Query 023923
Match_columns 275
No_of_seqs 162 out of 562
Neff 6.3
Searched_HMMs 46136
Date Fri Mar 29 07:38:21 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/023923.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/023923hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF05712 MRG: MRG; InterPro: 100.0 3.2E-36 7E-41 263.8 7.4 116 160-275 18-152 (194)
2 KOG3001 Dosage compensation re 100.0 2.1E-32 4.5E-37 260.9 3.9 227 49-275 5-335 (391)
3 PF11717 Tudor-knot: RNA bindi 99.9 1.6E-21 3.5E-26 138.0 7.1 53 52-104 1-54 (55)
4 PLN00104 MYST -like histone ac 99.6 9.6E-16 2.1E-20 148.1 9.3 56 50-105 52-113 (450)
5 smart00333 TUDOR Tudor domain. 97.9 2.4E-05 5.2E-10 54.7 5.5 51 51-106 2-53 (57)
6 smart00561 MBT Present in Dros 97.9 6.3E-05 1.4E-09 59.1 7.5 55 48-106 24-83 (96)
7 COG5027 SAS2 Histone acetyltra 97.5 5.3E-05 1.2E-09 71.4 3.0 53 54-106 8-60 (395)
8 smart00743 Agenet Tudor-like d 97.5 0.0004 8.6E-09 49.4 6.2 52 51-105 2-55 (61)
9 cd00024 CHROMO Chromatin organ 97.5 0.00013 2.8E-09 50.3 3.4 38 69-106 6-45 (55)
10 smart00298 CHROMO Chromatin or 97.4 0.00012 2.7E-09 50.2 3.0 37 69-105 5-42 (55)
11 PTZ00064 histone acetyltransfe 97.3 8.3E-05 1.8E-09 73.2 1.5 26 80-105 148-173 (552)
12 cd04508 TUDOR Tudor domains ar 97.1 0.0012 2.5E-08 44.4 5.2 45 55-104 1-47 (48)
13 PF09465 LBR_tudor: Lamin-B re 96.9 0.0034 7.5E-08 44.3 5.6 39 49-89 3-43 (55)
14 PF06003 SMN: Survival motor n 96.8 0.0025 5.4E-08 58.7 6.3 57 49-109 66-124 (264)
15 PF05641 Agenet: Agenet domain 96.7 0.0046 1E-07 45.2 5.8 52 52-106 1-63 (68)
16 cd05162 PWWP The PWWP domain, 96.6 0.0042 9.2E-08 47.3 4.9 58 52-111 1-66 (87)
17 PF00855 PWWP: PWWP domain; I 96.3 0.0087 1.9E-07 45.0 5.1 57 52-111 1-62 (86)
18 PLN03239 histone acetyltransfe 96.0 0.0022 4.7E-08 61.0 0.5 23 83-105 1-23 (351)
19 cd05834 HDGF_related The PWWP 95.7 0.017 3.7E-07 44.1 4.3 57 51-109 2-60 (83)
20 PF00385 Chromo: Chromo (CHRro 95.7 0.032 6.9E-07 38.6 5.3 38 69-106 4-44 (55)
21 cd05837 MSH6_like The PWWP dom 95.6 0.018 4E-07 46.2 4.5 59 51-110 2-71 (110)
22 smart00293 PWWP domain with co 95.1 0.045 9.8E-07 39.3 4.6 54 52-107 1-63 (63)
23 PF02820 MBT: mbt repeat; Int 94.1 0.18 3.9E-06 37.2 5.9 39 64-106 12-52 (73)
24 KOG2748 Uncharacterized conser 92.6 0.041 8.9E-07 52.2 0.5 42 66-107 10-52 (369)
25 cd05840 SPBC215_ISWI_like The 92.4 0.26 5.6E-06 38.4 4.7 59 52-112 1-70 (93)
26 PF07039 DUF1325: SGF29 tudor- 92.2 0.26 5.6E-06 40.8 4.7 44 48-92 68-113 (130)
27 cd05835 Dnmt3b_related The PWW 91.9 0.24 5.1E-06 38.0 3.9 55 52-108 1-60 (87)
28 cd05836 N_Pac_NP60 The PWWP do 89.5 0.77 1.7E-05 35.2 4.8 56 52-109 1-62 (86)
29 cd06080 MUM1_like Mutated mela 87.8 1.6 3.5E-05 33.2 5.5 53 52-107 1-54 (80)
30 PF15057 DUF4537: Domain of un 87.5 1.4 3E-05 36.1 5.4 59 51-112 55-118 (124)
31 cd05838 WHSC1_related The PWWP 85.8 1.4 2.9E-05 34.4 4.3 55 53-109 2-65 (95)
32 PF00567 TUDOR: Tudor domain; 73.3 11 0.00023 28.7 5.7 52 51-107 51-104 (121)
33 cd05839 BR140_related The PWWP 73.3 5 0.00011 32.4 3.8 59 52-111 1-83 (111)
34 cd05841 BS69_related The PWWP 72.6 6.8 0.00015 30.0 4.2 53 52-110 7-61 (83)
35 KOG4327 mRNA splicing protein 71.1 4.1 9E-05 36.1 3.0 42 51-94 67-110 (218)
36 PF08940 DUF1918: Domain of un 70.8 6.3 0.00014 28.2 3.4 37 53-89 4-43 (58)
37 PF15057 DUF4537: Domain of un 70.4 9.7 0.00021 31.1 5.0 47 55-107 1-49 (124)
38 KOG3038 Histone acetyltransfer 65.0 12 0.00025 34.6 4.7 39 48-87 195-235 (264)
39 KOG3766 Polycomb group protein 63.5 15 0.00032 37.0 5.6 49 51-102 200-252 (478)
40 KOG2039 Transcriptional coacti 59.1 19 0.00041 38.8 5.8 63 43-110 687-751 (875)
41 KOG2747 Histone acetyltransfer 59.0 2.2 4.7E-05 41.6 -1.1 35 65-99 34-69 (396)
42 PHA02763 hypothetical protein; 53.5 1.4 3.1E-05 34.0 -2.6 51 51-102 27-78 (102)
43 PF13495 Phage_int_SAM_4: Phag 48.1 31 0.00068 25.0 3.9 44 195-239 38-81 (85)
44 KOG3026 Splicing factor SPF30 46.0 23 0.0005 32.4 3.3 29 51-79 90-120 (262)
45 cd04716 BAH_plantDCM_I BAH, or 46.0 36 0.00077 27.8 4.3 33 50-82 2-36 (122)
46 smart00739 KOW KOW (Kyprides, 45.0 43 0.00093 19.1 3.5 24 52-75 2-26 (28)
47 KOG3766 Polycomb group protein 42.1 20 0.00044 36.0 2.6 56 41-101 298-356 (478)
48 cd04714 BAH_BAHCC1 BAH, or Bro 41.9 46 0.001 26.8 4.3 29 51-79 3-34 (121)
49 smart00439 BAH Bromo adjacent 41.3 70 0.0015 24.6 5.2 35 52-86 2-41 (120)
50 PF02839 CBM_5_12: Carbohydrat 41.3 17 0.00038 23.3 1.4 23 46-70 4-26 (41)
51 cd04715 BAH_Orc1p_like BAH, or 39.9 66 0.0014 27.4 5.1 38 49-86 27-68 (159)
52 KOG2573 Ribosome biogenesis pr 39.4 61 0.0013 32.0 5.3 79 168-250 69-147 (498)
53 PF10781 DSRB: Dextransucrase 39.4 90 0.002 22.3 4.8 39 53-91 2-41 (62)
54 cd04717 BAH_polybromo BAH, or 36.6 86 0.0019 24.9 5.1 29 50-78 2-33 (121)
55 PRK10708 hypothetical protein; 36.4 1.1E+02 0.0024 21.9 4.8 39 53-91 2-41 (62)
56 PF12148 DUF3590: Protein of u 35.1 1.1E+02 0.0024 23.6 5.1 35 58-92 2-42 (85)
57 KOG3001 Dosage compensation re 33.6 5.8 0.00013 38.8 -2.6 66 48-113 44-143 (391)
58 cd04370 BAH BAH, or Bromo Adja 31.0 81 0.0018 24.1 4.0 30 50-79 2-36 (123)
59 TIGR00922 nusG transcription t 30.9 1.4E+02 0.003 25.0 5.8 40 50-89 118-158 (172)
60 PF01426 BAH: BAH domain; Int 28.8 1.4E+02 0.003 22.9 5.0 31 51-81 2-35 (119)
61 smart00495 ChtBD3 Chitin-bindi 28.2 98 0.0021 19.7 3.4 23 46-70 4-26 (41)
62 cd04721 BAH_plant_1 BAH, or Br 26.3 1.1E+02 0.0024 25.0 4.2 32 49-80 5-37 (130)
63 PRK05609 nusG transcription an 25.9 2.1E+02 0.0046 24.0 6.1 41 50-92 125-166 (181)
64 COG3458 Acetyl esterase (deace 25.8 1.2E+02 0.0026 28.7 4.7 43 56-98 52-100 (321)
65 PF02559 CarD_CdnL_TRCF: CarD- 25.1 1.1E+02 0.0024 23.3 3.7 50 51-103 1-51 (98)
66 PF06543 Lac_bphage_repr: Lact 24.1 24 0.00052 24.3 -0.2 9 93-101 19-27 (49)
67 KOG1904 Transcription coactiva 23.6 56 0.0012 33.0 2.3 58 51-110 12-73 (496)
68 TIGR01956 NusG_myco NusG famil 22.7 3.9E+02 0.0085 24.8 7.4 41 50-92 204-245 (258)
69 KOG2618 Uncharacterized conser 22.6 73 0.0016 30.4 2.6 70 23-100 91-165 (366)
70 PF07154 DUF1392: Protein of u 22.2 2.6E+02 0.0055 23.8 5.5 35 51-85 87-122 (150)
71 PF08605 Rad9_Rad53_bind: Fung 21.9 1.3E+02 0.0028 24.9 3.8 35 55-91 13-47 (131)
72 PF04319 NifZ: NifZ domain; I 21.8 1.4E+02 0.003 22.5 3.5 12 51-62 4-15 (75)
73 PF09274 ParG: ParG; InterPro 21.7 2.8E+02 0.0062 20.9 5.2 39 163-212 34-72 (76)
74 cd04713 BAH_plant_3 BAH, or Br 21.5 1.9E+02 0.004 24.1 4.7 30 49-78 18-49 (146)
75 PF15136 UPF0449: Uncharacteri 21.4 66 0.0014 25.4 1.8 21 191-211 7-27 (97)
No 1
>PF05712 MRG: MRG; InterPro: IPR008676 This family consists of three different eukaryotic proteins (mortality factor 4 (MORF4/MRG15), male-specific lethal 3(MSL-3) and ESA1-associated factor 3(EAF3)). It is thought that the MRG family is involved in transcriptional regulation via histone acetylation [, ].; GO: 0005634 nucleus; PDB: 2AQL_A 2F5J_A 2LKM_B 2Y0N_D.
Probab=100.00 E-value=3.2e-36 Score=263.83 Aligned_cols=116 Identities=50% Similarity=0.735 Sum_probs=87.8
Q ss_pred ccCCceeEEeCChhHHHHHHHHHHHHhhcCceeeCCCCCCHHHHHHHHHHhhhhcCCc--c-----hhhHHHHHHHHHHH
Q 023923 160 LQMENFVNIQIPPPLKKQLVDDCEFITHLGKLVKLPRTPNVDDILEKYCDYRSKKDGL--V-----ADSTGEIVKGLRCY 232 (275)
Q Consensus 160 ~~~~~~i~i~iP~~Lk~~LvdD~~~I~~~~~L~~LPa~~tV~~Il~~Y~~~~~~~~~~--~-----~~~~~E~~~Gl~~y 232 (275)
.....++.|+||..||++|+|||++|+++++|++|||++||++||++|+++....... . ...++|+++||++|
T Consensus 18 ~~~~~~~~i~lP~~Lk~~LvdD~~~I~~~~~l~~LP~~~~V~~IL~~y~~~~~~~~~~~~~~~~~~~~~~~e~~~Gl~~y 97 (194)
T PF05712_consen 18 SEEEPEIKIELPEELKKILVDDWELITKEKKLVKLPAKPSVDDILEDYVESFADSDDSEEESAEQERDLLKEVADGLRDY 97 (194)
T ss_dssp ------------HHHHHHHHHHHHHHHTS-EEE-SS-SSBHHHHHHHHHHHHHHCHCSS---THH--HHHHHHHHHHHHH
T ss_pred cccCceEEEECCHHHHHHHHHHHHHHHcCCceeeCCCCCCHHHHHHHHHHHHhhcccCcchhHHHHHHHHHHHHHHHHHH
Confidence 3556779999999999999999999999999999999999999999999998753211 1 14689999999999
Q ss_pred HhhhcCccccChhhHhhHHHhhhC------------CCCCccccChhhhhhccCC
Q 023923 233 FDKALPIMLLYKSEREQYEDSMAA------------DVSPSSVYGAEHLLRLFVA 275 (275)
Q Consensus 233 Fn~~L~~~LLY~~ER~Qy~~~~~~------------~~~~S~~YG~~HLLRL~vk 275 (275)
||++||++|||++||.||.+++.. +.+||++||++|||||||+
T Consensus 98 Fn~~L~~~LLY~~Er~Qy~~~~~~~~~~~~~~~~~~~~~ps~~YG~~HLLRL~vk 152 (194)
T PF05712_consen 98 FNKALGSQLLYKFERPQYDELLKKHATRDDSPPDEPGFRPSDIYGAIHLLRLFVK 152 (194)
T ss_dssp HHHHCCCCTS-GGGHHHHHHHHHHS---------STTS-HHHC-BHHHHHHHHHH
T ss_pred HHHHhccccCcHHHHHHHHHHHHhcccchhccccCCCCCHHhhccHHHHHHHHHH
Confidence 999999999999999999999864 4699999999999999985
No 2
>KOG3001 consensus Dosage compensation regulatory complex/histone acetyltransferase complex, subunit MSL-3/MRG15/EAF3, and related CHROMO domain-containing proteins [Chromatin structure and dynamics; Transcription]
Probab=99.97 E-value=2.1e-32 Score=260.92 Aligned_cols=227 Identities=34% Similarity=0.452 Sum_probs=166.9
Q ss_pred CCCcCCCCEEEEEeCCeeeeeEEEEEEeeCCeeEEEEEEcCCCCCcceeeecccccccCHHhhhhchhhhh---------
Q 023923 49 SCPYQVNEKVLAFFQSHVYEAKVIQVQYRLKEWTFRVHYLGWNKSWDEWVGVHRLMKDTEANRHRQPVFTK--------- 119 (275)
Q Consensus 49 ~~~f~vge~vl~~~~~~~y~AkIl~i~~~~~~~~Y~VHY~GWn~r~DEWV~~~ri~k~t~en~~~qk~L~~--------- 119 (275)
.+.|..||+|+|+|+.+.|+|+|++....+....|.+||.||+..|||||+.-+.++++++|...++.+..
T Consensus 5 ~~~~~~~e~~~~~~~~~~~eak~~k~~~~~~~~~~~i~~~k~~~~~~e~v~~~~~~k~~e~~~~~~e~~~~~~~~~~~~~ 84 (391)
T KOG3001|consen 5 NIEVLSNERVLCFHGPLMEEAKIVKKEIGDKSSKYKIHRSKWRDSIGEEVPETLKLKPYEANAKDEEELRMNKSLSSQDE 84 (391)
T ss_pred cccccccceeeecccchhhhhhhhhhccccCcccccccccccCCccchhhhhhhcCCcchhhHHHHHHhhhhcccccccc
Confidence 34688999999999999999999999999999999999999999999999999999999999998887762
Q ss_pred ------hhh-hhh-----c---ccc------------CCccCC----------------C-------------CC---CC
Q 023923 120 ------KRD-EDK-----N---LKS------------GHALQM----------------K-------------PR---SS 140 (275)
Q Consensus 120 ------~~~-~~k-----~---~k~------------~r~~~~----------------k-------------~k---~s 140 (275)
+.. ..+ + .++ .+.... + .+ .+
T Consensus 85 ~~~~~~~k~k~~~~~~~k~a~~~k~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~g~~~~~~~~~~~s~~~~~k~~~~~~~ 164 (391)
T KOG3001|consen 85 DETITKAKGKECKRKAFKGANPRKKHRTTMPTAGMNEEKIPVGKNVDRIKEGVDGQRKEKSNSGPPSLQGTRKSKQEKPS 164 (391)
T ss_pred ccccccchhhHHHHHHhhccCccccccccccccccccccccccccccccccCccccccccCCCCCceeeecccccccccc
Confidence 100 000 0 000 000000 0 00 00
Q ss_pred C--------------C------CCC---CccCCCC-------cccccccccCCceeEEeCChhHHHHHHHHHHHHhhcCc
Q 023923 141 N--------------V------GRG---RKRKNDS-------LNKETNGLQMENFVNIQIPPPLKKQLVDDCEFITHLGK 190 (275)
Q Consensus 141 ~--------------~------~~~---~kr~~~~-------~~e~~~~~~~~~~i~i~iP~~Lk~~LvdD~~~I~~~~~ 190 (275)
+ + .+. .+|.... ..+.........++.+.||..|+..|+|||+.+++..+
T Consensus 165 ~~~~~~~s~~~s~~~~~~~~e~~~~~~~~~~~~~~e~s~~~~~v~~~~~~~~~~~v~~~l~~~~~~~l~dd~~~vt~~~~ 244 (391)
T KOG3001|consen 165 TSDKFDTSAAESVPSPAREQESSPQPPRKKRSTISESSESNPLVETPPTLPATVEVKLSLPQELKRSLVDDWDSVTEVDS 244 (391)
T ss_pred cCCCCCCchhccCCCccchhhcccccccccccccccccCCCCcccCCCCCCccccccccCchhhcccccchhhhhhhhhh
Confidence 0 0 000 0000000 00001112234578899999999999999999999999
Q ss_pred eeeCCCCCCHHHHHHHHHHhhhhcCC--c-chhhHHHHHHHHHHHHhhhcCccccChhhHhhHHHhhhCC---CCCcccc
Q 023923 191 LVKLPRTPNVDDILEKYCDYRSKKDG--L-VADSTGEIVKGLRCYFDKALPIMLLYKSEREQYEDSMAAD---VSPSSVY 264 (275)
Q Consensus 191 L~~LPa~~tV~~Il~~Y~~~~~~~~~--~-~~~~~~E~~~Gl~~yFn~~L~~~LLY~~ER~Qy~~~~~~~---~~~S~~Y 264 (275)
++.+|+.++|+.|+..|......... . ....+.+...|++.|||.+||.+|||++||.||.+++.+. ..||++|
T Consensus 245 ~~~~~~~~~~e~~~~~~~~~~k~~~~~~~~~~~~~~~~~~g~~~yfn~~lG~~llyk~Er~qy~~~~~~~~~Ds~~s~vy 324 (391)
T KOG3001|consen 245 LAELPQDVTVEQILKKYGFSEKKASGLSNSKEPEVLEVAAGLKRYFNGQLGVMLLYKFERLQYAEVVAKYPKDSPPSNVY 324 (391)
T ss_pred hhcccCCchhhhhhhhhhHhhhhccccccccccccccccccceeeecccchhhhhhhhhhHHHHHHHhcCCCCCCcccch
Confidence 99999999999999999988764331 1 2223345558999999999999999999999999999643 3599999
Q ss_pred ChhhhhhccCC
Q 023923 265 GAEHLLRLFVA 275 (275)
Q Consensus 265 G~~HLLRL~vk 275 (275)
|++||||||||
T Consensus 325 Ga~HLlRLfvK 335 (391)
T KOG3001|consen 325 GAEHLLRLFVK 335 (391)
T ss_pred hHHHHHHHHhH
Confidence 99999999986
No 3
>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=99.85 E-value=1.6e-21 Score=138.05 Aligned_cols=53 Identities=42% Similarity=0.777 Sum_probs=48.2
Q ss_pred cCCCCEEEEEe-CCeeeeeEEEEEEeeCCeeEEEEEEcCCCCCcceeeeccccc
Q 023923 52 YQVNEKVLAFF-QSHVYEAKVIQVQYRLKEWTFRVHYLGWNKSWDEWVGVHRLM 104 (275)
Q Consensus 52 f~vge~vl~~~-~~~~y~AkIl~i~~~~~~~~Y~VHY~GWn~r~DEWV~~~ri~ 104 (275)
|+||++|+|.+ .+.+|+|+|++++..++..+|||||.|||+||||||+.++|.
T Consensus 1 ~~vG~~v~~~~~~~~~y~A~I~~~r~~~~~~~YyVHY~g~nkR~DeWV~~~~i~ 54 (55)
T PF11717_consen 1 FEVGEKVLCKYKDGQWYEAKILDIREKNGEPEYYVHYQGWNKRLDEWVPESRIR 54 (55)
T ss_dssp --TTEEEEEEETTTEEEEEEEEEEEECTTCEEEEEEETTSTGCC-EEEETTTEE
T ss_pred CCcCCEEEEEECCCcEEEEEEEEEEecCCCEEEEEEcCCCCCCceeeecHHHcc
Confidence 68999999999 889999999999999999999999999999999999999984
No 4
>PLN00104 MYST -like histone acetyltransferase; Provisional
Probab=99.62 E-value=9.6e-16 Score=148.07 Aligned_cols=56 Identities=27% Similarity=0.532 Sum_probs=50.2
Q ss_pred CCcCCCCEEEEEeC--CeeeeeEEEEEEee----CCeeEEEEEEcCCCCCcceeeecccccc
Q 023923 50 CPYQVNEKVLAFFQ--SHVYEAKVIQVQYR----LKEWTFRVHYLGWNKSWDEWVGVHRLMK 105 (275)
Q Consensus 50 ~~f~vge~vl~~~~--~~~y~AkIl~i~~~----~~~~~Y~VHY~GWn~r~DEWV~~~ri~k 105 (275)
..|+||++|+|+|+ +.+|+|+|++++.. ++...|||||.|||+||||||+.+||.-
T Consensus 52 ~~~~VGekVla~~~~Dg~~~~A~VI~~R~~~~~~~~~~~YYVHY~g~nrRlDEWV~~~rLdl 113 (450)
T PLN00104 52 LPLEVGTRVMCRWRFDGKYHPVKVIERRRGGSGGPNDYEYYVHYTEFNRRLDEWVKLEQLDL 113 (450)
T ss_pred ceeccCCEEEEEECCCCCEEEEEEEEEeccCCCCCCCceEEEEEecCCccHhhccCHhhccc
Confidence 36999999999998 79999999999973 3557899999999999999999999954
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=97.92 E-value=2.4e-05 Score=54.66 Aligned_cols=51 Identities=24% Similarity=0.391 Sum_probs=43.9
Q ss_pred CcCCCCEEEEEe-CCeeeeeEEEEEEeeCCeeEEEEEEcCCCCCcceeeeccccccc
Q 023923 51 PYQVNEKVLAFF-QSHVYEAKVIQVQYRLKEWTFRVHYLGWNKSWDEWVGVHRLMKD 106 (275)
Q Consensus 51 ~f~vge~vl~~~-~~~~y~AkIl~i~~~~~~~~Y~VHY~GWn~r~DEWV~~~ri~k~ 106 (275)
.|++|+.|++.+ ++.||.|+|+++... ..|.|+|.++... +||+.+.|...
T Consensus 2 ~~~~G~~~~a~~~d~~wyra~I~~~~~~---~~~~V~f~D~G~~--~~v~~~~l~~l 53 (57)
T smart00333 2 TFKVGDKVAARWEDGEWYRARIIKVDGE---QLYEVFFIDYGNE--EVVPPSDLRPL 53 (57)
T ss_pred CCCCCCEEEEEeCCCCEEEEEEEEECCC---CEEEEEEECCCcc--EEEeHHHeecC
Confidence 488999999998 889999999999764 5799999998875 89998877653
No 6
>smart00561 MBT Present in Drosophila Scm, l(3)mbt, and vertebrate SCML2. Present in Drosophila Scm, l(3)mbt, and vertebrate SCML2. These proteins are involved in transcriptional regulation.
Probab=97.87 E-value=6.3e-05 Score=59.10 Aligned_cols=55 Identities=20% Similarity=0.442 Sum_probs=44.8
Q ss_pred CCCCcCCCCEEEEEeCC---eeeeeEEEEEEeeCCeeEEEEEEcCCCCCcceeeecc--ccccc
Q 023923 48 ASCPYQVNEKVLAFFQS---HVYEAKVIQVQYRLKEWTFRVHYLGWNKSWDEWVGVH--RLMKD 106 (275)
Q Consensus 48 ~~~~f~vge~vl~~~~~---~~y~AkIl~i~~~~~~~~Y~VHY~GWn~r~DEWV~~~--ri~k~ 106 (275)
+...|++|-++.+.+.. .++-|.|.+|. +....|||.||..++|.|+..+ +|+..
T Consensus 24 ~~~~F~vGmkLEavD~~~~~~i~vAtV~~v~----g~~l~v~~dg~~~~~D~W~~~~S~~I~Pv 83 (96)
T smart00561 24 PPNGFKVGMKLEAVDPRNPSLICVATVVEVK----GYRLLLHFDGWDDKYDFWCDADSPDIHPV 83 (96)
T ss_pred ccCcccCCCEEEEECCCCCceEEEEEEEEEE----CCEEEEEEccCCCcCCEEEECCCCCcccC
Confidence 34469999999998853 67889999887 2489999999999999999885 56543
No 7
>COG5027 SAS2 Histone acetyltransferase (MYST family) [Chromatin structure and dynamics]
Probab=97.54 E-value=5.3e-05 Score=71.45 Aligned_cols=53 Identities=23% Similarity=0.434 Sum_probs=47.5
Q ss_pred CCCEEEEEeCCeeeeeEEEEEEeeCCeeEEEEEEcCCCCCcceeeeccccccc
Q 023923 54 VNEKVLAFFQSHVYEAKVIQVQYRLKEWTFRVHYLGWNKSWDEWVGVHRLMKD 106 (275)
Q Consensus 54 vge~vl~~~~~~~y~AkIl~i~~~~~~~~Y~VHY~GWn~r~DEWV~~~ri~k~ 106 (275)
++.+|.+..+|....|.|+.+..+.....|||||..+|+|.||||..+.|.++
T Consensus 8 ~~sk~~~~~d~e~~~~~Il~~~~~k~~~~fyvh~~~~nrrl~e~i~~~~i~~~ 60 (395)
T COG5027 8 IKSKVASEKDGEARKAEILEINTRKSRIKFYVHYVELNRRLDEWITADLINLG 60 (395)
T ss_pred EEeeeeeecCCceeEEeeeeeccCccCccEEEeehhhhhhhhhheeccccccc
Confidence 45677777788899999999999988899999999999999999999999874
No 8
>smart00743 Agenet Tudor-like domain present in plant sequences. Domain in plant sequences with possible chromatin-associated functions.
Probab=97.47 E-value=0.0004 Score=49.40 Aligned_cols=52 Identities=23% Similarity=0.267 Sum_probs=40.3
Q ss_pred CcCCCCEEEEEe--CCeeeeeEEEEEEeeCCeeEEEEEEcCCCCCcceeeecccccc
Q 023923 51 PYQVNEKVLAFF--QSHVYEAKVIQVQYRLKEWTFRVHYLGWNKSWDEWVGVHRLMK 105 (275)
Q Consensus 51 ~f~vge~vl~~~--~~~~y~AkIl~i~~~~~~~~Y~VHY~GWn~r~DEWV~~~ri~k 105 (275)
.|.+|+.|.+++ .+.||+|+|+++.. ...|.|+|.+.....-+-|+.++|+.
T Consensus 2 ~~~~G~~Ve~~~~~~~~W~~a~V~~~~~---~~~~~V~~~~~~~~~~e~v~~~~LRp 55 (61)
T smart00743 2 DFKKGDRVEVFSKEEDSWWEAVVTKVLG---DGKYLVRYLTESEPLKETVDWSDLRP 55 (61)
T ss_pred CcCCCCEEEEEECCCCEEEEEEEEEECC---CCEEEEEECCCCcccEEEEeHHHccc
Confidence 489999999999 89999999999875 34799999994444445555555543
No 9
>cd00024 CHROMO Chromatin organization modifier (chromo) domain is a conserved region of around 50 amino acids found in a variety of chromosomal proteins, which appear to play a role in the functional organization of the eukaryotic nucleus. Experimental evidence implicates the chromo domain in the binding activity of these proteins to methylated histone tails and maybe RNA. May occur as single instance, in a tandem arrangement or followd by a related "chromo shadow" domain.
Probab=97.46 E-value=0.00013 Score=50.33 Aligned_cols=38 Identities=21% Similarity=0.389 Sum_probs=32.2
Q ss_pred eEEEEEEeeC--CeeEEEEEEcCCCCCcceeeeccccccc
Q 023923 69 AKVIQVQYRL--KEWTFRVHYLGWNKSWDEWVGVHRLMKD 106 (275)
Q Consensus 69 AkIl~i~~~~--~~~~Y~VHY~GWn~r~DEWV~~~ri~k~ 106 (275)
.+|++.+..+ +...|+|||.||+.+.|+|++.++|...
T Consensus 6 e~Il~~r~~~~~~~~~y~VkW~g~~~~~~tWe~~~~l~~~ 45 (55)
T cd00024 6 EKILDHRKKKDGGEYEYLVKWKGYSYSEDTWEPEENLEDC 45 (55)
T ss_pred eeeeeeeecCCCCcEEEEEEECCCCCccCccccHHHhCch
Confidence 4667666665 7889999999999999999999988764
No 10
>smart00298 CHROMO Chromatin organization modifier domain.
Probab=97.42 E-value=0.00012 Score=50.25 Aligned_cols=37 Identities=22% Similarity=0.431 Sum_probs=32.3
Q ss_pred eEEEEEE-eeCCeeEEEEEEcCCCCCcceeeecccccc
Q 023923 69 AKVIQVQ-YRLKEWTFRVHYLGWNKSWDEWVGVHRLMK 105 (275)
Q Consensus 69 AkIl~i~-~~~~~~~Y~VHY~GWn~r~DEWV~~~ri~k 105 (275)
++|++.+ ..++...|+|||.||+.+.|.|++.+.|..
T Consensus 5 ~~Il~~r~~~~~~~~ylVkW~g~~~~~~tW~~~~~l~~ 42 (55)
T smart00298 5 EKILDHRWKKKGELEYLVKWKGYSYSEDTWEPEENLLN 42 (55)
T ss_pred heeeeeeecCCCcEEEEEEECCCCCccCceeeHHHHHH
Confidence 5788887 667788999999999999999999988864
No 11
>PTZ00064 histone acetyltransferase; Provisional
Probab=97.32 E-value=8.3e-05 Score=73.19 Aligned_cols=26 Identities=31% Similarity=0.687 Sum_probs=23.8
Q ss_pred eeEEEEEEcCCCCCcceeeecccccc
Q 023923 80 EWTFRVHYLGWNKSWDEWVGVHRLMK 105 (275)
Q Consensus 80 ~~~Y~VHY~GWn~r~DEWV~~~ri~k 105 (275)
...|||||.|+|+|.||||..+||.-
T Consensus 148 ~~eyYVHy~g~nrRlD~WV~~~ri~~ 173 (552)
T PTZ00064 148 DYEFYVHFRGLNRRLDRWVKGKDIKL 173 (552)
T ss_pred CeEEEEEecCcCchHhhhcChhhccc
Confidence 45999999999999999999999865
No 12
>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=97.14 E-value=0.0012 Score=44.44 Aligned_cols=45 Identities=20% Similarity=0.347 Sum_probs=37.0
Q ss_pred CCEEEEEeC--CeeeeeEEEEEEeeCCeeEEEEEEcCCCCCcceeeeccccc
Q 023923 55 NEKVLAFFQ--SHVYEAKVIQVQYRLKEWTFRVHYLGWNKSWDEWVGVHRLM 104 (275)
Q Consensus 55 ge~vl~~~~--~~~y~AkIl~i~~~~~~~~Y~VHY~GWn~r~DEWV~~~ri~ 104 (275)
|+.|++.+. +.||.|+|+++.. ...|.|+|.++... +.|+.+.|.
T Consensus 1 G~~c~a~~~~d~~wyra~V~~~~~---~~~~~V~f~DyG~~--~~v~~~~l~ 47 (48)
T cd04508 1 GDLCLAKYSDDGKWYRAKITSILS---DGKVEVFFVDYGNT--EVVPLSDLR 47 (48)
T ss_pred CCEEEEEECCCCeEEEEEEEEECC---CCcEEEEEEcCCCc--EEEeHHHcC
Confidence 788999886 8999999999975 44799999999874 777776654
No 13
>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=96.86 E-value=0.0034 Score=44.28 Aligned_cols=39 Identities=23% Similarity=0.341 Sum_probs=28.5
Q ss_pred CCCcCCCCEEEEEeCC--eeeeeEEEEEEeeCCeeEEEEEEcC
Q 023923 49 SCPYQVNEKVLAFFQS--HVYEAKVIQVQYRLKEWTFRVHYLG 89 (275)
Q Consensus 49 ~~~f~vge~vl~~~~~--~~y~AkIl~i~~~~~~~~Y~VHY~G 89 (275)
+..|..|+.|.+.|.+ ++|+|+|++.+... ..|.|-|..
T Consensus 3 ~~k~~~Ge~V~~rWP~s~lYYe~kV~~~d~~~--~~y~V~Y~D 43 (55)
T PF09465_consen 3 SRKFAIGEVVMVRWPGSSLYYEGKVLSYDSKS--DRYTVLYED 43 (55)
T ss_dssp SSSS-SS-EEEEE-TTTS-EEEEEEEEEETTT--TEEEEEETT
T ss_pred cccccCCCEEEEECCCCCcEEEEEEEEecccC--ceEEEEEcC
Confidence 4579999999999976 89999999987643 478888864
No 14
>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=96.83 E-value=0.0025 Score=58.74 Aligned_cols=57 Identities=19% Similarity=0.334 Sum_probs=41.4
Q ss_pred CCCcCCCCEEEEEe--CCeeeeeEEEEEEeeCCeeEEEEEEcCCCCCcceeeecccccccCHH
Q 023923 49 SCPYQVNEKVLAFF--QSHVYEAKVIQVQYRLKEWTFRVHYLGWNKSWDEWVGVHRLMKDTEA 109 (275)
Q Consensus 49 ~~~f~vge~vl~~~--~~~~y~AkIl~i~~~~~~~~Y~VHY~GWn~r~DEWV~~~ri~k~t~e 109 (275)
...+.||++|+|.| +|.+|+|+|..|....+ .+.|.|.||+. -|.|..+.|+..+..
T Consensus 66 ~~~WkvGd~C~A~~s~Dg~~Y~A~I~~i~~~~~--~~~V~f~gYgn--~e~v~l~dL~~~~~~ 124 (264)
T PF06003_consen 66 NKKWKVGDKCMAVYSEDGQYYPATIESIDEEDG--TCVVVFTGYGN--EEEVNLSDLKPSEGD 124 (264)
T ss_dssp TT---TT-EEEEE-TTTSSEEEEEEEEEETTTT--EEEEEETTTTE--EEEEEGGGEEETT--
T ss_pred ccCCCCCCEEEEEECCCCCEEEEEEEEEcCCCC--EEEEEEcccCC--eEeeehhhhcccccc
Confidence 44799999999998 46999999999986544 68899999986 488888888776544
No 15
>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=96.73 E-value=0.0046 Score=45.23 Aligned_cols=52 Identities=17% Similarity=0.270 Sum_probs=35.6
Q ss_pred cCCCCEEEEEe-----CCeeeeeEEEEEEeeCCeeEEEEEEcCCCC------Ccceeeeccccccc
Q 023923 52 YQVNEKVLAFF-----QSHVYEAKVIQVQYRLKEWTFRVHYLGWNK------SWDEWVGVHRLMKD 106 (275)
Q Consensus 52 f~vge~vl~~~-----~~~~y~AkIl~i~~~~~~~~Y~VHY~GWn~------r~DEWV~~~ri~k~ 106 (275)
|++|+.|-++. .|.||.|+|++....+ .|+|-|..... .+-|||+..+|+..
T Consensus 1 F~~G~~VEV~s~e~g~~gaWf~a~V~~~~~~~---~~~V~Y~~~~~~~~~~~~l~e~V~~~~iRP~ 63 (68)
T PF05641_consen 1 FKKGDEVEVSSDEDGFRGAWFPATVLKENGDD---KYLVEYDDLPDEDGESPPLKEWVDARRIRPC 63 (68)
T ss_dssp --TT-EEEEEE-SBTT--EEEEEEEEEEETT----EEEEEETT-SS--------EEEEEGGGEEE-
T ss_pred CCCCCEEEEEEcCCCCCcEEEEEEEEEeCCCc---EEEEEECCcccccccccccEEEechheEECc
Confidence 78999998876 4699999999987654 89999964333 38899999888654
No 16
>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=96.58 E-value=0.0042 Score=47.27 Aligned_cols=58 Identities=28% Similarity=0.416 Sum_probs=47.2
Q ss_pred cCCCCEEEEEeCC-eeeeeEEEEEEeeC-------CeeEEEEEEcCCCCCcceeeecccccccCHHhh
Q 023923 52 YQVNEKVLAFFQS-HVYEAKVIQVQYRL-------KEWTFRVHYLGWNKSWDEWVGVHRLMKDTEANR 111 (275)
Q Consensus 52 f~vge~vl~~~~~-~~y~AkIl~i~~~~-------~~~~Y~VHY~GWn~r~DEWV~~~ri~k~t~en~ 111 (275)
|.+||.|++..+| -|+.|.|++..... ....|.|+|-| ...+ -||+.++|..+++...
T Consensus 1 f~~GdlVwaK~~g~pwWPa~V~~~~~~~~~~~~~~~~~~~~V~Ffg-~~~~-~wv~~~~l~pf~~~~~ 66 (87)
T cd05162 1 FRPGDLVWAKMKGYPWWPALVVDPPKDSKKAKKKAKEGKVLVLFFG-DKTF-AWVGAERLKPFTEHKE 66 (87)
T ss_pred CCCCCEEEEeCCCCCCCCEEEccccccchhhhccCCCCEEEEEEeC-CCcE-EEeCccceeeccchHH
Confidence 7899999999888 79999999987632 24699999999 3333 8999999998876654
No 17
>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=96.28 E-value=0.0087 Score=44.95 Aligned_cols=57 Identities=18% Similarity=0.289 Sum_probs=46.6
Q ss_pred cCCCCEEEEEeCC-eeeeeEEEEEEee----CCeeEEEEEEcCCCCCcceeeecccccccCHHhh
Q 023923 52 YQVNEKVLAFFQS-HVYEAKVIQVQYR----LKEWTFRVHYLGWNKSWDEWVGVHRLMKDTEANR 111 (275)
Q Consensus 52 f~vge~vl~~~~~-~~y~AkIl~i~~~----~~~~~Y~VHY~GWn~r~DEWV~~~ri~k~t~en~ 111 (275)
|.+|+.|++.-.| .|++|+|++.... .....|.|.|-|=+ .+ .||+.++|..++ ++.
T Consensus 1 f~~GdlVWaK~~g~pwWPa~V~~~~~~~~~~~~~~~~~V~Ffg~~-~~-~wv~~~~i~~f~-~~~ 62 (86)
T PF00855_consen 1 FRPGDLVWAKLKGYPWWPARVCDPDEKSKKKRKDGHVLVRFFGDN-DY-AWVKPSNIKPFS-EFK 62 (86)
T ss_dssp -STTEEEEEEETTSEEEEEEEEECCHCTSCSSSSTEEEEEETTTT-EE-EEEEGGGEEECC-HHH
T ss_pred CCCCCEEEEEeCCCCCCceEEeecccccccCCCCCEEEEEecCCC-CE-EEECHHHhhChh-hhH
Confidence 7899999998876 7999999998642 34569999999988 44 799999999998 444
No 18
>PLN03239 histone acetyltransferase; Provisional
Probab=95.98 E-value=0.0022 Score=61.02 Aligned_cols=23 Identities=30% Similarity=0.749 Sum_probs=21.0
Q ss_pred EEEEEcCCCCCcceeeecccccc
Q 023923 83 FRVHYLGWNKSWDEWVGVHRLMK 105 (275)
Q Consensus 83 Y~VHY~GWn~r~DEWV~~~ri~k 105 (275)
|||||.+.|+|+|+||+.+.|..
T Consensus 1 yYVh~~~~nkRlD~Wv~~~~l~~ 23 (351)
T PLN03239 1 YYVHYKDFNRRMDEWISKDKSNE 23 (351)
T ss_pred CeEEeccccchHhhhcChhhcch
Confidence 89999999999999999988743
No 19
>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=95.69 E-value=0.017 Score=44.08 Aligned_cols=57 Identities=16% Similarity=0.244 Sum_probs=47.7
Q ss_pred CcCCCCEEEEEeCC-eeeeeEEEEEEee-CCeeEEEEEEcCCCCCcceeeecccccccCHH
Q 023923 51 PYQVNEKVLAFFQS-HVYEAKVIQVQYR-LKEWTFRVHYLGWNKSWDEWVGVHRLMKDTEA 109 (275)
Q Consensus 51 ~f~vge~vl~~~~~-~~y~AkIl~i~~~-~~~~~Y~VHY~GWn~r~DEWV~~~ri~k~t~e 109 (275)
.|.+||.|++--.| -++.|+|++.... .....|.|.|-|.+.+ -||+.+.|..+++.
T Consensus 2 ~f~~GdlVwaK~kGyp~WPa~I~~~~~~~~~~~~~~V~FfGt~~~--a~v~~~~l~pf~~~ 60 (83)
T cd05834 2 QFKAGDLVFAKVKGYPAWPARVDEPEDWKPPGKKYPVYFFGTHET--AFLKPEDLFPYTEN 60 (83)
T ss_pred CCCCCCEEEEecCCCCCCCEEEecccccCCCCCEEEEEEeCCCCE--eEECHHHceecccc
Confidence 48999999998877 7899999998753 2346899999998765 89999999988764
No 20
>PF00385 Chromo: Chromo (CHRromatin Organisation MOdifier) domain; InterPro: IPR023780 The CHROMO (CHRromatin Organization MOdifier) domain [, , , ] is a conserved region of around 60 amino acids, originally identified in Drosophila modifiers of variegation. These are proteins that alter the structure of chromatin to the condensed morphology of heterochromatin, a cytologically visible condition where gene expression is repressed. In one of these proteins, Polycomb, the chromo domain has been shown to be important for chromatin targeting. Proteins that contain a chromo domain appear to fall into 3 classes. The first class includes proteins having an N-terminal chromo domain followed by a region termed the chromo shadow domain, with weak but significant sequence similarity to the N-terminal chromo domain,[], eg. Drosophila and human heterochromatin protein Su(var)205 (HP1). The second class includes proteins with a single chromo domain, eg. Drosophila protein Polycomb (Pc); mammalian modifier 3; human Mi-2 autoantigen and several yeast and Caenorhabditis elegans hypothetical proteins. In the third class paired tandem chromo domains are found, eg. in mammalian DNA-binding/helicase proteins CHD-1 to CHD-4 and yeast protein CHD1. Functional dissections of chromo domain proteins suggests a mechanistic role for chromo domains in targeting chromo domain proteins to specific regions of the nucleus. The mechanism of targeting may involve protein-protein and/or protein/nucleic acid interactions. Hence, several line of evidence show that the HP1 chromo domain is a methyl-specific histone binding module, whereas the chromo domain of two protein components of the drosophila dosage compensation complex, MSL3 and MOF, contain chromo domains that bind to RNA in vitro []. The high resolution structures of HP1-family protein chromo and chromo shadow domain reveal a conserved chromo domain fold motif consisting of three beta strands packed against an alpha helix. The chromo domain fold belongs to the OB (oligonucleotide/oligosaccharide binding)-fold class found in a variety of prokaryotic and eukaryotic nucleic acid binding protein [].; PDB: 2H1E_B 3MWY_W 2DY8_A 1KNE_A 1KNA_A 1Q3L_A 2EE1_A 1AP0_A 1GUW_A 1X3P_A ....
Probab=95.67 E-value=0.032 Score=38.57 Aligned_cols=38 Identities=13% Similarity=0.217 Sum_probs=33.1
Q ss_pred eEEEEEEeeCCee---EEEEEEcCCCCCcceeeeccccccc
Q 023923 69 AKVIQVQYRLKEW---TFRVHYLGWNKSWDEWVGVHRLMKD 106 (275)
Q Consensus 69 AkIl~i~~~~~~~---~Y~VHY~GWn~r~DEWV~~~ri~k~ 106 (275)
-+|++.+..+++. .|+|+|.|+....+.|++++.|...
T Consensus 4 e~Il~~r~~~~~~~~~~ylVkW~g~~~~~~tWe~~~~l~~~ 44 (55)
T PF00385_consen 4 ERILDHRVVKGGNKVYEYLVKWKGYPYSENTWEPEENLKNC 44 (55)
T ss_dssp EEEEEEEEETTEESEEEEEEEETTSSGGGEEEEEGGGCSSH
T ss_pred EEEEEEEEeCCCcccEEEEEEECCCCCCCCeEeeHHHHhHh
Confidence 4788888877776 9999999999999999999988764
No 21
>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=95.62 E-value=0.018 Score=46.15 Aligned_cols=59 Identities=20% Similarity=0.299 Sum_probs=47.7
Q ss_pred CcCCCCEEEEEeCC-eeeeeEEEEE----------EeeCCeeEEEEEEcCCCCCcceeeecccccccCHHh
Q 023923 51 PYQVNEKVLAFFQS-HVYEAKVIQV----------QYRLKEWTFRVHYLGWNKSWDEWVGVHRLMKDTEAN 110 (275)
Q Consensus 51 ~f~vge~vl~~~~~-~~y~AkIl~i----------~~~~~~~~Y~VHY~GWn~r~DEWV~~~ri~k~t~en 110 (275)
.|.+|+.|++--.| -|+.|.|..- ........|+|.|-|-+.+| -||+.+.|..++..+
T Consensus 2 ~~~~GdlVWaK~~g~PwWPa~V~~~~~~~~~~~~~~~~~~~~~~~V~FFG~~~~~-aWv~~~~l~pf~~~~ 71 (110)
T cd05837 2 KYQVGDLVWAKVSGYPWWPCMVCSDPLLGTYTKTKRNKRKPRQYHVQFFGDNPER-AWISEKSLKPFKGSK 71 (110)
T ss_pred CCCCCCEEEEeCCCCCCCCEEEecccccchhhhhhhccCCCCeEEEEEcCCCCCE-EEecHHHccccCCch
Confidence 59999999998877 7899999952 12233569999999998777 599999999987655
No 22
>smart00293 PWWP domain with conserved PWWP motif. conservation of Pro-Trp-Trp-Pro residues
Probab=95.05 E-value=0.045 Score=39.34 Aligned_cols=54 Identities=19% Similarity=0.296 Sum_probs=43.9
Q ss_pred cCCCCEEEEEeCC-eeeeeEEEEEEee--------CCeeEEEEEEcCCCCCcceeeecccccccC
Q 023923 52 YQVNEKVLAFFQS-HVYEAKVIQVQYR--------LKEWTFRVHYLGWNKSWDEWVGVHRLMKDT 107 (275)
Q Consensus 52 f~vge~vl~~~~~-~~y~AkIl~i~~~--------~~~~~Y~VHY~GWn~r~DEWV~~~ri~k~t 107 (275)
|.+||.|++.-.| -++.|+|+.-... .....|.|+|-|=+.. -||..++|..+|
T Consensus 1 f~~GdlVwaK~~G~p~WPa~V~~~~~~~~~~~~~~~~~~~~~V~Ffg~~~~--awv~~~~l~p~~ 63 (63)
T smart00293 1 FKPGDLVWAKMKGFPWWPALVVSPKETPDNIRKRKRFENLYPVLFFGDKDT--AWISSSKLFPLT 63 (63)
T ss_pred CCCCCEEEEECCCCCCCCeEEcCcccCChhHhhccCCCCEEEEEEeCCCCE--EEECccceeeCC
Confidence 6799999999888 7899999988642 2356999999996654 999999887653
No 23
>PF02820 MBT: mbt repeat; InterPro: IPR004092 The function of the malignant brain tumor (MBT) repeat is unknown, but is found in a number of nuclear proteins involved in transcriptional repression. The repeat contains a completely conserved glutamate at its amino terminus that may be important for function. The crystal structure of the two MBT repeats of human SCM-like 2 protein has been reported. Each repeat consists of an extended "arm" and a globular core. The arm of the first repeat packs against the core of the second repeat and vice versa. The structure of the core-interacting part of each arm consists of an N-terminal alpha-helix and a turn of 310 helix connected by a short beta-strand. The core consists of an Src homology 3-like five-stranded beta-barrel followed by a C-terminal alpha-helix and another short beta-strand. Each arm interacts with its partner core in a similar way, with the orientation of the N-terminal helix relative to the barrel varying slightly. There are also extensive interactions between the two barrels [].; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 2P0K_A 3F70_B 3CEY_A 2VYT_A 2BIV_A 1OI1_A 3OQ5_A 2RJE_B 2RJD_A 2RI3_A ....
Probab=94.07 E-value=0.18 Score=37.23 Aligned_cols=39 Identities=28% Similarity=0.562 Sum_probs=31.9
Q ss_pred CeeeeeEEEEEEeeCCeeEEEEEEcCCCCCcceeeecc--ccccc
Q 023923 64 SHVYEAKVIQVQYRLKEWTFRVHYLGWNKSWDEWVGVH--RLMKD 106 (275)
Q Consensus 64 ~~~y~AkIl~i~~~~~~~~Y~VHY~GWn~r~DEWV~~~--ri~k~ 106 (275)
..++.|.|+++... ...|||.||...+|.|+..+ +|+..
T Consensus 12 ~~~~vAtV~~v~g~----~l~v~~dg~~~~~d~w~~~~S~~i~Pv 52 (73)
T PF02820_consen 12 SLICVATVVKVCGG----RLLVRYDGWDDDYDFWCHIDSPRIFPV 52 (73)
T ss_dssp CEEEEEEEEEEETT----EEEEEETTSTGGGEEEEETTSTTEEET
T ss_pred CeEEEEEEEEEeCC----EEEEEEcCCCCCccEEEECCCCCeeec
Confidence 46789999998632 39999999999999999874 66654
No 24
>KOG2748 consensus Uncharacterized conserved protein, contains chromo domain [Chromatin structure and dynamics]
Probab=92.56 E-value=0.041 Score=52.20 Aligned_cols=42 Identities=17% Similarity=0.555 Sum_probs=34.6
Q ss_pred eeee-EEEEEEeeCCeeEEEEEEcCCCCCcceeeecccccccC
Q 023923 66 VYEA-KVIQVQYRLKEWTFRVHYLGWNKSWDEWVGVHRLMKDT 107 (275)
Q Consensus 66 ~y~A-kIl~i~~~~~~~~Y~VHY~GWn~r~DEWV~~~ri~k~t 107 (275)
.|.| .||+-+.++|..+|||-|.||+.+|+-|=|+..|+-..
T Consensus 10 VfAaEsIlkkRirKGrvEYlVKWkGWs~kyNTWEPEENILDpR 52 (369)
T KOG2748|consen 10 VFAAESILKKRIRKGRVEYLVKWKGWSQKYNTWEPEENILDPR 52 (369)
T ss_pred HHHHHHHHHHHhhccceEEEEEecccccccCccCccccccCHH
Confidence 3444 46777777889999999999999999999998887653
No 25
>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=92.41 E-value=0.26 Score=38.40 Aligned_cols=59 Identities=22% Similarity=0.244 Sum_probs=46.3
Q ss_pred cCCCCEEEEEeCC-eeeeeEEEEEE----------eeCCeeEEEEEEcCCCCCcceeeecccccccCHHhhh
Q 023923 52 YQVNEKVLAFFQS-HVYEAKVIQVQ----------YRLKEWTFRVHYLGWNKSWDEWVGVHRLMKDTEANRH 112 (275)
Q Consensus 52 f~vge~vl~~~~~-~~y~AkIl~i~----------~~~~~~~Y~VHY~GWn~r~DEWV~~~ri~k~t~en~~ 112 (275)
|.+||.|++.-+| -|+.|.|++-. ...+...|.|.|-|=+ ==-||...+|..+++++..
T Consensus 1 f~~GDlVwaK~~GyPwWPA~V~~~~~~p~~~l~~~~~~~~~~~~V~FFg~~--~~~Wv~~~~l~pl~~~~~~ 70 (93)
T cd05840 1 FQPGDRVLAKVKGFPAWPAIVVPEEMLPDSVLKGKKKKNKRTYPVMFFPDG--DYYWVPNKDLKPLTEEKIA 70 (93)
T ss_pred CCCCCEEEEeCCCCCCCCEEECChHHCCHHHHhcccCCCCCeEEEEEeCCC--cEEEEChhhcccCCHHHHH
Confidence 6899999998877 79999998742 2234568999998833 2369999999999987764
No 26
>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=92.20 E-value=0.26 Score=40.78 Aligned_cols=44 Identities=18% Similarity=0.299 Sum_probs=30.1
Q ss_pred CCCCcCCCCEEEEEeCC--eeeeeEEEEEEeeCCeeEEEEEEcCCCC
Q 023923 48 ASCPYQVNEKVLAFFQS--HVYEAKVIQVQYRLKEWTFRVHYLGWNK 92 (275)
Q Consensus 48 ~~~~f~vge~vl~~~~~--~~y~AkIl~i~~~~~~~~Y~VHY~GWn~ 92 (275)
+...|..|.+||++|.+ ..|.|.|..... .....|.|.|.|=..
T Consensus 68 ~~~~f~~g~~VLAlYP~TT~FY~A~V~~~p~-~~~~~y~l~Fedd~~ 113 (130)
T PF07039_consen 68 PLAEFPKGTKVLALYPDTTCFYPATVVSPPK-KKSGEYKLKFEDDED 113 (130)
T ss_dssp GGGS--TT-EEEEE-TTSSEEEEEEEEEE-S-STTS-EEEEECTTTS
T ss_pred chhhCCCCCEEEEECCCCceEEEEEEEeCCC-CCCCcEEEEEeCCCC
Confidence 34479999999999975 799999999844 334589999988553
No 27
>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=91.88 E-value=0.24 Score=38.01 Aligned_cols=55 Identities=16% Similarity=0.164 Sum_probs=44.0
Q ss_pred cCCCCEEEEEeCC-eeeeeEEEEEEeeC----CeeEEEEEEcCCCCCcceeeecccccccCH
Q 023923 52 YQVNEKVLAFFQS-HVYEAKVIQVQYRL----KEWTFRVHYLGWNKSWDEWVGVHRLMKDTE 108 (275)
Q Consensus 52 f~vge~vl~~~~~-~~y~AkIl~i~~~~----~~~~Y~VHY~GWn~r~DEWV~~~ri~k~t~ 108 (275)
|.+||.|++.=.| .|++|+|.+..... ....|.|+|-|.+. =.||..++|..+.+
T Consensus 1 f~vGDlVWaK~kg~pwWP~~V~~~~~~~~~~~~~~~~~V~fFGs~~--~a~v~~~~l~pf~e 60 (87)
T cd05835 1 FNVGDLVWGKIKGFPWWPGRVVSITVTSKRPPVVGMRWVTWFGSGT--FSEVSVDKLSPFSE 60 (87)
T ss_pred CCCCCEEEEecCCCCCCCeEEechhhcccccCCCCeEEEEEeCCCC--EeEECHHHCcChhH
Confidence 7899999997766 78999999875432 24589999999665 57999999988854
No 28
>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=89.50 E-value=0.77 Score=35.16 Aligned_cols=56 Identities=16% Similarity=0.309 Sum_probs=43.6
Q ss_pred cCCCCEEEEEeCC-eeeeeEEEEEEe-----eCCeeEEEEEEcCCCCCcceeeecccccccCHH
Q 023923 52 YQVNEKVLAFFQS-HVYEAKVIQVQY-----RLKEWTFRVHYLGWNKSWDEWVGVHRLMKDTEA 109 (275)
Q Consensus 52 f~vge~vl~~~~~-~~y~AkIl~i~~-----~~~~~~Y~VHY~GWn~r~DEWV~~~ri~k~t~e 109 (275)
|.+||.|++--+| -++.|+|++... ......|.|.|-|=+. =-||..+.|..+++.
T Consensus 1 f~~GDlVwaK~~g~P~WPa~V~~~~~~~~~~~~~~~~~~V~FFG~~~--~~wv~~~~l~pF~~~ 62 (86)
T cd05836 1 LKLGDLVWAKMKGFPPWPGRIVKPPKDLKKPRGKAKCFFVFFFGSEN--HAWIKEENIKPYHEH 62 (86)
T ss_pred CCCCCEEEEeCCCCCCCCEEEechhhhcccccCCCCeEEEEEeCCCC--EEEECHHhCeechhh
Confidence 7899999998877 789999987432 1224689999999664 289999999888654
No 29
>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=87.81 E-value=1.6 Score=33.20 Aligned_cols=53 Identities=21% Similarity=0.252 Sum_probs=42.6
Q ss_pred cCCCCEEEEEeCC-eeeeeEEEEEEeeCCeeEEEEEEcCCCCCcceeeecccccccC
Q 023923 52 YQVNEKVLAFFQS-HVYEAKVIQVQYRLKEWTFRVHYLGWNKSWDEWVGVHRLMKDT 107 (275)
Q Consensus 52 f~vge~vl~~~~~-~~y~AkIl~i~~~~~~~~Y~VHY~GWn~r~DEWV~~~ri~k~t 107 (275)
|.+|+.|.+--.| -+++|+|.++... ...|.|-|.|=+. --.|+..+.++++.
T Consensus 1 f~~gdlVWaK~~g~P~WPa~I~~~~~~--~~k~~V~FfG~~~-~~a~~~~~~l~p~~ 54 (80)
T cd06080 1 FEKNDLVWAKIQGYPWWPAVIKSISRK--KQKARVNFIGDNM-QSEKKGIRVVKRWL 54 (80)
T ss_pred CCCCCEEEEeCCCCCCCCEEEeeecCC--CCEEEEEEeCCCC-ceeccchhhccccc
Confidence 7899999998887 6889999998654 5689999999772 34788888887763
No 30
>PF15057 DUF4537: Domain of unknown function (DUF4537)
Probab=87.53 E-value=1.4 Score=36.10 Aligned_cols=59 Identities=20% Similarity=0.206 Sum_probs=43.0
Q ss_pred CcCCCCEEEEEeC---CeeeeeEEEEEEee--CCeeEEEEEEcCCCCCcceeeecccccccCHHhhh
Q 023923 51 PYQVNEKVLAFFQ---SHVYEAKVIQVQYR--LKEWTFRVHYLGWNKSWDEWVGVHRLMKDTEANRH 112 (275)
Q Consensus 51 ~f~vge~vl~~~~---~~~y~AkIl~i~~~--~~~~~Y~VHY~GWn~r~DEWV~~~ri~k~t~en~~ 112 (275)
.+.+||.||+.|. ..+++|+|+..-+. .....|.||| ||-+ -.+|+.+.+++.++.-++
T Consensus 55 ~L~~GD~VLA~~~~~~~~Y~Pg~V~~~~~~~~~~~~~~~V~f--~ng~-~~~vp~~~~~~I~~~~y~ 118 (124)
T PF15057_consen 55 SLQVGDKVLAPWEPDDCRYGPGTVIAGPERRASEDKEYTVRF--YNGK-TAKVPRGEVIWISPSYYE 118 (124)
T ss_pred cCCCCCEEEEecCcCCCEEeCEEEEECccccccCCceEEEEE--ECCC-CCccchhhEEECCHHHHH
Confidence 4889999999985 36888999975332 2356899998 3433 567888888887665443
No 31
>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=85.84 E-value=1.4 Score=34.40 Aligned_cols=55 Identities=18% Similarity=0.155 Sum_probs=43.0
Q ss_pred CCCCEEEEEeCC-eeeeeEEEEEEee--------CCeeEEEEEEcCCCCCcceeeecccccccCHH
Q 023923 53 QVNEKVLAFFQS-HVYEAKVIQVQYR--------LKEWTFRVHYLGWNKSWDEWVGVHRLMKDTEA 109 (275)
Q Consensus 53 ~vge~vl~~~~~-~~y~AkIl~i~~~--------~~~~~Y~VHY~GWn~r~DEWV~~~ri~k~t~e 109 (275)
.+||.|++.-++ .|+.|.|++.... .....|.|+|-|-+. =-||..++|+.+.+.
T Consensus 2 ~~GdlVWaK~~g~pwWPa~V~~~~~~p~~~~~~~~~~~~~~V~Ffgs~~--y~Wv~~~~l~pf~e~ 65 (95)
T cd05838 2 LYGDIVWAKLGNFRWWPAIICDPREVPPNIQVLRHCIGEFCVMFFGTHD--YYWVHRGRVFPYQEG 65 (95)
T ss_pred CcCCEEEEECCCCCCCCeEEcChhhcChhHhhccCCCCeEEEEEeCCCC--EEEeccccccchhhh
Confidence 579999999877 7899999985421 123589999999765 369999999998644
No 32
>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=73.33 E-value=11 Score=28.72 Aligned_cols=52 Identities=17% Similarity=0.245 Sum_probs=36.6
Q ss_pred CcCCCCEEEEEe--CCeeeeeEEEEEEeeCCeeEEEEEEcCCCCCcceeeecccccccC
Q 023923 51 PYQVNEKVLAFF--QSHVYEAKVIQVQYRLKEWTFRVHYLGWNKSWDEWVGVHRLMKDT 107 (275)
Q Consensus 51 ~f~vge~vl~~~--~~~~y~AkIl~i~~~~~~~~Y~VHY~GWn~r~DEWV~~~ri~k~t 107 (275)
...+|+.++|.. ++.||-|+| . ...+...|.|.|..+.. =++|+.+.|....
T Consensus 51 ~~~~~~~~~~~~~~~~~w~Ra~I-~--~~~~~~~~~V~~iD~G~--~~~v~~~~l~~l~ 104 (121)
T PF00567_consen 51 ESNPGEGCLCVVSEDGRWYRAVI-T--VDIDENQYKVFLIDYGN--TEKVSASDLRPLP 104 (121)
T ss_dssp T--TTEEEEEEETTTSEEEEEEE-E--EEECTTEEEEEETTTTE--EEEEEGGGEEE--
T ss_pred ccccCCEEEEEEecCCceeeEEE-E--EecccceeEEEEEecCc--eEEEcHHHhhhhC
Confidence 466888888875 579999999 2 22234589999999986 4678888887764
No 33
>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=73.33 E-value=5 Score=32.42 Aligned_cols=59 Identities=17% Similarity=0.277 Sum_probs=43.7
Q ss_pred cCCCCEEEEEeCC-eeeeeEEEEEEe-----------------------eCCeeEEEEEEcCCCCCcceeeecccccccC
Q 023923 52 YQVNEKVLAFFQS-HVYEAKVIQVQY-----------------------RLKEWTFRVHYLGWNKSWDEWVGVHRLMKDT 107 (275)
Q Consensus 52 f~vge~vl~~~~~-~~y~AkIl~i~~-----------------------~~~~~~Y~VHY~GWn~r~DEWV~~~ri~k~t 107 (275)
++.|+.|++--.| -||.|-|++-.. ..+...|+|+|-|=...| -||+...|..++
T Consensus 1 ~~pg~lVwaK~~g~P~wPa~iidp~~~~~~~~~~~~p~~~l~~~~~~~~~~~~~~~lV~FFd~~~s~-~Wv~~~~l~pl~ 79 (111)
T cd05839 1 LEPLTLVWAKCRGYPSYPALIIDPKMPRDGVFHNGVPPDVLTLGEARAQNADERLYLVLFFDNKRTW-QWLPGDKLEPLG 79 (111)
T ss_pred CCCcCEeeeeecCCCCCCeEeeCCCCCCcccccCCCCchhhhHHHHHhccCCCcEEEEEEecCCCcc-eecCHHHCcccc
Confidence 3578999987777 689999998542 224568999998754444 499999998887
Q ss_pred HHhh
Q 023923 108 EANR 111 (275)
Q Consensus 108 ~en~ 111 (275)
.++.
T Consensus 80 ~~~~ 83 (111)
T cd05839 80 VDET 83 (111)
T ss_pred cchh
Confidence 6554
No 34
>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=72.63 E-value=6.8 Score=29.98 Aligned_cols=53 Identities=19% Similarity=0.292 Sum_probs=41.8
Q ss_pred cCCCCEEEEEeCC-eeeeeEEEEEEeeCCeeEEEEEEcC-CCCCcceeeecccccccCHHh
Q 023923 52 YQVNEKVLAFFQS-HVYEAKVIQVQYRLKEWTFRVHYLG-WNKSWDEWVGVHRLMKDTEAN 110 (275)
Q Consensus 52 f~vge~vl~~~~~-~~y~AkIl~i~~~~~~~~Y~VHY~G-Wn~r~DEWV~~~ri~k~t~en 110 (275)
+..||.|++-..| -++.|+|++... ..|.|.|-| =.. =-||+..+|..++...
T Consensus 7 ~~p~dLVwAK~kGyp~WPAkV~~~~~----~~~~V~FFG~t~~--~a~v~~~~i~~~~~~~ 61 (83)
T cd05841 7 RPPHELVWAKLKGFPYWPAKVMRVED----NQVDVRFFGGQHD--RAWIPSNNIQPISTEI 61 (83)
T ss_pred CCCCCEEEEeCCCCCCCCEEEeecCC----CeEEEEEcCCCCC--eEEEehHHeeehhhhh
Confidence 5689999999888 789999998643 589999988 332 2599999999886543
No 35
>KOG4327 consensus mRNA splicing protein SMN (survival motor neuron) [RNA processing and modification]
Probab=71.10 E-value=4.1 Score=36.11 Aligned_cols=42 Identities=21% Similarity=0.510 Sum_probs=33.1
Q ss_pred CcCCCCEEEEEe--CCeeeeeEEEEEEeeCCeeEEEEEEcCCCCCc
Q 023923 51 PYQVNEKVLAFF--QSHVYEAKVIQVQYRLKEWTFRVHYLGWNKSW 94 (275)
Q Consensus 51 ~f~vge~vl~~~--~~~~y~AkIl~i~~~~~~~~Y~VHY~GWn~r~ 94 (275)
.|+||++|.+.| ++..|+|.|..|....+... |.|.|+..|-
T Consensus 67 ~wKVgdkc~A~Y~e~g~~ypatidsi~~~~~tcv--v~ylgygnr~ 110 (218)
T KOG4327|consen 67 QWKVGDKCSAIYSEDGCIYPATIDSIDFKRETCV--VVYLGYGNRE 110 (218)
T ss_pred hheecceeeeeeecCcccccceecccccccCceE--EEEEeecchh
Confidence 699999999876 45789999999986554333 8899988753
No 36
>PF08940 DUF1918: Domain of unknown function (DUF1918); InterPro: IPR015035 This domain is found in various hypothetical bacterial proteins, and has no known function. ; PDB: 2A7Y_A.
Probab=70.79 E-value=6.3 Score=28.22 Aligned_cols=37 Identities=8% Similarity=0.101 Sum_probs=24.9
Q ss_pred CCCCEEEEEeC---CeeeeeEEEEEEeeCCeeEEEEEEcC
Q 023923 53 QVNEKVLAFFQ---SHVYEAKVIQVQYRLKEWTFRVHYLG 89 (275)
Q Consensus 53 ~vge~vl~~~~---~~~y~AkIl~i~~~~~~~~Y~VHY~G 89 (275)
.+|+++++... ..-..+.|++++..+|.+-|.|+|..
T Consensus 4 ~vGD~lvv~g~~vg~~~r~GeIveV~g~dG~PPY~VRw~D 43 (58)
T PF08940_consen 4 SVGDRLVVHGRTVGQPDRHGEIVEVRGPDGSPPYLVRWDD 43 (58)
T ss_dssp -TTEEEEES-TTTS--EEEEEEEE-S-SSS-S-EEEEETT
T ss_pred CCCCEEEEcCCcCCCCCcEeEEEEEECCCCCCCEEEEecC
Confidence 58998887653 35789999999999999999999864
No 37
>PF15057 DUF4537: Domain of unknown function (DUF4537)
Probab=70.41 E-value=9.7 Score=31.06 Aligned_cols=47 Identities=19% Similarity=0.221 Sum_probs=34.3
Q ss_pred CCEEEEEeC--CeeeeeEEEEEEeeCCeeEEEEEEcCCCCCcceeeecccccccC
Q 023923 55 NEKVLAFFQ--SHVYEAKVIQVQYRLKEWTFRVHYLGWNKSWDEWVGVHRLMKDT 107 (275)
Q Consensus 55 ge~vl~~~~--~~~y~AkIl~i~~~~~~~~Y~VHY~GWn~r~DEWV~~~ri~k~t 107 (275)
|.+|+|++. |.+|.|.|++.- +...|+|+| +...=+.|+...|..+.
T Consensus 1 g~~VlAR~~~DG~YY~GtV~~~~---~~~~~lV~f---~~~~~~~v~~~~iI~~~ 49 (124)
T PF15057_consen 1 GQKVLARREEDGFYYPGTVKKCV---SSGQFLVEF---DDGDTQEVPISDIIALS 49 (124)
T ss_pred CCeEEEeeCCCCcEEeEEEEEcc---CCCEEEEEE---CCCCEEEeChHHeEEcc
Confidence 789999984 799999999876 456999999 22233566666665553
No 38
>KOG3038 consensus Histone acetyltransferase SAGA associated factor SGF29 [General function prediction only]
Probab=65.00 E-value=12 Score=34.61 Aligned_cols=39 Identities=18% Similarity=0.272 Sum_probs=29.9
Q ss_pred CCCCcCCCCEEEEEeCC--eeeeeEEEEEEeeCCeeEEEEEE
Q 023923 48 ASCPYQVNEKVLAFFQS--HVYEAKVIQVQYRLKEWTFRVHY 87 (275)
Q Consensus 48 ~~~~f~vge~vl~~~~~--~~y~AkIl~i~~~~~~~~Y~VHY 87 (275)
|...|..|..||+.+.+ .+|.|.|.+.-.+ +.-.|+|-|
T Consensus 195 p~~~fpp~~~VLA~YP~TTcFY~aiVh~tp~d-~s~~y~vlf 235 (264)
T KOG3038|consen 195 PTALFPPGTIVLAVYPGTTCFYKAIVHSTPRD-GSCDYYVLF 235 (264)
T ss_pred CccCCCCCCEEEEEcCCcceeeeeEeecCCCC-CCCcceeee
Confidence 45579999999999986 7999999987654 344555554
No 39
>KOG3766 consensus Polycomb group protein SCM/L(3)MBT (tumor-supressor in Drosophila and humans) [Transcription]
Probab=63.53 E-value=15 Score=36.95 Aligned_cols=49 Identities=33% Similarity=0.479 Sum_probs=41.5
Q ss_pred CcCCCCEEEEEeC---CeeeeeEEEEEEeeCCeeEEEEEEcCCCCC-cceeeeccc
Q 023923 51 PYQVNEKVLAFFQ---SHVYEAKVIQVQYRLKEWTFRVHYLGWNKS-WDEWVGVHR 102 (275)
Q Consensus 51 ~f~vge~vl~~~~---~~~y~AkIl~i~~~~~~~~Y~VHY~GWn~r-~DEWV~~~r 102 (275)
.|+||.++.+... ..+-.|.|.+|... ....||+.||... +|.|+..+.
T Consensus 200 ~F~vgmkLEavd~~np~~IcvATV~~V~~~---~~i~v~~d~~~~~~~d~~~~~~s 252 (478)
T KOG3766|consen 200 RFQVGMKLEAVDDLNPSAICVATVVEVFDS---REILVHFDGWDKSELDYWCDHDS 252 (478)
T ss_pred cceeccEEEEeccCCCcceeeeehheeccc---ceEEEEeccCCCcccceeEecCC
Confidence 6999999999874 47788888888754 3589999999999 999998865
No 40
>KOG2039 consensus Transcriptional coactivator p100 [Transcription]
Probab=59.06 E-value=19 Score=38.85 Aligned_cols=63 Identities=19% Similarity=0.245 Sum_probs=47.9
Q ss_pred CCCCCCCCCcCCCCEEEEEe--CCeeeeeEEEEEEeeCCeeEEEEEEcCCCCCcceeeecccccccCHHh
Q 023923 43 CPPTPASCPYQVNEKVLAFF--QSHVYEAKVIQVQYRLKEWTFRVHYLGWNKSWDEWVGVHRLMKDTEAN 110 (275)
Q Consensus 43 ~~~~~~~~~f~vge~vl~~~--~~~~y~AkIl~i~~~~~~~~Y~VHY~GWn~r~DEWV~~~ri~k~t~en 110 (275)
++|..+......|+.|++.+ ++.||.|.|+.|... ...-|||..+.. .|-+|..+|-...+.=
T Consensus 687 ~~~~~~~~~p~~gd~c~A~y~~D~qwyRa~i~~V~~~---~~~~V~yiDygn--~E~lp~~~l~~lp~~~ 751 (875)
T KOG2039|consen 687 KPPSSGSYTPKRGDLCVAKYSLDGQWYRALIVEVLDP---ESMEVFYIDYGN--IETLPFVRLKPLPPHF 751 (875)
T ss_pred cccccCCCCCCCCCeeeeeeccccceeeeeeeeeccC---cceeEEEEecCc--ccccccccccCCChHH
Confidence 34344444678999999998 789999999997653 367788888876 7888888887765543
No 41
>KOG2747 consensus Histone acetyltransferase (MYST family) [Chromatin structure and dynamics]
Probab=59.04 E-value=2.2 Score=41.60 Aligned_cols=35 Identities=26% Similarity=0.512 Sum_probs=25.7
Q ss_pred eeeeeEEEEEEeeCC-eeEEEEEEcCCCCCcceeee
Q 023923 65 HVYEAKVIQVQYRLK-EWTFRVHYLGWNKSWDEWVG 99 (275)
Q Consensus 65 ~~y~AkIl~i~~~~~-~~~Y~VHY~GWn~r~DEWV~ 99 (275)
....|.+........ ...|+|||++.|+|.|+||+
T Consensus 34 ~~~~~~~~~~~~~~s~~~~~~v~~~~~~~r~d~~~~ 69 (396)
T KOG2747|consen 34 ENRKAETLPRKLIQSASLEYYVHYQKLNRRLDEWIG 69 (396)
T ss_pred ccccccccccccccCCCccchhhHHhhhcccccccc
Confidence 333445554444443 56999999999999999998
No 42
>PHA02763 hypothetical protein; Provisional
Probab=53.46 E-value=1.4 Score=34.01 Aligned_cols=51 Identities=22% Similarity=0.345 Sum_probs=39.1
Q ss_pred CcCCCCEEEEEeCCeeeeeEEEEEEeeC-CeeEEEEEEcCCCCCcceeeeccc
Q 023923 51 PYQVNEKVLAFFQSHVYEAKVIQVQYRL-KEWTFRVHYLGWNKSWDEWVGVHR 102 (275)
Q Consensus 51 ~f~vge~vl~~~~~~~y~AkIl~i~~~~-~~~~Y~VHY~GWn~r~DEWV~~~r 102 (275)
-|+.|++|...-++....+||+.+..-. .-..=||.|.||++ -.||+.+.|
T Consensus 27 ~YK~gqkv~l~v~dr~f~gKvIa~ap~t~~~LsKYv~~SGFe~-VEeWl~eAr 78 (102)
T PHA02763 27 FYKIGQKVILKVGDKRFPGKVIAKAPVTEYCLSKYVKFSGFEN-VEEWLNEAR 78 (102)
T ss_pred hhccCcEEEEEecCccccceEEEecCchHHHHHHHhhhcchhh-HHHHHHHHH
Confidence 4899999988778888899999987632 11234689999986 688998754
No 43
>PF13495 Phage_int_SAM_4: Phage integrase, N-terminal SAM-like domain; PDB: 2A3V_A.
Probab=48.11 E-value=31 Score=24.96 Aligned_cols=44 Identities=27% Similarity=0.515 Sum_probs=29.4
Q ss_pred CCCCCHHHHHHHHHHhhhhcCCcchhhHHHHHHHHHHHHhhhcCc
Q 023923 195 PRTPNVDDILEKYCDYRSKKDGLVADSTGEIVKGLRCYFDKALPI 239 (275)
Q Consensus 195 Pa~~tV~~Il~~Y~~~~~~~~~~~~~~~~E~~~Gl~~yFn~~L~~ 239 (275)
|..+|.++| .+|+.++....+.....++-...+|+.+|+.++..
T Consensus 38 ~~~it~~~i-~~y~~~l~~~~~~s~~T~~~~~~~l~~ff~~~~~~ 81 (85)
T PF13495_consen 38 PDEITPEDI-EQYLNYLQNERGLSPSTINQYLSALRSFFRWLLER 81 (85)
T ss_dssp GGG--HHHH-HHHHHHHHTTT---HHHHHHHHHHHHHHHHCTSS-
T ss_pred cchhHHHHH-HHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHcC
Confidence 566777666 88999888543344556677789999999998764
No 44
>KOG3026 consensus Splicing factor SPF30 [RNA processing and modification]
Probab=46.03 E-value=23 Score=32.40 Aligned_cols=29 Identities=24% Similarity=0.458 Sum_probs=24.7
Q ss_pred CcCCCCEEEEEeC--CeeeeeEEEEEEeeCC
Q 023923 51 PYQVNEKVLAFFQ--SHVYEAKVIQVQYRLK 79 (275)
Q Consensus 51 ~f~vge~vl~~~~--~~~y~AkIl~i~~~~~ 79 (275)
.|.||++|.+.|. |.||+|.|-.|....+
T Consensus 90 ~w~vg~K~~A~~~ddg~~y~AtIe~ita~~~ 120 (262)
T KOG3026|consen 90 GWKVGDKVQAVFSDDGQIYDATIEHITAMEG 120 (262)
T ss_pred ccccCCEEEEeecCCCceEEeehhhccCCCC
Confidence 6999999999874 7999999999987444
No 45
>cd04716 BAH_plantDCM_I BAH, or Bromo Adjacent Homology domain, first copy present in DNA (Cytosine-5)-methyltransferases (DCM) from plants. DNA methylation, or the covalent addition of a methyl group to cytosine within the context of the CpG dinucleotide, has profound effects on the genome. These effects include transcriptional repression via inhibition of transcription factor binding, the recruitment of methyl-binding proteins and their associated chromatin remodeling factors, X chromosome inactivation, imprinting, and the suppression of parasitic DNA sequences. DNA methylation is also essential for proper embryonic development and is an important player in both DNA repair and genome stability. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=46.01 E-value=36 Score=27.76 Aligned_cols=33 Identities=9% Similarity=0.049 Sum_probs=25.1
Q ss_pred CCcCCCCEEEEEeC--CeeeeeEEEEEEeeCCeeE
Q 023923 50 CPYQVNEKVLAFFQ--SHVYEAKVIQVQYRLKEWT 82 (275)
Q Consensus 50 ~~f~vge~vl~~~~--~~~y~AkIl~i~~~~~~~~ 82 (275)
..|.+||-|++.-+ ...|-|+|.++....++..
T Consensus 2 ~~~~lgD~V~v~~~~~~~~yi~rI~~i~e~~~g~~ 36 (122)
T cd04716 2 ITYNLGDDAYVQGGEGEEPFICKITEFFEGTDGKT 36 (122)
T ss_pred cEEEcCCEEEEECCCCCCCEEEEEEEEEEcCCCce
Confidence 35889999988754 3689999999998654443
No 46
>smart00739 KOW KOW (Kyprides, Ouzounis, Woese) motif. Motif in ribosomal proteins, NusG, Spt5p, KIN17 and T54.
Probab=45.04 E-value=43 Score=19.08 Aligned_cols=24 Identities=21% Similarity=0.307 Sum_probs=19.2
Q ss_pred cCCCCEEEEEeCC-eeeeeEEEEEE
Q 023923 52 YQVNEKVLAFFQS-HVYEAKVIQVQ 75 (275)
Q Consensus 52 f~vge~vl~~~~~-~~y~AkIl~i~ 75 (275)
|.+|+.|.+..+. .-..|.|+++.
T Consensus 2 ~~~G~~V~I~~G~~~g~~g~i~~i~ 26 (28)
T smart00739 2 FEVGDTVRVIAGPFKGKVGKVLEVD 26 (28)
T ss_pred CCCCCEEEEeECCCCCcEEEEEEEc
Confidence 7899999999876 45678888775
No 47
>KOG3766 consensus Polycomb group protein SCM/L(3)MBT (tumor-supressor in Drosophila and humans) [Transcription]
Probab=42.10 E-value=20 Score=35.98 Aligned_cols=56 Identities=21% Similarity=0.330 Sum_probs=41.7
Q ss_pred CCCCCCCCCCCcCCCCEEEEEeCC---eeeeeEEEEEEeeCCeeEEEEEEcCCCCCcceeeecc
Q 023923 41 CPCPPTPASCPYQVNEKVLAFFQS---HVYEAKVIQVQYRLKEWTFRVHYLGWNKSWDEWVGVH 101 (275)
Q Consensus 41 ~~~~~~~~~~~f~vge~vl~~~~~---~~y~AkIl~i~~~~~~~~Y~VHY~GWn~r~DEWV~~~ 101 (275)
+..| ..|+..|.+|-++.+.... ..-.|.|.++..... -||+.||...+|.||..+
T Consensus 298 ~~~p-~~p~~~~k~~~k~e~~d~~~p~~~~vatv~~~~~~~~----~~h~d~~~~~~~~~i~~d 356 (478)
T KOG3766|consen 298 AFNP-RCPNHLFKVGMKLEAVDLRNPRLICVATVEKVCKTPL----IIHFDGWPSEYDFWIDID 356 (478)
T ss_pred ccCC-CCCCccccccceeeeccccCCcccccccchhcccccc----ccCCCCCCcccceeeecC
Confidence 4444 4455689999999887732 566677777665443 899999999999999875
No 48
>cd04714 BAH_BAHCC1 BAH, or Bromo Adjacent Homology domain, as present in mammalian BAHCC1 and similar proteins. BAHCC1 stands for BAH domain and coiled-coil containing 1. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=41.94 E-value=46 Score=26.76 Aligned_cols=29 Identities=21% Similarity=0.069 Sum_probs=23.3
Q ss_pred CcCCCCEEEEEeC---CeeeeeEEEEEEeeCC
Q 023923 51 PYQVNEKVLAFFQ---SHVYEAKVIQVQYRLK 79 (275)
Q Consensus 51 ~f~vge~vl~~~~---~~~y~AkIl~i~~~~~ 79 (275)
.|.+||-|++.-. ...|-|+|.++....+
T Consensus 3 ~~~vGD~V~v~~~~~~~~pyIgrI~~i~e~~~ 34 (121)
T cd04714 3 IIRVGDCVLFKSPGRPSLPYVARIESLWEDPE 34 (121)
T ss_pred EEEcCCEEEEeCCCCCCCCEEEEEEEEEEcCC
Confidence 5899999998754 3589999999987543
No 49
>smart00439 BAH Bromo adjacent homology domain.
Probab=41.33 E-value=70 Score=24.61 Aligned_cols=35 Identities=20% Similarity=0.171 Sum_probs=26.2
Q ss_pred cCCCCEEEEEeCC---eeeeeEEEEEEeeCCe--eEEEEE
Q 023923 52 YQVNEKVLAFFQS---HVYEAKVIQVQYRLKE--WTFRVH 86 (275)
Q Consensus 52 f~vge~vl~~~~~---~~y~AkIl~i~~~~~~--~~Y~VH 86 (275)
|.+|+.|++...+ ..|-|+|.++....++ ....|+
T Consensus 2 ~~vgd~V~v~~~~~~~~~~i~~I~~i~~~~~~~~~~~~v~ 41 (120)
T smart00439 2 IRVGDFVLVEPDDADEPYYIGRIEEIFETKKNSEKMVRVR 41 (120)
T ss_pred cccCCEEEEeCCCCCCCCEEEEEEEEEECCCCCEEEEEEE
Confidence 7899999998653 5899999999886543 344444
No 50
>PF02839 CBM_5_12: Carbohydrate binding domain; InterPro: IPR003610 A carbohydrate-binding module (CBM) is defined as a contiguous amino acid sequence within a carbohydrate-active enzyme with a discreet fold having carbohydrate-binding activity. A few exceptions are CBMs in cellulosomal scaffolding proteins and rare instances of independent putative CBMs. The requirement of CBMs existing as modules within larger enzymes sets this class of carbohydrate-binding protein apart from other non-catalytic sugar binding proteins such as lectins and sugar transport proteins. CBMs were previously classified as cellulose-binding domains (CBDs) based on the initial discovery of several modules that bound cellulose [, ]. However, additional modules in carbohydrate-active enzymes are continually being found that bind carbohydrates other than cellulose yet otherwise meet the CBM criteria, hence the need to reclassify these polypeptides using more inclusive terminology. Previous classification of cellulose-binding domains were based on amino acid similarity. Groupings of CBDs were called "Types" and numbered with roman numerals (e.g. Type I or Type II CBDs). In keeping with the glycoside hydrolase classification, these groupings are now called families and numbered with Arabic numerals. Families 1 to 13 are the same as Types I to XIII. For a detailed review on the structure and binding modes of CBMs see []. This entry represents CBM5 from CAZY and CBM12 from CAZY. These modules have a core structure consisting of a 3-stranded meander beta-sheet, which contain six aromatic groups that may be important for binding. CBM5/12 is found in proteins such as chitinase A1, chitinase B [], and endoglucanase Z []. The overall topology of the CBM is structurally similar to the C-terminal chitin-binding domains (ChBD) of chitinase A1 and chitinase B, however the binding mechanism for the ChBD may be different from that of the CBM [].; GO: 0004553 hydrolase activity, hydrolyzing O-glycosyl compounds, 0030246 carbohydrate binding, 0005975 carbohydrate metabolic process, 0005576 extracellular region; PDB: 1ED7_A 1W1V_A 1E15_B 1UR8_A 1E6Z_B 1E6P_A 1W1T_A 1W1P_B 1UR9_A 1E6R_A ....
Probab=41.32 E-value=17 Score=23.25 Aligned_cols=23 Identities=22% Similarity=0.515 Sum_probs=15.1
Q ss_pred CCCCCCcCCCCEEEEEeCCeeeeeE
Q 023923 46 TPASCPYQVNEKVLAFFQSHVYEAK 70 (275)
Q Consensus 46 ~~~~~~f~vge~vl~~~~~~~y~Ak 70 (275)
..++..|..|++|. |.|..|+|+
T Consensus 4 W~~~~~Y~~Gd~V~--~~g~~y~a~ 26 (41)
T PF02839_consen 4 WDPGTTYNAGDRVS--YNGKLYQAK 26 (41)
T ss_dssp --TTCEE-TT-EEE--ETTEEEEES
T ss_pred cCCCCEEcCCCEEE--ECCCEEEEe
Confidence 45566799999765 888999884
No 51
>cd04715 BAH_Orc1p_like BAH, or Bromo Adjacent Homology domain, as present in the Schizosaccharomyces pombe homolog of Saccharomyces cerevisiae Orc1p and similar proteins. Orc1 is part of the Yeast Sir1-origin recognition complex, the Orc1p BAH doman functions in epigenetic silencing. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=39.90 E-value=66 Score=27.44 Aligned_cols=38 Identities=18% Similarity=0.250 Sum_probs=28.6
Q ss_pred CCCcCCCCEEEEEeC-CeeeeeEEEEEEeeC---CeeEEEEE
Q 023923 49 SCPYQVNEKVLAFFQ-SHVYEAKVIQVQYRL---KEWTFRVH 86 (275)
Q Consensus 49 ~~~f~vge~vl~~~~-~~~y~AkIl~i~~~~---~~~~Y~VH 86 (275)
+..|.+||.|++..+ ...|-|+|.++.... +.....|+
T Consensus 27 g~~y~lGD~Vlv~s~~~~~yIgkI~~iwe~~~~~g~~~~~v~ 68 (159)
T cd04715 27 GVEYRLYDDVYVHNGDSEPYIGKIIKIYETAIDSGKKKVKVI 68 (159)
T ss_pred CEEEeCCCEEEEeCCCCCCEEEEEEEEEEcCCcCCceEEEEE
Confidence 346999999999865 478999999998864 44444444
No 52
>KOG2573 consensus Ribosome biogenesis protein - Nop56p/Sik1p [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=39.39 E-value=61 Score=32.04 Aligned_cols=79 Identities=16% Similarity=0.090 Sum_probs=50.3
Q ss_pred EeCChhHHHHHHHHHHHHhhcCceeeCCCCCCHHHHHHHHHHhhhhcCCcchhhHHHHHHHHHHHHhhhcCccccChhhH
Q 023923 168 IQIPPPLKKQLVDDCEFITHLGKLVKLPRTPNVDDILEKYCDYRSKKDGLVADSTGEIVKGLRCYFDKALPIMLLYKSER 247 (275)
Q Consensus 168 i~iP~~Lk~~LvdD~~~I~~~~~L~~LPa~~tV~~Il~~Y~~~~~~~~~~~~~~~~E~~~Gl~~yFn~~L~~~LLY~~ER 247 (275)
=.+++.|+..|...+-.+.+.+....+--..==..|-+.+ ..-.......+.|+++|++..|+..+...==|..|+
T Consensus 69 G~~~edLr~fLe~nlpK~kkkk~sLgi~d~kLg~~i~E~~----~~i~c~~~~~~~ellRGvR~hf~kl~K~L~~~d~~k 144 (498)
T KOG2573|consen 69 GVVHEDLRSFLELNLPKVKKKKVSLGIGDSKLGISIKEAF----PKIPCQSNEVVQELLRGVRKHFDKLMKGLDPGDLEK 144 (498)
T ss_pred ccccHHHHHHHHhhChhhhcCceeeccCcchhhhHHHhhc----cCcccccchhHHHHHHHHHHHHHHHHccCCCccHHH
Confidence 3678899999988877664433333222221112222222 111123345778999999999999998877889999
Q ss_pred hhH
Q 023923 248 EQY 250 (275)
Q Consensus 248 ~Qy 250 (275)
.|.
T Consensus 145 aqL 147 (498)
T KOG2573|consen 145 AQL 147 (498)
T ss_pred HHh
Confidence 984
No 53
>PF10781 DSRB: Dextransucrase DSRB; InterPro: IPR019717 DSRB is a novel dextransucrase which produces a dextran different from the typical dextran, as it contains (1-6) and (1-2) linkages, when this strain is grown in the presence of sucrose [].
Probab=39.36 E-value=90 Score=22.32 Aligned_cols=39 Identities=15% Similarity=0.100 Sum_probs=32.1
Q ss_pred CCCCEEEEEe-CCeeeeeEEEEEEeeCCeeEEEEEEcCCC
Q 023923 53 QVNEKVLAFF-QSHVYEAKVIQVQYRLKEWTFRVHYLGWN 91 (275)
Q Consensus 53 ~vge~vl~~~-~~~~y~AkIl~i~~~~~~~~Y~VHY~GWn 91 (275)
+++++|.+.- |+...+..|+.++.-+.+.-|+|--..|-
T Consensus 2 kvnD~VtVKTDG~~rR~G~ilavE~F~EG~MYLvaL~dYP 41 (62)
T PF10781_consen 2 KVNDRVTVKTDGGPRREGVILAVEPFNEGTMYLVALEDYP 41 (62)
T ss_pred ccccEEEEecCCcccccceEEEEeeccCcEEEEEEcCcCC
Confidence 5789998875 45789999999999888889999876554
No 54
>cd04717 BAH_polybromo BAH, or Bromo Adjacent Homology domain, as present in polybromo and yeast RSC1/2. The human polybromo protein (BAF180) is a component of the SWI/SNF chromatin-remodeling complex PBAF. It is thought that polybromo participates in transcriptional regulation. Saccharomyces cerevisiae RSC1 and RSC2 are part of the 15-subunit nucleosome remodeling RSC complex. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=36.61 E-value=86 Score=24.90 Aligned_cols=29 Identities=14% Similarity=0.037 Sum_probs=23.7
Q ss_pred CCcCCCCEEEEEeC---CeeeeeEEEEEEeeC
Q 023923 50 CPYQVNEKVLAFFQ---SHVYEAKVIQVQYRL 78 (275)
Q Consensus 50 ~~f~vge~vl~~~~---~~~y~AkIl~i~~~~ 78 (275)
..|.+||-|++... +..|-|+|.++....
T Consensus 2 ~~~~vGD~V~v~~~~~~~~~~i~~I~~i~~~~ 33 (121)
T cd04717 2 LQYRVGDCVYVANPEDPSKPIIFRIERLWKDE 33 (121)
T ss_pred CEEECCCEEEEeCCCCCCCCEEEEEeEEEECC
Confidence 35899999998753 468999999998865
No 55
>PRK10708 hypothetical protein; Provisional
Probab=36.36 E-value=1.1e+02 Score=21.92 Aligned_cols=39 Identities=15% Similarity=0.084 Sum_probs=32.1
Q ss_pred CCCCEEEEEe-CCeeeeeEEEEEEeeCCeeEEEEEEcCCC
Q 023923 53 QVNEKVLAFF-QSHVYEAKVIQVQYRLKEWTFRVHYLGWN 91 (275)
Q Consensus 53 ~vge~vl~~~-~~~~y~AkIl~i~~~~~~~~Y~VHY~GWn 91 (275)
+++++|.+.- ++...+..|+.|+.-+.+.-|+|--..|-
T Consensus 2 kvnD~VtVKTDG~~rR~G~iLavE~F~EG~MyLvaL~dYP 41 (62)
T PRK10708 2 KVNDRVTVKTDGGPRRPGVVLAVEEFSEGTMYLVSLEDYP 41 (62)
T ss_pred ccccEEEEecCCCccccceEEEEeeccCcEEEEEEcCcCC
Confidence 5789998875 55789999999999888889999876554
No 56
>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=35.13 E-value=1.1e+02 Score=23.57 Aligned_cols=35 Identities=14% Similarity=0.306 Sum_probs=24.4
Q ss_pred EEEEeC--CeeeeeEEEEEEeeC----CeeEEEEEEcCCCC
Q 023923 58 VLAFFQ--SHVYEAKVIQVQYRL----KEWTFRVHYLGWNK 92 (275)
Q Consensus 58 vl~~~~--~~~y~AkIl~i~~~~----~~~~Y~VHY~GWn~ 92 (275)
|=|... |-|++|+|+.|-... ....|.|-|.++..
T Consensus 2 vD~~d~~~gAWfEa~i~~i~~~~~~~~e~viYhIkyddype 42 (85)
T PF12148_consen 2 VDARDRNMGAWFEAQIVTITKKCMSDDEDVIYHIKYDDYPE 42 (85)
T ss_dssp EEEE-TTT-EEEEEEEEEEEES-SSSSTTEEEEEEETT-GG
T ss_pred cccccCCCcceEEEEEEEeeccCCCCCCCEEEEEEeccCCC
Confidence 345553 689999999998643 36799999998863
No 57
>KOG3001 consensus Dosage compensation regulatory complex/histone acetyltransferase complex, subunit MSL-3/MRG15/EAF3, and related CHROMO domain-containing proteins [Chromatin structure and dynamics; Transcription]
Probab=33.56 E-value=5.8 Score=38.76 Aligned_cols=66 Identities=18% Similarity=0.168 Sum_probs=50.2
Q ss_pred CCCCcCCCCEEEEEeCCeeeeeEEEEEEeeC------------------CeeEEEEEEcCCCCCcc------------ee
Q 023923 48 ASCPYQVNEKVLAFFQSHVYEAKVIQVQYRL------------------KEWTFRVHYLGWNKSWD------------EW 97 (275)
Q Consensus 48 ~~~~f~vge~vl~~~~~~~y~AkIl~i~~~~------------------~~~~Y~VHY~GWn~r~D------------EW 97 (275)
++..|.+|+.|.|.....+|+|.+...+... +..+|.+|+.|||.|.| +-
T Consensus 44 ~k~~~~~~e~v~~~~~~k~~e~~~~~~e~~~~~~~~~~~~~~~~~~~~k~k~~~~~~~k~a~~~k~~~~~~~~~~~~~~~ 123 (391)
T KOG3001|consen 44 SKWRDSIGEEVPETLKLKPYEANAKDEEELRMNKSLSSQDEDETITKAKGKECKRKAFKGANPRKKHRTTMPTAGMNEEK 123 (391)
T ss_pred cccCCccchhhhhhhcCCcchhhHHHHHHhhhhccccccccccccccchhhHHHHHHhhccCcccccccccccccccccc
Confidence 3456889999999999999999877766533 23467799999999999 66
Q ss_pred eec----ccccccCHHhhhh
Q 023923 98 VGV----HRLMKDTEANRHR 113 (275)
Q Consensus 98 V~~----~ri~k~t~en~~~ 113 (275)
++. +|+++.+..++..
T Consensus 124 ~~~~~~~d~~~~~~~g~~~~ 143 (391)
T KOG3001|consen 124 IPVGKNVDRIKEGVDGQRKE 143 (391)
T ss_pred ccccccccccccCccccccc
Confidence 665 6788877776643
No 58
>cd04370 BAH BAH, or Bromo Adjacent Homology domain (also called ELM1 and BAM for Bromo Adjacent Motif). BAH domains have first been described as domains found in the polybromo protein and Yeast Rsc1/Rsc2 (Remodeling of the Structure of Chromatin). They also occur in mammalian DNA methyltransferases and the MTA1 subunits of histone deacetylase complexes. A BAH domain is also found in Yeast Sir3p and in the origin receptor complex protein 1 (Orc1p), where it was found to interact with the N-terminal lobe of the silence information regulator 1 protein (Sir1p), confirming the initial hypothesis that BAH plays a role in protein-protein interactions.
Probab=30.97 E-value=81 Score=24.14 Aligned_cols=30 Identities=17% Similarity=0.194 Sum_probs=23.2
Q ss_pred CCcCCCCEEEEEeCC-----eeeeeEEEEEEeeCC
Q 023923 50 CPYQVNEKVLAFFQS-----HVYEAKVIQVQYRLK 79 (275)
Q Consensus 50 ~~f~vge~vl~~~~~-----~~y~AkIl~i~~~~~ 79 (275)
..|.+|+.|++.-.+ ..|-|+|.++....+
T Consensus 2 ~~y~vgd~V~v~~~~~~~~~~~~i~~I~~i~~~~~ 36 (123)
T cd04370 2 ITYEVGDSVYVEPDDSIKSDPPYIARIEELWEDTN 36 (123)
T ss_pred CEEecCCEEEEecCCcCCCCCCEEEEEeeeeECCC
Confidence 358899999987543 488999999987643
No 59
>TIGR00922 nusG transcription termination/antitermination factor NusG. Archaeal proteins once termed NusG share the KOW domain but are actually a ribosomal protein corresponding to L24p in bacterial and L26e in eukaryotes (TIGR00405).
Probab=30.89 E-value=1.4e+02 Score=25.03 Aligned_cols=40 Identities=20% Similarity=0.286 Sum_probs=30.4
Q ss_pred CCcCCCCEEEEEeCC-eeeeeEEEEEEeeCCeeEEEEEEcC
Q 023923 50 CPYQVNEKVLAFFQS-HVYEAKVIQVQYRLKEWTFRVHYLG 89 (275)
Q Consensus 50 ~~f~vge~vl~~~~~-~~y~AkIl~i~~~~~~~~Y~VHY~G 89 (275)
..|.+|++|.+..|+ .-+++.|.+++..++...-.|...|
T Consensus 118 ~~~~~G~~V~I~~Gpf~G~~g~v~~~~~~~~r~~V~v~~~g 158 (172)
T TIGR00922 118 IDFEVGEQVRVNDGPFANFTGTVEEVDYEKSKLKVSVSIFG 158 (172)
T ss_pred cCCCCCCEEEEeecCCCCcEEEEEEEcCCCCEEEEEEEECC
Confidence 459999999999988 5689999998765555555555554
No 60
>PF01426 BAH: BAH domain; InterPro: IPR001025 The BAH (bromo-adjacent homology) family contains proteins such as eukaryotic DNA (cytosine-5) methyltransferases IPR001525 from INTERPRO, the origin recognition complex 1 (Orc1) proteins, as well as several proteins involved in transcriptional regulation. The BAH domain appears to act as a protein-protein interaction module specialised in gene silencing, as suggested for example by its interaction within yeast Orc1p with the silent information regulator Sir1p. The BAH module might therefore play an important role by linking DNA methylation, replication and transcriptional regulation [].; GO: 0003677 DNA binding; PDB: 4DA4_A 3PT6_B 3AV6_A 3AV5_A 3AV4_A 3PT9_A 3SWR_A 3PTA_A 1M4Z_A 1ZBX_A ....
Probab=28.80 E-value=1.4e+02 Score=22.94 Aligned_cols=31 Identities=16% Similarity=0.128 Sum_probs=24.6
Q ss_pred CcCCCCEEEEEeC---CeeeeeEEEEEEeeCCee
Q 023923 51 PYQVNEKVLAFFQ---SHVYEAKVIQVQYRLKEW 81 (275)
Q Consensus 51 ~f~vge~vl~~~~---~~~y~AkIl~i~~~~~~~ 81 (275)
.|.+||.|++..+ ...|-|+|.++....++.
T Consensus 2 ~~~vGD~V~v~~~~~~~~~~v~~I~~i~~~~~~~ 35 (119)
T PF01426_consen 2 TYKVGDFVYVKPDDPPEPPYVARIEEIWEDKDGN 35 (119)
T ss_dssp EEETTSEEEEECTSTTSEEEEEEEEEEEEETTTS
T ss_pred EEeCCCEEEEeCCCCCCCCEEEEEEEEEcCCCCC
Confidence 3789999999864 368999999998865543
No 61
>smart00495 ChtBD3 Chitin-binding domain type 3.
Probab=28.25 E-value=98 Score=19.67 Aligned_cols=23 Identities=30% Similarity=0.458 Sum_probs=17.2
Q ss_pred CCCCCCcCCCCEEEEEeCCeeeeeE
Q 023923 46 TPASCPYQVNEKVLAFFQSHVYEAK 70 (275)
Q Consensus 46 ~~~~~~f~vge~vl~~~~~~~y~Ak 70 (275)
..++..|..|++| .|.|..|+|+
T Consensus 4 W~~~~~Y~~Gd~V--~~~g~~y~A~ 26 (41)
T smart00495 4 WQAGTVYTAGDVV--SYNGKVYKAK 26 (41)
T ss_pred cCCCCcCcCCCEE--EECCeEEEEe
Confidence 4556678889976 6678889885
No 62
>cd04721 BAH_plant_1 BAH, or Bromo Adjacent Homology domain, plant-specific sub-family with unknown function. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=26.30 E-value=1.1e+02 Score=25.03 Aligned_cols=32 Identities=16% Similarity=0.126 Sum_probs=25.4
Q ss_pred CCCcCCCCEEEEEeC-CeeeeeEEEEEEeeCCe
Q 023923 49 SCPYQVNEKVLAFFQ-SHVYEAKVIQVQYRLKE 80 (275)
Q Consensus 49 ~~~f~vge~vl~~~~-~~~y~AkIl~i~~~~~~ 80 (275)
+..|.+|+-|++.-. +..|-|.|.++..+.++
T Consensus 5 ~~~i~vGD~V~v~~~~~~~~va~Ie~i~ed~~g 37 (130)
T cd04721 5 GVTISVHDFVYVLSEEEDRYVAYIEDLYEDKKG 37 (130)
T ss_pred CEEEECCCEEEEeCCCCCcEEEEEEEEEEcCCC
Confidence 345899999999754 57899999999987543
No 63
>PRK05609 nusG transcription antitermination protein NusG; Validated
Probab=25.93 E-value=2.1e+02 Score=24.02 Aligned_cols=41 Identities=17% Similarity=0.249 Sum_probs=29.7
Q ss_pred CCcCCCCEEEEEeCC-eeeeeEEEEEEeeCCeeEEEEEEcCCCC
Q 023923 50 CPYQVNEKVLAFFQS-HVYEAKVIQVQYRLKEWTFRVHYLGWNK 92 (275)
Q Consensus 50 ~~f~vge~vl~~~~~-~~y~AkIl~i~~~~~~~~Y~VHY~GWn~ 92 (275)
..|.+|++|.+..|+ .-++|.|.+++..++ ...|...-.++
T Consensus 125 ~~~~~Gd~VrI~~GPf~G~~g~v~~i~~~~~--r~~v~l~~~G~ 166 (181)
T PRK05609 125 VDFEVGEMVRVIDGPFADFNGTVEEVDYEKS--KLKVLVSIFGR 166 (181)
T ss_pred cCCCCCCEEEEeccCCCCCEEEEEEEeCCCC--EEEEEEEECCC
Confidence 459999999999988 568999999875444 44444444443
No 64
>COG3458 Acetyl esterase (deacetylase) [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=25.78 E-value=1.2e+02 Score=28.72 Aligned_cols=43 Identities=12% Similarity=0.168 Sum_probs=30.3
Q ss_pred CEEEEEe------CCeeeeeEEEEEEeeCCeeEEEEEEcCCCCCcceee
Q 023923 56 EKVLAFF------QSHVYEAKVIQVQYRLKEWTFRVHYLGWNKSWDEWV 98 (275)
Q Consensus 56 e~vl~~~------~~~~y~AkIl~i~~~~~~~~Y~VHY~GWn~r~DEWV 98 (275)
..|-||+ +|..=.|.++--+..++..--.|||.|++-|.++|-
T Consensus 52 ~~ve~ydvTf~g~~g~rI~gwlvlP~~~~~~~P~vV~fhGY~g~~g~~~ 100 (321)
T COG3458 52 PRVEVYDVTFTGYGGARIKGWLVLPRHEKGKLPAVVQFHGYGGRGGEWH 100 (321)
T ss_pred CceEEEEEEEeccCCceEEEEEEeecccCCccceEEEEeeccCCCCCcc
Confidence 3466765 344444666666666667788999999999988884
No 65
>PF02559 CarD_CdnL_TRCF: CarD-like/TRCF domain; InterPro: IPR003711 The bacterium Myxococcus xanthus responds to blue light by producing carotenoids. It also responds to starvation conditions by developing fruiting bodies, where the cells differentiate into myxospores. Each response entails the transcriptional activation of a separate set of genes. A single gene, carD, is required for the activation of both light- and starvation-inducible genes []. The predicted protein contains four repeats of a DNA-binding domain present in mammalian high mobility group I(Y) proteins and other nuclear proteins from animals and plants. Other peptide stretches on CarD also resemble functional domains typical of eukaryotic transcription factors, including a very acidic region and a leucine zipper. High mobility group yI(Y) proteins are known to bind the minor groove of A+T-rich DNA [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 3MLQ_H 2EYQ_A.
Probab=25.12 E-value=1.1e+02 Score=23.28 Aligned_cols=50 Identities=8% Similarity=0.102 Sum_probs=26.6
Q ss_pred CcCCCCEEEEEeCCeeeeeEEEEEEeeCC-eeEEEEEEcCCCCCcceeeecccc
Q 023923 51 PYQVNEKVLAFFQSHVYEAKVIQVQYRLK-EWTFRVHYLGWNKSWDEWVGVHRL 103 (275)
Q Consensus 51 ~f~vge~vl~~~~~~~y~AkIl~i~~~~~-~~~Y~VHY~GWn~r~DEWV~~~ri 103 (275)
.|++||.|+.-..|.-.-..|..+...+. ...|.++|.+=+ =--||.+++
T Consensus 1 mf~~GD~VVh~~~Gv~~i~~i~~~~~~~~~~~yy~L~~~~~~---~i~vPv~~~ 51 (98)
T PF02559_consen 1 MFKIGDYVVHPNHGVGRIEGIEEIEFGGEKQEYYVLEYADDD---TIYVPVDNA 51 (98)
T ss_dssp T--TTSEEEETTTEEEEEEEEEEEECTTEEEEEEEEEECCCE---EEEEECCCG
T ss_pred CCCCCCEEEECCCceEEEEEEEEEeeCCeeEEEEEEEECCCC---EEEEEcCCh
Confidence 38999988877667432223333333222 346666776644 245676654
No 66
>PF06543 Lac_bphage_repr: Lactococcus bacteriophage repressor; InterPro: IPR009498 This entry represents the C terminus of various Lactococcus bacteriophage repressor proteins.
Probab=24.06 E-value=24 Score=24.28 Aligned_cols=9 Identities=44% Similarity=1.446 Sum_probs=7.4
Q ss_pred Ccceeeecc
Q 023923 93 SWDEWVGVH 101 (275)
Q Consensus 93 r~DEWV~~~ 101 (275)
-||+||+.+
T Consensus 19 dWd~wvSf~ 27 (49)
T PF06543_consen 19 DWDKWVSFD 27 (49)
T ss_pred chHHheeeC
Confidence 489999985
No 67
>KOG1904 consensus Transcription coactivator [Transcription]
Probab=23.63 E-value=56 Score=32.99 Aligned_cols=58 Identities=10% Similarity=0.163 Sum_probs=45.1
Q ss_pred CcCCCCEEEEEeCC-eeeeeEEEEEEee---CCeeEEEEEEcCCCCCcceeeecccccccCHHh
Q 023923 51 PYQVNEKVLAFFQS-HVYEAKVIQVQYR---LKEWTFRVHYLGWNKSWDEWVGVHRLMKDTEAN 110 (275)
Q Consensus 51 ~f~vge~vl~~~~~-~~y~AkIl~i~~~---~~~~~Y~VHY~GWn~r~DEWV~~~ri~k~t~en 110 (275)
.|.+|+.|++-=.| -.|.|+|...... .....|+|-|.|=.. =-||...+|+.|....
T Consensus 12 ~~~~GDLV~AKlkgyp~WParI~~~~~~~~kp~pkky~V~FfGT~e--~Afl~p~dlqpy~~~k 73 (496)
T KOG1904|consen 12 NFKCGDLVFAKLKGYPPWPARIRNGPDGAVKPPPKKYTVFFFGTKE--TAFLKPKDLQPYMLNK 73 (496)
T ss_pred CCCCCceeeecccCCCCCcccccCcccccccCCCceeEEEEeccCc--ccccchhhccchhhhh
Confidence 59999999997666 6789999988764 345799999988554 2588888888886544
No 68
>TIGR01956 NusG_myco NusG family protein. This model represents a family of Mycoplasma proteins orthologous to the bacterial transcription termination/antitermination factor NusG. These sequences from Mycoplasma are notably diverged (long branches in a Neighbor-joining phylogenetic tree) from the bacterial species. And although NusA and ribosomal protein S10 (NusE) appear to be present, NusB may be absent in Mycoplasmas calling into question whether these species have a functional Nus system including this family as a member.
Probab=22.72 E-value=3.9e+02 Score=24.77 Aligned_cols=41 Identities=15% Similarity=0.014 Sum_probs=29.5
Q ss_pred CCcCCCCEEEEEeCC-eeeeeEEEEEEeeCCeeEEEEEEcCCCC
Q 023923 50 CPYQVNEKVLAFFQS-HVYEAKVIQVQYRLKEWTFRVHYLGWNK 92 (275)
Q Consensus 50 ~~f~vge~vl~~~~~-~~y~AkIl~i~~~~~~~~Y~VHY~GWn~ 92 (275)
..|.+|+.|.+..|+ .-+++.|.+++.+++ ...|...-+++
T Consensus 204 ~~f~vGd~VrI~dGPF~GfeG~I~eid~~k~--Rv~VlV~IfGR 245 (258)
T TIGR01956 204 SKFRVGNFVKIVDGPFKGIVGKIKKIDQEKK--KAIVEVEILGK 245 (258)
T ss_pred cCCCCCCEEEEEecCCCCcEEEEEEEeCCCC--EEEEEEEecCC
Confidence 359999999999998 568999999986544 34444433443
No 69
>KOG2618 consensus Uncharacterized conserved protein [Function unknown]
Probab=22.56 E-value=73 Score=30.45 Aligned_cols=70 Identities=14% Similarity=0.191 Sum_probs=37.2
Q ss_pred CCCCCCCCCcccccccccCCCCCCCCCCCcCCCCEEEEEeCCeeeeeEEEEEEeeCCeeEEEEEEcCCCC-----Cccee
Q 023923 23 SDEPTNTKTETDEDKEKECPCPPTPASCPYQVNEKVLAFFQSHVYEAKVIQVQYRLKEWTFRVHYLGWNK-----SWDEW 97 (275)
Q Consensus 23 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~vge~vl~~~~~~~y~AkIl~i~~~~~~~~Y~VHY~GWn~-----r~DEW 97 (275)
+++...+..-.|..+| ...++..-.-+|..| +|++.-.| .||=+-. .....-|||||..|.- -+|-|
T Consensus 91 ~d~~~~~f~tfNaRlE--~lmEsksfrrpl~Kg-RCvVl~dG-fyEWkt~----gskkqpYfI~f~dgRlL~mAglfD~w 162 (366)
T KOG2618|consen 91 DDSQFKTFRTFNARLE--NLMESKSFRRPLEKG-RCVVLMDG-FYEWKTV----GSKKQPYFISFRDGRLLFMAGLFDYW 162 (366)
T ss_pred CCccccceeecccchH--HHHhhhhhhccCCCC-cEEEEecc-eeeeeec----cccCCceEEEEecCceeEeeeehhee
Confidence 3444444444444444 222222233368889 88887776 2222211 2233479999988754 45666
Q ss_pred eec
Q 023923 98 VGV 100 (275)
Q Consensus 98 V~~ 100 (275)
-++
T Consensus 163 E~e 165 (366)
T KOG2618|consen 163 EKE 165 (366)
T ss_pred ccc
Confidence 654
No 70
>PF07154 DUF1392: Protein of unknown function (DUF1392); InterPro: IPR009824 This family consists of several hypothetical cyanobacterial proteins of around 150 residues in length, which seem to be specific to Anabaena species. The function of this family is unknown.
Probab=22.16 E-value=2.6e+02 Score=23.76 Aligned_cols=35 Identities=14% Similarity=0.391 Sum_probs=26.9
Q ss_pred CcCCCCEEEE-EeCCeeeeeEEEEEEeeCCeeEEEE
Q 023923 51 PYQVNEKVLA-FFQSHVYEAKVIQVQYRLKEWTFRV 85 (275)
Q Consensus 51 ~f~vge~vl~-~~~~~~y~AkIl~i~~~~~~~~Y~V 85 (275)
.|..||+|.. |++...-.=-|+.|..-++.+.|.|
T Consensus 87 ~F~LGd~V~~~f~~~~pkqRlIlGv~lv~~~W~Y~V 122 (150)
T PF07154_consen 87 AFRLGDRVEFRFYSDGPKQRLILGVFLVNNSWFYAV 122 (150)
T ss_pred ceecCCEEEEEecCCCCceEEEEEEEEecCceEEEE
Confidence 5999999975 4444443445888888899999998
No 71
>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=21.91 E-value=1.3e+02 Score=24.90 Aligned_cols=35 Identities=14% Similarity=0.066 Sum_probs=26.5
Q ss_pred CCEEEEEeCCeeeeeEEEEEEeeCCeeEEEEEEcCCC
Q 023923 55 NEKVLAFFQSHVYEAKVIQVQYRLKEWTFRVHYLGWN 91 (275)
Q Consensus 55 ge~vl~~~~~~~y~AkIl~i~~~~~~~~Y~VHY~GWn 91 (275)
.+.|+|.++-..|+|.|+.... +...|.|.|..=.
T Consensus 13 ~~avW~~~~~~yYPa~~~~~~~--~~~~~~V~Fedg~ 47 (131)
T PF08605_consen 13 ENAVWAGYNLKYYPATCVGSGV--DRDRSLVRFEDGT 47 (131)
T ss_pred ccceeecCCCeEeeEEEEeecC--CCCeEEEEEecCc
Confidence 3557888877999999999833 3446999997655
No 72
>PF04319 NifZ: NifZ domain; InterPro: IPR007415 NifZ is a short protein is found in the nif (nitrogen fixation) operon. It is required for the maturation of the nitrogenase MoFe protein. In the absence of NifZ, only one of the two P-clusters of the MoFe protein is matured to the ultimate [8Fe-7S] structure. The other P-cluster site in the protein contains a [4Fe-4S] cluster pair, suggesting that NifZ is specifically required for the formation of the second P-cluster [, , ].; GO: 0009399 nitrogen fixation
Probab=21.78 E-value=1.4e+02 Score=22.46 Aligned_cols=12 Identities=25% Similarity=0.188 Sum_probs=9.2
Q ss_pred CcCCCCEEEEEe
Q 023923 51 PYQVNEKVLAFF 62 (275)
Q Consensus 51 ~f~vge~vl~~~ 62 (275)
.|+.|++|.+..
T Consensus 4 ~f~~G~~V~a~~ 15 (75)
T PF04319_consen 4 RFEWGDKVRARK 15 (75)
T ss_pred ccCCCCEEEEEE
Confidence 588899888753
No 73
>PF09274 ParG: ParG; InterPro: IPR015354 This entry represents plasmid partition proteins; it adopts a ribbon-helix-helix fold, with a core of four alpha-helices. The proteins are an essential component of the DNA partition complex of the multi drug resistance plasmid TP228 []. ; PDB: 1P94_B.
Probab=21.65 E-value=2.8e+02 Score=20.88 Aligned_cols=39 Identities=15% Similarity=0.299 Sum_probs=27.6
Q ss_pred CceeEEeCChhHHHHHHHHHHHHhhcCceeeCCCCCCHHHHHHHHHHhhh
Q 023923 163 ENFVNIQIPPPLKKQLVDDCEFITHLGKLVKLPRTPNVDDILEKYCDYRS 212 (275)
Q Consensus 163 ~~~i~i~iP~~Lk~~LvdD~~~I~~~~~L~~LPa~~tV~~Il~~Y~~~~~ 212 (275)
...+.|+||+.|...|--.|-.- ..+|.+|+.++++...
T Consensus 34 ~Krvtv~i~EelH~r~K~~ca~~-----------G~sisdvv~eLid~wL 72 (76)
T PF09274_consen 34 TKRVTVNIDEELHRRFKAACAKQ-----------GTSISDVVRELIDKWL 72 (76)
T ss_dssp EEEE-EEEEHHHHHHHHHHHHHH-----------T--HHHHHHHHHHHHH
T ss_pred eEEEEEecCHHHHHHHHHHHHHc-----------CCcHHHHHHHHHHHHH
Confidence 45689999999999887766533 3489999999887543
No 74
>cd04713 BAH_plant_3 BAH, or Bromo Adjacent Homology domain, plant-specific sub-family with unknown function. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=21.47 E-value=1.9e+02 Score=24.11 Aligned_cols=30 Identities=17% Similarity=0.206 Sum_probs=24.0
Q ss_pred CCCcCCCCEEEEEeC--CeeeeeEEEEEEeeC
Q 023923 49 SCPYQVNEKVLAFFQ--SHVYEAKVIQVQYRL 78 (275)
Q Consensus 49 ~~~f~vge~vl~~~~--~~~y~AkIl~i~~~~ 78 (275)
|..|.+|+-|++.-+ ...|-|+|+++....
T Consensus 18 g~~y~vgD~Vlv~~~~~~~pyI~~I~~i~~~~ 49 (146)
T cd04713 18 GNKYRLEDCVLLVPEDDQKPYIAIIKDIYKQE 49 (146)
T ss_pred CEEEECCCEEEEeCCCCCCCEEEEEEEEEEcC
Confidence 456999999998753 468999999998754
No 75
>PF15136 UPF0449: Uncharacterised protein family UPF0449
Probab=21.37 E-value=66 Score=25.39 Aligned_cols=21 Identities=33% Similarity=0.463 Sum_probs=15.9
Q ss_pred eeeCCCCCCHHHHHHHHHHhh
Q 023923 191 LVKLPRTPNVDDILEKYCDYR 211 (275)
Q Consensus 191 L~~LPa~~tV~~Il~~Y~~~~ 211 (275)
|+.=|.-|||++||+|-....
T Consensus 7 LPtRP~PPTvEqILEDv~~A~ 27 (97)
T PF15136_consen 7 LPTRPEPPTVEQILEDVRGAP 27 (97)
T ss_pred CCCCCCCCCHHHHHHHHhcCC
Confidence 344467799999999987653
Done!