Query 024272
Match_columns 270
No_of_seqs 125 out of 188
Neff 5.3
Searched_HMMs 46136
Date Fri Mar 29 03:21:28 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/024272.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/024272hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3038 Histone acetyltransfer 100.0 6.4E-50 1.4E-54 361.3 20.4 255 9-270 2-264 (264)
2 PF07039 DUF1325: SGF29 tudor- 100.0 7.8E-46 1.7E-50 308.5 12.5 126 131-266 1-130 (130)
3 PF15057 DUF4537: Domain of un 98.0 0.00015 3.3E-09 60.1 12.9 112 133-267 1-115 (124)
4 PF09465 LBR_tudor: Lamin-B re 97.9 1.5E-05 3.3E-10 57.5 4.0 40 204-245 5-44 (55)
5 smart00333 TUDOR Tudor domain. 97.0 0.0015 3.2E-08 45.8 4.6 54 204-266 2-55 (57)
6 cd04508 TUDOR Tudor domains ar 96.9 0.0016 3.4E-08 44.2 4.1 36 208-246 1-36 (48)
7 KOG3038 Histone acetyltransfer 96.4 0.0097 2.1E-07 55.2 6.7 190 14-243 4-221 (264)
8 smart00743 Agenet Tudor-like d 96.1 0.033 7.2E-07 39.8 7.0 59 129-198 2-60 (61)
9 smart00743 Agenet Tudor-like d 95.7 0.025 5.4E-07 40.4 4.9 38 204-244 2-39 (61)
10 PF15057 DUF4537: Domain of un 95.3 0.034 7.3E-07 46.1 5.0 50 208-266 1-50 (124)
11 PF11717 Tudor-knot: RNA bindi 94.1 0.041 9E-07 39.2 2.4 40 205-245 1-40 (55)
12 PF05641 Agenet: Agenet domain 93.8 0.4 8.7E-06 35.4 7.4 66 130-197 1-66 (68)
13 PF06003 SMN: Survival motor n 93.7 0.076 1.6E-06 49.4 4.0 40 204-245 68-107 (264)
14 smart00333 TUDOR Tudor domain. 92.1 0.75 1.6E-05 31.9 6.4 54 129-196 2-55 (57)
15 PF09038 53-BP1_Tudor: Tumour 91.4 0.26 5.5E-06 41.2 3.8 37 207-246 5-41 (122)
16 PF09267 Dict-STAT-coil: Dicty 86.6 7.7 0.00017 32.1 9.1 66 13-78 2-68 (114)
17 PF11302 DUF3104: Protein of u 86.1 2.6 5.6E-05 32.5 5.7 45 127-171 3-55 (75)
18 cd05162 PWWP The PWWP domain, 85.3 1.8 3.8E-05 33.0 4.6 42 205-247 1-49 (87)
19 PF09465 LBR_tudor: Lamin-B re 83.9 4.6 9.9E-05 29.4 5.9 39 128-170 4-42 (55)
20 PF08605 Rad9_Rad53_bind: Fung 83.8 1.2 2.7E-05 37.5 3.4 33 210-246 15-47 (131)
21 smart00293 PWWP domain with co 79.1 4.2 9.2E-05 29.4 4.4 45 205-250 1-53 (63)
22 PF05641 Agenet: Agenet domain 78.0 2.7 5.9E-05 30.9 3.2 59 205-266 1-65 (68)
23 cd04508 TUDOR Tudor domains ar 76.2 8.5 0.00018 25.5 5.0 34 133-171 1-34 (48)
24 PF00855 PWWP: PWWP domain; I 75.8 1.8 3.9E-05 32.4 1.7 42 205-247 1-46 (86)
25 cd05834 HDGF_related The PWWP 75.7 5.6 0.00012 30.7 4.5 57 204-266 2-59 (83)
26 PF00567 TUDOR: Tudor domain; 75.2 3 6.4E-05 31.9 2.9 42 202-246 49-90 (121)
27 cd05836 N_Pac_NP60 The PWWP do 67.3 8.5 0.00018 29.8 3.8 43 205-248 1-48 (86)
28 cd05837 MSH6_like The PWWP dom 63.7 18 0.0004 29.1 5.3 57 204-266 2-69 (110)
29 cd05840 SPBC215_ISWI_like The 60.0 16 0.00034 28.8 4.2 43 205-248 1-53 (93)
30 PF07039 DUF1325: SGF29 tudor- 59.7 34 0.00073 28.6 6.3 61 127-196 69-130 (130)
31 PF00567 TUDOR: Tudor domain; 57.7 63 0.0014 24.4 7.2 54 130-196 52-105 (121)
32 cd05838 WHSC1_related The PWWP 54.9 19 0.00042 28.3 3.9 56 206-267 2-65 (95)
33 PF08651 DASH_Duo1: DASH compl 51.2 54 0.0012 25.2 5.7 13 13-25 2-14 (78)
34 PLN00104 MYST -like histone ac 47.9 25 0.00055 35.5 4.3 43 203-245 52-98 (450)
35 PF10377 ATG11: Autophagy-rela 42.5 51 0.0011 27.5 4.7 13 147-159 88-100 (129)
36 PF10849 DUF2654: Protein of u 39.9 35 0.00076 26.0 3.0 39 12-63 10-48 (70)
37 PF12998 ING: Inhibitor of gro 38.3 1.8E+02 0.0039 22.2 7.7 78 8-86 17-95 (105)
38 cd06080 MUM1_like Mutated mela 37.8 1.1E+02 0.0023 23.7 5.5 43 205-250 1-44 (80)
39 cd05839 BR140_related The PWWP 37.7 63 0.0014 26.6 4.4 25 205-230 1-25 (111)
40 PF11717 Tudor-knot: RNA bindi 37.0 77 0.0017 22.2 4.3 34 130-168 1-36 (55)
41 PF11126 Phage_DsbA: Transcrip 36.6 1.9E+02 0.0041 22.0 6.6 59 15-77 2-61 (69)
42 PF01079 Hint: Hint module; I 34.6 1.5E+02 0.0033 26.8 6.9 89 129-230 31-131 (217)
43 cd05835 Dnmt3b_related The PWW 34.6 71 0.0015 24.5 4.1 45 205-250 1-49 (87)
44 cd05841 BS69_related The PWWP 34.0 82 0.0018 24.5 4.4 55 202-266 4-59 (83)
45 smart00503 SynN Syntaxin N-ter 33.0 2.3E+02 0.0049 21.8 8.9 65 8-76 3-67 (117)
46 PF12148 DUF3590: Protein of u 32.2 35 0.00077 26.9 2.1 40 211-250 2-45 (85)
47 KOG4525 Jacalin-like lectin do 31.5 35 0.00076 34.7 2.4 27 215-246 52-78 (614)
48 PHA02599 dsbA double-stranded 31.5 2.7E+02 0.0059 22.2 8.3 69 8-80 17-86 (91)
49 PHA02571 a-gt.4 hypothetical p 30.8 53 0.0012 27.0 2.9 38 14-64 42-79 (109)
50 PF12148 DUF3590: Protein of u 30.3 1.5E+02 0.0032 23.4 5.2 63 146-215 8-76 (85)
51 KOG1004 Exosomal 3'-5' exoribo 30.3 1E+02 0.0022 28.5 4.9 58 147-218 65-122 (230)
52 PF09378 HAS-barrel: HAS barre 29.5 47 0.001 24.8 2.3 27 129-160 22-48 (91)
53 PRK02749 photosystem I reactio 28.9 99 0.0022 23.5 3.9 34 130-168 3-38 (71)
54 KOG1445 Tumor-specific antigen 28.7 39 0.00085 36.0 2.3 78 182-264 331-411 (1012)
55 PF10008 DUF2251: Uncharacteri 27.7 37 0.0008 27.4 1.5 16 235-250 9-24 (97)
56 CHL00125 psaE photosystem I su 27.6 96 0.0021 23.2 3.5 34 130-168 2-37 (64)
57 COG0565 LasT rRNA methylase [T 26.8 1.5E+02 0.0032 27.7 5.5 59 17-86 178-236 (242)
58 PTZ00419 valyl-tRNA synthetase 26.7 1.7E+02 0.0037 32.2 6.8 73 9-86 922-994 (995)
59 KOG4327 mRNA splicing protein 26.3 66 0.0014 29.3 3.0 40 204-245 67-106 (218)
60 TIGR01069 mutS2 MutS2 family p 24.5 1.6E+02 0.0035 31.6 6.0 34 8-41 510-543 (771)
61 cd05790 S1_Rrp40 S1_Rrp40: Rrp 23.9 2.8E+02 0.006 21.6 5.8 53 148-214 7-59 (86)
62 PRK14475 F0F1 ATP synthase sub 23.1 3.9E+02 0.0085 22.7 7.2 32 9-40 44-75 (167)
63 PF02736 Myosin_N: Myosin N-te 22.8 1.6E+02 0.0035 19.6 3.8 22 147-170 10-31 (42)
64 PRK00409 recombination and DNA 22.5 1.9E+02 0.0041 31.1 6.1 49 128-195 635-683 (782)
65 cd06080 MUM1_like Mutated mela 21.9 1.5E+02 0.0032 22.9 3.8 36 130-170 1-36 (80)
66 PLN00045 photosystem I reactio 21.8 1.4E+02 0.003 24.1 3.7 39 125-168 35-76 (101)
67 COG1137 YhbG ABC-type (unclass 21.3 1.2E+02 0.0026 28.1 3.7 37 205-246 27-67 (243)
68 PRK06397 V-type ATP synthase s 20.8 3E+02 0.0066 22.5 5.5 46 16-72 24-70 (111)
69 PF00430 ATP-synt_B: ATP synth 20.8 4.1E+02 0.0089 20.9 6.5 33 9-41 33-65 (132)
70 PLN02381 valyl-tRNA synthetase 20.5 2.8E+02 0.006 31.1 7.0 74 9-87 990-1063(1066)
No 1
>KOG3038 consensus Histone acetyltransferase SAGA associated factor SGF29 [General function prediction only]
Probab=100.00 E-value=6.4e-50 Score=361.31 Aligned_cols=255 Identities=44% Similarity=0.657 Sum_probs=190.8
Q ss_pred HHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhcCCcccccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccC
Q 024272 9 ADILDKSRELDRLRKEQEDVLLEINKMHKKLHNTPEVIEKPGDNSLTKLKSLYIQAKELSENEVHVSNLLVGQLDALLPS 88 (270)
Q Consensus 9 ~~i~~~l~el~~lr~~~e~~l~~I~k~h~k~~~~~e~~~k~~~~~~~kL~~lY~~a~~~ae~E~~~~~~~~~~i~~l~~~ 88 (270)
.++++.-.|+++||..++.++..||++|.+.+..++..++...-....++.||.+++..++.+.++...++..+...++.
T Consensus 2 ~~~~~~~~e~~~~~~~~~~v~~~~~e~~~~~~~~~~~~~~~~~~s~~~~k~l~~~~~~~~~~~~~v~e~l~~~~~~~~~~ 81 (264)
T KOG3038|consen 2 VGILENTVELDRLREDQEEVIVKINEMQKKEQAIPEIVEKPGDISLNELKTLYEQVKNLSEEEVNVSEILITQLDLGRPE 81 (264)
T ss_pred cccchhhHHHHHHHHhhhhcchhhhHHHHHHhhcchhhhhhhHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHhcccC
Confidence 35778889999999999999999999999999877777777777778999999999999999999988888777766654
Q ss_pred Ccccchhhhhc--cCchhhhcccCCCCCCCCCccccccc---cccccCCCCeeEEeeccCCCCCCCEEEEEEEeEeCCCC
Q 024272 89 GAMGQQRRRIE--GGDQKRKRMKNDSDISRLSPSMRNQL---DTCASLKGEQVAARVTAENADKDEWFVVKVMHFDRETK 163 (270)
Q Consensus 89 ~~~~~~~r~~~--~~~~~rk~~r~~~~~s~l~~~~~~~~---~~~~~~~G~~VAa~v~~~~~~~~~WILa~Vv~~~~~~~ 163 (270)
++....+|+-. +..++.+.+...+.-++..+.+..+. ...++.+|++|||++++.+. +++||||+|++++++++
T Consensus 82 ~~~~~~~r~~~~el~k~~~~~lp~~~~~~~~~p~~~gaip~~~~~~~~~gd~VAa~v~~~~~-dg~WIlaeVv~~~~~~~ 160 (264)
T KOG3038|consen 82 GPTGQMRRGVLMELLKQKAMTLPLWIGKPGKPPPLCGAIPAQGDYVLLKGDEVAARVKAVSE-DGDWILAEVVKVSSETR 160 (264)
T ss_pred CccchhhhhhhhhHHhhhccccccccCCCCCCCcccccccccCCccccCCceeeeeeeeccC-CCCEEEEEEEEEecCCc
Confidence 44332222222 24455555543333333344444332 24788999999999987553 46799999999999875
Q ss_pred eEEEecCCCCC--CCCCcceeEEEeecCceeecCCCCCCCCCCCCCCCeEEEeCCCCCccccEEEecCCCCCCCCCeEEE
Q 024272 164 EFEVLDEEPGD--DEEGGVQRKYKLHMSFIIPFPKRNDSSIPEFPPGRHVLAVYPGTTALYKATVVSTPRKRKTDDYLLE 241 (270)
Q Consensus 164 rYeV~D~dp~d--d~e~~~~~~~~l~~~~IIPLP~~~~~~~~~f~kg~~VLAlYP~TT~FY~A~V~~~p~~~~~~~Y~L~ 241 (270)
|||+|+||+. |+.+.+++.|++++..++|+|. ..+.|++|+.|||+||+|||||+|+||++|++.. ++|.|+
T Consensus 161 -ye~ev~D~Epk~d~~g~r~~~yklp~~~~~p~p~----p~~~fpp~~~VLA~YP~TTcFY~aiVh~tp~d~s-~~y~vl 234 (264)
T KOG3038|consen 161 -YEFEVVDPEPKKDEVGNRGQLYKLPRWKLNPIPP----PTALFPPGTIVLAVYPGTTCFYKAIVHSTPRDGS-CDYYVL 234 (264)
T ss_pred -eEeEecCCCccccccccccceecccHhhcCCCCC----CccCCCCCCEEEEEcCCcceeeeeEeecCCCCCC-Ccceee
Confidence 7777665422 3333224455555555555553 3567999999999999999999999999997655 556655
Q ss_pred ecC-CCCCCCCCcccccCceEeeCCCCCCC
Q 024272 242 FDD-DEEDGALPQRTVPFHNVVPLPEGHRQ 270 (270)
Q Consensus 242 FeD-d~~~G~~P~~~Vp~ryVv~~p~~~~~ 270 (270)
|+| ++++|++|++.|++||||+||++|+|
T Consensus 235 ffD~~ee~g~~pp~~V~~ryVva~~e~~~~ 264 (264)
T KOG3038|consen 235 FFDDEEEDGVSPPTEVARRYVVAFPEGHKQ 264 (264)
T ss_pred eecCcccccCCCCceeeeEEEEecCcccCC
Confidence 555 57999999999999999999999986
No 2
>PF07039 DUF1325: SGF29 tudor-like domain; InterPro: IPR010750 SAGA-associated factor 29 is involved in transcriptional regulation, probably through association with histone acetyltransferase (HAT) complexes like the TFTC-HAT or STAGA complexes. It also may be involved in MYC-mediated oncogenic transformation. It is a component of the ATAC complex, which is a complex with histone acetyltransferase activity on histones H3 and H4 []. This entry represents a domain found in yeast and human SAGA-associated factor 29 proteins that is related to the tudor domain. ; PDB: 3MP6_A 3MP1_A 3MP8_A 3MET_B 3ME9_A 3MEU_B 3MEA_A 3MEV_B 3LX7_A 3MEW_A.
Probab=100.00 E-value=7.8e-46 Score=308.47 Aligned_cols=126 Identities=44% Similarity=0.858 Sum_probs=98.8
Q ss_pred CCCCeeEEeeccCCCCCCCEEEEEEEeEeCCCCeEEEecCCCCCCCCCcceeEEEeecCceeecCCC-CC--CCCCCCCC
Q 024272 131 LKGEQVAARVTAENADKDEWFVVKVMHFDRETKEFEVLDEEPGDDEEGGVQRKYKLHMSFIIPFPKR-ND--SSIPEFPP 207 (270)
Q Consensus 131 ~~G~~VAa~v~~~~~~~~~WILa~Vv~~~~~~~rYeV~D~dp~dd~e~~~~~~~~l~~~~IIPLP~~-~~--~~~~~f~k 207 (270)
++|++|||+++ ..+++++||||+|++|++++++|||+|+|+++ + +++|++++++|||||+. ++ ...++|++
T Consensus 1 q~G~~VAak~~-~~~~~~~WIla~Vv~~~~~~~rYeV~D~d~~~--~---~~~~~~~~~~iIPLP~~~~~~~~~~~~f~~ 74 (130)
T PF07039_consen 1 QPGDQVAAKVK-QGNEEEEWILAEVVKYNSDGNRYEVEDPDPEE--E---KKRYKLSRKQIIPLPKKAPPDTDPLAEFPK 74 (130)
T ss_dssp -TT-EEEEEEC-TTTTTCEEEEEEEEEEETTTTEEEEEETTTCT--T---TEEEEEEGGGEEEE-SB--TTT-GGGS--T
T ss_pred CCCCEEEEEcC-CCCCCCCEEEEEEEEEeCCCCEEEEecCCCCC--C---CceEEeCHHHEEECCCccCCCCCchhhCCC
Confidence 58999999998 33456899999999999999999999998743 3 46999999999999983 22 55678999
Q ss_pred CCeEEEeCCCCCccccEEEecCCCCCCCCCeEEEecCCC-CCCCCCcccccCceEeeCCC
Q 024272 208 GRHVLAVYPGTTALYKATVVSTPRKRKTDDYLLEFDDDE-EDGALPQRTVPFHNVVPLPE 266 (270)
Q Consensus 208 g~~VLAlYP~TT~FY~A~V~~~p~~~~~~~Y~L~FeDd~-~~G~~P~~~Vp~ryVv~~p~ 266 (270)
|++||||||+|||||+|+|+++|. +..+.|+|+||||+ ++|+ +.||+||||+||+
T Consensus 75 g~~VLAlYP~TT~FY~A~V~~~p~-~~~~~y~l~Fedd~~~~~~---~~V~~r~Vv~~p~ 130 (130)
T PF07039_consen 75 GTKVLALYPDTTCFYPATVVSPPK-KKSGEYKLKFEDDEDADGY---REVPQRYVVAFPQ 130 (130)
T ss_dssp T-EEEEE-TTSSEEEEEEEEEE-S-STTS-EEEEECTTTSTTSB---EEE-GGGEEE-H-
T ss_pred CCEEEEECCCCceEEEEEEEeCCC-CCCCcEEEEEeCCCCcCCc---EEEccceEEccCC
Confidence 999999999999999999999984 66789999999995 6677 8999999999985
No 3
>PF15057 DUF4537: Domain of unknown function (DUF4537)
Probab=98.03 E-value=0.00015 Score=60.11 Aligned_cols=112 Identities=21% Similarity=0.299 Sum_probs=85.3
Q ss_pred CCeeEEeeccCCCCCCCEEEEEEEeEeCCCCeEEEecCCCCCCCCCcceeEEEeecCceeecCCCCCCCCCCCCCCCeEE
Q 024272 133 GEQVAARVTAENADKDEWFVVKVMHFDRETKEFEVLDEEPGDDEEGGVQRKYKLHMSFIIPFPKRNDSSIPEFPPGRHVL 212 (270)
Q Consensus 133 G~~VAa~v~~~~~~~~~WILa~Vv~~~~~~~rYeV~D~dp~dd~e~~~~~~~~l~~~~IIPLP~~~~~~~~~f~kg~~VL 212 (270)
|+.|-|+-.. ++-|.++.|.+.- ..+.|.|++. + .....++.+.||++-.. -.+.++.|+.||
T Consensus 1 g~~VlAR~~~----DG~YY~GtV~~~~-~~~~~lV~f~----~-----~~~~~v~~~~iI~~~~~---~~~~L~~GD~VL 63 (124)
T PF15057_consen 1 GQKVLARREE----DGFYYPGTVKKCV-SSGQFLVEFD----D-----GDTQEVPISDIIALSDA---MRHSLQVGDKVL 63 (124)
T ss_pred CCeEEEeeCC----CCcEEeEEEEEcc-CCCEEEEEEC----C-----CCEEEeChHHeEEccCc---ccCcCCCCCEEE
Confidence 7788888764 5789999999986 5688999883 2 24678999999999742 256799999999
Q ss_pred EeCCC-CCccccEEEecCCCCC--CCCCeEEEecCCCCCCCCCcccccCceEeeCCCC
Q 024272 213 AVYPG-TTALYKATVVSTPRKR--KTDDYLLEFDDDEEDGALPQRTVPFHNVVPLPEG 267 (270)
Q Consensus 213 AlYP~-TT~FY~A~V~~~p~~~--~~~~Y~L~FeDd~~~G~~P~~~Vp~ryVv~~p~~ 267 (270)
|.+|. --+|+||+|.+.|..+ ....|.|+|-|... ..||..-|+.+|..
T Consensus 64 A~~~~~~~~Y~Pg~V~~~~~~~~~~~~~~~V~f~ng~~------~~vp~~~~~~I~~~ 115 (124)
T PF15057_consen 64 APWEPDDCRYGPGTVIAGPERRASEDKEYTVRFYNGKT------AKVPRGEVIWISPS 115 (124)
T ss_pred EecCcCCCEEeCEEEEECccccccCCceEEEEEECCCC------CccchhhEEECCHH
Confidence 99975 5669999999987433 24669999977531 25777777777653
No 4
>PF09465 LBR_tudor: Lamin-B receptor of TUDOR domain; InterPro: IPR019023 The Lamin-B receptor is a chromatin and lamin binding protein in the inner nuclear membrane. It is one of the integral inner nuclear envelope membrane proteins responsible for targeting nuclear membranes to chromatin, being a downstream effector of Ran, a small Ras-like nuclear GTPase which regulates NE assembly. Lamin-B receptor interacts with importin beta, a Ran-binding protein, thereby directly contributing to the fusion of membrane vesicles and the formation of the nuclear envelope []. ; PDB: 2L8D_A 2DIG_A.
Probab=97.89 E-value=1.5e-05 Score=57.50 Aligned_cols=40 Identities=30% Similarity=0.649 Sum_probs=31.1
Q ss_pred CCCCCCeEEEeCCCCCccccEEEecCCCCCCCCCeEEEecCC
Q 024272 204 EFPPGRHVLAVYPGTTALYKATVVSTPRKRKTDDYLLEFDDD 245 (270)
Q Consensus 204 ~f~kg~~VLAlYP~TT~FY~A~V~~~p~~~~~~~Y~L~FeDd 245 (270)
.|+.|..|++.||++.+||.|.|.+- +..++.|.|+|+|-
T Consensus 5 k~~~Ge~V~~rWP~s~lYYe~kV~~~--d~~~~~y~V~Y~DG 44 (55)
T PF09465_consen 5 KFAIGEVVMVRWPGSSLYYEGKVLSY--DSKSDRYTVLYEDG 44 (55)
T ss_dssp SS-SS-EEEEE-TTTS-EEEEEEEEE--ETTTTEEEEEETTS
T ss_pred cccCCCEEEEECCCCCcEEEEEEEEe--cccCceEEEEEcCC
Confidence 49999999999999999999999995 23457899999885
No 5
>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=96.96 E-value=0.0015 Score=45.81 Aligned_cols=54 Identities=28% Similarity=0.457 Sum_probs=40.7
Q ss_pred CCCCCCeEEEeCCCCCccccEEEecCCCCCCCCCeEEEecCCCCCCCCCcccccCceEeeCCC
Q 024272 204 EFPPGRHVLAVYPGTTALYKATVVSTPRKRKTDDYLLEFDDDEEDGALPQRTVPFHNVVPLPE 266 (270)
Q Consensus 204 ~f~kg~~VLAlYP~TT~FY~A~V~~~p~~~~~~~Y~L~FeDd~~~G~~P~~~Vp~ryVv~~p~ 266 (270)
.|..|+.|+|.| ....+|||+|...... +.|.|.|.|.... ..|+..-+-.+|.
T Consensus 2 ~~~~G~~~~a~~-~d~~wyra~I~~~~~~---~~~~V~f~D~G~~-----~~v~~~~l~~l~~ 55 (57)
T smart00333 2 TFKVGDKVAARW-EDGEWYRARIIKVDGE---QLYEVFFIDYGNE-----EVVPPSDLRPLPE 55 (57)
T ss_pred CCCCCCEEEEEe-CCCCEEEEEEEEECCC---CEEEEEEECCCcc-----EEEeHHHeecCCC
Confidence 578999999999 9999999999998632 6799999996321 2455555555544
No 6
>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=96.90 E-value=0.0016 Score=44.19 Aligned_cols=36 Identities=25% Similarity=0.281 Sum_probs=31.7
Q ss_pred CCeEEEeCCCCCccccEEEecCCCCCCCCCeEEEecCCC
Q 024272 208 GRHVLAVYPGTTALYKATVVSTPRKRKTDDYLLEFDDDE 246 (270)
Q Consensus 208 g~~VLAlYP~TT~FY~A~V~~~p~~~~~~~Y~L~FeDd~ 246 (270)
|+.|+|.|++...||||+|..... .+.|.|.|.|-.
T Consensus 1 G~~c~a~~~~d~~wyra~V~~~~~---~~~~~V~f~DyG 36 (48)
T cd04508 1 GDLCLAKYSDDGKWYRAKITSILS---DGKVEVFFVDYG 36 (48)
T ss_pred CCEEEEEECCCCeEEEEEEEEECC---CCcEEEEEEcCC
Confidence 789999999999999999999852 567999999853
No 7
>KOG3038 consensus Histone acetyltransferase SAGA associated factor SGF29 [General function prediction only]
Probab=96.36 E-value=0.0097 Score=55.18 Aligned_cols=190 Identities=16% Similarity=0.114 Sum_probs=110.7
Q ss_pred HHHHHHHHHhhhHHHHHHHHHHHHhhcCCcccccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCcccc
Q 024272 14 KSRELDRLRKEQEDVLLEINKMHKKLHNTPEVIEKPGDNSLTKLKSLYIQAKELSENEVHVSNLLVGQLDALLPSGAMGQ 93 (270)
Q Consensus 14 ~l~el~~lr~~~e~~l~~I~k~h~k~~~~~e~~~k~~~~~~~kL~~lY~~a~~~ae~E~~~~~~~~~~i~~l~~~~~~~~ 93 (270)
++..-.+++...|++...|.++|+.+++. + ++++.+...++ ++++|++.+......+..... ..
T Consensus 4 ~~~~~~e~~~~~~~~~~v~~~~~e~~~~~--~--~~~~~~~~~~~--------~s~~~~k~l~~~~~~~~~~~~----~v 67 (264)
T KOG3038|consen 4 ILENTVELDRLREDQEEVIVKINEMQKKE--Q--AIPEIVEKPGD--------ISLNELKTLYEQVKNLSEEEV----NV 67 (264)
T ss_pred cchhhHHHHHHHHhhhhcchhhhHHHHHH--h--hcchhhhhhhH--------HHHHHHHHHHHHHHhhhhhhH----HH
Confidence 45566788999999999999999888875 4 67777776666 667777776665444443221 11
Q ss_pred hhhhhc----c-CchhhhcccCCCCCCCCCccccccc----------cccccC--CCCeeEEeeccCCCCCCCEEEEEEE
Q 024272 94 QRRRIE----G-GDQKRKRMKNDSDISRLSPSMRNQL----------DTCASL--KGEQVAARVTAENADKDEWFVVKVM 156 (270)
Q Consensus 94 ~~r~~~----~-~~~~rk~~r~~~~~s~l~~~~~~~~----------~~~~~~--~G~~VAa~v~~~~~~~~~WILa~Vv 156 (270)
.++.+. + .+..++.|+++..|..+.++..++| ..+.+. .|+.++ ..++=+-|.|.
T Consensus 68 ~e~l~~~~~~~~~~~~~~~~~r~~~~el~k~~~~~lp~~~~~~~~~p~~~gaip~~~~~~~--------~~gd~VAa~v~ 139 (264)
T KOG3038|consen 68 SEILITQLDLGRPEGPTGQMRRGVLMELLKQKAMTLPLWIGKPGKPPPLCGAIPAQGDYVL--------LKGDEVAARVK 139 (264)
T ss_pred HHHHHHHHHhcccCCccchhhhhhhhhHHhhhccccccccCCCCCCCcccccccccCCccc--------cCCceeeeeee
Confidence 222222 2 3455567777777766555544321 112111 122221 23556788998
Q ss_pred eEeCCCCeEEEec-----------CCCCCCCCCcceeEEEeecCceeecCCCCCCCCCCCCCCCeEEEeCCCCCccccEE
Q 024272 157 HFDRETKEFEVLD-----------EEPGDDEEGGVQRKYKLHMSFIIPFPKRNDSSIPEFPPGRHVLAVYPGTTALYKAT 225 (270)
Q Consensus 157 ~~~~~~~rYeV~D-----------~dp~dd~e~~~~~~~~l~~~~IIPLP~~~~~~~~~f~kg~~VLAlYP~TT~FY~A~ 225 (270)
..+.+++ +-+.+ .+.- |+|+ ++....++++++|||.|.. --+++ =.++||-- +.
T Consensus 140 ~~~~dg~-WIlaeVv~~~~~~~ye~ev~-D~Ep--k~d~~g~r~~~yklp~~~~---~p~p~---p~~~fpp~-----~~ 204 (264)
T KOG3038|consen 140 AVSEDGD-WILAEVVKVSSETRYEFEVV-DPEP--KKDEVGNRGQLYKLPRWKL---NPIPP---PTALFPPG-----TI 204 (264)
T ss_pred eccCCCC-EEEEEEEEEecCCceEeEec-CCCc--cccccccccceecccHhhc---CCCCC---CccCCCCC-----CE
Confidence 8888776 44333 2333 3343 5688999999999998752 22333 24455542 34
Q ss_pred EecCCCCCCCCCeEEEec
Q 024272 226 VVSTPRKRKTDDYLLEFD 243 (270)
Q Consensus 226 V~~~p~~~~~~~Y~L~Fe 243 (270)
|.+.- ...+..|.-.--
T Consensus 205 VLA~Y-P~TTcFY~aiVh 221 (264)
T KOG3038|consen 205 VLAVY-PGTTCFYKAIVH 221 (264)
T ss_pred EEEEc-CCcceeeeeEee
Confidence 44543 233455655443
No 8
>smart00743 Agenet Tudor-like domain present in plant sequences. Domain in plant sequences with possible chromatin-associated functions.
Probab=96.09 E-value=0.033 Score=39.78 Aligned_cols=59 Identities=20% Similarity=0.226 Sum_probs=47.0
Q ss_pred ccCCCCeeEEeeccCCCCCCCEEEEEEEeEeCCCCeEEEecCCCCCCCCCcceeEEEeecCceeecCCCC
Q 024272 129 ASLKGEQVAARVTAENADKDEWFVVKVMHFDRETKEFEVLDEEPGDDEEGGVQRKYKLHMSFIIPFPKRN 198 (270)
Q Consensus 129 ~~~~G~~VAa~v~~~~~~~~~WILa~Vv~~~~~~~rYeV~D~dp~dd~e~~~~~~~~l~~~~IIPLP~~~ 198 (270)
.+++|+.|.|+-+. ++.|.-|+|+++.+ +++|.|.=.+ +++ ...-+++.++|-|+|.|.
T Consensus 2 ~~~~G~~Ve~~~~~----~~~W~~a~V~~~~~-~~~~~V~~~~---~~~---~~~e~v~~~~LRp~~~w~ 60 (61)
T smart00743 2 DFKKGDRVEVFSKE----EDSWWEAVVTKVLG-DGKYLVRYLT---ESE---PLKETVDWSDLRPHPPWV 60 (61)
T ss_pred CcCCCCEEEEEECC----CCEEEEEEEEEECC-CCEEEEEECC---CCc---ccEEEEeHHHcccCCCCC
Confidence 36899999999863 57999999999987 5789998874 112 246788899999999764
No 9
>smart00743 Agenet Tudor-like domain present in plant sequences. Domain in plant sequences with possible chromatin-associated functions.
Probab=95.69 E-value=0.025 Score=40.44 Aligned_cols=38 Identities=18% Similarity=0.324 Sum_probs=34.0
Q ss_pred CCCCCCeEEEeCCCCCccccEEEecCCCCCCCCCeEEEecC
Q 024272 204 EFPPGRHVLAVYPGTTALYKATVVSTPRKRKTDDYLLEFDD 244 (270)
Q Consensus 204 ~f~kg~~VLAlYP~TT~FY~A~V~~~p~~~~~~~Y~L~FeD 244 (270)
.|.+|+.|-|+|++--|+|+|+|..... .+.|.|.|.+
T Consensus 2 ~~~~G~~Ve~~~~~~~~W~~a~V~~~~~---~~~~~V~~~~ 39 (61)
T smart00743 2 DFKKGDRVEVFSKEEDSWWEAVVTKVLG---DGKYLVRYLT 39 (61)
T ss_pred CcCCCCEEEEEECCCCEEEEEEEEEECC---CCEEEEEECC
Confidence 5899999999999999999999999853 4569999988
No 10
>PF15057 DUF4537: Domain of unknown function (DUF4537)
Probab=95.28 E-value=0.034 Score=46.12 Aligned_cols=50 Identities=30% Similarity=0.567 Sum_probs=38.6
Q ss_pred CCeEEEeCCCCCccccEEEecCCCCCCCCCeEEEecCCCCCCCCCcccccCceEeeCCC
Q 024272 208 GRHVLAVYPGTTALYKATVVSTPRKRKTDDYLLEFDDDEEDGALPQRTVPFHNVVPLPE 266 (270)
Q Consensus 208 g~~VLAlYP~TT~FY~A~V~~~p~~~~~~~Y~L~FeDd~~~G~~P~~~Vp~ryVv~~p~ 266 (270)
|+.|||..+..=-||+|+|.+.+ ..+.|.|.|++.+ ...|+..+++++-.
T Consensus 1 g~~VlAR~~~DG~YY~GtV~~~~---~~~~~lV~f~~~~------~~~v~~~~iI~~~~ 50 (124)
T PF15057_consen 1 GQKVLARREEDGFYYPGTVKKCV---SSGQFLVEFDDGD------TQEVPISDIIALSD 50 (124)
T ss_pred CCeEEEeeCCCCcEEeEEEEEcc---CCCEEEEEECCCC------EEEeChHHeEEccC
Confidence 78999999999999999999997 3577999994432 13566666666543
No 11
>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=94.08 E-value=0.041 Score=39.16 Aligned_cols=40 Identities=23% Similarity=0.453 Sum_probs=31.7
Q ss_pred CCCCCeEEEeCCCCCccccEEEecCCCCCCCCCeEEEecCC
Q 024272 205 FPPGRHVLAVYPGTTALYKATVVSTPRKRKTDDYLLEFDDD 245 (270)
Q Consensus 205 f~kg~~VLAlYP~TT~FY~A~V~~~p~~~~~~~Y~L~FeDd 245 (270)
|..|+.|++.+ ....+|+|+|...-.......|-|.|.|-
T Consensus 1 ~~vG~~v~~~~-~~~~~y~A~I~~~r~~~~~~~YyVHY~g~ 40 (55)
T PF11717_consen 1 FEVGEKVLCKY-KDGQWYEAKILDIREKNGEPEYYVHYQGW 40 (55)
T ss_dssp --TTEEEEEEE-TTTEEEEEEEEEEEECTTCEEEEEEETTS
T ss_pred CCcCCEEEEEE-CCCcEEEEEEEEEEecCCCEEEEEEcCCC
Confidence 57899999999 99999999999985333345699999874
No 12
>PF05641 Agenet: Agenet domain; InterPro: IPR008395 This domain is related to the TUDOR domain IPR008191 from INTERPRO []. The function of the agenet domain is unknown. This signature matches one of the two Agenet domains in the FMR proteins [].; GO: 0003723 RNA binding; PDB: 2BKD_N 3O8V_A 3KUF_A 3H8Z_A.
Probab=93.81 E-value=0.4 Score=35.36 Aligned_cols=66 Identities=18% Similarity=0.287 Sum_probs=34.5
Q ss_pred cCCCCeeEEeeccCCCCCCCEEEEEEEeEeCCCCeEEEecCCCCCCCCCcceeEEEeecCceeecCCC
Q 024272 130 SLKGEQVAARVTAENADKDEWFVVKVMHFDRETKEFEVLDEEPGDDEEGGVQRKYKLHMSFIIPFPKR 197 (270)
Q Consensus 130 ~~~G~~VAa~v~~~~~~~~~WILa~Vv~~~~~~~rYeV~D~dp~dd~e~~~~~~~~l~~~~IIPLP~~ 197 (270)
+++|+.|-++...++ -.+.|.-|+|++..++. +|-|+=-+-.+++..+..-.=.++.++|-|.|..
T Consensus 1 F~~G~~VEV~s~e~g-~~gaWf~a~V~~~~~~~-~~~V~Y~~~~~~~~~~~~l~e~V~~~~iRP~pP~ 66 (68)
T PF05641_consen 1 FKKGDEVEVSSDEDG-FRGAWFPATVLKENGDD-KYLVEYDDLPDEDGESPPLKEWVDARRIRPCPPP 66 (68)
T ss_dssp --TT-EEEEEE-SBT-T--EEEEEEEEEEETT--EEEEEETT-SS--------EEEEEGGGEEE----
T ss_pred CCCCCEEEEEEcCCC-CCcEEEEEEEEEeCCCc-EEEEEECCcccccccccccEEEechheEECcCcC
Confidence 468999999876433 36899999999998763 6666532211121111013568889999999964
No 13
>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=93.68 E-value=0.076 Score=49.40 Aligned_cols=40 Identities=23% Similarity=0.380 Sum_probs=30.8
Q ss_pred CCCCCCeEEEeCCCCCccccEEEecCCCCCCCCCeEEEecCC
Q 024272 204 EFPPGRHVLAVYPGTTALYKATVVSTPRKRKTDDYLLEFDDD 245 (270)
Q Consensus 204 ~f~kg~~VLAlYP~TT~FY~A~V~~~p~~~~~~~Y~L~FeDd 245 (270)
.+.+|+.++|+|=+..+||+|+|.+-- ...+.|.|.|.+-
T Consensus 68 ~WkvGd~C~A~~s~Dg~~Y~A~I~~i~--~~~~~~~V~f~gY 107 (264)
T PF06003_consen 68 KWKVGDKCMAVYSEDGQYYPATIESID--EEDGTCVVVFTGY 107 (264)
T ss_dssp ---TT-EEEEE-TTTSSEEEEEEEEEE--TTTTEEEEEETTT
T ss_pred CCCCCCEEEEEECCCCCEEEEEEEEEc--CCCCEEEEEEccc
Confidence 599999999999999999999999973 3456899999885
No 14
>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=92.11 E-value=0.75 Score=31.88 Aligned_cols=54 Identities=26% Similarity=0.433 Sum_probs=43.0
Q ss_pred ccCCCCeeEEeeccCCCCCCCEEEEEEEeEeCCCCeEEEecCCCCCCCCCcceeEEEeecCceeecCC
Q 024272 129 ASLKGEQVAARVTAENADKDEWFVVKVMHFDRETKEFEVLDEEPGDDEEGGVQRKYKLHMSFIIPFPK 196 (270)
Q Consensus 129 ~~~~G~~VAa~v~~~~~~~~~WILa~Vv~~~~~~~rYeV~D~dp~dd~e~~~~~~~~l~~~~IIPLP~ 196 (270)
.+++|+.|+|+- . ++.|--|+|++++++ +.|.|.=+|- ++ .-.++...|-+||.
T Consensus 2 ~~~~G~~~~a~~-~----d~~wyra~I~~~~~~-~~~~V~f~D~---G~-----~~~v~~~~l~~l~~ 55 (57)
T smart00333 2 TFKVGDKVAARW-E----DGEWYRARIIKVDGE-QLYEVFFIDY---GN-----EEVVPPSDLRPLPE 55 (57)
T ss_pred CCCCCCEEEEEe-C----CCCEEEEEEEEECCC-CEEEEEEECC---Cc-----cEEEeHHHeecCCC
Confidence 367899999997 3 579999999999876 7899987642 22 34788999999985
No 15
>PF09038 53-BP1_Tudor: Tumour suppressor p53-binding protein-1 Tudor; InterPro: IPR015125 This domain consist of ten beta-strands and a carboxy-terminal alpha-helix. The amino-terminal five beta-strands and the C-terminal five beta-strands adopt folds that are identical to each other. The domain is essential for the recruitment of proteins to double stranded breaks in DNA, which is mediated by interaction with methylated Lys 79 of histone H3 []. ; PDB: 3LGL_A 1XNI_B 3LGF_A 2G3R_A 2IG0_A 3LH0_A 1SSF_A.
Probab=91.42 E-value=0.26 Score=41.19 Aligned_cols=37 Identities=24% Similarity=0.389 Sum_probs=29.0
Q ss_pred CCCeEEEeCCCCCccccEEEecCCCCCCCCCeEEEecCCC
Q 024272 207 PGRHVLAVYPGTTALYKATVVSTPRKRKTDDYLLEFDDDE 246 (270)
Q Consensus 207 kg~~VLAlYP~TT~FY~A~V~~~p~~~~~~~Y~L~FeDd~ 246 (270)
.|-+|+|.|-+---||+++|...- ....|.|.|||-.
T Consensus 5 iG~rV~AkWS~n~yyY~G~I~~~~---~~~kykv~FdDG~ 41 (122)
T PF09038_consen 5 IGLRVFAKWSDNGYYYPGKITSDK---GKNKYKVLFDDGY 41 (122)
T ss_dssp TT-EEEEESSTTSEEEEEEEEEEE---TTTEEEEEETTS-
T ss_pred cccEEEEEEccCCcccCceEeecC---CCCeEEEEecCCc
Confidence 588999999977778999999852 3466999999854
No 16
>PF09267 Dict-STAT-coil: Dictyostelium STAT, coiled coil; InterPro: IPR015347 The STAT protein (Signal Transducers and Activators of Transcription) family contains transcription factors that are specifically activated to regulate gene transcription when cells encounter cytokines and growth factors, hence they act as signal transducers in the cytoplasm and transcription activators in the nucleus []. Binding of these factors to cell-surface receptors leads to receptor autophosphorylation at a tyrosine, the phosphotyrosine being recognised by the STAT SH2 domain, which mediates the recruitment of STAT proteins from the cytosol and their association with the activated receptor. The STAT proteins are then activated by phosphorylation via members of the JAK family of protein kinases, causing them to dimerise and translocated to the nucleus, where they bind to specific promoter sequences in target genes. In mammals, STATs comprise a family of seven structurally and functionally related proteins: Stat1, Stat2, Stat3, Stat4, Stat5a and Stat5b, Stat6. STAT proteins play a critical role in regulating innate and acquired host immune responses. Dysregulation of at least two STAT signalling cascades (i.e. Stat3 and Stat5) is associated with cellular transformation. Signalling through the JAK/STAT pathway is initiated when a cytokine binds to its corresponding receptor. This leads to conformational changes in the cytoplasmic portion of the receptor, initiating activation of receptor associated members of the JAK family of kinases. The JAKs, in turn, mediate phosphorylation at the specific receptor tyrosine residues, which then serve as docking sites for STATs and other signalling molecules. Once recruited to the receptor, STATs also become phosphorylated by JAKs, on a single tyrosine residue. Activated STATs dissociate from the receptor, dimerise, translocate to the nucleus and bind to members of the GAS (gamma activated site) family of enhancers. The seven STAT proteins identified in mammals range in size from 750 and 850 amino acids. The chromosomal distribution of these STATs, as well as the identification of STATs in more primitive eukaryotes, suggest that this family arose from a single primordial gene. STATs share structurally and functionally conserved domains including: an N-terminal domain that strengthens interactions between STAT dimers on adjacent DNA-binding sites; a coiled-coil STAT domain that is implicated in protein-protein interactions; a DNA-binding domain with an immunoglobulin-like fold similar to p53 tumour suppressor protein; an EF-hand-like linker domain connecting the DNA-binding and SH2 domains; an SH2 domain (IPR000980 from INTERPRO) that acts as a phosphorylation-dependent switch to control receptor recognition and DNA-binding; and a C-terminal transactivation domain []. The crystal structure of the N terminus of Stat4 reveals a dimer. The interface of this dimer is formed by a ring-shaped element consisting of five short helices. Several studies suggest that this N-terminal dimerisation promotes cooperativity of binding to tandem GAS elements and with the transcriptional coactivator CBP/p300. This entry represents a domain found in Dictyostelium STAT proteins. This domain adopts a structure consisting of four long alpha-helices, folded into a coiled coil. It is responsible for nuclear export of the protein []. ; PDB: 1UUR_A 1UUS_A.
Probab=86.57 E-value=7.7 Score=32.06 Aligned_cols=66 Identities=23% Similarity=0.316 Sum_probs=53.7
Q ss_pred HHHHHHHHHHhhhHHHHHHHHHHHHhhcCC-cccccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHH
Q 024272 13 DKSRELDRLRKEQEDVLLEINKMHKKLHNT-PEVIEKPGDNSLTKLKSLYIQAKELSENEVHVSNLL 78 (270)
Q Consensus 13 ~~l~el~~lr~~~e~~l~~I~k~h~k~~~~-~e~~~k~~~~~~~kL~~lY~~a~~~ae~E~~~~~~~ 78 (270)
..|-||+.|-.+++..|.++--..+.+... |...+.-+.....-|.+.|++-+...+.|.+.|+.+
T Consensus 2 ~ilnei~~L~~~Q~~~l~kM~~~Q~q~L~~~~~~l~~n~~~~~~~Lq~~q~tLkkqid~E~~aL~~l 68 (114)
T PF09267_consen 2 PILNEIHKLHSEQEETLEKMIHAQKQFLNRKPQPLNNNNIETLQELQQEQTTLKKQIDEEMSALNQL 68 (114)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHTS-SS-SCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 578999999999999999997777776442 233455667888899999999999999999998876
No 17
>PF11302 DUF3104: Protein of unknown function (DUF3104); InterPro: IPR021453 This family of proteins with unknown function appears to be restricted to Cyanobacteria.
Probab=86.09 E-value=2.6 Score=32.47 Aligned_cols=45 Identities=20% Similarity=0.415 Sum_probs=34.3
Q ss_pred ccccCCCCeeEEeeccC--CCCCCCEEEEEEEeEeCC------CCeEEEecCC
Q 024272 127 TCASLKGEQVAARVTAE--NADKDEWFVVKVMHFDRE------TKEFEVLDEE 171 (270)
Q Consensus 127 ~~~~~~G~~VAa~v~~~--~~~~~~WILa~Vv~~~~~------~~rYeV~D~d 171 (270)
...+++||.|..+-... ...+++|-++.|+.+.+. ..-|.|-|+|
T Consensus 3 FL~Vk~Gd~ViV~~~~~~~~~~~~dWWmg~Vi~~~ggaR~P~~~tlFQVadVD 55 (75)
T PF11302_consen 3 FLSVKPGDTVIVQDEQEVGQKQDKDWWMGQVIHCEGGARDPKVPTLFQVADVD 55 (75)
T ss_pred ccccCCCCEEEEecCccccccCCCCcEEEEEEEEeccccCCCCCceEEEEEcc
Confidence 45689999999987652 234579999999998753 2349999995
No 18
>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=85.28 E-value=1.8 Score=33.02 Aligned_cols=42 Identities=33% Similarity=0.487 Sum_probs=33.1
Q ss_pred CCCCCeEEEeCCCCCccccEEEecCCCC-------CCCCCeEEEecCCCC
Q 024272 205 FPPGRHVLAVYPGTTALYKATVVSTPRK-------RKTDDYLLEFDDDEE 247 (270)
Q Consensus 205 f~kg~~VLAlYP~TT~FY~A~V~~~p~~-------~~~~~Y~L~FeDd~~ 247 (270)
|+.|+.|+|-+.+ -.++||.|+.+... ...+.|.|.|=|+.+
T Consensus 1 f~~GdlVwaK~~g-~pwWPa~V~~~~~~~~~~~~~~~~~~~~V~Ffg~~~ 49 (87)
T cd05162 1 FRPGDLVWAKMKG-YPWWPALVVDPPKDSKKAKKKAKEGKVLVLFFGDKT 49 (87)
T ss_pred CCCCCEEEEeCCC-CCCCCEEEccccccchhhhccCCCCEEEEEEeCCCc
Confidence 7899999999974 47999999998742 224679999977643
No 19
>PF09465 LBR_tudor: Lamin-B receptor of TUDOR domain; InterPro: IPR019023 The Lamin-B receptor is a chromatin and lamin binding protein in the inner nuclear membrane. It is one of the integral inner nuclear envelope membrane proteins responsible for targeting nuclear membranes to chromatin, being a downstream effector of Ran, a small Ras-like nuclear GTPase which regulates NE assembly. Lamin-B receptor interacts with importin beta, a Ran-binding protein, thereby directly contributing to the fusion of membrane vesicles and the formation of the nuclear envelope []. ; PDB: 2L8D_A 2DIG_A.
Probab=83.91 E-value=4.6 Score=29.38 Aligned_cols=39 Identities=26% Similarity=0.368 Sum_probs=30.1
Q ss_pred cccCCCCeeEEeeccCCCCCCCEEEEEEEeEeCCCCeEEEecC
Q 024272 128 CASLKGEQVAARVTAENADKDEWFVVKVMHFDRETKEFEVLDE 170 (270)
Q Consensus 128 ~~~~~G~~VAa~v~~~~~~~~~WILa~Vv~~~~~~~rYeV~D~ 170 (270)
.....|+.|-++=+. +..|.=|+|++||..+++|.|+=.
T Consensus 4 ~k~~~Ge~V~~rWP~----s~lYYe~kV~~~d~~~~~y~V~Y~ 42 (55)
T PF09465_consen 4 RKFAIGEVVMVRWPG----SSLYYEGKVLSYDSKSDRYTVLYE 42 (55)
T ss_dssp SSS-SS-EEEEE-TT----TS-EEEEEEEEEETTTTEEEEEET
T ss_pred ccccCCCEEEEECCC----CCcEEEEEEEEecccCceEEEEEc
Confidence 346789999998874 578999999999999999999865
No 20
>PF08605 Rad9_Rad53_bind: Fungal Rad9-like Rad53-binding; InterPro: IPR013914 In Saccharomyces cerevisiae (Baker s yeast), the Rad9 is a key adaptor protein in DNA damage checkpoint pathways. DNA damage induces Rad9 phosphorylation, and Rad53 specifically associates with this region of Rad9, when phosphorylated, via the Rad53 IPR000253 from INTERPRO domain []. There is no clear higher eukaryotic ortholog to Rad9.
Probab=83.79 E-value=1.2 Score=37.50 Aligned_cols=33 Identities=33% Similarity=0.454 Sum_probs=24.8
Q ss_pred eEEEeCCCCCccccEEEecCCCCCCCCCeEEEecCCC
Q 024272 210 HVLAVYPGTTALYKATVVSTPRKRKTDDYLLEFDDDE 246 (270)
Q Consensus 210 ~VLAlYP~TT~FY~A~V~~~p~~~~~~~Y~L~FeDd~ 246 (270)
-|-|.| ...||||++.+.- .....|.|+|||..
T Consensus 15 avW~~~--~~~yYPa~~~~~~--~~~~~~~V~Fedg~ 47 (131)
T PF08605_consen 15 AVWAGY--NLKYYPATCVGSG--VDRDRSLVRFEDGT 47 (131)
T ss_pred ceeecC--CCeEeeEEEEeec--CCCCeEEEEEecCc
Confidence 345555 8899999999983 33445999999974
No 21
>smart00293 PWWP domain with conserved PWWP motif. conservation of Pro-Trp-Trp-Pro residues
Probab=79.08 E-value=4.2 Score=29.40 Aligned_cols=45 Identities=31% Similarity=0.377 Sum_probs=33.9
Q ss_pred CCCCCeEEEeCCCCCccccEEEecCCCC--------CCCCCeEEEecCCCCCCC
Q 024272 205 FPPGRHVLAVYPGTTALYKATVVSTPRK--------RKTDDYLLEFDDDEEDGA 250 (270)
Q Consensus 205 f~kg~~VLAlYP~TT~FY~A~V~~~p~~--------~~~~~Y~L~FeDd~~~G~ 250 (270)
|+.|+.|+|-..+ -.+.+|.|+..+.. +....|.|.|=|+.+.+.
T Consensus 1 f~~GdlVwaK~~G-~p~WPa~V~~~~~~~~~~~~~~~~~~~~~V~Ffg~~~~aw 53 (63)
T smart00293 1 FKPGDLVWAKMKG-FPWWPALVVSPKETPDNIRKRKRFENLYPVLFFGDKDTAW 53 (63)
T ss_pred CCCCCEEEEECCC-CCCCCeEEcCcccCChhHhhccCCCCEEEEEEeCCCCEEE
Confidence 7899999999874 45999999998631 224679999988754443
No 22
>PF05641 Agenet: Agenet domain; InterPro: IPR008395 This domain is related to the TUDOR domain IPR008191 from INTERPRO []. The function of the agenet domain is unknown. This signature matches one of the two Agenet domains in the FMR proteins [].; GO: 0003723 RNA binding; PDB: 2BKD_N 3O8V_A 3KUF_A 3H8Z_A.
Probab=78.03 E-value=2.7 Score=30.88 Aligned_cols=59 Identities=34% Similarity=0.523 Sum_probs=31.5
Q ss_pred CCCCCeEEEeCCC---CCccccEEEecCCCCCCCCCeEEEecCC-CCCCCCC--cccccCceEeeCCC
Q 024272 205 FPPGRHVLAVYPG---TTALYKATVVSTPRKRKTDDYLLEFDDD-EEDGALP--QRTVPFHNVVPLPE 266 (270)
Q Consensus 205 f~kg~~VLAlYP~---TT~FY~A~V~~~p~~~~~~~Y~L~FeDd-~~~G~~P--~~~Vp~ryVv~~p~ 266 (270)
|.+|+.|=-+-=+ ..|.|+|+|.....+ +.|.|+|+|= .++|..+ .-.|+.+.+=++|.
T Consensus 1 F~~G~~VEV~s~e~g~~gaWf~a~V~~~~~~---~~~~V~Y~~~~~~~~~~~~l~e~V~~~~iRP~pP 65 (68)
T PF05641_consen 1 FKKGDEVEVSSDEDGFRGAWFPATVLKENGD---DKYLVEYDDLPDEDGESPPLKEWVDARRIRPCPP 65 (68)
T ss_dssp --TT-EEEEEE-SBTT--EEEEEEEEEEETT----EEEEEETT-SS--------EEEEEGGGEEE---
T ss_pred CCCCCEEEEEEcCCCCCcEEEEEEEEEeCCC---cEEEEEECCcccccccccccEEEechheEECcCc
Confidence 5677776555433 789999999999732 2799999885 4555543 34677777766664
No 23
>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=76.24 E-value=8.5 Score=25.54 Aligned_cols=34 Identities=18% Similarity=0.381 Sum_probs=28.3
Q ss_pred CCeeEEeeccCCCCCCCEEEEEEEeEeCCCCeEEEecCC
Q 024272 133 GEQVAARVTAENADKDEWFVVKVMHFDRETKEFEVLDEE 171 (270)
Q Consensus 133 G~~VAa~v~~~~~~~~~WILa~Vv~~~~~~~rYeV~D~d 171 (270)
|+.|+|+... ++.|-=|+|+++.+ ++.|.|.=+|
T Consensus 1 G~~c~a~~~~----d~~wyra~V~~~~~-~~~~~V~f~D 34 (48)
T cd04508 1 GDLCLAKYSD----DGKWYRAKITSILS-DGKVEVFFVD 34 (48)
T ss_pred CCEEEEEECC----CCeEEEEEEEEECC-CCcEEEEEEc
Confidence 7889998863 58999999999986 6789998774
No 24
>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=75.83 E-value=1.8 Score=32.37 Aligned_cols=42 Identities=33% Similarity=0.495 Sum_probs=32.2
Q ss_pred CCCCCeEEEeCCCCCccccEEEecCCC----CCCCCCeEEEecCCCC
Q 024272 205 FPPGRHVLAVYPGTTALYKATVVSTPR----KRKTDDYLLEFDDDEE 247 (270)
Q Consensus 205 f~kg~~VLAlYP~TT~FY~A~V~~~p~----~~~~~~Y~L~FeDd~~ 247 (270)
|.+|+.|.|-..+ -.+.||.|+.++. ....+.|.|.|=|+.+
T Consensus 1 f~~GdlVWaK~~g-~pwWPa~V~~~~~~~~~~~~~~~~~V~Ffg~~~ 46 (86)
T PF00855_consen 1 FRPGDLVWAKLKG-YPWWPARVCDPDEKSKKKRKDGHVLVRFFGDND 46 (86)
T ss_dssp -STTEEEEEEETT-SEEEEEEEEECCHCTSCSSSSTEEEEEETTTTE
T ss_pred CCCCCEEEEEeCC-CCCCceEEeecccccccCCCCCEEEEEecCCCC
Confidence 7899999999954 4699999999862 1235779999987753
No 25
>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=75.73 E-value=5.6 Score=30.67 Aligned_cols=57 Identities=19% Similarity=0.212 Sum_probs=40.6
Q ss_pred CCCCCCeEEEeCCCCCccccEEEecCCCC-CCCCCeEEEecCCCCCCCCCcccccCceEeeCCC
Q 024272 204 EFPPGRHVLAVYPGTTALYKATVVSTPRK-RKTDDYLLEFDDDEEDGALPQRTVPFHNVVPLPE 266 (270)
Q Consensus 204 ~f~kg~~VLAlYP~TT~FY~A~V~~~p~~-~~~~~Y~L~FeDd~~~G~~P~~~Vp~ryVv~~p~ 266 (270)
.|.+|+.|+|-. .--.+.||.|+..+.. .....|.|.|=|+.+-+. |+..-+.++-+
T Consensus 2 ~f~~GdlVwaK~-kGyp~WPa~I~~~~~~~~~~~~~~V~FfGt~~~a~-----v~~~~l~pf~~ 59 (83)
T cd05834 2 QFKAGDLVFAKV-KGYPAWPARVDEPEDWKPPGKKYPVYFFGTHETAF-----LKPEDLFPYTE 59 (83)
T ss_pred CCCCCCEEEEec-CCCCCCCEEEecccccCCCCCEEEEEEeCCCCEeE-----ECHHHceeccc
Confidence 589999999998 4566889999999732 224679999988755444 45554444443
No 26
>PF00567 TUDOR: Tudor domain; InterPro: IPR008191 There are multiple copies of this domain in the Drosophila melanogaster tudor protein and it has been identified in several RNA-binding proteins []. Although the function of this domain is unknown, in Drosophila melanogaster the tudor protein is required during oogenesis for the formation of primordial germ cells and for normal abdominal segmentation [].; PDB: 3NTI_A 3NTK_B 3NTH_A 2DIQ_A 3FDR_A 3PNW_O 3S6W_A 3PMT_A 2WAC_A 2O4X_A ....
Probab=75.24 E-value=3 Score=31.91 Aligned_cols=42 Identities=24% Similarity=0.334 Sum_probs=31.9
Q ss_pred CCCCCCCCeEEEeCCCCCccccEEEecCCCCCCCCCeEEEecCCC
Q 024272 202 IPEFPPGRHVLAVYPGTTALYKATVVSTPRKRKTDDYLLEFDDDE 246 (270)
Q Consensus 202 ~~~f~kg~~VLAlYP~TT~FY~A~V~~~p~~~~~~~Y~L~FeDd~ 246 (270)
.+....|..++++++.-.+||||.|... ...+.|.|.|=|..
T Consensus 49 ~~~~~~~~~~~~~~~~~~~w~Ra~I~~~---~~~~~~~V~~iD~G 90 (121)
T PF00567_consen 49 SPESNPGEGCLCVVSEDGRWYRAVITVD---IDENQYKVFLIDYG 90 (121)
T ss_dssp CST--TTEEEEEEETTTSEEEEEEEEEE---ECTTEEEEEETTTT
T ss_pred ccccccCCEEEEEEecCCceeeEEEEEe---cccceeEEEEEecC
Confidence 3457899999999999999999999222 23467999998874
No 27
>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=67.31 E-value=8.5 Score=29.82 Aligned_cols=43 Identities=19% Similarity=0.274 Sum_probs=33.3
Q ss_pred CCCCCeEEEeCCCCCccccEEEecCCCC-----CCCCCeEEEecCCCCC
Q 024272 205 FPPGRHVLAVYPGTTALYKATVVSTPRK-----RKTDDYLLEFDDDEED 248 (270)
Q Consensus 205 f~kg~~VLAlYP~TT~FY~A~V~~~p~~-----~~~~~Y~L~FeDd~~~ 248 (270)
|..|+.|.|-.. --.+.||.|+.++.. ...+.|.|.|-++.+-
T Consensus 1 f~~GDlVwaK~~-g~P~WPa~V~~~~~~~~~~~~~~~~~~V~FFG~~~~ 48 (86)
T cd05836 1 LKLGDLVWAKMK-GFPPWPGRIVKPPKDLKKPRGKAKCFFVFFFGSENH 48 (86)
T ss_pred CCCCCEEEEeCC-CCCCCCEEEechhhhcccccCCCCeEEEEEeCCCCE
Confidence 789999999987 577889999987632 1236799999888543
No 28
>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=63.73 E-value=18 Score=29.15 Aligned_cols=57 Identities=26% Similarity=0.406 Sum_probs=40.0
Q ss_pred CCCCCCeEEEeCCCCCccccEEEecCCC----------CCCCCCeEEEecCCC-CCCCCCcccccCceEeeCCC
Q 024272 204 EFPPGRHVLAVYPGTTALYKATVVSTPR----------KRKTDDYLLEFDDDE-EDGALPQRTVPFHNVVPLPE 266 (270)
Q Consensus 204 ~f~kg~~VLAlYP~TT~FY~A~V~~~p~----------~~~~~~Y~L~FeDd~-~~G~~P~~~Vp~ryVv~~p~ 266 (270)
.|..|+.|.|-..+ -.++||.|+..|. .+....|.|.|=|+. +-+ .|+..-++++-+
T Consensus 2 ~~~~GdlVWaK~~g-~PwWPa~V~~~~~~~~~~~~~~~~~~~~~~~V~FFG~~~~~a-----Wv~~~~l~pf~~ 69 (110)
T cd05837 2 KYQVGDLVWAKVSG-YPWWPCMVCSDPLLGTYTKTKRNKRKPRQYHVQFFGDNPERA-----WISEKSLKPFKG 69 (110)
T ss_pred CCCCCCEEEEeCCC-CCCCCEEEecccccchhhhhhhccCCCCeEEEEEcCCCCCEE-----EecHHHccccCC
Confidence 68999999999996 6999999997552 122467999997763 322 355555555543
No 29
>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=60.03 E-value=16 Score=28.80 Aligned_cols=43 Identities=30% Similarity=0.431 Sum_probs=32.1
Q ss_pred CCCCCeEEEeCCCCCccccEEEecCC----------CCCCCCCeEEEecCCCCC
Q 024272 205 FPPGRHVLAVYPGTTALYKATVVSTP----------RKRKTDDYLLEFDDDEED 248 (270)
Q Consensus 205 f~kg~~VLAlYP~TT~FY~A~V~~~p----------~~~~~~~Y~L~FeDd~~~ 248 (270)
|..|+.|+|--. .--..||.|+.+. .++..+.|.|.|=++.+-
T Consensus 1 f~~GDlVwaK~~-GyPwWPA~V~~~~~~p~~~l~~~~~~~~~~~~V~FFg~~~~ 53 (93)
T cd05840 1 FQPGDRVLAKVK-GFPAWPAIVVPEEMLPDSVLKGKKKKNKRTYPVMFFPDGDY 53 (93)
T ss_pred CCCCCEEEEeCC-CCCCCCEEECChHHCCHHHHhcccCCCCCeEEEEEeCCCcE
Confidence 788999999887 5668999998742 123457799999776543
No 30
>PF07039 DUF1325: SGF29 tudor-like domain; InterPro: IPR010750 SAGA-associated factor 29 is involved in transcriptional regulation, probably through association with histone acetyltransferase (HAT) complexes like the TFTC-HAT or STAGA complexes. It also may be involved in MYC-mediated oncogenic transformation. It is a component of the ATAC complex, which is a complex with histone acetyltransferase activity on histones H3 and H4 []. This entry represents a domain found in yeast and human SAGA-associated factor 29 proteins that is related to the tudor domain. ; PDB: 3MP6_A 3MP1_A 3MP8_A 3MET_B 3ME9_A 3MEU_B 3MEA_A 3MEV_B 3LX7_A 3MEW_A.
Probab=59.67 E-value=34 Score=28.59 Aligned_cols=61 Identities=18% Similarity=0.368 Sum_probs=36.7
Q ss_pred ccccCCCCeeEEeeccCCCCCCCEEEEEEEeEe-CCCCeEEEecCCCCCCCCCcceeEEEeecCceeecCC
Q 024272 127 TCASLKGEQVAARVTAENADKDEWFVVKVMHFD-RETKEFEVLDEEPGDDEEGGVQRKYKLHMSFIIPFPK 196 (270)
Q Consensus 127 ~~~~~~G~~VAa~v~~~~~~~~~WILa~Vv~~~-~~~~rYeV~D~dp~dd~e~~~~~~~~l~~~~IIPLP~ 196 (270)
...+.+|+.|-|.-+. ...+.-|+|++-- .....|.+.=.|+ ++..+ ...++++.||++|+
T Consensus 69 ~~~f~~g~~VLAlYP~----TT~FY~A~V~~~p~~~~~~y~l~Fedd-~~~~~----~~~V~~r~Vv~~p~ 130 (130)
T PF07039_consen 69 LAEFPKGTKVLALYPD----TTCFYPATVVSPPKKKSGEYKLKFEDD-EDADG----YREVPQRYVVAFPQ 130 (130)
T ss_dssp GGS--TT-EEEEE-TT----SSEEEEEEEEEE-SSTTS-EEEEECTT-TSTTS----BEEE-GGGEEE-H-
T ss_pred hhhCCCCCEEEEECCC----CceEEEEEEEeCCCCCCCcEEEEEeCC-CCcCC----cEEEccceEEccCC
Confidence 4557899999998763 4678899999973 3356788765432 22221 27999999999984
No 31
>PF00567 TUDOR: Tudor domain; InterPro: IPR008191 There are multiple copies of this domain in the Drosophila melanogaster tudor protein and it has been identified in several RNA-binding proteins []. Although the function of this domain is unknown, in Drosophila melanogaster the tudor protein is required during oogenesis for the formation of primordial germ cells and for normal abdominal segmentation [].; PDB: 3NTI_A 3NTK_B 3NTH_A 2DIQ_A 3FDR_A 3PNW_O 3S6W_A 3PMT_A 2WAC_A 2O4X_A ....
Probab=57.67 E-value=63 Score=24.37 Aligned_cols=54 Identities=22% Similarity=0.401 Sum_probs=38.0
Q ss_pred cCCCCeeEEeeccCCCCCCCEEEEEEEeEeCCCCeEEEecCCCCCCCCCcceeEEEeecCceeecCC
Q 024272 130 SLKGEQVAARVTAENADKDEWFVVKVMHFDRETKEFEVLDEEPGDDEEGGVQRKYKLHMSFIIPFPK 196 (270)
Q Consensus 130 ~~~G~~VAa~v~~~~~~~~~WILa~Vv~~~~~~~rYeV~D~dp~dd~e~~~~~~~~l~~~~IIPLP~ 196 (270)
..+|..+++.+.. ++.|.=|+| ..+.+.+.|+|.=+|- | ...+++.+.|-+||.
T Consensus 52 ~~~~~~~~~~~~~----~~~w~Ra~I-~~~~~~~~~~V~~iD~-----G---~~~~v~~~~l~~l~~ 105 (121)
T PF00567_consen 52 SNPGEGCLCVVSE----DGRWYRAVI-TVDIDENQYKVFLIDY-----G---NTEKVSASDLRPLPP 105 (121)
T ss_dssp --TTEEEEEEETT----TSEEEEEEE-EEEECTTEEEEEETTT-----T---EEEEEEGGGEEE--H
T ss_pred cccCCEEEEEEec----CCceeeEEE-EEecccceeEEEEEec-----C---ceEEEcHHHhhhhCH
Confidence 4567777777764 579999999 4445668899999953 2 356799999999994
No 32
>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=54.93 E-value=19 Score=28.28 Aligned_cols=56 Identities=18% Similarity=0.159 Sum_probs=38.8
Q ss_pred CCCCeEEEeCCCCCccccEEEecCCC--------CCCCCCeEEEecCCCCCCCCCcccccCceEeeCCCC
Q 024272 206 PPGRHVLAVYPGTTALYKATVVSTPR--------KRKTDDYLLEFDDDEEDGALPQRTVPFHNVVPLPEG 267 (270)
Q Consensus 206 ~kg~~VLAlYP~TT~FY~A~V~~~p~--------~~~~~~Y~L~FeDd~~~G~~P~~~Vp~ryVv~~p~~ 267 (270)
..|+.|.|-+.. --+.||.|+.+.. +...+.|.|.|=|+.+-+. |....++++-+|
T Consensus 2 ~~GdlVWaK~~g-~pwWPa~V~~~~~~p~~~~~~~~~~~~~~V~Ffgs~~y~W-----v~~~~l~pf~e~ 65 (95)
T cd05838 2 LYGDIVWAKLGN-FRWWPAIICDPREVPPNIQVLRHCIGEFCVMFFGTHDYYW-----VHRGRVFPYQEG 65 (95)
T ss_pred CcCCEEEEECCC-CCCCCeEEcChhhcChhHhhccCCCCeEEEEEeCCCCEEE-----eccccccchhhh
Confidence 469999999998 7799999997641 0123679999988765444 444555555443
No 33
>PF08651 DASH_Duo1: DASH complex subunit Duo1; InterPro: IPR013960 The DASH complex is a ~10 subunit microtubule-binding complex that is transferred to the kinetochore prior to mitosis []. In Saccharomyces cerevisiae (Baker's yeast) DASH forms both rings and spiral structures on microtubules in vitro [, ].
Probab=51.18 E-value=54 Score=25.17 Aligned_cols=13 Identities=38% Similarity=0.570 Sum_probs=9.8
Q ss_pred HHHHHHHHHHhhh
Q 024272 13 DKSRELDRLRKEQ 25 (270)
Q Consensus 13 ~~l~el~~lr~~~ 25 (270)
.+++||.+||+-+
T Consensus 2 aL~kEL~~Lr~IN 14 (78)
T PF08651_consen 2 ALEKELEQLRKIN 14 (78)
T ss_pred hHHHHHHHHHHHH
Confidence 5788898887744
No 34
>PLN00104 MYST -like histone acetyltransferase; Provisional
Probab=47.87 E-value=25 Score=35.45 Aligned_cols=43 Identities=12% Similarity=0.193 Sum_probs=33.8
Q ss_pred CCCCCCCeEEEeCCCCCccccEEEecCCCCC----CCCCeEEEecCC
Q 024272 203 PEFPPGRHVLAVYPGTTALYKATVVSTPRKR----KTDDYLLEFDDD 245 (270)
Q Consensus 203 ~~f~kg~~VLAlYP~TT~FY~A~V~~~p~~~----~~~~Y~L~FeDd 245 (270)
..|.+|++|+|.+...-.||.|+|+..-... ..-.|-|.|.+-
T Consensus 52 ~~~~VGekVla~~~~Dg~~~~A~VI~~R~~~~~~~~~~~YYVHY~g~ 98 (450)
T PLN00104 52 LPLEVGTRVMCRWRFDGKYHPVKVIERRRGGSGGPNDYEYYVHYTEF 98 (450)
T ss_pred ceeccCCEEEEEECCCCCEEEEEEEEEeccCCCCCCCceEEEEEecC
Confidence 3499999999999999999999999984211 113599999863
No 35
>PF10377 ATG11: Autophagy-related protein 11; InterPro: IPR019460 This family consists of proteins involved in telomere maintenance. In Schizosaccharomyces pombe (fission yeast) this protein is called Taf1 (taz1 interacting factor) and is part of the telomere cap complex. In Saccharomyces cerevisiae (baker's yeast) this protein is called ATG11 and is known to be involved in vacuolar targeting and peroxisome degradation [, ].
Probab=42.52 E-value=51 Score=27.49 Aligned_cols=13 Identities=23% Similarity=0.825 Sum_probs=10.8
Q ss_pred CCCEEEEEEEeEe
Q 024272 147 KDEWFVVKVMHFD 159 (270)
Q Consensus 147 ~~~WILa~Vv~~~ 159 (270)
..+||+|+|++..
T Consensus 88 ~~~w~vgrI~~~e 100 (129)
T PF10377_consen 88 RREWIVGRIVSIE 100 (129)
T ss_pred CCCEEEEEEEEEE
Confidence 4689999999964
No 36
>PF10849 DUF2654: Protein of unknown function (DUF2654); InterPro: IPR022558 This entry is represented by Bacteriophage T4, a-gt.4; it is a family of uncharacterised viral proteins.
Probab=39.94 E-value=35 Score=25.99 Aligned_cols=39 Identities=36% Similarity=0.500 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHhhhHHHHHHHHHHHHhhcCCcccccCCCcchHHHHHHHHHH
Q 024272 12 LDKSRELDRLRKEQEDVLLEINKMHKKLHNTPEVIEKPGDNSLTKLKSLYIQ 63 (270)
Q Consensus 12 ~~~l~el~~lr~~~e~~l~~I~k~h~k~~~~~e~~~k~~~~~~~kL~~lY~~ 63 (270)
.-+-+||++|++..|..|-+-|+. . =.|...|||.+|.+
T Consensus 10 kKN~rEI~RL~~HAe~al~~~Nk~---------~----Y~YAI~KLR~i~kQ 48 (70)
T PF10849_consen 10 KKNRREIKRLKKHAEEALIENNKE---------G----YVYAIKKLRDIYKQ 48 (70)
T ss_pred HHhHHHHHHHHHHHHHHHHhcCHH---------H----HHHHHHHHHHHHcC
Confidence 456789999999999999988865 1 13455689999987
No 37
>PF12998 ING: Inhibitor of growth proteins N-terminal histone-binding; InterPro: IPR024610 Histones undergo numerous post-translational modifications, including acetylation and methylation, at residues which are then probable docking sites for various chromatin remodelling complexes. Inhibitor of growth proteins (INGs) specifically bind to residues that have been thus modified. INGs carry a well-characterised C-terminal PHD-type zinc-finger domain, binding with lysine 4-tri-methylated histone H3 (H3K4me3), as well as this N-terminal domain that binds unmodified H3 tails. Although these two regions can bind histones independently, together they increase the apparent association of the ING for the H3 tail. This entry represents the N-terminal histone binding domain found in inhibitor proteins.; PDB: 4AFL_A.
Probab=38.28 E-value=1.8e+02 Score=22.20 Aligned_cols=78 Identities=23% Similarity=0.284 Sum_probs=45.7
Q ss_pred HHHHHHHHHHHHHH-HhhhHHHHHHHHHHHHhhcCCcccccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 024272 8 IADILDKSRELDRL-RKEQEDVLLEINKMHKKLHNTPEVIEKPGDNSLTKLKSLYIQAKELSENEVHVSNLLVGQLDALL 86 (270)
Q Consensus 8 ~~~i~~~l~el~~l-r~~~e~~l~~I~k~h~k~~~~~e~~~k~~~~~~~kL~~lY~~a~~~ae~E~~~~~~~~~~i~~l~ 86 (270)
++.....++|||.- ++..+.+-..+++..+.... +.....-....+.++...|..++..++.-..+...+.+.|+.-+
T Consensus 17 l~r~l~~irelD~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~I~~~~~~~~~l~deKv~lA~~~~d~v~~hi 95 (105)
T PF12998_consen 17 LQRNLTLIRELDAKSQDLLEELDQQIQKFIKNHGS-PSLSPEKRRELLKEIQEEYERALELSDEKVALAQQAYDLVDRHI 95 (105)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCTTS---S-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhhhhHHHHHHHHHHHHHHHHhhccc-ccCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 67777777777765 33333333333433222222 00000011345568888899999999999999888877776544
No 38
>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=37.83 E-value=1.1e+02 Score=23.69 Aligned_cols=43 Identities=23% Similarity=0.295 Sum_probs=31.5
Q ss_pred CCCCCeEEEeCCCCCccccEEEecCCCCCCCCCeEEEecCCC-CCCC
Q 024272 205 FPPGRHVLAVYPGTTALYKATVVSTPRKRKTDDYLLEFDDDE-EDGA 250 (270)
Q Consensus 205 f~kg~~VLAlYP~TT~FY~A~V~~~p~~~~~~~Y~L~FeDd~-~~G~ 250 (270)
|.+|+.|-|-+.+= -+.||.|.+... ....|.|.|=||. ..+.
T Consensus 1 f~~gdlVWaK~~g~-P~WPa~I~~~~~--~~~k~~V~FfG~~~~~a~ 44 (80)
T cd06080 1 FEKNDLVWAKIQGY-PWWPAVIKSISR--KKQKARVNFIGDNMQSEK 44 (80)
T ss_pred CCCCCEEEEeCCCC-CCCCEEEeeecC--CCCEEEEEEeCCCCceec
Confidence 67899999986543 356999998853 2567999997775 4444
No 39
>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=37.66 E-value=63 Score=26.56 Aligned_cols=25 Identities=20% Similarity=0.191 Sum_probs=21.2
Q ss_pred CCCCCeEEEeCCCCCccccEEEecCC
Q 024272 205 FPPGRHVLAVYPGTTALYKATVVSTP 230 (270)
Q Consensus 205 f~kg~~VLAlYP~TT~FY~A~V~~~p 230 (270)
+++|+.|.|-. ..--+|+|.|+.++
T Consensus 1 ~~pg~lVwaK~-~g~P~wPa~iidp~ 25 (111)
T cd05839 1 LEPLTLVWAKC-RGYPSYPALIIDPK 25 (111)
T ss_pred CCCcCEeeeee-cCCCCCCeEeeCCC
Confidence 46899999987 67779999999976
No 40
>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=36.98 E-value=77 Score=22.20 Aligned_cols=34 Identities=21% Similarity=0.470 Sum_probs=24.1
Q ss_pred cCCCCeeEEeeccCCCCCCCEEEEEEEeEeCCC--CeEEEe
Q 024272 130 SLKGEQVAARVTAENADKDEWFVVKVMHFDRET--KEFEVL 168 (270)
Q Consensus 130 ~~~G~~VAa~v~~~~~~~~~WILa~Vv~~~~~~--~rYeV~ 168 (270)
+.+|+.|-++-. ++.|..|+|++..... ..|-|-
T Consensus 1 ~~vG~~v~~~~~-----~~~~y~A~I~~~r~~~~~~~YyVH 36 (55)
T PF11717_consen 1 FEVGEKVLCKYK-----DGQWYEAKILDIREKNGEPEYYVH 36 (55)
T ss_dssp --TTEEEEEEET-----TTEEEEEEEEEEEECTTCEEEEEE
T ss_pred CCcCCEEEEEEC-----CCcEEEEEEEEEEecCCCEEEEEE
Confidence 468999988872 4789999999986543 356554
No 41
>PF11126 Phage_DsbA: Transcriptional regulator DsbA; InterPro: IPR020313 DsbA is a double stranded binding protein found in bacteriophage T4 which is involved in transcriptional regulation. DsbA, along with other viral proteins, interacts with the host RNA polymerase core enzyme enabling initiation of transcription. DsbA acts as an enhancer protein of late genes in vitro. The protein consists of mainly alpha helices [].
Probab=36.58 E-value=1.9e+02 Score=22.00 Aligned_cols=59 Identities=17% Similarity=0.159 Sum_probs=41.1
Q ss_pred HHHHHHHHhhhHHHHHHHHHHHHhhcCCcccccCCCcchHHHHHHHHHH-HHHHHHHHHHHHHH
Q 024272 15 SRELDRLRKEQEDVLLEINKMHKKLHNTPEVIEKPGDNSLTKLKSLYIQ-AKELSENEVHVSNL 77 (270)
Q Consensus 15 l~el~~lr~~~e~~l~~I~k~h~k~~~~~e~~~k~~~~~~~kL~~lY~~-a~~~ae~E~~~~~~ 77 (270)
.+|...++..+|.--..|-.+..+-+++ . .+.+..+.||-.||-+ +.+.-|+|.+=+-.
T Consensus 2 IkeAS~~k~~ie~~~e~IKdik~~AK~E--l--Gv~gk~Fnkl~~lyHk~~Re~fE~e~ee~~e 61 (69)
T PF11126_consen 2 IKEASDHKTQIESYNEMIKDIKDRAKDE--L--GVDGKMFNKLLKLYHKQEREEFEAENEEVVE 61 (69)
T ss_pred chHHHhhHHHHHHHHHHHHHHHHHHHHH--c--CCCHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence 4566667777777777777777777764 4 6778889999999855 55566666554333
No 42
>PF01079 Hint: Hint module; InterPro: IPR001767 This domain identifies a group of cysteine peptidases correspond to MEROPS peptidase family C46 (clan CH). The type example is the Hedgehog protein from Drosophila melanogaster (Fruit fly). These are involved in intracellular signalling required for a variety of patterning events during development. The hedgehog family of proteins self process by a cysteine-dependent mechanism, which is a one-time autolytic cleavage. It is differentiated from a typical peptidase reaction by the fact that the newly-formed carboxyl group is esterified with cholesterol, rather than being left free. The three-dimensional structure of the autolytic domain of the hedgehog protein of D. melanogaster shows that it is formed from two divergent copies of a module that also occurs in inteins, called a Hint domain [,].; GO: 0008233 peptidase activity, 0006508 proteolysis; PDB: 3K7H_B 3K7I_B 3K7G_B 1AT0_A 3MXW_A 3M1N_B 3HO5_H 2WFR_A 2WFQ_A 2WG3_B ....
Probab=34.55 E-value=1.5e+02 Score=26.82 Aligned_cols=89 Identities=24% Similarity=0.274 Sum_probs=50.9
Q ss_pred ccCCCCeeEEeeccCCCCCCCEEEEEEEeEe---C-CCCeEEEecCCCCCCCCCcceeEEEeecCceeecCCCCCCC---
Q 024272 129 ASLKGEQVAARVTAENADKDEWFVVKVMHFD---R-ETKEFEVLDEEPGDDEEGGVQRKYKLHMSFIIPFPKRNDSS--- 201 (270)
Q Consensus 129 ~~~~G~~VAa~v~~~~~~~~~WILa~Vv~~~---~-~~~rYeV~D~dp~dd~e~~~~~~~~l~~~~IIPLP~~~~~~--- 201 (270)
.|++||.|.+.-. ++.-+-..|+-|- + ....|-++--+ + .+..+|+..++|+.=..+...
T Consensus 31 ~L~iGD~Vla~d~-----~G~~~yS~V~~flhr~~~~~~~F~~i~te-----~---g~~l~LTp~HLI~v~~~~~~~~~~ 97 (217)
T PF01079_consen 31 DLKIGDRVLAVDS-----DGKLVYSPVIMFLHRDPEQRAEFVVIETE-----D---GRSLTLTPNHLIFVADCNGSESSN 97 (217)
T ss_dssp G--TT-EEEEE-T-----TS-EEEEEEEEEEEEEEEEEEEEEEEEET-----T---S-EEEE-TT-EEEEEETTTTEE--
T ss_pred HCCCCCEEEEecC-----CCcEEEEeEEEEeccCccccEEEEEEEcC-----C---CCeEEecCCcEEEEecCCCCcccc
Confidence 4789999999642 3566778888863 1 12334443321 2 257999999999987543211
Q ss_pred ----C-CCCCCCCeEEEeCCCCCccccEEEecCC
Q 024272 202 ----I-PEFPPGRHVLAVYPGTTALYKATVVSTP 230 (270)
Q Consensus 202 ----~-~~f~kg~~VLAlYP~TT~FY~A~V~~~p 230 (270)
. -+..+|+.|+....+..++.++.|...-
T Consensus 98 ~~~vfA~~V~~Gd~v~~~~~~~~~~~~~~V~~v~ 131 (217)
T PF01079_consen 98 FRAVFASDVRVGDCVLVSDEGGGKLRPSRVVRVS 131 (217)
T ss_dssp -EEEEGGG--TT-EEEEE-TTT--EEEEEEEEEE
T ss_pred cceeehhhCCCCCEEEEEEcCCCcEEEEEEEEEE
Confidence 1 1489999999999999999999998874
No 43
>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=34.55 E-value=71 Score=24.55 Aligned_cols=45 Identities=16% Similarity=0.094 Sum_probs=32.5
Q ss_pred CCCCCeEEEeCCCCCccccEEEecCCCCC----CCCCeEEEecCCCCCCC
Q 024272 205 FPPGRHVLAVYPGTTALYKATVVSTPRKR----KTDDYLLEFDDDEEDGA 250 (270)
Q Consensus 205 f~kg~~VLAlYP~TT~FY~A~V~~~p~~~----~~~~Y~L~FeDd~~~G~ 250 (270)
|..|+.|.|--.+ -...||.|+..+... ..+.|.|.|=|+..-+.
T Consensus 1 f~vGDlVWaK~kg-~pwWP~~V~~~~~~~~~~~~~~~~~V~fFGs~~~a~ 49 (87)
T cd05835 1 FNVGDLVWGKIKG-FPWWPGRVVSITVTSKRPPVVGMRWVTWFGSGTFSE 49 (87)
T ss_pred CCCCCEEEEecCC-CCCCCeEEechhhcccccCCCCeEEEEEeCCCCEeE
Confidence 6789999998643 348899999986322 24679999988754443
No 44
>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=33.98 E-value=82 Score=24.54 Aligned_cols=55 Identities=22% Similarity=0.353 Sum_probs=39.5
Q ss_pred CCCCCCCCeEEEeCCCCCccccEEEecCCCCCCCCCeEEEecC-CCCCCCCCcccccCceEeeCCC
Q 024272 202 IPEFPPGRHVLAVYPGTTALYKATVVSTPRKRKTDDYLLEFDD-DEEDGALPQRTVPFHNVVPLPE 266 (270)
Q Consensus 202 ~~~f~kg~~VLAlYP~TT~FY~A~V~~~p~~~~~~~Y~L~FeD-d~~~G~~P~~~Vp~ryVv~~p~ 266 (270)
.|.+++|+.|.|-.-+ --+.||.|.... + ..|.|.|=| +.+-+ .|+...+.++-+
T Consensus 4 ~pc~~p~dLVwAK~kG-yp~WPAkV~~~~-~---~~~~V~FFG~t~~~a-----~v~~~~i~~~~~ 59 (83)
T cd05841 4 EPCRPPHELVWAKLKG-FPYWPAKVMRVE-D---NQVDVRFFGGQHDRA-----WIPSNNIQPIST 59 (83)
T ss_pred cccCCCCCEEEEeCCC-CCCCCEEEeecC-C---CeEEEEEcCCCCCeE-----EEehHHeeehhh
Confidence 4779999999999776 456999999874 2 569999977 54433 455555555433
No 45
>smart00503 SynN Syntaxin N-terminal domain. Three-helix domain that (in Sso1p) slows the rate of its reaction with the SNAP-25 homologue Sec9p
Probab=33.02 E-value=2.3e+02 Score=21.84 Aligned_cols=65 Identities=18% Similarity=0.288 Sum_probs=40.4
Q ss_pred HHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhcCCcccccCCCcchHHHHHHHHHHHHHHHHHHHHHHH
Q 024272 8 IADILDKSRELDRLRKEQEDVLLEINKMHKKLHNTPEVIEKPGDNSLTKLKSLYIQAKELSENEVHVSN 76 (270)
Q Consensus 8 ~~~i~~~l~el~~lr~~~e~~l~~I~k~h~k~~~~~e~~~k~~~~~~~kL~~lY~~a~~~ae~E~~~~~ 76 (270)
...+.+...+|...-...+.++..|.++|.++.+... -.+....+|..+-..+...+..=...|.
T Consensus 3 ~~~F~~~v~~I~~~I~~i~~~v~~l~~l~~~~l~~~~----~~~~~~~~l~~~~~~~~~~~~~i~~~lk 67 (117)
T smart00503 3 LDEFFEKVEEIRANIQKISQNVAELQKLHEELLTPPD----ADKELREKLERLIDDIKRLAKEIRAKLK 67 (117)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCc----hhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445555566666666677889999999999998511 1244556677766665555544333333
No 46
>PF12148 DUF3590: Protein of unknown function (DUF3590); InterPro: IPR021991 This domain is found in eukaryotes, and is typically between 83 and 97 amino acids in length. It is found in association with PF00097 from PFAM, PF02182 from PFAM, PF00628 from PFAM, PF00240 from PFAM. There are two conserved sequence motifs: RAR and NYN. The domain is part of the protein NIRF which has zinc finger and ubiquitinating domains. The function of this domain is likely to be mainly structural, however this has not been confirmed. ; PDB: 3DB4_A 3ASK_A 3DB3_A 2L3R_A.
Probab=32.21 E-value=35 Score=26.86 Aligned_cols=40 Identities=28% Similarity=0.351 Sum_probs=27.0
Q ss_pred EEEeCCCCCccccEEEecCCCCCC----CCCeEEEecCCCCCCC
Q 024272 211 VLAVYPGTTALYKATVVSTPRKRK----TDDYLLEFDDDEEDGA 250 (270)
Q Consensus 211 VLAlYP~TT~FY~A~V~~~p~~~~----~~~Y~L~FeDd~~~G~ 250 (270)
|=|....+.+.+-|.|+..-++.. .-.|.++|||..+.|.
T Consensus 2 vD~~d~~~gAWfEa~i~~i~~~~~~~~e~viYhIkyddype~gv 45 (85)
T PF12148_consen 2 VDARDRNMGAWFEAQIVTITKKCMSDDEDVIYHIKYDDYPENGV 45 (85)
T ss_dssp EEEE-TTT-EEEEEEEEEEEES-SSSSTTEEEEEEETT-GGG-E
T ss_pred cccccCCCcceEEEEEEEeeccCCCCCCCEEEEEEeccCCCcCc
Confidence 557788899999999998764322 2349999999877776
No 47
>KOG4525 consensus Jacalin-like lectin domain-containing protein [General function prediction only]
Probab=31.53 E-value=35 Score=34.69 Aligned_cols=27 Identities=37% Similarity=0.583 Sum_probs=24.0
Q ss_pred CCCCCccccEEEecCCCCCCCCCeEEEecCCC
Q 024272 215 YPGTTALYKATVVSTPRKRKTDDYLLEFDDDE 246 (270)
Q Consensus 215 YP~TT~FY~A~V~~~p~~~~~~~Y~L~FeDd~ 246 (270)
||.|-.|++|+|+..| ++.+|.|+-|.
T Consensus 52 ~p~h~~~fkat~~~~p-----GenkllF~td~ 78 (614)
T KOG4525|consen 52 LPEHLSQFKATQLSAP-----GENKLLFDTDQ 78 (614)
T ss_pred chhhhhhhheeEEecC-----CcceEEEEcCC
Confidence 7899999999999998 67899997764
No 48
>PHA02599 dsbA double-stranded DNA binding protein; Provisional
Probab=31.50 E-value=2.7e+02 Score=22.22 Aligned_cols=69 Identities=16% Similarity=0.110 Sum_probs=50.7
Q ss_pred HHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhcCCcccccCCCcchHHHHHHHHHH-HHHHHHHHHHHHHHHHH
Q 024272 8 IADILDKSRELDRLRKEQEDVLLEINKMHKKLHNTPEVIEKPGDNSLTKLKSLYIQ-AKELSENEVHVSNLLVG 80 (270)
Q Consensus 8 ~~~i~~~l~el~~lr~~~e~~l~~I~k~h~k~~~~~e~~~k~~~~~~~kL~~lY~~-a~~~ae~E~~~~~~~~~ 80 (270)
...++++.+|-..++..+|.--..|-.+..+..++ - .+.++.+.+|-.||-+ +...-|+|.+=+-.+.+
T Consensus 17 g~~l~~lIkEAS~~kt~ie~y~e~iKdIk~rAK~E--~--GvdGK~Fnkl~klYHkq~R~~fEae~~Ev~elYD 86 (91)
T PHA02599 17 GERLAQLIKEASDHKTQIEAYGEMIKDIKDRAKTE--L--GVDGKMFNKLFKLYHKQEREQFEAENDEVVELYD 86 (91)
T ss_pred HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHH--h--CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35688899999888999988888887777777765 4 6778899999999855 55555555554444333
No 49
>PHA02571 a-gt.4 hypothetical protein; Provisional
Probab=30.79 E-value=53 Score=27.04 Aligned_cols=38 Identities=34% Similarity=0.531 Sum_probs=20.3
Q ss_pred HHHHHHHHHhhhHHHHHHHHHHHHhhcCCcccccCCCcchHHHHHHHHHHH
Q 024272 14 KSRELDRLRKEQEDVLLEINKMHKKLHNTPEVIEKPGDNSLTKLKSLYIQA 64 (270)
Q Consensus 14 ~l~el~~lr~~~e~~l~~I~k~h~k~~~~~e~~~k~~~~~~~kL~~lY~~a 64 (270)
+-+||.+|++.-|..|-.-||. + =.|.-.|||.+|++-
T Consensus 42 N~rEIkRL~~HAe~al~~~Nk~---------~----Y~YAI~KLR~i~kQp 79 (109)
T PHA02571 42 NRREIKRLKKHAEEALFDNNKE---------Q----YVYAIKKLRDIYKQP 79 (109)
T ss_pred hHHHHHHHHHHHHHHHHhcCHH---------H----HHHHHHHHHHHHcCC
Confidence 3445555555555555555443 1 024445778887763
No 50
>PF12148 DUF3590: Protein of unknown function (DUF3590); InterPro: IPR021991 This domain is found in eukaryotes, and is typically between 83 and 97 amino acids in length. It is found in association with PF00097 from PFAM, PF02182 from PFAM, PF00628 from PFAM, PF00240 from PFAM. There are two conserved sequence motifs: RAR and NYN. The domain is part of the protein NIRF which has zinc finger and ubiquitinating domains. The function of this domain is likely to be mainly structural, however this has not been confirmed. ; PDB: 3DB4_A 3ASK_A 3DB3_A 2L3R_A.
Probab=30.35 E-value=1.5e+02 Score=23.42 Aligned_cols=63 Identities=14% Similarity=0.288 Sum_probs=36.6
Q ss_pred CCCCEEEEEEEeEeCC------CCeEEEecCCCCCCCCCcceeEEEeecCceeecCCCCCCCCCCCCCCCeEEEeC
Q 024272 146 DKDEWFVVKVMHFDRE------TKEFEVLDEEPGDDEEGGVQRKYKLHMSFIIPFPKRNDSSIPEFPPGRHVLAVY 215 (270)
Q Consensus 146 ~~~~WILa~Vv~~~~~------~~rYeV~D~dp~dd~e~~~~~~~~l~~~~IIPLP~~~~~~~~~f~kg~~VLAlY 215 (270)
..+.|+=|.|+.+... .--|.|.=.| .+|. ....++.++|-|=-... -.+-++..|+.||+=|
T Consensus 8 ~~gAWfEa~i~~i~~~~~~~~e~viYhIkydd---ype~---gvv~~~~~~iRpRARt~-l~w~~L~VG~~VMvNY 76 (85)
T PF12148_consen 8 NMGAWFEAQIVTITKKCMSDDEDVIYHIKYDD---YPEN---GVVEMRSKDIRPRARTI-LKWDELKVGQVVMVNY 76 (85)
T ss_dssp TT-EEEEEEEEEEEES-SSSSTTEEEEEEETT----GGG----EEEEEGGGEEE---SB-E-GGG--TT-EEEEEE
T ss_pred CCcceEEEEEEEeeccCCCCCCCEEEEEEecc---CCCc---CceecccccccceeeEe-ccHHhCCcccEEEEec
Confidence 3578999999997643 3358887532 2232 36788888888753211 2234699999999977
No 51
>KOG1004 consensus Exosomal 3'-5' exoribonuclease complex subunit Rrp40 [Translation, ribosomal structure and biogenesis]
Probab=30.29 E-value=1e+02 Score=28.45 Aligned_cols=58 Identities=16% Similarity=0.213 Sum_probs=33.3
Q ss_pred CCCEEEEEEEeEeCCCCeEEEecCCCCCCCCCcceeEEEeecCceeecCCCCCCCCCCCCCCCeEEEeCCCC
Q 024272 147 KDEWFVVKVMHFDRETKEFEVLDEEPGDDEEGGVQRKYKLHMSFIIPFPKRNDSSIPEFPPGRHVLAVYPGT 218 (270)
Q Consensus 147 ~~~WILa~Vv~~~~~~~rYeV~D~dp~dd~e~~~~~~~~l~~~~IIPLP~~~~~~~~~f~kg~~VLAlYP~T 218 (270)
.++.+++.|++-.++. |.| |+ +. .+.-.|| ..-++..+-...|++++|+.|+|-.=++
T Consensus 65 ~~D~VIGiV~~~~gd~--ykV-Di-----gg---~~~a~L~---~laFe~AtkrNrPnl~vGdliyakv~~a 122 (230)
T KOG1004|consen 65 KGDHVIGIVTSKSGDI--YKV-DI-----GG---SEPASLS---YLAFEGATKRNRPNLQVGDLIYAKVVDA 122 (230)
T ss_pred CCCEEEEEEEeccCce--EEE-ec-----CC---CCeeeee---eccccCccccCCCccccccEEEEEEEec
Confidence 3567778888755543 666 54 11 1111111 2234433337789999999999865443
No 52
>PF09378 HAS-barrel: HAS barrel domain; InterPro: IPR018538 The HAS barrel is named after HerA-ATP Synthase. In ATP synthases, this domain is implicated in the assembly of the catalytic toroid and docking of accessory subunits, such as the subunit of the ATP synthase complex. Similar roles in docking of the functional partner, the NurA nuclease, and assembly of the HerA toroid complex appear likely for the HAS-barrel of the HerA family []. ; PDB: 3OAA_I.
Probab=29.53 E-value=47 Score=24.76 Aligned_cols=27 Identities=22% Similarity=0.150 Sum_probs=19.6
Q ss_pred ccCCCCeeEEeeccCCCCCCCEEEEEEEeEeC
Q 024272 129 ASLKGEQVAARVTAENADKDEWFVVKVMHFDR 160 (270)
Q Consensus 129 ~~~~G~~VAa~v~~~~~~~~~WILa~Vv~~~~ 160 (270)
..+.|+.|.++.. ++.|||+.|.+...
T Consensus 22 ~v~~GeyV~i~~~-----~~~~vlG~V~~i~~ 48 (91)
T PF09378_consen 22 DVRVGEYVVIEYD-----DGEKVLGMVTSISR 48 (91)
T ss_dssp T-BTTEEEEES---------TTEEEEEEEEES
T ss_pred CCCcCeEEEEEEe-----chhhhhhhhheeEE
Confidence 5688999999764 37899999999865
No 53
>PRK02749 photosystem I reaction center subunit IV; Provisional
Probab=28.94 E-value=99 Score=23.55 Aligned_cols=34 Identities=21% Similarity=0.442 Sum_probs=26.8
Q ss_pred cCCCCeeEEeeccCCCCCCCEE--EEEEEeEeCCCCeEEEe
Q 024272 130 SLKGEQVAARVTAENADKDEWF--VVKVMHFDRETKEFEVL 168 (270)
Q Consensus 130 ~~~G~~VAa~v~~~~~~~~~WI--La~Vv~~~~~~~rYeV~ 168 (270)
++.|++|-.+-+ +.-|. ++.|+++|.+.-+|-|.
T Consensus 3 i~rGskVrIlR~-----ESYWyn~vGtV~svD~sgi~YPV~ 38 (71)
T PRK02749 3 ISRGDKVRILRP-----ESYWYNEVGTVASVDKSGIKYPVI 38 (71)
T ss_pred cccCCEEEEccc-----cceeecCcceEEEEccCCCeeeEE
Confidence 577999977654 46788 68999999887788774
No 54
>KOG1445 consensus Tumor-specific antigen (contains WD repeats) [Cytoskeleton]
Probab=28.75 E-value=39 Score=35.95 Aligned_cols=78 Identities=18% Similarity=0.210 Sum_probs=53.5
Q ss_pred eEEEeecCceeecCCCCC-CCCCCCCCCCeEEEeCCCCCccccEEEecCCCCC-CCCCeEEEecCC-CCCCCCCcccccC
Q 024272 182 RKYKLHMSFIIPFPKRND-SSIPEFPPGRHVLAVYPGTTALYKATVVSTPRKR-KTDDYLLEFDDD-EEDGALPQRTVPF 258 (270)
Q Consensus 182 ~~~~l~~~~IIPLP~~~~-~~~~~f~kg~~VLAlYP~TT~FY~A~V~~~p~~~-~~~~Y~L~FeDd-~~~G~~P~~~Vp~ 258 (270)
+.+.|+.+.|||+|=..| .++-+|..+ |||+|+..-++.+..-+=.+ .+-.-++...-. -+.|--||+.||-
T Consensus 331 rvlQLt~~~ivPi~y~VPRksyrdFH~D-----LfPeT~G~~p~~~ageWlnG~Nq~vqKvSl~Pa~r~h~~~pp~~~P~ 405 (1012)
T KOG1445|consen 331 RVLQLTKSSIVPIPYIVPRKSYRDFHSD-----LFPETRGAEPGCTAGEWLNGTNQVVQKVSLAPAQRSHSPPPPEPVPT 405 (1012)
T ss_pred hheecccCceeecccccchhhhhhhhhh-----hCccccCCccCcCccceecCccccccccccCchhccCCCCCCCCCCC
Confidence 579999999999996555 566677654 89999999999887765211 112233444444 2567778899987
Q ss_pred ceEeeC
Q 024272 259 HNVVPL 264 (270)
Q Consensus 259 ryVv~~ 264 (270)
-+|-.-
T Consensus 406 p~~a~t 411 (1012)
T KOG1445|consen 406 PKVAQT 411 (1012)
T ss_pred cccccC
Confidence 766543
No 55
>PF10008 DUF2251: Uncharacterized protein conserved in bacteria (DUF2251); InterPro: IPR014449 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=27.66 E-value=37 Score=27.41 Aligned_cols=16 Identities=38% Similarity=0.665 Sum_probs=14.4
Q ss_pred CCCeEEEecCCCCCCC
Q 024272 235 TDDYLLEFDDDEEDGA 250 (270)
Q Consensus 235 ~~~Y~L~FeDd~~~G~ 250 (270)
.+.|.+-||||.+.||
T Consensus 9 ~~~~~vVFEDdGeTGY 24 (97)
T PF10008_consen 9 HGPYAVVFEDDGETGY 24 (97)
T ss_pred CCCEEEEEEeCCCcEE
Confidence 4679999999999998
No 56
>CHL00125 psaE photosystem I subunit IV; Reviewed
Probab=27.55 E-value=96 Score=23.19 Aligned_cols=34 Identities=21% Similarity=0.414 Sum_probs=26.3
Q ss_pred cCCCCeeEEeeccCCCCCCCEE--EEEEEeEeCCCCeEEEe
Q 024272 130 SLKGEQVAARVTAENADKDEWF--VVKVMHFDRETKEFEVL 168 (270)
Q Consensus 130 ~~~G~~VAa~v~~~~~~~~~WI--La~Vv~~~~~~~rYeV~ 168 (270)
++.|++|-.+-+ +.-|. .+.|+++|.++-+|-|.
T Consensus 2 i~rGskVrIlR~-----ESYWyn~vGtV~svd~~gi~YPV~ 37 (64)
T CHL00125 2 VKRGSKVRILRK-----ESYWYNEIGTVATVDQSGIRYPVL 37 (64)
T ss_pred cccCCEEEEccc-----cceeecCcceEEEEcCCCCCccEE
Confidence 467999877654 46798 58999999887788774
No 57
>COG0565 LasT rRNA methylase [Translation, ribosomal structure and biogenesis]
Probab=26.76 E-value=1.5e+02 Score=27.67 Aligned_cols=59 Identities=22% Similarity=0.313 Sum_probs=39.7
Q ss_pred HHHHHHhhhHHHHHHHHHHHHhhcCCcccccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 024272 17 ELDRLRKEQEDVLLEINKMHKKLHNTPEVIEKPGDNSLTKLKSLYIQAKELSENEVHVSNLLVGQLDALL 86 (270)
Q Consensus 17 el~~lr~~~e~~l~~I~k~h~k~~~~~e~~~k~~~~~~~kL~~lY~~a~~~ae~E~~~~~~~~~~i~~l~ 86 (270)
+|+.+..+.|..|..|.-.+.+.. ...-.+||.+|..| ...+.|.++|+.+|.+++.-+
T Consensus 178 ele~l~~hle~~L~~~~~~~~~~~----------~~~~~~lRrl~~Ra-~~~~~Ev~~Lrgil~~i~~~~ 236 (242)
T COG0565 178 ELELLYEHLEELLDAIGFPDPRKK----------KSLMRKLRRLLGRA-RLTSREVNILRGILRKIERRI 236 (242)
T ss_pred HHHHHHHHHHHHHHHcCCCcccch----------hHHHHHHHHHHhhc-cCcHHHHHHHHHHHHHHHHHh
Confidence 444555555555555543322111 12456899999888 789999999999999988766
No 58
>PTZ00419 valyl-tRNA synthetase-like protein; Provisional
Probab=26.66 E-value=1.7e+02 Score=32.18 Aligned_cols=73 Identities=16% Similarity=0.221 Sum_probs=46.3
Q ss_pred HHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhcCCcccccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 024272 9 ADILDKSRELDRLRKEQEDVLLEINKMHKKLHNTPEVIEKPGDNSLTKLKSLYIQAKELSENEVHVSNLLVGQLDALL 86 (270)
Q Consensus 9 ~~i~~~l~el~~lr~~~e~~l~~I~k~h~k~~~~~e~~~k~~~~~~~kL~~lY~~a~~~ae~E~~~~~~~~~~i~~l~ 86 (270)
.++.+.-+|+.+|.|+.+.+-.+|.+...+|+.+ .=++|-.+....+ -..-.+..++|...|...|..+..|+
T Consensus 922 ~~~id~~~E~~rL~K~l~kl~~ei~~~~~kL~N~-~F~~kAp~~vve~----e~~kl~~~~~~l~~l~~~l~~l~~~~ 994 (995)
T PTZ00419 922 DEFIDLKKELAKLEKKLAKLQKSLESYLKKISIP-NYEDKVPEDVRKL----NDEKIDELNEEIKQLEQAIEELKSLL 994 (995)
T ss_pred CcccCHHHHHHHHHHHHHHHHHHHHHHHHHhCCc-hhhhcCCHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 3455667899999999999999999998888873 2223433333332 22223355556666666666666554
No 59
>KOG4327 consensus mRNA splicing protein SMN (survival motor neuron) [RNA processing and modification]
Probab=26.32 E-value=66 Score=29.32 Aligned_cols=40 Identities=20% Similarity=0.319 Sum_probs=33.2
Q ss_pred CCCCCCeEEEeCCCCCccccEEEecCCCCCCCCCeEEEecCC
Q 024272 204 EFPPGRHVLAVYPGTTALYKATVVSTPRKRKTDDYLLEFDDD 245 (270)
Q Consensus 204 ~f~kg~~VLAlYP~TT~FY~A~V~~~p~~~~~~~Y~L~FeDd 245 (270)
.|.+|....|-|-+--|.|+|+|..-- ...+.+.|.|=+.
T Consensus 67 ~wKVgdkc~A~Y~e~g~~ypatidsi~--~~~~tcvv~ylgy 106 (218)
T KOG4327|consen 67 QWKVGDKCSAIYSEDGCIYPATIDSID--FKRETCVVVYLGY 106 (218)
T ss_pred hheecceeeeeeecCcccccceecccc--cccCceEEEEEee
Confidence 499999999999999999999999873 3446677888654
No 60
>TIGR01069 mutS2 MutS2 family protein. Function of MutS2 is unknown. It should not be considered a DNA mismatch repair protein. It is likely a DNA mismatch binding protein of unknown cellular function.
Probab=24.53 E-value=1.6e+02 Score=31.61 Aligned_cols=34 Identities=24% Similarity=0.189 Sum_probs=22.3
Q ss_pred HHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhcC
Q 024272 8 IADILDKSRELDRLRKEQEDVLLEINKMHKKLHN 41 (270)
Q Consensus 8 ~~~i~~~l~el~~lr~~~e~~l~~I~k~h~k~~~ 41 (270)
-..+.+++.+|++.|.+.|.-..++.+..+.+..
T Consensus 510 ~~~~~~li~~L~~~~~~~e~~~~~~~~~~~e~~~ 543 (771)
T TIGR01069 510 KEEINVLIEKLSALEKELEQKNEHLEKLLKEQEK 543 (771)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3466777777777777777766666655555444
No 61
>cd05790 S1_Rrp40 S1_Rrp40: Rrp40 S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. Rrp4 protein is a subunit of the exosome complex. The exosome plays a central role in 3' to 5' RNA processing and degradation in eukarytes and archaea. Its functions include the removal of incorrectly processed RNA and the maintenance of proper levels of mRNA, rRNA and a number of small RNA species. In Saccharomyces cerevisiae, the exosome includes nine core components, six of which are homologous to bacterial RNase PH. These form a hexameric ring structure. The other three subunits (RrP4, Rrp40, and Csl4) contain an S1 RNA binding domain and are part of the "S1 pore structure".
Probab=23.86 E-value=2.8e+02 Score=21.60 Aligned_cols=53 Identities=21% Similarity=0.254 Sum_probs=30.2
Q ss_pred CCEEEEEEEeEeCCCCeEEEecCCCCCCCCCcceeEEEeecCceeecCCCCCCCCCCCCCCCeEEEe
Q 024272 148 DEWFVVKVMHFDRETKEFEVLDEEPGDDEEGGVQRKYKLHMSFIIPFPKRNDSSIPEFPPGRHVLAV 214 (270)
Q Consensus 148 ~~WILa~Vv~~~~~~~rYeV~D~dp~dd~e~~~~~~~~l~~~~IIPLP~~~~~~~~~f~kg~~VLAl 214 (270)
++-+++.|+...+ ..|.| |+- + ...-.|+. .-++...-...|.|..|+.|+|.
T Consensus 7 gD~VIG~V~~~~~--~~~~V-dI~------s--~~~a~L~~---~~f~gatk~~rp~L~~GDlV~Ar 59 (86)
T cd05790 7 GDHVIGIVVAKAG--DFFKV-DIG------G--SEPASLSY---LAFEGATKRNRPNLNVGDLVYAR 59 (86)
T ss_pred CCEEEEEEEEEcC--CeEEE-EcC------C--CcceEech---HHcccccccccccCCCCCEEEEE
Confidence 5667788887654 34665 661 1 11122322 22343222557899999999985
No 62
>PRK14475 F0F1 ATP synthase subunit B; Provisional
Probab=23.13 E-value=3.9e+02 Score=22.67 Aligned_cols=32 Identities=25% Similarity=0.392 Sum_probs=18.6
Q ss_pred HHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhc
Q 024272 9 ADILDKSRELDRLRKEQEDVLLEINKMHKKLH 40 (270)
Q Consensus 9 ~~i~~~l~el~~lr~~~e~~l~~I~k~h~k~~ 40 (270)
..|...|.+-++.|.+.+..+.+-.+......
T Consensus 44 ~~I~~~l~~Ae~~k~eAe~~~~~~e~~L~~A~ 75 (167)
T PRK14475 44 AKIQAELDEAQRLREEAQALLADVKAEREEAE 75 (167)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35666666666666666666665554444433
No 63
>PF02736 Myosin_N: Myosin N-terminal SH3-like domain; InterPro: IPR004009 This domain has an SH3-like fold. It is found at the N terminus of many but not all myosins. The function of this domain is unknown.; GO: 0003774 motor activity, 0005524 ATP binding, 0016459 myosin complex; PDB: 2EC6_A 2W4H_M 1O1E_P 1O1D_D 1O18_A 1O1C_P 1O1B_D 1O1F_A 2W4A_M 2W4G_M ....
Probab=22.82 E-value=1.6e+02 Score=19.55 Aligned_cols=22 Identities=14% Similarity=0.235 Sum_probs=17.5
Q ss_pred CCCEEEEEEEeEeCCCCeEEEecC
Q 024272 147 KDEWFVVKVMHFDRETKEFEVLDE 170 (270)
Q Consensus 147 ~~~WILa~Vv~~~~~~~rYeV~D~ 170 (270)
++.|++|+|++..+ +.+.|.=.
T Consensus 10 ~egfv~g~I~~~~g--~~vtV~~~ 31 (42)
T PF02736_consen 10 KEGFVKGEIIEEEG--DKVTVKTE 31 (42)
T ss_dssp SSSEEEEEEEEEES--SEEEEEET
T ss_pred cccEEEEEEEEEcC--CEEEEEEC
Confidence 57899999998765 56888765
No 64
>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed
Probab=22.54 E-value=1.9e+02 Score=31.10 Aligned_cols=49 Identities=20% Similarity=0.087 Sum_probs=32.8
Q ss_pred cccCCCCeeEEeeccCCCCCCCEEEEEEEeEeCCCCeEEEecCCCCCCCCCcceeEEEeecCceeecC
Q 024272 128 CASLKGEQVAARVTAENADKDEWFVVKVMHFDRETKEFEVLDEEPGDDEEGGVQRKYKLHMSFIIPFP 195 (270)
Q Consensus 128 ~~~~~G~~VAa~v~~~~~~~~~WILa~Vv~~~~~~~rYeV~D~dp~dd~e~~~~~~~~l~~~~IIPLP 195 (270)
..+++||.|-..--. -.++|++..+ ++...|+- | .-+.+++.+.+.++.
T Consensus 635 ~~~~~Gd~V~v~~~~--------~~g~v~~i~~-~~~~~V~~--------g--~~k~~v~~~~l~~~~ 683 (782)
T PRK00409 635 EELKVGDEVKYLSLG--------QKGEVLSIPD-DKEAIVQA--------G--IMKMKVPLSDLEKIQ 683 (782)
T ss_pred cCCCCCCEEEEccCC--------ceEEEEEEcC-CCeEEEEE--------C--CEEEEEeHHHceeCc
Confidence 558999998664311 1488998864 34566643 1 246889999998776
No 65
>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=21.85 E-value=1.5e+02 Score=22.92 Aligned_cols=36 Identities=17% Similarity=0.203 Sum_probs=28.9
Q ss_pred cCCCCeeEEeeccCCCCCCCEEEEEEEeEeCCCCeEEEecC
Q 024272 130 SLKGEQVAARVTAENADKDEWFVVKVMHFDRETKEFEVLDE 170 (270)
Q Consensus 130 ~~~G~~VAa~v~~~~~~~~~WILa~Vv~~~~~~~rYeV~D~ 170 (270)
+.+||.|=||+.. --|--|+|.+.....++|.|.=.
T Consensus 1 f~~gdlVWaK~~g-----~P~WPa~I~~~~~~~~k~~V~Ff 36 (80)
T cd06080 1 FEKNDLVWAKIQG-----YPWWPAVIKSISRKKQKARVNFI 36 (80)
T ss_pred CCCCCEEEEeCCC-----CCCCCEEEeeecCCCCEEEEEEe
Confidence 3689999999974 34668899888766788999876
No 66
>PLN00045 photosystem I reaction center subunit IV; Provisional
Probab=21.78 E-value=1.4e+02 Score=24.15 Aligned_cols=39 Identities=23% Similarity=0.411 Sum_probs=30.3
Q ss_pred ccccccCCCCeeEEeeccCCCCCCCEE--EEEEEeEeCC-CCeEEEe
Q 024272 125 LDTCASLKGEQVAARVTAENADKDEWF--VVKVMHFDRE-TKEFEVL 168 (270)
Q Consensus 125 ~~~~~~~~G~~VAa~v~~~~~~~~~WI--La~Vv~~~~~-~~rYeV~ 168 (270)
|+...++.|++|-.+-+ +.-|. .+.|+++|.+ +-+|-|.
T Consensus 35 pp~ig~~RGskVrIlR~-----ESYWyn~vGtVvsVDq~~girYPVv 76 (101)
T PLN00045 35 PPPIGPKRGSKVKILRP-----ESYWFNDVGKVVAVDQDPGVRYPVV 76 (101)
T ss_pred CCCcccCCCCEEEEccc-----cceeecCcceEEEEeCCCCcccceE
Confidence 55667889999987764 46798 5899999877 6788774
No 67
>COG1137 YhbG ABC-type (unclassified) transport system, ATPase component [General function prediction only]
Probab=21.26 E-value=1.2e+02 Score=28.13 Aligned_cols=37 Identities=24% Similarity=0.388 Sum_probs=25.3
Q ss_pred CCCCCeEEEeCCC----CCccccEEEecCCCCCCCCCeEEEecCCC
Q 024272 205 FPPGRHVLAVYPG----TTALYKATVVSTPRKRKTDDYLLEFDDDE 246 (270)
Q Consensus 205 f~kg~~VLAlYP~----TT~FY~A~V~~~p~~~~~~~Y~L~FeDd~ 246 (270)
+.+|..|==|=|+ |||||-.+=.-.| + ++ ++.|+|.+
T Consensus 27 v~~GEiVGLLGPNGAGKTT~Fymi~Glv~~-d--~G--~i~ld~~d 67 (243)
T COG1137 27 VNSGEIVGLLGPNGAGKTTTFYMIVGLVRP-D--SG--KILLDDED 67 (243)
T ss_pred EcCCcEEEEECCCCCCceeEEEEEEEEEec-C--Cc--eEEECCcc
Confidence 4455666556666 9999998877776 2 22 77887754
No 68
>PRK06397 V-type ATP synthase subunit H; Validated
Probab=20.84 E-value=3e+02 Score=22.50 Aligned_cols=46 Identities=26% Similarity=0.368 Sum_probs=29.9
Q ss_pred HHHHHHHhhhHHHHHHH-HHHHHhhcCCcccccCCCcchHHHHHHHHHHHHHHHHHHH
Q 024272 16 RELDRLRKEQEDVLLEI-NKMHKKLHNTPEVIEKPGDNSLTKLKSLYIQAKELSENEV 72 (270)
Q Consensus 16 ~el~~lr~~~e~~l~~I-~k~h~k~~~~~e~~~k~~~~~~~kL~~lY~~a~~~ae~E~ 72 (270)
+|+.++..+||..+.++ .|..+++....| -+.+.|..+...+.+|+
T Consensus 24 kEI~~~k~eqe~~iKEa~~k~ee~~~ktee-----------E~~~~Y~~~l~e~Rkea 70 (111)
T PRK06397 24 KEIANIKNEQENEIKEAKSKYEEKAKKTEE-----------ESLNMYNAALMEARKEA 70 (111)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhHH-----------HHHHHHHHHHHHHHHHH
Confidence 67778888888888887 555556555322 36677777666555443
No 69
>PF00430 ATP-synt_B: ATP synthase B/B' CF(0); InterPro: IPR002146 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. F-ATPases (also known as F1F0-ATPase, or H(+)-transporting two-sector ATPase) (3.6.3.14 from EC) are composed of two linked complexes: the F1 ATPase complex is the catalytic core and is composed of 5 subunits (alpha, beta, gamma, delta, epsilon), while the F0 ATPase complex is the membrane-embedded proton channel that is composed of at least 3 subunits (A-C), nine in mitochondria (A-G, F6, F8). Both the F1 and F0 complexes are rotary motors that are coupled back-to-back. In the F1 complex, the central gamma subunit forms the rotor inside the cylinder made of the alpha(3)beta(3) subunits, while in the F0 complex, the ring-shaped C subunits forms the rotor. The two rotors rotate in opposite directions, but the F0 rotor is usually stronger, using the force from the proton gradient to push the F1 rotor in reverse in order to drive ATP synthesis []. These ATPases can also work in reverse to hydrolyse ATP to create a proton gradient. This entry represents subunits B and B' from the F0 complex in F-ATPases found in chloroplasts and in bacterial plasma membranes. The B subunits are part of the peripheral stalk that links the F1 and F0 complexes together, and which acts as a stator to prevent certain subunits from rotating with the central rotary element. The peripheral stalk differs in subunit composition between mitochondrial, chloroplast and bacterial F-ATPases. In bacterial and chloroplast F-ATPases, the peripheral stalk is composed of one copy of the delta subunit (homologous to OSCP in mitochondria), and two copies of subunit B in bacteria, or one copy each of subunits B and B' in chloroplasts and photosynthetic bacteria []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0015078 hydrogen ion transmembrane transporter activity, 0015986 ATP synthesis coupled proton transport, 0045263 proton-transporting ATP synthase complex, coupling factor F(o); PDB: 1L2P_A 2KHK_A 1B9U_A.
Probab=20.79 E-value=4.1e+02 Score=20.91 Aligned_cols=33 Identities=24% Similarity=0.345 Sum_probs=19.4
Q ss_pred HHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhcC
Q 024272 9 ADILDKSRELDRLRKEQEDVLLEINKMHKKLHN 41 (270)
Q Consensus 9 ~~i~~~l~el~~lr~~~e~~l~~I~k~h~k~~~ 41 (270)
..|...+.+...++.+.+..+.+..+....+..
T Consensus 33 ~~I~~~~~~a~~~~~ea~~~~~e~~~~l~~a~~ 65 (132)
T PF00430_consen 33 AKIQSELEEAEELKEEAEQLLAEYEEKLAEARE 65 (132)
T ss_dssp -HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456666667766666666666666544444443
No 70
>PLN02381 valyl-tRNA synthetase
Probab=20.51 E-value=2.8e+02 Score=31.05 Aligned_cols=74 Identities=18% Similarity=0.209 Sum_probs=48.7
Q ss_pred HHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhcCCcccccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 024272 9 ADILDKSRELDRLRKEQEDVLLEINKMHKKLHNTPEVIEKPGDNSLTKLKSLYIQAKELSENEVHVSNLLVGQLDALLP 87 (270)
Q Consensus 9 ~~i~~~l~el~~lr~~~e~~l~~I~k~h~k~~~~~e~~~k~~~~~~~kL~~lY~~a~~~ae~E~~~~~~~~~~i~~l~~ 87 (270)
.++-+.-+|+.+|.++.+.+-.+|.+...+|..+ .=++|-.+. +......-.+..+.|...+...+..|..+.+
T Consensus 990 ~~~iD~~~E~~rL~K~l~klekei~~~~~kLsN~-~F~~KAP~~----vve~e~~kl~~~~~~l~~l~~~l~~l~~~~~ 1063 (1066)
T PLN02381 990 QGAVNAEAELEKLRNKMDEIQKQQEKLEKKMNAS-GYKEKVPAN----IQEEDARKLTKLLQELEFFEKESKRLEAETS 1063 (1066)
T ss_pred CcccCHHHHHHHHHHHHHHHHHHHHHHHhhhcCC-chhhcCCHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 3445567889999999999999999998888873 222233333 3333334445666677777777777776653
Done!