAVQEIID 106 (1389)
Q Consensus 90 --rkgK-~KdF~eAmeEAeE 106 (1389)
.+.| ++.+.+|+.+|+.
T Consensus 82 ~~~K~~~~~~~~~a~~~~~~ 101 (110)
T cd05837 82 KVRKPNIKKARQKADIAIMQ 101 (110)
T ss_pred hccCCcchhHHHHHHHHHHH
Confidence 1112 4456666666655
No 12
>smart00293 PWWP domain with conserved PWWP motif. conservation of Pro-Trp-Trp-Pro residues
Probab=99.71 E-value=8.4e-18 Score=147.90 Aligned_cols=58 Identities=38% Similarity=0.592 Sum_probs=51.6
Q ss_pred CccCCEEEEccCCCCCCCeeeeCCCCCCC-----CCCCCEEEEEEecCCCeeeeccCcccccc
Q 000616 22 WKVGDLVLAKVKGFPAWPATVSEPEKWGY-----SADWKKVLVFFFGTQQIAFCNPADVEAFT 79 (1389)
Q Consensus 22 Fk~GDLVWAKVKGYPwWPArI~dPe~~~~-----K~~~nkylV~FFGT~EyAWV~~kdLkPFs 79 (1389)
|++||||||||+|||||||+|+++...+. +...+.|+|+|||+++||||..++|+||+
T Consensus 1 f~~GdlVwaK~~G~p~WPa~V~~~~~~~~~~~~~~~~~~~~~V~Ffg~~~~awv~~~~l~p~~ 63 (63)
T smart00293 1 FKPGDLVWAKMKGFPWWPALVVSPKETPDNIRKRKRFENLYPVLFFGDKDTAWISSSKLFPLT 63 (63)
T ss_pred CCCCCEEEEECCCCCCCCeEEcCcccCChhHhhccCCCCEEEEEEeCCCCEEEECccceeeCC
Confidence 78999999999999999999999776542 34467899999999999999999999985
No 13
>smart00582 RPR domain present in proteins, which are involved in regulation of nuclear pre-mRNA.
Probab=99.66 E-value=1.9e-16 Score=151.85 Aligned_cols=118 Identities=31% Similarity=0.490 Sum_probs=100.0
Q ss_pred HHHHHhhhhhhhhhhHHHHHHHHHHhhccCchHHHHHHHHHHhhccccccchhhhhhhhhHHHHhhccCCCCC-CCCcHH
Q 000616 863 SFEAVLGSLTRTKESIGRATRIAIDCAKFGVSSKVVEIVARHLESESSLYRRVDLFFLVDSIMQCSRGMKGDV-SGIIPS 941 (1389)
Q Consensus 863 ~Fe~mL~tLtRtKesI~rATr~AidcAk~gia~~vveiL~e~Le~Ess~~rRvdllfLvDSI~q~S~a~KG~~-~~~Y~s 941 (1389)
+|+++|++|+.+|++|..+|.+||++++ -+.++|++|.+++.+.+ ..+|+.+|||+|+|.|+|..+.|.. ...|.+
T Consensus 1 ~f~~~L~~L~~s~~~I~~lt~~~~~~~~--~a~~Iv~~i~~~~~~~~-~~~kL~~LYlindIl~n~~~~~~~~f~~~~~~ 77 (121)
T smart00582 1 AFEQKLESLNNSQESIQTLTKWAIEHAS--HAKEIVELWEKYIKKAP-PPRKLPLLYLLDSIVQNSKRKYGSEFGDELGP 77 (121)
T ss_pred ChHHHHHhccccHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHhCC-ccceehhHHhHHHHHHHHhhccHHHHHHHHHH
Confidence 4999999999999999999999999999 55789999999998754 4799999999999999998876431 244555
Q ss_pred HHHHHHHHHhhccCCCCcchHHHHHHHHHHHHHHHhhccCcHHHHHHh
Q 000616 942 AILTVLPRLLSAAAPPGNVAQENRRQCLKVLRLWLERRILPESIIRHH 989 (1389)
Q Consensus 942 ~vQ~iLPrll~aaap~G~~a~enRrqclKVL~lW~eR~i~pe~~lr~~ 989 (1389)
.++.+++.+...+ .++.|++++|||++|.+|+|||+.+|++.
T Consensus 78 ~~~~~~~~~~~~~------~~~~~~ki~kll~iW~~~~iF~~~~i~~L 119 (121)
T smart00582 78 VFQDALRDVLGAA------NDETKKKIRRLLNIWEERGIFPPSVLRPL 119 (121)
T ss_pred HHHHHHHHHHHhC------CHHHHHHHHHHHHHHhcCCCCCHHHHHHh
Confidence 6666666666544 27999999999999999999999999865
No 14
>cd06080 MUM1_like Mutated melanoma-associated antigen 1 (MUM-1) is a melanoma-associated antigen (MAA). MUM-1 belongs to the mutated or aberrantly expressed type of MAAs, along with antigens such as CDK4, beta-catenin, gp100-in4, p15, and N-acetylglucosaminyltransferase V. It is highly expressed in several types of human cancers. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes.
Probab=99.62 E-value=7.6e-16 Score=142.94 Aligned_cols=76 Identities=25% Similarity=0.348 Sum_probs=60.5
Q ss_pred CccCCEEEEccCCCCCCCeeeeCCCCCCCCCCCCEEEEEEecCC-CeeeeccCccccccHHHHHHhhhhcCCCcHHHHHH
Q 000616 22 WKVGDLVLAKVKGFPAWPATVSEPEKWGYSADWKKVLVFFFGTQ-QIAFCNPADVEAFTEEKKQSLLTKRQGRGADFVRA 100 (1389)
Q Consensus 22 Fk~GDLVWAKVKGYPwWPArI~dPe~~~~K~~~nkylV~FFGT~-EyAWV~~kdLkPFsE~k~esfl~KrkgK~KdF~eA 100 (1389)
|++||||||||+|||||||+|.++.. ..++|+|+|||++ +++|+..++|+||.++..... | ..+.+..+++
T Consensus 1 f~~gdlVWaK~~g~P~WPa~I~~~~~-----~~~k~~V~FfG~~~~~a~~~~~~l~p~~~~~~~~e--k-~~~~~k~ke~ 72 (80)
T cd06080 1 FEKNDLVWAKIQGYPWWPAVIKSISR-----KKQKARVNFIGDNMQSEKKGIRVVKRWLKHFDCTE--K-QKLTNKAKES 72 (80)
T ss_pred CCCCCEEEEeCCCCCCCCEEEeeecC-----CCCEEEEEEeCCCCceeccchhhcccccccHHHHH--H-HHHHHHHHHH
Confidence 78999999999999999999998643 2679999999999 999999999999999876421 1 1123445666
Q ss_pred HHHHH
Q 000616 101 VQEII 105 (1389)
Q Consensus 101 meEAe 105 (1389)
|++|.
T Consensus 73 ~~~ai 77 (80)
T cd06080 73 YEQAI 77 (80)
T ss_pred HHHHh
Confidence 66654
No 15
>cd05839 BR140_related The PWWP domain is found in the BR140 family, which includes peregrin and BR140-like proteins 1 and 2. BR140 is the only family to contain the PWWP domain at the C terminus, with PHD and bromo domains in the N-terminal region. In myeloid leukemias, BR140 is disrupted by chromosomal translocations, similar to translocations of WHSC1 in lymphoid multiple myeloma. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding proteins, that function as transcription factors regulating a variety of developmental processes.
Probab=99.57 E-value=2.9e-15 Score=146.40 Aligned_cols=85 Identities=21% Similarity=0.354 Sum_probs=62.7
Q ss_pred CccCCEEEEccCCCCCCCeeeeCCCCCCC--------------------CCCCCEEEEEEecC-CCeeeeccCccccccH
Q 000616 22 WKVGDLVLAKVKGFPAWPATVSEPEKWGY--------------------SADWKKVLVFFFGT-QQIAFCNPADVEAFTE 80 (1389)
Q Consensus 22 Fk~GDLVWAKVKGYPwWPArI~dPe~~~~--------------------K~~~nkylV~FFGT-~EyAWV~~kdLkPFsE 80 (1389)
+.+|||||||++|||||||+|+++..... ....+.|+|.||++ .+|+||+.++|+||.+
T Consensus 1 ~~pg~lVwaK~~g~P~wPa~iidp~~~~~~~~~~~~p~~~l~~~~~~~~~~~~~~~lV~FFd~~~s~~Wv~~~~l~pl~~ 80 (111)
T cd05839 1 LEPLTLVWAKCRGYPSYPALIIDPKMPRDGVFHNGVPPDVLTLGEARAQNADERLYLVLFFDNKRTWQWLPGDKLEPLGV 80 (111)
T ss_pred CCCcCEeeeeecCCCCCCeEeeCCCCCCcccccCCCCchhhhHHHHHhccCCCcEEEEEEecCCCcceecCHHHCccccc
Confidence 47899999999999999999999753211 12345699999997 7999999999999998
Q ss_pred HHHH---Hhh-hhcCCCcHHHHHHHHHHHH
Q 000616 81 EKKQ---SLL-TKRQGRGADFVRAVQEIID 106 (1389)
Q Consensus 81 ~k~e---sfl-~KrkgK~KdF~eAmeEAeE 106 (1389)
.... ++. .+++.+.+.++.||+.|++
T Consensus 81 ~~~~D~~kl~~~rk~~~rk~~~~Ay~~Al~ 110 (111)
T cd05839 81 DETLDKLKLKEGRKPSIRKAVQKAYDDALS 110 (111)
T ss_pred chhhhhhhhhhccCHHHHHHHHHHHHHHhc
Confidence 6542 111 1223345677777777764
No 16
>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]
Probab=99.52 E-value=2.1e-14 Score=169.68 Aligned_cols=130 Identities=22% Similarity=0.379 Sum_probs=118.2
Q ss_pred HHhhHHHHHHhhhhhhhhhhHHHHHHHHHHhhccCchHHHHHHHHHHhh-ccccccchhhhhhhhhHHHHhhccCCCCCC
Q 000616 858 HAALSSFEAVLGSLTRTKESIGRATRIAIDCAKFGVSSKVVEIVARHLE-SESSLYRRVDLFFLVDSIMQCSRGMKGDVS 936 (1389)
Q Consensus 858 ~~ard~Fe~mL~tLtRtKesI~rATr~AidcAk~gia~~vveiL~e~Le-~Ess~~rRvdllfLvDSI~q~S~a~KG~~~ 936 (1389)
...||.||.||+.||-.|.+||.|+.|||+.|+ .|+||+|+|.+.|. .++.++++|.+||||.+|..+|.+.. .++
T Consensus 430 d~qRdklE~liR~LTpEk~sIg~aM~FalenA~--aa~EI~eci~eSlt~~~t~~~kKiarLyLvsDIL~N~sarv-~na 506 (877)
T KOG0151|consen 430 DLQRDKLEDLIRGLTPEKSSIGDAMVFALENAD--AAGEIVECITESLTNKETPLPKKIARLYLVSDILHNSSARV-ANA 506 (877)
T ss_pred hHHHHHHHHHHHhcCcccchHHHHHHHHHhhhh--hHHHHHHHHHHHHhccCCcchhHHHHHHHHHHHHhhhhhhh-hHH
Confidence 457899999999999999999999999999999 89999999999999 77899999999999999999988853 456
Q ss_pred CCcHHHHHHHHHHHhhccC-----CCCc-chHHHHHHHHHHHHHHHhhccCcHHHHHHhh
Q 000616 937 GIIPSAILTVLPRLLSAAA-----PPGN-VAQENRRQCLKVLRLWLERRILPESIIRHHM 990 (1389)
Q Consensus 937 ~~Y~s~vQ~iLPrll~aaa-----p~G~-~a~enRrqclKVL~lW~eR~i~pe~~lr~~~ 990 (1389)
..|...|.+-|++||.++. ..|. .++.-.++|+|||+.|.+|.|||+.+|-+.-
T Consensus 507 s~YR~~FEa~L~~Ifd~l~~~yr~I~gRIkaE~fkqRV~kVirvWedW~ifpe~~l~~l~ 566 (877)
T KOG0151|consen 507 SAYRKSFEATLEDIFDDLNDLYRSIGGRIKAEAFKQRVMKVIRVWEDWAIFPEDFLIGLQ 566 (877)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhccchhhHHHHHHHHHHHHHHHHHHHhCcHHHHHHHH
Confidence 8899999999999998876 6777 5788899999999999999999999887543
No 17
>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=99.01 E-value=9.3e-10 Score=105.57 Aligned_cols=108 Identities=26% Similarity=0.435 Sum_probs=87.5
Q ss_pred HHHHhhhhhh---hhhhHHHHHHHHHHhhccCchHHHHHHHHHHhhccccccchhhhhhhhhHHHHhhccCCCCCCCCcH
Q 000616 864 FEAVLGSLTR---TKESIGRATRIAIDCAKFGVSSKVVEIVARHLESESSLYRRVDLFFLVDSIMQCSRGMKGDVSGIIP 940 (1389)
Q Consensus 864 Fe~mL~tLtR---tKesI~rATr~AidcAk~gia~~vveiL~e~Le~Ess~~rRvdllfLvDSI~q~S~a~KG~~~~~Y~ 940 (1389)
|...|+.|+- ++++|...|..|++..+ -+.++|++|.++|.+ ....+|+.+|||+|||.|++... |.
T Consensus 4 ~~~~l~~L~~~~~S~~~I~~lt~~a~~~~~--~a~~iv~~i~~~i~~-~~~~~KL~~LYL~dsIvkn~~~~-------~~ 73 (114)
T cd03562 4 YNALLEKLTFNKNSQPSIQTLTKLAIENRK--HAKEIVEIIEKHIKK-CPPEQKLPLLYLLDSIVKNVGRK-------YK 73 (114)
T ss_pred HHHHHHHHHcCcccHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHh-CCcccchHHHHHHHHHHHHcccc-------hH
Confidence 5555555554 89999999999999998 778999999999976 55599999999999999987654 56
Q ss_pred HHHHHHHHHHhhccCCCCcchHHHHHHHHHHHHHHHhhccCcH
Q 000616 941 SAILTVLPRLLSAAAPPGNVAQENRRQCLKVLRLWLERRILPE 983 (1389)
Q Consensus 941 s~vQ~iLPrll~aaap~G~~a~enRrqclKVL~lW~eR~i~pe 983 (1389)
..++..++.++.-+.- .....-|+++.|||.+|.+|++|+.
T Consensus 74 ~~~~~~~~~~f~~~~~--~~~~~~r~kl~rl~~iW~~~~~f~~ 114 (114)
T cd03562 74 EFFSEFLVPLFLDAYE--KVDEKTRKKLERLLNIWEERFVFGS 114 (114)
T ss_pred HHHHHHHHHHHHHHHH--hCCHHHHHHHHHHHHHccCCCCCCC
Confidence 6677776666544432 4578889999999999999999973
No 18
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=98.91 E-value=2.8e-09 Score=128.18 Aligned_cols=46 Identities=20% Similarity=0.146 Sum_probs=29.4
Q ss_pred HHhhHHHHHHhhhhhhhhhhHHHHHHHHHHhhccCchHHHHHHHHHHhhc
Q 000616 858 HAALSSFEAVLGSLTRTKESIGRATRIAIDCAKFGVSSKVVEIVARHLES 907 (1389)
Q Consensus 858 ~~ard~Fe~mL~tLtRtKesI~rATr~AidcAk~gia~~vveiL~e~Le~ 907 (1389)
..+|+-...+|..||..+..|-....-.+|--+ ++=.+.|..||++
T Consensus 331 E~mr~gL~~~l~~l~~i~n~~ldvqlkvfdE~~----e~Dl~el~~rled 376 (1102)
T KOG1924|consen 331 EFMRDGLHKYLPDLTEINNDILDVQLKVFDEHK----EDDLEELSGRLED 376 (1102)
T ss_pred HHHHHhHHHHHHHhhhhccHHHHHHHHHHhhhh----hhhHHHHHhHHHh
Confidence 356777888888888777766665555555333 2334667777764
No 19
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=98.70 E-value=1.7e-08 Score=121.92 Aligned_cols=130 Identities=21% Similarity=0.294 Sum_probs=108.1
Q ss_pred hhHHhhHHHHHHhhhhhhhhhhHHHHHHHHHHhhccCchHHHHHHHHHHhhccccccchhhhhhhhhHHHHhhccCCCCC
Q 000616 856 EAHAALSSFEAVLGSLTRTKESIGRATRIAIDCAKFGVSSKVVEIVARHLESESSLYRRVDLFFLVDSIMQCSRGMKGDV 935 (1389)
Q Consensus 856 ea~~ard~Fe~mL~tLtRtKesI~rATr~AidcAk~gia~~vveiL~e~Le~Ess~~rRvdllfLvDSI~q~S~a~KG~~ 935 (1389)
++...++.|+++=.-++.+| |...|..||++.|++ +.|.-++||+.+.---..||--||+||||..+|++|.|..
T Consensus 6 ~Fn~eL~SL~DsK~~IS~sK--i~~ITkaAikaIk~y---khVVqsVeKfi~kCkpe~Kl~gLYVIDSIVRqsrhq~~~~ 80 (894)
T KOG0132|consen 6 EFNGELDSLEDSKPGISGSK--ILKITKAAIKAIKLY---KHVVQSVEKFIKKCKPEYKLPGLYVIDSIVRQSRHQFGKE 80 (894)
T ss_pred HHHHHHHHhhccCCcccHHH--HHHHHHHHHHHHHHH---HHHHHHHHHHHHhCCcccccCeeEEehHHHHHHHHhhccc
Confidence 44555666666666677777 999999999999977 7888899999998899999999999999999999999887
Q ss_pred CCCcHHHHHHHHHH-HhhccCCCCcchHHHHHHHHHHHHHHHhhccCcHHHHHHhhhhcc
Q 000616 936 SGIIPSAILTVLPR-LLSAAAPPGNVAQENRRQCLKVLRLWLERRILPESIIRHHMRELD 994 (1389)
Q Consensus 936 ~~~Y~s~vQ~iLPr-ll~aaap~G~~a~enRrqclKVL~lW~eR~i~pe~~lr~~~~ei~ 994 (1389)
..++.+++.+-+-. +..++ .++.|.+-..++||+||.+.+||.+++|+..++-.+
T Consensus 81 kd~F~prf~~n~~~tf~~L~----~c~~edks~iIrvlNlwqkn~VfK~e~IqpLlDm~~ 136 (894)
T KOG0132|consen 81 KDVFGPRFSKNFTGTFQNLY----ECPQEDKSDIIRVLNLWQKNNVFKSEIIQPLLDMAD 136 (894)
T ss_pred ccccCCccchhHHHHHHHHH----hcCHHHHHHHHHhhhhhhcccchhHHHHHHHHHHHh
Confidence 88877777655543 22222 789999999999999999999999999999877655
No 20
>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=98.53 E-value=7.5e-08 Score=84.85 Aligned_cols=64 Identities=27% Similarity=0.461 Sum_probs=56.1
Q ss_pred hhhhhhhhhHHHHhhccCCCCCCCCcHHHHHHHHHHHhhccCCCCcchHHHHHHHHHHHHHHHhhccCc
Q 000616 914 RVDLFFLVDSIMQCSRGMKGDVSGIIPSAILTVLPRLLSAAAPPGNVAQENRRQCLKVLRLWLERRILP 982 (1389)
Q Consensus 914 RvdllfLvDSI~q~S~a~KG~~~~~Y~s~vQ~iLPrll~aaap~G~~a~enRrqclKVL~lW~eR~i~p 982 (1389)
|+.+|||+|+|.|.|+.+ ....|...++.+||.++..+...| ..+.|+++.|||++|.+|+||+
T Consensus 1 KL~~lYl~ndI~q~sk~k---~~~~f~~~F~~~l~~~~~~~~~~~--~~~~~~kv~rll~iW~~r~if~ 64 (64)
T PF04818_consen 1 KLALLYLANDILQNSKRK---NPDEFAPAFSPVLPDAFAHAYKNV--DPEVRKKVQRLLNIWEERNIFS 64 (64)
T ss_dssp HHHHHHHHHHHHHHHHHH---TTHCHHHHHHCCHHHHHHHHCCCS---HHHHHHHHHHHHHHHHCTSS-
T ss_pred CcceeehHHHHHHHhhhc---ChHHHHHHHHHHHHHHHHHHHhcC--CHHHHHHHHHHHHHhhCCCCCC
Confidence 688999999999999775 256899999999999998887666 8999999999999999999996
No 21
>KOG2669 consensus Regulator of nuclear mRNA [RNA processing and modification]
Probab=97.96 E-value=4.2e-05 Score=87.20 Aligned_cols=125 Identities=18% Similarity=0.272 Sum_probs=96.0
Q ss_pred hHHHHHHhhhhhhhhhhHHHHHHHHHHhhccCchHHHHHHHHHHhhccccccchhhhhhhhhHHHHhhccCCCCCCCCcH
Q 000616 861 LSSFEAVLGSLTRTKESIGRATRIAIDCAKFGVSSKVVEIVARHLESESSLYRRVDLFFLVDSIMQCSRGMKGDVSGIIP 940 (1389)
Q Consensus 861 rd~Fe~mL~tLtRtKesI~rATr~AidcAk~gia~~vveiL~e~Le~Ess~~rRvdllfLvDSI~q~S~a~KG~~~~~Y~ 940 (1389)
.++|+..|.+|.-|.|||.-.....|-.=++ +..||++-.+-|.+.+.-+|++ ||||.-++.|.| -.| +.-|.
T Consensus 6 ee~l~~kL~~L~~TQeSIqtlS~Wli~hkk~--a~~IV~~Wl~~~~~~~~~~Kl~-llYLaNDVvQns-krk---~~ef~ 78 (325)
T KOG2669|consen 6 EEALEKKLAELSNTQESIQTLSLWLIHHKKH--ARLIVDVWLKELKKSSVNHKLT-LLYLANDVVQNS-KRK---GPEFV 78 (325)
T ss_pred HHHHHHHHHhccchHHHHHHHHHHHHHHhhh--hhHHHHHHHHHHhccCCCceee-ehhhhHHHHHHh-hhc---CchhH
Confidence 3689999999999999999999999987774 4789999999999866666666 999999999999 556 45565
Q ss_pred HHHHHHHHHHhhccCCCCcchHHHHHHHHHHHHHHHhhccCcHHHHHHhhhhcc
Q 000616 941 SAILTVLPRLLSAAAPPGNVAQENRRQCLKVLRLWLERRILPESIIRHHMRELD 994 (1389)
Q Consensus 941 s~vQ~iLPrll~aaap~G~~a~enRrqclKVL~lW~eR~i~pe~~lr~~~~ei~ 994 (1389)
.-++.++..-++.++-.+. ...+..+.+|+++|.+|+||++.++.....-|.
T Consensus 79 ~ef~~v~~~a~~~i~~~~~--~~~k~~l~Rl~nIw~eR~Vf~~~~~~~l~~~l~ 130 (325)
T KOG2669|consen 79 DEFWPVVLKAFAHIVEETD--VKCKKKLGRLINIWEERNVFSPESLVDLEESLG 130 (325)
T ss_pred HHHHHHHHHHHHHHHHhcc--hhhhHHHHHHHHHHHHhccCCHHHHHHHHHHhc
Confidence 5555555544433332222 222566779999999999999999987776666
No 22
>KOG1081 consensus Transcription factor NSD1 and related SET domain proteins [Transcription]
Probab=96.92 E-value=0.00043 Score=82.45 Aligned_cols=92 Identities=26% Similarity=0.411 Sum_probs=66.6
Q ss_pred CCCccCCEEEEccCCCCCCCeeeeCCCCCCCCCCCCEE-EEEEecCCCeeeeccCccccccHHHHHHhhhhcCCCcHHHH
Q 000616 20 RQWKVGDLVLAKVKGFPAWPATVSEPEKWGYSADWKKV-LVFFFGTQQIAFCNPADVEAFTEEKKQSLLTKRQGRGADFV 98 (1389)
Q Consensus 20 ~kFk~GDLVWAKVKGYPwWPArI~dPe~~~~K~~~nky-lV~FFGT~EyAWV~~kdLkPFsE~k~esfl~KrkgK~KdF~ 98 (1389)
..+..||+||-|+..|+|||++|+....+. .+.+. .|.|||. ++|+....++.|. .....++..-.++...+.
T Consensus 134 ~~~~~~~~vw~~vg~~~~~~c~vc~~~~~~---~~~~~~~~~f~~~--~~~~~~~~~~~~~-g~~~~~l~~~~~~~s~~~ 207 (463)
T KOG1081|consen 134 KKREVGDLVWSKVGEYPWWPCMVCHDPLLP---KGMKHDHVNFFGC--YAWTHEKRVFPYE-GQSSKLIPHSKKPASTMS 207 (463)
T ss_pred ccccceeEEeEEcCcccccccceecCcccc---hhhccccceeccc--hhhHHHhhhhhcc-chHHHhhhhccccchhhh
Confidence 489999999999999999999999977664 11222 7999999 9999999999993 222344433344556777
Q ss_pred HHHHHHHHHHHHHhhhccc
Q 000616 99 RAVQEIIDSYEKLKKQDQV 117 (1389)
Q Consensus 99 eAmeEAeE~~E~LK~qeq~ 117 (1389)
+++...+..+..++-|.++
T Consensus 208 ~~~~~~~~r~~~~~~q~~~ 226 (463)
T KOG1081|consen 208 EKIKEAKARFGKLKAQWEA 226 (463)
T ss_pred hhhhcccchhhhcccchhh
Confidence 7777776655555555433
No 23
>PHA03247 large tegument protein UL36; Provisional
Probab=96.43 E-value=0.064 Score=73.53 Aligned_cols=28 Identities=21% Similarity=0.286 Sum_probs=13.8
Q ss_pred HHHHHhhccCcHHHHH----HhhhhcccccCC
Q 000616 972 LRLWLERRILPESIIR----HHMRELDTVTCS 999 (1389)
Q Consensus 972 L~lW~eR~i~pe~~lr----~~~~ei~~~~~~ 999 (1389)
..||.+-.-=+..+|| ..|.||=+++.+
T Consensus 2409 ~VLWe~~~~p~~p~irl~~~d~i~eLPyi~~~ 2440 (3151)
T PHA03247 2409 FVLWEQPDPPGPPDVRFVGSEEIEELPFVSPG 2440 (3151)
T ss_pred EEeccCCCCCCCCeeEecCcchhhhCCcccCC
Confidence 3456544433344444 346666655444
No 24
>PHA03247 large tegument protein UL36; Provisional
Probab=96.13 E-value=0.2 Score=69.11 Aligned_cols=15 Identities=27% Similarity=0.020 Sum_probs=7.8
Q ss_pred hhhhhhhHHHHhhcc
Q 000616 916 DLFFLVDSIMQCSRG 930 (1389)
Q Consensus 916 dllfLvDSI~q~S~a 930 (1389)
-.|+|||...+-.+.
T Consensus 2396 PCLvlvD~~m~p~~V 2410 (3151)
T PHA03247 2396 PCLVLVDISMAPLFV 2410 (3151)
T ss_pred CeEEEEcCCCceeEE
Confidence 356666665544433
No 25
>KOG1830 consensus Wiskott Aldrich syndrome proteins [Cytoskeleton]
Probab=96.08 E-value=0.12 Score=61.47 Aligned_cols=16 Identities=31% Similarity=0.403 Sum_probs=10.3
Q ss_pred HHHHHhhhhhhhhhhH
Q 000616 863 SFEAVLGSLTRTKESI 878 (1389)
Q Consensus 863 ~Fe~mL~tLtRtKesI 878 (1389)
...-.|..|+.--|.|
T Consensus 36 niIRQLsSLSKhAEdI 51 (518)
T KOG1830|consen 36 NIIRQLSSLSKHAEDI 51 (518)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3455777776666666
No 26
>KOG3671 consensus Actin regulatory protein (Wiskott-Aldrich syndrome protein) [Signal transduction mechanisms; Cytoskeleton]
Probab=95.66 E-value=0.12 Score=62.33 Aligned_cols=14 Identities=29% Similarity=0.112 Sum_probs=6.8
Q ss_pred hhhhhHHHHhhccC
Q 000616 918 FFLVDSIMQCSRGM 931 (1389)
Q Consensus 918 lfLvDSI~q~S~a~ 931 (1389)
|-||++-+|.|.-.
T Consensus 66 l~lVkD~~~rsyFl 79 (569)
T KOG3671|consen 66 LCLVKDNAQRSYFL 79 (569)
T ss_pred EEEeeccccceeee
Confidence 34555555544443
No 27
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=95.41 E-value=0.97 Score=57.27 Aligned_cols=82 Identities=22% Similarity=0.258 Sum_probs=46.8
Q ss_pred HHHHhhccccccchhhhhh--hhhHHHHhhccCCCCCCCCcHHHHHHHHHHHhhccC--------CCCcc---hHHHHHH
Q 000616 901 VARHLESESSLYRRVDLFF--LVDSIMQCSRGMKGDVSGIIPSAILTVLPRLLSAAA--------PPGNV---AQENRRQ 967 (1389)
Q Consensus 901 L~e~Le~Ess~~rRvdllf--LvDSI~q~S~a~KG~~~~~Y~s~vQ~iLPrll~aaa--------p~G~~---a~enRrq 967 (1389)
|-||-..|-...||.-+|= =.|.|--||+.+. .|.+...+.|--|..+|+... ++=.+ --++|+.
T Consensus 392 ~~er~~re~ereRr~kglP~I~pd~isV~SrTLw--vG~i~k~v~e~dL~~~feefGeiqSi~li~~R~cAfI~M~~Rqd 469 (894)
T KOG0132|consen 392 LGERRDREHERERRKKGLPTIPPDHISVCSRTLW--VGGIPKNVTEQDLANLFEEFGEIQSIILIPPRGCAFIKMVRRQD 469 (894)
T ss_pred hcCcccCccccccccccCCCCCCcceeEeeeeee--eccccchhhHHHHHHHHHhcccceeEeeccCCceeEEEEeehhH
Confidence 3344344556666666553 3466777888774 134455555666666665543 22223 3467777
Q ss_pred HHHHHHHHHhhccCcHH
Q 000616 968 CLKVLRLWLERRILPES 984 (1389)
Q Consensus 968 clKVL~lW~eR~i~pe~ 984 (1389)
.-|||+--.+-+|..-.
T Consensus 470 A~kalqkl~n~kv~~k~ 486 (894)
T KOG0132|consen 470 AEKALQKLSNVKVADKT 486 (894)
T ss_pred HHHHHHHHhccccccee
Confidence 88888766655554433
No 28
>KOG4368 consensus Predicted RNA binding protein, contains SWAP, RPR and G-patch domains [General function prediction only]
Probab=95.22 E-value=0.046 Score=66.52 Aligned_cols=120 Identities=18% Similarity=0.349 Sum_probs=70.6
Q ss_pred HHHHHhhhh--hhhhhhHHHHHHHHHHhhcc-CchHHHHHHHHHHhhccc-cccchhhhhhhhhHHHHhhccCCCCCCCC
Q 000616 863 SFEAVLGSL--TRTKESIGRATRIAIDCAKF-GVSSKVVEIVARHLESES-SLYRRVDLFFLVDSIMQCSRGMKGDVSGI 938 (1389)
Q Consensus 863 ~Fe~mL~tL--tRtKesI~rATr~AidcAk~-gia~~vveiL~e~Le~Es-s~~rRvdllfLvDSI~q~S~a~KG~~~~~ 938 (1389)
.|...|..+ |-||+-|..+-..-+..||- -.++-+...|+.|+..|. .+..|+-+||||.+++.-|.-.+-
T Consensus 105 ~~~~~l~~~~~~c~kd~is~~k~w~f~~~~s~~~~e~~~~~l~n~~~~~~~~~~lrlh~~ylind~~~hcqrk~~----- 179 (757)
T KOG4368|consen 105 EFDNLLQPIIDTCTKDAISAGKNWMFSNAKSPPHCELMAGHLRNRITADGAHFELRLHLIYLINDVLHHCQRKQA----- 179 (757)
T ss_pred HHHHHHHHHHHHHhHHHHHHhhhhhhhcCCCchHHHHHHHHHHhhhcccccchhhhhhhHHHHHHHHHHHHHHHH-----
Confidence 344443333 44666676666666666664 223333445667777665 789999999999999954444331
Q ss_pred cHHHHHHHHHHH-hhccCCCCcchHHHHHH-HHHHHHHHHhhccCcHHHHHHh
Q 000616 939 IPSAILTVLPRL-LSAAAPPGNVAQENRRQ-CLKVLRLWLERRILPESIIRHH 989 (1389)
Q Consensus 939 Y~s~vQ~iLPrl-l~aaap~G~~a~enRrq-clKVL~lW~eR~i~pe~~lr~~ 989 (1389)
.-.-++|.|. +.+-...=..-+|...| .-|+|.+|++|..|-++||+..
T Consensus 180 --~~~~~~l~~~v~~~yc~~~~~~~e~~~~~~~~ll~~we~~~yf~ds~~~ql 230 (757)
T KOG4368|consen 180 --RELLAALQKVVVPIYCTSFLAVEEDKQQKIARLLQLWEKNGYFDDSIIQQL 230 (757)
T ss_pred --HHHHHHHHHHhHHHHHhhhhhhHhHHHHHHHHHHHHHhhcCchhHHHHHHh
Confidence 1111223321 11110000123455544 4599999999999999999864
No 29
>KOG3671 consensus Actin regulatory protein (Wiskott-Aldrich syndrome protein) [Signal transduction mechanisms; Cytoskeleton]
Probab=94.06 E-value=0.68 Score=56.29 Aligned_cols=17 Identities=35% Similarity=0.618 Sum_probs=10.3
Q ss_pred HHHHHHHHHhhcccccc
Q 000616 896 KVVEIVARHLESESSLY 912 (1389)
Q Consensus 896 ~vveiL~e~Le~Ess~~ 912 (1389)
++|||+-+||.=|..|+
T Consensus 80 rl~di~~~rliWdqELY 96 (569)
T KOG3671|consen 80 RLVDIVNNRLIWDQELY 96 (569)
T ss_pred EEeeecCceeeehHHhh
Confidence 46677777766555444
No 30
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=92.58 E-value=1.9 Score=50.87 Aligned_cols=29 Identities=31% Similarity=0.488 Sum_probs=20.6
Q ss_pred HHHHHhhccCCCCc-----chHHHHHHHHHHHHH
Q 000616 946 VLPRLLSAAAPPGN-----VAQENRRQCLKVLRL 974 (1389)
Q Consensus 946 iLPrll~aaap~G~-----~a~enRrqclKVL~l 974 (1389)
+||-|.+.-||.|. +..|.||-|+-|=+|
T Consensus 55 ~~P~~~~~~~~~~~~~~~~~s~~Grk~~~YvGNL 88 (498)
T KOG4849|consen 55 VSPTITTVTAPTAIGAKPATSSEGRKYCCYVGNL 88 (498)
T ss_pred cCCCcccccccccccCCccccccCceEEEEecce
Confidence 77877777777665 467788888766553
No 31
>KOG1923 consensus Rac1 GTPase effector FRL [Signal transduction mechanisms; Cytoskeleton]
Probab=89.93 E-value=1 Score=57.05 Aligned_cols=53 Identities=28% Similarity=0.231 Sum_probs=27.9
Q ss_pred HhhccCcHHHHHHhhhhcccccCCC--CccccccCCcc-ccccCCCcccccCCccccccC
Q 000616 976 LERRILPESIIRHHMRELDTVTCSS--SAVAYSRRSSR-TERALDDPVRDMEGMLVDEYG 1032 (1389)
Q Consensus 976 ~eR~i~pe~~lr~~~~ei~~~~~~~--~~~~~~rR~sr-~ERa~dDPiRemegmlVDEYG 1032 (1389)
+|+..=+++.|.| ++..++-..-. .+..-.+-.++ .|| +|++.|++-++||-+
T Consensus 165 le~v~~~~~~ish-er~~~v~~~~~s~~A~l~~~s~sl~~er---~~~~~~~~~~~dels 220 (830)
T KOG1923|consen 165 LEFVETPADQISH-ERLQAVEMAQASAPAPLPGASSSLNKER---EPQSYQRKALLDELS 220 (830)
T ss_pred HHhhcchhhhhhH-HHHHHHHHHHhcCcccCchhhhhhhhhh---hHHHHHHHHhcchhH
Confidence 4555566666766 55554332221 12211111111 233 688888888888876
No 32
>smart00333 TUDOR Tudor domain. Domain of unknown function present in several RNA-binding proteins. 10 copies in the Drosophila Tudor protein. Initial proposal that the survival motor neuron gene product contain a Tudor domain are corroborated by more recent database search techniques such as PSI-BLAST (unpublished).
Probab=89.81 E-value=0.42 Score=40.93 Aligned_cols=53 Identities=23% Similarity=0.290 Sum_probs=45.5
Q ss_pred CCccCCEEEEccCCCCCCCeeeeCCCCCCCCCCCCEEEEEEecCCCeeeeccCcccccc
Q 000616 21 QWKVGDLVLAKVKGFPAWPATVSEPEKWGYSADWKKVLVFFFGTQQIAFCNPADVEAFT 79 (1389)
Q Consensus 21 kFk~GDLVWAKVKGYPwWPArI~dPe~~~~K~~~nkylV~FFGT~EyAWV~~kdLkPFs 79 (1389)
.|++|++|.|+...=-|..|+|..... .+.|.|+|...++..||+..+|+++.
T Consensus 2 ~~~~G~~~~a~~~d~~wyra~I~~~~~------~~~~~V~f~D~G~~~~v~~~~l~~l~ 54 (57)
T smart00333 2 TFKVGDKVAARWEDGEWYRARIIKVDG------EQLYEVFFIDYGNEEVVPPSDLRPLP 54 (57)
T ss_pred CCCCCCEEEEEeCCCCEEEEEEEEECC------CCEEEEEEECCCccEEEeHHHeecCC
Confidence 589999999999566788999998642 17899999999999999999998865
No 33
>KOG1830 consensus Wiskott Aldrich syndrome proteins [Cytoskeleton]
Probab=89.51 E-value=4.1 Score=49.18 Aligned_cols=11 Identities=36% Similarity=0.450 Sum_probs=7.5
Q ss_pred ccCCCCccccC
Q 000616 1030 EYGSNSSFQLP 1040 (1389)
Q Consensus 1030 EYGSNa~fqlp 1040 (1389)
-||-|.-|+++
T Consensus 224 ~~g~~~v~~~~ 234 (518)
T KOG1830|consen 224 GNGPNSVFSTR 234 (518)
T ss_pred ccCCcccccCC
Confidence 37777777765
No 34
>COG5178 PRP8 U5 snRNP spliceosome subunit [RNA processing and modification]
Probab=88.51 E-value=0.3 Score=63.18 Aligned_cols=20 Identities=40% Similarity=0.690 Sum_probs=10.5
Q ss_pred CCCCCCCCCCCCCCCCCCCC
Q 000616 1135 QDVPPSSPPLPSSPPPVLPP 1154 (1389)
Q Consensus 1135 ~~~PP~ppp~p~~PPPPppP 1154 (1389)
|||||||+..|++-||||||
T Consensus 10 pppppppg~epps~pppPpp 29 (2365)
T COG5178 10 PPPPPPPGFEPPSQPPPPPP 29 (2365)
T ss_pred cccccCCCCCCCCCCCCccC
Confidence 44455566666665444433
No 35
>smart00743 Agenet Tudor-like domain present in plant sequences. Domain in plant sequences with possible chromatin-associated functions.
Probab=88.15 E-value=0.61 Score=40.94 Aligned_cols=52 Identities=21% Similarity=0.168 Sum_probs=39.4
Q ss_pred CCccCCEEEEcc-CCCCCCCeeeeCCCCCCCCCCCCEEEEEEec--CCCeeeeccCccccc
Q 000616 21 QWKVGDLVLAKV-KGFPAWPATVSEPEKWGYSADWKKVLVFFFG--TQQIAFCNPADVEAF 78 (1389)
Q Consensus 21 kFk~GDLVWAKV-KGYPwWPArI~dPe~~~~K~~~nkylV~FFG--T~EyAWV~~kdLkPF 78 (1389)
.|+.||+|-|+. ..--||+|+|..... .++|.|+|.+ ..+.--+...+|.|.
T Consensus 2 ~~~~G~~Ve~~~~~~~~W~~a~V~~~~~------~~~~~V~~~~~~~~~~e~v~~~~LRp~ 56 (61)
T smart00743 2 DFKKGDRVEVFSKEEDSWWEAVVTKVLG------DGKYLVRYLTESEPLKETVDWSDLRPH 56 (61)
T ss_pred CcCCCCEEEEEECCCCEEEEEEEEEECC------CCEEEEEECCCCcccEEEEeHHHcccC
Confidence 699999999988 346899999997432 4689999998 655555556666553
No 36
>KOG1923 consensus Rac1 GTPase effector FRL [Signal transduction mechanisms; Cytoskeleton]
Probab=87.79 E-value=2 Score=54.51 Aligned_cols=14 Identities=36% Similarity=0.449 Sum_probs=7.6
Q ss_pred cccccccCceecccCC
Q 000616 1088 HILEEVDGELEMEDVA 1103 (1389)
Q Consensus 1088 ~iledVdGelEMEDVs 1103 (1389)
..||---| ||+-.+
T Consensus 238 ~~l~~ki~--emq~~s 251 (830)
T KOG1923|consen 238 RLLETKIG--EMQLAS 251 (830)
T ss_pred HhccCCcc--cccccc
Confidence 35666666 455543
No 37
>KOG0119 consensus Splicing factor 1/branch point binding protein (RRM superfamily) [RNA processing and modification]
Probab=87.12 E-value=8 Score=47.58 Aligned_cols=13 Identities=31% Similarity=0.616 Sum_probs=7.1
Q ss_pred CCCCCCCCCCCCC
Q 000616 1240 TDGPRFHNKPYPP 1252 (1389)
Q Consensus 1240 ~~~~~~~n~gy~~ 1252 (1389)
++|.++|..+|..
T Consensus 497 ~Pg~p~~~~~~~~ 509 (554)
T KOG0119|consen 497 PPGAPFHGGNYNA 509 (554)
T ss_pred CCCCCCCCCCCCC
Confidence 4455566555554
No 38
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=85.79 E-value=8.9 Score=45.53 Aligned_cols=10 Identities=10% Similarity=0.192 Sum_probs=4.2
Q ss_pred hhccccccch
Q 000616 905 LESESSLYRR 914 (1389)
Q Consensus 905 Le~Ess~~rR 914 (1389)
+|+-++...+
T Consensus 115 FENR~NGQSK 124 (498)
T KOG4849|consen 115 FENRTNGQSK 124 (498)
T ss_pred hhcccCCccc
Confidence 3444444433
No 39
>KOG4672 consensus Uncharacterized conserved low complexity protein [Function unknown]
Probab=85.06 E-value=24 Score=42.96 Aligned_cols=28 Identities=25% Similarity=0.265 Sum_probs=16.0
Q ss_pred CCcCCCCcchhhHHhhHHHHHHhhhhhhhhhh
Q 000616 846 KSVGKWSSCSEAHAALSSFEAVLGSLTRTKES 877 (1389)
Q Consensus 846 ~~~g~~sg~~ea~~ard~Fe~mL~tLtRtKes 877 (1389)
..+|+.-..|+++ +=++-.+.|.|.|..
T Consensus 8 tk~gk~mnPTDqa----RKe~RKkElKrNKK~ 35 (487)
T KOG4672|consen 8 TKGGKYMNPTDQA----RKEARKKELKRNKKD 35 (487)
T ss_pred ccCCcccCccHHH----HHHHHHHHhhhhHHH
Confidence 3455555555543 235557778887744
No 40
>PRK15319 AIDA autotransporter-like protein ShdA; Provisional
Probab=84.87 E-value=1.2 Score=60.73 Aligned_cols=67 Identities=25% Similarity=0.475 Sum_probs=41.7
Q ss_pred CCCCCccCcc---ccccCCccC-CCC--Cc--eeeeecCccccCCCCccCCCCCcccccchhhccccccccccccccc
Q 000616 281 GSECNDLDSS---ALMSNGSIE-DNS--SE--IVTVESDAFSLNEGSTVDSGCKVEDSETVLECLDGDEMLSKRLDFQ 350 (1389)
Q Consensus 281 ~s~~ddv~Ss---~~~~ngs~e-dn~--~e--i~t~~sd~~slNegs~vds~~~~E~Se~~~~~~e~e~~l~~~~d~~ 350 (1389)
.+.|.=++=| .|..+|.++ ++. +. ..|++ |++.+-.|+.++-+...-.|...|-+- ++-|-++|++.
T Consensus 441 ~s~WtltgdS~vt~Lt~~G~~~~~~~~~~~~~~~~~~-~~l~~qd~s~~~~~~~~~~~~p~i~~~--~~~l~g~l~~~ 515 (2039)
T PRK15319 441 TSQWNMTDPSTVGNLTNDGDITLGNASGSTGTLLTVD-NTLTLQDGSQINATLDTANSSPIIKAA--NVTLDGTLNLS 515 (2039)
T ss_pred CCeEEEeCCceeehhccCCcEEEecCCCCcceEEecc-ceeeecCCCEEEEeecccCCCCeEEec--cccccceeeec
Confidence 3555433322 456777776 222 22 55666 899999999888887666666654433 56777766654
No 41
>KOG4672 consensus Uncharacterized conserved low complexity protein [Function unknown]
Probab=84.52 E-value=14 Score=44.83 Aligned_cols=23 Identities=26% Similarity=0.300 Sum_probs=13.6
Q ss_pred CCcccccCC-------------ccccccCCCCcccc
Q 000616 1017 DDPVRDMEG-------------MLVDEYGSNSSFQL 1039 (1389)
Q Consensus 1017 dDPiRemeg-------------mlVDEYGSNa~fql 1039 (1389)
++|.|-|.| -||--||---.|-|
T Consensus 172 ~~pPplp~g~~p~~s~~gPP~~qv~~~~g~k~~~~l 207 (487)
T KOG4672|consen 172 ADPPPLPMGNAPPVSLPGPPNPQLLAPAGIKRKVEL 207 (487)
T ss_pred cCCCCCCCCCCCCCCCCCCCcccccccccccccccC
Confidence 566666666 35556666655544
No 42
>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=83.36 E-value=2.5 Score=42.85 Aligned_cols=89 Identities=10% Similarity=0.101 Sum_probs=63.2
Q ss_pred HHhhccC--chHHHHHHHHHHhhccccccchhhhhhhhhHHHHhhccCCCCCCCCcHHHHHHHHHHHhhccCCCCcchHH
Q 000616 886 IDCAKFG--VSSKVVEIVARHLESESSLYRRVDLFFLVDSIMQCSRGMKGDVSGIIPSAILTVLPRLLSAAAPPGNVAQE 963 (1389)
Q Consensus 886 idcAk~g--ia~~vveiL~e~Le~Ess~~rRvdllfLvDSI~q~S~a~KG~~~~~Y~s~vQ~iLPrll~aaap~G~~a~e 963 (1389)
.|..+.+ -+.+++..|..||.. .+.+..+..|.|+|++..+|-... ...+.+ ..+|-.|+..+...+....+
T Consensus 25 cd~I~~~~~~~k~a~raL~krl~~-~n~~vql~AL~lLd~~vkNcg~~f---~~~i~s--~~fl~~l~~l~~~~~~~~~~ 98 (133)
T cd03561 25 CDLINLKPNGPKEAARAIRKKIKY-GNPHVQLLALTLLELLVKNCGKPF---HLQVAD--KEFLLELVKIAKNSPKYDPK 98 (133)
T ss_pred HHHHhCCCCCHHHHHHHHHHHHcC-CCHHHHHHHHHHHHHHHHhCChHH---HHHHhh--HHHHHHHHHHhCCCCCCCHH
Confidence 3444443 678899999999997 578888889999999997764432 111111 24455555544444577999
Q ss_pred HHHHHHHHHHHHHhhcc
Q 000616 964 NRRQCLKVLRLWLERRI 980 (1389)
Q Consensus 964 nRrqclKVL~lW~eR~i 980 (1389)
-|++|+.+|.-|....-
T Consensus 99 Vk~kil~ll~~W~~~f~ 115 (133)
T cd03561 99 VREKALELILAWSESFG 115 (133)
T ss_pred HHHHHHHHHHHHHHHhc
Confidence 99999999999998654
No 43
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=83.24 E-value=2.6 Score=52.44 Aligned_cols=104 Identities=20% Similarity=0.350 Sum_probs=77.9
Q ss_pred hhHHHHHHhhhhh-hhhhhHHHHHHHHHHhhccCchHHHHHHHHHHhhccccccchhhhhhhhhHHHHhhccCCCCCCCC
Q 000616 860 ALSSFEAVLGSLT-RTKESIGRATRIAIDCAKFGVSSKVVEIVARHLESESSLYRRVDLFFLVDSIMQCSRGMKGDVSGI 938 (1389)
Q Consensus 860 ard~Fe~mL~tLt-RtKesI~rATr~AidcAk~gia~~vveiL~e~Le~Ess~~rRvdllfLvDSI~q~S~a~KG~~~~~ 938 (1389)
|...|+..|+.|| +.|.-|---|-+|=+... .|..+|+.|-.+|++ -.=.-+++.+||.|||+-+ .|.-
T Consensus 5 ~~~dy~s~ledltfnskp~i~~lt~la~En~~--~a~~iv~~iE~hi~k-cpp~~kL~~~y~~dsi~kn-------vg~p 74 (579)
T KOG2071|consen 5 ACRDYQSSLEDLTFNSKPIINTLTILAEENLP--FAKSIVSAIEAHIAK-CPPSQKLPVMYLLDSIVKN-------VGSP 74 (579)
T ss_pred hHHHHHHHHHHHhcCCcchhHHhhHhhhhccc--ccHHHHHHHHHHHhh-CCcccccchhhhhHHHHhh-------cCCc
Confidence 4456888899987 789999999999999887 778999999999998 4445689999999999832 2334
Q ss_pred cHHHHH-HHHHHHhhccCCCCcchHHHHHHHHHHHHHHH
Q 000616 939 IPSAIL-TVLPRLLSAAAPPGNVAQENRRQCLKVLRLWL 976 (1389)
Q Consensus 939 Y~s~vQ-~iLPrll~aaap~G~~a~enRrqclKVL~lW~ 976 (1389)
|...+- ++..-.+.++- ..+.--|.+..+.+..|.
T Consensus 75 y~~~fs~~l~a~f~~~~~---~vd~r~r~~l~~~~~tw~ 110 (579)
T KOG2071|consen 75 YTTAFSRNLVATFICAFT---KVDERTRTSLFKLRATWD 110 (579)
T ss_pred chhhhhhhHHHHHHHHHh---hccccccchhHhhHHhhc
Confidence 666653 33343443332 235566788889999998
No 44
>PF11717 Tudor-knot: RNA binding activity-knot of a chromodomain ; PDB: 2EKO_A 2RO0_A 2RNZ_A 1WGS_A 3E9G_A 3E9F_A 2K3X_A 2K3Y_A 2EFI_A 2F5K_F ....
Probab=81.28 E-value=1.2 Score=39.32 Aligned_cols=52 Identities=17% Similarity=0.250 Sum_probs=39.8
Q ss_pred CccCCEEEEccCCCCCCCeeeeCCCCCCCCCCCCEEEEEEecCCCe--eeeccCccc
Q 000616 22 WKVGDLVLAKVKGFPAWPATVSEPEKWGYSADWKKVLVFFFGTQQI--AFCNPADVE 76 (1389)
Q Consensus 22 Fk~GDLVWAKVKGYPwWPArI~dPe~~~~K~~~nkylV~FFGT~Ey--AWV~~kdLk 76 (1389)
|++|+.|+++.+.=-|-+|+|+.... +.....|.|.|.|-+.+ -||+.++|.
T Consensus 1 ~~vG~~v~~~~~~~~~y~A~I~~~r~---~~~~~~YyVHY~g~nkR~DeWV~~~~i~ 54 (55)
T PF11717_consen 1 FEVGEKVLCKYKDGQWYEAKILDIRE---KNGEPEYYVHYQGWNKRLDEWVPESRIR 54 (55)
T ss_dssp --TTEEEEEEETTTEEEEEEEEEEEE---CTTCEEEEEEETTSTGCC-EEEETTTEE
T ss_pred CCcCCEEEEEECCCcEEEEEEEEEEe---cCCCEEEEEEcCCCCCCceeeecHHHcc
Confidence 68999999999667778999998543 23346899999997655 899988874
No 45
>COG5178 PRP8 U5 snRNP spliceosome subunit [RNA processing and modification]
Probab=79.49 E-value=1.4 Score=57.68 Aligned_cols=28 Identities=46% Similarity=0.944 Sum_probs=17.3
Q ss_pred CCCCCCCCCCCCCCCCCCC-CCCCCCCCC
Q 000616 1133 LPQDVPPSSPPLPSSPPPV-LPPPPSIPH 1160 (1389)
Q Consensus 1133 ~P~~~PP~ppp~p~~PPPP-ppPPP~p~~ 1160 (1389)
+||.-||||||+|+.-||. |||||+|+-
T Consensus 4 lppg~ppppppppg~epps~pppPppPg~ 32 (2365)
T COG5178 4 LPPGNPPPPPPPPGFEPPSQPPPPPPPGV 32 (2365)
T ss_pred CCCCCCcccccCCCCCCCCCCCCccCCCc
Confidence 3456677777777777664 555555544
No 46
>cd04508 TUDOR Tudor domains are found in many eukaryotic organisms and have been implicated in protein-protein interactions in which methylated protein substrates bind to these domains. For example, the Tudor domain of Survival of Motor Neuron (SMN) binds to symmetrically dimethylated arginines of arginine-glycine (RG) rich sequences found in the C-terminal tails of Sm proteins. The SMN protein is linked to spinal muscular atrophy. Another example is the tandem tudor domains of 53BP1, which bind to histone H4 specifically dimethylated at Lys20 (H4-K20me2). 53BP1 is a key transducer of the DNA damage checkpoint signal.
Probab=78.25 E-value=2.3 Score=35.36 Aligned_cols=47 Identities=28% Similarity=0.266 Sum_probs=39.1
Q ss_pred CCEEEEccCC-CCCCCeeeeCCCCCCCCCCCCEEEEEEecCCCeeeeccCcccc
Q 000616 25 GDLVLAKVKG-FPAWPATVSEPEKWGYSADWKKVLVFFFGTQQIAFCNPADVEA 77 (1389)
Q Consensus 25 GDLVWAKVKG-YPwWPArI~dPe~~~~K~~~nkylV~FFGT~EyAWV~~kdLkP 77 (1389)
|++|.|+... --|.+|+|..... .+.+.|+|..-++...|+.++|.+
T Consensus 1 G~~c~a~~~~d~~wyra~V~~~~~------~~~~~V~f~DyG~~~~v~~~~l~~ 48 (48)
T cd04508 1 GDLCLAKYSDDGKWYRAKITSILS------DGKVEVFFVDYGNTEVVPLSDLRP 48 (48)
T ss_pred CCEEEEEECCCCeEEEEEEEEECC------CCcEEEEEEcCCCcEEEeHHHcCC
Confidence 7899999987 7788999998542 468999999988999898887754
No 47
>PRK09752 adhesin; Provisional
Probab=74.69 E-value=2.6 Score=55.94 Aligned_cols=10 Identities=30% Similarity=0.581 Sum_probs=5.9
Q ss_pred CCCCCCCCCC
Q 000616 1353 NRGWAYPPRP 1362 (1389)
Q Consensus 1353 ~~~w~~ppr~ 1362 (1389)
+++|.--|+.
T Consensus 1122 g~gw~LEPQA 1131 (1250)
T PRK09752 1122 GRGVVIEPQA 1131 (1250)
T ss_pred CCCEEEeeeE
Confidence 4566666654
No 48
>PF15057 DUF4537: Domain of unknown function (DUF4537)
Probab=70.07 E-value=8 Score=39.54 Aligned_cols=61 Identities=25% Similarity=0.225 Sum_probs=45.7
Q ss_pred cCCCccCCEEEEccC--CCCCCCeeeeCCCCCCCCCCCCEEEEEEecCCCeeeeccCccccccHH
Q 000616 19 RRQWKVGDLVLAKVK--GFPAWPATVSEPEKWGYSADWKKVLVFFFGTQQIAFCNPADVEAFTEE 81 (1389)
Q Consensus 19 ~~kFk~GDLVWAKVK--GYPwWPArI~dPe~~~~K~~~nkylV~FFGT~EyAWV~~kdLkPFsE~ 81 (1389)
+..+++||-|+|+-. ++.|=||+|..-... .....+.|.|.||.. ..++|+...++.....
T Consensus 53 ~~~L~~GD~VLA~~~~~~~~Y~Pg~V~~~~~~-~~~~~~~~~V~f~ng-~~~~vp~~~~~~I~~~ 115 (124)
T PF15057_consen 53 RHSLQVGDKVLAPWEPDDCRYGPGTVIAGPER-RASEDKEYTVRFYNG-KTAKVPRGEVIWISPS 115 (124)
T ss_pred cCcCCCCCEEEEecCcCCCEEeCEEEEECccc-cccCCceEEEEEECC-CCCccchhhEEECCHH
Confidence 578999999999963 777889999972211 134467899999976 4778888888777653
No 49
>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=65.75 E-value=19 Score=35.25 Aligned_cols=76 Identities=12% Similarity=0.236 Sum_probs=51.1
Q ss_pred chHHHHHHHHHHhhccccccchhhhhhhhhHHHHhhccCCCCCCCCcHHHHH--HHHHHHhhc--cCCCCc-chHHHHHH
Q 000616 893 VSSKVVEIVARHLESESSLYRRVDLFFLVDSIMQCSRGMKGDVSGIIPSAIL--TVLPRLLSA--AAPPGN-VAQENRRQ 967 (1389)
Q Consensus 893 ia~~vveiL~e~Le~Ess~~rRvdllfLvDSI~q~S~a~KG~~~~~Y~s~vQ--~iLPrll~a--aap~G~-~a~enRrq 967 (1389)
.+.++|+.|..||.+ .+-....--|.|+|++.+++.... ...|. .+|=.++.- .-..|. ....-|++
T Consensus 34 ~~~~~~~~l~kRl~~-~~~~~~lkaL~lLe~lvkN~g~~f-------~~~i~~~~~~~~l~~~~~~~~~~~~~~~~Vr~k 105 (115)
T cd00197 34 GPKEAVDAIKKRINN-KNPHVVLKALTLLEYCVKNCGERF-------HQEVASNDFAVELLKFDKSKLLGDDVSTNVREK 105 (115)
T ss_pred cHHHHHHHHHHHhcC-CcHHHHHHHHHHHHHHHHHccHHH-------HHHHHHhHHHHHHHHhhccccccCCCChHHHHH
Confidence 567899999999986 577778888999999997664432 22221 122233221 111232 46778999
Q ss_pred HHHHHHHHH
Q 000616 968 CLKVLRLWL 976 (1389)
Q Consensus 968 clKVL~lW~ 976 (1389)
++.++.+|.
T Consensus 106 ~~~l~~~w~ 114 (115)
T cd00197 106 AIELVQLWA 114 (115)
T ss_pred HHHHHHHHh
Confidence 999999996
No 50
>PRK09752 adhesin; Provisional
Probab=65.52 E-value=5.1 Score=53.36 Aligned_cols=11 Identities=27% Similarity=0.447 Sum_probs=6.3
Q ss_pred ccccCcccCCC
Q 000616 1042 FCMPRMLKDDD 1052 (1389)
Q Consensus 1042 ~~~~~~~ede~ 1052 (1389)
|.+-.+|.||+
T Consensus 825 l~lnT~Lg~D~ 835 (1250)
T PRK09752 825 LLLDSELNGDD 835 (1250)
T ss_pred EEEEeeecCCC
Confidence 44556676654
No 51
>KOG0119 consensus Splicing factor 1/branch point binding protein (RRM superfamily) [RNA processing and modification]
Probab=63.72 E-value=56 Score=40.74 Aligned_cols=9 Identities=22% Similarity=0.342 Sum_probs=5.4
Q ss_pred HHHHHHHHH
Q 000616 896 KVVEIVARH 904 (1389)
Q Consensus 896 ~vveiL~e~ 904 (1389)
+|||.|+..
T Consensus 222 ~vienli~~ 230 (554)
T KOG0119|consen 222 AVIENLIQS 230 (554)
T ss_pred HHHHHHHHh
Confidence 566666654
No 52
>KOG0307 consensus Vesicle coat complex COPII, subunit SEC31 [Intracellular trafficking, secretion, and vesicular transport]
Probab=63.57 E-value=2.7e+02 Score=37.95 Aligned_cols=21 Identities=19% Similarity=0.401 Sum_probs=17.0
Q ss_pred CCCCccCCCCCccccchhhhc
Q 000616 404 ERDFKEDGDEHLPLVKRARVR 424 (1389)
Q Consensus 404 e~~~k~DGDEHLPLVKRARVR 424 (1389)
+++--.-+|.|+|-++-+-.|
T Consensus 220 Tql~~As~dd~~PviqlWDlR 240 (1049)
T KOG0307|consen 220 TQLLVASGDDSAPVIQLWDLR 240 (1049)
T ss_pred eeeeeecCCCCCceeEeeccc
Confidence 455556789999999999888
No 53
>KOG2675 consensus Adenylate cyclase-associated protein (CAP/Srv2p) [Cytoskeleton; Signal transduction mechanisms]
Probab=63.49 E-value=4.7 Score=48.89 Aligned_cols=25 Identities=16% Similarity=0.251 Sum_probs=10.7
Q ss_pred HHHHHHHHHHhhccCCCCcchHHHH
Q 000616 941 SAILTVLPRLLSAAAPPGNVAQENR 965 (1389)
Q Consensus 941 s~vQ~iLPrll~aaap~G~~a~enR 965 (1389)
..++..|-.|-....--+++.++||
T Consensus 105 ~elad~LkPI~e~i~eI~~fkE~nR 129 (480)
T KOG2675|consen 105 NELADLLKPINEEIGEINNFKEKNR 129 (480)
T ss_pred HHHHHHhhhHHHhhhHHhhhhhccc
Confidence 3455555544333322234444444
No 54
>PRK15319 AIDA autotransporter-like protein ShdA; Provisional
Probab=63.16 E-value=5.5 Score=54.97 Aligned_cols=8 Identities=38% Similarity=0.650 Sum_probs=3.8
Q ss_pred ccCcccCC
Q 000616 1044 MPRMLKDD 1051 (1389)
Q Consensus 1044 ~~~~~ede 1051 (1389)
+--+|.||
T Consensus 1582 lnT~LgdD 1589 (2039)
T PRK15319 1582 LNTVLGDD 1589 (2039)
T ss_pred EEEEECCC
Confidence 34455554
No 55
>KOG1925 consensus Rac1 GTPase effector FHOS [Signal transduction mechanisms; Cytoskeleton]
Probab=62.16 E-value=7 Score=48.07 Aligned_cols=6 Identities=33% Similarity=0.329 Sum_probs=2.8
Q ss_pred Cceecc
Q 000616 1095 GELEME 1100 (1389)
Q Consensus 1095 GelEME 1100 (1389)
.+.|||
T Consensus 166 ~~AE~~ 171 (817)
T KOG1925|consen 166 AAAETE 171 (817)
T ss_pred HHHHHH
Confidence 344554
No 56
>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=61.68 E-value=20 Score=36.79 Aligned_cols=106 Identities=11% Similarity=0.138 Sum_probs=64.4
Q ss_pred HHHHhhhhhhh---hhhHHHHHHHHHHhhccC--chHHHHHHHHHHhhccccccchhhhhhhhhHHHHhhccCCCCCCCC
Q 000616 864 FEAVLGSLTRT---KESIGRATRIAIDCAKFG--VSSKVVEIVARHLESESSLYRRVDLFFLVDSIMQCSRGMKGDVSGI 938 (1389)
Q Consensus 864 Fe~mL~tLtRt---KesI~rATr~AidcAk~g--ia~~vveiL~e~Le~Ess~~rRvdllfLvDSI~q~S~a~KG~~~~~ 938 (1389)
|+.+|+..|-. -+.......+ .|+++.+ .+.+++..|..||.. .+.+--+..|.|+|+...+|-...
T Consensus 6 ~~~li~kATs~~~~~~Dw~~~l~i-cD~i~~~~~~~kea~~~l~krl~~-~~~~vq~~aL~lld~lvkNcg~~f------ 77 (140)
T PF00790_consen 6 ITELIEKATSESLPSPDWSLILEI-CDLINSSPDGAKEAARALRKRLKH-GNPNVQLLALTLLDALVKNCGPRF------ 77 (140)
T ss_dssp HHHHHHHHT-TTSSS--HHHHHHH-HHHHHTSTTHHHHHHHHHHHHHTT-SSHHHHHHHHHHHHHHHHHSHHHH------
T ss_pred HHHHHHHHhCcCCCCCCHHHHHHH-HHHHHcCCccHHHHHHHHHHHHhC-CCHHHHHHHHHHHHHHHHcCCHHH------
Confidence 55555555432 2344444433 3555553 567899999999998 777778888999999997764432
Q ss_pred cHHHH--HHHHHHHhhccCCCCcchH--HHHHHHHHHHHHHHhhc
Q 000616 939 IPSAI--LTVLPRLLSAAAPPGNVAQ--ENRRQCLKVLRLWLERR 979 (1389)
Q Consensus 939 Y~s~v--Q~iLPrll~aaap~G~~a~--enRrqclKVL~lW~eR~ 979 (1389)
...| +.+|-.|...+..... .. .-|++++++|..|.+.+
T Consensus 78 -~~ev~~~~fl~~l~~l~~~~~~-~~~~~Vk~k~l~ll~~W~~~f 120 (140)
T PF00790_consen 78 -HREVASKEFLDELVKLIKSKKT-DPETPVKEKILELLQEWAEAF 120 (140)
T ss_dssp -HHHHTSHHHHHHHHHHHHHTTT-HHHSHHHHHHHHHHHHHHHHT
T ss_pred -HHHHhHHHHHHHHHHHHccCCC-CchhHHHHHHHHHHHHHHHHH
Confidence 1111 2344443332221111 22 27999999999999876
No 57
>KOG1080 consensus Histone H3 (Lys4) methyltransferase complex, subunit SET1 and related methyltransferases [Chromatin structure and dynamics; Transcription]
Probab=61.36 E-value=3.7 Score=54.09 Aligned_cols=95 Identities=25% Similarity=0.356 Sum_probs=65.0
Q ss_pred cCCCccCCEEEEcc-CCCCCCCeeeeCCCCCCCC---C--CCCEEEEEEecC------CCeeeeccCccccccHHHHH--
Q 000616 19 RRQWKVGDLVLAKV-KGFPAWPATVSEPEKWGYS---A--DWKKVLVFFFGT------QQIAFCNPADVEAFTEEKKQ-- 84 (1389)
Q Consensus 19 ~~kFk~GDLVWAKV-KGYPwWPArI~dPe~~~~K---~--~~nkylV~FFGT------~EyAWV~~kdLkPFsE~k~e-- 84 (1389)
...|+.||+||+|. ++.+.|+|.+..+...+.. . .....+|.||+- ..++|+....+.+|......
T Consensus 189 ~~~~~~e~~~~~~~~~~~~~~~a~~~d~~~~~~~~v~as~~~~~~~~~~~~~s~~~~~~~~~~~r~~m~~~~~~~~~~~~ 268 (1005)
T KOG1080|consen 189 PEEFTVGDLVWAKSGRNEPPWPAIVIDPIRQAPRGVLASCLPVAACVMFFGNSGVPTERDYAWVRRGMERPFSRPVRPFQ 268 (1005)
T ss_pred CcccccchhhhcccccCCcccccceeehhhcchhhhhccCcchhhhheeeeccCCccccchhhhhhccccccchhhhhcc
Confidence 46899999999998 7999999999997654432 1 123467888872 35899999999998865431
Q ss_pred HhhhhcCCCcHHHHHHHHHHHHHHHHHhh
Q 000616 85 SLLTKRQGRGADFVRAVQEIIDSYEKLKK 113 (1389)
Q Consensus 85 sfl~KrkgK~KdF~eAmeEAeE~~E~LK~ 113 (1389)
.+.....-+...|.++++++.++..-++.
T Consensus 269 ~~~~~~~~~~~~~e~~~~~~~~~e~~~~~ 297 (1005)
T KOG1080|consen 269 DQTELKREKARSFEQALEEAGLAEQGNWK 297 (1005)
T ss_pred ccccccccCccchhHHHHHhhcccccccc
Confidence 11111223466888888888765444433
No 58
>KOG2236 consensus Uncharacterized conserved protein [Function unknown]
Probab=59.10 E-value=20 Score=44.02 Aligned_cols=8 Identities=25% Similarity=0.841 Sum_probs=3.6
Q ss_pred CccccccC
Q 000616 1025 GMLVDEYG 1032 (1389)
Q Consensus 1025 gmlVDEYG 1032 (1389)
|||.|-||
T Consensus 248 G~I~EiFG 255 (483)
T KOG2236|consen 248 GQIFEIFG 255 (483)
T ss_pred hhhhhhhc
Confidence 44444444
No 59
>PF04858 TH1: TH1 protein; InterPro: IPR006942 TH1 is a highly conserved but uncharacterised metazoan protein. No homologue has been identified in Caenorhabditis elegans []. TH1 binds specifically to A-Raf kinase [].; GO: 0045892 negative regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=58.82 E-value=79 Score=40.22 Aligned_cols=131 Identities=20% Similarity=0.257 Sum_probs=83.4
Q ss_pred hhhHHhhHHHHH---HhhhhhhhhhhHHHHHHHHHHhhcc-CchHHHHHHHHHHhhccccccchh----hhhhhhhHHHH
Q 000616 855 SEAHAALSSFEA---VLGSLTRTKESIGRATRIAIDCAKF-GVSSKVVEIVARHLESESSLYRRV----DLFFLVDSIMQ 926 (1389)
Q Consensus 855 ~ea~~ard~Fe~---mL~tLtRtKesI~rATr~AidcAk~-gia~~vveiL~e~Le~Ess~~rRv----dllfLvDSI~q 926 (1389)
+|...++.+.|. ++..-++-...-.+..+..+.|+++ =||--|+-.|...|.+++-+...- -+|.|+|.|+.
T Consensus 376 del~~t~~ale~a~~ic~~~~~g~~~~~~el~~L~~~i~~PvVa~GVL~wi~~~l~~~~~~~~~~~~~p~~L~LLdeIa~ 455 (584)
T PF04858_consen 376 DELKSTKQALEKAHAICCNAARGSSELQAELPKLYSCIRYPVVAMGVLRWIESFLTDPSYFSSITELTPVHLALLDEIAT 455 (584)
T ss_pred HHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhCCChhhHHHHHHHHHHhcCcchhhhccccCchHHHHhhHHHh
Confidence 455554444444 3343333222344566677788888 345558888888888765332211 47899999987
Q ss_pred hhccCCCCCCCCcHHHHHHHHHHHhhccCCCCc--chHHHHHHHHH----------------HHHHHHhhccCcHHHHHH
Q 000616 927 CSRGMKGDVSGIIPSAILTVLPRLLSAAAPPGN--VAQENRRQCLK----------------VLRLWLERRILPESIIRH 988 (1389)
Q Consensus 927 ~S~a~KG~~~~~Y~s~vQ~iLPrll~aaap~G~--~a~enRrqclK----------------VL~lW~eR~i~pe~~lr~ 988 (1389)
+.-.+. +.|-.+|=++|.+....-. .+-|.||.++. .++-|..+.-+-.++||+
T Consensus 456 ~Hp~lr--------~~vl~lL~~~le~~~~~l~~l~~le~kr~ilD~~V~L~s~G~VlPVl~~i~~~~~~~~iD~SLiRy 527 (584)
T PF04858_consen 456 RHPLLR--------PSVLDLLVRLLESEGDELDILVQLELKRTILDRMVHLLSRGYVLPVLEYIRKCWARGDIDPSLIRY 527 (584)
T ss_pred cCHhhH--------HHHHHHHHHHHHccCCcccHHHHHHHHHHHHHHHHHHHhCCeeehHHHHHHHHHhccCCcHHHHHH
Confidence 665554 5677888888886543222 35688888772 334455566788999999
Q ss_pred hhhhc
Q 000616 989 HMREL 993 (1389)
Q Consensus 989 ~~~ei 993 (1389)
|+-++
T Consensus 528 Fv~eV 532 (584)
T PF04858_consen 528 FVTEV 532 (584)
T ss_pred HHHHH
Confidence 99875
No 60
>KOG4264 consensus Nucleo-cytoplasmic protein MLN51 [General function prediction only]
Probab=54.75 E-value=58 Score=40.86 Aligned_cols=20 Identities=20% Similarity=0.404 Sum_probs=11.7
Q ss_pred CCCCCCCCCCCCCCCCCCCC
Q 000616 1345 LREPPRYSNRGWAYPPRPMN 1364 (1389)
Q Consensus 1345 p~e~~r~~~~~w~~ppr~~n 1364 (1389)
...|.-.+.++-.-|||..-
T Consensus 657 y~~P~qqQ~t~~p~Ppr~tk 676 (694)
T KOG4264|consen 657 YFDPQQQQGTRQPLPPRSTK 676 (694)
T ss_pred eeChHHhcccCCCCCCCCCc
Confidence 44455566666666666543
No 61
>KOG0307 consensus Vesicle coat complex COPII, subunit SEC31 [Intracellular trafficking, secretion, and vesicular transport]
Probab=54.08 E-value=4e+02 Score=36.45 Aligned_cols=26 Identities=19% Similarity=0.312 Sum_probs=16.8
Q ss_pred HHHHHHHHhhccCc--HHHHHHhhhhcc
Q 000616 969 LKVLRLWLERRILP--ESIIRHHMRELD 994 (1389)
Q Consensus 969 lKVL~lW~eR~i~p--e~~lr~~~~ei~ 994 (1389)
+|+..+|++-.=+. ...++.++.++-
T Consensus 618 ~k~v~~w~~~~~~~~~~~~y~~~~e~l~ 645 (1049)
T KOG0307|consen 618 DKLVEIWLKALDLELAPTSYQDLAEDLM 645 (1049)
T ss_pred hhhHHHHHHhcccccchHHHHHHHHHHH
Confidence 38899999876654 455555555544
No 62
>PF08169 RBB1NT: RBB1NT (NUC162) domain; InterPro: IPR012603 This domain is found N-terminal to the ARID/BRIGHT domain in DNA-binding proteins of the Retinoblastoma-binding protein 1 family [].; PDB: 2YRV_A.
Probab=51.09 E-value=17 Score=36.58 Aligned_cols=80 Identities=19% Similarity=0.195 Sum_probs=43.9
Q ss_pred cCCEEEEcc--CCCCCCCeeeeCCCCCC-CCCCCCEEEEEEecCCCeeeeccCccccccHHHHHHhhhhcCCCcHHHHHH
Q 000616 24 VGDLVLAKV--KGFPAWPATVSEPEKWG-YSADWKKVLVFFFGTQQIAFCNPADVEAFTEEKKQSLLTKRQGRGADFVRA 100 (1389)
Q Consensus 24 ~GDLVWAKV--KGYPwWPArI~dPe~~~-~K~~~nkylV~FFGT~EyAWV~~kdLkPFsE~k~esfl~KrkgK~KdF~eA 100 (1389)
+|-+|-... +.-.|.||.|+.|.-.. ....+.+|+|+=|-+..|+-|..++|..|...... | ....++.|
T Consensus 8 lGkVV~V~~~~~k~~W~PALVVsPsc~ddv~VkKD~~lVRSFkD~KfysV~rkd~~e~~~~~~~----k---~e~s~k~a 80 (96)
T PF08169_consen 8 LGKVVCVESTKKKTSWFPALVVSPSCNDDVTVKKDQCLVRSFKDGKFYSVARKDVREFDIDSLP----K---SESSLKPA 80 (96)
T ss_dssp TTSEEEEE-SS-SS-EEEEEEE--SS-SS----TT-EEEEESSS--EEEE-TTTEE---STTS-----H---HHHHH-HH
T ss_pred cCcEEEEEcCCCCCceeeEEEEcCCccceeeeccceEEEEEeccCceEEEEhhhhhhcccccCC----c---ccchhhHH
Confidence 666766654 34468899999975321 12345689999999999999999999998844210 0 12246778
Q ss_pred HHHHHHHHHH
Q 000616 101 VQEIIDSYEK 110 (1389)
Q Consensus 101 meEAeE~~E~ 110 (1389)
++.|..+++.
T Consensus 81 l~~A~~Fl~~ 90 (96)
T PF08169_consen 81 LDKASTFLKT 90 (96)
T ss_dssp HHHHHHHHHS
T ss_pred HHHHHHHHhc
Confidence 8888876653
No 63
>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=50.91 E-value=93 Score=33.30 Aligned_cols=116 Identities=21% Similarity=0.201 Sum_probs=61.2
Q ss_pred hhHHHHHHhhhhhhhhhhHHHHHHHHHHhhccCch--HHH-HHHHHHHhhccccccchhhhhhhhhHHHHhhccCCCCCC
Q 000616 860 ALSSFEAVLGSLTRTKESIGRATRIAIDCAKFGVS--SKV-VEIVARHLESESSLYRRVDLFFLVDSIMQCSRGMKGDVS 936 (1389)
Q Consensus 860 ard~Fe~mL~tLtRtKesI~rATr~AidcAk~gia--~~v-veiL~e~Le~Ess~~rRvdllfLvDSI~q~S~a~KG~~~ 936 (1389)
+..-+..+|+.+..+|..|.+++..||+..=..+. .++ +.+|..-+...+..-|..-+-+|.-.+..+..... .
T Consensus 92 ~~~~l~~Ll~~~~~~~~~i~~~a~~~L~~i~~~~~~~~~~~~~~l~~~~~~Kn~~vR~~~~~~l~~~l~~~~~~~~---~ 168 (228)
T PF12348_consen 92 ADILLPPLLKKLGDSKKFIREAANNALDAIIESCSYSPKILLEILSQGLKSKNPQVREECAEWLAIILEKWGSDSS---V 168 (228)
T ss_dssp HHHHHHHHHHGGG---HHHHHHHHHHHHHHHTTS-H--HHHHHHHHHHTT-S-HHHHHHHHHHHHHHHTT-----G---G
T ss_pred HHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHCCcHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHccchHh---h
Confidence 33445667888899999999999999886655444 677 77787777777777777777777666665551111 0
Q ss_pred CCcHHHHHHHHHHHhhccCCCCcchHHHHHHHHHHH-HHHHhh
Q 000616 937 GIIPSAILTVLPRLLSAAAPPGNVAQENRRQCLKVL-RLWLER 978 (1389)
Q Consensus 937 ~~Y~s~vQ~iLPrll~aaap~G~~a~enRrqclKVL-~lW~eR 978 (1389)
-.+...+..+++-|.....=+....|+.-|+|+..| ++|-+|
T Consensus 169 l~~~~~~~~l~~~l~~~l~D~~~~VR~~Ar~~~~~l~~~~~~~ 211 (228)
T PF12348_consen 169 LQKSAFLKQLVKALVKLLSDADPEVREAARECLWALYSHFPER 211 (228)
T ss_dssp G--HHHHHHHHHHHHHHHTSS-HHHHHHHHHHHHHHHHHH-HH
T ss_pred hcccchHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHCCHh
Confidence 011112333333333332211235677777776655 445444
No 64
>PRK15313 autotransport protein MisL; Provisional
Probab=49.97 E-value=38 Score=44.87 Aligned_cols=11 Identities=36% Similarity=0.697 Sum_probs=6.0
Q ss_pred ccccCcccCCC
Q 000616 1042 FCMPRMLKDDD 1052 (1389)
Q Consensus 1042 ~~~~~~~ede~ 1052 (1389)
|.+-.+|.||+
T Consensus 473 l~lnT~LgdD~ 483 (955)
T PRK15313 473 LVFNTVLNDDD 483 (955)
T ss_pred EEEEeEeCCCC
Confidence 34455666653
No 65
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=48.93 E-value=2.9e+02 Score=32.21 Aligned_cols=17 Identities=18% Similarity=0.409 Sum_probs=7.8
Q ss_pred CCCCCCCCCCCCCCCCCC
Q 000616 1277 EAPHPSNSHRFHPHPNFD 1294 (1389)
Q Consensus 1277 ~~p~psyp~R~h~~~n~~ 1294 (1389)
++--|+|-+ -||.+.+.
T Consensus 226 vp~~pp~~~-~~~~~~~q 242 (341)
T KOG2893|consen 226 VPRTPPYEN-EHEHQDYQ 242 (341)
T ss_pred CCCCCCcCC-cccccccc
Confidence 333355544 45544443
No 66
>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed, or of unknown tissue range.
Probab=45.20 E-value=78 Score=38.89 Aligned_cols=7 Identities=14% Similarity=0.411 Sum_probs=3.5
Q ss_pred ccCcccC
Q 000616 1044 MPRMLKD 1050 (1389)
Q Consensus 1044 ~~~~~ed 1050 (1389)
..+++.|
T Consensus 314 ~~~i~~d 320 (562)
T TIGR01628 314 SAKVMLD 320 (562)
T ss_pred EEEEEEC
Confidence 4455554
No 67
>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=41.15 E-value=82 Score=32.98 Aligned_cols=108 Identities=13% Similarity=0.178 Sum_probs=66.9
Q ss_pred HHHHHhhhhhhh---hhhHHHHHHHHHHhhc--cCchHHHHHHHHHHhhccccccchhhhhhhhhHHHHhhccCCCCCCC
Q 000616 863 SFEAVLGSLTRT---KESIGRATRIAIDCAK--FGVSSKVVEIVARHLESESSLYRRVDLFFLVDSIMQCSRGMKGDVSG 937 (1389)
Q Consensus 863 ~Fe~mL~tLtRt---KesI~rATr~AidcAk--~gia~~vveiL~e~Le~Ess~~rRvdllfLvDSI~q~S~a~KG~~~~ 937 (1389)
.|+.+|+..|-. .+...-...++ |..+ ..-+.+++..|.+||.. .+.+-=+..|.|+|+...+|-... ..
T Consensus 4 ~~~~~I~kATs~~l~~~dw~~ileic-D~In~~~~~~k~a~ral~krl~~-~n~~vql~AL~LLe~~vkNCG~~f---h~ 78 (142)
T cd03569 4 EFDELIEKATSELLGEPDLASILEIC-DMIRSKDVQPKYAMRALKKRLLS-KNPNVQLYALLLLESCVKNCGTHF---HD 78 (142)
T ss_pred hHHHHHHHHcCcccCccCHHHHHHHH-HHHhCCCCCHHHHHHHHHHHHcC-CChHHHHHHHHHHHHHHHHCCHHH---HH
Confidence 467776666542 22333222222 2222 35578899999999986 666666677899999997663322 11
Q ss_pred CcHHHHHHHHHHHhhccCCCCcchHHHHHHHHHHHHHHHhhc
Q 000616 938 IIPSAILTVLPRLLSAAAPPGNVAQENRRQCLKVLRLWLERR 979 (1389)
Q Consensus 938 ~Y~s~vQ~iLPrll~aaap~G~~a~enRrqclKVL~lW~eR~ 979 (1389)
.+.+ ..+|-+|...+.. .+..+-|++||.++.-|.+..
T Consensus 79 evas--~~fl~~l~~l~~~--~~~~~Vk~kil~li~~W~~~f 116 (142)
T cd03569 79 EVAS--REFMDELKDLIKT--TKNEEVRQKILELIQAWALAF 116 (142)
T ss_pred HHhh--HHHHHHHHHHHcc--cCCHHHHHHHHHHHHHHHHHh
Confidence 1111 2444444443322 678899999999999999754
No 68
>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=39.39 E-value=87 Score=32.93 Aligned_cols=79 Identities=13% Similarity=0.244 Sum_probs=53.0
Q ss_pred chHHHHHHHHHHhhccccccchhhhhhhhhHHHHhhccCCCCCCCCcHHHH--HHHHHHHhhccCCC---CcchHHHHHH
Q 000616 893 VSSKVVEIVARHLESESSLYRRVDLFFLVDSIMQCSRGMKGDVSGIIPSAI--LTVLPRLLSAAAPP---GNVAQENRRQ 967 (1389)
Q Consensus 893 ia~~vveiL~e~Le~Ess~~rRvdllfLvDSI~q~S~a~KG~~~~~Y~s~v--Q~iLPrll~aaap~---G~~a~enRrq 967 (1389)
-+.+++..|.+||.. .+.+.=+..|.|+|+..++|-... -..| ..+|-.|+.-+.+. +.+..+-|.+
T Consensus 35 ~~k~a~rai~krl~~-~n~~v~l~AL~LLe~~vkNCG~~f-------h~evas~~Fl~el~kl~~~k~~~~~~~~~Vk~k 106 (139)
T cd03567 35 GPQLAVRLLAHKIQS-PQEKEALQALTVLEACMKNCGERF-------HSEVGKFRFLNELIKLVSPKYLGSRTSEKVKTK 106 (139)
T ss_pred cHHHHHHHHHHHHcC-CCHHHHHHHHHHHHHHHHHcCHHH-------HHHHHhHHHHHHHHHHhccccCCCCCCHHHHHH
Confidence 355788999999985 445555667889999998775433 1111 23444344433332 3578999999
Q ss_pred HHHHHHHHHhhc
Q 000616 968 CLKVLRLWLERR 979 (1389)
Q Consensus 968 clKVL~lW~eR~ 979 (1389)
+|.+|..|.+-.
T Consensus 107 il~li~~W~~~f 118 (139)
T cd03567 107 IIELLYSWTLEL 118 (139)
T ss_pred HHHHHHHHHHHh
Confidence 999999999753
No 69
>smart00288 VHS Domain present in VPS-27, Hrs and STAM. Unpublished observations. Domain of unknown function.
Probab=35.99 E-value=1.1e+02 Score=31.46 Aligned_cols=87 Identities=13% Similarity=0.137 Sum_probs=55.6
Q ss_pred HHhhccC--chHHHHHHHHHHhhccccccchhhhhhhhhHHHHhhccCCCCCCCCcHHHHHHHHHHHhhccCCCCcchHH
Q 000616 886 IDCAKFG--VSSKVVEIVARHLESESSLYRRVDLFFLVDSIMQCSRGMKGDVSGIIPSAILTVLPRLLSAAAPPGNVAQE 963 (1389)
Q Consensus 886 idcAk~g--ia~~vveiL~e~Le~Ess~~rRvdllfLvDSI~q~S~a~KG~~~~~Y~s~vQ~iLPrll~aaap~G~~a~e 963 (1389)
.|..+.+ .+.+++..|.+||.. .+.+.=...|.|+|+...+|-... +..+.+ ..+|-.|...+..... ..+
T Consensus 25 cD~i~~~~~~~k~a~r~l~krl~~-~n~~v~l~AL~lLe~~vkNcg~~f---~~ev~s--~~fl~~L~~l~~~~~~-~~~ 97 (133)
T smart00288 25 CDLINSTPDGPKDAVRLLKKRLNN-KNPHVALLALTLLDACVKNCGSKF---HLEVAS--KEFLNELVKLIKPKYP-LPL 97 (133)
T ss_pred HHHHhCCCccHHHHHHHHHHHHcC-CCHHHHHHHHHHHHHHHHHCCHHH---HHHHHh--HHHHHHHHHHHcCCCC-cHH
Confidence 3444442 367899999999996 566666677889999997764433 111111 2344444444433333 234
Q ss_pred HHHHHHHHHHHHHhhc
Q 000616 964 NRRQCLKVLRLWLERR 979 (1389)
Q Consensus 964 nRrqclKVL~lW~eR~ 979 (1389)
-|.+++.++.-|....
T Consensus 98 Vk~kil~li~~W~~~f 113 (133)
T smart00288 98 VKKRILELIQEWADAF 113 (133)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 8999999999999854
No 70
>PF01213 CAP_N: Adenylate cyclase associated (CAP) N terminal; InterPro: IPR013992 Cyclase-associated proteins (CAPs) are highly conserved actin-binding proteins present in a wide range of organisms including yeast, fly, plants, and mammals. CAPs are multifunctional proteins that contain several structural domains. CAP is involved in species-specific signalling pathways [, , , ]. In Drosophila, CAP functions in Hedgehog-mediated eye development and in establishing oocyte polarity. In Dictyostelium (slim mold), CAP is involved in microfilament reorganisation near the plasma membrane in a PIP2-regulated manner and is required to perpetuate the cAMP relay signal to organise fruitbody formation. In plants, CAP is involved in plant signalling pathways required for co-ordinated organ expansion. In yeast, CAP is involved in adenylate cyclase activation, as well as in vesicle trafficking and endocytosis. In both yeast and mammals, CAPs appear to be involved in recycling G-actin monomers from ADF/cofilins for subsequent rounds of filament assembly [, ]. In mammals, there are two different CAPs (CAP1 and CAP2) that share 64% amino acid identity. All CAPs appear to contain a C-terminal actin-binding domain that regulates actin remodelling in response to cellular signals and is required for normal cellular morphology, cell division, growth and locomotion in eukaryotes. CAP directly regulates actin filament dynamics and has been implicated in a number of complex developmental and morphological processes, including mRNA localisation and the establishment of cell polarity. Actin exists both as globular (G) (monomeric) actin subunits and assembled into filamentous (F) actin. In cells, actin cycles between these two forms. Proteins that bind F-actin often regulate F-actin assembly and its interaction with other proteins, while proteins that interact with G-actin often control the availability of unpolymerised actin. CAPs bind G-actin. In addition to actin-binding, CAPs can have additional roles, and may act as bifunctional proteins. In Saccharomyces cerevisiae (Baker's yeast), CAP is a component of the adenylyl cyclase complex (Cyr1p) that serves as an effector of Ras during normal cell signalling. S. cerevisiae CAP functions to expose adenylate cyclase binding sites to Ras, thereby enabling adenylate cyclase to be activated by Ras regulatory signals. In Schizosaccharomyces pombe (Fission yeast), CAP is also required for adenylate cyclase activity, but not through the Ras pathway. In both organisms, the N-terminal domain is responsible for adenylate cyclase activation, but the S cerevisiae and S. pombe N-termini cannot complement one another. Yeast CAPs are unique among the CAP family of proteins, because they are the only ones to directly interact with and activate adenylate cyclase []. S. cerevisiae CAP has four major domains. In addition to the N-terminal adenylate cyclase-interacting domain, and the C-terminal actin-binding domain, it possesses two other domains: a proline-rich domain that interacts with Src homology 3 (SH3) domains of specific proteins, and a domain that is responsible for CAP oligomerisation to form multimeric complexes (although oligomerisation appears to involve the N- and C-terminal domains as well). The proline-rich domain interacts with profilin, a protein that catalyses nucleotide exchange on G-actin monomers and promotes addition to barbed ends of filamentous F-actin []. Since CAP can bind profilin via a proline-rich domain, and G-actin via a C-terminal domain, it has been suggested that a ternary G-actin/CAP/profilin complex could be formed. This entry represents the N-terminal domain of CAP proteins. This domain has an all-alpha structure consisting of six helices in a bundle with a left-handed twist and an up-and-down topology [].; GO: 0003779 actin binding, 0007010 cytoskeleton organization; PDB: 1TJF_B 1S0P_A.
Probab=35.94 E-value=12 Score=43.81 Aligned_cols=13 Identities=8% Similarity=0.468 Sum_probs=7.7
Q ss_pred hHHhhHHHHHHhh
Q 000616 857 AHAALSSFEAVLG 869 (1389)
Q Consensus 857 a~~ard~Fe~mL~ 869 (1389)
....+.+|+.+|.
T Consensus 42 ~p~sV~afD~~i~ 54 (312)
T PF01213_consen 42 VPPSVEAFDELIN 54 (312)
T ss_dssp -HHHHHHHHHHHH
T ss_pred CCchHHHHHHHHH
Confidence 3455677877753
No 71
>PF12868 DUF3824: Domain of unknwon function (DUF3824); InterPro: IPR024436 This repeating domain is proline-rich but its function is unknown.
Probab=34.16 E-value=65 Score=34.16 Aligned_cols=20 Identities=30% Similarity=0.762 Sum_probs=11.4
Q ss_pred CCCCCCCCCCCCCCCCCCCC
Q 000616 1249 PYPPRPPHAPQSNHFSYVQA 1268 (1389)
Q Consensus 1249 gy~~pPPpppP~nqf~y~~~ 1268 (1389)
.|+++|...+|+.++.|.++
T Consensus 101 dYPppP~~~~p~~~~~yp~~ 120 (137)
T PF12868_consen 101 DYPPPPGAVPPPQPYPYPPP 120 (137)
T ss_pred cCCCCCCCCCCCCCCCCCCC
Confidence 44444444456677777554
No 72
>PF07793 DUF1631: Protein of unknown function (DUF1631); InterPro: IPR012434 The members of this family are sequences derived from a group of hypothetical proteins expressed by certain bacterial species. The region concerned is approximately 440 amino acid residues in length.
Probab=34.04 E-value=3.4e+02 Score=34.92 Aligned_cols=140 Identities=20% Similarity=0.176 Sum_probs=85.7
Q ss_pred hHHhhHHHHHHhhhhhhhhhhHHHHHHHHHH-hhccCchHHHH-HHHHHHhhccccccchhhhhhh---hhHHHHhhccC
Q 000616 857 AHAALSSFEAVLGSLTRTKESIGRATRIAID-CAKFGVSSKVV-EIVARHLESESSLYRRVDLFFL---VDSIMQCSRGM 931 (1389)
Q Consensus 857 a~~ard~Fe~mL~tLtRtKesI~rATr~Aid-cAk~gia~~vv-eiL~e~Le~Ess~~rRvdllfL---vDSI~q~S~a~ 931 (1389)
...+.+.|+.++....|.-+..-+-++.|.. -.|.-.|.+.| ..|.++|.. ..++.-|.-|+- .|-+..+. -.
T Consensus 450 f~~~l~el~~~~~~~~~~~~~~~~r~~~~~~g~er~~~Ar~~v~~~l~~~l~~-~~~P~~v~~fL~~~W~~vL~~~~-lr 527 (729)
T PF07793_consen 450 FEELLQELEAFLEQERRRAQRNERRAIEAEEGRERLEQARQQVAQELNERLAG-RQLPEVVRDFLDGGWADVLVLAL-LR 527 (729)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCCCHHHHHHHHHHHHHHHHHHH-Hh
Confidence 4556777888888766655555444444443 33334555544 455555554 557766655543 23333222 22
Q ss_pred CCCCCCCcHHHHHHHHHHHhhccCCCCcchHHHH------HHHHHHHHHHHhhccCcHHHHHHhhhhcccccCCC
Q 000616 932 KGDVSGIIPSAILTVLPRLLSAAAPPGNVAQENR------RQCLKVLRLWLERRILPESIIRHHMRELDTVTCSS 1000 (1389)
Q Consensus 932 KG~~~~~Y~s~vQ~iLPrll~aaap~G~~a~enR------rqclKVL~lW~eR~i~pe~~lr~~~~ei~~~~~~~ 1000 (1389)
.|..+..+.. ...++.+|+-++-|... +.+.+ .+.++.|+.|++.-=+++.-.+.++++|+......
T Consensus 528 ~G~~s~~w~~-~~~~~~~Liws~~~~~~-~~~r~~l~~~lp~Ll~~L~~gL~~i~~~~~~~~~~~~~L~~~~~~~ 600 (729)
T PF07793_consen 528 EGEDSEDWQE-ALALVDDLIWSVQPKDD-AEERARLVQLLPQLLQRLREGLASIGYDPEERRAFLDELEDAHAAA 600 (729)
T ss_pred cCCCcHHHHH-HHHHHHHHHHHhCcCCC-cchHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHH
Confidence 3443434443 34688888888877663 33322 34779999999999999999999999999655444
No 73
>PLN00104 MYST -like histone acetyltransferase; Provisional
Probab=32.35 E-value=39 Score=41.70 Aligned_cols=57 Identities=14% Similarity=0.165 Sum_probs=45.2
Q ss_pred CCCccCCEEEEccCCCCCC-CeeeeCCCCCC-CCCCCCEEEEEEecCCCe--eeeccCccc
Q 000616 20 RQWKVGDLVLAKVKGFPAW-PATVSEPEKWG-YSADWKKVLVFFFGTQQI--AFCNPADVE 76 (1389)
Q Consensus 20 ~kFk~GDLVWAKVKGYPwW-PArI~dPe~~~-~K~~~nkylV~FFGT~Ey--AWV~~kdLk 76 (1389)
..|++|+-|+|+..+-+-| .|.|+...... .+.....|.|.|-|.+.+ -||..++|.
T Consensus 52 ~~~~VGekVla~~~~Dg~~~~A~VI~~R~~~~~~~~~~~YYVHY~g~nrRlDEWV~~~rLd 112 (450)
T PLN00104 52 LPLEVGTRVMCRWRFDGKYHPVKVIERRRGGSGGPNDYEYYVHYTEFNRRLDEWVKLEQLD 112 (450)
T ss_pred ceeccCCEEEEEECCCCCEEEEEEEEEeccCCCCCCCceEEEEEecCCccHhhccCHhhcc
Confidence 4599999999999978888 99999854321 112334799999999888 999999984
No 74
>PF12054 DUF3535: Domain of unknown function (DUF3535); InterPro: IPR022707 This presumed domain is functionally uncharacterised. This domain is found in eukaryotes. This domain is typically between 439 to 459 amino acids in length. This domain is found associated with PF00271 from PFAM, PF02985 from PFAM, and PF00176 from PFAM. This domain has two completely conserved residues (P and K) that may be functionally important.
Probab=32.24 E-value=2.7e+02 Score=34.26 Aligned_cols=110 Identities=15% Similarity=0.251 Sum_probs=75.2
Q ss_pred hhhhhhhhHHHHHHHHHHhhcc--CchHHHHH-HHHHHhhccccccchhhhhhhhhHHHHhhccCCCCCCCCcHHHHHHH
Q 000616 870 SLTRTKESIGRATRIAIDCAKF--GVSSKVVE-IVARHLESESSLYRRVDLFFLVDSIMQCSRGMKGDVSGIIPSAILTV 946 (1389)
Q Consensus 870 tLtRtKesI~rATr~AidcAk~--gia~~vve-iL~e~Le~Ess~~rRvdllfLvDSI~q~S~a~KG~~~~~Y~s~vQ~i 946 (1389)
.++|+| |..|+-+++-++.. .....+++ +|..-|.+ .+.-.|+.--+++.....+....... ..+..++..
T Consensus 99 ~v~r~R--i~aA~ALG~l~~~~~~~~~~~~~~~~L~~~L~S-~sa~qR~~aalvl~ewa~~~~~~~~~---~~~~~l~~~ 172 (441)
T PF12054_consen 99 VVIRAR--IAAAKALGLLLSYWPESSLQEIFQPLLLPYLNS-PSATQRLLAALVLEEWAKACKERNPS---PPPQALSPR 172 (441)
T ss_pred HHHHHH--HHHHHHHHHHHHhcccchHHHHHHHHHHHHhcc-hhHHHHHHHHHHHHHHHHhCccccCC---ccHHHHHHH
Confidence 888899 88888888877774 45556777 58888887 45566777778887777655543311 114566666
Q ss_pred HHHHhhccCCCCc------chHHHHHHHHHHHHHHHhhccCcHHHH
Q 000616 947 LPRLLSAAAPPGN------VAQENRRQCLKVLRLWLERRILPESII 986 (1389)
Q Consensus 947 LPrll~aaap~G~------~a~enRrqclKVL~lW~eR~i~pe~~l 986 (1389)
|=.+|... .+.. .-.--|.+|...|+.+...++||.+-|
T Consensus 173 L~~~L~~~-~~~~Y~El~~~l~~lr~ec~~Ll~~f~~~g~~~~~kl 217 (441)
T PF12054_consen 173 LLEILENP-EPPYYDELVPSLKRLRTECQQLLATFRDVGKVPPSKL 217 (441)
T ss_pred HHHHHcCC-CCCCHHHHHHHHHHHHHHHHHHHHHHHHhCCCChhhc
Confidence 66666533 3333 235679999999999999999774433
No 75
>KOG2675 consensus Adenylate cyclase-associated protein (CAP/Srv2p) [Cytoskeleton; Signal transduction mechanisms]
Probab=31.83 E-value=33 Score=42.05 Aligned_cols=15 Identities=20% Similarity=-0.013 Sum_probs=6.0
Q ss_pred HHHHHHHHHHHHHHH
Q 000616 962 QENRRQCLKVLRLWL 976 (1389)
Q Consensus 962 ~enRrqclKVL~lW~ 976 (1389)
+..-|+.|-|-..|.
T Consensus 86 F~s~R~~L~~A~q~q 100 (480)
T KOG2675|consen 86 FASQRAFLWVASQKQ 100 (480)
T ss_pred HHHHHHHHHHHHhcc
Confidence 333344444444443
No 76
>KOG0260 consensus RNA polymerase II, large subunit [Transcription]
Probab=30.53 E-value=8e+02 Score=34.48 Aligned_cols=20 Identities=30% Similarity=0.333 Sum_probs=12.0
Q ss_pred HHHHHHHHHHHhhccCcHHH
Q 000616 966 RQCLKVLRLWLERRILPESI 985 (1389)
Q Consensus 966 rqclKVL~lW~eR~i~pe~~ 985 (1389)
++.--.|+|=++|.-|-+..
T Consensus 1174 ~ispwlLrlelDr~~m~dk~ 1193 (1605)
T KOG0260|consen 1174 RISPWLLRLELDRASMTDKK 1193 (1605)
T ss_pred hcChHHHHhhhhhhhccccc
Confidence 34445677777777665443
No 77
>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=29.83 E-value=1.4e+02 Score=31.42 Aligned_cols=94 Identities=10% Similarity=0.127 Sum_probs=58.8
Q ss_pred chHHHHHHHHHHhhccccccchhhhhhhhhHHHHhhccCCCCCCCCcHHHHHHHHHHHhhccCCCCcchHHHHHHHHHHH
Q 000616 893 VSSKVVEIVARHLESESSLYRRVDLFFLVDSIMQCSRGMKGDVSGIIPSAILTVLPRLLSAAAPPGNVAQENRRQCLKVL 972 (1389)
Q Consensus 893 ia~~vveiL~e~Le~Ess~~rRvdllfLvDSI~q~S~a~KG~~~~~Y~s~vQ~iLPrll~aaap~G~~a~enRrqclKVL 972 (1389)
-+.++|..|.+||.. .+.+.=+..|-|+|++..+|-...-. .+=. ..+|-.|...+... +..+-|+++|.+|
T Consensus 34 ~~k~a~ral~KRl~~-~n~~v~l~AL~LLe~~vkNCG~~fh~--evas---k~Fl~eL~kl~~~~--~~~~Vk~kil~li 105 (144)
T cd03568 34 GAKDCLKAIMKRLNH-KDPNVQLRALTLLDACAENCGKRFHQ--EVAS---RDFTQELKKLINDR--VHPTVKEKLREVV 105 (144)
T ss_pred cHHHHHHHHHHHHcC-CCHHHHHHHHHHHHHHHHHCCHHHHH--HHhh---HHHHHHHHHHhccc--CCHHHHHHHHHHH
Confidence 456889999999986 56666667899999999776543210 0001 13333333333332 6789999999999
Q ss_pred HHHHhhcc--CcHHHHHHhhhhcc
Q 000616 973 RLWLERRI--LPESIIRHHMRELD 994 (1389)
Q Consensus 973 ~lW~eR~i--~pe~~lr~~~~ei~ 994 (1389)
..|.+.+= -.-..+......|.
T Consensus 106 ~~W~~~f~~~~~l~~i~~~y~~L~ 129 (144)
T cd03568 106 KQWADEFKNDPSLSLMSDLYKKLK 129 (144)
T ss_pred HHHHHHhCCCcccHHHHHHHHHHH
Confidence 99987653 11224455445544
No 78
>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=29.19 E-value=1.5e+02 Score=31.02 Aligned_cols=79 Identities=9% Similarity=0.165 Sum_probs=50.8
Q ss_pred chHHHHHHHHHHhhccccccchhhhhhhhhHHHHhhccCCCCCCCCcHHHH--HHHHHH-HhhccCCCCcchHHHHHHHH
Q 000616 893 VSSKVVEIVARHLESESSLYRRVDLFFLVDSIMQCSRGMKGDVSGIIPSAI--LTVLPR-LLSAAAPPGNVAQENRRQCL 969 (1389)
Q Consensus 893 ia~~vveiL~e~Le~Ess~~rRvdllfLvDSI~q~S~a~KG~~~~~Y~s~v--Q~iLPr-ll~aaap~G~~a~enRrqcl 969 (1389)
-+.++|..|.+||..-.+.+-=...|-|+|+...+|-...- ..| +.+|-. |+..+.+.++...+=+.+||
T Consensus 35 ~~k~a~ralkkRl~~~~n~~v~l~aL~LLe~~vkNCG~~fh-------~eiask~Fl~e~L~~~i~~~~~~~~~Vk~kil 107 (141)
T cd03565 35 GPKDAVRALKKRLNGNKNHKEVMLTLTVLETCVKNCGHRFH-------VLVAKKDFIKDVLVKLINPKNNPPTIVQEKVL 107 (141)
T ss_pred cHHHHHHHHHHHHccCCCHHHHHHHHHHHHHHHHHccHHHH-------HHHHHHHhhhHHHHHHHcccCCCcHHHHHHHH
Confidence 45688999999996323333334468899999977744321 111 233433 33333444556678899999
Q ss_pred HHHHHHHhh
Q 000616 970 KVLRLWLER 978 (1389)
Q Consensus 970 KVL~lW~eR 978 (1389)
.+++-|.+.
T Consensus 108 ~li~~W~~~ 116 (141)
T cd03565 108 ALIQAWADA 116 (141)
T ss_pred HHHHHHHHH
Confidence 999999975
No 79
>PF01213 CAP_N: Adenylate cyclase associated (CAP) N terminal; InterPro: IPR013992 Cyclase-associated proteins (CAPs) are highly conserved actin-binding proteins present in a wide range of organisms including yeast, fly, plants, and mammals. CAPs are multifunctional proteins that contain several structural domains. CAP is involved in species-specific signalling pathways [, , , ]. In Drosophila, CAP functions in Hedgehog-mediated eye development and in establishing oocyte polarity. In Dictyostelium (slim mold), CAP is involved in microfilament reorganisation near the plasma membrane in a PIP2-regulated manner and is required to perpetuate the cAMP relay signal to organise fruitbody formation. In plants, CAP is involved in plant signalling pathways required for co-ordinated organ expansion. In yeast, CAP is involved in adenylate cyclase activation, as well as in vesicle trafficking and endocytosis. In both yeast and mammals, CAPs appear to be involved in recycling G-actin monomers from ADF/cofilins for subsequent rounds of filament assembly [, ]. In mammals, there are two different CAPs (CAP1 and CAP2) that share 64% amino acid identity. All CAPs appear to contain a C-terminal actin-binding domain that regulates actin remodelling in response to cellular signals and is required for normal cellular morphology, cell division, growth and locomotion in eukaryotes. CAP directly regulates actin filament dynamics and has been implicated in a number of complex developmental and morphological processes, including mRNA localisation and the establishment of cell polarity. Actin exists both as globular (G) (monomeric) actin subunits and assembled into filamentous (F) actin. In cells, actin cycles between these two forms. Proteins that bind F-actin often regulate F-actin assembly and its interaction with other proteins, while proteins that interact with G-actin often control the availability of unpolymerised actin. CAPs bind G-actin. In addition to actin-binding, CAPs can have additional roles, and may act as bifunctional proteins. In Saccharomyces cerevisiae (Baker's yeast), CAP is a component of the adenylyl cyclase complex (Cyr1p) that serves as an effector of Ras during normal cell signalling. S. cerevisiae CAP functions to expose adenylate cyclase binding sites to Ras, thereby enabling adenylate cyclase to be activated by Ras regulatory signals. In Schizosaccharomyces pombe (Fission yeast), CAP is also required for adenylate cyclase activity, but not through the Ras pathway. In both organisms, the N-terminal domain is responsible for adenylate cyclase activation, but the S cerevisiae and S. pombe N-termini cannot complement one another. Yeast CAPs are unique among the CAP family of proteins, because they are the only ones to directly interact with and activate adenylate cyclase []. S. cerevisiae CAP has four major domains. In addition to the N-terminal adenylate cyclase-interacting domain, and the C-terminal actin-binding domain, it possesses two other domains: a proline-rich domain that interacts with Src homology 3 (SH3) domains of specific proteins, and a domain that is responsible for CAP oligomerisation to form multimeric complexes (although oligomerisation appears to involve the N- and C-terminal domains as well). The proline-rich domain interacts with profilin, a protein that catalyses nucleotide exchange on G-actin monomers and promotes addition to barbed ends of filamentous F-actin []. Since CAP can bind profilin via a proline-rich domain, and G-actin via a C-terminal domain, it has been suggested that a ternary G-actin/CAP/profilin complex could be formed. This entry represents the N-terminal domain of CAP proteins. This domain has an all-alpha structure consisting of six helices in a bundle with a left-handed twist and an up-and-down topology [].; GO: 0003779 actin binding, 0007010 cytoskeleton organization; PDB: 1TJF_B 1S0P_A.
Probab=29.11 E-value=18 Score=42.37 Aligned_cols=9 Identities=22% Similarity=0.346 Sum_probs=4.2
Q ss_pred HHHhhccCC
Q 000616 924 IMQCSRGMK 932 (1389)
Q Consensus 924 I~q~S~a~K 932 (1389)
|..+++.+|
T Consensus 89 L~~as~~kK 97 (312)
T PF01213_consen 89 LLVASKCKK 97 (312)
T ss_dssp HHHHHHBE-
T ss_pred HHHHHccCC
Confidence 334566655
No 80
>KOG1925 consensus Rac1 GTPase effector FHOS [Signal transduction mechanisms; Cytoskeleton]
Probab=28.78 E-value=70 Score=40.04 Aligned_cols=6 Identities=50% Similarity=0.982 Sum_probs=2.3
Q ss_pred CCCCCC
Q 000616 1147 SPPPVL 1152 (1389)
Q Consensus 1147 ~PPPPp 1152 (1389)
.|||||
T Consensus 249 vPPPPP 254 (817)
T KOG1925|consen 249 VPPPPP 254 (817)
T ss_pred CCCCCC
Confidence 344433
No 81
>PF06003 SMN: Survival motor neuron protein (SMN); InterPro: IPR010304 This family consists of several eukaryotic survival motor neuron (SMN) proteins. The Survival of Motor Neurons (SMN) protein, the product of the spinal muscular atrophy-determining gene, is part of a large macromolecular complex (SMN complex) that functions in the assembly of spliceosomal small nuclear ribonucleoproteins (snRNPs). The SMN complex functions as a specificity factor essential for the efficient assembly of Sm proteins on U snRNAs and likely protects cells from illicit, and potentially deleterious, non-specific binding of Sm proteins to RNAs.; GO: 0003723 RNA binding, 0006397 mRNA processing, 0005634 nucleus, 0005737 cytoplasm; PDB: 1MHN_A 4A4G_A 3S6N_M 4A4E_A 1G5V_A 4A4H_A 4A4F_A 2D9T_A.
Probab=25.88 E-value=64 Score=37.05 Aligned_cols=59 Identities=24% Similarity=0.369 Sum_probs=40.6
Q ss_pred hcCCCccCCEEEEccCCC-CCCCeeeeCCCCCCCCCCCCEEEEEEecCCCeeeeccCccccccHH
Q 000616 18 ARRQWKVGDLVLAKVKGF-PAWPATVSEPEKWGYSADWKKVLVFFFGTQQIAFCNPADVEAFTEE 81 (1389)
Q Consensus 18 a~~kFk~GDLVWAKVKGY-PwWPArI~dPe~~~~K~~~nkylV~FFGT~EyAWV~~kdLkPFsE~ 81 (1389)
-...|++||.+.|+-.+= -|-||+|..... ..+.+.|.|.|=.+.-.|...+|++....
T Consensus 65 ~~~~WkvGd~C~A~~s~Dg~~Y~A~I~~i~~-----~~~~~~V~f~gYgn~e~v~l~dL~~~~~~ 124 (264)
T PF06003_consen 65 PNKKWKVGDKCMAVYSEDGQYYPATIESIDE-----EDGTCVVVFTGYGNEEEVNLSDLKPSEGD 124 (264)
T ss_dssp TTT---TT-EEEEE-TTTSSEEEEEEEEEET-----TTTEEEEEETTTTEEEEEEGGGEEETT--
T ss_pred cccCCCCCCEEEEEECCCCCEEEEEEEEEcC-----CCCEEEEEEcccCCeEeeehhhhcccccc
Confidence 346999999999985322 244999998542 23578899999889999999999998865
No 82
>KOG2391 consensus Vacuolar sorting protein/ubiquitin receptor VPS23 [Posttranslational modification, protein turnover, chaperones; Intracellular trafficking, secretion, and vesicular transport]
Probab=25.14 E-value=1.2e+02 Score=36.66 Aligned_cols=16 Identities=19% Similarity=0.353 Sum_probs=10.9
Q ss_pred cCCccccccCCCCccccC
Q 000616 1023 MEGMLVDEYGSNSSFQLP 1040 (1389)
Q Consensus 1023 megmlVDEYGSNa~fqlp 1040 (1389)
-.+.-|=+|| .+..+|
T Consensus 56 ~GTIp~~~~G--~tYnIP 71 (365)
T KOG2391|consen 56 DGTIPVPYQG--VTYNIP 71 (365)
T ss_pred cCcccccccC--Ccccce
Confidence 3466777888 566666
No 83
>cd04370 BAH BAH, or Bromo Adjacent Homology domain (also called ELM1 and BAM for Bromo Adjacent Motif). BAH domains have first been described as domains found in the polybromo protein and Yeast Rsc1/Rsc2 (Remodeling of the Structure of Chromatin). They also occur in mammalian DNA methyltransferases and the MTA1 subunits of histone deacetylase complexes. A BAH domain is also found in Yeast Sir3p and in the origin receptor complex protein 1 (Orc1p), where it was found to interact with the N-terminal lobe of the silence information regulator 1 protein (Sir1p), confirming the initial hypothesis that BAH plays a role in protein-protein interactions.
Probab=24.56 E-value=79 Score=30.22 Aligned_cols=42 Identities=26% Similarity=0.265 Sum_probs=31.5
Q ss_pred CCCccCCEEEEccCC----CCCCCeeeeCCCCCCCCCCCCEEEEEEec
Q 000616 20 RQWKVGDLVLAKVKG----FPAWPATVSEPEKWGYSADWKKVLVFFFG 63 (1389)
Q Consensus 20 ~kFk~GDLVWAKVKG----YPwWPArI~dPe~~~~K~~~nkylV~FFG 63 (1389)
..|++||.|+.+-.. -+.|-|+|...-.. +.....+.|+||-
T Consensus 2 ~~y~vgd~V~v~~~~~~~~~~~~i~~I~~i~~~--~~~~~~~~v~wf~ 47 (123)
T cd04370 2 ITYEVGDSVYVEPDDSIKSDPPYIARIEELWED--TNGSKQVKVRWFY 47 (123)
T ss_pred CEEecCCEEEEecCCcCCCCCCEEEEEeeeeEC--CCCCEEEEEEEEE
Confidence 368999999999877 58999999884321 1234578888887
No 84
>PF06793 UPF0262: Uncharacterised protein family (UPF0262); InterPro: IPR008321 There are currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=24.42 E-value=1.1e+02 Score=33.29 Aligned_cols=58 Identities=29% Similarity=0.345 Sum_probs=39.4
Q ss_pred HHHHhhhhhhhhhhHHHHHH-------HHHHhhccCchHHHHHHHHHHhhc--cccccchhhhhhhh
Q 000616 864 FEAVLGSLTRTKESIGRATR-------IAIDCAKFGVSSKVVEIVARHLES--ESSLYRRVDLFFLV 921 (1389)
Q Consensus 864 Fe~mL~tLtRtKesI~rATr-------~AidcAk~gia~~vveiL~e~Le~--Ess~~rRvdllfLv 921 (1389)
|..+++.--+-=||-..|.| .|||++++||-+|--++|.|||+- |--+.+--=||-||
T Consensus 85 fRrvikDYf~ICeSYy~Air~a~p~qIEaIDMgRRGlHNEGa~lL~eRL~GKi~~D~dTARRLFTLI 151 (158)
T PF06793_consen 85 FRRVIKDYFMICESYYEAIRTATPSQIEAIDMGRRGLHNEGAELLQERLEGKIEVDFDTARRLFTLI 151 (158)
T ss_pred HHHHHHHHHHHHHHHHHHHhhCCHhhhhhhhhhhhccchHHHHHHHHHhcCCcccChhhHHHHHHHh
Confidence 55555555555556555554 589999999999999999999983 33444433345444
No 85
>KOG0260 consensus RNA polymerase II, large subunit [Transcription]
Probab=24.14 E-value=1.4e+03 Score=32.47 Aligned_cols=14 Identities=43% Similarity=0.717 Sum_probs=8.1
Q ss_pred cCCCC---Cccccchhh
Q 000616 409 EDGDE---HLPLVKRAR 422 (1389)
Q Consensus 409 ~DGDE---HLPLVKRAR 422 (1389)
=|||| |+|----||
T Consensus 474 FDGDemnlhvPQS~etk 490 (1605)
T KOG0260|consen 474 FDGDEMNLHVPQSLETK 490 (1605)
T ss_pred CCCceeecccCcchhHH
Confidence 48998 666433333
No 86
>KOG1922 consensus Rho GTPase effector BNI1 and related formins [Signal transduction mechanisms; Cytoskeleton]
Probab=21.96 E-value=1.2e+02 Score=39.50 Aligned_cols=46 Identities=28% Similarity=0.414 Sum_probs=0.0
Q ss_pred CCCCCCCCCC--------CCCCCCCC---CCCCCCCCCCCCCCCCCCCCCCCCCCcc
Q 000616 1127 LSFVPPLPQD--------VPPSSPPL---PSSPPPVLPPPPSIPHSCAFSDSYSNGA 1172 (1389)
Q Consensus 1127 ~~~~Pp~P~~--------~PP~ppp~---p~~PPPPppPPP~p~~~~~~~Dp~~~~~ 1172 (1389)
.++.|+++.+ ++|++++. .+.|+||||||+.+.+....+-+..+..
T Consensus 315 ~~~~p~~~~~~l~~~~~~s~~~~~~~~~~~~~p~pppppp~~~~~~~~~~~~~~~~~ 371 (833)
T KOG1922|consen 315 SPPPPPILTPKLPALISPTPPPPPPPPNNSGGPPPPPPPPGLALPSPPPPLPPLPAL 371 (833)
T ss_pred cCCCCCCCCcccccccCCCCCCCCCCCccCCCCCCCCCCCCccccCCCCCCCCCccc
No 87
>COG1157 FliI Flagellar biosynthesis/type III secretory pathway ATPase [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=21.77 E-value=22 Score=43.49 Aligned_cols=54 Identities=20% Similarity=0.381 Sum_probs=38.2
Q ss_pred HHHHHHhhccccccchhhhhhhhhHHHHhhccCC--CCCC------CCcHHHHHHHHHHHhhccCCC
Q 000616 899 EIVARHLESESSLYRRVDLFFLVDSIMQCSRGMK--GDVS------GIIPSAILTVLPRLLSAAAPP 957 (1389)
Q Consensus 899 eiL~e~Le~Ess~~rRvdllfLvDSI~q~S~a~K--G~~~------~~Y~s~vQ~iLPrll~aaap~ 957 (1389)
-.|+|-+.. +=-+.|+|+||++..++||+ |-+. --|++-|=+.|||||+-+=+-
T Consensus 242 t~IAEyFRD-----qG~~VLL~mDSlTRfA~AqREI~LA~GEpP~~kGYppSVF~~LP~LlERaG~~ 303 (441)
T COG1157 242 TTIAEYFRD-----QGKRVLLIMDSLTRFAMAQREIGLAAGEPPATKGYPPSVFSELPRLLERAGNG 303 (441)
T ss_pred HHHHHHHHh-----CCCeEEEEeecHHHHHHHHHHHHHhcCCCCccCCCCchHHHHhHHHHhhcCCC
Confidence 345555553 11245677899999999996 3222 239999999999999988644
No 88
>KOG4264 consensus Nucleo-cytoplasmic protein MLN51 [General function prediction only]
Probab=21.17 E-value=5.4e+02 Score=33.03 Aligned_cols=6 Identities=50% Similarity=0.606 Sum_probs=2.7
Q ss_pred ccCCcc
Q 000616 1006 SRRSSR 1011 (1389)
Q Consensus 1006 ~rR~sr 1011 (1389)
+|+|.|
T Consensus 300 srnp~r 305 (694)
T KOG4264|consen 300 SRNPMR 305 (694)
T ss_pred CCCccc
Confidence 444444
No 89
>PF03154 Atrophin-1: Atrophin-1 family; InterPro: IPR002951 Atrophin-1 is the protein product of the dentatorubral-pallidoluysian atrophy (DRPLA) gene. DRPLA (OMIM:125370) is a progressive neurodegenerative disorder. It is caused by the expansion of a CAG repeat in the DRPLA gene on chromosome 12p. This results in an extended polyglutamine region in atrophin-1, that is thought to confer toxicity to the protein, possibly through altering its interactions with other proteins [, ]. The expansion of a CAG repeat is also the underlying defect in six other neurodegenerative disorders, including Huntington's disease. One interaction of expanded polyglutamine repeats that is thought to be pathogenic is that with the short glutamine repeat in the transcriptional coactivator CREB binding protein, CBP. This interaction draws CBP away from its usual nuclear location to the expanded polyglutamine repeat protein aggregates that are characteristic of the polyglutamine neurodegenerative disorders. This interferes with CBP-mediated transcription and causes cytotoxicity [].. This entry includes Atrophin-1 and related proteins.
Probab=21.00 E-value=2.3e+03 Score=29.54 Aligned_cols=9 Identities=56% Similarity=0.818 Sum_probs=4.4
Q ss_pred CCCCCCCCc
Q 000616 1054 GSDSDGGSF 1062 (1389)
Q Consensus 1054 ~~~~~~~~~ 1062 (1389)
++++|++++
T Consensus 124 ~es~d~rs~ 132 (982)
T PF03154_consen 124 GESSDGRSV 132 (982)
T ss_pred ccccccccc
Confidence 344555554
No 90
>COG5475 Uncharacterized small protein [Function unknown]
Probab=20.40 E-value=1.9e+02 Score=27.19 Aligned_cols=52 Identities=13% Similarity=0.093 Sum_probs=40.8
Q ss_pred CCCccCCEEEEccCCCCCCCeeeeCCCCCCCCCCCCEEEEEEec--CCCeeeeccCccccccH
Q 000616 20 RQWKVGDLVLAKVKGFPAWPATVSEPEKWGYSADWKKVLVFFFG--TQQIAFCNPADVEAFTE 80 (1389)
Q Consensus 20 ~kFk~GDLVWAKVKGYPwWPArI~dPe~~~~K~~~nkylV~FFG--T~EyAWV~~kdLkPFsE 80 (1389)
-.|+.||.|--|-.| |.||+.-- ...+.|..+||. ..+++-..++.|.|+..
T Consensus 3 ~~FstgdvV~lKsGG----P~Mtvs~~-----ss~Gmy~C~Wf~g~g~~~~~F~ed~Lvp~~a 56 (60)
T COG5475 3 MSFSTGDVVTLKSGG----PRMTVSGY-----SSDGMYECRWFDGYGVKREAFHEDELVPGEA 56 (60)
T ss_pred ceeecCcEEEeecCC----ceEEEecc-----ccCCeEEEEEecCCCcccccccccceecccc
Confidence 369999999999887 78888632 123789999997 46788888888888764
No 91
>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=20.39 E-value=2e+02 Score=27.91 Aligned_cols=31 Identities=23% Similarity=0.390 Sum_probs=20.4
Q ss_pred hHHHHHHHHHHHHHHHhhccC---cHHHHHHhhh
Q 000616 961 AQENRRQCLKVLRLWLERRIL---PESIIRHHMR 991 (1389)
Q Consensus 961 a~enRrqclKVL~lW~eR~i~---pe~~lr~~~~ 991 (1389)
....|.+|++||+.|++..-- .+..+.+.|.
T Consensus 63 ~~~~~~~v~~~l~~Wv~~~~~df~~d~~l~~~l~ 96 (122)
T cd06224 63 SKPIRLRVLNVLRTWVENYPYDFFDDEELLELLE 96 (122)
T ss_pred HHHHHHHHHHHHHHHHHhCCCcccccHHHHHHHH
Confidence 344588899999999997543 3444444443
Done!