Query 033242
Match_columns 124
No_of_seqs 104 out of 115
Neff 5.5
Searched_HMMs 46136
Date Fri Mar 29 11:32:37 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/033242.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/033242hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4414 COP9 signalosome, subu 100.0 2.2E-49 4.7E-54 298.6 10.8 123 1-123 1-123 (197)
2 PF10075 PCI_Csn8: COP9 signal 99.9 5.6E-23 1.2E-27 150.2 5.9 84 40-123 5-88 (143)
3 PF03399 SAC3_GANP: SAC3/GANP/ 96.7 0.0072 1.6E-07 45.4 7.1 83 40-123 100-182 (204)
4 PF14559 TPR_19: Tetratricopep 92.6 0.84 1.8E-05 27.8 6.4 66 9-81 1-66 (68)
5 KOG3151 26S proteasome regulat 88.6 3.8 8.3E-05 33.5 8.4 81 40-121 101-181 (260)
6 COG3071 HemY Uncharacterized e 84.3 13 0.00027 32.4 9.7 101 6-114 194-305 (400)
7 PF12854 PPR_1: PPR repeat 79.1 3.4 7.5E-05 22.9 3.1 30 37-66 5-34 (34)
8 PF14938 SNAP: Soluble NSF att 78.2 15 0.00032 29.2 7.7 111 9-120 165-279 (282)
9 PF12218 End_N_terminal: N ter 70.1 0.54 1.2E-05 31.0 -2.0 17 52-68 41-57 (67)
10 PF01535 PPR: PPR repeat; Int 69.1 5.2 0.00011 20.3 2.1 26 42-67 3-28 (31)
11 cd05513 Bromo_brd7_like Bromod 62.2 5.3 0.00011 27.7 1.6 29 1-29 42-70 (98)
12 PRK10747 putative protoheme IX 60.5 99 0.0021 25.7 10.1 99 7-111 195-302 (398)
13 TIGR02795 tol_pal_ybgF tol-pal 58.3 47 0.001 21.3 7.5 89 3-94 6-95 (119)
14 cd05498 Bromo_Brdt_II_like Bro 57.1 7.1 0.00015 26.6 1.5 29 1-29 46-74 (102)
15 cd05503 Bromo_BAZ2A_B_like Bro 57.1 6.9 0.00015 26.6 1.5 29 1-29 41-69 (97)
16 cd05505 Bromo_WSTF_like Bromod 56.8 7.1 0.00015 26.9 1.5 29 1-29 41-69 (97)
17 cd05507 Bromo_brd8_like Bromod 56.5 7.5 0.00016 26.9 1.6 29 1-29 44-72 (104)
18 PF10607 CLTH: CTLH/CRA C-term 56.2 68 0.0015 22.5 8.7 112 4-118 6-122 (145)
19 KOG1861 Leucine permease trans 55.6 1.6E+02 0.0035 26.6 11.2 112 7-122 356-467 (540)
20 cd05506 Bromo_plant1 Bromodoma 55.1 8.2 0.00018 26.1 1.6 29 1-29 43-71 (99)
21 KOG0775 Transcription factor S 54.5 77 0.0017 26.6 7.4 75 14-114 62-138 (304)
22 cd05495 Bromo_cbp_like Bromodo 53.8 8.7 0.00019 26.8 1.6 29 1-29 47-75 (108)
23 cd05501 Bromo_SP100C_like Brom 53.3 8.9 0.00019 27.0 1.5 29 1-29 41-69 (102)
24 cd05520 Bromo_polybromo_III Br 52.3 9 0.00019 26.6 1.4 29 1-29 47-75 (103)
25 cd05518 Bromo_polybromo_IV Bro 52.2 9.3 0.0002 26.5 1.5 29 1-29 47-75 (103)
26 cd05516 Bromo_SNF2L2 Bromodoma 50.4 10 0.00022 26.4 1.5 29 1-29 48-76 (107)
27 cd05497 Bromo_Brdt_I_like Brom 50.0 10 0.00022 26.5 1.5 29 1-29 48-76 (107)
28 cd05509 Bromo_gcn5_like Bromod 49.7 11 0.00025 25.5 1.6 29 1-29 42-70 (101)
29 cd05512 Bromo_brd1_like Bromod 49.5 12 0.00026 25.7 1.7 29 1-29 42-70 (98)
30 cd05508 Bromo_RACK7 Bromodomai 49.5 12 0.00025 26.0 1.6 29 1-29 43-71 (99)
31 cd05504 Bromo_Acf1_like Bromod 49.1 11 0.00024 26.7 1.5 29 1-29 53-81 (115)
32 PF03704 BTAD: Bacterial trans 47.1 94 0.002 21.5 7.0 59 7-71 70-128 (146)
33 cd05510 Bromo_SPT7_like Bromod 47.1 13 0.00028 26.3 1.6 29 1-29 49-77 (112)
34 PF13041 PPR_2: PPR repeat fam 47.1 26 0.00057 20.2 2.8 30 38-67 2-31 (50)
35 cd05519 Bromo_SNF2 Bromodomain 47.0 12 0.00027 25.6 1.5 29 1-29 47-75 (103)
36 PF09976 TPR_21: Tetratricopep 46.7 99 0.0022 21.6 10.9 98 3-110 15-123 (145)
37 cd05525 Bromo_ASH1 Bromodomain 45.9 13 0.00028 26.0 1.4 29 1-29 49-77 (106)
38 cd05517 Bromo_polybromo_II Bro 45.3 13 0.00029 25.7 1.4 29 1-29 47-75 (103)
39 cd05500 Bromo_BDF1_2_I Bromodo 44.7 15 0.00032 25.2 1.5 29 1-29 47-75 (103)
40 TIGR00756 PPR pentatricopeptid 44.4 28 0.00061 17.5 2.4 26 42-67 3-28 (35)
41 smart00668 CTLH C-terminal to 44.3 63 0.0014 18.9 4.2 27 3-29 5-31 (58)
42 cd05515 Bromo_polybromo_V Brom 43.2 15 0.00034 25.3 1.5 29 1-29 47-75 (105)
43 cd05492 Bromo_ZMYND11 Bromodom 42.7 16 0.00036 25.8 1.6 29 1-29 47-75 (109)
44 cd04369 Bromodomain Bromodomai 41.3 18 0.00039 23.0 1.5 29 1-29 43-71 (99)
45 cd05511 Bromo_TFIID Bromodomai 41.2 18 0.00039 25.4 1.6 29 1-29 41-69 (112)
46 PRK10564 maltose regulon perip 41.0 32 0.00069 28.9 3.2 23 4-26 262-284 (303)
47 cd05524 Bromo_polybromo_I Brom 40.8 17 0.00037 25.6 1.4 29 1-29 49-77 (113)
48 cd05499 Bromo_BDF1_2_II Bromod 40.2 19 0.00041 24.5 1.5 29 1-29 46-74 (102)
49 cd05522 Bromo_Rsc1_2_II Bromod 40.1 19 0.0004 24.9 1.5 29 1-29 48-76 (104)
50 cd05528 Bromo_AAA Bromodomain; 40.1 21 0.00045 25.2 1.8 29 1-29 44-72 (112)
51 PF12536 DUF3734: Patatin phos 39.7 30 0.00065 24.2 2.5 26 58-84 24-49 (108)
52 PF10108 DNA_pol_B_exo2: Predi 39.3 1E+02 0.0022 24.4 5.7 48 1-60 134-181 (209)
53 KOG2378 cAMP-regulated guanine 39.2 24 0.00052 31.7 2.3 61 13-88 411-471 (573)
54 PF13525 YfiO: Outer membrane 38.7 1.7E+02 0.0036 22.0 9.2 115 4-121 10-143 (203)
55 cd05496 Bromo_WDR9_II Bromodom 38.3 20 0.00044 25.6 1.5 29 1-29 46-74 (119)
56 PLN03081 pentatricopeptide (PP 37.6 2.9E+02 0.0064 24.6 9.0 57 6-67 398-454 (697)
57 cd05529 Bromo_WDR9_I_like Brom 37.4 22 0.00048 25.6 1.6 29 1-29 69-97 (128)
58 PF12169 DNA_pol3_gamma3: DNA 37.0 58 0.0012 22.8 3.7 43 78-120 17-60 (143)
59 COG2956 Predicted N-acetylgluc 36.5 2.3E+02 0.005 24.6 7.7 104 11-119 153-260 (389)
60 PF00439 Bromodomain: Bromodom 33.6 23 0.0005 22.5 1.1 29 1-29 37-65 (84)
61 PF02847 MA3: MA3 domain; Int 33.2 88 0.0019 20.9 4.0 34 15-55 78-111 (113)
62 smart00297 BROMO bromo domain. 32.8 29 0.00064 23.1 1.5 29 1-29 48-76 (107)
63 PF08727 P3A: Poliovirus 3A pr 32.1 33 0.00071 22.1 1.5 26 4-29 18-43 (57)
64 COG2909 MalT ATP-dependent tra 31.6 1E+02 0.0022 29.6 5.2 27 3-29 364-390 (894)
65 PF08771 Rapamycin_bind: Rapam 29.3 1.9E+02 0.0042 19.9 7.8 70 11-88 26-95 (100)
66 PF08898 DUF1843: Domain of un 27.7 1.1E+02 0.0023 19.4 3.3 24 5-28 6-29 (53)
67 PF11159 DUF2939: Protein of u 27.3 1.7E+02 0.0037 19.5 4.6 40 78-120 16-55 (95)
68 PLN02407 diphosphomevalonate d 25.7 55 0.0012 27.8 2.3 27 2-28 236-262 (343)
69 PLN03081 pentatricopeptide (PP 24.7 2.2E+02 0.0047 25.4 5.9 34 33-67 153-186 (697)
70 PLN03077 Protein ECB2; Provisi 24.7 5.4E+02 0.012 23.5 9.9 90 6-101 561-651 (857)
71 PLN03218 maturation of RBCL 1; 24.5 1.9E+02 0.004 28.1 5.8 22 42-63 582-603 (1060)
72 cd03199 GST_C_GRX2 GST_C famil 24.5 2.3E+02 0.0051 20.7 5.1 55 63-117 56-122 (128)
73 cd05502 Bromo_tif1_like Bromod 23.8 52 0.0011 22.7 1.5 29 1-29 44-75 (109)
74 PF08482 HrpB_C: ATP-dependent 23.3 63 0.0014 23.9 1.9 24 83-106 105-132 (133)
75 PF14276 DUF4363: Domain of un 23.3 1.8E+02 0.004 20.0 4.3 61 3-73 32-92 (121)
76 PF11573 Med23: Mediator compl 23.0 2.2E+02 0.0048 28.7 6.0 59 62-120 151-221 (1341)
77 PLN03218 maturation of RBCL 1; 21.9 7.5E+02 0.016 24.1 10.0 57 6-67 514-570 (1060)
78 PF11237 DUF3038: Protein of u 21.5 3.7E+02 0.0079 20.7 5.9 61 54-122 65-125 (171)
79 COG1689 Uncharacterized protei 21.5 1E+02 0.0022 25.3 3.0 44 15-65 55-98 (274)
80 COG2909 MalT ATP-dependent tra 21.2 3.1E+02 0.0067 26.5 6.3 74 9-83 468-541 (894)
81 PF07721 TPR_4: Tetratricopept 20.9 1.4E+02 0.0029 15.1 2.8 22 43-64 5-26 (26)
82 KOG0019 Molecular chaperone (H 20.3 45 0.00099 30.7 0.8 43 48-108 232-274 (656)
83 PLN03077 Protein ECB2; Provisi 20.1 2.2E+02 0.0047 26.1 5.1 59 6-68 596-654 (857)
No 1
>KOG4414 consensus COP9 signalosome, subunit CSN8 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=100.00 E-value=2.2e-49 Score=298.62 Aligned_cols=123 Identities=52% Similarity=1.037 Sum_probs=121.0
Q ss_pred CCchhHHHHHhccCHHHHHHHHHHHhhhhhhcCCcCCCchhHHHHHHHHHHhhchhhHHHHHhhCChhhhhccHHHHHHH
Q 033242 1 MDFSPLTDALASKSYEKIADICDDLMLKVAAEGIVFQDEWPYVIHLLGYYYVNDINSARFLWKSIPSTIKDSRAEVVAAW 80 (124)
Q Consensus 1 m~~~~i~~~~~~~~~~~l~~~cE~~EL~~~~~g~~~~~~~~Y~~~L~~yLl~~Dl~~AR~LwkRiP~~lk~~~~el~~iw 80 (124)
||.+++.+++++++|+|++++||++||++++.|++++++|||++||++|+|+||.+||||||||||..||+.+||+.++|
T Consensus 1 M~la~m~EalaA~SFdKi~D~Cdn~~Lea~~eGIa~~~dw~Ya~~L~~Yf~~dD~dnARfLWKRIP~AIKe~k~El~aaW 80 (197)
T KOG4414|consen 1 MDLAPMAEALAAFSFDKIADICDNLELEAAGEGIATHDDWPYAIHLAGYFLHDDCDNARFLWKRIPPAIKEAKPELGAAW 80 (197)
T ss_pred CCchHHHHHHHhhhHHHHHHHhhhhhhcccCCCccCCCcchHHHHHHHHHHhccchhHHHHHHhCCHHHhhcCchhhhhh
Confidence 99999999999999999999999999998766999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHccChHHHHHHhhCCCCCHHHHHHHHHHHHHHhhhcC
Q 033242 81 KIGQHLWTRDYAGVYDAIRGFDWSQEAQALVAAFSGACTKSSC 123 (124)
Q Consensus 81 ~l~~~lw~rdy~~vy~al~~~~Ws~~~~~lv~~l~~~~r~rt~ 123 (124)
.|||.+|||||+|||++|++++||+.++++|++|++.+|+|.|
T Consensus 81 giGQkiWq~Df~GiYeaI~~~dWSeeak~imaAf~D~~~kR~F 123 (197)
T KOG4414|consen 81 GIGQKIWQHDFAGIYEAINAHDWSEEAKDIMAAFRDATRKRAF 123 (197)
T ss_pred hhhHHHHhcccchHHHHHhhhcchHHHHHHHHHHHHHHHHHHH
Confidence 9999999999999999999999999999999999999999987
No 2
>PF10075 PCI_Csn8: COP9 signalosome, subunit CSN8; InterPro: IPR019280 The photomorphogenic 9 (COP9) signalosome or CSN complex is composed of eight subunits: Cops1/GPS1, Cops2, Cops3, Cops4, Cops5, Cop6, Cops7 (Cops7A or Cops7B) and Cops8. In the complex, Cops8, which is the smallest subunit, probably interacts directly with Cops3, Cops4 and Cops7 (Cops7A or Cops7B). This signalosome is homologous to the lid subcomplex of the 26S proteasome and regulates the ubiquitin-proteasome pathway. It functions as a structural scaffold for subunit-subunit interactions within the complex and is a key regulator of photomorphogenic development [].; PDB: 1RZ4_A.
Probab=99.88 E-value=5.6e-23 Score=150.17 Aligned_cols=84 Identities=35% Similarity=0.707 Sum_probs=73.8
Q ss_pred hhHHHHHHHHHHhhchhhHHHHHhhCChhhhhccHHHHHHHHHHHHHHccChHHHHHHhhCCCCCHHHHHHHHHHHHHHh
Q 033242 40 WPYVIHLLGYYYVNDINSARFLWKSIPSTIKDSRAEVVAAWKIGQHLWTRDYAGVYDAIRGFDWSQEAQALVAAFSGACT 119 (124)
Q Consensus 40 ~~Y~~~L~~yLl~~Dl~~AR~LwkRiP~~lk~~~~el~~iw~l~~~lw~rdy~~vy~al~~~~Ws~~~~~lv~~l~~~~r 119 (124)
.+|+.+|+.||++||+++||++|+|||+++++.||+++++|.|+++||+++|++||.++++.+|++.++++|..|.+.+|
T Consensus 5 ~~~~~~Ll~~L~~~~~~df~~~~~rip~~~~~~~~~i~~i~~l~~~L~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~iR 84 (143)
T PF10075_consen 5 EIYALILLKYLMQNDLSDFRLLWKRIPEELKQSDPEIKAIWSLGQALWEGDYSKFWQALRSNPWSPDYKPFVPGFEDTIR 84 (143)
T ss_dssp HHHHHHHHHHHHTTTSTHHHHHHHTS-HHHHTS-TTHHHHHHHHHHHHTT-HHHHHHHS-TT----HHHHTSTTHHHHHH
T ss_pred hHHHHHHHHHHHcCCchHHHHHHHcCCHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHhccchHHHHHHHHHHHHHHH
Confidence 47999999999999999999999999999999899999999999999999999999999999999999999999999999
Q ss_pred hhcC
Q 033242 120 KSSC 123 (124)
Q Consensus 120 ~rt~ 123 (124)
++++
T Consensus 85 ~~i~ 88 (143)
T PF10075_consen 85 ERIA 88 (143)
T ss_dssp HHHH
T ss_pred HHHH
Confidence 9875
No 3
>PF03399 SAC3_GANP: SAC3/GANP/Nin1/mts3/eIF-3 p25 family; InterPro: IPR005062 This large family includes diverse proteins involved in large complexes [, , ]. The alignment contains one highly conserved negatively charged residue and one highly conserved positively charged residue that are probably important for the function of these proteins. The family includes the yeast nuclear export factor Sac3 [], and mammalian GANP/MCM3-associated proteins, which facilitate the nuclear localisation of MCM3, a protein that associates with chromatin in the G1 phase of the cell-cycle. The 26S protease (or 26S proteasome) is responsible for degrading ubiquitin conjugates. It consists of 19S regulatory complexes associated with the ends of 20S proteasomes. The 19S regulatory complex is composed of about 20 different polypeptides and confers ATP-dependence and substrate specificity to the 26S enzyme. The conserved region occurs at the C-terminal of the Nin1-like regulatory subunit [, , ]. This family includes several eukaryotic translation initiation factor 3 subunit 11 (eIF-3 p25) proteins. Eukaryotic initiation factor 3 (eIF3) is a multisubunit complex that is required for binding of mRNA to 40 S ribosomal subunits, stabilisation of ternary complex binding to 40 S subunits, and dissociation of 40 and 60 S subunits [].; PDB: 3T5V_D.
Probab=96.74 E-value=0.0072 Score=45.44 Aligned_cols=83 Identities=17% Similarity=0.102 Sum_probs=61.8
Q ss_pred hhHHHHHHHHHHhhchhhHHHHHhhCChhhhhccHHHHHHHHHHHHHHccChHHHHHHhhCCCCCHHHHHHHHHHHHHHh
Q 033242 40 WPYVIHLLGYYYVNDINSARFLWKSIPSTIKDSRAEVVAAWKIGQHLWTRDYAGVYDAIRGFDWSQEAQALVAAFSGACT 119 (124)
Q Consensus 40 ~~Y~~~L~~yLl~~Dl~~AR~LwkRiP~~lk~~~~el~~iw~l~~~lw~rdy~~vy~al~~~~Ws~~~~~lv~~l~~~~r 119 (124)
-+.+-+|+.+|.+|+..+.-.....+|++++ .+|.++-+-.|.+++.+.||..+++.+++.+=+...+.++..+.+..|
T Consensus 100 ef~~y~lL~~l~~~~~~~~~~~l~~l~~~~~-~~~~i~~al~l~~a~~~gny~~ff~l~~~~~~~~l~~~l~~~~~~~iR 178 (204)
T PF03399_consen 100 EFIAYYLLYLLCQNNIPDFHMELELLPSEIL-SSPYIQFALELCRALMEGNYVRFFRLYRSKSAPYLFACLMERFFNRIR 178 (204)
T ss_dssp HHHHHHHHHTT-T---THHHHHHTTS-HHHH-TSHHHHHHHHHHHHH--TTHHHHHHHHT-TTS-HHHHHHHGGGHHHHH
T ss_pred HHHHHHHHHHHHcccchHHHHHHHHCchhhh-cCHHHHHHHHHHHHHHcCCHHHHHHHHhccCCChHHHHHHHHHHHHHH
Confidence 4566666666658877777777888999988 479999999999999999999999999666788888999998888888
Q ss_pred hhcC
Q 033242 120 KSSC 123 (124)
Q Consensus 120 ~rt~ 123 (124)
.+.+
T Consensus 179 ~~al 182 (204)
T PF03399_consen 179 LRAL 182 (204)
T ss_dssp HHHH
T ss_pred HHHH
Confidence 8754
No 4
>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A ....
Probab=92.64 E-value=0.84 Score=27.77 Aligned_cols=66 Identities=11% Similarity=0.123 Sum_probs=49.1
Q ss_pred HHhccCHHHHHHHHHHHhhhhhhcCCcCCCchhHHHHHHHHHHhhchhhHHHHHhhCChhhhhccHHHHHHHH
Q 033242 9 ALASKSYEKIADICDDLMLKVAAEGIVFQDEWPYVIHLLGYYYVNDINSARFLWKSIPSTIKDSRAEVVAAWK 81 (124)
Q Consensus 9 ~~~~~~~~~l~~~cE~~EL~~~~~g~~~~~~~~Y~~~L~~yLl~~Dl~~AR~LwkRiP~~lk~~~~el~~iw~ 81 (124)
++..|+|++-+..++..--. .|+ .+ -.+..+--+|+-.++...|+-++++++..-.. +|++..++.
T Consensus 1 ll~~~~~~~A~~~~~~~l~~-~p~---~~--~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~-~~~~~~l~a 66 (68)
T PF14559_consen 1 LLKQGDYDEAIELLEKALQR-NPD---NP--EARLLLAQCYLKQGQYDEAEELLERLLKQDPD-NPEYQQLLA 66 (68)
T ss_dssp HHHTTHHHHHHHHHHHHHHH-TTT---SH--HHHHHHHHHHHHTT-HHHHHHHHHCCHGGGTT-HHHHHHHHH
T ss_pred ChhccCHHHHHHHHHHHHHH-CCC---CH--HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcC-HHHHHHHHh
Confidence 57889999999999887433 222 12 24566777888999999999999999999885 477776653
No 5
>KOG3151 consensus 26S proteasome regulatory complex, subunit RPN12/PSMD8 [Posttranslational modification, protein turnover, chaperones]
Probab=88.62 E-value=3.8 Score=33.49 Aligned_cols=81 Identities=16% Similarity=0.123 Sum_probs=71.7
Q ss_pred hhHHHHHHHHHHhhchhhHHHHHhhCChhhhhccHHHHHHHHHHHHHHccChHHHHHHhhCCCCCHHHHHHHHHHHHHHh
Q 033242 40 WPYVIHLLGYYYVNDINSARFLWKSIPSTIKDSRAEVVAAWKIGQHLWTRDYAGVYDAIRGFDWSQEAQALVAAFSGACT 119 (124)
Q Consensus 40 ~~Y~~~L~~yLl~~Dl~~AR~LwkRiP~~lk~~~~el~~iw~l~~~lw~rdy~~vy~al~~~~Ws~~~~~lv~~l~~~~r 119 (124)
..-+.+|+-.|-+|.+.+=.....++|..+++.+|-+.-.-++-|.+=...|..|+.+.++.+ ++...-+|.-+.+..|
T Consensus 101 ~l~GLnLL~LLsqNRiaeFHteLe~lp~~~l~~~~~I~~~v~LEq~~MEGaYnKv~~a~~s~p-~~~y~~FmdIl~~tiR 179 (260)
T KOG3151|consen 101 KLLGLNLLYLLSQNRIAEFHTELELLPKKILQHNPYISHPVSLEQSLMEGAYNKVLSAKQSIP-SEEYTYFMDILLDTIR 179 (260)
T ss_pred HHHHHHHHHHHHhccHHHHHHHHHhccHHHhhccchhhhHHHHHHHHHhhHHHHHHHHHhcCC-cHHHHHHHHHHHHHHH
Confidence 456777888888999999999999999999999999999999999999999999999999888 7777777877777776
Q ss_pred hh
Q 033242 120 KS 121 (124)
Q Consensus 120 ~r 121 (124)
+.
T Consensus 180 dE 181 (260)
T KOG3151|consen 180 DE 181 (260)
T ss_pred HH
Confidence 53
No 6
>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]
Probab=84.34 E-value=13 Score=32.38 Aligned_cols=101 Identities=16% Similarity=0.260 Sum_probs=65.4
Q ss_pred HHHHHhccCHHHHHHHHHHHhhhhhhcCCcCCCchhHHHH---HHHHHH-----hhchhhHHHHHhhCChhhhhccHHHH
Q 033242 6 LTDALASKSYEKIADICDDLMLKVAAEGIVFQDEWPYVIH---LLGYYY-----VNDINSARFLWKSIPSTIKDSRAEVV 77 (124)
Q Consensus 6 i~~~~~~~~~~~l~~~cE~~EL~~~~~g~~~~~~~~Y~~~---L~~yLl-----~~Dl~~AR~LwkRiP~~lk~~~~el~ 77 (124)
++.++..|++..+..+.++++=. |.-+.+. +..| --.=|+ .+|...=+--||++|..+| ++|+|+
T Consensus 194 ~r~y~~~g~~~~ll~~l~~L~ka----~~l~~~e--~~~le~~a~~glL~q~~~~~~~~gL~~~W~~~pr~lr-~~p~l~ 266 (400)
T COG3071 194 LRAYIRLGAWQALLAILPKLRKA----GLLSDEE--AARLEQQAWEGLLQQARDDNGSEGLKTWWKNQPRKLR-NDPELV 266 (400)
T ss_pred HHHHHHhccHHHHHHHHHHHHHc----cCCChHH--HHHHHHHHHHHHHHHHhccccchHHHHHHHhccHHhh-cChhHH
Confidence 56788999999999999887732 3322222 1111 111111 2344455678999999999 579998
Q ss_pred HHHHHHHHHHccChHHHHHHhhC---CCCCHHHHHHHHHH
Q 033242 78 AAWKIGQHLWTRDYAGVYDAIRG---FDWSQEAQALVAAF 114 (124)
Q Consensus 78 ~iw~l~~~lw~rdy~~vy~al~~---~~Ws~~~~~lv~~l 114 (124)
.... -+.+--.++...++.+.. ..|.+.+--++..+
T Consensus 267 ~~~a-~~li~l~~~~~A~~~i~~~Lk~~~D~~L~~~~~~l 305 (400)
T COG3071 267 VAYA-ERLIRLGDHDEAQEIIEDALKRQWDPRLCRLIPRL 305 (400)
T ss_pred HHHH-HHHHHcCChHHHHHHHHHHHHhccChhHHHHHhhc
Confidence 8776 566677788776665543 57888866555543
No 7
>PF12854 PPR_1: PPR repeat
Probab=79.09 E-value=3.4 Score=22.87 Aligned_cols=30 Identities=20% Similarity=0.279 Sum_probs=27.2
Q ss_pred CCchhHHHHHHHHHHhhchhhHHHHHhhCC
Q 033242 37 QDEWPYVIHLLGYYYVNDINSARFLWKSIP 66 (124)
Q Consensus 37 ~~~~~Y~~~L~~yLl~~Dl~~AR~LwkRiP 66 (124)
|+..-|..++-+|-=.+++.+|.-+.+++|
T Consensus 5 Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M~ 34 (34)
T PF12854_consen 5 PDVVTYNTLIDGYCKAGRVDEAFELFDEMK 34 (34)
T ss_pred CcHhHHHHHHHHHHHCCCHHHHHHHHHhCc
Confidence 666779999999999999999999998875
No 8
>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A.
Probab=78.20 E-value=15 Score=29.18 Aligned_cols=111 Identities=12% Similarity=0.074 Sum_probs=74.0
Q ss_pred HHhccCHHHHHHHHHHHhhhhhhcCC-cCCCchhHHHHHHHHHHhhchhhHHHHHhhCC---hhhhhccHHHHHHHHHHH
Q 033242 9 ALASKSYEKIADICDDLMLKVAAEGI-VFQDEWPYVIHLLGYYYVNDINSARFLWKSIP---STIKDSRAEVVAAWKIGQ 84 (124)
Q Consensus 9 ~~~~~~~~~l~~~cE~~EL~~~~~g~-~~~~~~~Y~~~L~~yLl~~Dl~~AR~LwkRiP---~~lk~~~~el~~iw~l~~ 84 (124)
.+..|+|++-+...|+.--....++. .+.-.-+|-.-++.||..+|...|+-.+.|.= +.... ..|-+-+-.|..
T Consensus 165 ~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~-s~E~~~~~~l~~ 243 (282)
T PF14938_consen 165 YARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQDPSFAS-SREYKFLEDLLE 243 (282)
T ss_dssp HHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTT-SHHHHHHHHHHH
T ss_pred HHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCC-cHHHHHHHHHHH
Confidence 45678888888888775432211111 11001245667889999999999999999843 44553 589999999999
Q ss_pred HHHccChHHHHHHhhCCCCCHHHHHHHHHHHHHHhh
Q 033242 85 HLWTRDYAGVYDAIRGFDWSQEAQALVAAFSGACTK 120 (124)
Q Consensus 85 ~lw~rdy~~vy~al~~~~Ws~~~~~lv~~l~~~~r~ 120 (124)
++=++|-..+=++++.++=-..+-+.++.+.-..++
T Consensus 244 A~~~~D~e~f~~av~~~d~~~~ld~w~~~~l~~~k~ 279 (282)
T PF14938_consen 244 AYEEGDVEAFTEAVAEYDSISRLDNWKTKMLLKIKK 279 (282)
T ss_dssp HHHTT-CCCHHHHCHHHTTSS---HHHHHHHHHHHH
T ss_pred HHHhCCHHHHHHHHHHHcccCccHHHHHHHHHHHHh
Confidence 999999999999998887666777766666555544
No 9
>PF12218 End_N_terminal: N terminal extension of bacteriophage endosialidase; InterPro: IPR024429 This entry represents the N-terminal extension domain of endosialidases which is approximately 70 amino acids in length. The two N-terminal domains (this domain and the beta propeller) assemble in the compact 'cap' whereas the C-terminal domain forms an extended tail-like structure. The very N-terminal part of the 'cap' region (residues 246 to 312) holds the only alpha-helix of the protein and is presumably the residual part of the deleted N-terminal head-binding domain [].; PDB: 3JU4_A 3GVL_A 3GVK_B 3GVJ_A 1V0E_B 1V0F_E.
Probab=70.13 E-value=0.54 Score=30.98 Aligned_cols=17 Identities=29% Similarity=0.772 Sum_probs=11.9
Q ss_pred hhchhhHHHHHhhCChh
Q 033242 52 VNDINSARFLWKSIPST 68 (124)
Q Consensus 52 ~~Dl~~AR~LwkRiP~~ 68 (124)
.+-..||||+|.|||-.
T Consensus 41 ~srf~N~rF~~eri~gq 57 (67)
T PF12218_consen 41 ISRFKNARFVYERIPGQ 57 (67)
T ss_dssp GGGEES-EEEE-SSTT-
T ss_pred HHhhccceEEEeecCCC
Confidence 46678999999999953
No 10
>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat. Pentatricopeptide repeat (PPR) proteins are characterised by tandem repeats of a degenerate 35 amino acid motif []. Most of PPR proteins have roles in mitochondria or plastid []. PPR repeats were discovered while screening Arabidopsis proteins for those predicted to be targeted to mitochondria or chloroplast [, ]. Some of these proteins have been shown to play a role in post-transcriptional processes within organelles and they are thought to be sequence-specific RNA-binding proteins [, , ]. Plant genomes have between one hundred to five hundred PPR genes per genome whereas non-plant genomes encode two to six PPR proteins. Although no PPR structures are yet known, the motif is predicted to fold into a helix-turn-helix structure similar to those found in the tetratricopeptide repeat (TPR) family (see PDOC50005 from PROSITEDOC) []. The plant PPR protein family has been divided in two subfamilies on the basis of their motif content and organisation [, ]. Examples of PPR repeat-containing proteins include PET309 P32522 from SWISSPROT, which may be involved in RNA stabilisation [], and crp1, which is involved in RNA processing []. The repeat is associated with a predicted plant protein O49549 from SWISSPROT that has a domain organisation similar to the human BRCA1 protein.
Probab=69.11 E-value=5.2 Score=20.33 Aligned_cols=26 Identities=15% Similarity=0.304 Sum_probs=23.8
Q ss_pred HHHHHHHHHHhhchhhHHHHHhhCCh
Q 033242 42 YVIHLLGYYYVNDINSARFLWKSIPS 67 (124)
Q Consensus 42 Y~~~L~~yLl~~Dl~~AR~LwkRiP~ 67 (124)
|..++-+|--.+++..|.-+++++++
T Consensus 3 y~~li~~~~~~~~~~~a~~~~~~M~~ 28 (31)
T PF01535_consen 3 YNSLISGYCKMGQFEEALEVFDEMRE 28 (31)
T ss_pred HHHHHHHHHccchHHHHHHHHHHHhH
Confidence 88899999999999999999999876
No 11
>cd05513 Bromo_brd7_like Bromodomain, brd7_like subgroup. The BRD7 gene encodes a nuclear protein that has been shown to inhibit cell growth and the progression of the cell cycle by regulating cell-cycle genes at the transcriptional level. BRD7 has been identified as a gene involved in nasopharyngeal carcinoma. The protein interacts with acetylated histone H3 via its bromodomain. Bromodomains are 110 amino acid long domains that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=62.16 E-value=5.3 Score=27.65 Aligned_cols=29 Identities=31% Similarity=0.635 Sum_probs=27.7
Q ss_pred CCchhHHHHHhccCHHHHHHHHHHHhhhh
Q 033242 1 MDFSPLTDALASKSYEKIADICDDLMLKV 29 (124)
Q Consensus 1 m~~~~i~~~~~~~~~~~l~~~cE~~EL~~ 29 (124)
|||+.|+.-+.++.|..+.+++++.+|-.
T Consensus 42 mDL~tI~~kl~~~~Y~s~~~f~~D~~li~ 70 (98)
T cd05513 42 MDFSTMKEKIKNNDYQSIEEFKDDFKLMC 70 (98)
T ss_pred cCHHHHHHHHhCCCCCCHHHHHHHHHHHH
Confidence 89999999999999999999999999886
No 12
>PRK10747 putative protoheme IX biogenesis protein; Provisional
Probab=60.49 E-value=99 Score=25.73 Aligned_cols=99 Identities=8% Similarity=0.076 Sum_probs=61.0
Q ss_pred HHHHhccCHHHHHHHHHHHhhhhhhcCCcCCCc------hhHHHHHHHHHHhhchhhHHHHHhhCChhhhhccHHHHHHH
Q 033242 7 TDALASKSYEKIADICDDLMLKVAAEGIVFQDE------WPYVIHLLGYYYVNDINSARFLWKSIPSTIKDSRAEVVAAW 80 (124)
Q Consensus 7 ~~~~~~~~~~~l~~~cE~~EL~~~~~g~~~~~~------~~Y~~~L~~yLl~~Dl~~AR~LwkRiP~~lk~~~~el~~iw 80 (124)
...+..||+++....++.++=.. ...++. ..|..++....-..|.....-+|+.+|...++ +|++....
T Consensus 195 ~~~~~~gdw~~a~~~l~~l~k~~----~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~w~~lp~~~~~-~~~~~~~~ 269 (398)
T PRK10747 195 QAYIRTGAWSSLLDILPSMAKAH----VGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRWWKNQSRKTRH-QVALQVAM 269 (398)
T ss_pred HHHHHHHhHHHHHHHHHHHHHcC----CCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHhCCHHHhC-CHHHHHHH
Confidence 44567788888887777766331 111221 23455555555667788899999999999984 67777665
Q ss_pred HHHHHHHccChHHHHHHhhC---CCCCHHHHHHH
Q 033242 81 KIGQHLWTRDYAGVYDAIRG---FDWSQEAQALV 111 (124)
Q Consensus 81 ~l~~~lw~rdy~~vy~al~~---~~Ws~~~~~lv 111 (124)
.-.. +-..++....+.++. .+|.+.+..+-
T Consensus 270 A~~l-~~~g~~~~A~~~L~~~l~~~~~~~l~~l~ 302 (398)
T PRK10747 270 AEHL-IECDDHDTAQQIILDGLKRQYDERLVLLI 302 (398)
T ss_pred HHHH-HHCCCHHHHHHHHHHHHhcCCCHHHHHHH
Confidence 4333 344566665544432 56777654433
No 13
>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF. Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.
Probab=58.27 E-value=47 Score=21.30 Aligned_cols=89 Identities=13% Similarity=0.089 Sum_probs=54.2
Q ss_pred chhHHHHHhccCHHHHHHHHHHHhhhhhhcCCcCCCchhHHHHHHHHHHhhchhhHHHHHhhCChhhhhccHHHHHHHHH
Q 033242 3 FSPLTDALASKSYEKIADICDDLMLKVAAEGIVFQDEWPYVIHLLGYYYVNDINSARFLWKSIPSTIKDSRAEVVAAWKI 82 (124)
Q Consensus 3 ~~~i~~~~~~~~~~~l~~~cE~~EL~~~~~g~~~~~~~~Y~~~L~~yLl~~Dl~~AR~LwkRiP~~lk~~~~el~~iw~l 82 (124)
|.....++..|+|++-...++...=. .++....++ .+-.+-.+|+-.++...|...++++...-............+
T Consensus 6 ~~~~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~--~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~ 82 (119)
T TIGR02795 6 YDAALLVLKAGDYADAIQAFQAFLKK-YPKSTYAPN--AHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKL 82 (119)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHHHH-CCCccccHH--HHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHH
Confidence 34567788999999999999887533 222221122 244566677778999999999998875444321112334555
Q ss_pred HHHHHc-cChHHH
Q 033242 83 GQHLWT-RDYAGV 94 (124)
Q Consensus 83 ~~~lw~-rdy~~v 94 (124)
|.++.+ +++...
T Consensus 83 ~~~~~~~~~~~~A 95 (119)
T TIGR02795 83 GMSLQELGDKEKA 95 (119)
T ss_pred HHHHHHhCChHHH
Confidence 555443 344443
No 14
>cd05498 Bromo_Brdt_II_like Bromodomain, Brdt_like subfamily, repeat II. Human Brdt is a testis-specific member of the BET subfamily of bromodomain proteins; the first bromodomain in Brdt has been shown to be essential for male germ cell differentiation. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=57.15 E-value=7.1 Score=26.59 Aligned_cols=29 Identities=24% Similarity=0.489 Sum_probs=27.5
Q ss_pred CCchhHHHHHhccCHHHHHHHHHHHhhhh
Q 033242 1 MDFSPLTDALASKSYEKIADICDDLMLKV 29 (124)
Q Consensus 1 m~~~~i~~~~~~~~~~~l~~~cE~~EL~~ 29 (124)
|||+.|+.-+..|.|..+.+++.+..|-.
T Consensus 46 mdl~~I~~kl~~~~Y~s~~ef~~D~~li~ 74 (102)
T cd05498 46 MDLSTIKKKLDNREYADAQEFAADVRLMF 74 (102)
T ss_pred CcHHHHHHHHccCCCCCHHHHHHHHHHHH
Confidence 89999999999999999999999999885
No 15
>cd05503 Bromo_BAZ2A_B_like Bromodomain, BAZ2A/BAZ2B_like subfamily. Bromo adjacent to zinc finger 2A (BAZ2A) and 2B (BAZ2B) were identified as a novel human bromodomain gene by cDNA library screening. BAZ2A is also known as Tip5 (Transcription termination factor I-interacting protein 5) and hWALp3. The proteins may play roles in transcriptional regulation. Human Tip5 is part of a complex termed NoRC (nucleolar remodeling complex), which induces nucleosome sliding and may play a role in the regulation of the rDNA locus. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=57.11 E-value=6.9 Score=26.64 Aligned_cols=29 Identities=31% Similarity=0.627 Sum_probs=27.7
Q ss_pred CCchhHHHHHhccCHHHHHHHHHHHhhhh
Q 033242 1 MDFSPLTDALASKSYEKIADICDDLMLKV 29 (124)
Q Consensus 1 m~~~~i~~~~~~~~~~~l~~~cE~~EL~~ 29 (124)
|||+.|+.-+..|.|..+.++++++.|-.
T Consensus 41 mdL~tI~~kl~~~~Y~s~~ef~~D~~li~ 69 (97)
T cd05503 41 MDFSTIREKLESGQYKTLEEFAEDVRLVF 69 (97)
T ss_pred CCHHHHHHHHccCCCCCHHHHHHHHHHHH
Confidence 89999999999999999999999999885
No 16
>cd05505 Bromo_WSTF_like Bromodomain; Williams syndrome transcription factor-like subfamily (WSTF-like). The Williams-Beuren syndrome deletion transcript 9 is a putative transcriptional regulator. WSTF was found to play a role in vitamin D-mediated transcription as part of two chromatin remodeling complexes, WINAC and WICH. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=56.76 E-value=7.1 Score=26.87 Aligned_cols=29 Identities=24% Similarity=0.471 Sum_probs=27.8
Q ss_pred CCchhHHHHHhccCHHHHHHHHHHHhhhh
Q 033242 1 MDFSPLTDALASKSYEKIADICDDLMLKV 29 (124)
Q Consensus 1 m~~~~i~~~~~~~~~~~l~~~cE~~EL~~ 29 (124)
|||+.|+.-+.+|.|..+-+++++.+|-.
T Consensus 41 mDL~tI~~kl~~~~Y~s~~ef~~D~~li~ 69 (97)
T cd05505 41 MDLQTMQTKCSCGSYSSVQEFLDDMKLVF 69 (97)
T ss_pred CCHHHHHHHHcCCCCCCHHHHHHHHHHHH
Confidence 89999999999999999999999999986
No 17
>cd05507 Bromo_brd8_like Bromodomain, brd8_like subgroup. In mammals, brd8 (bromodomain containing 8) interacts with the thyroid hormone receptor in a ligand-dependent fashion and enhances thyroid hormone-dependent activation from thyroid response elements. Brd8 is thought to be a nuclear receptor coactivator. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=56.48 E-value=7.5 Score=26.91 Aligned_cols=29 Identities=21% Similarity=0.405 Sum_probs=27.8
Q ss_pred CCchhHHHHHhccCHHHHHHHHHHHhhhh
Q 033242 1 MDFSPLTDALASKSYEKIADICDDLMLKV 29 (124)
Q Consensus 1 m~~~~i~~~~~~~~~~~l~~~cE~~EL~~ 29 (124)
|||+.|+.=+.+|.|..+.++..+..|-.
T Consensus 44 mDL~tI~~kl~~~~Y~s~~ef~~D~~li~ 72 (104)
T cd05507 44 MDLSTIKKNIENGTIRSTAEFQRDVLLMF 72 (104)
T ss_pred cCHHHHHHHHhcCCCCCHHHHHHHHHHHH
Confidence 89999999999999999999999999986
No 18
>PF10607 CLTH: CTLH/CRA C-terminal to LisH motif domain; InterPro: IPR019589 This entry represents the CRA (or CT11-RanBPM) domain, which is a protein-protein interaction domain present in crown eukaryotes (plants, animals, fungi) and which is found in Ran-binding proteins such as Ran-binding protein 9 (RanBP9 or RanBPM) and RanBP10. RanBPM is a scaffolding protein important in regulating cellular function in both the immune system and the nervous system, and may act as an adapter protein to couple membrane receptors to intracellular signaling pathways. This domain is at the C terminus of the proteins and is the binding domain for the CRA motif, which is comprised of approximately 100 amino acids at the C-terminal of RanBPM. It was found to be important for the interaction of RanBPM with fragile X mental retardation protein (FMRP), but its functional significance has yet to be determined [].
Probab=56.22 E-value=68 Score=22.50 Aligned_cols=112 Identities=7% Similarity=-0.014 Sum_probs=65.6
Q ss_pred hhHHHHHhccCHHHHHHHHHHHhhhhhhcCCcCCCchhHHHHHHHHHHhhchhhHHH-HHhhCChhhhhccHHHHHHHHH
Q 033242 4 SPLTDALASKSYEKIADICDDLMLKVAAEGIVFQDEWPYVIHLLGYYYVNDINSARF-LWKSIPSTIKDSRAEVVAAWKI 82 (124)
Q Consensus 4 ~~i~~~~~~~~~~~l~~~cE~~EL~~~~~g~~~~~~~~Y~~~L~~yLl~~Dl~~AR~-LwkRiP~~lk~~~~el~~iw~l 82 (124)
..|.++|..||++..+.+|++..-.....+....= --+.+.++-.+-.+|+.+|=- .-+.+...-++...+++.+..+
T Consensus 6 ~~I~~~I~~g~i~~Ai~w~~~~~~~l~~~~~~L~f-~L~~q~fiell~~~~~~~Ai~y~r~~l~~~~~~~~~~l~~~~~l 84 (145)
T PF10607_consen 6 KKIRQAILNGDIDPAIEWLNENFPELLKRNSSLEF-ELRCQQFIELLREGDIMEAIEYARKHLSPFNDEFLEELKKLMSL 84 (145)
T ss_pred HHHHHHHHcCCHHHHHHHHHHcCHHHHhcCCchhH-HHHHHHHHHHHHHHhHHHHHHHHHHHhhhhHHHHHHHHHHHHHH
Confidence 57899999999999999999887544223221111 235555666666788888843 3334532222345677777666
Q ss_pred HHHHHccCh----HHHHHHhhCCCCCHHHHHHHHHHHHHH
Q 033242 83 GQHLWTRDY----AGVYDAIRGFDWSQEAQALVAAFSGAC 118 (124)
Q Consensus 83 ~~~lw~rdy----~~vy~al~~~~Ws~~~~~lv~~l~~~~ 118 (124)
. ++...- +.+...+....|...+..+..++...+
T Consensus 85 L--~~~~~~~~~~s~~~~l~~~~~~~~la~~~~~~~l~~~ 122 (145)
T PF10607_consen 85 L--AYPDPEEPLPSPYKELLSPERREELAEEFNSAILKSY 122 (145)
T ss_pred H--HcCCcccccchHHHHHhChHHHHHHHHHHHHHHHHHh
Confidence 5 354433 233444433346666666665555544
No 19
>KOG1861 consensus Leucine permease transcriptional regulator [Transcription]
Probab=55.61 E-value=1.6e+02 Score=26.62 Aligned_cols=112 Identities=15% Similarity=0.097 Sum_probs=76.2
Q ss_pred HHHHhccCHHHHHHHHHHHhhhhhhcCCcCCCchhHHHHHHHHHHhhchhhHHHHHhhCChhhhhccHHHHHHHHHHHHH
Q 033242 7 TDALASKSYEKIADICDDLMLKVAAEGIVFQDEWPYVIHLLGYYYVNDINSARFLWKSIPSTIKDSRAEVVAAWKIGQHL 86 (124)
Q Consensus 7 ~~~~~~~~~~~l~~~cE~~EL~~~~~g~~~~~~~~Y~~~L~~yLl~~Dl~~AR~LwkRiP~~lk~~~~el~~iw~l~~~l 86 (124)
+=+++.||-++-=+.--.+..-- +-|+..-..-|-+-=+|-|++..+-.+=--|..++-+++|+ |+-+.-+.+|-.++
T Consensus 356 RIALEkGD~~EfNQCQtQLk~LY-~egipg~~~EF~AYriLY~i~tkN~~di~sll~~lt~E~ke-d~~V~hAL~vR~A~ 433 (540)
T KOG1861|consen 356 RIALEKGDLEEFNQCQTQLKALY-SEGIPGAYLEFTAYRILYYIFTKNYPDILSLLRDLTEEDKE-DEAVAHALEVRSAV 433 (540)
T ss_pred HHHHhcCCHHHHHHHHHHHHHHH-ccCCCCchhhHHHHHHHHHHHhcCchHHHHHHHhccHhhcc-CHHHHHHHHHHHHH
Confidence 44788888777543322333222 23433222223444456667777777777899999999996 79999999998888
Q ss_pred HccChHHHHHHhhCCCCCHHHHHHHHHHHHHHhhhc
Q 033242 87 WTRDYAGVYDAIRGFDWSQEAQALVAAFSGACTKSS 122 (124)
Q Consensus 87 w~rdy~~vy~al~~~~Ws~~~~~lv~~l~~~~r~rt 122 (124)
-..||-.+|..-.. =+-.-.-||.-|.|.-|.+.
T Consensus 434 ~~GNY~kFFrLY~~--AP~M~~yLmdlF~erER~~A 467 (540)
T KOG1861|consen 434 TLGNYHKFFRLYLT--APNMSGYLMDLFLERERKKA 467 (540)
T ss_pred HhccHHHHHHHHhh--cccchhHHHHHHHHHHHHHH
Confidence 88899999998875 34445567888888777654
No 20
>cd05506 Bromo_plant1 Bromodomain, uncharacterized subfamily specific to plants. Might function as a global transcription factor. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=55.14 E-value=8.2 Score=26.06 Aligned_cols=29 Identities=21% Similarity=0.405 Sum_probs=27.3
Q ss_pred CCchhHHHHHhccCHHHHHHHHHHHhhhh
Q 033242 1 MDFSPLTDALASKSYEKIADICDDLMLKV 29 (124)
Q Consensus 1 m~~~~i~~~~~~~~~~~l~~~cE~~EL~~ 29 (124)
|||+.|++-+..+.|..+.++.+++.+--
T Consensus 43 ~dl~tI~~kL~~~~Y~s~~ef~~D~~li~ 71 (99)
T cd05506 43 MDLGTVKKKLEKGEYSSPEEFAADVRLTF 71 (99)
T ss_pred CCHHHHHHHHhcCCCCCHHHHHHHHHHHH
Confidence 89999999999999999999999999885
No 21
>KOG0775 consensus Transcription factor SIX and related HOX domain proteins [Transcription]
Probab=54.52 E-value=77 Score=26.59 Aligned_cols=75 Identities=20% Similarity=0.430 Sum_probs=50.5
Q ss_pred CHHHHHHHHHHHhhhhhhcCCcCCCchhHHHHHHHHHHhhchhhHHHHHhhCC--hhhhhccHHHHHHHHHHHHHHccCh
Q 033242 14 SYEKIADICDDLMLKVAAEGIVFQDEWPYVIHLLGYYYVNDINSARFLWKSIP--STIKDSRAEVVAAWKIGQHLWTRDY 91 (124)
Q Consensus 14 ~~~~l~~~cE~~EL~~~~~g~~~~~~~~Y~~~L~~yLl~~Dl~~AR~LwkRiP--~~lk~~~~el~~iw~l~~~lw~rdy 91 (124)
+-+.++.+||.++-. |. .+. =+||||. +| +.+..+...|++ -. ..+.-..+|
T Consensus 62 S~eQvacvCe~L~q~----Gd--~er-----------------L~rFlws-Lp~~~~~~~nEsvLkA-rA-~vafH~gnf 115 (304)
T KOG0775|consen 62 SEEQVACVCESLQQG----GD--IER-----------------LGRFLWS-LPVCEELLKNESVLKA-RA-VVAFHSGNF 115 (304)
T ss_pred CHHHHHHHHHHHHhc----cC--HHH-----------------HHHHHHc-CchHHHHhhhHHHHHH-HH-HHHHhcccH
Confidence 457799999988733 21 111 2799985 66 455543333333 33 334567899
Q ss_pred HHHHHHhhCCCCCHHHHHHHHHH
Q 033242 92 AGVYDAIRGFDWSQEAQALVAAF 114 (124)
Q Consensus 92 ~~vy~al~~~~Ws~~~~~lv~~l 114 (124)
...|.+|.++.+++.--+-.+++
T Consensus 116 ~eLY~iLE~h~Fs~~~h~~LQ~l 138 (304)
T KOG0775|consen 116 RELYHILENHKFSPHNHPKLQAL 138 (304)
T ss_pred HHHHHHHHhccCChhhhHHHHHH
Confidence 99999999999999887777765
No 22
>cd05495 Bromo_cbp_like Bromodomain, cbp_like subfamily. Cbp (CREB binding protein or CREBBP) is an acetyltransferase acting on histone, which gives a specific tag for transcriptional activation and also acetylates non-histone proteins. CREBBP binds specifically to phosphorylated CREB protein and augments the activity of phosphorylated CREB to activate transcription of cAMP-responsive genes. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=53.77 E-value=8.7 Score=26.83 Aligned_cols=29 Identities=28% Similarity=0.419 Sum_probs=27.6
Q ss_pred CCchhHHHHHhccCHHHHHHHHHHHhhhh
Q 033242 1 MDFSPLTDALASKSYEKIADICDDLMLKV 29 (124)
Q Consensus 1 m~~~~i~~~~~~~~~~~l~~~cE~~EL~~ 29 (124)
|||+.|+.=+..|.|..+.+++.+.+|-.
T Consensus 47 mDL~tI~~kL~~~~Y~s~~ef~~D~~li~ 75 (108)
T cd05495 47 MDLSTIRRKLDTGQYQDPWQYVDDVWLMF 75 (108)
T ss_pred CCHHHHHHHHhcCCCCCHHHHHHHHHHHH
Confidence 89999999999999999999999999985
No 23
>cd05501 Bromo_SP100C_like Bromodomain, SP100C_like subfamily. The SP100C protein is a splice variant of SP100, a major component of PML-SP100 nuclear bodies (NBs), which are poorly understood. It is covalently modified by SUMO-1 and may play a role in processes at the chromatin level. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=53.27 E-value=8.9 Score=26.99 Aligned_cols=29 Identities=17% Similarity=0.358 Sum_probs=27.8
Q ss_pred CCchhHHHHHhccCHHHHHHHHHHHhhhh
Q 033242 1 MDFSPLTDALASKSYEKIADICDDLMLKV 29 (124)
Q Consensus 1 m~~~~i~~~~~~~~~~~l~~~cE~~EL~~ 29 (124)
||++.|+.=+..|.|..+.+++++..|--
T Consensus 41 MDL~tI~~kL~~~~Y~s~~ef~~D~~Lif 69 (102)
T cd05501 41 MWLNKVKERLNERVYHTVEGFVRDMRLIF 69 (102)
T ss_pred CCHHHHHHHHcCCCCCCHHHHHHHHHHHH
Confidence 99999999999999999999999999985
No 24
>cd05520 Bromo_polybromo_III Bromodomain, polybromo repeat III. Polybromo is a nuclear protein of unknown function, which contains 6 bromodomains. The human ortholog BAF180 is part of a SWI/SNF chromatin-remodeling complex, and it may carry out the functions of Yeast Rsc-1 and Rsc-2. It was shown that polybromo bromodomains bind to histone H3 at specific acetyl-lysine positions. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine, but not all the bromodomains in polybromo may bind to acetyl-lysine.
Probab=52.29 E-value=9 Score=26.59 Aligned_cols=29 Identities=21% Similarity=0.421 Sum_probs=27.6
Q ss_pred CCchhHHHHHhccCHHHHHHHHHHHhhhh
Q 033242 1 MDFSPLTDALASKSYEKIADICDDLMLKV 29 (124)
Q Consensus 1 m~~~~i~~~~~~~~~~~l~~~cE~~EL~~ 29 (124)
|||+.|..-+..|.|..+.+++.+++|-.
T Consensus 47 mdL~tI~~kl~~~~Y~s~~~f~~D~~lm~ 75 (103)
T cd05520 47 ISLQQIRTKLKNGEYETLEELEADLNLMF 75 (103)
T ss_pred cCHHHHHHHHccCCCCCHHHHHHHHHHHH
Confidence 89999999999999999999999999885
No 25
>cd05518 Bromo_polybromo_IV Bromodomain, polybromo repeat IV. Polybromo is a nuclear protein of unknown function, which contains 6 bromodomains. The human ortholog BAF180 is part of a SWI/SNF chromatin-remodeling complex, and it may carry out the functions of Yeast Rsc-1 and Rsc-2. It was shown that polybromo bromodomains bind to histone H3 at specific acetyl-lysine positions. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine, but not all the bromodomains in polybromo may bind to acetyl-lysine.
Probab=52.17 E-value=9.3 Score=26.54 Aligned_cols=29 Identities=17% Similarity=0.442 Sum_probs=27.6
Q ss_pred CCchhHHHHHhccCHHHHHHHHHHHhhhh
Q 033242 1 MDFSPLTDALASKSYEKIADICDDLMLKV 29 (124)
Q Consensus 1 m~~~~i~~~~~~~~~~~l~~~cE~~EL~~ 29 (124)
|||+.|+.-+..+.|..+.+++.+++|-.
T Consensus 47 mdl~tI~~kl~~~~Y~s~~ef~~D~~li~ 75 (103)
T cd05518 47 IDLKTIEHNIRNDKYATEEELMDDFKLMF 75 (103)
T ss_pred cCHHHHHHHHCCCCCCCHHHHHHHHHHHH
Confidence 89999999999999999999999999885
No 26
>cd05516 Bromo_SNF2L2 Bromodomain, SNF2L2-like subfamily, specific to animals. SNF2L2 (SNF2-alpha) or SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A member 2 is a global transcriptional activator, which cooperates with nuclear hormone receptors to boost transcriptional activation. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=50.38 E-value=10 Score=26.39 Aligned_cols=29 Identities=24% Similarity=0.580 Sum_probs=27.6
Q ss_pred CCchhHHHHHhccCHHHHHHHHHHHhhhh
Q 033242 1 MDFSPLTDALASKSYEKIADICDDLMLKV 29 (124)
Q Consensus 1 m~~~~i~~~~~~~~~~~l~~~cE~~EL~~ 29 (124)
|||+.|+.=+.+|.|..+.+++.+.+|-.
T Consensus 48 mdl~tI~~kl~~~~Y~s~~ef~~D~~li~ 76 (107)
T cd05516 48 VDFKKIKERIRNHKYRSLEDLEKDVMLLC 76 (107)
T ss_pred CCHHHHHHHHccCCCCCHHHHHHHHHHHH
Confidence 89999999999999999999999999885
No 27
>cd05497 Bromo_Brdt_I_like Bromodomain, Brdt_like subfamily, repeat I. Human Brdt is a testis-specific member of the BET subfamily of bromodomain proteins; the first bromodomain in Brdt has been shown to be essential for male germ cell differentiation. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=49.99 E-value=10 Score=26.46 Aligned_cols=29 Identities=17% Similarity=0.292 Sum_probs=27.6
Q ss_pred CCchhHHHHHhccCHHHHHHHHHHHhhhh
Q 033242 1 MDFSPLTDALASKSYEKIADICDDLMLKV 29 (124)
Q Consensus 1 m~~~~i~~~~~~~~~~~l~~~cE~~EL~~ 29 (124)
||++.|..-+..+.|..+.++.++.+|-.
T Consensus 48 mDL~tI~~kL~~~~Y~s~~ef~~D~~li~ 76 (107)
T cd05497 48 MDLGTIKKRLENNYYWSASECIQDFNTMF 76 (107)
T ss_pred ccHHHHHHHHcCCCCCCHHHHHHHHHHHH
Confidence 89999999999999999999999999886
No 28
>cd05509 Bromo_gcn5_like Bromodomain; Gcn5_like subfamily. Gcn5p is a histone acetyltransferase (HAT) which mediates acetylation of histones at lysine residues; such acetylation is generally correlated with the activation of transcription. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=49.70 E-value=11 Score=25.50 Aligned_cols=29 Identities=28% Similarity=0.480 Sum_probs=27.4
Q ss_pred CCchhHHHHHhccCHHHHHHHHHHHhhhh
Q 033242 1 MDFSPLTDALASKSYEKIADICDDLMLKV 29 (124)
Q Consensus 1 m~~~~i~~~~~~~~~~~l~~~cE~~EL~~ 29 (124)
|||+.|+.-+..+.|..+.++..+..|-.
T Consensus 42 mdL~tI~~kl~~~~Y~s~~~f~~Dv~li~ 70 (101)
T cd05509 42 MDLSTMEEKLENGYYVTLEEFVADLKLIF 70 (101)
T ss_pred CCHHHHHHHHhcCCCCCHHHHHHHHHHHH
Confidence 89999999999999999999999999885
No 29
>cd05512 Bromo_brd1_like Bromodomain; brd1_like subfamily. BRD1 is a mammalian gene which encodes for a nuclear protein assumed to be a transcriptional regulator. BRD1 has been implicated with brain development and susceptibility to schizophrenia and bipolar affective disorder. Bromodomains are 110 amino acid long domains that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=49.51 E-value=12 Score=25.73 Aligned_cols=29 Identities=34% Similarity=0.592 Sum_probs=27.6
Q ss_pred CCchhHHHHHhccCHHHHHHHHHHHhhhh
Q 033242 1 MDFSPLTDALASKSYEKIADICDDLMLKV 29 (124)
Q Consensus 1 m~~~~i~~~~~~~~~~~l~~~cE~~EL~~ 29 (124)
|||+.|+.=+..+.|..+.++..+..|-.
T Consensus 42 mDL~tI~~kl~~~~Y~s~~ef~~D~~li~ 70 (98)
T cd05512 42 MDFSTMRKKLESQRYRTLEDFEADFNLII 70 (98)
T ss_pred cCHHHHHHHHhCCCCCCHHHHHHHHHHHH
Confidence 89999999999999999999999999885
No 30
>cd05508 Bromo_RACK7 Bromodomain, RACK7_like subfamily. RACK7 (also called human protein kinase C-binding protein) was identified as a potential tumor suppressor genes, it shares domain architecture with BS69/ZMYND11; both have been implicated in the regulation of cellular proliferation. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=49.49 E-value=12 Score=25.97 Aligned_cols=29 Identities=24% Similarity=0.337 Sum_probs=27.7
Q ss_pred CCchhHHHHHhccCHHHHHHHHHHHhhhh
Q 033242 1 MDFSPLTDALASKSYEKIADICDDLMLKV 29 (124)
Q Consensus 1 m~~~~i~~~~~~~~~~~l~~~cE~~EL~~ 29 (124)
||++.|+.=+..|.|..+-+++++..|-.
T Consensus 43 mDL~tI~~kl~~~~Y~s~~ef~~Dv~LI~ 71 (99)
T cd05508 43 MDLSTLEKNVRKKAYGSTDAFLADAKWIL 71 (99)
T ss_pred CCHHHHHHHHhcCCCCCHHHHHHHHHHHH
Confidence 89999999999999999999999999986
No 31
>cd05504 Bromo_Acf1_like Bromodomain; Acf1_like or BAZ1A_like subfamily. Bromo adjacent to zinc finger 1A (BAZ1A) was identified as a novel human bromodomain gene by cDNA library screening. The Drosophila homologue, Acf1, is part of the CHRAC (chromatin accessibility complex) and regulates ISWI-induced nucleosome remodeling. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=49.14 E-value=11 Score=26.66 Aligned_cols=29 Identities=21% Similarity=0.413 Sum_probs=27.5
Q ss_pred CCchhHHHHHhccCHHHHHHHHHHHhhhh
Q 033242 1 MDFSPLTDALASKSYEKIADICDDLMLKV 29 (124)
Q Consensus 1 m~~~~i~~~~~~~~~~~l~~~cE~~EL~~ 29 (124)
|||+.|+.-+..|.|..+.+++.+..|..
T Consensus 53 mDL~tI~~kL~~~~Y~s~~~f~~Dv~LI~ 81 (115)
T cd05504 53 MDLGTIKEKLNMGEYKLAEEFLSDIQLVF 81 (115)
T ss_pred ccHHHHHHHHccCCCCCHHHHHHHHHHHH
Confidence 89999999999999999999999999885
No 32
>PF03704 BTAD: Bacterial transcriptional activator domain; InterPro: IPR005158 Found in the DNRI/REDD/AFSR family of regulators, this region of AFSR (P25941 from SWISSPROT) along with the C-terminal region is capable of independently directing actinorhodin production. It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.
Probab=47.14 E-value=94 Score=21.50 Aligned_cols=59 Identities=12% Similarity=0.132 Sum_probs=44.4
Q ss_pred HHHHhccCHHHHHHHHHHHhhhhhhcCCcCCCchhHHHHHHHHHHhhchhhHHHHHhhCChhhhh
Q 033242 7 TDALASKSYEKIADICDDLMLKVAAEGIVFQDEWPYVIHLLGYYYVNDINSARFLWKSIPSTIKD 71 (124)
Q Consensus 7 ~~~~~~~~~~~l~~~cE~~EL~~~~~g~~~~~~~~Y~~~L~~yLl~~Dl~~AR~LwkRiP~~lk~ 71 (124)
...+..|++++....|+..--.- | -+...|..++-+|.-.++...|.-...+.=..+++
T Consensus 70 ~~~~~~~~~~~a~~~~~~~l~~d-P-----~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~ 128 (146)
T PF03704_consen 70 EALLEAGDYEEALRLLQRALALD-P-----YDEEAYRLLMRALAAQGRRAEALRVYERYRRRLRE 128 (146)
T ss_dssp HHHHHTT-HHHHHHHHHHHHHHS-T-----T-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHH
T ss_pred HHHHhccCHHHHHHHHHHHHhcC-C-----CCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHH
Confidence 44667899999999998765331 1 23467999999999999999999988888777774
No 33
>cd05510 Bromo_SPT7_like Bromodomain; SPT7_like subfamily. SPT7 is a yeast protein that functions as a component of the transcription regulatory histone acetylation (HAT) complexes SAGA, SALSA, and SLIK. SAGA is involved in the RNA polymerase II-dependent transcriptional regulation of about 10% of all yeast genes. The SPT7 bromodomain has been shown to weakly interact with acetylated histone H3, but not H4. The human representative of this subfamily is cat eye syndrome critical region protein 2 (CECR2). Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=47.08 E-value=13 Score=26.31 Aligned_cols=29 Identities=31% Similarity=0.453 Sum_probs=27.7
Q ss_pred CCchhHHHHHhccCHHHHHHHHHHHhhhh
Q 033242 1 MDFSPLTDALASKSYEKIADICDDLMLKV 29 (124)
Q Consensus 1 m~~~~i~~~~~~~~~~~l~~~cE~~EL~~ 29 (124)
|||+.|+.-+..|.|..+.+++++..|-.
T Consensus 49 mdL~tI~~kl~~~~Y~s~~ef~~D~~Li~ 77 (112)
T cd05510 49 MDLGTMLKKLKNLQYKSKAEFVDDLNLIW 77 (112)
T ss_pred cCHHHHHHHHhCCCCCCHHHHHHHHHHHH
Confidence 89999999999999999999999999886
No 34
>PF13041 PPR_2: PPR repeat family
Probab=47.07 E-value=26 Score=20.19 Aligned_cols=30 Identities=23% Similarity=0.323 Sum_probs=25.5
Q ss_pred CchhHHHHHHHHHHhhchhhHHHHHhhCCh
Q 033242 38 DEWPYVIHLLGYYYVNDINSARFLWKSIPS 67 (124)
Q Consensus 38 ~~~~Y~~~L~~yLl~~Dl~~AR~LwkRiP~ 67 (124)
+..-|..++-+|.=.+++.+|.-+++++-.
T Consensus 2 ~~~~yn~li~~~~~~~~~~~a~~l~~~M~~ 31 (50)
T PF13041_consen 2 DVVTYNTLISGYCKAGKFEEALKLFKEMKK 31 (50)
T ss_pred chHHHHHHHHHHHHCcCHHHHHHHHHHHHH
Confidence 344599999999999999999999988654
No 35
>cd05519 Bromo_SNF2 Bromodomain, SNF2-like subfamily, specific to fungi. SNF2 is a yeast protein involved in transcriptional activation, it is the catalytic component of the SWI/SNF ATP-dependent chromatin remodeling complex. The protein is essential for the regulation of gene expression (both positive and negative) of a large number of genes. The SWI/SNF complex changes chromatin structure by altering DNA-histone contacts within the nucleosome, which results in a re-positioning of the nucleosome and facilitates or represses the binding of gene-specific transcription factors. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=47.02 E-value=12 Score=25.59 Aligned_cols=29 Identities=10% Similarity=0.442 Sum_probs=27.5
Q ss_pred CCchhHHHHHhccCHHHHHHHHHHHhhhh
Q 033242 1 MDFSPLTDALASKSYEKIADICDDLMLKV 29 (124)
Q Consensus 1 m~~~~i~~~~~~~~~~~l~~~cE~~EL~~ 29 (124)
|||+.|+.=|..|.|..+.+++.+++|-.
T Consensus 47 mdl~~I~~kl~~~~Y~s~~~f~~D~~li~ 75 (103)
T cd05519 47 IALDQIKRRIEGRAYKSLEEFLEDFHLMF 75 (103)
T ss_pred cCHHHHHHHHccCCCCCHHHHHHHHHHHH
Confidence 89999999999999999999999999885
No 36
>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function.
Probab=46.65 E-value=99 Score=21.63 Aligned_cols=98 Identities=14% Similarity=0.181 Sum_probs=63.2
Q ss_pred chhHHHHHhccCHHHHHHHHHHHhhhhhhcCCcCCCchhHHHH---H--HHHHHhhchhhHHHHHhhCChhhhhccHHHH
Q 033242 3 FSPLTDALASKSYEKIADICDDLMLKVAAEGIVFQDEWPYVIH---L--LGYYYVNDINSARFLWKSIPSTIKDSRAEVV 77 (124)
Q Consensus 3 ~~~i~~~~~~~~~~~l~~~cE~~EL~~~~~g~~~~~~~~Y~~~---L--~~yLl~~Dl~~AR~LwkRiP~~lk~~~~el~ 77 (124)
|..+..++..++..++...++++.-.. ++ . +|+.+ . -.+.-.+|+.+|.-.++.+...-+ ++.++
T Consensus 15 y~~~~~~~~~~~~~~~~~~~~~l~~~~-~~-s------~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~--d~~l~ 84 (145)
T PF09976_consen 15 YEQALQALQAGDPAKAEAAAEQLAKDY-PS-S------PYAALAALQLAKAAYEQGDYDEAKAALEKALANAP--DPELK 84 (145)
T ss_pred HHHHHHHHHCCCHHHHHHHHHHHHHHC-CC-C------hHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCC--CHHHH
Confidence 456677778999999888777776442 11 1 23332 2 234557999999999999988664 56666
Q ss_pred HHHH--HHHHH-HccChHHHHHHhhCC---CCCHHHHHH
Q 033242 78 AAWK--IGQHL-WTRDYAGVYDAIRGF---DWSQEAQAL 110 (124)
Q Consensus 78 ~iw~--l~~~l-w~rdy~~vy~al~~~---~Ws~~~~~l 110 (124)
.+-. +++.+ -+.+|...-+.|+.. +|.+.+..+
T Consensus 85 ~~a~l~LA~~~~~~~~~d~Al~~L~~~~~~~~~~~~~~~ 123 (145)
T PF09976_consen 85 PLARLRLARILLQQGQYDEALATLQQIPDEAFKALAAEL 123 (145)
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHhccCcchHHHHHHH
Confidence 4443 45444 456899888888653 344444333
No 37
>cd05525 Bromo_ASH1 Bromodomain; ASH1_like sub-family. ASH1 (absent, small, or homeotic 1) is a member of the trithorax-group in Drosophila melanogaster, an epigenetic transcriptional regulator of HOX genes. Drosophila ASH1 has been shown to methylate specific lysines in histones H3 and H4. Mammalian ASH1 has been shown to methylate histone H3. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=45.93 E-value=13 Score=25.99 Aligned_cols=29 Identities=14% Similarity=0.287 Sum_probs=27.5
Q ss_pred CCchhHHHHHhccCHHHHHHHHHHHhhhh
Q 033242 1 MDFSPLTDALASKSYEKIADICDDLMLKV 29 (124)
Q Consensus 1 m~~~~i~~~~~~~~~~~l~~~cE~~EL~~ 29 (124)
|||+.|+.=+..|.|..+-+++++++|-.
T Consensus 49 ~dL~tI~~kl~~~~Y~s~~ef~~D~~l~f 77 (106)
T cd05525 49 VDLSTIEKQILTGYYKTPEAFDSDMLKVF 77 (106)
T ss_pred cCHHHHHHHHcCCCCCCHHHHHHHHHHHH
Confidence 89999999999999999999999999885
No 38
>cd05517 Bromo_polybromo_II Bromodomain, polybromo repeat II. Polybromo is a nuclear protein of unknown function, which contains 6 bromodomains. The human ortholog BAF180 is part of a SWI/SNF chromatin-remodeling complex, and it may carry out the functions of Yeast Rsc-1 and Rsc-2. It was shown that polybromo bromodomains bind to histone H3 at specific acetyl-lysine positions. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine, but not all the bromodomains in polybromo may bind to acetyl-lysine.
Probab=45.29 E-value=13 Score=25.70 Aligned_cols=29 Identities=31% Similarity=0.511 Sum_probs=27.4
Q ss_pred CCchhHHHHHhccCHHHHHHHHHHHhhhh
Q 033242 1 MDFSPLTDALASKSYEKIADICDDLMLKV 29 (124)
Q Consensus 1 m~~~~i~~~~~~~~~~~l~~~cE~~EL~~ 29 (124)
|||+.|+.-+..+.|..+.+++.+++|-.
T Consensus 47 mdL~tI~~kl~~~~Y~s~~~f~~D~~lm~ 75 (103)
T cd05517 47 IDLKTIAQRIQSGYYKSIEDMEKDLDLMV 75 (103)
T ss_pred cCHHHHHHHHCcCCCCCHHHHHHHHHHHH
Confidence 89999999999999999999999999885
No 39
>cd05500 Bromo_BDF1_2_I Bromodomain. BDF1/BDF2 like subfamily, restricted to fungi, repeat I. BDF1 and BDF2 are yeast transcription factors involved in the expression of a wide range of genes, including snRNAs; they are required for sporulation and DNA repair and protect histone H4 from deacetylation. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=44.73 E-value=15 Score=25.24 Aligned_cols=29 Identities=28% Similarity=0.500 Sum_probs=27.3
Q ss_pred CCchhHHHHHhccCHHHHHHHHHHHhhhh
Q 033242 1 MDFSPLTDALASKSYEKIADICDDLMLKV 29 (124)
Q Consensus 1 m~~~~i~~~~~~~~~~~l~~~cE~~EL~~ 29 (124)
|||+.|+.-+..|.|..+.+++.+..|-.
T Consensus 47 ~dL~tI~~kl~~~~Y~s~~~f~~D~~li~ 75 (103)
T cd05500 47 MDLGTIERKLKSNVYTSVEEFTADFNLMV 75 (103)
T ss_pred CCHHHHHHHHhcCCCCCHHHHHHHHHHHH
Confidence 89999999999999999999999999885
No 40
>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif). This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.
Probab=44.39 E-value=28 Score=17.53 Aligned_cols=26 Identities=19% Similarity=0.232 Sum_probs=22.6
Q ss_pred HHHHHHHHHHhhchhhHHHHHhhCCh
Q 033242 42 YVIHLLGYYYVNDINSARFLWKSIPS 67 (124)
Q Consensus 42 Y~~~L~~yLl~~Dl~~AR~LwkRiP~ 67 (124)
|..++-+|.-.++..+|..+++++..
T Consensus 3 ~n~li~~~~~~~~~~~a~~~~~~M~~ 28 (35)
T TIGR00756 3 YNTLIDGLCKAGRVEEALELFKEMLE 28 (35)
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 88889999999999999999988754
No 41
>smart00668 CTLH C-terminal to LisH motif. Alpha-helical motif of unknown function.
Probab=44.32 E-value=63 Score=18.91 Aligned_cols=27 Identities=4% Similarity=0.114 Sum_probs=23.5
Q ss_pred chhHHHHHhccCHHHHHHHHHHHhhhh
Q 033242 3 FSPLTDALASKSYEKIADICDDLMLKV 29 (124)
Q Consensus 3 ~~~i~~~~~~~~~~~l~~~cE~~EL~~ 29 (124)
...|.++|..|++++.+..|++.....
T Consensus 5 ~~~i~~~i~~g~~~~a~~~~~~~~~~l 31 (58)
T smart00668 5 RKRIRELILKGDWDEALEWLSSLKPPL 31 (58)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHcCHHH
Confidence 457899999999999999999887664
No 42
>cd05515 Bromo_polybromo_V Bromodomain, polybromo repeat V. Polybromo is a nuclear protein of unknown function, which contains 6 bromodomains. The human ortholog BAF180 is part of a SWI/SNF chromatin-remodeling complex, and it may carry out the functions of Yeast Rsc-1 and Rsc-2. It was shown that polybromo bromodomains bind to histone H3 at specific acetyl-lysine positions. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine, but not all the bromodomains in polybromo may bind to acetyl-lysine.
Probab=43.19 E-value=15 Score=25.34 Aligned_cols=29 Identities=17% Similarity=0.531 Sum_probs=27.3
Q ss_pred CCchhHHHHHhccCHHHHHHHHHHHhhhh
Q 033242 1 MDFSPLTDALASKSYEKIADICDDLMLKV 29 (124)
Q Consensus 1 m~~~~i~~~~~~~~~~~l~~~cE~~EL~~ 29 (124)
|||+.|..-+.++.|..+.+++.++.|-.
T Consensus 47 mdL~tI~~kl~~~~Y~s~~ef~~D~~l~~ 75 (105)
T cd05515 47 IDMEKIRSKIEGNQYQSLDDMVSDFVLMF 75 (105)
T ss_pred cCHHHHHHHHccCCCCCHHHHHHHHHHHH
Confidence 89999999999999999999999999885
No 43
>cd05492 Bromo_ZMYND11 Bromodomain; ZMYND11_like sub-family. ZMYND11 or BS69 is a ubiquitously expressed nuclear protein that has been shown to associate with chromatin. It interacts with chromatin remodeling factors and might play a role in chromatin remodeling and gene expression. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=42.75 E-value=16 Score=25.85 Aligned_cols=29 Identities=17% Similarity=0.464 Sum_probs=27.6
Q ss_pred CCchhHHHHHhccCHHHHHHHHHHHhhhh
Q 033242 1 MDFSPLTDALASKSYEKIADICDDLMLKV 29 (124)
Q Consensus 1 m~~~~i~~~~~~~~~~~l~~~cE~~EL~~ 29 (124)
||++.|+.=|..|.|..+.++-.+..|-.
T Consensus 47 mDL~tI~~kl~~~~Y~s~~ef~~Dv~LI~ 75 (109)
T cd05492 47 LDVADIQEKINSEKYTSLEEFKADALLLL 75 (109)
T ss_pred CcHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence 99999999999999999999999999886
No 44
>cd04369 Bromodomain Bromodomain. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine.
Probab=41.30 E-value=18 Score=22.99 Aligned_cols=29 Identities=24% Similarity=0.449 Sum_probs=26.9
Q ss_pred CCchhHHHHHhccCHHHHHHHHHHHhhhh
Q 033242 1 MDFSPLTDALASKSYEKIADICDDLMLKV 29 (124)
Q Consensus 1 m~~~~i~~~~~~~~~~~l~~~cE~~EL~~ 29 (124)
||++.|..-+..|.|..+.++.++..+-.
T Consensus 43 ~~l~~I~~kl~~~~Y~s~~~f~~D~~li~ 71 (99)
T cd04369 43 MDLSTIKKKLKNGEYKSLEEFEADVRLIF 71 (99)
T ss_pred ccHHHHHHHHhcCCCCCHHHHHHHHHHHH
Confidence 89999999999999999999999998885
No 45
>cd05511 Bromo_TFIID Bromodomain, TFIID-like subfamily. Human TAFII250 (or TAF250) is the largest subunit of TFIID, a large multi-domain complex, which initiates the assembly of the transcription machinery. TAFII250 contains two bromodomains that specifically bind to acetylated histone H4. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=41.21 E-value=18 Score=25.39 Aligned_cols=29 Identities=21% Similarity=0.479 Sum_probs=27.6
Q ss_pred CCchhHHHHHhccCHHHHHHHHHHHhhhh
Q 033242 1 MDFSPLTDALASKSYEKIADICDDLMLKV 29 (124)
Q Consensus 1 m~~~~i~~~~~~~~~~~l~~~cE~~EL~~ 29 (124)
||++.|+.-+..+.|..+.++..+..|-.
T Consensus 41 mdL~tI~~kl~~~~Y~s~~ef~~Dv~li~ 69 (112)
T cd05511 41 MDLQTIRKKISKHKYQSREEFLEDIELIV 69 (112)
T ss_pred CCHHHHHHHHhcCCCCCHHHHHHHHHHHH
Confidence 89999999999999999999999999985
No 46
>PRK10564 maltose regulon periplasmic protein; Provisional
Probab=40.98 E-value=32 Score=28.87 Aligned_cols=23 Identities=13% Similarity=0.239 Sum_probs=21.0
Q ss_pred hhHHHHHhccCHHHHHHHHHHHh
Q 033242 4 SPLTDALASKSYEKIADICDDLM 26 (124)
Q Consensus 4 ~~i~~~~~~~~~~~l~~~cE~~E 26 (124)
+.|++|+++||++|-+...||.|
T Consensus 262 ~aI~~AVk~gDi~KAL~LldEAe 284 (303)
T PRK10564 262 QAIKQAVKKGDVDKALKLLDEAE 284 (303)
T ss_pred HHHHHHHHcCCHHHHHHHHHHHH
Confidence 68999999999999888888877
No 47
>cd05524 Bromo_polybromo_I Bromodomain, polybromo repeat I. Polybromo is a nuclear protein of unknown function, which contains 6 bromodomains. The human ortholog BAF180 is part of a SWI/SNF chromatin-remodeling complex, and it may carry out the functions of Yeast Rsc-1 and Rsc-2. It was shown that polybromo bromodomains bind to histone H3 at specific acetyl-lysine positions. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine, but not all the bromodomains in polybromo may bind to acetyl-lysine.
Probab=40.83 E-value=17 Score=25.61 Aligned_cols=29 Identities=21% Similarity=0.535 Sum_probs=27.7
Q ss_pred CCchhHHHHHhccCHHHHHHHHHHHhhhh
Q 033242 1 MDFSPLTDALASKSYEKIADICDDLMLKV 29 (124)
Q Consensus 1 m~~~~i~~~~~~~~~~~l~~~cE~~EL~~ 29 (124)
|||+.|+.=+..+.|..+.+++.++.|-.
T Consensus 49 mdl~tI~~kl~~~~Y~s~~~f~~D~~lm~ 77 (113)
T cd05524 49 IDLLKIQQKLKTEEYDDVDDLTADFELLI 77 (113)
T ss_pred cCHHHHHHHhCcCCCCCHHHHHHHHHHHH
Confidence 89999999999999999999999999985
No 48
>cd05499 Bromo_BDF1_2_II Bromodomain. BDF1/BDF2 like subfamily, restricted to fungi, repeat II. BDF1 and BDF2 are yeast transcription factors involved in the expression of a wide range of genes, including snRNAs; they are required for sporulation and DNA repair and protect histone H4 from deacetylation. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=40.23 E-value=19 Score=24.52 Aligned_cols=29 Identities=21% Similarity=0.407 Sum_probs=27.2
Q ss_pred CCchhHHHHHhccCHHHHHHHHHHHhhhh
Q 033242 1 MDFSPLTDALASKSYEKIADICDDLMLKV 29 (124)
Q Consensus 1 m~~~~i~~~~~~~~~~~l~~~cE~~EL~~ 29 (124)
||++.|+.-+..+.|..+.+++.++.|-.
T Consensus 46 ~dL~~I~~kl~~~~Y~s~~ef~~D~~li~ 74 (102)
T cd05499 46 MDLGTISKKLQNGQYQSAKEFERDVRLIF 74 (102)
T ss_pred CCHHHHHHHHcCCCCCCHHHHHHHHHHHH
Confidence 89999999999999999999999999885
No 49
>cd05522 Bromo_Rsc1_2_II Bromodomain, repeat II in Rsc1/2_like subfamily, specific to fungi. Rsc1 and Rsc2 are components of the RSC complex (remodeling the structure of chromatin), are essential for transcriptional control, and have a specific domain architecture including two bromodomains. The RSC complex has also been linked to homologous recombination and nonhomologous end-joining repair of DNA double strand breaks. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=40.10 E-value=19 Score=24.94 Aligned_cols=29 Identities=14% Similarity=0.385 Sum_probs=27.4
Q ss_pred CCchhHHHHHhccCHHHHHHHHHHHhhhh
Q 033242 1 MDFSPLTDALASKSYEKIADICDDLMLKV 29 (124)
Q Consensus 1 m~~~~i~~~~~~~~~~~l~~~cE~~EL~~ 29 (124)
|||+.|+.-+..|.|..+.+++.++.|-.
T Consensus 48 mdl~tI~~kl~~~~Y~s~~~f~~D~~li~ 76 (104)
T cd05522 48 ISLDDIKKKVKRRKYKSFDQFLNDLNLMF 76 (104)
T ss_pred cCHHHHHHHHccCCCCCHHHHHHHHHHHH
Confidence 89999999999999999999999999885
No 50
>cd05528 Bromo_AAA Bromodomain; sub-family co-occurring with AAA domains. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine. The structure(2DKW) in this alignment is an uncharacterized protein predicted from analysis of cDNA clones from human fetal liver
Probab=40.07 E-value=21 Score=25.20 Aligned_cols=29 Identities=28% Similarity=0.434 Sum_probs=27.6
Q ss_pred CCchhHHHHHhccCHHHHHHHHHHHhhhh
Q 033242 1 MDFSPLTDALASKSYEKIADICDDLMLKV 29 (124)
Q Consensus 1 m~~~~i~~~~~~~~~~~l~~~cE~~EL~~ 29 (124)
||++.|..=+..+.|..+-+++.+..|-.
T Consensus 44 mdL~tI~~kl~~~~Y~s~~ef~~Dv~li~ 72 (112)
T cd05528 44 MDLQTILQKLDTHQYLTAKDFLKDIDLIV 72 (112)
T ss_pred CCHHHHHHHHcCCCcCCHHHHHHHHHHHH
Confidence 89999999999999999999999999985
No 51
>PF12536 DUF3734: Patatin phospholipase ; InterPro: IPR021095 This entry represents bacterial proteins of approximately 110 amino acids in length. These proteins are found in association with PF01734 from PFAM. There are two completely conserved residues (F and G) that may be functionally important. The proteins in this family are frequently annotated as patatin family phospholipases however there is little accompanying literature to confirm this.
Probab=39.66 E-value=30 Score=24.23 Aligned_cols=26 Identities=23% Similarity=0.418 Sum_probs=21.7
Q ss_pred HHHHHhhCChhhhhccHHHHHHHHHHH
Q 033242 58 ARFLWKSIPSTIKDSRAEVVAAWKIGQ 84 (124)
Q Consensus 58 AR~LwkRiP~~lk~~~~el~~iw~l~~ 84 (124)
.+.|.++||+++++ +|+++.+-..|.
T Consensus 24 i~~Ll~~lP~~~r~-dp~~~~l~~~~~ 49 (108)
T PF12536_consen 24 IRELLERLPEELRD-DPDVRELAELGC 49 (108)
T ss_pred HHHHHHcCCHHHhC-CHHHHHHHHhcC
Confidence 47789999999996 899998876554
No 52
>PF10108 DNA_pol_B_exo2: Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; InterPro: IPR019288 This entry represents various prokaryotic 3'-5' exonucleases and hypothetical proteins.
Probab=39.31 E-value=1e+02 Score=24.38 Aligned_cols=48 Identities=15% Similarity=0.308 Sum_probs=36.2
Q ss_pred CCchhHHHHHhccCHHHHHHHHHHHhhhhhhcCCcCCCchhHHHHHHHHHHhhchhhHHH
Q 033242 1 MDFSPLTDALASKSYEKIADICDDLMLKVAAEGIVFQDEWPYVIHLLGYYYVNDINSARF 60 (124)
Q Consensus 1 m~~~~i~~~~~~~~~~~l~~~cE~~EL~~~~~g~~~~~~~~Y~~~L~~yLl~~Dl~~AR~ 60 (124)
||=+.|.++..+|+.++|...||.==|.. |..||=.-++.++|....|
T Consensus 134 idGs~V~~~y~~g~i~~I~~YCe~DVl~T------------~~lylR~~~~~G~l~~~~y 181 (209)
T PF10108_consen 134 IDGSQVAELYQEGDIDEIREYCEKDVLNT------------YLLYLRFELLRGRLSPEDY 181 (209)
T ss_pred CCHHHHHHHHHcCCHHHHHHHHHHHHHHH------------HHHHHHHHHhhCCCCHHHH
Confidence 56688999999999999999999544332 6777766677777665544
No 53
>KOG2378 consensus cAMP-regulated guanine nucleotide exchange factor [Signal transduction mechanisms]
Probab=39.16 E-value=24 Score=31.66 Aligned_cols=61 Identities=15% Similarity=0.212 Sum_probs=40.6
Q ss_pred cCHHHHHHHHHHHhhhhhhcCCcCCCchhHHHHHHHHHHhhchhhHHHHHhhCChhhhhccHHHHHHHHHHHHHHc
Q 033242 13 KSYEKIADICDDLMLKVAAEGIVFQDEWPYVIHLLGYYYVNDINSARFLWKSIPSTIKDSRAEVVAAWKIGQHLWT 88 (124)
Q Consensus 13 ~~~~~l~~~cE~~EL~~~~~g~~~~~~~~Y~~~L~~yLl~~Dl~~AR~LwkRiP~~lk~~~~el~~iw~l~~~lw~ 88 (124)
++|.|++..|.+.+ +|. .+|++.+- |=+--+..+..-|+++|...|....++ |++.---|+
T Consensus 411 kkfiKiaal~ke~~-----~l~-----sffAV~~G--L~~~avSrl~~tweklP~k~kk~~s~~---enl~dP~~n 471 (573)
T KOG2378|consen 411 KKFIKIAALCKEGE-----NLN-----SFFAVVMG--LSNRAVSRLDLTWEKLPYKFKKLFSEL---ENLLDPCRN 471 (573)
T ss_pred HHHHHHHHHHHhhc-----ccc-----chHHHhhc--chhHHHHhhhcccccCchHHHhHHHHH---HhcCCchhh
Confidence 35667777776554 222 46888776 556667778889999999999765554 444443343
No 54
>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A.
Probab=38.75 E-value=1.7e+02 Score=21.96 Aligned_cols=115 Identities=17% Similarity=0.243 Sum_probs=64.6
Q ss_pred hhHHHHHhccCHHHHHHHHHHHhhhhhhcCCcCCCchhHHHHHHHHHHhhchhhHHHHHhhCChhhhhccHHHHHHHHHH
Q 033242 4 SPLTDALASKSYEKIADICDDLMLKVAAEGIVFQDEWPYVIHLLGYYYVNDINSARFLWKSIPSTIKDSRAEVVAAWKIG 83 (124)
Q Consensus 4 ~~i~~~~~~~~~~~l~~~cE~~EL~~~~~g~~~~~~~~Y~~~L~~yLl~~Dl~~AR~LwkRiP~~lk~~~~el~~iw~l~ 83 (124)
..-..++..|+|++-+...+++.-.- |++.-.++- .-.+--+|.-.+|-..|....+|.-..-..+.-.=.+...+|
T Consensus 10 ~~a~~~~~~g~y~~Ai~~f~~l~~~~-P~s~~a~~A--~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~~~A~Y~~g 86 (203)
T PF13525_consen 10 QKALEALQQGDYEEAIKLFEKLIDRY-PNSPYAPQA--QLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKADYALYMLG 86 (203)
T ss_dssp HHHHHHHHCT-HHHHHHHHHHHHHH--TTSTTHHHH--HHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTHHHHHHHHH
T ss_pred HHHHHHHHCCCHHHHHHHHHHHHHHC-CCChHHHHH--HHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhhHHHHHH
Confidence 34467889999999999999988763 444433332 222334567788999998888876555554322223445555
Q ss_pred HHHH---------ccChHHHHHHhhC----------CCCCHHHHHHHHHHHHHHhhh
Q 033242 84 QHLW---------TRDYAGVYDAIRG----------FDWSQEAQALVAAFSGACTKS 121 (124)
Q Consensus 84 ~~lw---------~rdy~~vy~al~~----------~~Ws~~~~~lv~~l~~~~r~r 121 (124)
.+.. +||-..+-++++. .++.+.++..|..+++..-++
T Consensus 87 ~~~~~~~~~~~~~~~D~~~~~~A~~~~~~li~~yP~S~y~~~A~~~l~~l~~~la~~ 143 (203)
T PF13525_consen 87 LSYYKQIPGILRSDRDQTSTRKAIEEFEELIKRYPNSEYAEEAKKRLAELRNRLAEH 143 (203)
T ss_dssp HHHHHHHHHHH-TT---HHHHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHhCccchhcccChHHHHHHHHHHHHHHHHCcCchHHHHHHHHHHHHHHHHHHH
Confidence 5432 4555555444433 346666666666666655443
No 55
>cd05496 Bromo_WDR9_II Bromodomain; WDR9 repeat II_like subfamily. WDR9 is a human gene located in the Down Syndrome critical region-2 of chromosome 21. It encodes for a nuclear protein containing WD40 repeats and two bromodomains, which may function as a transcriptional regulator involved in chromatin remodeling and play a role in embryonic development. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=38.29 E-value=20 Score=25.64 Aligned_cols=29 Identities=21% Similarity=0.436 Sum_probs=27.4
Q ss_pred CCchhHHHHHhccCHHHHHHHHHHHhhhh
Q 033242 1 MDFSPLTDALASKSYEKIADICDDLMLKV 29 (124)
Q Consensus 1 m~~~~i~~~~~~~~~~~l~~~cE~~EL~~ 29 (124)
|||+.|+.-|..|.|..+-++..++.|.-
T Consensus 46 mDL~tIk~kL~~~~Y~~~~ef~~D~~lif 74 (119)
T cd05496 46 MDLGTVKETLFGGNYDDPMEFAKDVRLIF 74 (119)
T ss_pred ccHHHHHHHHhCCCCCCHHHHHHHHHHHH
Confidence 89999999999999999999999999885
No 56
>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional
Probab=37.55 E-value=2.9e+02 Score=24.57 Aligned_cols=57 Identities=11% Similarity=0.197 Sum_probs=37.4
Q ss_pred HHHHHhccCHHHHHHHHHHHhhhhhhcCCcCCCchhHHHHHHHHHHhhchhhHHHHHhhCCh
Q 033242 6 LTDALASKSYEKIADICDDLMLKVAAEGIVFQDEWPYVIHLLGYYYVNDINSARFLWKSIPS 67 (124)
Q Consensus 6 i~~~~~~~~~~~l~~~cE~~EL~~~~~g~~~~~~~~Y~~~L~~yLl~~Dl~~AR~LwkRiP~ 67 (124)
|..+...|++++.....+++. + .|+. |+..-|..+|-++.-.+++.+|+-+++.+-+
T Consensus 398 I~~y~~~G~~~~A~~lf~~M~-~---~g~~-Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~ 454 (697)
T PLN03081 398 IAGYGNHGRGTKAVEMFERMI-A---EGVA-PNHVTFLAVLSACRYSGLSEQGWEIFQSMSE 454 (697)
T ss_pred HHHHHHcCCHHHHHHHHHHHH-H---hCCC-CCHHHHHHHHHHHhcCCcHHHHHHHHHHHHH
Confidence 445566777777777777643 2 2442 5555677777777777777777777776643
No 57
>cd05529 Bromo_WDR9_I_like Bromodomain; WDR9 repeat I_like subfamily. WDR9 is a human gene located in the Down Syndrome critical region-2 of chromosome 21. It encodes for a nuclear protein containing WD40 repeats and two bromodomains, which may function as a transcriptional regulator involved in chromatin remodeling and play a role in embryonic development. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=37.42 E-value=22 Score=25.57 Aligned_cols=29 Identities=21% Similarity=0.458 Sum_probs=27.3
Q ss_pred CCchhHHHHHhccCHHHHHHHHHHHhhhh
Q 033242 1 MDFSPLTDALASKSYEKIADICDDLMLKV 29 (124)
Q Consensus 1 m~~~~i~~~~~~~~~~~l~~~cE~~EL~~ 29 (124)
|||+.|+.=+..+.|..+.++..+..|-.
T Consensus 69 mdL~tI~~kl~~~~Y~s~~~f~~Dv~Li~ 97 (128)
T cd05529 69 MDLETIRSRLENRYYRSLEALRHDVRLIL 97 (128)
T ss_pred CCHHHHHHHHhcCCCCCHHHHHHHHHHHH
Confidence 89999999999999999999999999885
No 58
>PF12169 DNA_pol3_gamma3: DNA polymerase III subunits gamma and tau domain III; InterPro: IPR022754 This domain is found in bacteria and eukaryotes, and is approximately 110 amino acids in length. It is found in association with PF00004 from PFAM. This domain is also present in the tau subunit before it undergoes cleavage. Domains I-III are shared between the tau and the gamma subunits, while most of the DnaB-binding Domain IV and all of the alpha-interacting Domain V are unique to tau. ; GO: 0003887 DNA-directed DNA polymerase activity; PDB: 1NJF_B 3GLG_G 1XXH_I 1NJG_A 3GLF_B 3GLI_G.
Probab=36.97 E-value=58 Score=22.81 Aligned_cols=43 Identities=5% Similarity=0.147 Sum_probs=23.2
Q ss_pred HHHHHHHHHHccChHHHHHHhhC-CCCCHHHHHHHHHHHHHHhh
Q 033242 78 AAWKIGQHLWTRDYAGVYDAIRG-FDWSQEAQALVAAFSGACTK 120 (124)
Q Consensus 78 ~iw~l~~~lw~rdy~~vy~al~~-~~Ws~~~~~lv~~l~~~~r~ 120 (124)
.+..+.+++-++|.+++...++. ++-+-....++..+.+.+|+
T Consensus 17 ~i~~l~~ai~~~d~~~~l~~~~~l~~~G~d~~~~l~~L~~~~R~ 60 (143)
T PF12169_consen 17 QIFELLDAILEGDAAEALELLNELLEQGKDPKQFLDDLIEYLRD 60 (143)
T ss_dssp HHHHHHHHHHTT-HHHHHHHHHHHHHCT--HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH
Confidence 34566666777777776666654 23445555555555555553
No 59
>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]
Probab=36.46 E-value=2.3e+02 Score=24.62 Aligned_cols=104 Identities=18% Similarity=0.165 Sum_probs=67.7
Q ss_pred hccCHHHHHHHHHHHhhhhh-hcCCcCCCchhHHHHHHHHHHhhchhhHHHHHhhCChhhhhccHHHHHHHHHHH-HHHc
Q 033242 11 ASKSYEKIADICDDLMLKVA-AEGIVFQDEWPYVIHLLGYYYVNDINSARFLWKSIPSTIKDSRAEVVAAWKIGQ-HLWT 88 (124)
Q Consensus 11 ~~~~~~~l~~~cE~~EL~~~-~~g~~~~~~~~Y~~~L~~yLl~~Dl~~AR~LwkRiP~~lk~~~~el~~iw~l~~-~lw~ 88 (124)
+.++++|-++.++++.--.. ..++-.. -||+-+--.++..+|.+.||++.+|--+.=|+ -+++--.+|+ .+-+
T Consensus 153 ~treW~KAId~A~~L~k~~~q~~~~eIA--qfyCELAq~~~~~~~~d~A~~~l~kAlqa~~~---cvRAsi~lG~v~~~~ 227 (389)
T COG2956 153 ATREWEKAIDVAERLVKLGGQTYRVEIA--QFYCELAQQALASSDVDRARELLKKALQADKK---CVRASIILGRVELAK 227 (389)
T ss_pred HhhHHHHHHHHHHHHHHcCCccchhHHH--HHHHHHHHHHhhhhhHHHHHHHHHHHHhhCcc---ceehhhhhhHHHHhc
Confidence 47889999999998774421 1122111 47999999999999999999999986544443 3555556665 4566
Q ss_pred cChHHHHHHhhC--CCCCHHHHHHHHHHHHHHh
Q 033242 89 RDYAGVYDAIRG--FDWSQEAQALVAAFSGACT 119 (124)
Q Consensus 89 rdy~~vy~al~~--~~Ws~~~~~lv~~l~~~~r 119 (124)
.+|++.-++++. ..=++-+-.+...+.+.|+
T Consensus 228 g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~ 260 (389)
T COG2956 228 GDYQKAVEALERVLEQNPEYLSEVLEMLYECYA 260 (389)
T ss_pred cchHHHHHHHHHHHHhChHHHHHHHHHHHHHHH
Confidence 799986666543 1223334445555555554
No 60
>PF00439 Bromodomain: Bromodomain; InterPro: IPR001487 Bromodomains are found in a variety of mammalian, invertebrate and yeast DNA-binding proteins []. Bromodomains can interact with acetylated lysine []. In some proteins, the classical bromodomain has diverged to such an extent that parts of the region are either missing or contain an insertion (e.g., mammalian protein HRX, Caenorhabditis elegans hypothetical protein ZK783.4, yeast protein YTA7). The bromodomain may occur as a single copy, or in duplicate. The precise function of the domain is unclear, but it may be involved in protein-protein interactions and may play a role in assembly or activity of multi-component complexes involved in transcriptional activation [].; GO: 0005515 protein binding; PDB: 3P1C_A 4A9K_B 3SVH_A 3P1E_B 3P1F_A 1JSP_B 2L85_A 3P1D_B 3DWY_B 2D82_A ....
Probab=33.58 E-value=23 Score=22.53 Aligned_cols=29 Identities=28% Similarity=0.463 Sum_probs=24.4
Q ss_pred CCchhHHHHHhccCHHHHHHHHHHHhhhh
Q 033242 1 MDFSPLTDALASKSYEKIADICDDLMLKV 29 (124)
Q Consensus 1 m~~~~i~~~~~~~~~~~l~~~cE~~EL~~ 29 (124)
||++.|+.-+..|.|..+-++-.+.++-.
T Consensus 37 ~dL~~I~~kl~~~~Y~s~~~f~~Dv~~i~ 65 (84)
T PF00439_consen 37 MDLSTIRKKLENGKYKSIEEFEADVRLIF 65 (84)
T ss_dssp --HHHHHHHHHTTSSSSHHHHHHHHHHHH
T ss_pred cchhhhhHHhhccchhhHHHHHHHHHHHH
Confidence 89999999999999999988888888775
No 61
>PF02847 MA3: MA3 domain; InterPro: IPR003891 This entry represents the MI domain (after MA-3 and eIF4G), it is a protein-protein interaction module of ~130 amino acids [, , ]. It appears in several translation factors and is found in: One copy in plant and animal eIF4G 1 and 2 (DAP-5/NAT1/p97) Two copies in the animal programmed cell death protein 4 (PDCD4) or MA-3 that is induced during programmed cell death and inhibits neoplastic transformation Four tandem-repeated copies in a group of uncharacterised plant proteins The MI domain consists of seven alpha-helices, which pack into a globular form. The packing arrangement consists of repeating pairs of antiparallel helices packed one upon the other such that a superhelical axis is generated perpendicular to the alpha-helical axes []. The MI domain has also been named MA3 domain.; PDB: 2ION_A 2IOL_B 2NSZ_A 3EIQ_C 2HM8_A 2KZT_B 2IOS_A 2RG8_B 2ZU6_E 3EIJ_A ....
Probab=33.24 E-value=88 Score=20.90 Aligned_cols=34 Identities=21% Similarity=0.411 Sum_probs=26.6
Q ss_pred HHHHHHHHHHHhhhhhhcCCcCCCchhHHHHHHHHHHhhch
Q 033242 15 YEKIADICDDLMLKVAAEGIVFQDEWPYVIHLLGYYYVNDI 55 (124)
Q Consensus 15 ~~~l~~~cE~~EL~~~~~g~~~~~~~~Y~~~L~~yLl~~Dl 55 (124)
|.++.+.++++++.. |..+-|..-++++++.+|+
T Consensus 78 f~~~l~~l~Dl~~D~-------P~~~~~la~~~~~~i~~~~ 111 (113)
T PF02847_consen 78 FEDLLESLEDLELDI-------PKAPEYLAKFLARLIADGI 111 (113)
T ss_dssp HHHHHHHHHHHHHHS-------TTHHHHHHHHHHHHHHTTS
T ss_pred HHHHHhHhhhccccc-------hHHHHHHHHHHHHHHHcCC
Confidence 667888888888774 5566788888888888875
No 62
>smart00297 BROMO bromo domain.
Probab=32.85 E-value=29 Score=23.08 Aligned_cols=29 Identities=24% Similarity=0.495 Sum_probs=26.5
Q ss_pred CCchhHHHHHhccCHHHHHHHHHHHhhhh
Q 033242 1 MDFSPLTDALASKSYEKIADICDDLMLKV 29 (124)
Q Consensus 1 m~~~~i~~~~~~~~~~~l~~~cE~~EL~~ 29 (124)
||++.|++=+..|.|..+.++..+..+-.
T Consensus 48 ~dl~~I~~kl~~~~Y~s~~ef~~D~~li~ 76 (107)
T smart00297 48 MDLSTIKKKLENGKYSSVEEFVADVQLMF 76 (107)
T ss_pred CCHHHHHHHHhcCCCCCHHHHHHHHHHHH
Confidence 89999999999999999999999888875
No 63
>PF08727 P3A: Poliovirus 3A protein like; InterPro: IPR014838 The 3A protein is found in positive-strand RNA viruses. It is a critical component of the poliovirus replication complex, and is also an inhibitor of host cell ER to Golgi transport. ; GO: 0003968 RNA-directed RNA polymerase activity, 0004197 cysteine-type endopeptidase activity, 0017111 nucleoside-triphosphatase activity; PDB: 1NG7_A.
Probab=32.15 E-value=33 Score=22.06 Aligned_cols=26 Identities=15% Similarity=0.353 Sum_probs=19.0
Q ss_pred hhHHHHHhccCHHHHHHHHHHHhhhh
Q 033242 4 SPLTDALASKSYEKIADICDDLMLKV 29 (124)
Q Consensus 4 ~~i~~~~~~~~~~~l~~~cE~~EL~~ 29 (124)
+.|.++|++-+=.++.+.|+++-...
T Consensus 18 ~~I~DLL~SV~~~eV~~YC~~~GWIi 43 (57)
T PF08727_consen 18 PAIADLLRSVDSPEVREYCEEQGWII 43 (57)
T ss_dssp -TTHHHHHHH--HHHHHHHHHHT--T
T ss_pred HHHHHHHHhcCCHHHHHHHHHCCccc
Confidence 56899999999999999999876654
No 64
>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]
Probab=31.64 E-value=1e+02 Score=29.59 Aligned_cols=27 Identities=26% Similarity=0.311 Sum_probs=23.8
Q ss_pred chhHHHHHhccCHHHHHHHHHHHhhhh
Q 033242 3 FSPLTDALASKSYEKIADICDDLMLKV 29 (124)
Q Consensus 3 ~~~i~~~~~~~~~~~l~~~cE~~EL~~ 29 (124)
-.+|..|+++||++..++..|++|.+.
T Consensus 364 ~eAI~hAlaA~d~~~aa~lle~~~~~L 390 (894)
T COG2909 364 SEAIDHALAAGDPEMAADLLEQLEWQL 390 (894)
T ss_pred HHHHHHHHhCCCHHHHHHHHHhhhhhh
Confidence 357999999999999999999997774
No 65
>PF08771 Rapamycin_bind: Rapamycin binding domain; InterPro: IPR009076 Rapamycin and FK506 are potent immunosuppressive agents that bind to the FK506-binding protein (FKBP12), inhibiting its peptidyl-prolyl isomerase activity. The rapamycin-FKBP12 complex can then bind to and inhibit the FKBP12-rapamycin-associated protein (FRAP) in humans and RAFT1 in rats, causing cell-cycle arrest []. The FK506-FKBP12 complex cannot bind FRAP, but can bind to and inhibit calcineurin. Rapamycin is able to bind to two proteins, FKBP12 and FRAP, by simultaneously occupying two hydrophobic binding pockets, thereby linking these two proteins together to form a dimer []. The structure of the FKBP12-rapamycin-binding domain of FRAP consists of a core bundle of four helices arranged up-and-down in a left-handed twist. FRAP has been shown to interact in vitro with CLIP-170, a protein involved in microtubule organisation and function []. FRAP is thought to act as a kinase to phosphorylate CLIP-170, thereby regulating its binding to microtubules. FRAP is also thought to cooperate with p85/p110 phosphatidylinositol 3-kinase (PI3K) to induce the activation of the serine/threonine kinase p70 S6 kinase (p70S6K), which in turn phosphorylates the 40S ribosomal protein S6, thereby altering the translation of ribosomal proteins and translation elongation factors [].; GO: 0016772 transferase activity, transferring phosphorus-containing groups; PDB: 2NPU_A 2RSE_B 4FAP_B 1AUE_A 2GAQ_A 1FAP_B 2FAP_B 3FAP_B 1NSG_B.
Probab=29.29 E-value=1.9e+02 Score=19.87 Aligned_cols=70 Identities=19% Similarity=0.203 Sum_probs=45.7
Q ss_pred hccCHHHHHHHHHHHhhhhhhcCCcCCCchhHHHHHHHHHHhhchhhHHHHHhhCChhhhhccHHHHHHHHHHHHHHc
Q 033242 11 ASKSYEKIADICDDLMLKVAAEGIVFQDEWPYVIHLLGYYYVNDINSARFLWKSIPSTIKDSRAEVVAAWKIGQHLWT 88 (124)
Q Consensus 11 ~~~~~~~l~~~cE~~EL~~~~~g~~~~~~~~Y~~~L~~yLl~~Dl~~AR~LwkRiP~~lk~~~~el~~iw~l~~~lw~ 88 (124)
..+|+++....++.+-=.. ..|+.+ ..-.-++.-+-.||.+|+-..+|-...=. ...+..+|.+-..+.+
T Consensus 26 ~~~n~~~m~~~L~pLh~~l-~k~PeT-----~~E~~F~~~fg~~L~~A~~~~~~y~~t~~--~~~l~~aW~~y~~v~~ 95 (100)
T PF08771_consen 26 GENNVEKMFKILEPLHEML-EKGPET-----LREVSFAQAFGRDLQEAREWLKRYERTGD--ETDLNQAWDIYYQVYR 95 (100)
T ss_dssp TTT-HHHHHHHHHHHHHHH-HHS-SS-----HHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHH
T ss_pred hhcCHHHHHHHHHHHHHHH-cCCCCC-----HHHHHHHHHHHHHHHHHHHHHHHHhhhCC--HhhHHHHHHHHHHHHH
Confidence 4789999888887764332 234433 33344566778999999999998754333 4678888988665543
No 66
>PF08898 DUF1843: Domain of unknown function (DUF1843); InterPro: IPR014994 This domain is found in functionally uncharacterised proteins. It can be found independently or at the C terminus of the protein.
Probab=27.68 E-value=1.1e+02 Score=19.42 Aligned_cols=24 Identities=13% Similarity=0.239 Sum_probs=17.6
Q ss_pred hHHHHHhccCHHHHHHHHHHHhhh
Q 033242 5 PLTDALASKSYEKIADICDDLMLK 28 (124)
Q Consensus 5 ~i~~~~~~~~~~~l~~~cE~~EL~ 28 (124)
+|+.++++||..+.....-.-|-+
T Consensus 6 aiq~AiasGDLa~MK~l~~~aeq~ 29 (53)
T PF08898_consen 6 AIQQAIASGDLAQMKALAAQAEQQ 29 (53)
T ss_pred HHHHHHHcCcHHHHHHHHHHHHHH
Confidence 689999999988766655544444
No 67
>PF11159 DUF2939: Protein of unknown function (DUF2939); InterPro: IPR021330 This bacterial family of proteins has no known function.
Probab=27.35 E-value=1.7e+02 Score=19.48 Aligned_cols=40 Identities=18% Similarity=0.246 Sum_probs=31.4
Q ss_pred HHHHHHHHHHccChHHHHHHhhCCCCCHHHHHHHHHHHHHHhh
Q 033242 78 AAWKIGQHLWTRDYAGVYDAIRGFDWSQEAQALVAAFSGACTK 120 (124)
Q Consensus 78 ~iw~l~~~lw~rdy~~vy~al~~~~Ws~~~~~lv~~l~~~~r~ 120 (124)
++|.|-+++-++|-+.+-+.+ +|+.--+.+...+...+..
T Consensus 16 al~~i~~Ai~~~D~~~l~~~V---D~~avr~slk~ql~~~~~~ 55 (95)
T PF11159_consen 16 ALYQIRQAIQAHDAAALARYV---DFPAVRASLKDQLNAELVS 55 (95)
T ss_pred HHHHHHHHHHHcCHHHHHHHc---CHHHHHHHHHHHHHHHHHh
Confidence 899999999999998888777 5777767777766666555
No 68
>PLN02407 diphosphomevalonate decarboxylase
Probab=25.72 E-value=55 Score=27.82 Aligned_cols=27 Identities=7% Similarity=0.171 Sum_probs=22.8
Q ss_pred CchhHHHHHhccCHHHHHHHHHHHhhh
Q 033242 2 DFSPLTDALASKSYEKIADICDDLMLK 28 (124)
Q Consensus 2 ~~~~i~~~~~~~~~~~l~~~cE~~EL~ 28 (124)
++..+.++|..+||+++..++|.--++
T Consensus 236 ~~~~~~~Ai~~~Df~~~gei~e~ds~~ 262 (343)
T PLN02407 236 RILQMEEAIKNRDFASFAKLTCADSNQ 262 (343)
T ss_pred HHHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence 467899999999999999998875555
No 69
>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional
Probab=24.70 E-value=2.2e+02 Score=25.42 Aligned_cols=34 Identities=24% Similarity=0.259 Sum_probs=28.0
Q ss_pred CCcCCCchhHHHHHHHHHHhhchhhHHHHHhhCCh
Q 033242 33 GIVFQDEWPYVIHLLGYYYVNDINSARFLWKSIPS 67 (124)
Q Consensus 33 g~~~~~~~~Y~~~L~~yLl~~Dl~~AR~LwkRiP~ 67 (124)
|.. |+...|..++-.|.-.+++..|+-++.++|+
T Consensus 153 g~~-~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~ 186 (697)
T PLN03081 153 GFE-PDQYMMNRVLLMHVKCGMLIDARRLFDEMPE 186 (697)
T ss_pred CCC-cchHHHHHHHHHHhcCCCHHHHHHHHhcCCC
Confidence 443 5566788999999999999999999999986
No 70
>PLN03077 Protein ECB2; Provisional
Probab=24.68 E-value=5.4e+02 Score=23.52 Aligned_cols=90 Identities=12% Similarity=0.127 Sum_probs=50.0
Q ss_pred HHHHHhccCHHHHHHHHHHHhhhhhhcCCcCCCchhHHHHHHHHHHhhchhhHHHHHhhCChhhhhccHHHHHHHHHHHH
Q 033242 6 LTDALASKSYEKIADICDDLMLKVAAEGIVFQDEWPYVIHLLGYYYVNDINSARFLWKSIPSTIKDSRAEVVAAWKIGQH 85 (124)
Q Consensus 6 i~~~~~~~~~~~l~~~cE~~EL~~~~~g~~~~~~~~Y~~~L~~yLl~~Dl~~AR~LwkRiP~~lk~~~~el~~iw~l~~~ 85 (124)
|......|+.++.....+++. + .|+. |+..-|..+|-+|--.+++.+|+.+++++-+.-. -.|.+..--.+...
T Consensus 561 I~~~~~~G~~~~A~~lf~~M~-~---~g~~-Pd~~T~~~ll~a~~~~g~v~ea~~~f~~M~~~~g-i~P~~~~y~~lv~~ 634 (857)
T PLN03077 561 LTGYVAHGKGSMAVELFNRMV-E---SGVN-PDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYS-ITPNLKHYACVVDL 634 (857)
T ss_pred HHHHHHcCCHHHHHHHHHHHH-H---cCCC-CCcccHHHHHHHHhhcChHHHHHHHHHHHHHHhC-CCCchHHHHHHHHH
Confidence 444556677777777776644 2 2432 4444577777777777777777777776653222 12444333334444
Q ss_pred HHcc-ChHHHHHHhhCC
Q 033242 86 LWTR-DYAGVYDAIRGF 101 (124)
Q Consensus 86 lw~r-dy~~vy~al~~~ 101 (124)
+... ++...++.++.-
T Consensus 635 l~r~G~~~eA~~~~~~m 651 (857)
T PLN03077 635 LGRAGKLTEAYNFINKM 651 (857)
T ss_pred HHhCCCHHHHHHHHHHC
Confidence 4332 455555555543
No 71
>PLN03218 maturation of RBCL 1; Provisional
Probab=24.50 E-value=1.9e+02 Score=28.14 Aligned_cols=22 Identities=5% Similarity=0.080 Sum_probs=8.5
Q ss_pred HHHHHHHHHHhhchhhHHHHHh
Q 033242 42 YVIHLLGYYYVNDINSARFLWK 63 (124)
Q Consensus 42 Y~~~L~~yLl~~Dl~~AR~Lwk 63 (124)
|..++-+|.-.+++..|+-+.+
T Consensus 582 ynaLI~ay~k~G~ldeA~elf~ 603 (1060)
T PLN03218 582 VGALMKACANAGQVDRAKEVYQ 603 (1060)
T ss_pred HHHHHHHHHHCCCHHHHHHHHH
Confidence 3333333333333333333333
No 72
>cd03199 GST_C_GRX2 GST_C family, Glutaredoxin 2 (GRX2) subfamily; composed of bacterial proteins similar to E. coli GRX2, an atypical GRX with a molecular mass of about 24kD (most GRXs range from 9-12kD). GRX2 adopts a GST fold containing an N-terminal thioredoxin-fold domain and a C-terminal alpha helical domain. It contains a redox active CXXC motif located in the N-terminal domain, but is not able to reduce ribonucleotide reductase like other GRXs. However, it catalyzes GSH-dependent protein disulfide reduction of other substrates efficiently. GRX2 is thought to function primarily in catalyzing the reversible glutathionylation of proteins in cellular redox regulation including stress responses.
Probab=24.47 E-value=2.3e+02 Score=20.65 Aligned_cols=55 Identities=11% Similarity=0.104 Sum_probs=31.7
Q ss_pred hhCChhhhhccHHHHHHHHHHHHHHcc----ChHH--HHHHh------hCCCCCHHHHHHHHHHHHH
Q 033242 63 KSIPSTIKDSRAEVVAAWKIGQHLWTR----DYAG--VYDAI------RGFDWSQEAQALVAAFSGA 117 (124)
Q Consensus 63 kRiP~~lk~~~~el~~iw~l~~~lw~r----dy~~--vy~al------~~~~Ws~~~~~lv~~l~~~ 117 (124)
+.-|+-+++-++.|..+..+....-.. .+.+ +|..| ++..|++.|+..|....+.
T Consensus 56 ~~t~~~i~~l~~~L~~l~~ll~~~~~~n~~ls~DDi~lFp~LR~Lt~vkgi~~P~~V~~Y~~~~s~~ 122 (128)
T cd03199 56 ANTPQYIAALNALLEELDPLILSSEAVNGQLSTDDIILFPILRNLTLVKGLVFPPKVKAYLERMSAL 122 (128)
T ss_pred HccHHHHHHHHHHHHHHHHHHcCccccCCcCCHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHH
Confidence 344555555556666555555222212 2222 44444 4588999999998887664
No 73
>cd05502 Bromo_tif1_like Bromodomain; tif1_like subfamily. Tif1 (transcription intermediary factor 1) is a member of the tripartite motif (TRIM) protein family, which is characterized by a particular domain architecture. It functions by recruiting coactivators and/or corepressors to modulate transcription. Vertebrate Tif1-gamma, also labeled E3 ubiquitin-protein ligase TRIM33, plays a role in the control of hematopoiesis. Its homologue in Xenopus laevis, Ectodermin, has been shown to function in germ-layer specification and control of cell growth during embryogenesis. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=23.83 E-value=52 Score=22.68 Aligned_cols=29 Identities=24% Similarity=0.409 Sum_probs=26.2
Q ss_pred CCchhHHHHHhc---cCHHHHHHHHHHHhhhh
Q 033242 1 MDFSPLTDALAS---KSYEKIADICDDLMLKV 29 (124)
Q Consensus 1 m~~~~i~~~~~~---~~~~~l~~~cE~~EL~~ 29 (124)
|||+.|+.=+.. +.|..+.++..+..|-.
T Consensus 44 mdL~tI~~kL~~~~~~~Y~s~~~f~~D~~li~ 75 (109)
T cd05502 44 MDLSLIRKKLQPKSPQHYSSPEEFVADVRLMF 75 (109)
T ss_pred ccHHHHHHHHhcCCCCCCCCHHHHHHHHHHHH
Confidence 899999999998 48999999999998885
No 74
>PF08482 HrpB_C: ATP-dependent helicase C-terminal; InterPro: IPR013689 This domain is found near the C terminus of bacterial ATP-dependent helicases such as HrpB.
Probab=23.33 E-value=63 Score=23.93 Aligned_cols=24 Identities=25% Similarity=0.727 Sum_probs=19.9
Q ss_pred HHHHHccChHHHHHHhhC----CCCCHH
Q 033242 83 GQHLWTRDYAGVYDAIRG----FDWSQE 106 (124)
Q Consensus 83 ~~~lw~rdy~~vy~al~~----~~Ws~~ 106 (124)
+..-|++.|+.|=+-+++ ++|+|.
T Consensus 105 L~~FW~~sY~~VrKemrGRYPKH~WPed 132 (133)
T PF08482_consen 105 LASFWQGSYPEVRKEMRGRYPKHPWPED 132 (133)
T ss_pred HHHHhcccHHHHHHHHccCCCCCCCCCC
Confidence 446799999999999998 778863
No 75
>PF14276 DUF4363: Domain of unknown function (DUF4363)
Probab=23.27 E-value=1.8e+02 Score=20.02 Aligned_cols=61 Identities=10% Similarity=0.104 Sum_probs=41.0
Q ss_pred chhHHHHHhccCHHHHHHHHHHHhhhhhhcCCcCCCchhHHHHHHHHHHhhchhhHHHHHhhCChhhhhcc
Q 033242 3 FSPLTDALASKSYEKIADICDDLMLKVAAEGIVFQDEWPYVIHLLGYYYVNDINSARFLWKSIPSTIKDSR 73 (124)
Q Consensus 3 ~~~i~~~~~~~~~~~l~~~cE~~EL~~~~~g~~~~~~~~Y~~~L~~yLl~~Dl~~AR~LwkRiP~~lk~~~ 73 (124)
...|.+.+.++|+++-...+++++-.-.. ....+..++=++++++--.-..|++..++..|
T Consensus 32 l~~i~~~i~~~dW~~A~~~~~~l~~~W~k----------~~~~~~~~~~h~eid~i~~sl~rl~~~i~~~d 92 (121)
T PF14276_consen 32 LEQIEEAIENEDWEKAYKETEELEKEWDK----------NKKRWSILIEHQEIDNIDISLARLKGYIEAKD 92 (121)
T ss_pred HHHHHHHHHhCCHHHHHHHHHHHHHHHHh----------hchheeeeecHHHHHHHHHHHHHHHHHHHCCC
Confidence 45788888999998888888877755311 22333344456677777777777777777655
No 76
>PF11573 Med23: Mediator complex subunit 23; InterPro: IPR021629 Med23 is one of the subunits of the Tail portion of the Mediator complex that regulates RNA polymerase II activity. Med23 is required for heat-shock-specific gene expression, and has been shown to mediate transcriptional activation of E1A in mice.
Probab=22.96 E-value=2.2e+02 Score=28.68 Aligned_cols=59 Identities=19% Similarity=0.379 Sum_probs=48.6
Q ss_pred HhhCChhhhhcc-HHHHHHHHHHHHHHccC------hHHHHHHhhCCC----CCH-HHHHHHHHHHHHHhh
Q 033242 62 WKSIPSTIKDSR-AEVVAAWKIGQHLWTRD------YAGVYDAIRGFD----WSQ-EAQALVAAFSGACTK 120 (124)
Q Consensus 62 wkRiP~~lk~~~-~el~~iw~l~~~lw~rd------y~~vy~al~~~~----Ws~-~~~~lv~~l~~~~r~ 120 (124)
-.|||..+-.+. |++.++=+|...+-.|| |=.+-+..|+++ |++ .++..++.|.++||-
T Consensus 151 ~~~iP~~~~~~~~~~l~~~~~vi~~ilDR~~~LlP~y~~~nEi~r~~~~~~~~~~w~L~~~~s~~~~~Fr~ 221 (1341)
T PF11573_consen 151 MQQIPSSLSPEQLPQLLAVEEVIEHILDRNACLLPAYFAVNEIRRGYPKQAAMPPWRLAEKLSNFIDSFRP 221 (1341)
T ss_pred HHhccccCCHHHHHHHHHHHHHHHHHhCcccccchHHHHHHHHHhhCccccccCcHHHHHHHHHHHHhhhh
Confidence 358898887765 99999999999999997 556777777644 666 899999999999984
No 77
>PLN03218 maturation of RBCL 1; Provisional
Probab=21.87 E-value=7.5e+02 Score=24.13 Aligned_cols=57 Identities=5% Similarity=-0.028 Sum_probs=33.3
Q ss_pred HHHHHhccCHHHHHHHHHHHhhhhhhcCCcCCCchhHHHHHHHHHHhhchhhHHHHHhhCCh
Q 033242 6 LTDALASKSYEKIADICDDLMLKVAAEGIVFQDEWPYVIHLLGYYYVNDINSARFLWKSIPS 67 (124)
Q Consensus 6 i~~~~~~~~~~~l~~~cE~~EL~~~~~g~~~~~~~~Y~~~L~~yLl~~Dl~~AR~LwkRiP~ 67 (124)
|..+...|++++...+.+++.- .|. .|+...|..++-+|.-.+++..|.-+++++..
T Consensus 514 I~gy~k~G~~eeAl~lf~~M~~----~Gv-~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~ 570 (1060)
T PLN03218 514 IDGCARAGQVAKAFGAYGIMRS----KNV-KPDRVVFNALISACGQSGAVDRAFDVLAEMKA 570 (1060)
T ss_pred HHHHHHCcCHHHHHHHHHHHHH----cCC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 3445555666655555544321 233 24445577777777777777777777776643
No 78
>PF11237 DUF3038: Protein of unknown function (DUF3038); InterPro: IPR021399 This family of proteins with unknown function appear to be restricted to Cyanobacteria.
Probab=21.54 E-value=3.7e+02 Score=20.72 Aligned_cols=61 Identities=10% Similarity=0.046 Sum_probs=0.0
Q ss_pred chhhHHHHHhhCChhhhhccHHHHHHHHHHHHHHccChHHHHHHhhCCCCCHHHHHHHHHHHHHHhhhc
Q 033242 54 DINSARFLWKSIPSTIKDSRAEVVAAWKIGQHLWTRDYAGVYDAIRGFDWSQEAQALVAAFSGACTKSS 122 (124)
Q Consensus 54 Dl~~AR~LwkRiP~~lk~~~~el~~iw~l~~~lw~rdy~~vy~al~~~~Ws~~~~~lv~~l~~~~r~rt 122 (124)
++.+||.|-.=|-.=.|...|-++.+-.+.+.+-.++-+-....+ ...+...|.+.|++|+
T Consensus 65 ~~eearaLV~Iic~lA~~~~~lIRqll~~~eQ~~~~~~~~~~~~l--------l~~Yl~rF~~~~~~Rm 125 (171)
T PF11237_consen 65 TVEEARALVLIICYLAKQLQPLIRQLLLLLEQMSSQEPPPHQNQL--------LGDYLDRFRSLYQERM 125 (171)
T ss_pred CHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHhcCCChhhHHH--------HHHHHHHHHHHHHHHc
No 79
>COG1689 Uncharacterized protein conserved in archaea [Function unknown]
Probab=21.54 E-value=1e+02 Score=25.32 Aligned_cols=44 Identities=23% Similarity=0.241 Sum_probs=35.4
Q ss_pred HHHHHHHHHHHhhhhhhcCCcCCCchhHHHHHHHHHHhhchhhHHHHHhhC
Q 033242 15 YEKIADICDDLMLKVAAEGIVFQDEWPYVIHLLGYYYVNDINSARFLWKSI 65 (124)
Q Consensus 15 ~~~l~~~cE~~EL~~~~~g~~~~~~~~Y~~~L~~yLl~~Dl~~AR~LwkRi 65 (124)
-+|.++++++++.. +.+| ..|+.+.+..|..+|+.--+|+.+|+
T Consensus 55 ~EktiefL~d~~qt-~~~~------~a~~~~~l~~lg~~d~~r~~~~l~~~ 98 (274)
T COG1689 55 KEKTIEFLYDQMQT-AGVG------VAMAIEFLRILGAKDLARNKMLLLFL 98 (274)
T ss_pred HHHHHHHHHHHHHH-hhhH------HHHHHHHHHHhcccccchhhHHHHHh
Confidence 46788899986655 3333 35999999999999999999999885
No 80
>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]
Probab=21.18 E-value=3.1e+02 Score=26.49 Aligned_cols=74 Identities=12% Similarity=0.084 Sum_probs=61.7
Q ss_pred HHhccCHHHHHHHHHHHhhhhhhcCCcCCCchhHHHHHHHHHHhhchhhHHHHHhhCChhhhhccHHHHHHHHHH
Q 033242 9 ALASKSYEKIADICDDLMLKVAAEGIVFQDEWPYVIHLLGYYYVNDINSARFLWKSIPSTIKDSRAEVVAAWKIG 83 (124)
Q Consensus 9 ~~~~~~~~~l~~~cE~~EL~~~~~g~~~~~~~~Y~~~L~~yLl~~Dl~~AR~LwkRiP~~lk~~~~el~~iw~l~ 83 (124)
++-.+++++-.+.|+...-+. +.+...+..-.++..--++.+.+|+..|+.+-+.--+-.++.+...-++|...
T Consensus 468 al~~~~~e~a~~lar~al~~L-~~~~~~~r~~~~sv~~~a~~~~G~~~~Al~~~~~a~~~a~~~~~~~l~~~~~~ 541 (894)
T COG2909 468 ALNRGDPEEAEDLARLALVQL-PEAAYRSRIVALSVLGEAAHIRGELTQALALMQQAEQMARQHDVYHLALWSLL 541 (894)
T ss_pred HHhcCCHHHHHHHHHHHHHhc-ccccchhhhhhhhhhhHHHHHhchHHHHHHHHHHHHHHHHHcccHHHHHHHHH
Confidence 456788999999999888775 44555555567888888999999999999999999999898898889999876
No 81
>PF07721 TPR_4: Tetratricopeptide repeat; InterPro: IPR011717 This entry includes tetratricopeptide-like repeats not detected by the IPR001440 from INTERPRO, IPR013105 from INTERPRO and IPR011716 from INTERPRO models. The tetratricopeptide repeat (TPR) motif is a protein-protein interaction module found in multiple copies in a number of functionally different proteins that facilitates specific interactions with a partner protein(s) [].; GO: 0042802 identical protein binding
Probab=20.87 E-value=1.4e+02 Score=15.12 Aligned_cols=22 Identities=14% Similarity=0.045 Sum_probs=15.5
Q ss_pred HHHHHHHHHhhchhhHHHHHhh
Q 033242 43 VIHLLGYYYVNDINSARFLWKS 64 (124)
Q Consensus 43 ~~~L~~yLl~~Dl~~AR~LwkR 64 (124)
..+=-+|+-++|..+|+-++.|
T Consensus 5 ~~la~~~~~~G~~~eA~~~l~~ 26 (26)
T PF07721_consen 5 LALARALLAQGDPDEAERLLRR 26 (26)
T ss_pred HHHHHHHHHcCCHHHHHHHHhC
Confidence 3344567778888888887754
No 82
>KOG0019 consensus Molecular chaperone (HSP90 family) [Posttranslational modification, protein turnover, chaperones]
Probab=20.28 E-value=45 Score=30.71 Aligned_cols=43 Identities=16% Similarity=0.447 Sum_probs=33.2
Q ss_pred HHHHhhchhhHHHHHhhCChhhhhccHHHHHHHHHHHHHHccChHHHHHHhhCCCCCHHHH
Q 033242 48 GYYYVNDINSARFLWKSIPSTIKDSRAEVVAAWKIGQHLWTRDYAGVYDAIRGFDWSQEAQ 108 (124)
Q Consensus 48 ~yLl~~Dl~~AR~LwkRiP~~lk~~~~el~~iw~l~~~lw~rdy~~vy~al~~~~Ws~~~~ 108 (124)
+||....+|.-+-+|.|.|.++-+ ..|..+|+.+. .+|.++..
T Consensus 232 I~l~~ek~N~tKpiW~rnp~dit~-----------------eey~eFYksl~-ndw~d~la 274 (656)
T KOG0019|consen 232 IYLNGERVNNLKAIWTMNPKEVNE-----------------EEHEEFYKSVS-GDWDDPLY 274 (656)
T ss_pred chhhhhhhhccCcccccCchhhhH-----------------HHHHHHHHhhc-ccccchhh
Confidence 566777788888888888888763 24788999996 48998864
No 83
>PLN03077 Protein ECB2; Provisional
Probab=20.06 E-value=2.2e+02 Score=26.06 Aligned_cols=59 Identities=14% Similarity=0.009 Sum_probs=39.7
Q ss_pred HHHHHhccCHHHHHHHHHHHhhhhhhcCCcCCCchhHHHHHHHHHHhhchhhHHHHHhhCChh
Q 033242 6 LTDALASKSYEKIADICDDLMLKVAAEGIVFQDEWPYVIHLLGYYYVNDINSARFLWKSIPST 68 (124)
Q Consensus 6 i~~~~~~~~~~~l~~~cE~~EL~~~~~g~~~~~~~~Y~~~L~~yLl~~Dl~~AR~LwkRiP~~ 68 (124)
|.+...+|.+++-..+.+++.=. .|+. |+..-|+.++-+|.=.+++.+|.-+.+.+|-.
T Consensus 596 l~a~~~~g~v~ea~~~f~~M~~~---~gi~-P~~~~y~~lv~~l~r~G~~~eA~~~~~~m~~~ 654 (857)
T PLN03077 596 LCACSRSGMVTQGLEYFHSMEEK---YSIT-PNLKHYACVVDLLGRAGKLTEAYNFINKMPIT 654 (857)
T ss_pred HHHHhhcChHHHHHHHHHHHHHH---hCCC-CchHHHHHHHHHHHhCCCHHHHHHHHHHCCCC
Confidence 34555667777777766655422 2432 44456888888888888888888888887644
Done!