Query psy5166
Match_columns 76
No_of_seqs 80 out of 82
Neff 4.2
Searched_HMMs 46136
Date Fri Aug 16 19:03:38 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy5166.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/5166hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd06404 PB1_aPKC PB1 domain is 100.0 1.1E-43 2.5E-48 229.4 7.9 75 2-76 5-79 (83)
2 KOG0695|consensus 100.0 8E-34 1.7E-38 225.5 6.4 75 2-76 20-94 (593)
3 cd06396 PB1_NBR1 The PB1 domai 99.9 6.2E-24 1.3E-28 136.5 6.8 65 2-69 5-71 (81)
4 cd06407 PB1_NLP A PB1 domain i 99.9 7.7E-23 1.7E-27 130.2 8.3 72 2-73 5-76 (82)
5 cd06408 PB1_NoxR The PB1 domai 99.9 9.4E-23 2E-27 132.3 7.5 63 2-67 7-69 (86)
6 cd06402 PB1_p62 The PB1 domain 99.8 3.5E-20 7.6E-25 120.2 6.8 61 6-66 14-76 (87)
7 smart00666 PB1 PB1 domain. Pho 99.7 7.2E-16 1.6E-20 94.1 7.9 74 2-76 6-79 (81)
8 cd05992 PB1 The PB1 domain is 99.6 1.4E-15 3.1E-20 92.1 7.5 74 2-76 5-79 (81)
9 PF00564 PB1: PB1 domain; Int 99.6 4.9E-15 1.1E-19 90.3 7.3 74 2-76 6-80 (84)
10 cd06397 PB1_UP1 Uncharacterize 99.4 8.2E-13 1.8E-17 85.6 6.3 65 2-67 5-69 (82)
11 cd06398 PB1_Joka2 The PB1 doma 99.4 4.3E-12 9.4E-17 82.3 8.0 64 2-65 5-73 (91)
12 cd06401 PB1_TFG The PB1 domain 99.3 9.7E-12 2.1E-16 80.3 6.3 66 2-67 5-73 (81)
13 cd06409 PB1_MUG70 The MUG70 pr 98.7 7.4E-08 1.6E-12 62.5 6.6 66 4-69 8-75 (86)
14 cd06403 PB1_Par6 The PB1 domai 98.5 4.9E-07 1.1E-11 58.5 6.7 61 2-63 5-67 (80)
15 cd06410 PB1_UP2 Uncharacterize 97.6 0.00037 8E-09 45.7 6.8 61 4-66 20-83 (97)
16 cd06406 PB1_P67 A PB1 domain i 96.9 0.0065 1.4E-07 39.2 6.5 62 2-65 7-68 (80)
17 cd06405 PB1_Mekk2_3 The PB1 do 96.7 0.0088 1.9E-07 38.7 6.4 61 3-68 6-66 (79)
18 cd06395 PB1_Map2k5 PB1 domain 96.3 0.0095 2.1E-07 39.3 4.6 50 15-66 21-70 (91)
19 PF06970 RepA_N: Replication i 94.1 0.025 5.4E-07 35.5 1.1 41 22-66 26-66 (76)
20 cd06399 PB1_P40 The PB1 domain 92.5 0.33 7.2E-06 32.2 4.5 51 12-65 23-73 (92)
21 smart00295 B41 Band 4.1 homolo 86.7 3.7 8E-05 27.5 6.2 58 3-60 10-68 (207)
22 cd06411 PB1_p51 The PB1 domain 79.6 11 0.00023 24.2 5.8 54 12-66 12-67 (78)
23 PF09379 FERM_N: FERM N-termin 79.5 3.2 7E-05 24.4 3.3 55 4-58 4-59 (80)
24 PF14430 Imm1: Immunity protei 75.3 3 6.5E-05 27.5 2.5 30 40-69 2-32 (127)
25 PF02309 AUX_IAA: AUX/IAA fami 74.8 0.96 2.1E-05 32.4 0.0 48 5-52 117-185 (215)
26 PF11976 Rad60-SLD: Ubiquitin- 67.9 15 0.00033 21.2 4.1 44 4-50 8-51 (72)
27 cd01812 BAG1_N Ubiquitin-like 66.8 10 0.00022 21.7 3.2 64 2-75 5-68 (71)
28 PHA02146 hypothetical protein 61.9 6.5 0.00014 25.6 1.8 23 30-52 21-43 (86)
29 cd04609 CBS_pair_PALP_assoc2 T 58.9 6.8 0.00015 22.8 1.5 25 47-71 1-25 (110)
30 PF00036 EF-hand_1: EF hand; 55.8 12 0.00027 19.0 2.0 18 57-74 1-18 (29)
31 PF07929 PRiA4_ORF3: Plasmid p 53.5 26 0.00057 24.0 3.9 35 8-42 19-53 (179)
32 KOG0027|consensus 50.9 35 0.00075 22.5 4.0 21 53-73 82-102 (151)
33 PF14275 DUF4362: Domain of un 50.6 44 0.00095 22.0 4.4 46 5-52 2-47 (98)
34 PF14560 Ubiquitin_2: Ubiquiti 50.5 50 0.0011 20.0 4.5 42 8-50 15-57 (87)
35 PF05726 Pirin_C: Pirin C-term 50.3 17 0.00037 23.0 2.4 20 49-68 82-101 (104)
36 COG1104 NifS Cysteine sulfinat 50.1 13 0.00027 30.0 2.1 49 5-63 91-139 (386)
37 PF13511 DUF4124: Domain of un 49.2 9.5 0.00021 21.7 1.0 10 39-48 15-24 (60)
38 PF08777 RRM_3: RNA binding mo 46.3 24 0.00053 22.8 2.7 34 8-49 3-38 (105)
39 PF10309 DUF2414: Protein of u 44.3 29 0.00063 21.1 2.6 44 16-61 15-58 (62)
40 cd03347 eu_PheOH Eukaryotic ph 44.0 21 0.00046 28.0 2.5 30 18-53 273-302 (306)
41 PF02017 CIDE-N: CIDE-N domain 43.9 41 0.00089 21.4 3.4 31 17-49 21-51 (78)
42 cd01806 Nedd8 Nebb8-like ubiq 42.9 52 0.0011 18.7 3.5 32 4-35 8-39 (76)
43 COG2086 FixA Electron transfer 42.2 27 0.00059 26.5 2.7 40 35-74 14-59 (260)
44 PF10342 GPI-anchored: Ser-Thr 42.0 21 0.00046 21.2 1.8 17 33-49 10-26 (93)
45 TIGR01269 Tyr_3_monoox tyrosin 41.4 25 0.00055 29.1 2.6 30 18-53 396-425 (457)
46 cd04618 CBS_pair_5 The CBS dom 41.0 79 0.0017 18.9 5.6 58 10-73 3-76 (98)
47 cd01809 Scythe_N Ubiquitin-lik 41.0 49 0.0011 18.6 3.2 32 4-35 8-39 (72)
48 PF14495 Cytochrom_C550: Cytoc 40.8 21 0.00046 25.1 1.8 30 36-67 5-34 (135)
49 PF06543 Lac_bphage_repr: Lact 39.6 20 0.00044 21.4 1.3 25 40-68 21-45 (49)
50 cd01800 SF3a120_C Ubiquitin-li 39.5 47 0.001 19.7 3.0 33 3-35 4-36 (76)
51 PRK09539 tRNA-splicing endonuc 39.3 91 0.002 21.5 4.8 33 14-48 79-111 (124)
52 cd04605 CBS_pair_MET2_assoc Th 38.7 25 0.00055 20.5 1.7 25 47-71 63-87 (110)
53 PF00240 ubiquitin: Ubiquitin 38.2 71 0.0015 18.0 3.6 34 4-37 3-36 (69)
54 cd01813 UBP_N UBP ubiquitin pr 38.1 52 0.0011 19.8 3.1 34 2-35 5-38 (74)
55 PRK13605 endoribonuclease SymE 37.0 49 0.0011 22.7 3.1 31 4-34 63-93 (113)
56 KOG0003|consensus 36.9 27 0.00059 24.3 1.8 42 3-44 7-51 (128)
57 TIGR01268 Phe4hydrox_tetr phen 36.7 32 0.0007 28.1 2.5 30 18-53 375-404 (436)
58 PF12392 DUF3656: Collagenase 36.5 15 0.00033 23.8 0.5 33 31-63 31-63 (122)
59 COG4837 Uncharacterized protei 36.3 45 0.00097 22.6 2.8 62 2-64 8-70 (106)
60 PF05198 IF3_N: Translation in 34.1 35 0.00077 21.2 1.9 25 39-66 14-38 (76)
61 cd01810 ISG15_repeat2 ISG15 ub 34.0 67 0.0015 18.8 3.1 33 3-35 5-37 (74)
62 PF07315 DUF1462: Protein of u 34.0 53 0.0012 21.8 2.8 60 3-63 2-62 (93)
63 COG5474 Uncharacterized conser 33.9 24 0.00052 25.4 1.3 23 31-53 36-59 (159)
64 PF11784 DUF3320: Protein of u 33.6 49 0.0011 19.0 2.3 23 12-34 22-44 (52)
65 cd01792 ISG15_repeat1 ISG15 ub 33.6 71 0.0015 19.1 3.2 32 4-35 10-41 (80)
66 PTZ00044 ubiquitin; Provisiona 32.9 70 0.0015 18.5 3.0 32 4-35 8-39 (76)
67 cd06539 CIDE_N_A CIDE_N domain 32.7 79 0.0017 20.2 3.4 30 17-48 21-50 (78)
68 cd01769 UBL Ubiquitin-like dom 32.7 89 0.0019 17.0 3.6 32 4-35 5-36 (69)
69 PF09631 Sen15: Sen15 protein; 32.1 77 0.0017 20.1 3.3 40 8-47 44-84 (101)
70 PF00351 Biopterin_H: Biopteri 32.0 39 0.00084 26.9 2.2 30 18-53 273-302 (332)
71 PF10114 PocR: Sensory domain 31.9 73 0.0016 21.1 3.3 16 39-54 24-39 (173)
72 TIGR01270 Trp_5_monoox tryptop 31.6 41 0.00089 27.8 2.4 30 18-53 403-432 (464)
73 cd04639 CBS_pair_26 The CBS do 31.3 39 0.00084 19.7 1.7 24 48-71 2-25 (111)
74 PRK03996 proteasome subunit al 30.9 1.8E+02 0.004 20.6 5.4 52 12-63 181-237 (241)
75 smart00166 UBX Domain present 30.8 1.2E+02 0.0026 18.0 4.4 35 5-40 13-47 (80)
76 COG1741 Pirin-related protein 30.8 39 0.00084 25.8 2.0 19 49-67 254-272 (276)
77 COG2239 MgtE Mg/Co/Ni transpor 30.4 1.3E+02 0.0029 24.5 5.1 57 11-68 143-225 (451)
78 cd04603 CBS_pair_KefB_assoc Th 29.5 36 0.00078 20.3 1.4 24 48-71 2-25 (111)
79 PF04059 RRM_2: RNA recognitio 29.5 81 0.0017 20.5 3.1 24 7-30 3-26 (97)
80 PF03108 DBD_Tnp_Mut: MuDR fam 28.7 64 0.0014 18.6 2.3 23 52-74 10-32 (67)
81 cd01799 Hoil1_N Ubiquitin-like 28.5 94 0.002 18.8 3.1 32 5-36 11-42 (75)
82 cd01796 DDI1_N DNA damage indu 28.5 92 0.002 18.3 3.0 32 5-36 8-39 (71)
83 PF00571 CBS: CBS domain CBS d 28.2 25 0.00054 18.8 0.4 26 48-73 8-33 (57)
84 KOG3076|consensus 27.8 55 0.0012 24.6 2.3 49 3-52 107-159 (206)
85 cd04589 CBS_pair_CAP-ED_DUF294 27.7 48 0.001 19.4 1.7 23 47-69 1-23 (111)
86 PRK08444 hypothetical protein; 27.6 75 0.0016 24.7 3.1 62 3-73 39-100 (353)
87 cd04582 CBS_pair_ABC_OpuCA_ass 27.5 48 0.001 19.1 1.6 22 48-69 2-23 (106)
88 TIGR02996 rpt_mate_G_obs repea 27.5 15 0.00032 21.2 -0.6 9 41-49 24-32 (42)
89 PF08921 DUF1904: Domain of un 27.5 62 0.0013 21.4 2.3 24 20-44 19-42 (108)
90 TIGR01302 IMP_dehydrog inosine 27.4 1.1E+02 0.0023 24.4 4.0 50 13-71 63-112 (450)
91 PF11543 UN_NPL4: Nuclear pore 27.2 1.3E+02 0.0027 18.6 3.6 32 8-40 15-46 (80)
92 PRK01546 hypothetical protein; 27.2 32 0.00069 22.1 0.9 18 36-53 48-65 (79)
93 PF07262 DUF1436: Protein of u 26.7 38 0.00082 24.0 1.3 21 45-65 131-154 (158)
94 cd04629 CBS_pair_16 The CBS do 26.4 50 0.0011 19.3 1.6 23 47-69 1-23 (114)
95 smart00266 CAD Domains present 26.2 1.3E+02 0.0027 19.1 3.4 30 17-48 19-48 (74)
96 KOG3606|consensus 25.9 1.9E+02 0.0042 23.2 5.1 58 4-62 25-84 (358)
97 cd04614 CBS_pair_1 The CBS dom 25.9 53 0.0012 19.4 1.7 22 48-69 2-23 (96)
98 cd01803 Ubiquitin Ubiquitin. U 25.7 1.1E+02 0.0024 17.3 3.0 32 4-35 8-39 (76)
99 cd04587 CBS_pair_CAP-ED_DUF294 25.7 53 0.0012 19.1 1.6 23 48-70 2-24 (113)
100 PF12079 DUF3558: Protein of u 25.5 60 0.0013 21.3 2.0 22 46-67 36-57 (168)
101 cd06536 CIDE_N_ICAD CIDE_N dom 25.3 1.5E+02 0.0032 19.0 3.7 31 17-48 21-52 (80)
102 PRK02539 hypothetical protein; 25.0 37 0.00081 22.2 0.9 34 35-71 46-79 (85)
103 PF05768 DUF836: Glutaredoxin- 24.7 1.1E+02 0.0023 18.3 2.8 29 21-49 11-40 (81)
104 COG3382 Solo B3/4 domain (OB-f 24.2 47 0.001 25.1 1.4 47 2-54 124-170 (229)
105 KOG0482|consensus 24.1 46 0.001 28.9 1.5 19 55-73 628-646 (721)
106 cd01798 parkin_N amino-termina 23.8 1.2E+02 0.0027 17.3 2.9 33 4-36 6-38 (70)
107 cd04621 CBS_pair_8 The CBS dom 23.7 57 0.0012 20.6 1.6 26 48-73 2-27 (135)
108 PF14584 DUF4446: Protein of u 23.3 59 0.0013 22.7 1.7 23 32-54 94-116 (151)
109 cd01807 GDX_N ubiquitin-like d 23.3 1.3E+02 0.0028 17.5 3.0 34 3-36 7-40 (74)
110 cd01615 CIDE_N CIDE_N domain, 23.1 1.6E+02 0.0034 18.7 3.5 30 17-48 21-50 (78)
111 cd04623 CBS_pair_10 The CBS do 22.9 69 0.0015 18.4 1.7 21 48-68 2-22 (113)
112 PRK08383 putative monovalent c 22.7 1.1E+02 0.0024 21.7 3.0 29 35-63 132-164 (168)
113 cd01804 midnolin_N Ubiquitin-l 22.7 1.5E+02 0.0033 17.7 3.3 32 4-35 9-40 (78)
114 smart00116 CBS Domain in cysta 22.5 66 0.0014 15.1 1.4 21 49-69 2-22 (49)
115 PF14419 SPOUT_MTase_2: AF2226 22.5 1.2E+02 0.0026 22.2 3.2 50 4-64 70-119 (173)
116 cd04622 CBS_pair_9 The CBS dom 22.5 69 0.0015 18.6 1.7 24 48-71 2-25 (113)
117 cd01805 RAD23_N Ubiquitin-like 22.4 1.7E+02 0.0036 16.8 3.5 29 4-32 8-36 (77)
118 PF14216 DUF4326: Domain of un 22.3 50 0.0011 21.0 1.1 24 39-66 21-44 (86)
119 PF05979 DUF896: Bacterial pro 22.3 20 0.00042 22.3 -0.8 17 35-51 44-60 (65)
120 PF12813 XPG_I_2: XPG domain c 22.3 1.2E+02 0.0026 22.3 3.3 55 14-76 1-55 (246)
121 KOG2884|consensus 22.1 53 0.0012 25.4 1.4 16 43-65 211-226 (259)
122 PF06242 DUF1013: Protein of u 21.9 65 0.0014 22.9 1.7 18 47-64 117-136 (140)
123 cd04595 CBS_pair_DHH_polyA_Pol 21.8 73 0.0016 18.5 1.7 26 47-72 2-27 (110)
124 cd01794 DC_UbP_C dendritic cel 21.8 1.3E+02 0.0029 17.7 2.9 33 4-36 6-38 (70)
125 cd04641 CBS_pair_28 The CBS do 21.7 62 0.0013 19.4 1.4 22 48-69 2-23 (120)
126 PF10407 Cytokin_check_N: Cdc1 21.0 1E+02 0.0022 19.3 2.3 49 13-62 9-59 (73)
127 PF01243 Pyridox_oxidase: Pyri 20.9 1.3E+02 0.0028 17.2 2.6 27 23-51 2-28 (89)
128 KOG0031|consensus 20.4 67 0.0015 23.5 1.5 16 56-71 32-47 (171)
129 PF03722 Hemocyanin_N: Hemocya 20.2 1E+02 0.0022 20.7 2.3 24 44-67 60-83 (126)
130 PRK14066 exodeoxyribonuclease 20.1 48 0.001 20.7 0.7 13 54-66 23-35 (75)
131 cd01789 Alp11_N Ubiquitin-like 20.1 2.2E+02 0.0048 17.3 3.7 28 8-35 14-41 (84)
No 1
>cd06404 PB1_aPKC PB1 domain is an essential modular domain of the atypical protein kinase C (aPKC) which in complex with Par6 and Par3 proteins is crucial for establishment of apical-basal polarity of animal cells. PB1 domain is a modular domain mediating specific protein-protein interaction which play roles in many critical cell processes. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi,
Probab=100.00 E-value=1.1e-43 Score=229.38 Aligned_cols=75 Identities=56% Similarity=1.033 Sum_probs=74.3
Q ss_pred ccccCceEEEecCCCCChHHHHHHHHHhhcCCCCCeeeEEeeccCCCccccCcHHHHHHHHhhhhhCCCCceecC
Q psy5166 2 YLFSDEVFITYIKPDITYDRLQEEVKEMCKFSTDQVFTVKWVDEEGDPCLISTQMELEEAIRLYEVNHEPELVIH 76 (76)
Q Consensus 2 ~~~~gdi~~~~~~~~i~~e~L~~e~rd~c~~~~~q~fT~kwvDeEGDPctiSsq~ELeEA~RL~elnkdseL~iH 76 (76)
++|+||||+++++++++|++||+|+|++|+|.++|+||+||+||||||||||||+||+||||||++||||+|+||
T Consensus 5 ~~y~gdi~it~~d~~~s~e~L~~~v~~~c~~~~~q~ft~kw~DEEGDp~tiSS~~EL~EA~rl~~~n~~~~l~ih 79 (83)
T cd06404 5 AAYNGDIMITSIDPSISLEELCNEVRDMCRFHNDQPFTLKWIDEEGDPCTISSQMELEEAFRLYELNKDSELNIH 79 (83)
T ss_pred EEecCcEEEEEcCCCcCHHHHHHHHHHHhCCCCCCcEEEEEECCCCCceeecCHHHHHHHHHHHHhcCcccEEEE
Confidence 689999999999999999999999999999999999999999999999999999999999999999999999999
No 2
>KOG0695|consensus
Probab=100.00 E-value=8e-34 Score=225.55 Aligned_cols=75 Identities=48% Similarity=0.917 Sum_probs=74.3
Q ss_pred ccccCceEEEecCCCCChHHHHHHHHHhhcCCCCCeeeEEeeccCCCccccCcHHHHHHHHhhhhhCCCCceecC
Q psy5166 2 YLFSDEVFITYIKPDITYDRLQEEVKEMCKFSTDQVFTVKWVDEEGDPCLISTQMELEEAIRLYEVNHEPELVIH 76 (76)
Q Consensus 2 ~~~~gdi~~~~~~~~i~~e~L~~e~rd~c~~~~~q~fT~kwvDeEGDPctiSsq~ELeEA~RL~elnkdseL~iH 76 (76)
++|+|||+++|++|+++|++||+++||+|+++++|+||+||||||||||||||||||+||+||+++++|+||+||
T Consensus 20 a~y~g~i~i~~~~p~~~~e~~~~~vrd~c~~h~~q~~t~kwideegdp~tv~sqmeleea~r~~~~~~d~el~ih 94 (593)
T KOG0695|consen 20 AHYGGDIFITSVDPATTFEELCEEVRDMCRLHQQQPLTLKWIDEEGDPCTVSSQMELEEAFRLARQCRDEELIIH 94 (593)
T ss_pred EeecCcEEEEeccCcccHHHHHHHHHHHHHHhhcCCceeEeecCCCCcceechhhhHHHHHHHHHhccccceEEE
Confidence 689999999999999999999999999999999999999999999999999999999999999999999999998
No 3
>cd06396 PB1_NBR1 The PB1 domain is an essential part of NBR1 protein, next to BRCA1, a scaffold protein mediating specific protein-protein interaction with both titin protein kinase and with another scaffold protein p62. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. The NBR1 protein contains a type I PB1 domain.
Probab=99.90 E-value=6.2e-24 Score=136.52 Aligned_cols=65 Identities=22% Similarity=0.281 Sum_probs=62.7
Q ss_pred ccccCceEEEecCC--CCChHHHHHHHHHhhcCCCCCeeeEEeeccCCCccccCcHHHHHHHHhhhhhCC
Q psy5166 2 YLFSDEVFITYIKP--DITYDRLQEEVKEMCKFSTDQVFTVKWVDEEGDPCLISTQMELEEAIRLYEVNH 69 (76)
Q Consensus 2 ~~~~gdi~~~~~~~--~i~~e~L~~e~rd~c~~~~~q~fT~kwvDeEGDPctiSsq~ELeEA~RL~elnk 69 (76)
|+|+||++++++++ +.+|++|+++++..|+|+ +|++||+|||||||++|||.||+||+|+++-+.
T Consensus 5 aty~~d~~rf~~~~~~~~~~~~L~~ev~~rf~l~---~f~lKYlDde~e~v~lssd~eLeE~~rl~~~~~ 71 (81)
T cd06396 5 VTYNGESQSFLVSDSENTTWASVEAMVKVSFGLN---DIQIKYVDEENEEVSVNSQGEYEEALKSAVRQG 71 (81)
T ss_pred EEECCeEEEEEecCCCCCCHHHHHHHHHHHhCCC---cceeEEEcCCCCEEEEEchhhHHHHHHHHHhCC
Confidence 68999999999999 889999999999999999 999999999999999999999999999998775
No 4
>cd06407 PB1_NLP A PB1 domain is present in NIN like proteins (NLP), a key enzyme in a process of establishment of symbiosis betweeen legumes and nitrogen fixing bacteria (Rhizobium). The PB1 domain is a modular domain mediating specific protein-protein interaction which play a role in many critical cell processes like osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-inte
Probab=99.89 E-value=7.7e-23 Score=130.24 Aligned_cols=72 Identities=19% Similarity=0.421 Sum_probs=69.0
Q ss_pred ccccCceEEEecCCCCChHHHHHHHHHhhcCCCCCeeeEEeeccCCCccccCcHHHHHHHHhhhhhCCCCce
Q psy5166 2 YLFSDEVFITYIKPDITYDRLQEEVKEMCKFSTDQVFTVKWVDEEGDPCLISTQMELEEAIRLYEVNHEPEL 73 (76)
Q Consensus 2 ~~~~gdi~~~~~~~~i~~e~L~~e~rd~c~~~~~q~fT~kwvDeEGDPctiSsq~ELeEA~RL~elnkdseL 73 (76)
+.|+||+++++++++++|++|++++++.|++++.+.|++||+|+|||||+|++|.+|+||+|++..++.+.+
T Consensus 5 ~~~~~d~~r~~l~~~~~~~~L~~~i~~r~~~~~~~~f~LkY~Ddegd~v~ltsd~DL~eai~i~~~~~~~~v 76 (82)
T cd06407 5 ATYGEEKIRFRLPPSWGFTELKQEIAKRFKLDDMSAFDLKYLDDDEEWVLLTCDADLEECIDVYRSSGSHTI 76 (82)
T ss_pred EEeCCeEEEEEcCCCCCHHHHHHHHHHHhCCCCCCeeEEEEECCCCCeEEeecHHHHHHHHHHHHHCCCCeE
Confidence 689999999999999999999999999999998899999999999999999999999999999999887764
No 5
>cd06408 PB1_NoxR The PB1 domain is present in the Epichloe festucae NoxR protein (NADPH oxidase regulator), a key regulator of NADPH oxidase isoform, NoxA. NoxA is essential for growth control of the fungal endophyte in plant tissue in the process of symbiotic interaction between a fungi and its plant host. The Epichloe festucae p67(phox)-like regulator, NoxR, dispensable in culture but essential in plants for the symbiotic interaction. Plants infected with a noxR deletion mutant show severe stunting and premature senescence, whereas hyphae in the meristematic tissues show increased branching leading to increased fungal colonization of pseudostem and leaf blade tissue. The PB1 domain is a modular domain mediating specific protein-protein interactions which a play role in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is
Probab=99.88 E-value=9.4e-23 Score=132.26 Aligned_cols=63 Identities=21% Similarity=0.354 Sum_probs=60.3
Q ss_pred ccccCceEEEecCCCCChHHHHHHHHHhhcCCCCCeeeEEeeccCCCccccCcHHHHHHHHhhhhh
Q psy5166 2 YLFSDEVFITYIKPDITYDRLQEEVKEMCKFSTDQVFTVKWVDEEGDPCLISTQMELEEAIRLYEV 67 (76)
Q Consensus 2 ~~~~gdi~~~~~~~~i~~e~L~~e~rd~c~~~~~q~fT~kwvDeEGDPctiSsq~ELeEA~RL~el 67 (76)
++|+||++.+.++++|+|++||+++|+.|+|. |+||+||.|| ||||||+||++|++|||.+.-
T Consensus 7 v~~~~Dv~~i~v~~~i~f~dL~~kIrdkf~~~--~~~~iKykDE-GD~iti~sq~DLd~Ai~~a~~ 69 (86)
T cd06408 7 VHAQDDTRYIMIGPDTGFADFEDKIRDKFGFK--RRLKIKMKDD-GDMITMGDQDDLDMAIDTARS 69 (86)
T ss_pred EEecCcEEEEEcCCCCCHHHHHHHHHHHhCCC--CceEEEEEcC-CCCccccCHHHHHHHHHHHHH
Confidence 58999999999999999999999999999995 7999999999 999999999999999998874
No 6
>cd06402 PB1_p62 The PB1 domain is an essential part of p62 scaffold protein (alias sequestosome 1,SQSTM) involved in cell signaling, receptor internalization, and protein turnover. The PB1 domain is a modular domain mediating specific protein-protein interaction which play roles in many critical cell processes. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi, animals, and plants.
Probab=99.82 E-value=3.5e-20 Score=120.21 Aligned_cols=61 Identities=30% Similarity=0.390 Sum_probs=56.2
Q ss_pred CceEEEecCCCC--ChHHHHHHHHHhhcCCCCCeeeEEeeccCCCccccCcHHHHHHHHhhhh
Q psy5166 6 DEVFITYIKPDI--TYDRLQEEVKEMCKFSTDQVFTVKWVDEEGDPCLISTQMELEEAIRLYE 66 (76)
Q Consensus 6 gdi~~~~~~~~i--~~e~L~~e~rd~c~~~~~q~fT~kwvDeEGDPctiSsq~ELeEA~RL~e 66 (76)
-+|+++++++.. +|++|+++++++|.+..+|+||+||.|+||||||||||+||.+|+....
T Consensus 14 ~EIRRf~l~~~~~~s~~~L~~~V~~~f~~l~~~~ftlky~DeeGDlvtIssdeEL~~A~~~~~ 76 (87)
T cd06402 14 AEIRRFAIDEDVSTSYEYLVEKVAAVFPSLRGKNFQLFWKDEEGDLVAFSSDEELVMALGSLN 76 (87)
T ss_pred cceEEEEecCCCCcCHHHHHHHHHHHccccCCCcEEEEEECCCCCEEeecCHHHHHHHHHcCC
Confidence 589999996654 8999999999999999999999999999999999999999999987754
No 7
>smart00666 PB1 PB1 domain. Phox and Bem1p domain, present in many eukaryotic cytoplasmic signalling proteins. The domain adopts a beta-grasp fold, similar to that found in ubiquitin and Ras-binding domains. A motif, variously termed OPR, PC and AID, represents the most conserved region of the majority of PB1 domains, and is necessary for PB1 domain function. This function is the formation of PB1 domain heterodimers, although not all PB1 domain pairs associate.
Probab=99.65 E-value=7.2e-16 Score=94.07 Aligned_cols=74 Identities=28% Similarity=0.469 Sum_probs=68.2
Q ss_pred ccccCceEEEecCCCCChHHHHHHHHHhhcCCCCCeeeEEeeccCCCccccCcHHHHHHHHhhhhhCCCCceecC
Q psy5166 2 YLFSDEVFITYIKPDITYDRLQEEVKEMCKFSTDQVFTVKWVDEEGDPCLISTQMELEEAIRLYEVNHEPELVIH 76 (76)
Q Consensus 2 ~~~~gdi~~~~~~~~i~~e~L~~e~rd~c~~~~~q~fT~kwvDeEGDPctiSsq~ELeEA~RL~elnkdseL~iH 76 (76)
++|+|+++++.++++++|++|++++.+.+++.. +.|+++|.|+|||.++++++.+|.+|++++..++...|.||
T Consensus 6 ~~~~~~~~~~~~~~~~s~~dL~~~i~~~~~~~~-~~~~l~Y~Dedgd~v~l~sd~Dl~~a~~~~~~~~~~~l~l~ 79 (81)
T smart00666 6 LRYGGETRRLSVPRDISFEDLRSKVAKRFGLDN-QSFTLKYQDEDGDLVSLTSDEDLEEAIEEYDSLGSKKLRLH 79 (81)
T ss_pred EEECCEEEEEEECCCCCHHHHHHHHHHHhCCCC-CCeEEEEECCCCCEEEecCHHHHHHHHHHHHHcCCceEEEE
Confidence 578999999999999999999999999999876 57999999999999999999999999999998877777664
No 8
>cd05992 PB1 The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as a noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi, animals, and plants.
Probab=99.63 E-value=1.4e-15 Score=92.13 Aligned_cols=74 Identities=24% Similarity=0.377 Sum_probs=67.7
Q ss_pred ccccCceEEEecC-CCCChHHHHHHHHHhhcCCCCCeeeEEeeccCCCccccCcHHHHHHHHhhhhhCCCCceecC
Q psy5166 2 YLFSDEVFITYIK-PDITYDRLQEEVKEMCKFSTDQVFTVKWVDEEGDPCLISTQMELEEAIRLYEVNHEPELVIH 76 (76)
Q Consensus 2 ~~~~gdi~~~~~~-~~i~~e~L~~e~rd~c~~~~~q~fT~kwvDeEGDPctiSsq~ELeEA~RL~elnkdseL~iH 76 (76)
++|+|++++..++ .+++|++|++++++.+++.. +.|+++|.|+|||.++++|+.+|.+|++.+..+...-|.||
T Consensus 5 ~~~~~~~~~~~~~~~~~s~~~L~~~i~~~~~~~~-~~~~l~y~D~e~d~v~l~sd~Dl~~a~~~~~~~~~~~l~l~ 79 (81)
T cd05992 5 VKYGGEIRRFVVVSRSISFEDLRSKIAEKFGLDA-VSFKLKYPDEDGDLVTISSDEDLEEAIEEARRSGSKKLRLF 79 (81)
T ss_pred EEecCCCEEEEEecCCCCHHHHHHHHHHHhCCCC-CcEEEEeeCCCCCEEEeCCHHHHHHHHHHHhhcCCccEEEE
Confidence 5799999999999 99999999999999999987 78999999999999999999999999999987666666553
No 9
>PF00564 PB1: PB1 domain; InterPro: IPR000270 The Phox and Bem1p domain, is present in many eukaryotic cytoplasmic signalling proteins. The domain adopts a beta-grasp fold, similar to that found in ubiquitin and Ras-binding domains. A motif, variously termed OPR, PC and AID, represents the most conserved region of the majority of PB1 domains, and is necessary for PB1 domain function. This function is the formation of PB1 domain heterodimers, although not all PB1 domain pairs associate.; GO: 0005515 protein binding; PDB: 1IPG_A 1IP9_A 2KFK_A 1WMH_A 1VD2_A 1WI0_A 1OEY_C 1PQS_A 1Q1O_A 1TZ1_A ....
Probab=99.60 E-value=4.9e-15 Score=90.27 Aligned_cols=74 Identities=24% Similarity=0.431 Sum_probs=66.3
Q ss_pred ccccCceEE-EecCCCCChHHHHHHHHHhhcCCCCCeeeEEeeccCCCccccCcHHHHHHHHhhhhhCCCCceecC
Q psy5166 2 YLFSDEVFI-TYIKPDITYDRLQEEVKEMCKFSTDQVFTVKWVDEEGDPCLISTQMELEEAIRLYEVNHEPELVIH 76 (76)
Q Consensus 2 ~~~~gdi~~-~~~~~~i~~e~L~~e~rd~c~~~~~q~fT~kwvDeEGDPctiSsq~ELeEA~RL~elnkdseL~iH 76 (76)
++|+|++++ ..+.++++|++|.++++..|++. ...|+++|.|+|||.++|++|.+|.+|+..+.-.+...|.+|
T Consensus 6 ~~~~~~~~~~~~~~~~~s~~~L~~~i~~~~~~~-~~~~~l~Y~D~dgD~V~i~sd~Dl~~a~~~~~~~~~~~lrl~ 80 (84)
T PF00564_consen 6 VRYGGDIRRIISLPSDVSFDDLRSKIREKFGLL-DEDFQLKYKDEDGDLVTISSDEDLQEAIEQAKESGSKTLRLF 80 (84)
T ss_dssp EEETTEEEEEEEECSTSHHHHHHHHHHHHHTTS-TSSEEEEEEETTSSEEEESSHHHHHHHHHHHHHCTTSCEEEE
T ss_pred EEECCeeEEEEEcCCCCCHHHHHHHHHHHhCCC-CccEEEEeeCCCCCEEEeCCHHHHHHHHHHHHhcCCCcEEEE
Confidence 579999999 99999999999999999999998 668999999999999999999999999999987544455543
No 10
>cd06397 PB1_UP1 Uncharacterized protein 1. The PB1 domain is a modular domain mediating specific protein-protein interaction which play a role in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions.
Probab=99.40 E-value=8.2e-13 Score=85.59 Aligned_cols=65 Identities=17% Similarity=0.262 Sum_probs=61.4
Q ss_pred ccccCceEEEecCCCCChHHHHHHHHHhhcCCCCCeeeEEeeccCCCccccCcHHHHHHHHhhhhh
Q psy5166 2 YLFSDEVFITYIKPDITYDRLQEEVKEMCKFSTDQVFTVKWVDEEGDPCLISTQMELEEAIRLYEV 67 (76)
Q Consensus 2 ~~~~gdi~~~~~~~~i~~e~L~~e~rd~c~~~~~q~fT~kwvDeEGDPctiSsq~ELeEA~RL~el 67 (76)
+.|+|+.++++++..+++++|.+|+..+++++... |.++|+||+||-+|+||..||+||+|+...
T Consensus 5 v~~~g~~RRf~~~~~pt~~~L~~kl~~Lf~lp~~~-~~vtYiDeD~D~ITlssd~eL~d~~~~~~~ 69 (82)
T cd06397 5 SSFLGDTRRIVFPDIPTWEALASKLENLYNLPEIK-VGVTYIDNDNDEITLSSNKELQDFYRLSHR 69 (82)
T ss_pred EEeCCceEEEecCCCccHHHHHHHHHHHhCCChhH-eEEEEEcCCCCEEEecchHHHHHHHHhccc
Confidence 47999999999999999999999999999999875 999999999999999999999999997654
No 11
>cd06398 PB1_Joka2 The PB1 domain is present in the Nicotiana plumbaginifolia Joka2 protein which interacts with sulfur stress inducible UP9 protein. The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module
Probab=99.36 E-value=4.3e-12 Score=82.29 Aligned_cols=64 Identities=23% Similarity=0.431 Sum_probs=60.8
Q ss_pred ccccCceEEEecCC-----CCChHHHHHHHHHhhcCCCCCeeeEEeeccCCCccccCcHHHHHHHHhhh
Q psy5166 2 YLFSDEVFITYIKP-----DITYDRLQEEVKEMCKFSTDQVFTVKWVDEEGDPCLISTQMELEEAIRLY 65 (76)
Q Consensus 2 ~~~~gdi~~~~~~~-----~i~~e~L~~e~rd~c~~~~~q~fT~kwvDeEGDPctiSsq~ELeEA~RL~ 65 (76)
+.|+|+++++.++. +++|++|.+|+++.++++....|+++|.||+||-++++++.+|+||+...
T Consensus 5 v~y~~~~rRf~l~~~~~~~d~~~~~L~~kI~~~f~l~~~~~~~l~Y~Dedgd~V~l~~D~DL~~a~~~~ 73 (91)
T cd06398 5 VKYGGTLRRFTFPVAENQLDLNMDGLREKVEELFSLSPDADLSLTYTDEDGDVVTLVDDNDLTDAIQYF 73 (91)
T ss_pred EEeCCEEEEEEeccccccCCCCHHHHHHHHHHHhCCCCCCcEEEEEECCCCCEEEEccHHHHHHHHHHH
Confidence 57999999999996 69999999999999999988899999999999999999999999999884
No 12
>cd06401 PB1_TFG The PB1 domain found in TFG protein, an oncogenic gene product and fusion partner to nerve growth factor tyrosine kinase receptor TrkA and to the tyrosine kinase ALK. The PB1 domain is a modular domain mediating specific protein-protein interaction in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. The PB1 domains of TFG represent a type I/II PB1 domain. The physiological function of TFG remains unknown.
Probab=99.29 E-value=9.7e-12 Score=80.29 Aligned_cols=66 Identities=26% Similarity=0.358 Sum_probs=59.7
Q ss_pred ccccCceEEEecCC-CCChHHHHHHHHHhhc--CCCCCeeeEEeeccCCCccccCcHHHHHHHHhhhhh
Q psy5166 2 YLFSDEVFITYIKP-DITYDRLQEEVKEMCK--FSTDQVFTVKWVDEEGDPCLISTQMELEEAIRLYEV 67 (76)
Q Consensus 2 ~~~~gdi~~~~~~~-~i~~e~L~~e~rd~c~--~~~~q~fT~kwvDeEGDPctiSsq~ELeEA~RL~el 67 (76)
+.|+|||+..++++ +++|.+|.+.++.+++ |+....|++||-|+|||-+||+|..||..|+...+.
T Consensus 5 ~~~g~DiR~~~~~~~~~t~~~L~~~v~~~F~~~~~~~~~flIKYkD~dGDlVTIts~~dL~~A~~~~~~ 73 (81)
T cd06401 5 AQLGDDIRRIPIHNEDITYDELLLMMQRVFRGKLGSSDDVLIKYKDEDGDLITIFDSSDLSFAIQCSRI 73 (81)
T ss_pred EEeCCeEEEEeccCccccHHHHHHHHHHHhccccCCcccEEEEEECCCCCEEEeccHHHHHHHHhcCcc
Confidence 57999999999997 5899999999999998 667788999999999999999999999999877653
No 13
>cd06409 PB1_MUG70 The MUG70 protein is a product of the meiotically up-regulated gene 70 which has a role in meiosis and harbors a PB1 domain. The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domains depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic amino acid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is
Probab=98.69 E-value=7.4e-08 Score=62.45 Aligned_cols=66 Identities=18% Similarity=0.292 Sum_probs=60.5
Q ss_pred ccCceEEEecCCCCChHHHHHHHHHhhcCCCC--CeeeEEeeccCCCccccCcHHHHHHHHhhhhhCC
Q psy5166 4 FSDEVFITYIKPDITYDRLQEEVKEMCKFSTD--QVFTVKWVDEEGDPCLISTQMELEEAIRLYEVNH 69 (76)
Q Consensus 4 ~~gdi~~~~~~~~i~~e~L~~e~rd~c~~~~~--q~fT~kwvDeEGDPctiSsq~ELeEA~RL~elnk 69 (76)
-+|++.++.+.++-++.+|.++|..=.+.+.. ..|.++|+|+|||...+.++..|.||+.++..-.
T Consensus 8 ~~GrvhRf~~~~s~~~~~L~~~I~~Rl~~d~~~~~~~~L~YlDDEgD~VllT~D~DL~e~v~iar~~g 75 (86)
T cd06409 8 PKGRVHRFRLRPSESLEELRTLISQRLGDDDFETHLYALSYVDDEGDIVLITSDSDLVAAVLVARSAG 75 (86)
T ss_pred CCCCEEEEEecCCCCHHHHHHHHHHHhCCccccCCcccEEEEcCCCCEEEEeccchHHHHHHHHHHcC
Confidence 37999999999999999999999999988875 7899999999999999999999999999886543
No 14
>cd06403 PB1_Par6 The PB1 domain is an essential part of Par6 protein which in complex with Par3 and aPKC proteins is crucial for establishment of apical-basal polarity of animal cells. The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi, animals, and plants. The
Probab=98.52 E-value=4.9e-07 Score=58.47 Aligned_cols=61 Identities=13% Similarity=0.201 Sum_probs=57.3
Q ss_pred ccccCceEEEecCCC--CChHHHHHHHHHhhcCCCCCeeeEEeeccCCCccccCcHHHHHHHHh
Q psy5166 2 YLFSDEVFITYIKPD--ITYDRLQEEVKEMCKFSTDQVFTVKWVDEEGDPCLISTQMELEEAIR 63 (76)
Q Consensus 2 ~~~~gdi~~~~~~~~--i~~e~L~~e~rd~c~~~~~q~fT~kwvDeEGDPctiSsq~ELeEA~R 63 (76)
..|+++.++++++.. .+|++++..+..+-.+.+- +|+++|.|..||-.+|+++.++.+|+.
T Consensus 5 SkfdaEfRRFsl~r~~~~~f~ef~~ll~~lH~l~~~-~f~i~Y~D~~gDLLPInNDdNf~kAls 67 (80)
T cd06403 5 SKFDAEFRRFSLDRNKPGKFEDFYKLLEHLHHIPNV-DFLIGYTDPHGDLLPINNDDNFLKALS 67 (80)
T ss_pred cccCCeEEEEEeccccCcCHHHHHHHHHHHhCCCCC-cEEEEEeCCCCCEecccCcHHHHHHHH
Confidence 468999999999997 8999999999999999985 899999999999999999999999985
No 15
>cd06410 PB1_UP2 Uncharacterized protein 2. The PB1 domain is a modular domain mediating specific protein-protein interaction which play a role in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions.
Probab=97.60 E-value=0.00037 Score=45.68 Aligned_cols=61 Identities=21% Similarity=0.344 Sum_probs=53.1
Q ss_pred ccCceEEEecCCCCChHHHHHHHHHhhcCCCCCeeeEEee--ccCCC-ccccCcHHHHHHHHhhhh
Q psy5166 4 FSDEVFITYIKPDITYDRLQEEVKEMCKFSTDQVFTVKWV--DEEGD-PCLISTQMELEEAIRLYE 66 (76)
Q Consensus 4 ~~gdi~~~~~~~~i~~e~L~~e~rd~c~~~~~q~fT~kwv--DeEGD-PctiSsq~ELeEA~RL~e 66 (76)
-+|+..+.+++.++||.+|..++.++|+.... +++||- +|+-| -++|+++..|...+.-|.
T Consensus 20 ~GG~tr~i~V~r~~s~~el~~kl~~~~~~~~~--~~lky~Lp~edld~Lisv~~DeDl~~M~~e~~ 83 (97)
T cd06410 20 VGGETRIVSVDRSISFKELVSKLSELFGAGVV--VTLKYQLPDEDLDALISVSNDEDLKNMMEEYD 83 (97)
T ss_pred cCCceEEEEEcCCCCHHHHHHHHHHHhCCCCc--eEEEEEcCCCCcceeEEecCcHHHHHHHHhhc
Confidence 36788899999999999999999999998865 999996 57677 789999999998887665
No 16
>cd06406 PB1_P67 A PB1 domain is present in p67 proteins which forms a signaling complex with p40, a crucial step for activation of NADPH oxidase during phagocytosis. PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes . A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi, animals, and plants. The p67 proteins contain
Probab=96.86 E-value=0.0065 Score=39.16 Aligned_cols=62 Identities=11% Similarity=0.222 Sum_probs=51.2
Q ss_pred ccccCceEEEecCCCCChHHHHHHHHHhhcCCCCCeeeEEeeccCCCccccCcHHHHHHHHhhh
Q psy5166 2 YLFSDEVFITYIKPDITYDRLQEEVKEMCKFSTDQVFTVKWVDEEGDPCLISTQMELEEAIRLY 65 (76)
Q Consensus 2 ~~~~gdi~~~~~~~~i~~e~L~~e~rd~c~~~~~q~fT~kwvDeEGDPctiSsq~ELeEA~RL~ 65 (76)
.+|++ .......+.++|.+|++++++=.++.++ -.++.|-||.+.-....++.+|+.|+...
T Consensus 7 V~f~~-tIaIrvp~~~~y~~L~~ki~~kLkl~~e-~i~LsYkde~s~~~v~l~d~dle~aws~~ 68 (80)
T cd06406 7 VHFKY-TVAIQVARGLSYATLLQKISSKLELPAE-HITLSYKSEASGEDVILSDTNMEDVWSQA 68 (80)
T ss_pred EEEEE-EEEEEcCCCCCHHHHHHHHHHHhCCCch-hcEEEeccCCCCCccCcChHHHHHHHHhh
Confidence 46777 6777799999999999999999999855 48999999776555555899999998764
No 17
>cd06405 PB1_Mekk2_3 The PB1 domain is present in the two mitogen-activated protein kinase kinases MEKK2 and MEKK3 which are two members of the signaling kinase cascade involved in angiogenesis and early cardiovascular development. The PB1 domain of MEKK2 (and/or MEKK3) interacts with the PB1 domain of another member of the kinase cascade Map2k5. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, f
Probab=96.75 E-value=0.0088 Score=38.74 Aligned_cols=61 Identities=20% Similarity=0.267 Sum_probs=52.0
Q ss_pred cccCceEEEecCCCCChHHHHHHHHHhhcCCCCCeeeEEeeccCCCccccCcHHHHHHHHhhhhhC
Q psy5166 3 LFSDEVFITYIKPDITYDRLQEEVKEMCKFSTDQVFTVKWVDEEGDPCLISTQMELEEAIRLYEVN 68 (76)
Q Consensus 3 ~~~gdi~~~~~~~~i~~e~L~~e~rd~c~~~~~q~fT~kwvDeEGDPctiSsq~ELeEA~RL~eln 68 (76)
-|+|.-+|.-+..++.|++|.+++.+.|+ |+..+.+...| =-+-+-.|.+|+-|+-+...+
T Consensus 6 E~~gEKRIi~f~RPvkf~dl~~kv~~afG----q~mdl~ytn~e-L~iPl~~Q~DLDkAie~ld~s 66 (79)
T cd06405 6 EHNGEKRIIQFPRPVKFKDLQQKVTTAFG----QPMDLHYTNNE-LLIPLKNQEDLDRAIELLDRS 66 (79)
T ss_pred EecCceEEEecCCCccHHHHHHHHHHHhC----CeeeEEEeccc-EEEeccCHHHHHHHHHHHccC
Confidence 58999999999999999999999999996 45778887655 455566999999999987764
No 18
>cd06395 PB1_Map2k5 PB1 domain is essential part of the mitogen-activated protein kinase kinase 5 (Map2k5, alias MEK5) one of the key member of the signaling kinases cascade which involved in angiogenesis and early cardiovascular development. The PB1 domain of Map2k5 interacts with the PB1 domain of another members of kinase cascade MEKK2 (or MEKK3). A canonical PB1-PB1 interaction, involving heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. The Map2k5 protein contains a type I PB1 domain.
Probab=96.30 E-value=0.0095 Score=39.33 Aligned_cols=50 Identities=14% Similarity=0.364 Sum_probs=41.8
Q ss_pred CCCChHHHHHHHHHhhcCCCCCeeeEEeeccCCCccccCcHHHHHHHHhhhh
Q psy5166 15 PDITYDRLQEEVKEMCKFSTDQVFTVKWVDEEGDPCLISTQMELEEAIRLYE 66 (76)
Q Consensus 15 ~~i~~e~L~~e~rd~c~~~~~q~fT~kwvDeEGDPctiSsq~ELeEA~RL~e 66 (76)
+.++|.++.+-++++..=. .+....|-||+||-+||-|+.||+-.+..|.
T Consensus 21 ~~L~F~DvL~~I~~vlp~a--T~tAFeYEDE~gDRITVRSDeEm~AMlsyy~ 70 (91)
T cd06395 21 PQLLFRDVLDVIGQVLPEA--TTTAFEYEDEDGDRITVRSDEEMKAMLSYYC 70 (91)
T ss_pred ccccHHHHHHHHHHhcccc--cccceeeccccCCeeEecchHHHHHHHHHHH
Confidence 5589999999999986544 3456678899999999999999998887653
No 19
>PF06970 RepA_N: Replication initiator protein A (RepA) N-terminus; InterPro: IPR010724 This entry represents the N terminus (approximately 80 residues) of replication initiator protein A (RepA), a DNA replication initiator in plasmids []. Most proteins in this entry are bacterial, but archaeal and eukaryotic members are also included.
Probab=94.11 E-value=0.025 Score=35.51 Aligned_cols=41 Identities=24% Similarity=0.369 Sum_probs=30.8
Q ss_pred HHHHHHHhhcCCCCCeeeEEeeccCCCccccCcHHHHHHHHhhhh
Q psy5166 22 LQEEVKEMCKFSTDQVFTVKWVDEEGDPCLISTQMELEEAIRLYE 66 (76)
Q Consensus 22 L~~e~rd~c~~~~~q~fT~kwvDeEGDPctiSsq~ELeEA~RL~e 66 (76)
|..-+++-.+++.+ =.||||+|+.+-+-|..||.+.+...+
T Consensus 26 lY~ll~dR~~lS~k----n~wiDe~G~vYi~~s~eel~~~L~~s~ 66 (76)
T PF06970_consen 26 LYSLLLDRLRLSLK----NGWIDENGNVYIIFSIEELMELLNCSK 66 (76)
T ss_pred HHHHHHHHHHhhhh----cCcCCCCCCEEEEeeHHHHHHHHCCCH
Confidence 44445555555543 349999999999999999999887654
No 20
>cd06399 PB1_P40 The PB1 domain is essential part of the p40 adaptor protein which plays an important role in activating phagocyte NADPH oxidase during phagocytosis. The PB1 domain is a modular domain mediating specific protein-protein interaction which play a role in many critical cell processes , such as osteoclastogenesis, angiogenesis, early cardiovascular development and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. The PB1 domain of p40 represents a type I PB1 domain which interacts with the PB1 domain of oxidase activator p67 w
Probab=92.49 E-value=0.33 Score=32.24 Aligned_cols=51 Identities=14% Similarity=0.150 Sum_probs=42.3
Q ss_pred ecCCCCChHHHHHHHHHhhcCCCCCeeeEEeeccCCCccccCcHHHHHHHHhhh
Q psy5166 12 YIKPDITYDRLQEEVKEMCKFSTDQVFTVKWVDEEGDPCLISTQMELEEAIRLY 65 (76)
Q Consensus 12 ~~~~~i~~e~L~~e~rd~c~~~~~q~fT~kwvDeEGDPctiSsq~ELeEA~RL~ 65 (76)
++....+|.+|..-+|+.+.-. -+++-|.|-|||-+.+-|+.+++=.++=.
T Consensus 23 ~l~~~P~~kdLl~lmr~~f~~~---dIaLNYrD~EGDLIRllddeDv~LMV~~~ 73 (92)
T cd06399 23 DLSSTPLLKDLLELTRREFQRE---DIALNYRDAEGDLIRLLSDEDVALMVRQS 73 (92)
T ss_pred ccccCccHHHHHHHHHHHhchh---heeeeeecCCCCEEEEcchhhHHHHHHHH
Confidence 3445568999999999999877 57999999999999999999887655543
No 21
>smart00295 B41 Band 4.1 homologues. Also known as ezrin/radixin/moesin (ERM) protein domains. Present in myosins, ezrin, radixin, moesin, protein tyrosine phosphatases. Plasma membrane-binding domain. These proteins play structural and regulatory roles in the assembly and stabilization of specialized plasmamembrane domains. Some PDZ domain containing proteins bind one or more of this family. Now includes JAKs.
Probab=86.68 E-value=3.7 Score=27.46 Aligned_cols=58 Identities=16% Similarity=0.208 Sum_probs=45.7
Q ss_pred cccCceEEEecCCCCChHHHHHHHHHhhcCCCCCeeeEEeeccCCCc-cccCcHHHHHH
Q psy5166 3 LFSDEVFITYIKPDITYDRLQEEVKEMCKFSTDQVFTVKWVDEEGDP-CLISTQMELEE 60 (76)
Q Consensus 3 ~~~gdi~~~~~~~~i~~e~L~~e~rd~c~~~~~q~fT~kwvDeEGDP-ctiSsq~ELeE 60 (76)
-.+|......++++.+.+++++++...+++...+-|.+..++.++.. .-+++...+.+
T Consensus 10 l~dg~~~~~~~~~~~t~~ev~~~v~~~~~l~~~~~F~L~~~~~~~~~~~~l~~~~~l~~ 68 (207)
T smart00295 10 LLDGTTLEFEVDSSTTAEELLETVCRKLGIRESEYFGLQFEDPDEDLSHWLDPAKTLLD 68 (207)
T ss_pred ecCCCEEEEEECCCCCHHHHHHHHHHHhCCCccceeEEEEEcCCCCcCeeCCCccCHHH
Confidence 35788888899999999999999999999999899999999976644 23334333333
No 22
>cd06411 PB1_p51 The PB1 domain is present in the p51 protein, a homolog of the p67 protein. p51 plays an important role in NADPH oxidase activation during phagosytosis. The PB1 domain is a modular domain mediating specific protein-protein interaction in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain mo
Probab=79.63 E-value=11 Score=24.22 Aligned_cols=54 Identities=7% Similarity=-0.001 Sum_probs=43.1
Q ss_pred ecCCCCChHHHHHHHHHhhcCCCCCeeeEEeeccCCC-ccccCc-HHHHHHHHhhhh
Q psy5166 12 YIKPDITYDRLQEEVKEMCKFSTDQVFTVKWVDEEGD-PCLIST-QMELEEAIRLYE 66 (76)
Q Consensus 12 ~~~~~i~~e~L~~e~rd~c~~~~~q~fT~kwvDeEGD-PctiSs-q~ELeEA~RL~e 66 (76)
...+..+|..|.+.+.+-..+...+ .++.|-+++++ -.++.+ ..+|++|.+...
T Consensus 12 ~v~~g~~y~~L~~~ls~kL~l~~~~-~~LSY~~~~~~~~~v~l~~e~~me~aW~~v~ 67 (78)
T cd06411 12 RAPRGADVSSLRALLSQALPQQAQR-GQLSYRAPGEDGHWVPISGEESLQRAWQDVA 67 (78)
T ss_pred EccCCCCHHHHHHHHHHHhcCChhh-cEEEecCCCCCccEeecCcchHHHHHHHhcc
Confidence 4677889999999999999999875 78888776665 455555 899999998643
No 23
>PF09379 FERM_N: FERM N-terminal domain ; InterPro: IPR018979 This domain is the N-terminal ubiquitin-like structural domain of the FERM domain. The FERM domain (F for 4.1 protein, E for ezrin, R for radixin and M for moesin) is a widespread protein module involved in localising proteins to the plasma membrane []. FERM domains are found in a number of cytoskeletal-associated proteins that associate with various proteins at the interface between the plasma membrane and the cytoskeleton. The FERM domain is located at the N terminus of the majority of FERM-containing proteins [, ], which includes: Band 4.1, which links the spectrin-actin cytoskeleton of erythrocytes to the plasma membrane. Ezrin, a component of the undercoat of the microvilli plasma membrane. Moesin, which is probably involved in binding major cytoskeletal structures to the plasma membrane. Radixin, which is involved in the binding of the barbed end of actin filaments to the plasma membrane in the undercoat of the cell- to-cell adherens junction. Talin, a cytoskeletal protein concentrated in regions of cell-substratum contact and, in lymphocytes, of cell-cell contacts. Filopodin, a slime mold protein that binds actin and which is involved in the control of cell motility and chemotaxis. Merlin (or schwannomin). Protein NBL4. Unconventional myosins X, VIIa and XV, which are mutated in congenital deafness. Focal-adhesion kinases (FAKs), cytoplasmic protein tyrosine kinases involved in signalling through integrins. Janus tyrosine kinases (JAKs), cytoplasmic tyrosine kinases that are non-covalently associated with the cytoplasmic tails of receptors for cytokines or polypeptidic hormones. Non-receptor tyrosine-protein kinase TYK2. Protein-tyrosine phosphatases PTPN3 and PTPN4, enzyme that appear to act at junctions between the membrane and the cytoskeleton. Protein-tyrosine phosphatases PTPN14 and PTP-D1, PTP-RL10 and PTP2E. Caenorhabditis elegans protein phosphatase ptp-1. Ezrin, moesin, and radixin are highly related proteins (ERM protein family), but the other proteins in which the FERM domain is found do not share any region of similarity outside of this domain. ERM proteins are made of three domains, the FERM domain, a central helical domain and a C-terminal tail domain, which binds F-actin. The amino-acid sequence of the FERM domain is highly conserved among ERM proteins and is responsible for membrane association by direct binding to the cytoplasmic domain or tail of integral membrane proteins. ERM proteins are regulated by an intramolecular association of the FERM and C-terminal tail domains that masks their binding sites for other molecules. For cytoskeleton-membrane cross-linking, the dormant molecules becomes activated and the FERM domain attaches to the membrane by binding specific membrane proteins, while the last 34 residues of the tail bind actin filaments. Aside from binding to membranes, the activated FERM domain of ERM proteins can also bind the guanine nucleotide dissociation inhibitor of Rho GTPase (RhoDGI), which suggests that in addition to functioning as a cross-linker, ERM proteins may influence Rho signalling pathways. The crystal structure of the FERM domain reveals that it is composed of three structural modules (F1, F2, and F3) that together form a compact clover-shaped structure []. The FERM domain has also been called the amino-terminal domain, the 30kDa domain, 4.1N30, the membrane-cytoskeletal-linking domain, the ERM-like domain, the ezrin-like domain of the band 4.1 superfamily, the conserved N-terminal region, and the membrane attachment domain [].; PDB: 1EF1_B 1SGH_A 1E5W_A 2KC2_A 2KMA_A 3IVF_A 1H4R_B 3U8Z_A 1ISN_A 3BIN_A ....
Probab=79.54 E-value=3.2 Score=24.44 Aligned_cols=55 Identities=18% Similarity=0.318 Sum_probs=45.3
Q ss_pred ccCceEEEecCCCCChHHHHHHHHHhhcCCCCCeeeEEe-eccCCCccccCcHHHH
Q psy5166 4 FSDEVFITYIKPDITYDRLQEEVKEMCKFSTDQVFTVKW-VDEEGDPCLISTQMEL 58 (76)
Q Consensus 4 ~~gdi~~~~~~~~i~~e~L~~e~rd~c~~~~~q~fT~kw-vDeEGDPctiSsq~EL 58 (76)
..|......++++.+-.+|++++-+-.++...+-|.+.. .+..|...=+.+..-|
T Consensus 4 lD~~~~~~~v~~~~t~~~l~~~v~~~l~l~e~~~FgL~~~~~~~~~~~wL~~~k~l 59 (80)
T PF09379_consen 4 LDGTTKTFEVDPKTTGQDLLEQVCDKLGLKEKEYFGLQYQVDKDGEHHWLDLDKKL 59 (80)
T ss_dssp SSEEEEEEEEETTSBHHHHHHHHHHHHTTSSGGGEEEEE-EBTTSSEEEE-SSSBG
T ss_pred cCCCcEEEEEcCCCcHHHHHHHHHHHcCCCCccEEEEEEeecCCCcceeccCcccH
Confidence 367788999999999999999999999999999999999 7777777655554433
No 24
>PF14430 Imm1: Immunity protein Imm1
Probab=75.25 E-value=3 Score=27.50 Aligned_cols=30 Identities=23% Similarity=0.436 Sum_probs=25.0
Q ss_pred EEeeccC-CCccccCcHHHHHHHHhhhhhCC
Q psy5166 40 VKWVDEE-GDPCLISTQMELEEAIRLYEVNH 69 (76)
Q Consensus 40 ~kwvDeE-GDPctiSsq~ELeEA~RL~elnk 69 (76)
.+|+|.. |++..+++..|++++|+...-..
T Consensus 2 ~~~~~~~~~~~~~v~t~~evd~~l~~l~~~~ 32 (127)
T PF14430_consen 2 EAWYDRRQGHPVEVATPAEVDELLDRLAGPG 32 (127)
T ss_pred ceEEecCCCCeeEeCCHHHHHHHHHHHhccC
Confidence 3688855 99999999999999998876544
No 25
>PF02309 AUX_IAA: AUX/IAA family; InterPro: IPR003311 The Aux/IAA family of genes are key regulators of auxin-modified gene expression []. The plant hormone auxin (indole-3-acetic acid, IAA) regulates diverse cellular and developmental responses in plants, including cell division, expansion, differentiation and patterning of embryo responses []. Auxin can regulate the gene expression of several families, including GH3 and SAUR, as well as Aux/IAA itself. The Aux/IAA proteins act as repressors of auxin-induced gene expression, possibly through modulating the activity of DNA-binding auxin response factors (ARFs) (IPR010525 from INTERPRO). Aux/IAA and ARF are thought to interact through C-terminal protein-protein interaction domains found in both Aux/IAA and ARF. Recent evidence suggests that Aux/IAA proteins can also mediate light responses []. Some members of the AUX/IAA family are longer and contain an N-terminal DNA binding domain [] and may have an early function in the establishment of vascular and body patterns in embryonic and post-embryonic development in some plants.; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 2P1N_F 2P1Q_C 2P1O_C.
Probab=74.76 E-value=0.96 Score=32.43 Aligned_cols=48 Identities=17% Similarity=0.322 Sum_probs=0.0
Q ss_pred cCceEEEecCCCC--ChHHHHHHHHHhh---cCC----------------CCCeeeEEeeccCCCcccc
Q psy5166 5 SDEVFITYIKPDI--TYDRLQEEVKEMC---KFS----------------TDQVFTVKWVDEEGDPCLI 52 (76)
Q Consensus 5 ~gdi~~~~~~~~i--~~e~L~~e~rd~c---~~~----------------~~q~fT~kwvDeEGDPcti 52 (76)
.|..+-+.++.+. +|++|..++.+|+ .+. ++.-+++-|.|.|||-.-|
T Consensus 117 dG~~igRkVDL~~~~sY~~L~~~L~~MF~~~~i~~~~~~~~~~~~~~~~~~~~~~~l~Y~D~egd~mlv 185 (215)
T PF02309_consen 117 DGVPIGRKVDLSAYSSYEELSSALEKMFSCFSIEQCGSHGLNESGLLDLLNGSEYVLVYEDKEGDWMLV 185 (215)
T ss_dssp ---------------------------------------------------------------------
T ss_pred cCcccceecCHHHhhCHHHHHHHHHHhcCCCCccccccccccchhhccccCCcceeEEEECCCCCEEEe
Confidence 4444444555444 8999999999999 332 3345688999999997654
No 26
>PF11976 Rad60-SLD: Ubiquitin-2 like Rad60 SUMO-like; InterPro: IPR022617 This entry includes small ubiquitin-related modifier (SUMO) proteins. SUMOs are small proteins that are covalently attached to lysines as post-translational modifications and are used to control multiple cellular process including signal transduction, nuclear transport and DNA replication and repair []. Unlike ubiquitin, they are not involved in protein degradation. This entry also contains the C-terminal Rad60 DNA repair protein SUMO-like domain.; PDB: 3RD2_A 2JXX_A 3RCZ_A 3GOE_A 3A4S_D 3A4R_B 2IO1_D 1U4A_A 2K1F_A 1WZ0_A ....
Probab=67.91 E-value=15 Score=21.18 Aligned_cols=44 Identities=18% Similarity=0.225 Sum_probs=36.7
Q ss_pred ccCceEEEecCCCCChHHHHHHHHHhhcCCCCCeeeEEeeccCCCcc
Q psy5166 4 FSDEVFITYIKPDITYDRLQEEVKEMCKFSTDQVFTVKWVDEEGDPC 50 (76)
Q Consensus 4 ~~gdi~~~~~~~~i~~e~L~~e~rd~c~~~~~q~fT~kwvDeEGDPc 50 (76)
-+|.....++.+.-++..|.+..++..+.+..+.+.+.| | |.+.
T Consensus 8 ~~~~~~~~~v~~~~~~~~l~~~~~~~~~i~~~~~~~l~f-d--G~~L 51 (72)
T PF11976_consen 8 QDGKEIKFKVKPTTTVSKLIEKYCEKKGIPPEESIRLIF-D--GKRL 51 (72)
T ss_dssp TTSEEEEEEEETTSCCHHHHHHHHHHHTTTT-TTEEEEE-T--TEEE
T ss_pred CCCCEEEEEECCCCcHHHHHHHHHHhhCCCccceEEEEE-C--CEEc
Confidence 357788899999999999999999999999866788888 4 6554
No 27
>cd01812 BAG1_N Ubiquitin-like domain of BAG1. BAG1_N N-terminal ubiquitin-like (Ubl) domain of the BAG1 protein. This domain occurs together with the BAG domain and is closely related to the Ubl domain of a family of deubiquitinases that includes Rpn11, UBP6 (USP14), USP7 (HAUSP).
Probab=66.76 E-value=10 Score=21.66 Aligned_cols=64 Identities=11% Similarity=0.169 Sum_probs=43.1
Q ss_pred ccccCceEEEecCCCCChHHHHHHHHHhhcCCCCCeeeEEeeccCCCccccCcHHHHHHHHhhhhhCCCCceec
Q psy5166 2 YLFSDEVFITYIKPDITYDRLQEEVKEMCKFSTDQVFTVKWVDEEGDPCLISTQMELEEAIRLYEVNHEPELVI 75 (76)
Q Consensus 2 ~~~~gdi~~~~~~~~i~~e~L~~e~rd~c~~~~~q~fT~kwvDeEGDPctiSsq~ELeEA~RL~elnkdseL~i 75 (76)
..++|......++++.+.++|.+++.+..+++..+ ..+.+ .|.+.. . +.-+.-|.++..+.|.+
T Consensus 5 vk~~g~~~~i~v~~~~tv~~lK~~i~~~~gi~~~~-q~L~~---~g~~l~--d----~~~L~~~~i~~g~~l~v 68 (71)
T cd01812 5 VKHGGESHDLSISSQATFGDLKKMLAPVTGVEPRD-QKLIF---KGKERD--D----AETLDMSGVKDGSKVML 68 (71)
T ss_pred EEECCEEEEEEECCCCcHHHHHHHHHHhhCCChHH-eEEee---CCcccC--c----cCcHHHcCCCCCCEEEE
Confidence 35778888888999999999999999999988653 22222 254431 1 22344566666666654
No 28
>PHA02146 hypothetical protein
Probab=61.85 E-value=6.5 Score=25.57 Aligned_cols=23 Identities=26% Similarity=0.406 Sum_probs=19.8
Q ss_pred hcCCCCCeeeEEeeccCCCcccc
Q psy5166 30 CKFSTDQVFTVKWVDEEGDPCLI 52 (76)
Q Consensus 30 c~~~~~q~fT~kwvDeEGDPcti 52 (76)
-...|++-||+.=+|++||-+|-
T Consensus 21 hgi~ng~ef~v~~~d~dgd~~s~ 43 (86)
T PHA02146 21 HGITNGTEFTVTNIDDDGDLYTY 43 (86)
T ss_pred hCcCCCcEEEeeccccCCCeEee
Confidence 35678999999999999998873
No 29
>cd04609 CBS_pair_PALP_assoc2 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the pyridoxal-phosphate (PALP) dependent enzyme domain upstream. The vitamin B6 complex comprises pyridoxine, pyridoxal, and pyridoxamine, as well as the 5'-phosphate esters of pyridoxal (PALP) and pyridoxamine, the last two being the biologically active coenzyme derivatives. The members of the PALP family are principally involved in the biosynthesis of amino acids and amino acid-derived metabolites, but they are also found in the biosynthetic pathways of amino sugars and other amine-containing compounds. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently found in a wide range of different proteins. CBS domains usually come in tandem repeats, which associate to form a so-called Bateman domain or a CBS pair which is reflected in this model. The interface between the two CBS domains forms a cleft that is a pote
Probab=58.95 E-value=6.8 Score=22.75 Aligned_cols=25 Identities=16% Similarity=0.159 Sum_probs=19.9
Q ss_pred CCccccCcHHHHHHHHhhhhhCCCC
Q psy5166 47 GDPCLISTQMELEEAIRLYEVNHEP 71 (76)
Q Consensus 47 GDPctiSsq~ELeEA~RL~elnkds 71 (76)
|++.++++...+.||++...-++-+
T Consensus 1 ~~~~~v~~~~~~~~~~~~~~~~~~~ 25 (110)
T cd04609 1 GDVVSVAPDDTVSQAIERMREYGVS 25 (110)
T ss_pred CCcEEECCCCcHHHHHHHHHHcCCc
Confidence 7899999999999999887655433
No 30
>PF00036 EF-hand_1: EF hand; InterPro: IPR018248 Many calcium-binding proteins belong to the same evolutionary family and share a type of calcium-binding domain known as the EF-hand. This type of domain consists of a twelve residue loop flanked on both sides by a twelve residue alpha-helical domain. In an EF-hand loop the calcium ion is coordinated in a pentagonal bipyramidal configuration. The six residues involved in the binding are in positions 1, 3, 5, 7, 9 and 12; these residues are denoted by X, Y, Z, -Y, -X and -Z. The invariant Glu or Asp at position 12 provides two oxygens for liganding Ca (bidentate ligand).; PDB: 1BJF_A 1XFW_R 1XFV_O 2K0J_A 2F3Z_A 3BYA_A 1XFU_Q 2R28_B 1ZOT_B 3G43_D ....
Probab=55.82 E-value=12 Score=19.04 Aligned_cols=18 Identities=28% Similarity=0.497 Sum_probs=15.7
Q ss_pred HHHHHHhhhhhCCCCcee
Q psy5166 57 ELEEAIRLYEVNHEPELV 74 (76)
Q Consensus 57 ELeEA~RL~elnkdseL~ 74 (76)
|+++||+.+-.|+|-.+.
T Consensus 1 E~~~~F~~~D~d~dG~I~ 18 (29)
T PF00036_consen 1 ELKEAFREFDKDGDGKID 18 (29)
T ss_dssp HHHHHHHHHSTTSSSEEE
T ss_pred CHHHHHHHHCCCCCCcCC
Confidence 789999999999987764
No 31
>PF07929 PRiA4_ORF3: Plasmid pRiA4b ORF-3-like protein; InterPro: IPR012912 Members of this family are similar to the protein product of ORF-3 (Q44206 from SWISSPROT) found on plasmid pRiA4 in the bacterium Agrobacterium rhizogenes. This plasmid is responsible for tumourigenesis at wound sites of plants infected by this bacterium, but the ORF-3 product does not seem to be involved in the pathogenetic process []. Other proteins found in this family are annotated as being putative TnpR resolvases (Q9LCU7 from SWISSPROT, Q50439 from SWISSPROT), but no further evidence was found to back this. Moreover, another member of this family is described as a probable lexA repressor (Q7UEI4 from SWISSPROT) and in fact carries a LexA DNA binding domain (IPR006199 from INTERPRO), but no references were found to expand on this. ; PDB: 2I1S_A.
Probab=53.46 E-value=26 Score=24.00 Aligned_cols=35 Identities=17% Similarity=0.217 Sum_probs=23.9
Q ss_pred eEEEecCCCCChHHHHHHHHHhhcCCCCCeeeEEe
Q psy5166 8 VFITYIKPDITYDRLQEEVKEMCKFSTDQVFTVKW 42 (76)
Q Consensus 8 i~~~~~~~~i~~e~L~~e~rd~c~~~~~q~fT~kw 42 (76)
-++..++.++||++|..-|+.++.+.+.|++...-
T Consensus 19 wRri~Vp~~~tl~~Lh~~Iq~afgw~~~HL~~F~~ 53 (179)
T PF07929_consen 19 WRRIEVPADITLADLHEVIQAAFGWDDDHLYEFFI 53 (179)
T ss_dssp EEEEEEETT-BHHHHHHHHHHHTT----S-EEEEE
T ss_pred EEEEEECCCCCHHHHHHHHHHHhCcCCCEeEEEEE
Confidence 35667899999999999999999999999964443
No 32
>KOG0027|consensus
Probab=50.90 E-value=35 Score=22.50 Aligned_cols=21 Identities=24% Similarity=0.477 Sum_probs=16.6
Q ss_pred CcHHHHHHHHhhhhhCCCCce
Q psy5166 53 STQMELEEAIRLYEVNHEPEL 73 (76)
Q Consensus 53 Ssq~ELeEA~RL~elnkdseL 73 (76)
.+..||.||||.+-.+++--+
T Consensus 82 ~~~~el~eaF~~fD~d~~G~I 102 (151)
T KOG0027|consen 82 ASSEELKEAFRVFDKDGDGFI 102 (151)
T ss_pred ccHHHHHHHHHHHccCCCCcC
Confidence 456799999999998876543
No 33
>PF14275 DUF4362: Domain of unknown function (DUF4362)
Probab=50.58 E-value=44 Score=22.02 Aligned_cols=46 Identities=20% Similarity=0.302 Sum_probs=26.4
Q ss_pred cCceEEEecCCCCChHHHHHHHHHhhcCCCCCeeeEEeeccCCCcccc
Q psy5166 5 SDEVFITYIKPDITYDRLQEEVKEMCKFSTDQVFTVKWVDEEGDPCLI 52 (76)
Q Consensus 5 ~gdi~~~~~~~~i~~e~L~~e~rd~c~~~~~q~fT~kwvDeEGDPcti 52 (76)
+|||... -..-..++.|++=+.++=.=-....--+.+ ..||||+..
T Consensus 2 ~~DVi~~-~~~i~Nl~kl~~Fi~nv~~~k~d~IrIv~y-T~EGdPI~~ 47 (98)
T PF14275_consen 2 NNDVINK-HGEIENLDKLDQFIENVEQGKPDKIRIVQY-TIEGDPIFQ 47 (98)
T ss_pred CCCEEEe-CCeEEeHHHHHHHHHHHhcCCCCEEEEEEe-cCCCCCEEE
Confidence 4676665 333446666666665554433343344444 688999853
No 34
>PF14560 Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2KJ6_A 2KJR_A 1V6E_A 1T0Y_A.
Probab=50.52 E-value=50 Score=20.04 Aligned_cols=42 Identities=7% Similarity=0.189 Sum_probs=30.0
Q ss_pred eEEEecCCCCChHHHHHHHHHhhcCCCCCeeeEEeec-cCCCcc
Q psy5166 8 VFITYIKPDITYDRLQEEVKEMCKFSTDQVFTVKWVD-EEGDPC 50 (76)
Q Consensus 8 i~~~~~~~~i~~e~L~~e~rd~c~~~~~q~fT~kwvD-eEGDPc 50 (76)
..-..++.++++.+|+.++..+++.+... ..+...+ +.|.++
T Consensus 15 ~~ekr~~~~~Tv~eLK~kl~~~~Gi~~~~-m~L~l~~~~~~~~~ 57 (87)
T PF14560_consen 15 SVEKRFPKSITVSELKQKLEKLTGIPPSD-MRLQLKSDKDDSKI 57 (87)
T ss_dssp EEEEEEETTSBHHHHHHHHHHHHTS-TTT-EEEEEE-TSSSSEE
T ss_pred eEEEEcCCCCCHHHHHHHHHHHhCCCccc-EEEEEEecCCCccc
Confidence 45567899999999999999999999774 3455553 434333
No 35
>PF05726 Pirin_C: Pirin C-terminal cupin domain; InterPro: IPR008778 This entry represents C-terminal domain of Pirin proteins from both eukaryotes and prokaryotes. The function of Pirin is unknown but the gene coding for this protein is known to be expressed in all tissues in the human body although it is expressed most strongly in the liver and heart. Pirin is known to be a nuclear protein, exclusively localised within the nucleoplasma and predominantly concentrated within dot-like subnuclear structures []. Pirin is composed of two structurally similar domains arranged face to face. The N-terminal domain additionally features four beta-strands, and the C-terminal domain also includes four additional -strands and a short alpha-helix. Although the two domains are similar, the C-terminal domain of Pirin differs from the N-terminal domain as it does not contain a metal binding site and its sequence does not contain the conserved metal-coordinating residues []. Pirin is confirmed to be a member of the cupin superfamily on the basis of primary sequence and structural similarity. The presence of a metal binding site in the N-terminal beta-barrel of Pirin, may be significant in its role in regulating NFI DNA replication and NF-kappaB transcription factor activity []. Pirin structure has been found to closely resemble members of the cupin superfamily. Pirin contains the two characteristic sequences of the cupin superfamily, namely PG-(X)5-HXH-(X)4-E-(X)6-G and G-(X)5-PXG-(X)2-H-(X)3-N separated by a variable stretch of 15-50 amino acids. These motifs are best conserved in the N-terminal where the conserved histidine and glutamic acid residues correspond to the metal-coordinating residues. The C-terminal domain motifs lack the metal binding residues normally associated with the cupin fold []. Pirin was identified to be a metal-binding protein [], and was found that the metal-binding residues of Pirins are highly conserved across mammals, plants, fungi, and prokaryotic organisms. Pirin acts as a cofactor for the transcription factor NFI, the regulatory mechanism of which is generally believed to require the assistance of a metal ion []. Structural data supports the hypothesis that the bound iron of Pirin may participate in this transcriptional regulation by enhancing and stabilising the formation of the p50,Bcl3,DNA complex []. Metals have been implicated directly or indirectly in the NF-kappaB family of transcription factors that control expression of a number of early response genes associated with inflammatory responses, cell growth, cell cycle progression, and neoplastic transformation []. However, most metal-dependent transcription factors are DNA-binding proteins that bind to specific sequences when the metal binds to the protein. Pirin, on the other hand, appears to function differently and bind to the transcription factor DNA complex [].; PDB: 1J1L_A 3ACL_A 2P17_A.
Probab=50.27 E-value=17 Score=22.98 Aligned_cols=20 Identities=30% Similarity=0.554 Sum_probs=17.2
Q ss_pred ccccCcHHHHHHHHhhhhhC
Q psy5166 49 PCLISTQMELEEAIRLYEVN 68 (76)
Q Consensus 49 PctiSsq~ELeEA~RL~eln 68 (76)
|..++|+.|+++|++=|+-.
T Consensus 82 pFVmnt~eeI~qA~~dy~~g 101 (104)
T PF05726_consen 82 PFVMNTREEIEQAFEDYQNG 101 (104)
T ss_dssp TEEESSHHHHHHHHHHHHCT
T ss_pred CcccCCHHHHHHHHHHHHhC
Confidence 88899999999999877643
No 36
>COG1104 NifS Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]
Probab=50.06 E-value=13 Score=29.98 Aligned_cols=49 Identities=24% Similarity=0.452 Sum_probs=33.8
Q ss_pred cCceEEEecCCCCChHHHHHHHHHhhcCCCCCeeeEEeeccCCCccccCcHHHHHHHHh
Q psy5166 5 SDEVFITYIKPDITYDRLQEEVKEMCKFSTDQVFTVKWVDEEGDPCLISTQMELEEAIR 63 (76)
Q Consensus 5 ~gdi~~~~~~~~i~~e~L~~e~rd~c~~~~~q~fT~kwvDeEGDPctiSsq~ELeEA~R 63 (76)
+++|.++.+|+. -+.+.|++-..|-|.++|+.-+- -..|+. .+|++|+|
T Consensus 91 ~~HIIts~iEH~--------aVl~~~~~Le~~g~~Vtyl~V~~-~G~v~~-e~L~~al~ 139 (386)
T COG1104 91 GKHIITSAIEHP--------AVLNTCRYLERQGFEVTYLPVDS-NGLVDL-EQLEEALR 139 (386)
T ss_pred CCeEEEcccccH--------HHHHHHHHHHhcCCeEEEeCCCC-CCeEcH-HHHHHhcC
Confidence 568888888886 34566666666677777755422 345655 89999998
No 37
>PF13511 DUF4124: Domain of unknown function (DUF4124)
Probab=49.21 E-value=9.5 Score=21.66 Aligned_cols=10 Identities=60% Similarity=1.086 Sum_probs=8.6
Q ss_pred eEEeeccCCC
Q psy5166 39 TVKWVDEEGD 48 (76)
Q Consensus 39 T~kwvDeEGD 48 (76)
--||+|+.|-
T Consensus 15 vYk~~D~~G~ 24 (60)
T PF13511_consen 15 VYKWVDENGV 24 (60)
T ss_pred EEEEECCCCC
Confidence 5799999996
No 38
>PF08777 RRM_3: RNA binding motif; InterPro: IPR014886 This domain is found in protein La which functions as an RNA chaperone during RNA polymerase III transcription, and can also stimulate translation initiation. It contains a five stranded beta sheet which forms an atypical RNA recognition motif []. ; PDB: 1OWX_A.
Probab=46.30 E-value=24 Score=22.85 Aligned_cols=34 Identities=21% Similarity=0.293 Sum_probs=15.7
Q ss_pred eEEEe-cCCCCChHHHHHHHHHhhcCCCCCeeeEEeec-cCCCc
Q psy5166 8 VFITY-IKPDITYDRLQEEVKEMCKFSTDQVFTVKWVD-EEGDP 49 (76)
Q Consensus 8 i~~~~-~~~~i~~e~L~~e~rd~c~~~~~q~fT~kwvD-eEGDP 49 (76)
|+.++ +..+++.++| ++.|+-.. .++||| ..||.
T Consensus 3 il~~~g~~~~~~re~i----K~~f~~~g----~V~yVD~~~G~~ 38 (105)
T PF08777_consen 3 ILKFSGLGEPTSREDI----KEAFSQFG----EVAYVDFSRGDT 38 (105)
T ss_dssp EEEEEE--SS--HHHH----HHHT-SS------EEEEE--TT-S
T ss_pred EEEEecCCCCcCHHHH----HHHHHhcC----CcceEEecCCCC
Confidence 44444 7777775554 55554322 799999 67775
No 39
>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function.
Probab=44.32 E-value=29 Score=21.13 Aligned_cols=44 Identities=16% Similarity=0.441 Sum_probs=25.2
Q ss_pred CCChHHHHHHHHHhhcCCCCCeeeEEeeccCCCccccCcHHHHHHH
Q psy5166 16 DITYDRLQEEVKEMCKFSTDQVFTVKWVDEEGDPCLISTQMELEEA 61 (76)
Q Consensus 16 ~i~~e~L~~e~rd~c~~~~~q~fT~kwvDeEGDPctiSsq~ELeEA 61 (76)
.++=+++.+=+.+- ++...|+.+.|||+.-=.+.-.+..--..|
T Consensus 15 ~lsT~dI~~y~~~y--~~~~~~~~IEWIdDtScNvvf~d~~~A~~A 58 (62)
T PF10309_consen 15 ELSTDDIKAYFSEY--FDEEGPFRIEWIDDTSCNVVFKDEETAARA 58 (62)
T ss_pred CCCHHHHHHHHHHh--cccCCCceEEEecCCcEEEEECCHHHHHHH
Confidence 35556666555555 445569999999975433333343333333
No 40
>cd03347 eu_PheOH Eukaryotic phenylalanine-4-hydroxylase (eu_PheOH); a member of the biopterin-dependent aromatic amino acid hydroxylase family of non-heme, iron(II)-dependent enzymes that also includes prokaryotic phenylalanine-4-hydroxylase (pro_PheOH), eukaryotic tyrosine hydroxylase (TyrOH) and eukaryotic tryptophan hydroxylase (TrpOH). PheOH catalyzes the first and rate-limiting step in the metabolism of the amino acid L-phenylalanine (L-Phe), the hydroxylation of L-Phe to L-tyrosine (L-Tyr). It uses (6R)-L-erythro-5,6,7,8-tetrahydrobiopterin (BH4) as the physiological electron donor. The catalytic activity of the tetrameric enzyme is tightly regulated by the binding of L-Phe and BH4 as well as by phosphorylation. Mutations in the human enzyme are linked to a severe variant of phenylketonuria.
Probab=44.00 E-value=21 Score=27.99 Aligned_cols=30 Identities=13% Similarity=0.463 Sum_probs=25.5
Q ss_pred ChHHHHHHHHHhhcCCCCCeeeEEeeccCCCccccC
Q psy5166 18 TYDRLQEEVKEMCKFSTDQVFTVKWVDEEGDPCLIS 53 (76)
Q Consensus 18 ~~e~L~~e~rd~c~~~~~q~fT~kwvDeEGDPctiS 53 (76)
||++|.+++|..++--. .||.+.+ ||+|-|
T Consensus 273 Sfe~l~~~l~~f~~~~~-rpf~~~y-----~~~t~~ 302 (306)
T cd03347 273 SFEDAKEKLRNFAATIP-RPFSVRY-----NPYTQR 302 (306)
T ss_pred CHHHHHHHHHHHHHhCC-CCcccee-----cCccce
Confidence 89999999999987654 5999999 888865
No 41
>PF02017 CIDE-N: CIDE-N domain; InterPro: IPR003508 This domain consists of caspase-activated (CAD) nucleases, which induce DNA fragmentation and chromatin condensation during apoptosis, and the cell death activator proteins CIDE-A and CIDE-B, which are inhibitors of CAD nuclease. The two proteins interact through the region defined by the method signatures.; GO: 0006915 apoptosis, 0005622 intracellular; PDB: 1IBX_A 2EEL_A 1F2R_I 1C9F_A 1D4B_A.
Probab=43.94 E-value=41 Score=21.38 Aligned_cols=31 Identities=13% Similarity=0.290 Sum_probs=24.1
Q ss_pred CChHHHHHHHHHhhcCCCCCeeeEEeeccCCCc
Q psy5166 17 ITYDRLQEEVKEMCKFSTDQVFTVKWVDEEGDP 49 (76)
Q Consensus 17 i~~e~L~~e~rd~c~~~~~q~fT~kwvDeEGDP 49 (76)
-|+++|.+|..+.+.++. .++++ .++|+|--
T Consensus 21 ~sL~eL~~K~~~~l~~~~-~~~~l-vL~eDGT~ 51 (78)
T PF02017_consen 21 SSLEELLEKACDKLQLPE-EPVRL-VLEEDGTE 51 (78)
T ss_dssp SSHHHHHHHHHHHHT-SS-STCEE-EETTTTCB
T ss_pred CCHHHHHHHHHHHhCCCC-cCcEE-EEeCCCcE
Confidence 379999999999999998 46777 45788853
No 42
>cd01806 Nedd8 Nebb8-like ubiquitin protein. Nedd8 (also known as Rub1) has a single conserved ubiquitin-like domain that is part of a protein modification pathway similar to that of ubiquitin. Nedd8 modifies a family of molecular scaffold proteins called cullins that are responsible for assembling the ROC1/Rbx1 RING-based E3 ubiquitin ligases, of which several play a direct role in tumorigenesis.
Probab=42.92 E-value=52 Score=18.72 Aligned_cols=32 Identities=19% Similarity=0.279 Sum_probs=28.7
Q ss_pred ccCceEEEecCCCCChHHHHHHHHHhhcCCCC
Q psy5166 4 FSDEVFITYIKPDITYDRLQEEVKEMCKFSTD 35 (76)
Q Consensus 4 ~~gdi~~~~~~~~i~~e~L~~e~rd~c~~~~~ 35 (76)
.+|......++++.+..+|-+++....+++..
T Consensus 8 ~~g~~~~~~v~~~~tv~~lK~~i~~~~g~~~~ 39 (76)
T cd01806 8 LTGKEIEIDIEPTDKVERIKERVEEKEGIPPQ 39 (76)
T ss_pred CCCCEEEEEECCCCCHHHHHHHHhHhhCCChh
Confidence 57888888999999999999999999988866
No 43
>COG2086 FixA Electron transfer flavoprotein, beta subunit [Energy production and conversion]
Probab=42.17 E-value=27 Score=26.46 Aligned_cols=40 Identities=30% Similarity=0.303 Sum_probs=29.7
Q ss_pred CCeeeEEe----eccCCCccccCcHHH--HHHHHhhhhhCCCCcee
Q psy5166 35 DQVFTVKW----VDEEGDPCLISTQME--LEEAIRLYEVNHEPELV 74 (76)
Q Consensus 35 ~q~fT~kw----vDeEGDPctiSsq~E--LeEA~RL~elnkdseL~ 74 (76)
.+-+.++| ++-+|=|..|++..+ +|||+||-+.+...+.+
T Consensus 14 ~~~i~v~~~~~~~~~~gv~~~in~~D~~AvEeAlrLke~~~~~eV~ 59 (260)
T COG2086 14 ESKIRVDPDTGTLDRSGVPLSINPFDLNAVEEALRLKEKGYGGEVT 59 (260)
T ss_pred cceEEEecCCCccccCCCCcccChhhHHHHHHHHHhhccCCCceEE
Confidence 33455555 567899999987655 89999999977766654
No 44
>PF10342 GPI-anchored: Ser-Thr-rich glycosyl-phosphatidyl-inositol-anchored membrane family; InterPro: IPR018466 This entry represents glycoproteins involved in cell wall (1-->6)-beta-glucan assembly. In yeast a null mutation leads to severe growth defects, aberrant multi-budded morphology, and mating defects [, ]. The entry includes DRMIP and Hesp-379, which are involved in both fruiting body formation and in host attack respectively. Hesp-379 is a haustorially expressed secreted protein; the haustorium being the small sucker that penetrates host tissue [].
Probab=41.99 E-value=21 Score=21.16 Aligned_cols=17 Identities=29% Similarity=0.737 Sum_probs=12.7
Q ss_pred CCCCeeeEEeeccCCCc
Q psy5166 33 STDQVFTVKWVDEEGDP 49 (76)
Q Consensus 33 ~~~q~fT~kwvDeEGDP 49 (76)
..+++++++|-+...||
T Consensus 10 ~~g~~~~I~W~~~~~~~ 26 (93)
T PF10342_consen 10 TAGQPITITWTSDGTDP 26 (93)
T ss_pred ECCCcEEEEEeCCCCCC
Confidence 34579999997765566
No 45
>TIGR01269 Tyr_3_monoox tyrosine 3-monooxygenase, tetrameric. This model describes tyrosine 3-monooxygenase, a member of the family of tetrameric, biopterin-dependent aromatic amino acid hydroxylases found in metazoans. It is closely related to tetrameric phenylalanine-4-hydroxylase and tryptophan 5-monooxygenase, and more distantly related to the monomeric phenylalanine-4-hydroxylase found in some Gram-negative bacteria.
Probab=41.44 E-value=25 Score=29.10 Aligned_cols=30 Identities=17% Similarity=0.437 Sum_probs=26.0
Q ss_pred ChHHHHHHHHHhhcCCCCCeeeEEeeccCCCccccC
Q psy5166 18 TYDRLQEEVKEMCKFSTDQVFTVKWVDEEGDPCLIS 53 (76)
Q Consensus 18 ~~e~L~~e~rd~c~~~~~q~fT~kwvDeEGDPctiS 53 (76)
||+++.+++|..+.--. .||.+++ ||+|-|
T Consensus 396 Sfe~l~~~l~~f~~~~~-rPf~v~y-----~pyt~s 425 (457)
T TIGR01269 396 SFEDAKRKLRNYINTSG-RPFIVRF-----DPITET 425 (457)
T ss_pred CHHHHHHHHHHHHHhCC-CCcceee-----cCccce
Confidence 89999999999997654 5999999 898865
No 46
>cd04618 CBS_pair_5 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called Bateman domain or a CBS pair based on crystallographic studies in bacteria. The CBS pair was used as a basis for this cd hierarchy since the human CBS proteins can adopt the typical core structure and form an intramolecular CBS pair. The interface between the two CBS domains forms a cleft that is a potential ligand binding site. The CBS pair coexists with a variety of other functional domains and this has been used to help in its classification here. It has been proposed that the CBS domain may play a regulatory role, although its exact function is unknown. Mutations of conserved residues within this domain are associated with a variety of human hereditary diseases, including congenital myotonia, idiopathic genera
Probab=41.03 E-value=79 Score=18.87 Aligned_cols=58 Identities=14% Similarity=0.091 Sum_probs=37.7
Q ss_pred EEecCCCCChHHHHHHHHHhhcCCCCCeeeEEeeccC-CC---------------ccccCcHHHHHHHHhhhhhCCCCce
Q psy5166 10 ITYIKPDITYDRLQEEVKEMCKFSTDQVFTVKWVDEE-GD---------------PCLISTQMELEEAIRLYEVNHEPEL 73 (76)
Q Consensus 10 ~~~~~~~i~~e~L~~e~rd~c~~~~~q~fT~kwvDeE-GD---------------PctiSsq~ELeEA~RL~elnkdseL 73 (76)
...+++..+..+..+.+++-. +. .+-.+|++ |. |.+++++.-|.+|+++..-++-..|
T Consensus 3 ~~~v~~~~~l~~a~~~~~~~~-~~-----~~~Vvd~~~~~~~Givt~~Dl~~~~~~~~v~~~~~l~~a~~~m~~~~~~~l 76 (98)
T cd04618 3 LVVFDTKLPVKKAFNALVENG-IR-----SAPLWDSRKQQFVGMLTITDFILILRLVSIHPERSLFDAALLLLKNKIHRL 76 (98)
T ss_pred EEEECCCCcHHHHHHHHHHcC-Cc-----eEEEEeCCCCEEEEEEEHHHHhhheeeEEeCCCCcHHHHHHHHHHCCCCEe
Confidence 345778888888877774431 11 23335654 43 6789999999999998766654443
No 47
>cd01809 Scythe_N Ubiquitin-like domain of Scythe protein. Scythe protein (also known as Bat3) is an apoptotic regulator that is highly conserved in eukaryotes and contains a ubiquitin-like domain near its N-terminus. Scythe binds reaper, a potent apoptotic inducer, and Scythe/Reaper are thought to signal apoptosis, in part through regulating the folding and activity of apoptotic signaling molecules.
Probab=40.98 E-value=49 Score=18.64 Aligned_cols=32 Identities=16% Similarity=0.263 Sum_probs=28.1
Q ss_pred ccCceEEEecCCCCChHHHHHHHHHhhcCCCC
Q psy5166 4 FSDEVFITYIKPDITYDRLQEEVKEMCKFSTD 35 (76)
Q Consensus 4 ~~gdi~~~~~~~~i~~e~L~~e~rd~c~~~~~ 35 (76)
..|......++++.+..+|.+++...++.+..
T Consensus 8 ~~g~~~~~~v~~~~tv~~lK~~i~~~~gi~~~ 39 (72)
T cd01809 8 LDSQTHTFTVEEEITVLDLKEKIAEEVGIPVE 39 (72)
T ss_pred CCCCEEEEEECCCCcHHHHHHHHHHHHCcCHH
Confidence 46888899999999999999999999888654
No 48
>PF14495 Cytochrom_C550: Cytochrome c-550 domain; PDB: 3ARC_V 1IZL 3A0H_V 3A0B_v 1E29_A 1F1C_B 1S5L_V 4FBY_i 3PRR_V 3PRQ_V ....
Probab=40.79 E-value=21 Score=25.15 Aligned_cols=30 Identities=27% Similarity=0.451 Sum_probs=23.2
Q ss_pred CeeeEEeeccCCCccccCcHHHHHHHHhhhhh
Q psy5166 36 QVFTVKWVDEEGDPCLISTQMELEEAIRLYEV 67 (76)
Q Consensus 36 q~fT~kwvDeEGDPctiSsq~ELeEA~RL~el 67 (76)
.+.|+.+ |+.|+..|.|+ .|+.+.-||+.-
T Consensus 5 ~~rtv~l-n~~G~t~~~s~-~q~~~GkrLF~~ 34 (135)
T PF14495_consen 5 ETRTVPL-NEQGETVTFSP-EQLKRGKRLFNA 34 (135)
T ss_dssp TTTEEES-STTS-EEE--H-HHHHHHHHHHHH
T ss_pred cceeeee-CCCCCEEEECH-HHHHHHHHHHHH
Confidence 4678888 99999999998 799999999864
No 49
>PF06543 Lac_bphage_repr: Lactococcus bacteriophage repressor; InterPro: IPR009498 This entry represents the C terminus of various Lactococcus bacteriophage repressor proteins.
Probab=39.61 E-value=20 Score=21.36 Aligned_cols=25 Identities=36% Similarity=0.534 Sum_probs=20.5
Q ss_pred EEeeccCCCccccCcHHHHHHHHhhhhhC
Q psy5166 40 VKWVDEEGDPCLISTQMELEEAIRLYEVN 68 (76)
Q Consensus 40 ~kwvDeEGDPctiSsq~ELeEA~RL~eln 68 (76)
=+||--+|-|+| .|-++|+|+.--+
T Consensus 21 d~wvSf~GrPlt----devK~a~k~i~~~ 45 (49)
T PF06543_consen 21 DKWVSFDGRPLT----DEVKEAMKLIFGK 45 (49)
T ss_pred HHheeeCCeeCC----HHHHHHHHHHHhh
Confidence 378889999998 7899999986544
No 50
>cd01800 SF3a120_C Ubiquitin-like domain of Mammalian splicing factor SF3a_120. SF3a120_C Mammalian splicing factor SF3a consists of three subunits of 60, 66, and 120 kDa and functions early during pre-mRNA splicing by converting the U2 snRNP to its active form. The 120kDa subunit (SF3a120) has a carboxy-terminal ubiquitin-like domain and two SWAP (suppressor-of-white-apricot) domains, referred to collectively as the SURP module, at its amino-terminus.
Probab=39.52 E-value=47 Score=19.70 Aligned_cols=33 Identities=6% Similarity=0.070 Sum_probs=29.4
Q ss_pred cccCceEEEecCCCCChHHHHHHHHHhhcCCCC
Q psy5166 3 LFSDEVFITYIKPDITYDRLQEEVKEMCKFSTD 35 (76)
Q Consensus 3 ~~~gdi~~~~~~~~i~~e~L~~e~rd~c~~~~~ 35 (76)
..+|.++...++++.|..+|-+++......+..
T Consensus 4 ~l~g~~~~l~v~~~~TV~~lK~~i~~~~gip~~ 36 (76)
T cd01800 4 KLNGQMLNFTLQLSDPVSVLKVKIHEETGMPAG 36 (76)
T ss_pred ccCCeEEEEEECCCCcHHHHHHHHHHHHCCCHH
Confidence 468999999999999999999999998887765
No 51
>PRK09539 tRNA-splicing endonuclease subunit beta; Reviewed
Probab=39.32 E-value=91 Score=21.46 Aligned_cols=33 Identities=12% Similarity=0.306 Sum_probs=14.7
Q ss_pred CCCCChHHHHHHHHHhhcCCCCCeeeEEeeccCCC
Q psy5166 14 KPDITYDRLQEEVKEMCKFSTDQVFTVKWVDEEGD 48 (76)
Q Consensus 14 ~~~i~~e~L~~e~rd~c~~~~~q~fT~kwvDeEGD 48 (76)
...+++.+|.+.+|..=+... .|.+..||++||
T Consensus 79 ~~~is~~eL~~~vr~a~svrK--~lVLAVVD~egd 111 (124)
T PRK09539 79 NEKVSFKKILDKLHFSKSMNL--ELYLAIVDKYGD 111 (124)
T ss_pred CCccCHHHHHHHHHHHhhccc--eeEEEEEcCCCc
Confidence 344455555444444433321 244555555554
No 52
>cd04605 CBS_pair_MET2_assoc This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the MET2 domain. Met2 is a key enzyme in the biosynthesis of methionine. It encodes a homoserine transacetylase involved in converting homoserine to O-acetyl homoserine. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently found in a wide range of different proteins. CBS domains usually come in tandem repeats, which associate to form a so-called Bateman domain or a CBS pair which is reflected in this model. The interface between the two CBS domains forms a cleft that is a potential ligand binding site. The CBS pair coexists with a variety of other functional domains. It has been proposed that the CBS domain may play a regulatory role, although its exact function is unknown.
Probab=38.68 E-value=25 Score=20.48 Aligned_cols=25 Identities=12% Similarity=0.076 Sum_probs=18.4
Q ss_pred CCccccCcHHHHHHHHhhhhhCCCC
Q psy5166 47 GDPCLISTQMELEEAIRLYEVNHEP 71 (76)
Q Consensus 47 GDPctiSsq~ELeEA~RL~elnkds 71 (76)
.++.++++++.+++|+++..-++-.
T Consensus 63 ~~~~~v~~~~~l~~~~~~~~~~~~~ 87 (110)
T cd04605 63 RNVITATPDEPIDVAARKMERHNIS 87 (110)
T ss_pred CCCeEECCCCcHHHHHHHHHHhCCC
Confidence 4677788888888888887765533
No 53
>PF00240 ubiquitin: Ubiquitin family; InterPro: IPR000626 Ubiquitinylation is an ATP-dependent process that involves the action of at least three enzymes: a ubiquitin-activating enzyme (E1, IPR000011 from INTERPRO), a ubiquitin-conjugating enzyme (E2, IPR000608 from INTERPRO), and a ubiquitin ligase (E3, IPR000569 from INTERPRO, IPR003613 from INTERPRO), which work sequentially in a cascade. There are many different E3 ligases, which are responsible for the type of ubiquitin chain formed, the specificity of the target protein, and the regulation of the ubiquitinylation process []. Ubiquitinylation is an important regulatory tool that controls the concentration of key signalling proteins, such as those involved in cell cycle control, as well as removing misfolded, damaged or mutant proteins that could be harmful to the cell. Several ubiquitin-like molecules have been discovered, such as Ufm1 (IPR005375 from INTERPRO), SUMO1 (IPR003653 from INTERPRO), NEDD8, Rad23 (IPR004806 from INTERPRO), Elongin B and Parkin (IPR003977 from INTERPRO), the latter being involved in Parkinson's disease []. Ubiquitin is a protein of 76 amino acid residues, found in all eukaryotic cells and whose sequence is extremely well conserved from protozoan to vertebrates. Ubiquitin acts through its post-translational attachment (ubiquitinylation) to other proteins, where these modifications alter the function, location or trafficking of the protein, or targets it for destruction by the 26S proteasome []. The terminal glycine in the C-terminal 4-residue tail of ubiquitin can form an isopeptide bond with a lysine residue in the target protein, or with a lysine in another ubiquitin molecule to form a ubiquitin chain that attaches itself to a target protein. Ubiquitin has seven lysine residues, any one of which can be used to link ubiquitin molecules together, resulting in different structures that alter the target protein in different ways. It appears that Lys(11)-, Lys(29) and Lys(48)-linked poly-ubiquitin chains target the protein to the proteasome for degradation, while mono-ubiquitinylated and Lys(6)- or Lys(63)-linked poly-ubiquitin chains signal reversible modifications in protein activity, location or trafficking []. For example, Lys(63)-linked poly-ubiquitinylation is known to be involved in DNA damage tolerance, inflammatory response, protein trafficking and signal transduction through kinase activation []. In addition, the length of the ubiquitin chain alters the fate of the target protein. Regulatory proteins such as transcription factors and histones are frequent targets of ubquitinylation [].; GO: 0005515 protein binding; PDB: 2DZI_A 2XEW_E 3NOB_E 2KWU_B 2Y5B_F 3PHD_G 2KWV_B 2KOX_A 2XK5_B 3NHE_B ....
Probab=38.23 E-value=71 Score=17.96 Aligned_cols=34 Identities=24% Similarity=0.367 Sum_probs=30.6
Q ss_pred ccCceEEEecCCCCChHHHHHHHHHhhcCCCCCe
Q psy5166 4 FSDEVFITYIKPDITYDRLQEEVKEMCKFSTDQV 37 (76)
Q Consensus 4 ~~gdi~~~~~~~~i~~e~L~~e~rd~c~~~~~q~ 37 (76)
.+|..+...++++-+..+|.+.+....+++.++.
T Consensus 3 ~~g~~~~~~v~~~~tV~~lK~~i~~~~~~~~~~~ 36 (69)
T PF00240_consen 3 LSGKTFTLEVDPDDTVADLKQKIAEETGIPPEQQ 36 (69)
T ss_dssp TTSEEEEEEEETTSBHHHHHHHHHHHHTSTGGGE
T ss_pred CCCcEEEEEECCCCCHHHhhhhcccccccccccc
Confidence 5788999999999999999999999999887754
No 54
>cd01813 UBP_N UBP ubiquitin processing protease. The UBP (ubiquitin processing protease) domain (also referred to as USP which stands for "ubiquitin-specific protease") is present at in a large family of cysteine proteases that specifically cleave ubiquitin conjugates. This family includes Rpn11, UBP6 (USP14), USP7 (HAUSP). This domain is closely related to the amino-terminal ubiquitin-like domain of BAG1 (Bcl2-associated anthanogene1) protein and is found only in eukaryotes.
Probab=38.07 E-value=52 Score=19.78 Aligned_cols=34 Identities=9% Similarity=0.074 Sum_probs=30.4
Q ss_pred ccccCceEEEecCCCCChHHHHHHHHHhhcCCCC
Q psy5166 2 YLFSDEVFITYIKPDITYDRLQEEVKEMCKFSTD 35 (76)
Q Consensus 2 ~~~~gdi~~~~~~~~i~~e~L~~e~rd~c~~~~~ 35 (76)
+.++|..+...++++-|+.+|-+++.+.-++..+
T Consensus 5 vk~~g~~~~v~v~~~~Tv~~lK~~i~~~tgvp~~ 38 (74)
T cd01813 5 VKWGGQEYSVTTLSEDTVLDLKQFIKTLTGVLPE 38 (74)
T ss_pred EEECCEEEEEEECCCCCHHHHHHHHHHHHCCCHH
Confidence 4688999999999999999999999999888766
No 55
>PRK13605 endoribonuclease SymE; Provisional
Probab=37.02 E-value=49 Score=22.69 Aligned_cols=31 Identities=19% Similarity=0.426 Sum_probs=26.6
Q ss_pred ccCceEEEecCCCCChHHHHHHHHHhhcCCC
Q psy5166 4 FSDEVFITYIKPDITYDRLQEEVKEMCKFST 34 (76)
Q Consensus 4 ~~gdi~~~~~~~~i~~e~L~~e~rd~c~~~~ 34 (76)
-.|.+.++.-++...--+|+..+|.+|.++.
T Consensus 63 ~~G~LVIt~~~~~~~~~el~~~l~~v~~~s~ 93 (113)
T PRK13605 63 MEGCIVLTAQPPAAEESELMQSLRQVCKLSA 93 (113)
T ss_pred eCCEEEEEeCCCCcccHHHHHHHHHHHHhhh
Confidence 4688888888888888899999999999873
No 56
>KOG0003|consensus
Probab=36.88 E-value=27 Score=24.30 Aligned_cols=42 Identities=17% Similarity=0.305 Sum_probs=35.2
Q ss_pred cccCceEEEecCCCCChHHHHHHHHHhhcCCCCCe---eeEEeec
Q psy5166 3 LFSDEVFITYIKPDITYDRLQEEVKEMCKFSTDQV---FTVKWVD 44 (76)
Q Consensus 3 ~~~gdi~~~~~~~~i~~e~L~~e~rd~c~~~~~q~---fT~kwvD 44 (76)
.|-|...+.-.|+|-+.+.+-.++.+.|++++.|. |.-+-+.
T Consensus 7 ~~~GKT~~le~EpS~ti~~vKA~i~~~~Gi~~~~~~L~~~~k~LE 51 (128)
T KOG0003|consen 7 TLTGKTITLEVEPSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLE 51 (128)
T ss_pred EeeCceEEEEecccchHHHHHHHhccccCCCHHHHHHHhcccccc
Confidence 56788888999999999999999999999998865 5555544
No 57
>TIGR01268 Phe4hydrox_tetr phenylalanine-4-hydroxylase, tetrameric form. The member of this family from Drosophila has been described as having both phenylalanine-4-hydroxylase and tryptophan 5-monoxygenase activity (PubMed:1371286). However, a Drosophila member of the tryptophan 5-monoxygenase clade has subsequently been discovered.
Probab=36.66 E-value=32 Score=28.14 Aligned_cols=30 Identities=13% Similarity=0.380 Sum_probs=25.7
Q ss_pred ChHHHHHHHHHhhcCCCCCeeeEEeeccCCCccccC
Q psy5166 18 TYDRLQEEVKEMCKFSTDQVFTVKWVDEEGDPCLIS 53 (76)
Q Consensus 18 ~~e~L~~e~rd~c~~~~~q~fT~kwvDeEGDPctiS 53 (76)
||++|.++++..+.--. .||.+++ ||+|-|
T Consensus 375 sf~~l~~~~~~~~~~~~-~pf~~~y-----~~~t~~ 404 (436)
T TIGR01268 375 SFEDAKEKLKSFAATIP-RPFSVRY-----NAYTQR 404 (436)
T ss_pred CHHHHHHHHHHHHHhCC-CCcccee-----cCccce
Confidence 89999999999997654 5999999 888865
No 58
>PF12392 DUF3656: Collagenase ; InterPro: IPR020988 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. The peptidases families associated with clan U- have an unknown catalytic mechanism as the protein fold of the active site domain and the active site residues have not been reported. This domain is found in a number of proteins belonging to the MEROPS peptidase family U32. Peptidase family U32 contains endopeptidases, including collagenase, from bacteria.
Probab=36.50 E-value=15 Score=23.76 Aligned_cols=33 Identities=15% Similarity=0.304 Sum_probs=26.9
Q ss_pred cCCCCCeeeEEeeccCCCccccCcHHHHHHHHh
Q psy5166 31 KFSTDQVFTVKWVDEEGDPCLISTQMELEEAIR 63 (76)
Q Consensus 31 ~~~~~q~fT~kwvDeEGDPctiSsq~ELeEA~R 63 (76)
.+..++++++...|++|--+++.+...++.|..
T Consensus 31 ~~~~g~p~~l~~~d~~~~~v~~~~~~~~e~A~~ 63 (122)
T PF12392_consen 31 SAKKGEPLKLTLSDEDGNSVEVTSEIVPEPAKK 63 (122)
T ss_pred EEecCCCEEEEEEECCCcEEEEEecCCchhhCC
Confidence 355788999999888899888888888888754
No 59
>COG4837 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=36.30 E-value=45 Score=22.64 Aligned_cols=62 Identities=18% Similarity=0.171 Sum_probs=44.8
Q ss_pred ccccCceEEEecCCCCChHHHHHHHHHhhc-CCCCCeeeEEeeccCCCccccCcHHHHHHHHhh
Q psy5166 2 YLFSDEVFITYIKPDITYDRLQEEVKEMCK-FSTDQVFTVKWVDEEGDPCLISTQMELEEAIRL 64 (76)
Q Consensus 2 ~~~~gdi~~~~~~~~i~~e~L~~e~rd~c~-~~~~q~fT~kwvDeEGDPctiSsq~ELeEA~RL 64 (76)
+.|+.+...-|.-+-.|..+-.+-++...+ =-++|+|...+||=-++|-+- -+.++-|+|+-
T Consensus 8 ~VyGae~iCASCV~aPtsKdt~eWLeaalkRKyp~~~F~~~YiDI~n~~~e~-~~~~~aekI~~ 70 (106)
T COG4837 8 VVYGAEVICASCVNAPTSKDTYEWLEAALKRKYPNQPFKYTYIDITNPPLED-HDLQFAEKIEQ 70 (106)
T ss_pred EEecchhhhHHhcCCCcchhHHHHHHHHHhccCCCCCcEEEEEEcCCCccHH-HHHHHHHHHhc
Confidence 457778888888888877776666665543 346789999999976666554 45777777764
No 60
>PF05198 IF3_N: Translation initiation factor IF-3, N-terminal domain; InterPro: IPR019814 Initiation factor 3 (IF-3) (gene infC) is one of the three factors required for the initiation of protein biosynthesis in bacteria. IF-3 is thought to function as a fidelity factor during the assembly of the ternary initiation complex which consist of the 30S ribosomal subunit, the initiator tRNA and the messenger RNA. IF-3 is a basic protein that binds to the 30S ribosomal subunit []. The chloroplast initiation factor IF-3(chl) is a protein that enhances the poly(A,U,G)-dependent binding of the initiator tRNA to chloroplast ribosomal 30s subunits in which the central section is evolutionary related to the sequence of bacterial IF-3 []. ; GO: 0003743 translation initiation factor activity, 0006413 translational initiation; PDB: 1TIF_A.
Probab=34.15 E-value=35 Score=21.19 Aligned_cols=25 Identities=36% Similarity=0.623 Sum_probs=16.6
Q ss_pred eEEeeccCCCccccCcHHHHHHHHhhhh
Q psy5166 39 TVKWVDEEGDPCLISTQMELEEAIRLYE 66 (76)
Q Consensus 39 T~kwvDeEGDPctiSsq~ELeEA~RL~e 66 (76)
.+.-||++|.+.-+=| ++||+++.+
T Consensus 14 ~VrlI~~~g~~lGv~~---~~eAl~~A~ 38 (76)
T PF05198_consen 14 EVRLIDEDGEQLGVMS---LREALRLAK 38 (76)
T ss_dssp EEEEE-TTS-EEEEEE---HHHHHHHHH
T ss_pred EEEEECCCCcEeceEE---HHHHHHHHH
Confidence 6788999999985433 677777654
No 61
>cd01810 ISG15_repeat2 ISG15 ubiquitin-like protein, second repeat of 2. ISG15 is a ubiquitin-like protein containing two ubiquitin homology domains and becomes conjugated to a variety of proteins when cells are treated with type I interferon or lipopolysaccharide. Although ISG15 has properties similar to those of other ubiquitin-like molecules, it is a unique member of the ubiquitin-like superfamily, whose expression and conjugation to target proteins are tightly regulated by specific signaling pathways, indicating it may have specialized functions in the immune system.
Probab=34.02 E-value=67 Score=18.80 Aligned_cols=33 Identities=15% Similarity=0.080 Sum_probs=28.7
Q ss_pred cccCceEEEecCCCCChHHHHHHHHHhhcCCCC
Q psy5166 3 LFSDEVFITYIKPDITYDRLQEEVKEMCKFSTD 35 (76)
Q Consensus 3 ~~~gdi~~~~~~~~i~~e~L~~e~rd~c~~~~~ 35 (76)
..+|+.+...++++.|..+|-+++....+++..
T Consensus 5 ~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~ 37 (74)
T cd01810 5 NDKGRSSIYEVQLTQTVATLKQQVSQRERVQAD 37 (74)
T ss_pred CCCCCEEEEEECCcChHHHHHHHHHHHhCCCHH
Confidence 357889999999999999999999988887665
No 62
>PF07315 DUF1462: Protein of unknown function (DUF1462); InterPro: IPR009190 There are currently no experimental data for members of this group of bacterial proteins or their homologues. A crystal structure of Q7A6J8 from SWISSPROT revealed a thioredoxin-like fold, its core consisting of three layers alpha/beta/alpha.; PDB: 1XG8_A.
Probab=34.01 E-value=53 Score=21.85 Aligned_cols=60 Identities=20% Similarity=0.208 Sum_probs=31.8
Q ss_pred cccCceEEEecCCCCChHHHHHHHHHhhc-CCCCCeeeEEeeccCCCccccCcHHHHHHHHh
Q psy5166 3 LFSDEVFITYIKPDITYDRLQEEVKEMCK-FSTDQVFTVKWVDEEGDPCLISTQMELEEAIR 63 (76)
Q Consensus 3 ~~~gdi~~~~~~~~i~~e~L~~e~rd~c~-~~~~q~fT~kwvDeEGDPctiSsq~ELeEA~R 63 (76)
.|+.++..-|.-+-.|..+-.+=++...+ =-.+|+|.+.+||=++.|-. --+.++-++|.
T Consensus 2 VYGAe~~CASCVn~PsSkeTyeWL~aal~RKyp~~~f~~~YiDi~~p~~~-~~~~~~a~~I~ 62 (93)
T PF07315_consen 2 VYGAEVICASCVNAPSSKETYEWLEAALKRKYPDQPFEFTYIDIENPPEN-DHDQQFAERIL 62 (93)
T ss_dssp EEE-SS--GGGSSS--HHHHHHHHHHHHHHH-TTS-EEEEEEETTT-----HHHHHHHHHHH
T ss_pred cccccccchhhcCCCCchhHHHHHHHHHhCcCCCCceEEEEEecCCCCcc-HHHHHHHHHHH
Confidence 47778888888888776665555544432 23567999999998777654 33445555543
No 63
>COG5474 Uncharacterized conserved protein [Function unknown]
Probab=33.95 E-value=24 Score=25.39 Aligned_cols=23 Identities=39% Similarity=0.567 Sum_probs=17.3
Q ss_pred cCCCCCe-eeEEeeccCCCccccC
Q psy5166 31 KFSTDQV-FTVKWVDEEGDPCLIS 53 (76)
Q Consensus 31 ~~~~~q~-fT~kwvDeEGDPctiS 53 (76)
.-.++|+ |-+.+-||+|||=-.|
T Consensus 36 a~~ekqv~f~i~y~~e~gDpRELs 59 (159)
T COG5474 36 ANREKQVFFIIGYDDEPGDPRELS 59 (159)
T ss_pred hchhheEEEEEeccCCCCChHHhh
Confidence 3346777 5889999999996555
No 64
>PF11784 DUF3320: Protein of unknown function (DUF3320); InterPro: IPR021754 This family is conserved in Proteobacteria and Chlorobi families. Many members are annotated as being putative DNA helicase-related proteins.
Probab=33.61 E-value=49 Score=18.98 Aligned_cols=23 Identities=17% Similarity=0.209 Sum_probs=20.5
Q ss_pred ecCCCCChHHHHHHHHHhhcCCC
Q psy5166 12 YIKPDITYDRLQEEVKEMCKFST 34 (76)
Q Consensus 12 ~~~~~i~~e~L~~e~rd~c~~~~ 34 (76)
..|.+|+.+.|+..++..|++..
T Consensus 22 ~~EgPI~~~~L~~Ri~~a~G~~R 44 (52)
T PF11784_consen 22 EVEGPIHEDELARRIARAWGLSR 44 (52)
T ss_pred HHcCCccHHHHHHHHHHHcCccc
Confidence 46889999999999999999874
No 65
>cd01792 ISG15_repeat1 ISG15 ubiquitin-like protein, first repeat of 2. ISG15 is a ubiquitin-like protein containing two ubiquitin homology domains that becomes conjugated to a variety of proteins when cells are treated with type I interferon or lipopolysaccharide. Although ISG15 has properties similar to those of other ubiquitin-like molecules, it is a unique member of the ubiquitin-like superfamily, whose expression and conjugation to target proteins are tightly regulated by specific signaling pathways, indicating it may have specialized functions in the immune system.
Probab=33.60 E-value=71 Score=19.09 Aligned_cols=32 Identities=9% Similarity=0.270 Sum_probs=27.9
Q ss_pred ccCceEEEecCCCCChHHHHHHHHHhhcCCCC
Q psy5166 4 FSDEVFITYIKPDITYDRLQEEVKEMCKFSTD 35 (76)
Q Consensus 4 ~~gdi~~~~~~~~i~~e~L~~e~rd~c~~~~~ 35 (76)
.+|..+...++++.|..+|-+++...++++..
T Consensus 10 ~~G~~~~~~v~~~~TV~~lK~~I~~~~~i~~~ 41 (80)
T cd01792 10 LGGNEFLVSLRDSMTVSELKQQIAQKIGVPAF 41 (80)
T ss_pred CCCCEEEEEcCCCCcHHHHHHHHHHHhCCCHH
Confidence 56888888899999999999999999887655
No 66
>PTZ00044 ubiquitin; Provisional
Probab=32.92 E-value=70 Score=18.47 Aligned_cols=32 Identities=13% Similarity=0.161 Sum_probs=28.8
Q ss_pred ccCceEEEecCCCCChHHHHHHHHHhhcCCCC
Q psy5166 4 FSDEVFITYIKPDITYDRLQEEVKEMCKFSTD 35 (76)
Q Consensus 4 ~~gdi~~~~~~~~i~~e~L~~e~rd~c~~~~~ 35 (76)
.+|...+..++++.+.++|-.++.+..+.+..
T Consensus 8 ~~G~~~~l~v~~~~tv~~lK~~i~~~~gi~~~ 39 (76)
T PTZ00044 8 LTGKKQSFNFEPDNTVQQVKMALQEKEGIDVK 39 (76)
T ss_pred CCCCEEEEEECCCCcHHHHHHHHHHHHCCCHH
Confidence 57889999999999999999999999988765
No 67
>cd06539 CIDE_N_A CIDE_N domain of CIDE-A proteins. The CIDE_N (cell death-inducing DFF45-like effector, N-terminal) domain is found at the N-terminus of the CIDE (cell death-inducing DFF45-like effector) proteins. These proteins are associated with the chromatin condensation and DNA fragmentation events of apoptosis; the CIDE_N domain is thought to regulate the activity of the CAD/DFF40, ICAD/DFF45, and CIDE nucleases during apoptosis. The CIDE protein family includes 3 members: CIDE-A, CIDE-B, and FSP27(CIDE-C). Based on sequence similarity with DFF40 and DFF45, the CIDE proteins were initially characterized as mitochondrial activators of apoptosis. However, strong metabolic phenotypes of mice lacking CIDE-A and CIDE-B indicated that this family may play critical roles in energy balance.
Probab=32.73 E-value=79 Score=20.24 Aligned_cols=30 Identities=13% Similarity=0.276 Sum_probs=24.3
Q ss_pred CChHHHHHHHHHhhcCCCCCeeeEEeeccCCC
Q psy5166 17 ITYDRLQEEVKEMCKFSTDQVFTVKWVDEEGD 48 (76)
Q Consensus 17 i~~e~L~~e~rd~c~~~~~q~fT~kwvDeEGD 48 (76)
-++++|.+|..+...+.+. ++++.- +|+|-
T Consensus 21 ~sL~EL~~K~~~~l~~~~~-~~~lvL-~eDGT 50 (78)
T cd06539 21 SSLQELISKTLDALVITSG-LVTLVL-EEDGT 50 (78)
T ss_pred cCHHHHHHHHHHHhCCCCC-CcEEEE-eCCCC
Confidence 4799999999999999876 566654 88884
No 68
>cd01769 UBL Ubiquitin-like domain of UBL. UBLs function by remodeling the surface of their target proteins, changing their target's half-life, enzymatic activity, protein-protein interactions, subcellular localization or other properties. At least 10 different ubiquitin-like modifications exist in mammals, and attachment of different ubls to a target leads to different biological consequences. Ubl-conjugation cascades are initiated by activating enzymes, which also coordinate the ubls with their downstream pathways.
Probab=32.69 E-value=89 Score=17.00 Aligned_cols=32 Identities=16% Similarity=0.267 Sum_probs=27.8
Q ss_pred ccCceEEEecCCCCChHHHHHHHHHhhcCCCC
Q psy5166 4 FSDEVFITYIKPDITYDRLQEEVKEMCKFSTD 35 (76)
Q Consensus 4 ~~gdi~~~~~~~~i~~e~L~~e~rd~c~~~~~ 35 (76)
..|......++++.++.+|..++...++++..
T Consensus 5 ~~~~~~~~~~~~~~ti~~lK~~i~~~~~~~~~ 36 (69)
T cd01769 5 LTGKTFELEVSPDDTVAELKAKIAAKEGVPPE 36 (69)
T ss_pred cCCCEEEEEECCCChHHHHHHHHHHHHCcChH
Confidence 35788888999999999999999999987765
No 69
>PF09631 Sen15: Sen15 protein; InterPro: IPR018593 The Sen15 subunit of the tRNA intron-splicing endonuclease is one of the two structural subunits of this heterotetrameric enzyme. Residues 36-157 of this subunit possess a novel homodimeric fold. Each monomer consists of three alpha-helices and a mixed antiparallel/parallel beta-sheet. Two monomers of Sen15 fold with two monomers of Sen34, one of the two catalytic subunits, to form an alpha2-beta2 tetramer as part of the functional endonuclease assembly []. ; PDB: 2GW6_B.
Probab=32.11 E-value=77 Score=20.14 Aligned_cols=40 Identities=13% Similarity=0.237 Sum_probs=27.1
Q ss_pred eEEEecCCCCChHHHHHHHHHhhcCC-CCCeeeEEeeccCC
Q psy5166 8 VFITYIKPDITYDRLQEEVKEMCKFS-TDQVFTVKWVDEEG 47 (76)
Q Consensus 8 i~~~~~~~~i~~e~L~~e~rd~c~~~-~~q~fT~kwvDeEG 47 (76)
++-..+...+|++.+.+-...++... +..-+++..||++|
T Consensus 44 vlP~~~~~~ls~~~i~~~f~~l~~~~~~~~ri~LAiv~~Ds 84 (101)
T PF09631_consen 44 VLPVPLTEKLSLEQIDEVFDSLPNPSGDPKRILLAIVDDDS 84 (101)
T ss_dssp EEEEETT-EEEHHHHHHHHHHHHHHCT---EEEEEEE-TTS
T ss_pred EEeeccCCCcCHHHHHHHHHHhcccCCCCcEEEEEEEcCCC
Confidence 44566777889998888777777665 24478999999776
No 70
>PF00351 Biopterin_H: Biopterin-dependent aromatic amino acid hydroxylase; InterPro: IPR019774 Phenylalanine, tyrosine and tryptophan hydroxylases constitute a family of tetrahydrobiopterin-dependent aromatic amino acid hydroxylases, all of which are rate-limiting catalysts for important metabolic pathways []. The proteins are structurally and functionally related, each containing iron, and catalysing ring hydroxylation of aromatic amino acids, using tetra-hydrobiopterin (BH4) as a substrate. All are regulated by phosphorylation at serines in their N-termini. It has been suggested that the proteins each contain a conserved C-terminal catalytic (C) domain and an unrelated N-terminal regulatory (R) domain. It is possible that the R domains arose from genes that were recruited from different sources to combine with the common gene for the catalytic core. Thus, by combining with the same C domain, the proteins acquired the unique regulatory properties of the separate R domains. A variety of enzymes belong to this family that includes, phenylalanine-4-hydroxylase from Chromobacterium violaceum where it is copper-dependent; it is iron-dependent in Pseudomonas aeruginosa, phenylalanine-4-hydroxylase catalyzes the conversion of phenylalanine to tyrosine. In humans, deficiencies are the cause of phenylketonuria, the most common inborn error of amino acid metabolism [], tryptophan 5-hydroxylase catalyzes the rate-limiting step in serotonin biosynthesis: the conversion of tryptophan to 3-hydroxy-anthranilate and tyrosine 3-hydroxylase catalyzes the rate limiting step in catecholamine biosynthesis: the conversion of tyrosine to 3,4-dihydroxy-L-phenylalanine.; GO: 0016714 oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, reduced pteridine as one donor, and incorporation of one atom of oxygen, 0055114 oxidation-reduction process; PDB: 1PHZ_A 2PHM_A 2V28_A 2V27_A 1PAH_A 1DMW_A 1TG2_A 1KW0_A 1MMT_A 1TDW_A ....
Probab=32.05 E-value=39 Score=26.86 Aligned_cols=30 Identities=23% Similarity=0.552 Sum_probs=24.5
Q ss_pred ChHHHHHHHHHhhcCCCCCeeeEEeeccCCCccccC
Q psy5166 18 TYDRLQEEVKEMCKFSTDQVFTVKWVDEEGDPCLIS 53 (76)
Q Consensus 18 ~~e~L~~e~rd~c~~~~~q~fT~kwvDeEGDPctiS 53 (76)
||+++.+++|+.+.-- +.||.+++ ||+|=|
T Consensus 273 Sfe~~~~klr~fa~~i-~rpf~~~y-----dp~t~s 302 (332)
T PF00351_consen 273 SFEDAKEKLREFAATI-KRPFSVRY-----DPYTQS 302 (332)
T ss_dssp SHHHHHHHHHHHHHTS---SSEEEE-----ETTTTE
T ss_pred CHHHHHHHHHHHHHhC-CCCCcccc-----CCCcce
Confidence 8999999999999754 56999999 788765
No 71
>PF10114 PocR: Sensory domain found in PocR; InterPro: IPR018771 This entry is thought to act as a sensory domain in histidine kinases catalysing the reaction: ATP + protein L-histidine = ADP + protein N- phospho-L-histidine.
Probab=31.90 E-value=73 Score=21.08 Aligned_cols=16 Identities=25% Similarity=0.522 Sum_probs=12.8
Q ss_pred eEEeeccCCCccccCc
Q psy5166 39 TVKWVDEEGDPCLIST 54 (76)
Q Consensus 39 T~kwvDeEGDPctiSs 54 (76)
.+..+|.+|.|+|..+
T Consensus 24 ~~~i~d~~G~~l~~~~ 39 (173)
T PF10114_consen 24 SIVIVDPDGNPLTQPS 39 (173)
T ss_pred cEEEEeCCCCEEeeCC
Confidence 4777899999996655
No 72
>TIGR01270 Trp_5_monoox tryptophan 5-monooxygenase, tetrameric. This model describes tryptophan 5-monooxygenase, a member of the family of tetrameric, biopterin-dependent aromatic amino acid hydroxylases found in metazoans. It is closely related to tetrameric phenylalanine-4-hydroxylase and tyrosine 3-monooxygenase, and more distantly related to the monomeric phenylalanine-4-hydroxylase found in some Gram-negative bacteria.
Probab=31.59 E-value=41 Score=27.81 Aligned_cols=30 Identities=20% Similarity=0.490 Sum_probs=25.5
Q ss_pred ChHHHHHHHHHhhcCCCCCeeeEEeeccCCCccccC
Q psy5166 18 TYDRLQEEVKEMCKFSTDQVFTVKWVDEEGDPCLIS 53 (76)
Q Consensus 18 ~~e~L~~e~rd~c~~~~~q~fT~kwvDeEGDPctiS 53 (76)
+|++|.++++..+.-.. .||.+.| ||+|-|
T Consensus 403 Sfe~l~~~l~~f~~~~~-rpf~~~y-----~p~t~~ 432 (464)
T TIGR01270 403 SFEEAKEKMREFTNTIK-RPFGVRY-----NPYTES 432 (464)
T ss_pred CHHHHHHHHHHHHHhcC-CCccceE-----cCccce
Confidence 89999999999986655 4999999 888865
No 73
>cd04639 CBS_pair_26 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called Bateman domain or a CBS pair based on crystallographic studies in bacteria. The CBS pair was used as a basis for this cd hierarchy since the human CBS proteins can adopt the typical core structure and form an intramolecular CBS pair. The interface between the two CBS domains forms a cleft that is a potential ligand binding site. The CBS pair coexists with a variety of other functional domains and this has been used to help in its classification here. It has been proposed that the CBS domain may play a regulatory role, although its exact function is unknown. Mutations of conserved residues within this domain are associated with a variety of human hereditary diseases, including congenital myotonia, idiopathic gener
Probab=31.26 E-value=39 Score=19.70 Aligned_cols=24 Identities=13% Similarity=0.026 Sum_probs=16.9
Q ss_pred CccccCcHHHHHHHHhhhhhCCCC
Q psy5166 48 DPCLISTQMELEEAIRLYEVNHEP 71 (76)
Q Consensus 48 DPctiSsq~ELeEA~RL~elnkds 71 (76)
++.++++...++||+++..-++.+
T Consensus 2 ~~~~v~~~~~i~e~~~~~~~~~~~ 25 (111)
T cd04639 2 HFETLSPADTLDDAADALLATTQH 25 (111)
T ss_pred CceEcCCCCcHHHHHHHHHHcCCC
Confidence 566778888888888776544433
No 74
>PRK03996 proteasome subunit alpha; Provisional
Probab=30.85 E-value=1.8e+02 Score=20.65 Aligned_cols=52 Identities=13% Similarity=0.121 Sum_probs=34.8
Q ss_pred ecCCCCChHHHHHHHHHhhc-----CCCCCeeeEEeeccCCCccccCcHHHHHHHHh
Q psy5166 12 YIKPDITYDRLQEEVKEMCK-----FSTDQVFTVKWVDEEGDPCLISTQMELEEAIR 63 (76)
Q Consensus 12 ~~~~~i~~e~L~~e~rd~c~-----~~~~q~fT~kwvDeEGDPctiSsq~ELeEA~R 63 (76)
...+.++.++..+-++.... -.+...+.+.||+.+|.....-+..|+++-+.
T Consensus 181 ~~~~~~s~eeai~l~~~al~~~~~~~~~~~~i~i~ii~~~~~~~~~~~~~ei~~~~~ 237 (241)
T PRK03996 181 NYKEDLSLEEAIELALKALAKANEGKLDPENVEIAYIDVETKKFRKLSVEEIEKYLE 237 (241)
T ss_pred hcccCCCHHHHHHHHHHHHHHHhccCCCCCcEEEEEEECCCCcEEECCHHHHHHHHH
Confidence 34567888887665544322 12345689999999988777777788876553
No 75
>smart00166 UBX Domain present in ubiquitin-regulatory proteins. Present in FAF1 and Shp1p.
Probab=30.85 E-value=1.2e+02 Score=18.03 Aligned_cols=35 Identities=14% Similarity=0.108 Sum_probs=26.3
Q ss_pred cCceEEEecCCCCChHHHHHHHHHhhcCCCCCeeeE
Q psy5166 5 SDEVFITYIKPDITYDRLQEEVKEMCKFSTDQVFTV 40 (76)
Q Consensus 5 ~gdi~~~~~~~~i~~e~L~~e~rd~c~~~~~q~fT~ 40 (76)
+|..+...|..+-++.++++-++...... ..+|++
T Consensus 13 dG~ri~~~F~~~~tl~~v~~~v~~~~~~~-~~~f~L 47 (80)
T smart00166 13 DGSRLVRRFPSSDTLRTVYEFVSAALTDG-NDPFTL 47 (80)
T ss_pred CCCEEEEEeCCCCcHHHHHHHHHHcccCC-CCCEEE
Confidence 68888899999999999999996655433 234554
No 76
>COG1741 Pirin-related protein [General function prediction only]
Probab=30.78 E-value=39 Score=25.81 Aligned_cols=19 Identities=26% Similarity=0.497 Sum_probs=17.0
Q ss_pred ccccCcHHHHHHHHhhhhh
Q psy5166 49 PCLISTQMELEEAIRLYEV 67 (76)
Q Consensus 49 PctiSsq~ELeEA~RL~el 67 (76)
|...||+.|+++|++-++-
T Consensus 254 ~fV~~s~e~i~~a~~~~~~ 272 (276)
T COG1741 254 PFVMNSKEEIEQAKRDWRE 272 (276)
T ss_pred CcccCCHHHHHHHHHHHHc
Confidence 7899999999999998764
No 77
>COG2239 MgtE Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]
Probab=30.41 E-value=1.3e+02 Score=24.50 Aligned_cols=57 Identities=25% Similarity=0.426 Sum_probs=44.5
Q ss_pred EecCCCCChHHHHHHHHHhhcCCCCCeeeEEeeccCC--------------------------CccccCcHHHHHHHHhh
Q psy5166 11 TYIKPDITYDRLQEEVKEMCKFSTDQVFTVKWVDEEG--------------------------DPCLISTQMELEEAIRL 64 (76)
Q Consensus 11 ~~~~~~i~~e~L~~e~rd~c~~~~~q~fT~kwvDeEG--------------------------DPctiSsq~ELeEA~RL 64 (76)
..++.+.|..+-.+.+|..-. ..+..-.+..||+++ +|.+|.+++..||+-|+
T Consensus 143 v~l~~~~Tv~~al~~ir~~~~-~~e~~~~lyVvD~~~~L~Gvvsl~~Ll~a~~~~~i~~im~~~~~~V~~~~dqeevA~~ 221 (451)
T COG2239 143 VTLPEDVTVDEALDRIRERAE-DAETIYYLYVVDEKGKLLGVVSLRDLLTAEPDELLKDLMEDDVVSVLADDDQEEVARL 221 (451)
T ss_pred EEeccCcCHHHHHHHHHHhcc-cccccceEEEECCccceEEEeeHHHHhcCCcHhHHHHHhcccceeecccCCHHHHHHH
Confidence 357889999999999999888 444455667777766 57888888888888888
Q ss_pred hhhC
Q psy5166 65 YEVN 68 (76)
Q Consensus 65 ~eln 68 (76)
++--
T Consensus 222 ~~~y 225 (451)
T COG2239 222 FEKY 225 (451)
T ss_pred HHHh
Confidence 7743
No 78
>cd04603 CBS_pair_KefB_assoc This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the KefB (Kef-type K+ transport systems) domain which is involved in inorganic ion transport and metabolism. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently found in a wide range of different proteins. CBS domains usually come in tandem repeats, which associate to form a so-called Bateman domain or a CBS pair which is reflected in this model. The interface between the two CBS domains forms a cleft that is a potential ligand binding site. The CBS pair coexists with a variety of other functional domains. It has been proposed that the CBS domain may play a regulatory role, although its exact function is unknown.
Probab=29.54 E-value=36 Score=20.26 Aligned_cols=24 Identities=17% Similarity=0.200 Sum_probs=17.5
Q ss_pred CccccCcHHHHHHHHhhhhhCCCC
Q psy5166 48 DPCLISTQMELEEAIRLYEVNHEP 71 (76)
Q Consensus 48 DPctiSsq~ELeEA~RL~elnkds 71 (76)
+|+++.++.-+.+|++...-++.+
T Consensus 2 ~~~~v~~~~~l~~a~~~~~~~~~~ 25 (111)
T cd04603 2 QTVSVNCENPLREAIKMINELGAR 25 (111)
T ss_pred ceEEeCCCCcHHHHHHHHHHcCCC
Confidence 577888888888888877555433
No 79
>PF04059 RRM_2: RNA recognition motif 2; InterPro: IPR007201 This RNA recognition motif 2 is found in Meiosis protein mei2. It is found C-terminal to the RNA-binding region RNP-1 (IPR000504 from INTERPRO).
Probab=29.46 E-value=81 Score=20.51 Aligned_cols=24 Identities=25% Similarity=0.228 Sum_probs=21.7
Q ss_pred ceEEEecCCCCChHHHHHHHHHhh
Q psy5166 7 EVFITYIKPDITYDRLQEEVKEMC 30 (76)
Q Consensus 7 di~~~~~~~~i~~e~L~~e~rd~c 30 (76)
-+|++.+++..+-+.|.+.+-+.|
T Consensus 3 TvMirNIPn~~t~~~L~~~l~~~~ 26 (97)
T PF04059_consen 3 TVMIRNIPNKYTQEMLIQILDEHF 26 (97)
T ss_pred eEEEecCCCCCCHHHHHHHHHHhc
Confidence 489999999999999999997765
No 80
>PF03108 DBD_Tnp_Mut: MuDR family transposase; InterPro: IPR004332 The plant MuDR transposase domain is present in plant proteins that are presumed to be the transposases for Mutator transposable elements [, ]. The function of these proteins is unknown. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=28.67 E-value=64 Score=18.57 Aligned_cols=23 Identities=26% Similarity=0.471 Sum_probs=18.8
Q ss_pred cCcHHHHHHHHhhhhhCCCCcee
Q psy5166 52 ISTQMELEEAIRLYEVNHEPELV 74 (76)
Q Consensus 52 iSsq~ELeEA~RL~elnkdseL~ 74 (76)
-++-.|+.+|++-|.+++.-++.
T Consensus 10 F~~~~e~k~av~~yai~~~~~~~ 32 (67)
T PF03108_consen 10 FPSKEEFKEAVREYAIKNGFEFK 32 (67)
T ss_pred ECCHHHHHHHHHHHHHhcCcEEE
Confidence 35778999999999998876654
No 81
>cd01799 Hoil1_N Ubiquitin-like domain of HOIL1. HOIL1_N HOIL-1 (heme-oxidized IRP2 ubiquitin ligase-1) is an E3 ubiquitin-protein ligase that recognizes heme-oxidized IRP2 (iron regulatory protein2) and is thought to affect the turnover of oxidatively damaged proteins. Hoil-1 has an amino-terminal ubiquitin-like domain as well as an RBR signature consisting of two RING finger domains separated by an IBR/DRIL domain.
Probab=28.53 E-value=94 Score=18.81 Aligned_cols=32 Identities=19% Similarity=0.261 Sum_probs=27.1
Q ss_pred cCceEEEecCCCCChHHHHHHHHHhhcCCCCC
Q psy5166 5 SDEVFITYIKPDITYDRLQEEVKEMCKFSTDQ 36 (76)
Q Consensus 5 ~gdi~~~~~~~~i~~e~L~~e~rd~c~~~~~q 36 (76)
+|.-.+..++++.|.++|-.++....+.+..+
T Consensus 11 ~~~t~~l~v~~~~TV~~lK~kI~~~~gip~~~ 42 (75)
T cd01799 11 HTVTIWLTVRPDMTVAQLKDKVFLDYGFPPAV 42 (75)
T ss_pred CCCeEEEEECCCCcHHHHHHHHHHHHCcCHHH
Confidence 45666788899999999999999999988763
No 82
>cd01796 DDI1_N DNA damage inducible protein 1 ubiquitin-like domain. DDI1_N DDI1 (DNA damage inducible protein 1) has an amino-terminal ubiquitin-like domain, an retroviral protease-like (RVP-like) domain, and a UBA (ubiquitin-associated) domain. This CD represents the amino-terminal ubiquitin-like domain of DDI1.
Probab=28.49 E-value=92 Score=18.26 Aligned_cols=32 Identities=16% Similarity=0.331 Sum_probs=28.7
Q ss_pred cCceEEEecCCCCChHHHHHHHHHhhcCCCCC
Q psy5166 5 SDEVFITYIKPDITYDRLQEEVKEMCKFSTDQ 36 (76)
Q Consensus 5 ~gdi~~~~~~~~i~~e~L~~e~rd~c~~~~~q 36 (76)
+|......++++.++.+|-+++.+..+++..+
T Consensus 8 ~g~~~~l~v~~~~TV~~lK~~I~~~~gip~~~ 39 (71)
T cd01796 8 SETTFSLDVDPDLELENFKALCEAESGIPASQ 39 (71)
T ss_pred CCCEEEEEECCcCCHHHHHHHHHHHhCCCHHH
Confidence 67888889999999999999999999988764
No 83
>PF00571 CBS: CBS domain CBS domain web page. Mutations in the CBS domain of Swiss:P35520 lead to homocystinuria.; InterPro: IPR000644 CBS (cystathionine-beta-synthase) domains are small intracellular modules, mostly found in two or four copies within a protein, that occur in a variety of proteins in bacteria, archaea, and eukaryotes [, ]. Tandem pairs of CBS domains can act as binding domains for adenosine derivatives and may regulate the activity of attached enzymatic or other domains []. In some cases, CBS domains may act as sensors of cellular energy status by being activated by AMP and inhibited by ATP []. In chloride ion channels, the CBS domains have been implicated in intracellular targeting and trafficking, as well as in protein-protein interactions, but results vary with different channels: in the CLC-5 channel, the CBS domain was shown to be required for trafficking [], while in the CLC-1 channel, the CBS domain was shown to be critical for channel function, but not necessary for trafficking []. Recent experiments revealing that CBS domains can bind adenosine-containing ligands such ATP, AMP, or S-adenosylmethionine have led to the hypothesis that CBS domains function as sensors of intracellular metabolites [, ]. Crystallographic studies of CBS domains have shown that pairs of CBS sequences form a globular domain where each CBS unit adopts a beta-alpha-beta-beta-alpha pattern []. Crystal structure of the CBS domains of the AMP-activated protein kinase in complexes with AMP and ATP shows that the phosphate groups of AMP/ATP lie in a surface pocket at the interface of two CBS domains, which is lined with basic residues, many of which are associated with disease-causing mutations []. In humans, mutations in conserved residues within CBS domains cause a variety of human hereditary diseases, including (with the gene mutated in parentheses): homocystinuria (cystathionine beta-synthase); Wolff-Parkinson-White syndrome (gamma 2 subunit of AMP-activated protein kinase); retinitis pigmentosa (IMP dehydrogenase-1); congenital myotonia, idiopathic generalized epilepsy, hypercalciuric nephrolithiasis, and classic Bartter syndrome (CLC chloride channel family members).; GO: 0005515 protein binding; PDB: 3JTF_A 3TE5_C 3TDH_C 3T4N_C 2QLV_C 3OI8_A 3LV9_A 2QH1_B 1PVM_B 3LQN_A ....
Probab=28.22 E-value=25 Score=18.78 Aligned_cols=26 Identities=31% Similarity=0.394 Sum_probs=19.9
Q ss_pred CccccCcHHHHHHHHhhhhhCCCCce
Q psy5166 48 DPCLISTQMELEEAIRLYEVNHEPEL 73 (76)
Q Consensus 48 DPctiSsq~ELeEA~RL~elnkdseL 73 (76)
+|.++++...+.+|++...-++-+-+
T Consensus 8 ~~~~v~~~~~l~~~~~~~~~~~~~~~ 33 (57)
T PF00571_consen 8 PPITVSPDDSLEEALEIMRKNGISRL 33 (57)
T ss_dssp SSEEEETTSBHHHHHHHHHHHTSSEE
T ss_pred CCEEEcCcCcHHHHHHHHHHcCCcEE
Confidence 78888888899999888876654433
No 84
>KOG3076|consensus
Probab=27.85 E-value=55 Score=24.58 Aligned_cols=49 Identities=16% Similarity=0.117 Sum_probs=35.6
Q ss_pred cccCceEEEecCCCCChHHHHHHHHHhhcCCCCCe-eeEEeeccC---CCcccc
Q psy5166 3 LFSDEVFITYIKPDITYDRLQEEVKEMCKFSTDQV-FTVKWVDEE---GDPCLI 52 (76)
Q Consensus 3 ~~~gdi~~~~~~~~i~~e~L~~e~rd~c~~~~~q~-fT~kwvDeE---GDPcti 52 (76)
.|+++|.-.+-....+|.|+- -+++.+....+.. =|++||+|| |+|+..
T Consensus 107 ~~~~~iiNIHPaLlpaFkG~~-a~k~Aleagv~~~GctvHfV~EevD~G~iI~q 159 (206)
T KOG3076|consen 107 QLPKRIINIHPALLPAFKGLH-AIKQALEAGVKLSGCTVHFVIEEVDTGPIIAQ 159 (206)
T ss_pred hcccceEecccccccccCCch-HHHHHHHhccccccceEEEehhhccCCCceEE
Confidence 467887776666667898876 7778887776544 399999965 666643
No 85
>cd04589 CBS_pair_CAP-ED_DUF294_assoc_bac This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the bacterial CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain. Members of CAP_ED, include CAP which binds cAMP, FNR (fumarate and nitrate reductase) which uses an iron-sulfur cluster to sense oxygen, and CooA a heme containing CO sensor. In all cases binding of the effector leads to conformational changes and the ability to activate transcription. DUF294 is a putative nucleotidyltransferase with a conserved DxD motif. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently found in a wide range of different proteins. CBS domains usually come in tandem repeats, which associate to form a so-called Bateman domain or a CBS pair which is reflected in this model. CBS domains usually come in tandem repeats, which associate to form a so-called Bateman domain or
Probab=27.70 E-value=48 Score=19.35 Aligned_cols=23 Identities=17% Similarity=0.371 Sum_probs=16.3
Q ss_pred CCccccCcHHHHHHHHhhhhhCC
Q psy5166 47 GDPCLISTQMELEEAIRLYEVNH 69 (76)
Q Consensus 47 GDPctiSsq~ELeEA~RL~elnk 69 (76)
++|.+++++.-+++|+++..-++
T Consensus 1 ~~~~~v~~~~~~~~~~~~~~~~~ 23 (111)
T cd04589 1 RPPLIVDASTSIRDAARLMREHG 23 (111)
T ss_pred CCCEEECCCCcHHHHHHHHHHcC
Confidence 35777888888888887774443
No 86
>PRK08444 hypothetical protein; Provisional
Probab=27.60 E-value=75 Score=24.68 Aligned_cols=62 Identities=16% Similarity=0.229 Sum_probs=41.0
Q ss_pred cccCceEEEecCCCCChHHHHHHHHHhhcCCCCCeeeEEeeccCCCccccCcHHHHHHHHhhhhhCCCCce
Q psy5166 3 LFSDEVFITYIKPDITYDRLQEEVKEMCKFSTDQVFTVKWVDEEGDPCLISTQMELEEAIRLYEVNHEPEL 73 (76)
Q Consensus 3 ~~~gdi~~~~~~~~i~~e~L~~e~rd~c~~~~~q~fT~kwvDeEGDPctiSsq~ELeEA~RL~elnkdseL 73 (76)
++.|+.........|.+.+.|.+.=..|.|..+.- +.+++++|+ .|+.+..+-..-..-.++
T Consensus 39 ~~~G~~Vt~~~n~~In~TN~C~~~C~FCaf~~~~~--------~~~~y~ls~-eeI~~~a~~a~~~G~~ei 100 (353)
T PRK08444 39 KLHGKKVYFNVNRHINPTNICADVCKFCAFSAHRK--------NPNPYTMSH-EEILEIVKNSVKRGIKEV 100 (353)
T ss_pred HhcCCEEEEEecCCcccccccccCCccCCCccCCC--------CCccccCCH-HHHHHHHHHHHHCCCCEE
Confidence 45688888888888999999998888888875421 235688755 555555554433333443
No 87
>cd04582 CBS_pair_ABC_OpuCA_assoc This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing in a hyperosmolar environment but the function of the CBS domains in OpuCA remains unknown. In the related ABC transporter, OpuA, the tandem CBS domains have been shown to function as sensors for ionic strength, whereby they control the transport activity through an electronic switching mechanism. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. They are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzi
Probab=27.54 E-value=48 Score=19.13 Aligned_cols=22 Identities=18% Similarity=0.369 Sum_probs=16.7
Q ss_pred CccccCcHHHHHHHHhhhhhCC
Q psy5166 48 DPCLISTQMELEEAIRLYEVNH 69 (76)
Q Consensus 48 DPctiSsq~ELeEA~RL~elnk 69 (76)
+|.++++..-+++|++...-++
T Consensus 2 ~~~~v~~~~~~~~a~~~~~~~~ 23 (106)
T cd04582 2 EPITVRPDDPLSDALGLMDDSD 23 (106)
T ss_pred CCcEecCCCcHHHHHHHHHhcC
Confidence 5778888888999987765444
No 88
>TIGR02996 rpt_mate_G_obs repeat-companion domain TIGR02996. This model describes an abundant paralogous domain of Gemmata obscuriglobus UQM 2246, a member of the Planctomycetes. The domain also occurs, although rarely, in Myxococcus xanthus DK 1622 and related species. Most member proteins have extensive repeats similar to the leucine-rich repeat, or another repeat class or region of low-complexity sequence. This domain is not repeated, and in Gemmata is usually found at the protein N-terminus.
Probab=27.52 E-value=15 Score=21.20 Aligned_cols=9 Identities=67% Similarity=1.631 Sum_probs=8.3
Q ss_pred EeeccCCCc
Q psy5166 41 KWVDEEGDP 49 (76)
Q Consensus 41 kwvDeEGDP 49 (76)
.|.||.|||
T Consensus 24 DWL~e~gdp 32 (42)
T TIGR02996 24 DWLDEHGDP 32 (42)
T ss_pred HHHHHcCCH
Confidence 699999999
No 89
>PF08921 DUF1904: Domain of unknown function (DUF1904); InterPro: IPR015017 This entry represents a family of hypothetical bacterial proteins. ; PDB: 1U9D_B.
Probab=27.51 E-value=62 Score=21.42 Aligned_cols=24 Identities=29% Similarity=0.821 Sum_probs=16.2
Q ss_pred HHHHHHHHHhhcCCCCCeeeEEeec
Q psy5166 20 DRLQEEVKEMCKFSTDQVFTVKWVD 44 (76)
Q Consensus 20 e~L~~e~rd~c~~~~~q~fT~kwvD 44 (76)
..|.+++.++|.-+.+ -||+.|+.
T Consensus 19 ~~LideLa~i~~~p~e-~ftlE~i~ 42 (108)
T PF08921_consen 19 KELIDELAEICGCPRE-NFTLEWIN 42 (108)
T ss_dssp HHHHHHHHHHHT--GG-G-EEEE--
T ss_pred HHHHHHHHHHHCCCcc-eEEEEEec
Confidence 4578899999999877 79999976
No 90
>TIGR01302 IMP_dehydrog inosine-5'-monophosphate dehydrogenase. This model describes a rather tightly conserved cluster of IMP dehydrogenase sequences, many of which are characterized. The model excludes two related families of proteins proposed also to be IMP dehydrogenases, but without characterized members. These are related families are the subject of separate models.
Probab=27.39 E-value=1.1e+02 Score=24.37 Aligned_cols=50 Identities=20% Similarity=0.374 Sum_probs=39.0
Q ss_pred cCCCCChHHHHHHHHHhhcCCCCCeeeEEeeccCCCccccCcHHHHHHHHhhhhhCCCC
Q psy5166 13 IKPDITYDRLQEEVKEMCKFSTDQVFTVKWVDEEGDPCLISTQMELEEAIRLYEVNHEP 71 (76)
Q Consensus 13 ~~~~i~~e~L~~e~rd~c~~~~~q~fT~kwvDeEGDPctiSsq~ELeEA~RL~elnkds 71 (76)
+..+++.++-.++++.+..+.+. + . .+|.+++++.-++||+++..-++-+
T Consensus 63 I~~n~~~e~q~~~V~~Vk~~~~~--~-~------~~~vtl~~~~tv~eal~~m~~~~~s 112 (450)
T TIGR01302 63 IHRNMSIEEQAEQVKRVKRAENG--I-I------SDPVTISPETTVADVLELMERKGIS 112 (450)
T ss_pred eecCCCHHHHHHHHhhhccccCc--e-e------cCceEeCCCCCHHHHHHHHHHcCCC
Confidence 45677888888999999988864 1 1 2899999999999999987655433
No 91
>PF11543 UN_NPL4: Nuclear pore localisation protein NPL4; InterPro: IPR024682 Npl4, along with Ufd1, forms the heterodimer adaptor complex UN, which is involved in the recruitment of p97, an AAA ATPase, for tasks involving the ubiquitin pathway. Npl4 has a N-terminal ubiquitin-like domain which has within its structure a beta-grasp fold with a helical insert []. This entry represents the ubiquitin-like domain.; PDB: 2PJH_A 1WF9_A.
Probab=27.18 E-value=1.3e+02 Score=18.63 Aligned_cols=32 Identities=16% Similarity=0.222 Sum_probs=21.2
Q ss_pred eEEEecCCCCChHHHHHHHHHhhcCCCCCeeeE
Q psy5166 8 VFITYIKPDITYDRLQEEVKEMCKFSTDQVFTV 40 (76)
Q Consensus 8 i~~~~~~~~i~~e~L~~e~rd~c~~~~~q~fT~ 40 (76)
+.+..++++-++.+|.+++.+.++++.. -|++
T Consensus 15 ~~Rie~~~~~t~~~L~~kI~~~l~~~~~-~~~L 46 (80)
T PF11543_consen 15 MKRIEVSPSSTLSDLKEKISEQLSIPDS-SQSL 46 (80)
T ss_dssp EEEEEE-TTSBHHHHHHHHHHHS---TT-T---
T ss_pred CEEEEcCCcccHHHHHHHHHHHcCCCCc-ceEE
Confidence 4556789999999999999999999866 3454
No 92
>PRK01546 hypothetical protein; Provisional
Probab=27.18 E-value=32 Score=22.14 Aligned_cols=18 Identities=22% Similarity=0.313 Sum_probs=14.7
Q ss_pred CeeeEEeeccCCCccccC
Q psy5166 36 QVFTVKWVDEEGDPCLIS 53 (76)
Q Consensus 36 q~fT~kwvDeEGDPctiS 53 (76)
|+=++++||++|..+|-.
T Consensus 48 ~L~~i~vvD~~G~dVTP~ 65 (79)
T PRK01546 48 ELKGIKVVNEQGTDVTPA 65 (79)
T ss_pred HhccceEECCCCCCCCHH
Confidence 456899999999988754
No 93
>PF07262 DUF1436: Protein of unknown function (DUF1436); InterPro: IPR009888 This family consists of several hypothetical bacterial proteins of around 160 residues in length. The function of this family is unknown.; PDB: 2GKP_A.
Probab=26.74 E-value=38 Score=24.01 Aligned_cols=21 Identities=29% Similarity=0.496 Sum_probs=13.4
Q ss_pred cCCCccccC---cHHHHHHHHhhh
Q psy5166 45 EEGDPCLIS---TQMELEEAIRLY 65 (76)
Q Consensus 45 eEGDPctiS---sq~ELeEA~RL~ 65 (76)
+++|++.++ |..||-.|+|+-
T Consensus 131 ~~~~~I~lp~d~s~eElG~Alr~A 154 (158)
T PF07262_consen 131 SDADDIILPIDSSDEELGAALRLA 154 (158)
T ss_dssp -SS--EEEETTS-HHHHHHHHHHH
T ss_pred cCCccEEEecCCCHHHHHHHHHHH
Confidence 466777664 779999999973
No 94
>cd04629 CBS_pair_16 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called Bateman domain or a CBS pair based on crystallographic studies in bacteria. The CBS pair was used as a basis for this cd hierarchy since the human CBS proteins can adopt the typical core structure and form an intramolecular CBS pair. The interface between the two CBS domains forms a cleft that is a potential ligand binding site. The CBS pair coexists with a variety of other functional domains and this has been used to help in its classification here. It has been proposed that the CBS domain may play a regulatory role, although its exact function is unknown. Mutations of conserved residues within this domain are associated with a variety of human hereditary diseases, including congenital myotonia, idiopathic gener
Probab=26.42 E-value=50 Score=19.26 Aligned_cols=23 Identities=17% Similarity=0.315 Sum_probs=16.6
Q ss_pred CCccccCcHHHHHHHHhhhhhCC
Q psy5166 47 GDPCLISTQMELEEAIRLYEVNH 69 (76)
Q Consensus 47 GDPctiSsq~ELeEA~RL~elnk 69 (76)
+++.++++..-+.+|+++..-++
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~ 23 (114)
T cd04629 1 RNPVTFTPDMSVTEAVEKLLKSK 23 (114)
T ss_pred CCCeEeCCCCCHHHHHHHHHhcC
Confidence 36778888888888887765444
No 95
>smart00266 CAD Domains present in proteins implicated in post-mortem DNA fragmentation.
Probab=26.19 E-value=1.3e+02 Score=19.07 Aligned_cols=30 Identities=17% Similarity=0.283 Sum_probs=23.9
Q ss_pred CChHHHHHHHHHhhcCCCCCeeeEEeeccCCC
Q psy5166 17 ITYDRLQEEVKEMCKFSTDQVFTVKWVDEEGD 48 (76)
Q Consensus 17 i~~e~L~~e~rd~c~~~~~q~fT~kwvDeEGD 48 (76)
-|+++|.+|..+.+.++.. +.++.- +|+|-
T Consensus 19 ~sL~eL~~K~~~~l~l~~~-~~~l~L-~eDGT 48 (74)
T smart00266 19 SSLEELLSKVCDKLALPDS-PVTLVL-EEDGT 48 (74)
T ss_pred CCHHHHHHHHHHHhCCCCC-CcEEEE-ecCCc
Confidence 4789999999999999876 556654 77774
No 96
>KOG3606|consensus
Probab=25.90 E-value=1.9e+02 Score=23.21 Aligned_cols=58 Identities=17% Similarity=0.246 Sum_probs=46.6
Q ss_pred ccCceEEEecCCCC--ChHHHHHHHHHhhcCCCCCeeeEEeeccCCCccccCcHHHHHHHH
Q psy5166 4 FSDEVFITYIKPDI--TYDRLQEEVKEMCKFSTDQVFTVKWVDEEGDPCLISTQMELEEAI 62 (76)
Q Consensus 4 ~~gdi~~~~~~~~i--~~e~L~~e~rd~c~~~~~q~fT~kwvDeEGDPctiSsq~ELeEA~ 62 (76)
|...-++++++..- +|+++..-++.+-.+.|- -|++.|.|--||-.-|.-+.-+--|+
T Consensus 25 FdaEfRRfsl~r~~~~~f~~F~~Lv~~~H~i~nv-dvllgY~d~hgDLLPinNDDn~~ka~ 84 (358)
T KOG3606|consen 25 FDAEFRRFSLPRHSASSFDEFYSLVEHLHHIPNV-DVLLGYADTHGDLLPINNDDNLHKAL 84 (358)
T ss_pred ccchhheecccccCcccHHHHHHHHHHHhcCCCc-eEEEEEecCCCceecccCchhHHHHh
Confidence 44555667776432 899999999999999887 48999999999999998887777764
No 97
>cd04614 CBS_pair_1 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called Bateman domain or a CBS pair based on crystallographic studies in bacteria. The CBS pair was used as a basis for this cd hierarchy since the human CBS proteins can adopt the typical core structure and form an intramolecular CBS pair. The interface between the two CBS domains forms a cleft that is a potential ligand binding site. The CBS pair coexists with a variety of other functional domains and this has been used to help in its classification here. It has been proposed that the CBS domain may play a regulatory role, although its exact function is unknown. Mutations of conserved residues within this domain are associated with a variety of human hereditary diseases, including congenital myotonia, idiopathic genera
Probab=25.89 E-value=53 Score=19.37 Aligned_cols=22 Identities=18% Similarity=0.259 Sum_probs=17.6
Q ss_pred CccccCcHHHHHHHHhhhhhCC
Q psy5166 48 DPCLISTQMELEEAIRLYEVNH 69 (76)
Q Consensus 48 DPctiSsq~ELeEA~RL~elnk 69 (76)
|+.++.++..+.+|+++..-++
T Consensus 2 ~~~~v~~~~~i~~a~~~~~~~~ 23 (96)
T cd04614 2 NVPTVWEETPLPVAVRIMELAN 23 (96)
T ss_pred CccEeCCCCcHHHHHHHHHHcC
Confidence 6788888999999998875444
No 98
>cd01803 Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40e and Ubq/RPS27a fusions as well as homopolymeric multiubiquitin protein chains)
Probab=25.70 E-value=1.1e+02 Score=17.30 Aligned_cols=32 Identities=9% Similarity=0.284 Sum_probs=27.5
Q ss_pred ccCceEEEecCCCCChHHHHHHHHHhhcCCCC
Q psy5166 4 FSDEVFITYIKPDITYDRLQEEVKEMCKFSTD 35 (76)
Q Consensus 4 ~~gdi~~~~~~~~i~~e~L~~e~rd~c~~~~~ 35 (76)
.+|......++++.|..+|-+++....+++..
T Consensus 8 ~~g~~~~~~v~~~~tV~~lK~~i~~~~g~~~~ 39 (76)
T cd01803 8 LTGKTITLEVEPSDTIENVKAKIQDKEGIPPD 39 (76)
T ss_pred CCCCEEEEEECCcCcHHHHHHHHHHHhCCCHH
Confidence 35777888999999999999999999988754
No 99
>cd04587 CBS_pair_CAP-ED_DUF294_PBI_assoc This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain. Members of CAP_ED, include CAP which binds cAMP, FNR (fumarate and nitrate reductase) which uses an iron-sulfur cluster to sense oxygen, and CooA a heme containing CO sensor. In all cases binding of the effector leads to conformational changes and the ability to activate transcription. DUF294 is a putative nucleotidyltransferase with a conserved DxD motif. The PB1 domain adopts a beta-grasp fold, similar to that found in ubiquitin and Ras-binding domains. A motif, variously termed OPR, PC and AID, represents the most conserved region of the majority of PB1 domains, and is necessary for PB1 domain function. This function is the formation of PB1 domain heterodimers, although not all PB1 domain pai
Probab=25.67 E-value=53 Score=19.09 Aligned_cols=23 Identities=22% Similarity=0.366 Sum_probs=16.9
Q ss_pred CccccCcHHHHHHHHhhhhhCCC
Q psy5166 48 DPCLISTQMELEEAIRLYEVNHE 70 (76)
Q Consensus 48 DPctiSsq~ELeEA~RL~elnkd 70 (76)
++.+++++.-+++|+++..-++.
T Consensus 2 ~~~~v~~~~~~~~~~~~~~~~~~ 24 (113)
T cd04587 2 KPATVSPTTTVQEAAKLMREKRV 24 (113)
T ss_pred CCeEeCCCCCHHHHHHHHHHcCC
Confidence 57788888888888877654443
No 100
>PF12079 DUF3558: Protein of unknown function (DUF3558); InterPro: IPR024520 This family of bacterial proteins includes members annotated as putative lipoprotein lprB. However, their function is unknown.
Probab=25.51 E-value=60 Score=21.26 Aligned_cols=22 Identities=32% Similarity=0.415 Sum_probs=18.0
Q ss_pred CCCccccCcHHHHHHHHhhhhh
Q psy5166 46 EGDPCLISTQMELEEAIRLYEV 67 (76)
Q Consensus 46 EGDPctiSsq~ELeEA~RL~el 67 (76)
--|||+.-++.+|.+++.+-..
T Consensus 36 ~~dPC~~lt~~~l~~~~g~~~~ 57 (168)
T PF12079_consen 36 LFDPCTLLTDEQLAELLGLDPA 57 (168)
T ss_pred CCCCccCCCHHHHHHHhCCCcC
Confidence 4699999999999888766554
No 101
>cd06536 CIDE_N_ICAD CIDE_N domain of ICAD. The CIDE_N (cell death-inducing DFF45-like effector, N-terminal) domain is found at the N-terminus of the CAD nuclease (caspase-activated DNase/DNA fragmentation factor, DFF40) and its inhibitor, ICAD (DFF45). These proteins are associated with the chromatin condensation and DNA fragmentation events of apoptosis; the CIDE_N domain is thought to regulate the activity of the CAD/DFF40 and ICAD/DFF45 during apoptosis. In normal cells, DFF exists in the nucleus as a heterodimer composed of CAD/DFF40 as a latent nuclease and its chaperone and inhibitor subunit ICAD/DFF45. Apoptotic activation of caspase-3 results in the cleavage of DFF45/ICAD and release of active DFF40/CAD nuclease.
Probab=25.27 E-value=1.5e+02 Score=19.03 Aligned_cols=31 Identities=19% Similarity=0.289 Sum_probs=24.2
Q ss_pred CChHHHHHHHHHhhcCC-CCCeeeEEeeccCCC
Q psy5166 17 ITYDRLQEEVKEMCKFS-TDQVFTVKWVDEEGD 48 (76)
Q Consensus 17 i~~e~L~~e~rd~c~~~-~~q~fT~kwvDeEGD 48 (76)
-|+++|.+|..+.+.+. ...+.++.- +|+|-
T Consensus 21 ~sL~eL~~K~~~~l~l~~~~~~~~lvL-~eDGT 52 (80)
T cd06536 21 SSLEELRIKACESLGFDSSSAPITLVL-AEDGT 52 (80)
T ss_pred CCHHHHHHHHHHHhCCCCCCCceEEEE-ecCCc
Confidence 37899999999999998 344677755 77774
No 102
>PRK02539 hypothetical protein; Provisional
Probab=25.04 E-value=37 Score=22.17 Aligned_cols=34 Identities=24% Similarity=0.293 Sum_probs=21.6
Q ss_pred CCeeeEEeeccCCCccccCcHHHHHHHHhhhhhCCCC
Q psy5166 35 DQVFTVKWVDEEGDPCLISTQMELEEAIRLYEVNHEP 71 (76)
Q Consensus 35 ~q~fT~kwvDeEGDPctiSsq~ELeEA~RL~elnkds 71 (76)
.|+=+++.||++|..+|-.- |.++=+-..++.|+
T Consensus 46 ~~L~~i~ivD~~G~dVTP~K---lk~~q~~~~l~~~~ 79 (85)
T PRK02539 46 HHIEGIKIVDEEGNDVTPEK---LRQVQREKGLHGRS 79 (85)
T ss_pred HHhccceEECCCCCCCCHHH---HHHHHHHhCcccCC
Confidence 35668999999999887553 33333444444443
No 103
>PF05768 DUF836: Glutaredoxin-like domain (DUF836); InterPro: IPR008554 Glutaredoxins [, , ], also known as thioltransferases (disulphide reductases, are small proteins of approximately one hundred amino-acid residues which utilise glutathione and NADPH as cofactors. Oxidized glutathione is regenerated by glutathione reductase. Together these components compose the glutathione system []. Glutaredoxin functions as an electron carrier in the glutathione-dependent synthesis of deoxyribonucleotides by the enzyme ribonucleotide reductase. Like thioredoxin, which functions in a similar way, glutaredoxin possesses an active centre disulphide bond []. It exists in either a reduced or an oxidized form where the two cysteine residues are linked in an intramolecular disulphide bond. Glutaredoxin has been sequenced in a variety of species. On the basis of extensive sequence similarity, it has been proposed [] that Vaccinia virus protein O2L is most probably a glutaredoxin. Finally, it must be noted that Bacteriophage T4 thioredoxin seems also to be evolutionary related. In position 5 of the pattern T4 thioredoxin has Val instead of Pro. This family contains several viral glutaredoxins, and many related bacterial and eukaryotic proteins of unknown function. The best characterised member of this family is G4L (P68460 from SWISSPROT) from Vaccinia virus (strain Western Reserve/WR) (VACV), which is necessary for virion morphogenesis and virus replication []. This is a cytomplasmic protein which functions as a shuttle in a redox pathway between membrane-associated E10R and L1R or F9L []. ; PDB: 1TTZ_A 1XPV_A 2FGX_A 2G2Q_C 1WJK_A.
Probab=24.72 E-value=1.1e+02 Score=18.31 Aligned_cols=29 Identities=31% Similarity=0.448 Sum_probs=20.8
Q ss_pred HHHHHHHHhhcC-CCCCeeeEEeeccCCCc
Q psy5166 21 RLQEEVKEMCKF-STDQVFTVKWVDEEGDP 49 (76)
Q Consensus 21 ~L~~e~rd~c~~-~~~q~fT~kwvDeEGDP 49 (76)
.||++.+++..- ....+|++..||=..||
T Consensus 11 ~LC~~a~~~L~~~~~~~~~~l~~vDI~~d~ 40 (81)
T PF05768_consen 11 HLCDEAKEILEEVAAEFPFELEEVDIDEDP 40 (81)
T ss_dssp HHHHHHHHHHHHCCTTSTCEEEEEETTTTH
T ss_pred ChHHHHHHHHHHHHhhcCceEEEEECCCCH
Confidence 389998888773 34556999999955443
No 104
>COG3382 Solo B3/4 domain (OB-fold DNA/RNA-binding) of Phe-aaRS-beta [General function prediction only]
Probab=24.22 E-value=47 Score=25.11 Aligned_cols=47 Identities=19% Similarity=0.147 Sum_probs=32.4
Q ss_pred ccccCceEEEecCCCCChHHHHHHHHHhhcCCCCCeeeEEeeccCCCccccCc
Q psy5166 2 YLFSDEVFITYIKPDITYDRLQEEVKEMCKFSTDQVFTVKWVDEEGDPCLIST 54 (76)
Q Consensus 2 ~~~~gdi~~~~~~~~i~~e~L~~e~rd~c~~~~~q~fT~kwvDeEGDPctiSs 54 (76)
.+|.|++..+--+.+=+|+.|-.+ .- +.. +=-+-|+|++|-.|.+++
T Consensus 124 d~~~g~lrL~~a~ggE~f~~lg~~--~~-~~~---~geiv~~Dd~G~~~r~~~ 170 (229)
T COG3382 124 DKIVGDLRLTLADGGETFDTLGAK--NE-PPL---EGEIVLVDDEGAFCRRWN 170 (229)
T ss_pred HHhCCCceEEeccCCceeecccCC--CC-CCC---CCcEEEEcCCCCeeeecc
Confidence 368899998888888788776511 00 111 225889999999997665
No 105
>KOG0482|consensus
Probab=24.07 E-value=46 Score=28.89 Aligned_cols=19 Identities=26% Similarity=0.499 Sum_probs=15.8
Q ss_pred HHHHHHHHhhhhhCCCCce
Q psy5166 55 QMELEEAIRLYEVNHEPEL 73 (76)
Q Consensus 55 q~ELeEA~RL~elnkdseL 73 (76)
+...+||+||.++.|+|-.
T Consensus 628 ~~DV~EALRLme~sK~sL~ 646 (721)
T KOG0482|consen 628 EDDVNEALRLMEMSKDSLY 646 (721)
T ss_pred hhhHHHHHHHHHhhhcccc
Confidence 3568999999999999843
No 106
>cd01798 parkin_N amino-terminal ubiquitin-like of parkin protein. parkin_N parkin protein is a RING-type E3 ubiquitin ligase with an amino-terminal ubiquitin-like (Ubl) domain and an RBR signature consisting of two RING finger domains separated by an IBR/DRIL domain. Naturally occurring mutations in parkin are thought to cause the disease AR_JP (autosomal-recessive juvenile parkinsonism). Parkin binds the Rpn10 subunit of 26S proteasomes through its Ubl domain.
Probab=23.76 E-value=1.2e+02 Score=17.32 Aligned_cols=33 Identities=24% Similarity=0.319 Sum_probs=28.8
Q ss_pred ccCceEEEecCCCCChHHHHHHHHHhhcCCCCC
Q psy5166 4 FSDEVFITYIKPDITYDRLQEEVKEMCKFSTDQ 36 (76)
Q Consensus 4 ~~gdi~~~~~~~~i~~e~L~~e~rd~c~~~~~q 36 (76)
..|......++++.+..++-+.+.+..+++..+
T Consensus 6 ~~g~~~~~~v~~~~tV~~lK~~i~~~~gi~~~~ 38 (70)
T cd01798 6 NTGHTFPVEVDPDTDIKQLKEVVAKRQGVPPDQ 38 (70)
T ss_pred CCCCEEEEEECCCChHHHHHHHHHHHHCCCHHH
Confidence 578889999999999999999999998877653
No 107
>cd04621 CBS_pair_8 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called Bateman domain or a CBS pair based on crystallographic studies in bacteria. The CBS pair was used as a basis for this cd hierarchy since the human CBS proteins can adopt the typical core structure and form an intramolecular CBS pair. The interface between the two CBS domains forms a cleft that is a potential ligand binding site. The CBS pair coexists with a variety of other functional domains and this has been used to help in its classification here. It has been proposed that the CBS domain may play a regulatory role, although its exact function is unknown. Mutations of conserved residues within this domain are associated with a variety of human hereditary diseases, including congenital myotonia, idiopathic genera
Probab=23.69 E-value=57 Score=20.57 Aligned_cols=26 Identities=15% Similarity=0.123 Sum_probs=19.9
Q ss_pred CccccCcHHHHHHHHhhhhhCCCCce
Q psy5166 48 DPCLISTQMELEEAIRLYEVNHEPEL 73 (76)
Q Consensus 48 DPctiSsq~ELeEA~RL~elnkdseL 73 (76)
++.++++..-+.+|++...-++-+.+
T Consensus 2 ~~~~v~~~~~~~~a~~~~~~~~~~~l 27 (135)
T cd04621 2 DIATVHPEHSLLHVVDEMEKNGVGRV 27 (135)
T ss_pred CceEeCCCCcHHHHHHHHHHcCCCcc
Confidence 67889999999999988776554433
No 108
>PF14584 DUF4446: Protein of unknown function (DUF4446)
Probab=23.34 E-value=59 Score=22.67 Aligned_cols=23 Identities=13% Similarity=0.449 Sum_probs=19.9
Q ss_pred CCCCCeeeEEeeccCCCccccCc
Q psy5166 32 FSTDQVFTVKWVDEEGDPCLIST 54 (76)
Q Consensus 32 ~~~~q~fT~kwvDeEGDPctiSs 54 (76)
.+.+..|.+.++|++||=..++|
T Consensus 94 mGg~LSFslAlLD~~~nGvVlts 116 (151)
T PF14584_consen 94 MGGDLSFSLALLDDNNNGVVLTS 116 (151)
T ss_pred ccccceeeeEEEeCCCCEEEEEe
Confidence 45788999999999999888876
No 109
>cd01807 GDX_N ubiquitin-like domain of GDX. GDX contains an N-terminal ubiquitin-like domain as well as an uncharacterized c-terminal domain. The function of GDX is unknown.
Probab=23.26 E-value=1.3e+02 Score=17.49 Aligned_cols=34 Identities=15% Similarity=0.151 Sum_probs=28.9
Q ss_pred cccCceEEEecCCCCChHHHHHHHHHhhcCCCCC
Q psy5166 3 LFSDEVFITYIKPDITYDRLQEEVKEMCKFSTDQ 36 (76)
Q Consensus 3 ~~~gdi~~~~~~~~i~~e~L~~e~rd~c~~~~~q 36 (76)
..+|...+..++++-+..+|-+.+.+..++...+
T Consensus 7 ~~~G~~~~l~v~~~~tV~~lK~~i~~~~gi~~~~ 40 (74)
T cd01807 7 LLQGRECSLQVSEKESVSTLKKLVSEHLNVPEEQ 40 (74)
T ss_pred eCCCCEEEEEECCCCcHHHHHHHHHHHHCCCHHH
Confidence 3578888889999999999999999988877653
No 110
>cd01615 CIDE_N CIDE_N domain, found at the N-terminus of the CIDE (cell death-inducing DFF45-like effector) proteins, as well as CAD nuclease (caspase-activated DNase/DNA fragmentation factor, DFF40) and its inhibitor, ICAD(DFF45). These proteins are associated with the chromatin condensation and DNA fragmentation events of apoptosis; the CIDE_N domain is thought to regulate the activity of ICAD/DFF45, and the CAD/DFF40 and CIDE nucleases during apoptosis. The CIDE-N domain is also found in the FSP27/CIDE-C protein.
Probab=23.15 E-value=1.6e+02 Score=18.74 Aligned_cols=30 Identities=20% Similarity=0.305 Sum_probs=23.7
Q ss_pred CChHHHHHHHHHhhcCCCCCeeeEEeeccCCC
Q psy5166 17 ITYDRLQEEVKEMCKFSTDQVFTVKWVDEEGD 48 (76)
Q Consensus 17 i~~e~L~~e~rd~c~~~~~q~fT~kwvDeEGD 48 (76)
-|+++|.+|..+.+.+++ .+.++.- +|+|-
T Consensus 21 ~sL~eL~~K~~~~l~l~~-~~~~lvL-~eDGT 50 (78)
T cd01615 21 SSLEELLSKACEKLKLPS-APVTLVL-EEDGT 50 (78)
T ss_pred CCHHHHHHHHHHHcCCCC-CCeEEEE-eCCCc
Confidence 479999999999999984 4666654 77774
No 111
>cd04623 CBS_pair_10 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called Bateman domain or a CBS pair based on crystallographic studies in bacteria. The CBS pair was used as a basis for this cd hierarchy since the human CBS proteins can adopt the typical core structure and form an intramolecular CBS pair. The interface between the two CBS domains forms a cleft that is a potential ligand binding site. The CBS pair coexists with a variety of other functional domains and this has been used to help in its classification here. It has been proposed that the CBS domain may play a regulatory role, although its exact function is unknown. Mutations of conserved residues within this domain are associated with a variety of human hereditary diseases, including congenital myotonia, idiopathic gener
Probab=22.85 E-value=69 Score=18.44 Aligned_cols=21 Identities=19% Similarity=0.256 Sum_probs=12.3
Q ss_pred CccccCcHHHHHHHHhhhhhC
Q psy5166 48 DPCLISTQMELEEAIRLYEVN 68 (76)
Q Consensus 48 DPctiSsq~ELeEA~RL~eln 68 (76)
++.++++..-+++|++...-+
T Consensus 2 ~~~~i~~~~~~~~~~~~~~~~ 22 (113)
T cd04623 2 DVITVRPDATVAEAAKLMAEK 22 (113)
T ss_pred CCEEECCCCcHHHHHHHHHHc
Confidence 455566666666666655433
No 112
>PRK08383 putative monovalent cation/H+ antiporter subunit E; Reviewed
Probab=22.74 E-value=1.1e+02 Score=21.67 Aligned_cols=29 Identities=24% Similarity=0.390 Sum_probs=21.4
Q ss_pred CCeeeEEeec-cCCCccccCcH---HHHHHHHh
Q psy5166 35 DQVFTVKWVD-EEGDPCLISTQ---MELEEAIR 63 (76)
Q Consensus 35 ~q~fT~kwvD-eEGDPctiSsq---~ELeEA~R 63 (76)
++.+.++|+| +++||.-.+.+ .++|..+|
T Consensus 132 ~~~L~VH~ld~~~~~~~~~~~~~i~~~~e~~~~ 164 (168)
T PRK08383 132 EKALYVHWINVPEGLEKPESSEPVSGPFEKWAR 164 (168)
T ss_pred CCEEEEEEEECCCCCchhhhcccccchHHHHHH
Confidence 3578999999 55788777766 67777665
No 113
>cd01804 midnolin_N Ubiquitin-like domain of midnolin. midnolin_N Midnolin (midbrain nucleolar protein) is expressed in the nucleolus and is thought to regulate genes involved in neurogenesis. Midnolin contains an amino-terminal ubiquitin-like domain.
Probab=22.66 E-value=1.5e+02 Score=17.66 Aligned_cols=32 Identities=19% Similarity=0.291 Sum_probs=27.3
Q ss_pred ccCceEEEecCCCCChHHHHHHHHHhhcCCCC
Q psy5166 4 FSDEVFITYIKPDITYDRLQEEVKEMCKFSTD 35 (76)
Q Consensus 4 ~~gdi~~~~~~~~i~~e~L~~e~rd~c~~~~~ 35 (76)
.+|......++++.|..+|.+++.+..++...
T Consensus 9 ~~G~~~~l~v~~~~TV~~LK~~I~~~~~~~~~ 40 (78)
T cd01804 9 TTGTRFDLSVPPDETVEGLKKRISQRLKVPKE 40 (78)
T ss_pred CCCCEEEEEECCcCHHHHHHHHHHHHhCCChH
Confidence 46778888999999999999999888877655
No 114
>smart00116 CBS Domain in cystathionine beta-synthase and other proteins. Domain present in all 3 forms of cellular life. Present in two copies in inosine monophosphate dehydrogenase, of which one is disordered in the crystal structure [3]. A number of disease states are associated with CBS-containing proteins including homocystinuria, Becker's and Thomsen disease.
Probab=22.48 E-value=66 Score=15.08 Aligned_cols=21 Identities=29% Similarity=0.344 Sum_probs=11.6
Q ss_pred ccccCcHHHHHHHHhhhhhCC
Q psy5166 49 PCLISTQMELEEAIRLYEVNH 69 (76)
Q Consensus 49 PctiSsq~ELeEA~RL~elnk 69 (76)
|.++.+...+.+|++...-++
T Consensus 2 ~~~~~~~~~~~~~~~~~~~~~ 22 (49)
T smart00116 2 VVTVSPDTTLEEALELLREHG 22 (49)
T ss_pred ceEecCCCcHHHHHHHHHHhC
Confidence 445555556666666554443
No 115
>PF14419 SPOUT_MTase_2: AF2226-like SPOUT RNA Methylase fused to THUMP
Probab=22.47 E-value=1.2e+02 Score=22.22 Aligned_cols=50 Identities=22% Similarity=0.322 Sum_probs=34.1
Q ss_pred ccCceEEEecCCCCChHHHHHHHHHhhcCCCCCeeeEEeeccCCCccccCcHHHHHHHHhh
Q psy5166 4 FSDEVFITYIKPDITYDRLQEEVKEMCKFSTDQVFTVKWVDEEGDPCLISTQMELEEAIRL 64 (76)
Q Consensus 4 ~~gdi~~~~~~~~i~~e~L~~e~rd~c~~~~~q~fT~kwvDeEGDPctiSsq~ELeEA~RL 64 (76)
|..++.. -+++..+|.+-+|+ + ++.|+- ..|.+|||++=-- .+|.+++|-
T Consensus 70 Y~r~v~k----vpV~V~DlYQ~vRd--R--~~~~lI--vtdPkG~~is~vk-~~L~~~~r~ 119 (173)
T PF14419_consen 70 YGREVRK----VPVYVQDLYQVVRD--R--KGEPLI--VTDPKGDPISEVK-DKLAEDLRY 119 (173)
T ss_pred cCCeeeE----eeeeHHHHHHHHHh--c--CCCeEE--EECCCCCcHHHHH-HHHHHHHhh
Confidence 4444444 35788999999999 3 444543 3499999987544 677777753
No 116
>cd04622 CBS_pair_9 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called Bateman domain or a CBS pair based on crystallographic studies in bacteria. The CBS pair was used as a basis for this cd hierarchy since the human CBS proteins can adopt the typical core structure and form an intramolecular CBS pair. The interface between the two CBS domains forms a cleft that is a potential ligand binding site. The CBS pair coexists with a variety of other functional domains and this has been used to help in its classification here. It has been proposed that the CBS domain may play a regulatory role, although its exact function is unknown. Mutations of conserved residues within this domain are associated with a variety of human hereditary diseases, including congenital myotonia, idiopathic genera
Probab=22.46 E-value=69 Score=18.58 Aligned_cols=24 Identities=25% Similarity=0.256 Sum_probs=17.6
Q ss_pred CccccCcHHHHHHHHhhhhhCCCC
Q psy5166 48 DPCLISTQMELEEAIRLYEVNHEP 71 (76)
Q Consensus 48 DPctiSsq~ELeEA~RL~elnkds 71 (76)
++.++.++..+++|++.+.-++.+
T Consensus 2 ~~~~v~~~~~~~~~~~~~~~~~~~ 25 (113)
T cd04622 2 DVVTVSPDDTIREAARLMREHDVG 25 (113)
T ss_pred CCEEECCCCcHHHHHHHHHHcCCC
Confidence 567788888888888877655443
No 117
>cd01805 RAD23_N Ubiquitin-like domain of RAD23. RAD23 belongs to a family of adaptor molecules having affinity for both the proteasome and ubiquitinylated proteins and thought to shuttle these ubiquitinylated proteins to the proteasome for destruction. RAD23 interacts with ubiquitin through its C-terminal ubiquitin-associated domains (UBA) and with the proteasome through its N-terminal ubiquitin-like domain (UBL).
Probab=22.43 E-value=1.7e+02 Score=16.79 Aligned_cols=29 Identities=24% Similarity=0.357 Sum_probs=26.2
Q ss_pred ccCceEEEecCCCCChHHHHHHHHHhhcC
Q psy5166 4 FSDEVFITYIKPDITYDRLQEEVKEMCKF 32 (76)
Q Consensus 4 ~~gdi~~~~~~~~i~~e~L~~e~rd~c~~ 32 (76)
.+|......++++.|..+|-+++.+..+.
T Consensus 8 ~~g~~~~l~v~~~~TV~~lK~~i~~~~~i 36 (77)
T cd01805 8 LKQQTFPIEVDPDDTVAELKEKIEEEKGC 36 (77)
T ss_pred CCCCEEEEEECCCCcHHHHHHHHHHhhCC
Confidence 57888899999999999999999998876
No 118
>PF14216 DUF4326: Domain of unknown function (DUF4326)
Probab=22.33 E-value=50 Score=21.03 Aligned_cols=24 Identities=33% Similarity=0.700 Sum_probs=19.7
Q ss_pred eEEeeccCCCccccCcHHHHHHHHhhhh
Q psy5166 39 TVKWVDEEGDPCLISTQMELEEAIRLYE 66 (76)
Q Consensus 39 T~kwvDeEGDPctiSsq~ELeEA~RL~e 66 (76)
..+| |.|.++.....=++|+++|.
T Consensus 21 ~s~w----GNPf~~~~~~~R~~~v~~yr 44 (86)
T PF14216_consen 21 PSKW----GNPFRVGEDGDREEAVEKYR 44 (86)
T ss_pred CCcC----CCCCcCCCCCCHHHHHHHHH
Confidence 4678 99999998777788888875
No 119
>PF05979 DUF896: Bacterial protein of unknown function (DUF896); InterPro: IPR009242 This family consists of several short, hypothetical bacterial proteins of unknown function. They may be involved in the bacterial SOS response [].; PDB: 2HEP_A 3BHP_C 2JVD_A.
Probab=22.31 E-value=20 Score=22.26 Aligned_cols=17 Identities=29% Similarity=0.456 Sum_probs=3.9
Q ss_pred CCeeeEEeeccCCCccc
Q psy5166 35 DQVFTVKWVDEEGDPCL 51 (76)
Q Consensus 35 ~q~fT~kwvDeEGDPct 51 (76)
.|+=.+++||++|.-+|
T Consensus 44 ~~L~~i~ivD~~G~dVT 60 (65)
T PF05979_consen 44 SQLENIKIVDPDGNDVT 60 (65)
T ss_dssp HCSSTT-----------
T ss_pred HHhcceeEECCCCCCCC
Confidence 35668999999998766
No 120
>PF12813 XPG_I_2: XPG domain containing
Probab=22.28 E-value=1.2e+02 Score=22.33 Aligned_cols=55 Identities=16% Similarity=0.252 Sum_probs=38.5
Q ss_pred CCCCChHHHHHHHHHhhcCCCCCeeeEEeeccCCCccccCcHHHHHHHHhhhhhCCCCceecC
Q psy5166 14 KPDITYDRLQEEVKEMCKFSTDQVFTVKWVDEEGDPCLISTQMELEEAIRLYEVNHEPELVIH 76 (76)
Q Consensus 14 ~~~i~~e~L~~e~rd~c~~~~~q~fT~kwvDeEGDPctiSsq~ELeEA~RL~elnkdseL~iH 76 (76)
||++..+-+++-+|+.|++... +.-++.|.|+...+ +-....-.=+..||-|+||
T Consensus 1 ~P~f~~~~~~e~L~~~~~~~~~----~~~~~~EAD~~~A~----~A~~~~~~VLt~DSDf~I~ 55 (246)
T PF12813_consen 1 EPPFLVPAFIEALRESWRYGVP----VVQCPGEADRECAA----LARKWGCPVLTNDSDFLIH 55 (246)
T ss_pred CCcchHHHHHHHHHHHhhcCCc----EEEcCccchHHHHH----HHHHcCCeEEccCCCEEEe
Confidence 5777888999999999997754 33447788877652 3333344557778888876
No 121
>KOG2884|consensus
Probab=22.12 E-value=53 Score=25.38 Aligned_cols=16 Identities=63% Similarity=0.841 Sum_probs=13.0
Q ss_pred eccCCCccccCcHHHHHHHHhhh
Q psy5166 43 VDEEGDPCLISTQMELEEAIRLY 65 (76)
Q Consensus 43 vDeEGDPctiSsq~ELeEA~RL~ 65 (76)
||++-|| ||..|+||+
T Consensus 211 vdp~~DP-------ELAlALRlS 226 (259)
T KOG2884|consen 211 VDPEDDP-------ELALALRLS 226 (259)
T ss_pred CCcccCH-------HHHHHHHhh
Confidence 4777776 999999986
No 122
>PF06242 DUF1013: Protein of unknown function (DUF1013); InterPro: IPR010421 This is a family of uncharacterised proteins found in Proteobacteria.
Probab=21.88 E-value=65 Score=22.86 Aligned_cols=18 Identities=28% Similarity=0.613 Sum_probs=14.9
Q ss_pred CCccccC--cHHHHHHHHhh
Q psy5166 47 GDPCLIS--TQMELEEAIRL 64 (76)
Q Consensus 47 GDPctiS--sq~ELeEA~RL 64 (76)
-||.+.- ||.||++|+.-
T Consensus 117 ~DPV~LGLCsQ~dLd~~v~k 136 (140)
T PF06242_consen 117 RDPVTLGLCSQIDLDAAVEK 136 (140)
T ss_pred CCCceeccccHHHHHHHHHH
Confidence 4898875 99999999864
No 123
>cd04595 CBS_pair_DHH_polyA_Pol_assoc This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with an upstream DHH domain which performs a phosphoesterase function and a downstream polyA polymerase domain. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently found in a wide range of different proteins. CBS domains usually come in tandem repeats, which associate to form a so-called Bateman domain or a CBS pair which is reflected in this model. The interface between the two CBS domains forms a cleft that is a potential ligand binding site. The CBS pair coexists with a variety of other functional domains. It has been proposed that the CBS domain may play a regulatory role, although its exact function is unknown.
Probab=21.82 E-value=73 Score=18.52 Aligned_cols=26 Identities=15% Similarity=0.066 Sum_probs=18.1
Q ss_pred CCccccCcHHHHHHHHhhhhhCCCCc
Q psy5166 47 GDPCLISTQMELEEAIRLYEVNHEPE 72 (76)
Q Consensus 47 GDPctiSsq~ELeEA~RL~elnkdse 72 (76)
.++.+++++..+.+|++...-++.+.
T Consensus 2 ~~~~~~~~~~~~~~~~~~~~~~~~~~ 27 (110)
T cd04595 2 SPVKTVRPEATIEEARELLLRYGHTA 27 (110)
T ss_pred CCceEeCCCCcHHHHHHHHHHcCCCe
Confidence 36677888888888887776554433
No 124
>cd01794 DC_UbP_C dendritic cell derived ubiquitin-like protein. DC_UbP (dendritic cell derived ubiquitin-like protein) is a ubiquitin-like protein from human dendritic cells that is expressed in the mitochondrion. The ubiquitin-like domain of this protein is found at the C-terminus and lacks the canonical gly-gly motif of ubiquitin required for ubiquitinization. DC_UbP is expressed in tumor cells but not in normal human adult tissue suggesting a role for DC_UbP in tumorogenesis.
Probab=21.77 E-value=1.3e+02 Score=17.74 Aligned_cols=33 Identities=6% Similarity=-0.026 Sum_probs=28.7
Q ss_pred ccCceEEEecCCCCChHHHHHHHHHhhcCCCCC
Q psy5166 4 FSDEVFITYIKPDITYDRLQEEVKEMCKFSTDQ 36 (76)
Q Consensus 4 ~~gdi~~~~~~~~i~~e~L~~e~rd~c~~~~~q 36 (76)
.+|......++++.|..+|-+++.+..+++..+
T Consensus 6 ~~G~~~~l~v~~~~TV~~lK~~I~~~~gi~~~~ 38 (70)
T cd01794 6 STGKDVKLSVSSKDTVGQLKKQLQAAEGVDPCC 38 (70)
T ss_pred CCCCEEEEEECCcChHHHHHHHHHHHhCCCHHH
Confidence 478889999999999999999999998877653
No 125
>cd04641 CBS_pair_28 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called Bateman domain or a CBS pair based on crystallographic studies in bacteria. The CBS pair was used as a basis for this cd hierarchy since the human CBS proteins can adopt the typical core structure and form an intramolecular CBS pair. The interface between the two CBS domains forms a cleft that is a potential ligand binding site. The CBS pair coexists with a variety of other functional domains and this has been used to help in its classification here. It has been proposed that the CBS domain may play a regulatory role, although its exact function is unknown. Mutations of conserved residues within this domain are associated with a variety of human hereditary diseases, including congenital myotonia, idiopathic gener
Probab=21.66 E-value=62 Score=19.36 Aligned_cols=22 Identities=5% Similarity=0.066 Sum_probs=16.1
Q ss_pred CccccCcHHHHHHHHhhhhhCC
Q psy5166 48 DPCLISTQMELEEAIRLYEVNH 69 (76)
Q Consensus 48 DPctiSsq~ELeEA~RL~elnk 69 (76)
++.++.++.-+.||+++..-++
T Consensus 2 ~~~~i~~~~~l~~a~~~~~~~~ 23 (120)
T cd04641 2 NIATARPDTPLIDVLDMLVERR 23 (120)
T ss_pred CcEEEcCCCCHHHHHHHHHHcC
Confidence 5677888888888887765444
No 126
>PF10407 Cytokin_check_N: Cdc14 phosphatase binding protein N-terminus ; InterPro: IPR018844 Cytokinesis in yeasts involves a family of proteins whose essential function is to bind Cdc14-family phosphatase and prevent this from being sequestered and inhibited in the nucleolus. This is the highly conserved N terminus of a family of proteins which act as cytokinesis checkpoint controls by allowing cells to cope with cytokinesis defects. These proteins are required for rDNA silencing and mini-chromosome maintenance [].
Probab=21.01 E-value=1e+02 Score=19.28 Aligned_cols=49 Identities=18% Similarity=0.443 Sum_probs=35.5
Q ss_pred cCCCCChHHHHHHHHHhhc--CCCCCeeeEEeeccCCCccccCcHHHHHHHH
Q psy5166 13 IKPDITYDRLQEEVKEMCK--FSTDQVFTVKWVDEEGDPCLISTQMELEEAI 62 (76)
Q Consensus 13 ~~~~i~~e~L~~e~rd~c~--~~~~q~fT~kwvDeEGDPctiSsq~ELeEA~ 62 (76)
.+++.++.+|++++.+-|. .++.++|++.=+-++ +-|-++|.-..+++|
T Consensus 9 t~~~~tl~~L~~eI~~~f~kLYP~~~~~~I~~LQD~-~~cDLD~d~~V~DVf 59 (73)
T PF10407_consen 9 TDPNNTLSQLKEEIEERFKKLYPNEPELEILSLQDS-DGCDLDPDFLVKDVF 59 (73)
T ss_pred eCCCCcHHHHHHHHHHHHHHHCCCCCCceEEEeecC-CCCCCCcccEeeeee
Confidence 5788899999999999986 456667766554332 458888877766655
No 127
>PF01243 Pyridox_oxidase: Pyridoxamine 5'-phosphate oxidase; InterPro: IPR011576 Pyridoxamine 5'-phosphate oxidase (PNPOx; 1.4.3.5 from EC) is a FMN flavoprotein that catalyses the oxidation of pyridoxamine-5-P (PMP) and pyridoxine-5-P (PNP) to pyridoxal-5-P (PLP). This reaction serves as the terminal step in the de novo biosynthesis of PLP in Escherichia coli and as a part of the salvage pathway of this coenzyme in both E. coli and mammalian cells [, ]. The binding sites for FMN and for substrate have been highly conserved throughout evolution. This entry represents the FMN-binding domain present in pyridoxamine 5'-phosphate oxidases, as well as in a number of proteins that have not been demonstrated to have enzymatic activity. The FMN-binding domain has a structure consisting of a beta-barrel with Greek key topology, and is related to the ferredoxin reductase-like FAD-binding domain. PNPOx has a different dimerisation mode than that found in flavin reductases, which also carry an FMN-binding domain with a similar topology. ; GO: 0004733 pyridoxamine-phosphate oxidase activity, 0010181 FMN binding, 0055114 oxidation-reduction process; PDB: 2IG6_A 1CI0_A 2HQ7_B 2HTD_B 3EC6_A 1WV4_B 1DNL_A 1G76_A 1G79_A 1G77_A ....
Probab=20.92 E-value=1.3e+02 Score=17.16 Aligned_cols=27 Identities=30% Similarity=0.514 Sum_probs=17.4
Q ss_pred HHHHHHhhcCCCCCeeeEEeeccCCCccc
Q psy5166 23 QEEVKEMCKFSTDQVFTVKWVDEEGDPCL 51 (76)
Q Consensus 23 ~~e~rd~c~~~~~q~fT~kwvDeEGDPct 51 (76)
-++++++.. ..+.+++.=+|++|-|..
T Consensus 2 ~~~~~~~l~--~~~~~~laTv~~dG~P~~ 28 (89)
T PF01243_consen 2 TEEIREFLE--ESKYCVLATVDEDGRPHA 28 (89)
T ss_dssp HHHHHHHHH--STSEEEEEEEETTSEEEE
T ss_pred cHHHHHHhc--CCCEEEEEEECCCCCEEE
Confidence 355556555 334667777888888865
No 128
>KOG0031|consensus
Probab=20.41 E-value=67 Score=23.49 Aligned_cols=16 Identities=31% Similarity=0.493 Sum_probs=14.5
Q ss_pred HHHHHHHhhhhhCCCC
Q psy5166 56 MELEEAIRLYEVNHEP 71 (76)
Q Consensus 56 ~ELeEA~RL~elnkds 71 (76)
.|++|||.+.-.|+|-
T Consensus 32 qEfKEAF~~mDqnrDG 47 (171)
T KOG0031|consen 32 QEFKEAFNLMDQNRDG 47 (171)
T ss_pred HHHHHHHHHHhccCCC
Confidence 5899999999999985
No 129
>PF03722 Hemocyanin_N: Hemocyanin, all-alpha domain; InterPro: IPR005204 Haemocyanins are copper-containing oxygen transport proteins found in the haemolymph of many invertebrates. They are divided into 2 main groups, arthropodan and molluscan. These have structurally similar oxygen-binding centres, which are similar to the oxygen-binding centre of tyrosinases [], but their quaternary structures are arranged differently. The arthropodan proteins exist as hexamers comprising 3 heterogeneous subunits (a, b and c) and possess 1 oxygen-binding centre per subunit; and the molluscan proteins exist as cylindrical oligomers of 10 to 20 subunits and possess 7 or 8 oxygen-binding centres per subunit []. Although the proteins have similar amino acid compositions, the only real similarity in their primary sequences is in the region corresponding to the second copper-binding domain, which also shows similarity to the copper-binding domain of tyrosinases []. Larval storage proteins (LSP) [] are proteins from the hemolymph of insects, which may serve as a store of amino acids for synthesis of adult proteins. There are two classes of LSP's, arylphorins, which are rich in aromatic amino acids, and methionine-rich LSP's. LSP's forms hexameric complexes. LSP's are structurally related to arthropods hemocyanins.; PDB: 1HCY_A 1HC1_C 3GWJ_F 3IXV_E 3IXW_L 3HHS_A 1NOL_A 1LLA_A 1OXY_A 1LL1_A.
Probab=20.20 E-value=1e+02 Score=20.67 Aligned_cols=24 Identities=25% Similarity=0.322 Sum_probs=17.2
Q ss_pred ccCCCccccCcHHHHHHHHhhhhh
Q psy5166 44 DEEGDPCLISTQMELEEAIRLYEV 67 (76)
Q Consensus 44 DeEGDPctiSsq~ELeEA~RL~el 67 (76)
=+.|.|.++.-..-++||.+|+++
T Consensus 60 lpr~~~FS~f~~~h~~ea~~L~~~ 83 (126)
T PF03722_consen 60 LPRGEIFSLFNPRHREEAIALFDL 83 (126)
T ss_dssp S-TTS---TTSHHHHHHHHHHHHH
T ss_pred CCCCCeecCCCHHHHHHHHHHHHH
Confidence 456888899989999999999875
No 130
>PRK14066 exodeoxyribonuclease VII small subunit; Provisional
Probab=20.12 E-value=48 Score=20.69 Aligned_cols=13 Identities=15% Similarity=0.695 Sum_probs=10.0
Q ss_pred cHHHHHHHHhhhh
Q psy5166 54 TQMELEEAIRLYE 66 (76)
Q Consensus 54 sq~ELeEA~RL~e 66 (76)
.++-|++++.+|+
T Consensus 23 g~l~Leesl~lye 35 (75)
T PRK14066 23 GELSLDDSLKAFE 35 (75)
T ss_pred CCCCHHHHHHHHH
Confidence 4567888888886
No 131
>cd01789 Alp11_N Ubiquitin-like domain of Alp11 tubulin-folding cofactor B. Alp11, also known as tubulin-folding cofactor B, is one of at least three proteins required for the proper folding of tubulins prior to their incorporation into microtubules. These cofactors are necessary for the biogenesis of microtubules and for cell viability. Alp11 has three domains including an N-terminal ubiquitin-like domain (represented by this CD) which executes the essential function, a central coiled-coil domain necessary for maintenance of cellular alpha-tubulin levels, and a C-terminal CLIP-170 domain is required for efficient binding to alpha-tubulin.
Probab=20.10 E-value=2.2e+02 Score=17.32 Aligned_cols=28 Identities=11% Similarity=0.151 Sum_probs=23.9
Q ss_pred eEEEecCCCCChHHHHHHHHHhhcCCCC
Q psy5166 8 VFITYIKPDITYDRLQEEVKEMCKFSTD 35 (76)
Q Consensus 8 i~~~~~~~~i~~e~L~~e~rd~c~~~~~ 35 (76)
...+.++++++..+|.+++..+++.+..
T Consensus 14 ~~ekr~~~~~Tv~~lK~kl~~~~G~~~~ 41 (84)
T cd01789 14 SFEKKYSRGLTIAELKKKLELVVGTPAS 41 (84)
T ss_pred eeeEecCCCCcHHHHHHHHHHHHCCCcc
Confidence 3445689999999999999999999766
Done!