Query 032786
Match_columns 133
No_of_seqs 103 out of 112
Neff 5.3
Searched_HMMs 46136
Date Fri Mar 29 05:56:35 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032786.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/032786hhsearch_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 7.1E-49 1.5E-53 300.8 10.8 127 1-127 1-127 (197)
2 PF10075 PCI_Csn8: COP9 signal 99.9 4.1E-23 8.9E-28 153.1 6.0 88 40-127 5-92 (143)
3 PF03399 SAC3_GANP: SAC3/GANP/ 96.9 0.0053 1.2E-07 46.8 7.4 86 40-126 100-185 (204)
4 PF14559 TPR_19: Tetratricopep 92.2 0.97 2.1E-05 27.9 6.4 66 9-81 1-66 (68)
5 KOG3151 26S proteasome regulat 87.5 3.5 7.7E-05 34.3 7.6 81 40-121 101-181 (260)
6 COG3071 HemY Uncharacterized e 81.0 20 0.00043 31.7 9.8 103 6-114 194-305 (400)
7 PF12854 PPR_1: PPR repeat 75.0 4.8 0.0001 22.7 3.0 30 37-66 5-34 (34)
8 PF14938 SNAP: Soluble NSF att 73.1 17 0.00036 29.4 6.8 111 9-120 165-279 (282)
9 PF12218 End_N_terminal: N ter 66.9 0.74 1.6E-05 30.9 -1.9 17 52-68 41-57 (67)
10 PF01535 PPR: PPR repeat; Int 66.1 6.1 0.00013 20.4 2.0 27 42-68 3-29 (31)
11 PRK10747 putative protoheme IX 64.6 87 0.0019 26.5 10.7 102 7-114 195-305 (398)
12 cd05513 Bromo_brd7_like Bromod 63.1 5.2 0.00011 28.1 1.7 29 1-29 42-70 (98)
13 PF10607 CLTH: CTLH/CRA C-term 58.9 63 0.0014 23.0 8.1 112 4-118 6-122 (145)
14 cd05503 Bromo_BAZ2A_B_like Bro 58.1 6.9 0.00015 27.1 1.6 29 1-29 41-69 (97)
15 cd05505 Bromo_WSTF_like Bromod 57.6 7.1 0.00015 27.3 1.6 29 1-29 41-69 (97)
16 cd05498 Bromo_Brdt_II_like Bro 57.4 7.3 0.00016 27.0 1.7 29 1-29 46-74 (102)
17 cd05507 Bromo_brd8_like Bromod 57.4 7.5 0.00016 27.4 1.7 29 1-29 44-72 (104)
18 KOG1861 Leucine permease trans 57.0 1.6E+02 0.0035 27.1 11.1 115 7-125 356-470 (540)
19 cd05506 Bromo_plant1 Bromodoma 55.8 8.4 0.00018 26.5 1.7 29 1-29 43-71 (99)
20 cd05495 Bromo_cbp_like Bromodo 54.6 8.8 0.00019 27.3 1.7 29 1-29 47-75 (108)
21 cd05501 Bromo_SP100C_like Brom 54.2 8.9 0.00019 27.4 1.7 29 1-29 41-69 (102)
22 TIGR02795 tol_pal_ybgF tol-pal 53.9 59 0.0013 21.1 7.3 89 3-94 6-95 (119)
23 cd05518 Bromo_polybromo_IV Bro 52.8 9.4 0.0002 27.0 1.6 29 1-29 47-75 (103)
24 cd05520 Bromo_polybromo_III Br 52.7 9.3 0.0002 27.0 1.6 29 1-29 47-75 (103)
25 cd05497 Bromo_Brdt_I_like Brom 50.9 10 0.00022 26.9 1.6 29 1-29 48-76 (107)
26 cd05509 Bromo_gcn5_like Bromod 50.9 11 0.00024 25.9 1.8 29 1-29 42-70 (101)
27 cd05516 Bromo_SNF2L2 Bromodoma 50.8 11 0.00023 26.8 1.6 29 1-29 48-76 (107)
28 cd05512 Bromo_brd1_like Bromod 50.6 12 0.00025 26.2 1.8 29 1-29 42-70 (98)
29 cd05508 Bromo_RACK7 Bromodomai 50.3 12 0.00025 26.4 1.8 29 1-29 43-71 (99)
30 cd05504 Bromo_Acf1_like Bromod 49.4 11 0.00025 27.0 1.6 29 1-29 53-81 (115)
31 cd05519 Bromo_SNF2 Bromodomain 47.7 13 0.00028 26.0 1.6 29 1-29 47-75 (103)
32 cd05510 Bromo_SPT7_like Bromod 47.5 13 0.00029 26.7 1.7 29 1-29 49-77 (112)
33 cd05525 Bromo_ASH1 Bromodomain 46.2 14 0.00029 26.3 1.6 29 1-29 49-77 (106)
34 cd05500 Bromo_BDF1_2_I Bromodo 45.7 15 0.00032 25.7 1.7 29 1-29 47-75 (103)
35 cd05492 Bromo_ZMYND11 Bromodom 45.5 15 0.00032 26.5 1.7 29 1-29 47-75 (109)
36 cd05517 Bromo_polybromo_II Bro 45.3 14 0.00031 26.0 1.6 29 1-29 47-75 (103)
37 smart00668 CTLH C-terminal to 45.2 59 0.0013 19.4 4.2 27 3-29 5-31 (58)
38 cd05515 Bromo_polybromo_V Brom 44.2 15 0.00034 25.8 1.6 29 1-29 47-75 (105)
39 cd04369 Bromodomain Bromodomai 43.6 17 0.00037 23.5 1.7 29 1-29 43-71 (99)
40 PF03704 BTAD: Bacterial trans 43.1 1.2E+02 0.0025 21.4 6.7 59 7-71 70-128 (146)
41 cd05511 Bromo_TFIID Bromodomai 42.4 18 0.00039 25.8 1.7 29 1-29 41-69 (112)
42 PF11827 DUF3347: Protein of u 41.9 41 0.00089 25.9 3.8 85 42-131 50-142 (174)
43 cd05524 Bromo_polybromo_I Brom 41.4 17 0.00038 26.0 1.6 29 1-29 49-77 (113)
44 PF13041 PPR_2: PPR repeat fam 41.4 34 0.00074 20.0 2.6 31 38-68 2-32 (50)
45 cd05528 Bromo_AAA Bromodomain; 40.8 20 0.00043 25.7 1.8 29 1-29 44-72 (112)
46 cd05522 Bromo_Rsc1_2_II Bromod 40.4 19 0.00042 25.3 1.6 29 1-29 48-76 (104)
47 cd05499 Bromo_BDF1_2_II Bromod 40.4 20 0.00043 24.8 1.7 29 1-29 46-74 (102)
48 TIGR00756 PPR pentatricopeptid 40.0 34 0.00073 17.5 2.3 26 42-67 3-28 (35)
49 KOG0775 Transcription factor S 39.3 1.3E+02 0.0028 25.8 6.5 75 14-114 62-138 (304)
50 PF09976 TPR_21: Tetratricopep 39.0 1.4E+02 0.003 21.2 10.3 99 3-111 15-124 (145)
51 cd05496 Bromo_WDR9_II Bromodom 38.5 21 0.00046 26.0 1.6 29 1-29 46-74 (119)
52 PF13525 YfiO: Outer membrane 38.5 1.8E+02 0.0038 22.2 8.8 118 4-124 10-146 (203)
53 PRK10564 maltose regulon perip 38.2 36 0.00079 29.0 3.2 32 4-39 262-293 (303)
54 cd05529 Bromo_WDR9_I_like Brom 37.5 23 0.0005 25.9 1.7 29 1-29 69-97 (128)
55 PF10108 DNA_pol_B_exo2: Predi 37.1 1.1E+02 0.0025 24.5 5.7 48 1-60 134-181 (209)
56 PF00439 Bromodomain: Bromodom 36.3 21 0.00046 23.0 1.3 29 1-29 37-65 (84)
57 KOG2378 cAMP-regulated guanine 35.8 27 0.0006 31.8 2.2 61 13-88 411-471 (573)
58 PLN03081 pentatricopeptide (PP 34.7 2.8E+02 0.0061 25.1 8.5 95 6-106 398-493 (697)
59 smart00297 BROMO bromo domain. 34.5 28 0.00061 23.6 1.7 29 1-29 48-76 (107)
60 PF12536 DUF3734: Patatin phos 34.3 40 0.00087 24.0 2.5 26 58-84 24-49 (108)
61 COG2956 Predicted N-acetylgluc 32.0 2.1E+02 0.0046 25.3 6.9 85 11-100 153-239 (389)
62 PF08771 Rapamycin_bind: Rapam 31.5 1.9E+02 0.004 20.3 7.7 71 10-88 25-95 (100)
63 PF08097 Toxin_26: Conotoxin T 30.9 17 0.00037 16.2 0.1 6 127-132 2-7 (11)
64 PF08898 DUF1843: Domain of un 28.9 97 0.0021 20.0 3.3 25 5-29 6-30 (53)
65 PF08727 P3A: Poliovirus 3A pr 28.8 39 0.00085 22.1 1.5 26 4-29 18-43 (57)
66 COG2909 MalT ATP-dependent tra 28.0 1.2E+02 0.0026 29.6 5.1 57 1-77 362-418 (894)
67 PF12169 DNA_pol3_gamma3: DNA 27.9 87 0.0019 22.2 3.4 41 79-119 18-59 (143)
68 PF02847 MA3: MA3 domain; Int 27.5 1.2E+02 0.0026 20.5 4.0 34 15-55 78-111 (113)
69 PLN03081 pentatricopeptide (PP 25.7 2E+02 0.0044 26.0 6.1 34 33-67 153-186 (697)
70 PLN02407 diphosphomevalonate d 24.6 58 0.0013 28.2 2.2 27 2-28 236-262 (343)
71 cd05502 Bromo_tif1_like Bromod 24.2 53 0.0011 23.0 1.7 29 1-29 44-75 (109)
72 PLN03218 maturation of RBCL 1; 24.2 6.6E+02 0.014 24.9 9.5 57 6-67 514-570 (1060)
73 cd03569 VHS_Hrs_Vps27p VHS dom 23.7 2.1E+02 0.0045 21.2 4.8 68 56-126 41-109 (142)
74 PRK10866 outer membrane biogen 23.0 3.9E+02 0.0084 21.2 7.3 76 4-85 37-115 (243)
75 PF08482 HrpB_C: ATP-dependent 22.1 68 0.0015 24.2 1.9 24 83-106 105-132 (133)
76 cd03199 GST_C_GRX2 GST_C famil 21.6 2.3E+02 0.005 21.1 4.7 54 64-117 57-122 (128)
77 PF14276 DUF4363: Domain of un 21.1 2E+02 0.0043 20.2 4.2 61 3-73 32-92 (121)
78 PLN03218 maturation of RBCL 1; 21.1 2.2E+02 0.0048 28.1 5.6 59 6-67 549-607 (1060)
79 PF13812 PPR_3: Pentatricopept 21.1 1.4E+02 0.003 15.3 3.0 23 5-27 7-29 (34)
80 PF11159 DUF2939: Protein of u 21.1 1.9E+02 0.0041 19.6 3.9 41 78-121 16-56 (95)
81 COG2317 Zn-dependent carboxype 21.1 1.5E+02 0.0032 27.2 4.1 24 2-25 437-460 (497)
82 KOG0019 Molecular chaperone (H 20.7 43 0.00094 31.4 0.8 43 48-108 232-274 (656)
No 1
>KOG4414 consensus COP9 signalosome, subunit CSN8 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=100.00 E-value=7.1e-49 Score=300.85 Aligned_cols=127 Identities=50% Similarity=0.993 Sum_probs=124.9
Q ss_pred CCchhHHHHHhccCHHHHHHHHHHHhhhhhhcCCcCCCchhHHHHHHHHHHhhcchhHHHHHhhCChhhhhccHHHHHHH
Q 032786 1 MDFSPLTDALASKSYEKIADICDDLMLKVAAEGIVFQDEWPYVIHLLGYYYVNDINSARFLWKSIPSTIKDSRAEVVAAW 80 (133)
Q Consensus 1 m~~~~i~~~~a~~~~~~l~~~cE~~EL~~~~~G~a~~~~~~Ya~~Ll~yLl~nDL~~AR~LwKRIP~~lk~~~~el~~iw 80 (133)
||.+.+.+++++++|+|++++||++||++++.|++++++|||++||++|+|.||.+||||||||||..||+.+||+.++|
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 99999999999999999999999999998767999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHccChHHHHHHhhCCCCCHHHHHHHHHHHhchhhhhhhhhc
Q 032786 81 KIGQHLWTRDYAGVYDAIRGFDWSQEAQALVAAFSGNSTPRGCFSCF 127 (133)
Q Consensus 81 ~l~~alW~rdy~~vy~al~~~~Ws~~~~~lv~~l~~~~r~rt~~L~~ 127 (133)
.|||.+|||||+|||++|++++||+.++++|++|++.+|+|.|.||.
T Consensus 81 giGQkiWq~Df~GiYeaI~~~dWSeeak~imaAf~D~~~kR~FaLl~ 127 (197)
T KOG4414|consen 81 GIGQKIWQHDFAGIYEAINAHDWSEEAKDIMAAFRDATRKRAFALLL 127 (197)
T ss_pred hhhHHHHhcccchHHHHHhhhcchHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999985
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=4.1e-23 Score=153.12 Aligned_cols=88 Identities=34% Similarity=0.651 Sum_probs=77.5
Q ss_pred hhHHHHHHHHHHhhcchhHHHHHhhCChhhhhccHHHHHHHHHHHHHHccChHHHHHHhhCCCCCHHHHHHHHHHHhchh
Q 032786 40 WPYVIHLLGYYYVNDINSARFLWKSIPSTIKDSRAEVVAAWKIGQHLWTRDYAGVYDAIRGFDWSQEAQALVAAFSGNST 119 (133)
Q Consensus 40 ~~Ya~~Ll~yLl~nDL~~AR~LwKRIP~~lk~~~~el~~iw~l~~alW~rdy~~vy~al~~~~Ws~~~~~lv~~l~~~~r 119 (133)
.+|+.+|+.||++||+++||++|+|||+++++.||+++++|.|++++|+++|++||.++++.+|++.++++|..|.+.+|
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 hhhhhhhc
Q 032786 120 PRGCFSCF 127 (133)
Q Consensus 120 ~rt~~L~~ 127 (133)
++++.++-
T Consensus 85 ~~i~~~i~ 92 (143)
T PF10075_consen 85 ERIAHLIS 92 (143)
T ss_dssp HHHHHHHH
T ss_pred HHHHHHHH
Confidence 99999874
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=96.88 E-value=0.0053 Score=46.84 Aligned_cols=86 Identities=19% Similarity=0.109 Sum_probs=65.5
Q ss_pred hhHHHHHHHHHHhhcchhHHHHHhhCChhhhhccHHHHHHHHHHHHHHccChHHHHHHhhCCCCCHHHHHHHHHHHhchh
Q 032786 40 WPYVIHLLGYYYVNDINSARFLWKSIPSTIKDSRAEVVAAWKIGQHLWTRDYAGVYDAIRGFDWSQEAQALVAAFSGNST 119 (133)
Q Consensus 40 ~~Ya~~Ll~yLl~nDL~~AR~LwKRIP~~lk~~~~el~~iw~l~~alW~rdy~~vy~al~~~~Ws~~~~~lv~~l~~~~r 119 (133)
-+.+-+|+.+|.+|+..+.-.....+|++++ .+|.++-+-.|.+++.+.||..+++.+++.+=+...+.++..+.+..|
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 4566666666668877777778888999988 479999999999999999999999999666788889999999999999
Q ss_pred hhhhhhh
Q 032786 120 PRGCFSC 126 (133)
Q Consensus 120 ~rt~~L~ 126 (133)
.+++.-+
T Consensus 179 ~~al~~i 185 (204)
T PF03399_consen 179 LRALQSI 185 (204)
T ss_dssp HHHHHHH
T ss_pred HHHHHHH
Confidence 9988754
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=92.17 E-value=0.97 Score=27.91 Aligned_cols=66 Identities=11% Similarity=0.148 Sum_probs=49.2
Q ss_pred HHhccCHHHHHHHHHHHhhhhhhcCCcCCCchhHHHHHHHHHHhhcchhHHHHHhhCChhhhhccHHHHHHHH
Q 032786 9 ALASKSYEKIADICDDLMLKVAAEGIVFQDEWPYVIHLLGYYYVNDINSARFLWKSIPSTIKDSRAEVVAAWK 81 (133)
Q Consensus 9 ~~a~~~~~~l~~~cE~~EL~~~~~G~a~~~~~~Ya~~Ll~yLl~nDL~~AR~LwKRIP~~lk~~~~el~~iw~ 81 (133)
+++.|+|++-+..+++.--. .|+ +.-.+..+--+|+-.++...|+-++++++..-.. +|++..++.
T Consensus 1 ll~~~~~~~A~~~~~~~l~~-~p~-----~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~-~~~~~~l~a 66 (68)
T PF14559_consen 1 LLKQGDYDEAIELLEKALQR-NPD-----NPEARLLLAQCYLKQGQYDEAEELLERLLKQDPD-NPEYQQLLA 66 (68)
T ss_dssp HHHTTHHHHHHHHHHHHHHH-TTT-----SHHHHHHHHHHHHHTT-HHHHHHHHHCCHGGGTT-HHHHHHHHH
T ss_pred ChhccCHHHHHHHHHHHHHH-CCC-----CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcC-HHHHHHHHh
Confidence 57899999999999887433 222 1124566777889999999999999999999885 577776654
No 5
>KOG3151 consensus 26S proteasome regulatory complex, subunit RPN12/PSMD8 [Posttranslational modification, protein turnover, chaperones]
Probab=87.49 E-value=3.5 Score=34.29 Aligned_cols=81 Identities=16% Similarity=0.115 Sum_probs=71.5
Q ss_pred hhHHHHHHHHHHhhcchhHHHHHhhCChhhhhccHHHHHHHHHHHHHHccChHHHHHHhhCCCCCHHHHHHHHHHHhchh
Q 032786 40 WPYVIHLLGYYYVNDINSARFLWKSIPSTIKDSRAEVVAAWKIGQHLWTRDYAGVYDAIRGFDWSQEAQALVAAFSGNST 119 (133)
Q Consensus 40 ~~Ya~~Ll~yLl~nDL~~AR~LwKRIP~~lk~~~~el~~iw~l~~alW~rdy~~vy~al~~~~Ws~~~~~lv~~l~~~~r 119 (133)
..-+.+|+-.|-+|.+.+=+....++|..+++.+|-+.-.-++-|.+=...|..|+.+.++.+ ++...-+|.-+.+-.|
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 456778888888999999999999999999999999999999999999999999999999888 7777777777777666
Q ss_pred hh
Q 032786 120 PR 121 (133)
Q Consensus 120 ~r 121 (133)
+.
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=80.95 E-value=20 Score=31.69 Aligned_cols=103 Identities=17% Similarity=0.258 Sum_probs=64.7
Q ss_pred HHHHHhccCHHHHHHHHHHHhhhhhhcCCcCCCc------hhHHHHHHHHHHhhcchhHHHHHhhCChhhhhccHHHHHH
Q 032786 6 LTDALASKSYEKIADICDDLMLKVAAEGIVFQDE------WPYVIHLLGYYYVNDINSARFLWKSIPSTIKDSRAEVVAA 79 (133)
Q Consensus 6 i~~~~a~~~~~~l~~~cE~~EL~~~~~G~a~~~~------~~Ya~~Ll~yLl~nDL~~AR~LwKRIP~~lk~~~~el~~i 79 (133)
.+.++..|++..+....++++=. |.-+.+. +-|--.|==--=.+|..+=+--||++|.++| ++|+++..
T Consensus 194 ~r~y~~~g~~~~ll~~l~~L~ka----~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~~~pr~lr-~~p~l~~~ 268 (400)
T COG3071 194 LRAYIRLGAWQALLAILPKLRKA----GLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWKNQPRKLR-NDPELVVA 268 (400)
T ss_pred HHHHHHhccHHHHHHHHHHHHHc----cCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHHhccHHhh-cChhHHHH
Confidence 56789999999999999887732 3222222 1111111000112344455678999999999 57999887
Q ss_pred HHHHHHHHccChHHHHHHhhC---CCCCHHHHHHHHHH
Q 032786 80 WKIGQHLWTRDYAGVYDAIRG---FDWSQEAQALVAAF 114 (133)
Q Consensus 80 w~l~~alW~rdy~~vy~al~~---~~Ws~~~~~lv~~l 114 (133)
.. -+.+--+++...++.+.. ..|.+.+--++..+
T Consensus 269 ~a-~~li~l~~~~~A~~~i~~~Lk~~~D~~L~~~~~~l 305 (400)
T COG3071 269 YA-ERLIRLGDHDEAQEIIEDALKRQWDPRLCRLIPRL 305 (400)
T ss_pred HH-HHHHHcCChHHHHHHHHHHHHhccChhHHHHHhhc
Confidence 76 566677788876665543 46777765555444
No 7
>PF12854 PPR_1: PPR repeat
Probab=75.04 E-value=4.8 Score=22.66 Aligned_cols=30 Identities=20% Similarity=0.279 Sum_probs=27.1
Q ss_pred CCchhHHHHHHHHHHhhcchhHHHHHhhCC
Q 032786 37 QDEWPYVIHLLGYYYVNDINSARFLWKSIP 66 (133)
Q Consensus 37 ~~~~~Ya~~Ll~yLl~nDL~~AR~LwKRIP 66 (133)
|+..-|..++-+|-=.+++.+|.-+.+++|
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 566779999999999999999999998875
No 8
>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A.
Probab=73.13 E-value=17 Score=29.36 Aligned_cols=111 Identities=11% Similarity=0.064 Sum_probs=73.9
Q ss_pred HHhccCHHHHHHHHHHHhhhhhhcCC-cCCCchhHHHHHHHHHHhhcchhHHHHHhhCC---hhhhhccHHHHHHHHHHH
Q 032786 9 ALASKSYEKIADICDDLMLKVAAEGI-VFQDEWPYVIHLLGYYYVNDINSARFLWKSIP---STIKDSRAEVVAAWKIGQ 84 (133)
Q Consensus 9 ~~a~~~~~~l~~~cE~~EL~~~~~G~-a~~~~~~Ya~~Ll~yLl~nDL~~AR~LwKRIP---~~lk~~~~el~~iw~l~~ 84 (133)
.+..|+|++-+...|+.--....++. .+.-.-+|-.-++.||..+|...|+-.+.|.= +.... ..|-+-+-.|..
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 45678899988888775432211111 11001245667889999999999999999843 34553 589999999999
Q ss_pred HHHccChHHHHHHhhCCCCCHHHHHHHHHHHhchhh
Q 032786 85 HLWTRDYAGVYDAIRGFDWSQEAQALVAAFSGNSTP 120 (133)
Q Consensus 85 alW~rdy~~vy~al~~~~Ws~~~~~lv~~l~~~~r~ 120 (133)
+.=++|-..+=++++.++=-..+.+.++.+.-+.++
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 999999999999998877666777766666555443
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=66.91 E-value=0.74 Score=30.90 Aligned_cols=17 Identities=29% Similarity=0.772 Sum_probs=12.0
Q ss_pred hhcchhHHHHHhhCChh
Q 032786 52 VNDINSARFLWKSIPST 68 (133)
Q Consensus 52 ~nDL~~AR~LwKRIP~~ 68 (133)
.+-..||||+|.|||-.
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 46778999999999953
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=66.12 E-value=6.1 Score=20.38 Aligned_cols=27 Identities=15% Similarity=0.290 Sum_probs=24.1
Q ss_pred HHHHHHHHHHhhcchhHHHHHhhCChh
Q 032786 42 YVIHLLGYYYVNDINSARFLWKSIPST 68 (133)
Q Consensus 42 Ya~~Ll~yLl~nDL~~AR~LwKRIP~~ 68 (133)
|..++-+|--.++...|.-+++++++.
T Consensus 3 y~~li~~~~~~~~~~~a~~~~~~M~~~ 29 (31)
T PF01535_consen 3 YNSLISGYCKMGQFEEALEVFDEMRER 29 (31)
T ss_pred HHHHHHHHHccchHHHHHHHHHHHhHC
Confidence 888999999999999999999998763
No 11
>PRK10747 putative protoheme IX biogenesis protein; Provisional
Probab=64.59 E-value=87 Score=26.48 Aligned_cols=102 Identities=8% Similarity=0.079 Sum_probs=62.9
Q ss_pred HHHHhccCHHHHHHHHHHHhhhhhhcCCcCCCc------hhHHHHHHHHHHhhcchhHHHHHhhCChhhhhccHHHHHHH
Q 032786 7 TDALASKSYEKIADICDDLMLKVAAEGIVFQDE------WPYVIHLLGYYYVNDINSARFLWKSIPSTIKDSRAEVVAAW 80 (133)
Q Consensus 7 ~~~~a~~~~~~l~~~cE~~EL~~~~~G~a~~~~------~~Ya~~Ll~yLl~nDL~~AR~LwKRIP~~lk~~~~el~~iw 80 (133)
...+..||+++....++.++=.. ...++. ..|..++....-..|.....-+|+.+|...++ +|++....
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 45567788888887777766331 111111 23455555555667788899999999999984 67777665
Q ss_pred HHHHHHHccChHHHHHHhhC---CCCCHHHHHHHHHH
Q 032786 81 KIGQHLWTRDYAGVYDAIRG---FDWSQEAQALVAAF 114 (133)
Q Consensus 81 ~l~~alW~rdy~~vy~al~~---~~Ws~~~~~lv~~l 114 (133)
.-.. +-..++....+.++. .+|.+.+..+-..+
T Consensus 270 A~~l-~~~g~~~~A~~~L~~~l~~~~~~~l~~l~~~l 305 (398)
T PRK10747 270 AEHL-IECDDHDTAQQIILDGLKRQYDERLVLLIPRL 305 (398)
T ss_pred HHHH-HHCCCHHHHHHHHHHHHhcCCCHHHHHHHhhc
Confidence 4333 344566665544432 56777655544443
No 12
>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=63.07 E-value=5.2 Score=28.13 Aligned_cols=29 Identities=31% Similarity=0.635 Sum_probs=27.8
Q ss_pred CCchhHHHHHhccCHHHHHHHHHHHhhhh
Q 032786 1 MDFSPLTDALASKSYEKIADICDDLMLKV 29 (133)
Q Consensus 1 m~~~~i~~~~a~~~~~~l~~~cE~~EL~~ 29 (133)
|||+.|+.-+.++.|..+.+++++.+|-.
T Consensus 42 mDL~tI~~kl~~~~Y~s~~~f~~D~~li~ 70 (98)
T cd05513 42 MDFSTMKEKIKNNDYQSIEEFKDDFKLMC 70 (98)
T ss_pred cCHHHHHHHHhCCCCCCHHHHHHHHHHHH
Confidence 89999999999999999999999999885
No 13
>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=58.92 E-value=63 Score=23.02 Aligned_cols=112 Identities=7% Similarity=-0.018 Sum_probs=65.9
Q ss_pred hhHHHHHhccCHHHHHHHHHHHhhhhhhcCCcCCCchhHHHHHHHHHHhhcchhHHHH-HhhCChhhhhccHHHHHHHHH
Q 032786 4 SPLTDALASKSYEKIADICDDLMLKVAAEGIVFQDEWPYVIHLLGYYYVNDINSARFL-WKSIPSTIKDSRAEVVAAWKI 82 (133)
Q Consensus 4 ~~i~~~~a~~~~~~l~~~cE~~EL~~~~~G~a~~~~~~Ya~~Ll~yLl~nDL~~AR~L-wKRIP~~lk~~~~el~~iw~l 82 (133)
..|.++|..||.+....+|++..-.....+....= --+.+.++-.+-.+|+.+|=-. -+.+...-++...+++.+.++
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 47899999999999999999887554323322211 2355556666667898888433 334432222244677777666
Q ss_pred HHHHHccChH----HHHHHhhCCCCCHHHHHHHHHHHhch
Q 032786 83 GQHLWTRDYA----GVYDAIRGFDWSQEAQALVAAFSGNS 118 (133)
Q Consensus 83 ~~alW~rdy~----~vy~al~~~~Ws~~~~~lv~~l~~~~ 118 (133)
. ++...-. .+...+....|...+..+..++...+
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 3544332 33334433346666666666555544
No 14
>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=58.10 E-value=6.9 Score=27.09 Aligned_cols=29 Identities=31% Similarity=0.627 Sum_probs=27.7
Q ss_pred CCchhHHHHHhccCHHHHHHHHHHHhhhh
Q 032786 1 MDFSPLTDALASKSYEKIADICDDLMLKV 29 (133)
Q Consensus 1 m~~~~i~~~~a~~~~~~l~~~cE~~EL~~ 29 (133)
|||+.|++-+.+|.|..+.++++++.|-.
T Consensus 41 mdL~tI~~kl~~~~Y~s~~ef~~D~~li~ 69 (97)
T cd05503 41 MDFSTIREKLESGQYKTLEEFAEDVRLVF 69 (97)
T ss_pred CCHHHHHHHHccCCCCCHHHHHHHHHHHH
Confidence 89999999999999999999999999985
No 15
>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=57.60 E-value=7.1 Score=27.31 Aligned_cols=29 Identities=24% Similarity=0.471 Sum_probs=27.8
Q ss_pred CCchhHHHHHhccCHHHHHHHHHHHhhhh
Q 032786 1 MDFSPLTDALASKSYEKIADICDDLMLKV 29 (133)
Q Consensus 1 m~~~~i~~~~a~~~~~~l~~~cE~~EL~~ 29 (133)
||++.|+.-+.+|.|..+.+++++.+|-.
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 16
>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=57.40 E-value=7.3 Score=26.95 Aligned_cols=29 Identities=24% Similarity=0.489 Sum_probs=27.5
Q ss_pred CCchhHHHHHhccCHHHHHHHHHHHhhhh
Q 032786 1 MDFSPLTDALASKSYEKIADICDDLMLKV 29 (133)
Q Consensus 1 m~~~~i~~~~a~~~~~~l~~~cE~~EL~~ 29 (133)
||++.|..-+.+|.|..+.++..+..|-.
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 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=57.36 E-value=7.5 Score=27.36 Aligned_cols=29 Identities=21% Similarity=0.405 Sum_probs=27.8
Q ss_pred CCchhHHHHHhccCHHHHHHHHHHHhhhh
Q 032786 1 MDFSPLTDALASKSYEKIADICDDLMLKV 29 (133)
Q Consensus 1 m~~~~i~~~~a~~~~~~l~~~cE~~EL~~ 29 (133)
|||+.|+.=+.+|.|..+.++..+..|-.
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
>KOG1861 consensus Leucine permease transcriptional regulator [Transcription]
Probab=56.99 E-value=1.6e+02 Score=27.06 Aligned_cols=115 Identities=14% Similarity=0.085 Sum_probs=79.2
Q ss_pred HHHHhccCHHHHHHHHHHHhhhhhhcCCcCCCchhHHHHHHHHHHhhcchhHHHHHhhCChhhhhccHHHHHHHHHHHHH
Q 032786 7 TDALASKSYEKIADICDDLMLKVAAEGIVFQDEWPYVIHLLGYYYVNDINSARFLWKSIPSTIKDSRAEVVAAWKIGQHL 86 (133)
Q Consensus 7 ~~~~a~~~~~~l~~~cE~~EL~~~~~G~a~~~~~~Ya~~Ll~yLl~nDL~~AR~LwKRIP~~lk~~~~el~~iw~l~~al 86 (133)
+=+++.||-++-=+.--.+..-- +-|+..-..-|-+-=+|-|++..+-.+=--|..++-+++|+ |+-+..+.+|-.++
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 44778888776543322333222 23332222223444455667777777777889999999996 79999999998888
Q ss_pred HccChHHHHHHhhCCCCCHHHHHHHHHHHhchhhhhhhh
Q 032786 87 WTRDYAGVYDAIRGFDWSQEAQALVAAFSGNSTPRGCFS 125 (133)
Q Consensus 87 W~rdy~~vy~al~~~~Ws~~~~~lv~~l~~~~r~rt~~L 125 (133)
-..||-.+|..-.. =+-.-.-||.-|.|.-|.+.+..
T Consensus 434 ~~GNY~kFFrLY~~--AP~M~~yLmdlF~erER~~Al~i 470 (540)
T KOG1861|consen 434 TLGNYHKFFRLYLT--APNMSGYLMDLFLERERKKALTI 470 (540)
T ss_pred HhccHHHHHHHHhh--cccchhHHHHHHHHHHHHHHHHH
Confidence 88999999998875 34455678888988888877654
No 19
>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=55.81 E-value=8.4 Score=26.45 Aligned_cols=29 Identities=21% Similarity=0.405 Sum_probs=27.4
Q ss_pred CCchhHHHHHhccCHHHHHHHHHHHhhhh
Q 032786 1 MDFSPLTDALASKSYEKIADICDDLMLKV 29 (133)
Q Consensus 1 m~~~~i~~~~a~~~~~~l~~~cE~~EL~~ 29 (133)
|||+.|++-+..|.|..+.++.+++.+--
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 20
>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=54.65 E-value=8.8 Score=27.28 Aligned_cols=29 Identities=28% Similarity=0.419 Sum_probs=27.7
Q ss_pred CCchhHHHHHhccCHHHHHHHHHHHhhhh
Q 032786 1 MDFSPLTDALASKSYEKIADICDDLMLKV 29 (133)
Q Consensus 1 m~~~~i~~~~a~~~~~~l~~~cE~~EL~~ 29 (133)
|||+.|..=+.+|.|..+.+++.+.+|-.
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 21
>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=54.19 E-value=8.9 Score=27.44 Aligned_cols=29 Identities=17% Similarity=0.358 Sum_probs=27.8
Q ss_pred CCchhHHHHHhccCHHHHHHHHHHHhhhh
Q 032786 1 MDFSPLTDALASKSYEKIADICDDLMLKV 29 (133)
Q Consensus 1 m~~~~i~~~~a~~~~~~l~~~cE~~EL~~ 29 (133)
||++.|+.=+.+|.|..+.+++++..|.-
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 22
>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=53.87 E-value=59 Score=21.13 Aligned_cols=89 Identities=13% Similarity=0.089 Sum_probs=53.9
Q ss_pred chhHHHHHhccCHHHHHHHHHHHhhhhhhcCCcCCCchhHHHHHHHHHHhhcchhHHHHHhhCChhhhhccHHHHHHHHH
Q 032786 3 FSPLTDALASKSYEKIADICDDLMLKVAAEGIVFQDEWPYVIHLLGYYYVNDINSARFLWKSIPSTIKDSRAEVVAAWKI 82 (133)
Q Consensus 3 ~~~i~~~~a~~~~~~l~~~cE~~EL~~~~~G~a~~~~~~Ya~~Ll~yLl~nDL~~AR~LwKRIP~~lk~~~~el~~iw~l 82 (133)
+.....+...|+|++-...++...=. .++....++ .+-.+-.+|.-.++...|...++++...-............+
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 122221111 244566677778999999999998875444321112334555
Q ss_pred HHHHHc-cChHHH
Q 032786 83 GQHLWT-RDYAGV 94 (133)
Q Consensus 83 ~~alW~-rdy~~v 94 (133)
|.++.+ +++...
T Consensus 83 ~~~~~~~~~~~~A 95 (119)
T TIGR02795 83 GMSLQELGDKEKA 95 (119)
T ss_pred HHHHHHhCChHHH
Confidence 554442 344443
No 23
>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=52.84 E-value=9.4 Score=26.98 Aligned_cols=29 Identities=17% Similarity=0.442 Sum_probs=27.7
Q ss_pred CCchhHHHHHhccCHHHHHHHHHHHhhhh
Q 032786 1 MDFSPLTDALASKSYEKIADICDDLMLKV 29 (133)
Q Consensus 1 m~~~~i~~~~a~~~~~~l~~~cE~~EL~~ 29 (133)
|||+.|..-+..+.|..+.+++.+++|-.
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 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=52.73 E-value=9.3 Score=26.97 Aligned_cols=29 Identities=21% Similarity=0.421 Sum_probs=27.7
Q ss_pred CCchhHHHHHhccCHHHHHHHHHHHhhhh
Q 032786 1 MDFSPLTDALASKSYEKIADICDDLMLKV 29 (133)
Q Consensus 1 m~~~~i~~~~a~~~~~~l~~~cE~~EL~~ 29 (133)
|||+.|..-+..|.|..+.+++.+++|-.
T Consensus 47 mdL~tI~~kl~~~~Y~s~~~f~~D~~lm~ 75 (103)
T cd05520 47 ISLQQIRTKLKNGEYETLEELEADLNLMF 75 (103)
T ss_pred cCHHHHHHHHccCCCCCHHHHHHHHHHHH
Confidence 89999999999999999999999999985
No 25
>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=50.93 E-value=10 Score=26.92 Aligned_cols=29 Identities=17% Similarity=0.292 Sum_probs=27.7
Q ss_pred CCchhHHHHHhccCHHHHHHHHHHHhhhh
Q 032786 1 MDFSPLTDALASKSYEKIADICDDLMLKV 29 (133)
Q Consensus 1 m~~~~i~~~~a~~~~~~l~~~cE~~EL~~ 29 (133)
||++.|..-+.+|.|..+.++.++.+|-.
T Consensus 48 mDL~tI~~kL~~~~Y~s~~ef~~D~~li~ 76 (107)
T cd05497 48 MDLGTIKKRLENNYYWSASECIQDFNTMF 76 (107)
T ss_pred ccHHHHHHHHcCCCCCCHHHHHHHHHHHH
Confidence 89999999999999999999999999986
No 26
>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=50.92 E-value=11 Score=25.95 Aligned_cols=29 Identities=28% Similarity=0.480 Sum_probs=27.5
Q ss_pred CCchhHHHHHhccCHHHHHHHHHHHhhhh
Q 032786 1 MDFSPLTDALASKSYEKIADICDDLMLKV 29 (133)
Q Consensus 1 m~~~~i~~~~a~~~~~~l~~~cE~~EL~~ 29 (133)
|||+.|+.-+..|.|..+.++..+..+-.
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 27
>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=50.82 E-value=11 Score=26.77 Aligned_cols=29 Identities=24% Similarity=0.580 Sum_probs=27.6
Q ss_pred CCchhHHHHHhccCHHHHHHHHHHHhhhh
Q 032786 1 MDFSPLTDALASKSYEKIADICDDLMLKV 29 (133)
Q Consensus 1 m~~~~i~~~~a~~~~~~l~~~cE~~EL~~ 29 (133)
|||+.|..=+.+|.|..+.+++.+.+|-.
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 28
>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=50.57 E-value=12 Score=26.24 Aligned_cols=29 Identities=34% Similarity=0.592 Sum_probs=27.6
Q ss_pred CCchhHHHHHhccCHHHHHHHHHHHhhhh
Q 032786 1 MDFSPLTDALASKSYEKIADICDDLMLKV 29 (133)
Q Consensus 1 m~~~~i~~~~a~~~~~~l~~~cE~~EL~~ 29 (133)
||++.|..=+..+.|..+.++..+..|-.
T Consensus 42 mDL~tI~~kl~~~~Y~s~~ef~~D~~li~ 70 (98)
T cd05512 42 MDFSTMRKKLESQRYRTLEDFEADFNLII 70 (98)
T ss_pred cCHHHHHHHHhCCCCCCHHHHHHHHHHHH
Confidence 89999999999999999999999999985
No 29
>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=50.35 E-value=12 Score=26.42 Aligned_cols=29 Identities=24% Similarity=0.337 Sum_probs=27.8
Q ss_pred CCchhHHHHHhccCHHHHHHHHHHHhhhh
Q 032786 1 MDFSPLTDALASKSYEKIADICDDLMLKV 29 (133)
Q Consensus 1 m~~~~i~~~~a~~~~~~l~~~cE~~EL~~ 29 (133)
||++.|+.-+.+|.|..+-++.++..|-.
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 30
>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=49.45 E-value=11 Score=27.02 Aligned_cols=29 Identities=21% Similarity=0.413 Sum_probs=27.6
Q ss_pred CCchhHHHHHhccCHHHHHHHHHHHhhhh
Q 032786 1 MDFSPLTDALASKSYEKIADICDDLMLKV 29 (133)
Q Consensus 1 m~~~~i~~~~a~~~~~~l~~~cE~~EL~~ 29 (133)
|||+.|..-+..|.|..+.++..+..|..
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 31
>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=47.68 E-value=13 Score=25.97 Aligned_cols=29 Identities=10% Similarity=0.442 Sum_probs=27.6
Q ss_pred CCchhHHHHHhccCHHHHHHHHHHHhhhh
Q 032786 1 MDFSPLTDALASKSYEKIADICDDLMLKV 29 (133)
Q Consensus 1 m~~~~i~~~~a~~~~~~l~~~cE~~EL~~ 29 (133)
||++.|+.=+..|.|..+.+++.+++|-.
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 32
>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=47.55 E-value=13 Score=26.69 Aligned_cols=29 Identities=31% Similarity=0.453 Sum_probs=27.7
Q ss_pred CCchhHHHHHhccCHHHHHHHHHHHhhhh
Q 032786 1 MDFSPLTDALASKSYEKIADICDDLMLKV 29 (133)
Q Consensus 1 m~~~~i~~~~a~~~~~~l~~~cE~~EL~~ 29 (133)
|||+.|..-+.+|.|..+.++.++..|-.
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 33
>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=46.24 E-value=14 Score=26.34 Aligned_cols=29 Identities=14% Similarity=0.287 Sum_probs=27.6
Q ss_pred CCchhHHHHHhccCHHHHHHHHHHHhhhh
Q 032786 1 MDFSPLTDALASKSYEKIADICDDLMLKV 29 (133)
Q Consensus 1 m~~~~i~~~~a~~~~~~l~~~cE~~EL~~ 29 (133)
|||+.|+.=+..|.|..+-+++++++|-.
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 34
>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=45.65 E-value=15 Score=25.65 Aligned_cols=29 Identities=28% Similarity=0.500 Sum_probs=27.4
Q ss_pred CCchhHHHHHhccCHHHHHHHHHHHhhhh
Q 032786 1 MDFSPLTDALASKSYEKIADICDDLMLKV 29 (133)
Q Consensus 1 m~~~~i~~~~a~~~~~~l~~~cE~~EL~~ 29 (133)
|||+.|..-+..|.|..+.+++.+..+-.
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 35
>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=45.48 E-value=15 Score=26.52 Aligned_cols=29 Identities=17% Similarity=0.464 Sum_probs=27.6
Q ss_pred CCchhHHHHHhccCHHHHHHHHHHHhhhh
Q 032786 1 MDFSPLTDALASKSYEKIADICDDLMLKV 29 (133)
Q Consensus 1 m~~~~i~~~~a~~~~~~l~~~cE~~EL~~ 29 (133)
||++.|+.=|..|.|..+.++-.+..|-.
T Consensus 47 mDL~tI~~kl~~~~Y~s~~ef~~Dv~LI~ 75 (109)
T cd05492 47 LDVADIQEKINSEKYTSLEEFKADALLLL 75 (109)
T ss_pred CcHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence 99999999999999999999999999885
No 36
>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=45.33 E-value=14 Score=26.02 Aligned_cols=29 Identities=31% Similarity=0.511 Sum_probs=27.5
Q ss_pred CCchhHHHHHhccCHHHHHHHHHHHhhhh
Q 032786 1 MDFSPLTDALASKSYEKIADICDDLMLKV 29 (133)
Q Consensus 1 m~~~~i~~~~a~~~~~~l~~~cE~~EL~~ 29 (133)
|||+.|..-+.++.|..+.+++.+++|-.
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 37
>smart00668 CTLH C-terminal to LisH motif. Alpha-helical motif of unknown function.
Probab=45.16 E-value=59 Score=19.38 Aligned_cols=27 Identities=4% Similarity=0.114 Sum_probs=23.6
Q ss_pred chhHHHHHhccCHHHHHHHHHHHhhhh
Q 032786 3 FSPLTDALASKSYEKIADICDDLMLKV 29 (133)
Q Consensus 3 ~~~i~~~~a~~~~~~l~~~cE~~EL~~ 29 (133)
...|.++|..|++++....|++.....
T Consensus 5 ~~~i~~~i~~g~~~~a~~~~~~~~~~l 31 (58)
T smart00668 5 RKRIRELILKGDWDEALEWLSSLKPPL 31 (58)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHcCHHH
Confidence 457899999999999999999887764
No 38
>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=44.21 E-value=15 Score=25.77 Aligned_cols=29 Identities=17% Similarity=0.531 Sum_probs=27.4
Q ss_pred CCchhHHHHHhccCHHHHHHHHHHHhhhh
Q 032786 1 MDFSPLTDALASKSYEKIADICDDLMLKV 29 (133)
Q Consensus 1 m~~~~i~~~~a~~~~~~l~~~cE~~EL~~ 29 (133)
|||+.|..-+.++.|..+.+++.++.|-.
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 39
>cd04369 Bromodomain Bromodomain. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine.
Probab=43.62 E-value=17 Score=23.51 Aligned_cols=29 Identities=24% Similarity=0.449 Sum_probs=27.1
Q ss_pred CCchhHHHHHhccCHHHHHHHHHHHhhhh
Q 032786 1 MDFSPLTDALASKSYEKIADICDDLMLKV 29 (133)
Q Consensus 1 m~~~~i~~~~a~~~~~~l~~~cE~~EL~~ 29 (133)
||++.|..-+..|.|..+.++.++..+-.
T Consensus 43 ~~l~~I~~kl~~~~Y~s~~~f~~D~~li~ 71 (99)
T cd04369 43 MDLSTIKKKLKNGEYKSLEEFEADVRLIF 71 (99)
T ss_pred ccHHHHHHHHhcCCCCCHHHHHHHHHHHH
Confidence 89999999999999999999999999885
No 40
>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=43.11 E-value=1.2e+02 Score=21.38 Aligned_cols=59 Identities=12% Similarity=0.132 Sum_probs=44.4
Q ss_pred HHHHhccCHHHHHHHHHHHhhhhhhcCCcCCCchhHHHHHHHHHHhhcchhHHHHHhhCChhhhh
Q 032786 7 TDALASKSYEKIADICDDLMLKVAAEGIVFQDEWPYVIHLLGYYYVNDINSARFLWKSIPSTIKD 71 (133)
Q Consensus 7 ~~~~a~~~~~~l~~~cE~~EL~~~~~G~a~~~~~~Ya~~Ll~yLl~nDL~~AR~LwKRIP~~lk~ 71 (133)
...+..|++++....|+..--.- | -+...|..++-+|.-.++...|.-...+.=..+++
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 45667999999999998765331 1 23368999999999999999999988888777774
No 41
>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=42.36 E-value=18 Score=25.85 Aligned_cols=29 Identities=21% Similarity=0.479 Sum_probs=27.7
Q ss_pred CCchhHHHHHhccCHHHHHHHHHHHhhhh
Q 032786 1 MDFSPLTDALASKSYEKIADICDDLMLKV 29 (133)
Q Consensus 1 m~~~~i~~~~a~~~~~~l~~~cE~~EL~~ 29 (133)
||++.|..-+..|.|..+.++..+..|-.
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 42
>PF11827 DUF3347: Protein of unknown function (DUF3347); InterPro: IPR021782 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 169 to 570 amino acids in length.
Probab=41.88 E-value=41 Score=25.90 Aligned_cols=85 Identities=18% Similarity=0.225 Sum_probs=57.0
Q ss_pred HHHHHHHH--HHhhcchhHHHHHhhCChhhhhccHH------HHHHHHHHHHHHccChHHHHHHhhCCCCCHHHHHHHHH
Q 032786 42 YVIHLLGY--YYVNDINSARFLWKSIPSTIKDSRAE------VVAAWKIGQHLWTRDYAGVYDAIRGFDWSQEAQALVAA 113 (133)
Q Consensus 42 Ya~~Ll~y--Ll~nDL~~AR~LwKRIP~~lk~~~~e------l~~iw~l~~alW~rdy~~vy~al~~~~Ws~~~~~lv~~ 113 (133)
|..||.+. |..+|...|+---+.+-..++..+.. ...++.+...+=..|-...-++.. ..|+.+-.++..
T Consensus 50 ~~~Yl~lk~ALv~dd~~~a~~aA~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~di~~qR~~F~--~lS~~~~~l~~~ 127 (174)
T PF11827_consen 50 LNAYLALKDALVADDLKAAKAAAKALLAALKAVDMAELSASLAKALMEAAEDAKEHDIEHQREAFE--SLSEAMIDLVKA 127 (174)
T ss_pred HHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcccccccHHHHHHHHHHHHhhhhCCHHHHHHHHH--HHHHHHHHHHHh
Confidence 44554442 67889998888888887777765432 344555544433335565555553 577777777777
Q ss_pred HHhchhhhhhhhhccccc
Q 032786 114 FSGNSTPRGCFSCFCPLI 131 (133)
Q Consensus 114 l~~~~r~rt~~L~~~~~~ 131 (133)
+ ....++-.-|||..
T Consensus 128 ~---~~~~~ly~~~CPMa 142 (174)
T PF11827_consen 128 F---GSSGTLYVQYCPMA 142 (174)
T ss_pred c---CCCCcEEEEECCCc
Confidence 6 78889999999975
No 43
>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=41.43 E-value=17 Score=25.99 Aligned_cols=29 Identities=21% Similarity=0.535 Sum_probs=27.7
Q ss_pred CCchhHHHHHhccCHHHHHHHHHHHhhhh
Q 032786 1 MDFSPLTDALASKSYEKIADICDDLMLKV 29 (133)
Q Consensus 1 m~~~~i~~~~a~~~~~~l~~~cE~~EL~~ 29 (133)
|||+.|+.=+.++.|..+.++..+++|-.
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 44
>PF13041 PPR_2: PPR repeat family
Probab=41.35 E-value=34 Score=20.04 Aligned_cols=31 Identities=23% Similarity=0.310 Sum_probs=25.9
Q ss_pred CchhHHHHHHHHHHhhcchhHHHHHhhCChh
Q 032786 38 DEWPYVIHLLGYYYVNDINSARFLWKSIPST 68 (133)
Q Consensus 38 ~~~~Ya~~Ll~yLl~nDL~~AR~LwKRIP~~ 68 (133)
+..-|..++-+|.=.+++.+|.-+++++-..
T Consensus 2 ~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~ 32 (50)
T PF13041_consen 2 DVVTYNTLISGYCKAGKFEEALKLFKEMKKR 32 (50)
T ss_pred chHHHHHHHHHHHHCcCHHHHHHHHHHHHHc
Confidence 3445999999999999999999999887543
No 45
>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=40.80 E-value=20 Score=25.71 Aligned_cols=29 Identities=28% Similarity=0.434 Sum_probs=27.7
Q ss_pred CCchhHHHHHhccCHHHHHHHHHHHhhhh
Q 032786 1 MDFSPLTDALASKSYEKIADICDDLMLKV 29 (133)
Q Consensus 1 m~~~~i~~~~a~~~~~~l~~~cE~~EL~~ 29 (133)
||++.|..=+.+|.|..+.+++.+.+|-.
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 46
>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=40.36 E-value=19 Score=25.27 Aligned_cols=29 Identities=14% Similarity=0.385 Sum_probs=27.5
Q ss_pred CCchhHHHHHhccCHHHHHHHHHHHhhhh
Q 032786 1 MDFSPLTDALASKSYEKIADICDDLMLKV 29 (133)
Q Consensus 1 m~~~~i~~~~a~~~~~~l~~~cE~~EL~~ 29 (133)
|||+.|..-+..|.|..+.++.+++.|-.
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 47
>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=40.36 E-value=20 Score=24.84 Aligned_cols=29 Identities=21% Similarity=0.407 Sum_probs=27.3
Q ss_pred CCchhHHHHHhccCHHHHHHHHHHHhhhh
Q 032786 1 MDFSPLTDALASKSYEKIADICDDLMLKV 29 (133)
Q Consensus 1 m~~~~i~~~~a~~~~~~l~~~cE~~EL~~ 29 (133)
||++.|..-+..|.|..+.++..++.|-.
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 48
>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=40.03 E-value=34 Score=17.52 Aligned_cols=26 Identities=19% Similarity=0.232 Sum_probs=22.5
Q ss_pred HHHHHHHHHHhhcchhHHHHHhhCCh
Q 032786 42 YVIHLLGYYYVNDINSARFLWKSIPS 67 (133)
Q Consensus 42 Ya~~Ll~yLl~nDL~~AR~LwKRIP~ 67 (133)
|..++-+|.-.++..+|..+++++.+
T Consensus 3 ~n~li~~~~~~~~~~~a~~~~~~M~~ 28 (35)
T TIGR00756 3 YNTLIDGLCKAGRVEEALELFKEMLE 28 (35)
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 88889999999999999999988754
No 49
>KOG0775 consensus Transcription factor SIX and related HOX domain proteins [Transcription]
Probab=39.34 E-value=1.3e+02 Score=25.76 Aligned_cols=75 Identities=20% Similarity=0.430 Sum_probs=50.4
Q ss_pred CHHHHHHHHHHHhhhhhhcCCcCCCchhHHHHHHHHHHhhcchhHHHHHhhCC--hhhhhccHHHHHHHHHHHHHHccCh
Q 032786 14 SYEKIADICDDLMLKVAAEGIVFQDEWPYVIHLLGYYYVNDINSARFLWKSIP--STIKDSRAEVVAAWKIGQHLWTRDY 91 (133)
Q Consensus 14 ~~~~l~~~cE~~EL~~~~~G~a~~~~~~Ya~~Ll~yLl~nDL~~AR~LwKRIP--~~lk~~~~el~~iw~l~~alW~rdy 91 (133)
+-+.++.+||.++-. |. .+. =+||||. +| +.+..+...|++ -. ..+.-..+|
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 347799999988733 21 111 2799995 66 555543333333 33 334567899
Q ss_pred HHHHHHhhCCCCCHHHHHHHHHH
Q 032786 92 AGVYDAIRGFDWSQEAQALVAAF 114 (133)
Q Consensus 92 ~~vy~al~~~~Ws~~~~~lv~~l 114 (133)
...|.+|.+..+++.--+-.+++
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 50
>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function.
Probab=39.00 E-value=1.4e+02 Score=21.18 Aligned_cols=99 Identities=14% Similarity=0.186 Sum_probs=63.5
Q ss_pred chhHHHHHhccCHHHHHHHHHHHhhhhhhcCCcCCCchhHHHHH-----HHHHHhhcchhHHHHHhhCChhhhhccHHHH
Q 032786 3 FSPLTDALASKSYEKIADICDDLMLKVAAEGIVFQDEWPYVIHL-----LGYYYVNDINSARFLWKSIPSTIKDSRAEVV 77 (133)
Q Consensus 3 ~~~i~~~~a~~~~~~l~~~cE~~EL~~~~~G~a~~~~~~Ya~~L-----l~yLl~nDL~~AR~LwKRIP~~lk~~~~el~ 77 (133)
|..+...+..++.+++....+++.=.. ++ . +|+.+- -.+.-.+|+.+|.-.++.+...-+ ++.++
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 456667778999999888777776442 11 1 243332 234557999999999999988664 56666
Q ss_pred HHHH--HHHHH-HccChHHHHHHhhCC---CCCHHHHHHH
Q 032786 78 AAWK--IGQHL-WTRDYAGVYDAIRGF---DWSQEAQALV 111 (133)
Q Consensus 78 ~iw~--l~~al-W~rdy~~vy~al~~~---~Ws~~~~~lv 111 (133)
.+-. +++.+ -+.+|...-+.|+.. +|.+.+..+.
T Consensus 85 ~~a~l~LA~~~~~~~~~d~Al~~L~~~~~~~~~~~~~~~~ 124 (145)
T PF09976_consen 85 PLARLRLARILLQQGQYDEALATLQQIPDEAFKALAAELL 124 (145)
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHhccCcchHHHHHHHH
Confidence 4443 45444 356898888877653 3444444433
No 51
>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=38.53 E-value=21 Score=25.98 Aligned_cols=29 Identities=21% Similarity=0.436 Sum_probs=27.5
Q ss_pred CCchhHHHHHhccCHHHHHHHHHHHhhhh
Q 032786 1 MDFSPLTDALASKSYEKIADICDDLMLKV 29 (133)
Q Consensus 1 m~~~~i~~~~a~~~~~~l~~~cE~~EL~~ 29 (133)
|||+.|+.-|..|.|..+-++..++.|.-
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 52
>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A.
Probab=38.50 E-value=1.8e+02 Score=22.18 Aligned_cols=118 Identities=16% Similarity=0.243 Sum_probs=67.2
Q ss_pred hhHHHHHhccCHHHHHHHHHHHhhhhhhcCCcCCCchhHHHHHHHHHHhhcchhHHHHHhhCChhhhhccHHHHHHHHHH
Q 032786 4 SPLTDALASKSYEKIADICDDLMLKVAAEGIVFQDEWPYVIHLLGYYYVNDINSARFLWKSIPSTIKDSRAEVVAAWKIG 83 (133)
Q Consensus 4 ~~i~~~~a~~~~~~l~~~cE~~EL~~~~~G~a~~~~~~Ya~~Ll~yLl~nDL~~AR~LwKRIP~~lk~~~~el~~iw~l~ 83 (133)
..-...+..|+|++-+...+++.-.- |++.-.++- .-.+--+|.-.+|-.+|....+|.=..-..+.-.=.+...+|
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 34467889999999999999998663 443332222 222334567789999999888876555554322223445555
Q ss_pred HHHH---------ccChHHHHHHhhC----------CCCCHHHHHHHHHHHhchhhhhhh
Q 032786 84 QHLW---------TRDYAGVYDAIRG----------FDWSQEAQALVAAFSGNSTPRGCF 124 (133)
Q Consensus 84 ~alW---------~rdy~~vy~al~~----------~~Ws~~~~~lv~~l~~~~r~rt~~ 124 (133)
.+-. +||-..+-++++. .++.+.++..|..+.+..-++.+.
T Consensus 87 ~~~~~~~~~~~~~~~D~~~~~~A~~~~~~li~~yP~S~y~~~A~~~l~~l~~~la~~e~~ 146 (203)
T PF13525_consen 87 LSYYKQIPGILRSDRDQTSTRKAIEEFEELIKRYPNSEYAEEAKKRLAELRNRLAEHELY 146 (203)
T ss_dssp HHHHHHHHHHH-TT---HHHHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHhCccchhcccChHHHHHHHHHHHHHHHHCcCchHHHHHHHHHHHHHHHHHHHHHH
Confidence 5432 4555555555433 346666667777777666665543
No 53
>PRK10564 maltose regulon periplasmic protein; Provisional
Probab=38.24 E-value=36 Score=29.02 Aligned_cols=32 Identities=13% Similarity=0.146 Sum_probs=26.0
Q ss_pred hhHHHHHhccCHHHHHHHHHHHhhhhhhcCCcCCCc
Q 032786 4 SPLTDALASKSYEKIADICDDLMLKVAAEGIVFQDE 39 (133)
Q Consensus 4 ~~i~~~~a~~~~~~l~~~cE~~EL~~~~~G~a~~~~ 39 (133)
+.|++++++||++|-+...||.|=. |+..++.
T Consensus 262 ~aI~~AVk~gDi~KAL~LldEAe~L----G~~~Ar~ 293 (303)
T PRK10564 262 QAIKQAVKKGDVDKALKLLDEAERL----GSTSARS 293 (303)
T ss_pred HHHHHHHHcCCHHHHHHHHHHHHHh----CCchHHH
Confidence 6899999999999999999998833 5555443
No 54
>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=37.54 E-value=23 Score=25.89 Aligned_cols=29 Identities=21% Similarity=0.458 Sum_probs=27.4
Q ss_pred CCchhHHHHHhccCHHHHHHHHHHHhhhh
Q 032786 1 MDFSPLTDALASKSYEKIADICDDLMLKV 29 (133)
Q Consensus 1 m~~~~i~~~~a~~~~~~l~~~cE~~EL~~ 29 (133)
|||+.|+.-+..|.|..+.++..+..|-.
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 55
>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=37.07 E-value=1.1e+02 Score=24.52 Aligned_cols=48 Identities=15% Similarity=0.308 Sum_probs=36.3
Q ss_pred CCchhHHHHHhccCHHHHHHHHHHHhhhhhhcCCcCCCchhHHHHHHHHHHhhcchhHHH
Q 032786 1 MDFSPLTDALASKSYEKIADICDDLMLKVAAEGIVFQDEWPYVIHLLGYYYVNDINSARF 60 (133)
Q Consensus 1 m~~~~i~~~~a~~~~~~l~~~cE~~EL~~~~~G~a~~~~~~Ya~~Ll~yLl~nDL~~AR~ 60 (133)
||=+.|.++..+|+.++|...||.==|.. |..||=.-++.++|....|
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 56688999999999999999999644432 6677766677777665544
No 56
>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=36.32 E-value=21 Score=23.05 Aligned_cols=29 Identities=28% Similarity=0.463 Sum_probs=24.8
Q ss_pred CCchhHHHHHhccCHHHHHHHHHHHhhhh
Q 032786 1 MDFSPLTDALASKSYEKIADICDDLMLKV 29 (133)
Q Consensus 1 m~~~~i~~~~a~~~~~~l~~~cE~~EL~~ 29 (133)
||++.|+.-+..|.|..+-++-.+.++-.
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 89999999999999999999988888875
No 57
>KOG2378 consensus cAMP-regulated guanine nucleotide exchange factor [Signal transduction mechanisms]
Probab=35.77 E-value=27 Score=31.82 Aligned_cols=61 Identities=15% Similarity=0.212 Sum_probs=40.8
Q ss_pred cCHHHHHHHHHHHhhhhhhcCCcCCCchhHHHHHHHHHHhhcchhHHHHHhhCChhhhhccHHHHHHHHHHHHHHc
Q 032786 13 KSYEKIADICDDLMLKVAAEGIVFQDEWPYVIHLLGYYYVNDINSARFLWKSIPSTIKDSRAEVVAAWKIGQHLWT 88 (133)
Q Consensus 13 ~~~~~l~~~cE~~EL~~~~~G~a~~~~~~Ya~~Ll~yLl~nDL~~AR~LwKRIP~~lk~~~~el~~iw~l~~alW~ 88 (133)
++|.|++..|.+.+ +|. .+|++.+- |=+--+..+..-|+++|...|....++ |++.---|+
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 45777777777554 222 46888776 556667778889999999999765554 444444343
No 58
>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional
Probab=34.74 E-value=2.8e+02 Score=25.10 Aligned_cols=95 Identities=11% Similarity=0.125 Sum_probs=53.2
Q ss_pred HHHHHhccCHHHHHHHHHHHhhhhhhcCCcCCCchhHHHHHHHHHHhhcchhHHHHHhhCChhhhhccHHHHHHHHHHHH
Q 032786 6 LTDALASKSYEKIADICDDLMLKVAAEGIVFQDEWPYVIHLLGYYYVNDINSARFLWKSIPSTIKDSRAEVVAAWKIGQH 85 (133)
Q Consensus 6 i~~~~a~~~~~~l~~~cE~~EL~~~~~G~a~~~~~~Ya~~Ll~yLl~nDL~~AR~LwKRIP~~lk~~~~el~~iw~l~~a 85 (133)
|..+...|++++.....+++. + .|+. |+..-|..++-++--.+++.+|+-+++.+-+.-. -.|....--.+...
T Consensus 398 I~~y~~~G~~~~A~~lf~~M~-~---~g~~-Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g-~~p~~~~y~~li~~ 471 (697)
T PLN03081 398 IAGYGNHGRGTKAVEMFERMI-A---EGVA-PNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHR-IKPRAMHYACMIEL 471 (697)
T ss_pred HHHHHHcCCHHHHHHHHHHHH-H---hCCC-CCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcC-CCCCccchHhHHHH
Confidence 455666777777777777654 2 2443 5555677788888888888888888777654211 11222222222222
Q ss_pred HH-ccChHHHHHHhhCCCCCHH
Q 032786 86 LW-TRDYAGVYDAIRGFDWSQE 106 (133)
Q Consensus 86 lW-~rdy~~vy~al~~~~Ws~~ 106 (133)
+- ..++...++.++..+..+.
T Consensus 472 l~r~G~~~eA~~~~~~~~~~p~ 493 (697)
T PLN03081 472 LGREGLLDEAYAMIRRAPFKPT 493 (697)
T ss_pred HHhcCCHHHHHHHHHHCCCCCC
Confidence 22 2355666666655444433
No 59
>smart00297 BROMO bromo domain.
Probab=34.53 E-value=28 Score=23.56 Aligned_cols=29 Identities=24% Similarity=0.495 Sum_probs=26.7
Q ss_pred CCchhHHHHHhccCHHHHHHHHHHHhhhh
Q 032786 1 MDFSPLTDALASKSYEKIADICDDLMLKV 29 (133)
Q Consensus 1 m~~~~i~~~~a~~~~~~l~~~cE~~EL~~ 29 (133)
||++.|.+=+..|.|..+.++..+..+-.
T Consensus 48 ~dl~~I~~kl~~~~Y~s~~ef~~D~~li~ 76 (107)
T smart00297 48 MDLSTIKKKLENGKYSSVEEFVADVQLMF 76 (107)
T ss_pred CCHHHHHHHHhcCCCCCHHHHHHHHHHHH
Confidence 89999999999999999999999988875
No 60
>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=34.32 E-value=40 Score=24.00 Aligned_cols=26 Identities=23% Similarity=0.418 Sum_probs=21.6
Q ss_pred HHHHHhhCChhhhhccHHHHHHHHHHH
Q 032786 58 ARFLWKSIPSTIKDSRAEVVAAWKIGQ 84 (133)
Q Consensus 58 AR~LwKRIP~~lk~~~~el~~iw~l~~ 84 (133)
.+.|.++||++.++ +|+++.+-..|.
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 61
>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]
Probab=31.96 E-value=2.1e+02 Score=25.25 Aligned_cols=85 Identities=22% Similarity=0.219 Sum_probs=59.6
Q ss_pred hccCHHHHHHHHHHHhhhhh-hcCCcCCCchhHHHHHHHHHHhhcchhHHHHHhhCChhhhhccHHHHHHHHHHH-HHHc
Q 032786 11 ASKSYEKIADICDDLMLKVA-AEGIVFQDEWPYVIHLLGYYYVNDINSARFLWKSIPSTIKDSRAEVVAAWKIGQ-HLWT 88 (133)
Q Consensus 11 a~~~~~~l~~~cE~~EL~~~-~~G~a~~~~~~Ya~~Ll~yLl~nDL~~AR~LwKRIP~~lk~~~~el~~iw~l~~-alW~ 88 (133)
+.++++|-++.++++.--.. ..++-.. -||+-+=-.++..+|.+.||++.+|--+.=| .-+++-..+|+ .+-+
T Consensus 153 ~treW~KAId~A~~L~k~~~q~~~~eIA--qfyCELAq~~~~~~~~d~A~~~l~kAlqa~~---~cvRAsi~lG~v~~~~ 227 (389)
T COG2956 153 ATREWEKAIDVAERLVKLGGQTYRVEIA--QFYCELAQQALASSDVDRARELLKKALQADK---KCVRASIILGRVELAK 227 (389)
T ss_pred HhhHHHHHHHHHHHHHHcCCccchhHHH--HHHHHHHHHHhhhhhHHHHHHHHHHHHhhCc---cceehhhhhhHHHHhc
Confidence 57889999999998774421 1122111 4799999999999999999999998654444 33556666665 4566
Q ss_pred cChHHHHHHhhC
Q 032786 89 RDYAGVYDAIRG 100 (133)
Q Consensus 89 rdy~~vy~al~~ 100 (133)
.+|++.-++++.
T Consensus 228 g~y~~AV~~~e~ 239 (389)
T COG2956 228 GDYQKAVEALER 239 (389)
T ss_pred cchHHHHHHHHH
Confidence 799986666543
No 62
>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=31.50 E-value=1.9e+02 Score=20.33 Aligned_cols=71 Identities=18% Similarity=0.210 Sum_probs=46.3
Q ss_pred HhccCHHHHHHHHHHHhhhhhhcCCcCCCchhHHHHHHHHHHhhcchhHHHHHhhCChhhhhccHHHHHHHHHHHHHHc
Q 032786 10 LASKSYEKIADICDDLMLKVAAEGIVFQDEWPYVIHLLGYYYVNDINSARFLWKSIPSTIKDSRAEVVAAWKIGQHLWT 88 (133)
Q Consensus 10 ~a~~~~~~l~~~cE~~EL~~~~~G~a~~~~~~Ya~~Ll~yLl~nDL~~AR~LwKRIP~~lk~~~~el~~iw~l~~alW~ 88 (133)
...+|+++....++.+-=.. ..|..+ ..---++.-+-.||.+|+-..+|-...=. ...+..+|.+-..+.+
T Consensus 25 ~~~~n~~~m~~~L~pLh~~l-~k~PeT-----~~E~~F~~~fg~~L~~A~~~~~~y~~t~~--~~~l~~aW~~y~~v~~ 95 (100)
T PF08771_consen 25 FGENNVEKMFKILEPLHEML-EKGPET-----LREVSFAQAFGRDLQEAREWLKRYERTGD--ETDLNQAWDIYYQVYR 95 (100)
T ss_dssp HTTT-HHHHHHHHHHHHHHH-HHS-SS-----HHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHH
T ss_pred HhhcCHHHHHHHHHHHHHHH-cCCCCC-----HHHHHHHHHHHHHHHHHHHHHHHHhhhCC--HhhHHHHHHHHHHHHH
Confidence 35789999888887764332 234433 33445566679999999999998754333 4678888887665543
No 63
>PF08097 Toxin_26: Conotoxin T-superfamily; InterPro: IPR012631 This family consists of the T-superfamily of conotoxins. Eight different T-superfamily peptides from five Conus species were identified. These peptides share a consensus signal sequence, and a conserved arrangement of cysteine residues. T-superfamily peptides were found expressed in venom ducts of all major feeding types of Conus, suggesting that the T-superfamily is a large and diverse group of peptides, widely distributed in the 500 different Conus species [].; GO: 0005576 extracellular region
Probab=30.89 E-value=17 Score=16.24 Aligned_cols=6 Identities=67% Similarity=1.597 Sum_probs=4.6
Q ss_pred cccccc
Q 032786 127 FCPLIR 132 (133)
Q Consensus 127 ~~~~~~ 132 (133)
-||.||
T Consensus 2 ccpvir 7 (11)
T PF08097_consen 2 CCPVIR 7 (11)
T ss_pred Ccchhh
Confidence 489887
No 64
>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=28.93 E-value=97 Score=19.98 Aligned_cols=25 Identities=12% Similarity=0.254 Sum_probs=18.6
Q ss_pred hHHHHHhccCHHHHHHHHHHHhhhh
Q 032786 5 PLTDALASKSYEKIADICDDLMLKV 29 (133)
Q Consensus 5 ~i~~~~a~~~~~~l~~~cE~~EL~~ 29 (133)
+|+.++++||..+.....-.-|-+.
T Consensus 6 aiq~AiasGDLa~MK~l~~~aeq~L 30 (53)
T PF08898_consen 6 AIQQAIASGDLAQMKALAAQAEQQL 30 (53)
T ss_pred HHHHHHHcCcHHHHHHHHHHHHHHH
Confidence 6899999999888666655555443
No 65
>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=28.77 E-value=39 Score=22.10 Aligned_cols=26 Identities=15% Similarity=0.353 Sum_probs=19.1
Q ss_pred hhHHHHHhccCHHHHHHHHHHHhhhh
Q 032786 4 SPLTDALASKSYEKIADICDDLMLKV 29 (133)
Q Consensus 4 ~~i~~~~a~~~~~~l~~~cE~~EL~~ 29 (133)
+.|.++++|-+=.++.+.|++.-...
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 57899999999999999999876654
No 66
>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]
Probab=28.01 E-value=1.2e+02 Score=29.62 Aligned_cols=57 Identities=19% Similarity=0.245 Sum_probs=0.0
Q ss_pred CCchhHHHHHhccCHHHHHHHHHHHhhhhhhcCCcCCCchhHHHHHHHHHHhhcchhHHHHHhhCChhhhhccHHHH
Q 032786 1 MDFSPLTDALASKSYEKIADICDDLMLKVAAEGIVFQDEWPYVIHLLGYYYVNDINSARFLWKSIPSTIKDSRAEVV 77 (133)
Q Consensus 1 m~~~~i~~~~a~~~~~~l~~~cE~~EL~~~~~G~a~~~~~~Ya~~Ll~yLl~nDL~~AR~LwKRIP~~lk~~~~el~ 77 (133)
|--.+|..++++||++..++..|++|.+ ..+ .+.|.==.-.-|-||.++..++|++.
T Consensus 362 ~~~eAI~hAlaA~d~~~aa~lle~~~~~-L~~-------------------~~~lsll~~~~~~lP~~~l~~~P~Lv 418 (894)
T COG2909 362 LPSEAIDHALAAGDPEMAADLLEQLEWQ-LFN-------------------GSELSLLLAWLKALPAELLASTPRLV 418 (894)
T ss_pred ChHHHHHHHHhCCCHHHHHHHHHhhhhh-hhc-------------------ccchHHHHHHHHhCCHHHHhhCchHH
No 67
>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=27.88 E-value=87 Score=22.23 Aligned_cols=41 Identities=5% Similarity=0.153 Sum_probs=18.8
Q ss_pred HHHHHHHHHccChHHHHHHhhC-CCCCHHHHHHHHHHHhchh
Q 032786 79 AWKIGQHLWTRDYAGVYDAIRG-FDWSQEAQALVAAFSGNST 119 (133)
Q Consensus 79 iw~l~~alW~rdy~~vy~al~~-~~Ws~~~~~lv~~l~~~~r 119 (133)
+..+.+++-++|.+++...++. .+-+.....++..+.+.+|
T Consensus 18 i~~l~~ai~~~d~~~~l~~~~~l~~~G~d~~~~l~~L~~~~R 59 (143)
T PF12169_consen 18 IFELLDAILEGDAAEALELLNELLEQGKDPKQFLDDLIEYLR 59 (143)
T ss_dssp HHHHHHHHHTT-HHHHHHHHHHHHHCT--HHHHHHHHHHHHH
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHH
Confidence 3455555556666555555543 2233444444444444444
No 68
>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=27.51 E-value=1.2e+02 Score=20.53 Aligned_cols=34 Identities=21% Similarity=0.411 Sum_probs=26.7
Q ss_pred HHHHHHHHHHHhhhhhhcCCcCCCchhHHHHHHHHHHhhcc
Q 032786 15 YEKIADICDDLMLKVAAEGIVFQDEWPYVIHLLGYYYVNDI 55 (133)
Q Consensus 15 ~~~l~~~cE~~EL~~~~~G~a~~~~~~Ya~~Ll~yLl~nDL 55 (133)
|..+.+.++++++.. |..+-|..-++++++.+|+
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 677888888888774 5556788888899888875
No 69
>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional
Probab=25.71 E-value=2e+02 Score=25.99 Aligned_cols=34 Identities=24% Similarity=0.259 Sum_probs=27.6
Q ss_pred CCcCCCchhHHHHHHHHHHhhcchhHHHHHhhCCh
Q 032786 33 GIVFQDEWPYVIHLLGYYYVNDINSARFLWKSIPS 67 (133)
Q Consensus 33 G~a~~~~~~Ya~~Ll~yLl~nDL~~AR~LwKRIP~ 67 (133)
|.. |+...|..++-.|.=.+++..|+-++.++|+
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 4556788888888889999999999999986
No 70
>PLN02407 diphosphomevalonate decarboxylase
Probab=24.62 E-value=58 Score=28.19 Aligned_cols=27 Identities=7% Similarity=0.171 Sum_probs=22.8
Q ss_pred CchhHHHHHhccCHHHHHHHHHHHhhh
Q 032786 2 DFSPLTDALASKSYEKIADICDDLMLK 28 (133)
Q Consensus 2 ~~~~i~~~~a~~~~~~l~~~cE~~EL~ 28 (133)
++..+.++|..+||+++..++|.--++
T Consensus 236 ~~~~~~~Ai~~~Df~~~gei~e~ds~~ 262 (343)
T PLN02407 236 RILQMEEAIKNRDFASFAKLTCADSNQ 262 (343)
T ss_pred HHHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence 467899999999999999998875555
No 71
>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=24.24 E-value=53 Score=23.03 Aligned_cols=29 Identities=24% Similarity=0.409 Sum_probs=26.4
Q ss_pred CCchhHHHHHhc---cCHHHHHHHHHHHhhhh
Q 032786 1 MDFSPLTDALAS---KSYEKIADICDDLMLKV 29 (133)
Q Consensus 1 m~~~~i~~~~a~---~~~~~l~~~cE~~EL~~ 29 (133)
|||+.|+.-+.. +.|..+.++..+..|-.
T Consensus 44 mdL~tI~~kL~~~~~~~Y~s~~~f~~D~~li~ 75 (109)
T cd05502 44 MDLSLIRKKLQPKSPQHYSSPEEFVADVRLMF 75 (109)
T ss_pred ccHHHHHHHHhcCCCCCCCCHHHHHHHHHHHH
Confidence 899999999999 48999999999999885
No 72
>PLN03218 maturation of RBCL 1; Provisional
Probab=24.19 E-value=6.6e+02 Score=24.91 Aligned_cols=57 Identities=5% Similarity=-0.028 Sum_probs=30.6
Q ss_pred HHHHHhccCHHHHHHHHHHHhhhhhhcCCcCCCchhHHHHHHHHHHhhcchhHHHHHhhCCh
Q 032786 6 LTDALASKSYEKIADICDDLMLKVAAEGIVFQDEWPYVIHLLGYYYVNDINSARFLWKSIPS 67 (133)
Q Consensus 6 i~~~~a~~~~~~l~~~cE~~EL~~~~~G~a~~~~~~Ya~~Ll~yLl~nDL~~AR~LwKRIP~ 67 (133)
|..+...|++++.....+++.- .|. .|+...|..++-+|.-.+++..|.-+++++..
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 3444555555555555444321 232 24444566666666666666666666666543
No 73
>cd03569 VHS_Hrs_Vps27p VHS domain family, Hrs and Vps27p subfamily; composed of Hrs (Hepatocyte growth factor-regulated tyrosine kinase substrate) and its yeast homolog Vps27p (vacuolar protein sorting). The VHS domain, an essential part of Hrs/Vps27p, has a superhelical structure similar to the structure of ARM (Armadillo) repeats and is present at the N-termini of proteins. Hrs also contains a FYVE (Fab1p, YOTB, Vac1p, and EEA1) zinc finger domain C-terminal to VHS, as well as two coiled-coil domains. Hrs has been proposed to play a role in at least three vesicle trafficking events: exocytosis, endocytosis, and endosome to lysosome trafficking. Hrs is involved in promoting rapid recycling of endocytosed signaling receptors to the plasma membrane.
Probab=23.66 E-value=2.1e+02 Score=21.19 Aligned_cols=68 Identities=13% Similarity=0.012 Sum_probs=43.4
Q ss_pred hhHHHHHhhCChhhhhccHHHHHHHHHHHHHHccChHHHHHHhhCCCCCHHHHHHHH-HHHhchhhhhhhhh
Q 032786 56 NSARFLWKSIPSTIKDSRAEVVAAWKIGQHLWTRDYAGVYDAIRGFDWSQEAQALVA-AFSGNSTPRGCFSC 126 (133)
Q Consensus 56 ~~AR~LwKRIP~~lk~~~~el~~iw~l~~alW~rdy~~vy~al~~~~Ws~~~~~lv~-~l~~~~r~rt~~L~ 126 (133)
.-+|.+-|||-. +.. .+......|+.++.++=-..+|.-+.+.++-+.+..++. ......++|.+.|+
T Consensus 41 ~a~ral~krl~~--~n~-~vql~AL~LLe~~vkNCG~~fh~evas~~fl~~l~~l~~~~~~~~Vk~kil~li 109 (142)
T cd03569 41 YAMRALKKRLLS--KNP-NVQLYALLLLESCVKNCGTHFHDEVASREFMDELKDLIKTTKNEEVRQKILELI 109 (142)
T ss_pred HHHHHHHHHHcC--CCh-HHHHHHHHHHHHHHHHCCHHHHHHHhhHHHHHHHHHHHcccCCHHHHHHHHHHH
Confidence 356788888854 332 344445778888888877788888877666666665554 23334556665554
No 74
>PRK10866 outer membrane biogenesis protein BamD; Provisional
Probab=23.03 E-value=3.9e+02 Score=21.23 Aligned_cols=76 Identities=13% Similarity=0.037 Sum_probs=45.1
Q ss_pred hhHHHHHhccCHHHHHHHHHHHhhhhhhcCCcCCCchhHHHHHHHH--HHhhcchhHHHHHhhCChhhhhccHHHH-HHH
Q 032786 4 SPLTDALASKSYEKIADICDDLMLKVAAEGIVFQDEWPYVIHLLGY--YYVNDINSARFLWKSIPSTIKDSRAEVV-AAW 80 (133)
Q Consensus 4 ~~i~~~~a~~~~~~l~~~cE~~EL~~~~~G~a~~~~~~Ya~~Ll~y--Ll~nDL~~AR~LwKRIP~~lk~~~~el~-~iw 80 (133)
..-...+.+|+|++-+...+++.=. -|++. .-..+.+.+++ .-.+|..+|....+|.=..-.++ |.+. +..
T Consensus 37 ~~A~~~~~~g~y~~Ai~~f~~l~~~-yP~s~----~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~-~~~~~a~Y 110 (243)
T PRK10866 37 ATAQQKLQDGNWKQAITQLEALDNR-YPFGP----YSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTH-PNIDYVLY 110 (243)
T ss_pred HHHHHHHHCCCHHHHHHHHHHHHHh-CCCCh----HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCC-CchHHHHH
Confidence 3456778899999999999987644 23321 12234455555 56788888887776664333322 3222 344
Q ss_pred HHHHH
Q 032786 81 KIGQH 85 (133)
Q Consensus 81 ~l~~a 85 (133)
.+|.+
T Consensus 111 ~~g~~ 115 (243)
T PRK10866 111 MRGLT 115 (243)
T ss_pred HHHHh
Confidence 55544
No 75
>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=22.10 E-value=68 Score=24.16 Aligned_cols=24 Identities=25% Similarity=0.727 Sum_probs=20.0
Q ss_pred HHHHHccChHHHHHHhhC----CCCCHH
Q 032786 83 GQHLWTRDYAGVYDAIRG----FDWSQE 106 (133)
Q Consensus 83 ~~alW~rdy~~vy~al~~----~~Ws~~ 106 (133)
+..-|++.|+.|=+-+|+ ++|+|.
T Consensus 105 L~~FW~~sY~~VrKemrGRYPKH~WPed 132 (133)
T PF08482_consen 105 LASFWQGSYPEVRKEMRGRYPKHPWPED 132 (133)
T ss_pred HHHHhcccHHHHHHHHccCCCCCCCCCC
Confidence 456799999999999998 778863
No 76
>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=21.58 E-value=2.3e+02 Score=21.05 Aligned_cols=54 Identities=11% Similarity=0.097 Sum_probs=30.6
Q ss_pred hCChhhhhccHHHHHHHHHHHHHHcc----ChHH--HHHHh------hCCCCCHHHHHHHHHHHhc
Q 032786 64 SIPSTIKDSRAEVVAAWKIGQHLWTR----DYAG--VYDAI------RGFDWSQEAQALVAAFSGN 117 (133)
Q Consensus 64 RIP~~lk~~~~el~~iw~l~~alW~r----dy~~--vy~al------~~~~Ws~~~~~lv~~l~~~ 117 (133)
.-|+-+++-++.|..+..+....-.. .+.+ +|..| ++..|++.|+..|....+.
T Consensus 57 ~t~~~i~~l~~~L~~l~~ll~~~~~~n~~ls~DDi~lFp~LR~Lt~vkgi~~P~~V~~Y~~~~s~~ 122 (128)
T cd03199 57 NTPQYIAALNALLEELDPLILSSEAVNGQLSTDDIILFPILRNLTLVKGLVFPPKVKAYLERMSAL 122 (128)
T ss_pred ccHHHHHHHHHHHHHHHHHHcCccccCCcCCHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHH
Confidence 44555555555555555555221111 2222 44444 4578999999988877654
No 77
>PF14276 DUF4363: Domain of unknown function (DUF4363)
Probab=21.13 E-value=2e+02 Score=20.20 Aligned_cols=61 Identities=10% Similarity=0.104 Sum_probs=41.3
Q ss_pred chhHHHHHhccCHHHHHHHHHHHhhhhhhcCCcCCCchhHHHHHHHHHHhhcchhHHHHHhhCChhhhhcc
Q 032786 3 FSPLTDALASKSYEKIADICDDLMLKVAAEGIVFQDEWPYVIHLLGYYYVNDINSARFLWKSIPSTIKDSR 73 (133)
Q Consensus 3 ~~~i~~~~a~~~~~~l~~~cE~~EL~~~~~G~a~~~~~~Ya~~Ll~yLl~nDL~~AR~LwKRIP~~lk~~~ 73 (133)
...|.+.+.++|+++-....++++-.-.. ....+..++=.+++++--.-..|++.-++..|
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 45688889999999888888887755411 22333344456777777777777777777655
No 78
>PLN03218 maturation of RBCL 1; Provisional
Probab=21.12 E-value=2.2e+02 Score=28.12 Aligned_cols=59 Identities=10% Similarity=0.125 Sum_probs=29.1
Q ss_pred HHHHHhccCHHHHHHHHHHHhhhhhhcCCcCCCchhHHHHHHHHHHhhcchhHHHHHhhCCh
Q 032786 6 LTDALASKSYEKIADICDDLMLKVAAEGIVFQDEWPYVIHLLGYYYVNDINSARFLWKSIPS 67 (133)
Q Consensus 6 i~~~~a~~~~~~l~~~cE~~EL~~~~~G~a~~~~~~Ya~~Ll~yLl~nDL~~AR~LwKRIP~ 67 (133)
|......|++++...+.+++.-+. .|. .|+...|..++-+|.-.+++..|+-+.+++.+
T Consensus 549 I~a~~k~G~~deA~~lf~eM~~~~--~gi-~PD~vTynaLI~ay~k~G~ldeA~elf~~M~e 607 (1060)
T PLN03218 549 ISACGQSGAVDRAFDVLAEMKAET--HPI-DPDHITVGALMKACANAGQVDRAKEVYQMIHE 607 (1060)
T ss_pred HHHHHHCCCHHHHHHHHHHHHHhc--CCC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 344455566666555555543221 122 13333455555555555555555555555443
No 79
>PF13812 PPR_3: Pentatricopeptide repeat domain
Probab=21.11 E-value=1.4e+02 Score=15.30 Aligned_cols=23 Identities=9% Similarity=0.099 Sum_probs=18.6
Q ss_pred hHHHHHhccCHHHHHHHHHHHhh
Q 032786 5 PLTDALASKSYEKIADICDDLML 27 (133)
Q Consensus 5 ~i~~~~a~~~~~~l~~~cE~~EL 27 (133)
-|.+....|+++....+.++++-
T Consensus 7 ll~a~~~~g~~~~a~~~~~~M~~ 29 (34)
T PF13812_consen 7 LLRACAKAGDPDAALQLFDEMKE 29 (34)
T ss_pred HHHHHHHCCCHHHHHHHHHHHHH
Confidence 36778889999998888888763
No 80
>PF11159 DUF2939: Protein of unknown function (DUF2939); InterPro: IPR021330 This bacterial family of proteins has no known function.
Probab=21.10 E-value=1.9e+02 Score=19.58 Aligned_cols=41 Identities=20% Similarity=0.283 Sum_probs=30.7
Q ss_pred HHHHHHHHHHccChHHHHHHhhCCCCCHHHHHHHHHHHhchhhh
Q 032786 78 AAWKIGQHLWTRDYAGVYDAIRGFDWSQEAQALVAAFSGNSTPR 121 (133)
Q Consensus 78 ~iw~l~~alW~rdy~~vy~al~~~~Ws~~~~~lv~~l~~~~r~r 121 (133)
++|.|-+++-++|-+.+-+.+ +|+.--+.+...+...+..+
T Consensus 16 al~~i~~Ai~~~D~~~l~~~V---D~~avr~slk~ql~~~~~~~ 56 (95)
T PF11159_consen 16 ALYQIRQAIQAHDAAALARYV---DFPAVRASLKDQLNAELVSR 56 (95)
T ss_pred HHHHHHHHHHHcCHHHHHHHc---CHHHHHHHHHHHHHHHHHhh
Confidence 889999999999988887777 57766666666666555553
No 81
>COG2317 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]
Probab=21.10 E-value=1.5e+02 Score=27.15 Aligned_cols=24 Identities=13% Similarity=0.238 Sum_probs=21.4
Q ss_pred CchhHHHHHhccCHHHHHHHHHHH
Q 032786 2 DFSPLTDALASKSYEKIADICDDL 25 (133)
Q Consensus 2 ~~~~i~~~~a~~~~~~l~~~cE~~ 25 (133)
|++.|++.++.|||+.|..++.+-
T Consensus 437 ~~p~~d~~i~~gd~~~i~~WL~e~ 460 (497)
T COG2317 437 DIPDVDALIAKGDFSPIKNWLREN 460 (497)
T ss_pred hcccHHHHHHcCCcHHHHHHHHHH
Confidence 578899999999999999998763
No 82
>KOG0019 consensus Molecular chaperone (HSP90 family) [Posttranslational modification, protein turnover, chaperones]
Probab=20.74 E-value=43 Score=31.36 Aligned_cols=43 Identities=16% Similarity=0.447 Sum_probs=33.5
Q ss_pred HHHHhhcchhHHHHHhhCChhhhhccHHHHHHHHHHHHHHccChHHHHHHhhCCCCCHHHH
Q 032786 48 GYYYVNDINSARFLWKSIPSTIKDSRAEVVAAWKIGQHLWTRDYAGVYDAIRGFDWSQEAQ 108 (133)
Q Consensus 48 ~yLl~nDL~~AR~LwKRIP~~lk~~~~el~~iw~l~~alW~rdy~~vy~al~~~~Ws~~~~ 108 (133)
+||....+|.-+-+|.|.|.++-+ ..|..+|+.+. .+|.++..
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 48999864
Done!