Query psy12005
Match_columns 188
No_of_seqs 121 out of 176
Neff 4.1
Searched_HMMs 46136
Date Fri Aug 16 16:16:00 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy12005.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/12005hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd06537 CIDE_N_B CIDE_N domain 100.0 1.2E-38 2.6E-43 236.3 9.6 79 11-89 1-79 (81)
2 cd06539 CIDE_N_A CIDE_N domain 100.0 1.7E-38 3.6E-43 234.2 9.1 77 11-87 1-78 (78)
3 PF02017 CIDE-N: CIDE-N domain 100.0 2.7E-38 5.9E-43 232.9 8.4 77 11-87 1-78 (78)
4 cd06538 CIDE_N_FSP27 CIDE_N do 100.0 5.2E-38 1.1E-42 232.0 9.4 78 11-88 1-78 (79)
5 cd01615 CIDE_N CIDE_N domain, 100.0 5.6E-38 1.2E-42 231.4 9.3 77 11-87 1-78 (78)
6 cd06536 CIDE_N_ICAD CIDE_N dom 100.0 8.2E-38 1.8E-42 231.5 9.2 77 11-87 1-80 (80)
7 smart00266 CAD Domains present 100.0 6.1E-37 1.3E-41 224.0 8.8 73 13-85 1-74 (74)
8 cd06535 CIDE_N_CAD CIDE_N doma 100.0 2.1E-36 4.5E-41 222.6 9.1 76 11-87 1-77 (77)
9 PF09033 DFF-C: DNA Fragmentat 100.0 6.1E-32 1.3E-36 220.7 0.0 89 91-179 1-101 (164)
10 PF11834 DUF3354: Domain of un 96.3 0.013 2.7E-07 42.6 5.8 40 24-65 19-58 (69)
11 PF11470 TUG-UBL1: GLUT4 regul 85.8 2.3 5E-05 30.4 5.1 58 19-77 4-64 (65)
12 cd00196 UBQ Ubiquitin-like pro 84.4 6.4 0.00014 23.2 6.0 48 30-78 17-66 (69)
13 cd01812 BAG1_N Ubiquitin-like 79.0 7.1 0.00015 26.4 5.3 63 15-79 3-69 (71)
14 cd06409 PB1_MUG70 The MUG70 pr 68.9 23 0.00049 26.8 6.2 48 14-61 2-56 (86)
15 cd06398 PB1_Joka2 The PB1 doma 66.8 22 0.00047 26.8 5.8 47 16-62 4-59 (91)
16 cd05992 PB1 The PB1 domain is 65.5 41 0.00088 23.2 6.7 47 15-61 3-53 (81)
17 PF02196 RBD: Raf-like Ras-bin 61.5 51 0.0011 23.4 6.6 63 13-76 1-67 (71)
18 cd01807 GDX_N ubiquitin-like d 61.1 18 0.0004 25.0 4.2 48 31-80 21-72 (74)
19 PF00240 ubiquitin: Ubiquitin 60.0 33 0.00072 22.9 5.3 48 31-79 16-65 (69)
20 smart00666 PB1 PB1 domain. Pho 55.9 56 0.0012 22.7 6.0 32 30-61 20-53 (81)
21 KOG2501|consensus 55.8 15 0.00032 30.7 3.5 28 35-62 102-130 (157)
22 PF15210 SFTA2: Surfactant-ass 53.2 16 0.00034 26.1 2.7 31 29-59 21-51 (59)
23 cd01760 RBD Ubiquitin-like dom 52.0 42 0.00091 24.3 4.9 30 29-58 18-48 (72)
24 PF03607 DCX: Doublecortin; I 51.6 63 0.0014 22.1 5.6 47 30-79 8-54 (60)
25 smart00213 UBQ Ubiquitin homol 49.4 52 0.0011 21.0 4.7 46 17-64 5-52 (64)
26 cd06397 PB1_UP1 Uncharacterize 48.9 68 0.0015 24.4 5.7 48 14-61 2-52 (82)
27 PF14804 Jag_N: Jag N-terminus 48.4 38 0.00082 23.1 4.0 21 28-48 2-22 (52)
28 cd01809 Scythe_N Ubiquitin-lik 46.6 67 0.0015 21.4 5.1 33 31-65 21-54 (72)
29 cd01769 UBL Ubiquitin-like dom 46.4 79 0.0017 20.4 5.7 48 31-79 18-67 (69)
30 cd01801 Tsc13_N Ubiquitin-like 45.9 87 0.0019 22.0 5.7 40 31-70 23-64 (77)
31 PLN03192 Voltage-dependent pot 45.3 32 0.00069 34.4 4.5 48 30-80 770-817 (823)
32 TIGR01584 citF citrate lyase, 44.9 20 0.00043 34.9 2.9 38 25-62 441-485 (492)
33 cd01806 Nedd8 Nebb8-like ubiq 44.2 65 0.0014 21.7 4.7 33 31-65 21-54 (76)
34 cd01793 Fubi Fubi ubiquitin-li 42.4 46 0.00099 23.1 3.8 50 30-80 18-70 (74)
35 TIGR03252 uncharacterized HhH- 41.8 33 0.00072 29.1 3.5 60 97-161 27-94 (177)
36 cd01798 parkin_N amino-termina 40.9 49 0.0011 22.5 3.7 37 31-68 19-55 (70)
37 PF00564 PB1: PB1 domain; Int 38.1 98 0.0021 21.3 5.0 47 15-61 4-54 (84)
38 PTZ00044 ubiquitin; Provisiona 38.0 83 0.0018 21.5 4.6 32 31-64 21-53 (76)
39 PF04223 CitF: Citrate lyase, 37.4 26 0.00056 34.0 2.4 38 25-62 417-461 (466)
40 cd01803 Ubiquitin Ubiquitin. U 37.2 36 0.00078 23.0 2.6 33 31-65 21-54 (76)
41 cd01805 RAD23_N Ubiquitin-like 36.2 83 0.0018 21.5 4.3 46 31-77 21-70 (77)
42 cd01792 ISG15_repeat1 ISG15 ub 36.1 81 0.0017 22.3 4.3 35 31-65 23-58 (80)
43 cd01796 DDI1_N DNA damage indu 35.9 76 0.0016 22.0 4.1 45 31-77 20-68 (71)
44 cd01427 HAD_like Haloacid deha 34.1 69 0.0015 22.3 3.7 48 52-126 2-50 (139)
45 PF11976 Rad60-SLD: Ubiquitin- 33.4 43 0.00093 22.7 2.4 37 31-67 21-57 (72)
46 cd01808 hPLIC_N Ubiquitin-like 32.7 99 0.0021 21.1 4.2 32 31-64 20-52 (71)
47 PF10438 Cyc-maltodext_C: Cycl 32.6 29 0.00064 25.5 1.6 25 56-84 8-32 (78)
48 PRK13669 hypothetical protein; 31.1 64 0.0014 24.1 3.2 34 8-46 41-74 (78)
49 PTZ00449 104 kDa microneme/rho 29.4 47 0.001 33.6 2.9 56 2-68 833-889 (943)
50 PF11543 UN_NPL4: Nuclear pore 29.2 60 0.0013 23.7 2.7 44 15-58 7-52 (80)
51 cd01800 SF3a120_C Ubiquitin-li 28.2 1.3E+02 0.0028 21.0 4.2 49 30-80 17-69 (76)
52 PF00788 RA: Ras association ( 28.0 1.3E+02 0.0029 20.8 4.3 31 31-61 27-62 (93)
53 cd01810 ISG15_repeat2 ISG15 ub 27.2 63 0.0014 22.4 2.5 34 31-65 19-52 (74)
54 cd06407 PB1_NLP A PB1 domain i 27.2 2.5E+02 0.0055 20.5 5.9 46 16-61 4-53 (82)
55 PF02645 DegV: Uncharacterised 27.1 21 0.00046 30.9 0.0 51 25-75 1-56 (280)
56 PF07293 DUF1450: Protein of u 26.6 83 0.0018 23.3 3.1 33 8-45 41-73 (78)
57 PF14560 Ubiquitin_2: Ubiquiti 26.5 1.3E+02 0.0029 21.4 4.2 37 25-61 18-57 (87)
58 PF08621 RPAP1_N: RPAP1-like, 26.1 25 0.00055 23.9 0.3 43 123-167 5-47 (49)
59 PF04904 NCD1: NAB conserved r 25.8 39 0.00085 25.6 1.2 40 119-158 28-73 (82)
60 COG0637 Predicted phosphatase/ 25.6 36 0.00079 28.4 1.2 16 52-67 5-20 (221)
61 smart00455 RBD Raf-like Ras-bi 25.5 1.2E+02 0.0026 21.5 3.7 26 29-54 18-44 (70)
62 PF09379 FERM_N: FERM N-termin 25.3 1.3E+02 0.0028 20.6 3.8 24 31-54 17-42 (80)
63 TIGR01449 PGP_bact 2-phosphogl 25.0 32 0.00069 27.3 0.7 15 52-66 1-15 (213)
64 cd01817 RGS12_RBD Ubiquitin do 24.7 1.4E+02 0.0029 22.2 3.9 36 19-54 8-44 (73)
65 TIGR01548 HAD-SF-IA-hyp1 haloa 24.6 48 0.001 26.5 1.7 15 52-66 3-17 (197)
66 cd01797 NIRF_N amino-terminal 24.6 1.7E+02 0.0036 20.9 4.3 49 31-81 23-75 (78)
67 cd01763 Sumo Small ubiquitin-r 24.6 99 0.0021 22.3 3.2 56 9-65 8-65 (87)
68 TIGR01990 bPGM beta-phosphoglu 24.4 39 0.00085 26.1 1.1 16 52-67 2-17 (185)
69 TIGR01493 HAD-SF-IA-v2 Haloaci 24.4 38 0.00082 26.2 1.0 18 52-69 2-19 (175)
70 TIGR01993 Pyr-5-nucltdase pyri 24.3 39 0.00085 26.5 1.1 16 51-66 2-17 (184)
71 cd01799 Hoil1_N Ubiquitin-like 24.3 82 0.0018 22.5 2.7 30 31-62 23-52 (75)
72 TIGR01672 AphA HAD superfamily 24.2 80 0.0017 27.4 3.1 19 49-67 63-81 (237)
73 PRK10725 fructose-1-P/6-phosph 23.8 42 0.0009 26.2 1.1 16 51-66 7-22 (188)
74 PF11875 DUF3395: Domain of un 23.7 1E+02 0.0023 25.0 3.5 38 149-186 13-60 (151)
75 PF03671 Ufm1: Ubiquitin fold 22.5 2.2E+02 0.0047 21.4 4.6 44 11-61 13-56 (76)
76 PF10367 Vps39_2: Vacuolar sor 22.3 1E+02 0.0023 22.0 3.0 43 131-173 9-55 (109)
77 cd00351 TS_Pyrimidine_HMase Th 21.9 99 0.0022 26.3 3.1 37 105-141 109-150 (215)
78 cd01795 USP48_C USP ubiquitin- 21.5 2.6E+02 0.0057 22.2 5.1 59 30-90 24-86 (107)
79 PRK13226 phosphoglycolate phos 21.5 55 0.0012 27.0 1.5 18 50-67 13-30 (229)
80 cd06406 PB1_P67 A PB1 domain i 21.3 1.4E+02 0.0031 22.3 3.5 25 30-54 20-45 (80)
81 PRK15265 subtilase cytotoxin s 21.0 1.2E+02 0.0026 25.0 3.3 63 11-79 57-119 (134)
82 PF08393 DHC_N2: Dynein heavy 20.8 91 0.002 28.0 2.8 50 105-165 259-310 (408)
83 TIGR03351 PhnX-like phosphonat 20.3 68 0.0015 25.8 1.8 17 51-67 3-19 (220)
84 TIGR01826 CofD_related conserv 20.3 2.9E+02 0.0062 25.3 5.9 51 31-81 98-157 (310)
No 1
>cd06537 CIDE_N_B CIDE_N domain of CIDE-B 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, 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=100.00 E-value=1.2e-38 Score=236.29 Aligned_cols=79 Identities=39% Similarity=0.684 Sum_probs=76.6
Q ss_pred CCCceeEecCCCceEeEEeeCCHHHHHHHHHHHhCCCCceEEEEccCCcEEechhhhccCCCCceEeeecCCCeeccCC
Q psy12005 11 IGLPCKVVDSNREKKIGIVALSLKDLMNRARLKLGMSSVVKVVLDLDGTEVDEEEYFSTLEKNTSLMILSKNDKWTPRS 89 (188)
Q Consensus 11 ~~KPfKV~~~~R~~kkGV~A~SL~EL~~Ka~~~l~l~~~~~LvLeeDGT~VddEeYF~tLp~nT~lm~L~~ge~W~p~~ 89 (188)
++|||||||++|++||||+|+||+||+.|||++|+++.+++||||||||+|||||||+|||+||+||+|++||+|+|..
T Consensus 1 ~~rpfkv~~~~r~~kkGV~A~sL~EL~~K~~~~L~~~~~~~lvLeeDGT~Vd~EeyF~tLpdnT~lm~L~~gq~W~p~~ 79 (81)
T cd06537 1 PQRPFRVCDHKRTVRKGLTAASLQELLAKALETLLLSGVLTLVLEEDGTAVDSEDFFELLEDDTCLMVLEQGQSWSPKS 79 (81)
T ss_pred CCCceEEecCCCCeeEeEEccCHHHHHHHHHHHhCCCCceEEEEecCCCEEccHHHHhhCCCCCEEEEECCCCccCCCC
Confidence 4699999999999999999999999999999999998899999999999999999999999999999999999999964
No 2
>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=100.00 E-value=1.7e-38 Score=234.17 Aligned_cols=77 Identities=42% Similarity=0.701 Sum_probs=75.1
Q ss_pred CCCceeEecCCCceEeEEeeCCHHHHHHHHHHHhCCCC-ceEEEEccCCcEEechhhhccCCCCceEeeecCCCeecc
Q psy12005 11 IGLPCKVVDSNREKKIGIVALSLKDLMNRARLKLGMSS-VVKVVLDLDGTEVDEEEYFSTLEKNTSLMILSKNDKWTP 87 (188)
Q Consensus 11 ~~KPfKV~~~~R~~kkGV~A~SL~EL~~Ka~~~l~l~~-~~~LvLeeDGT~VddEeYF~tLp~nT~lm~L~~ge~W~p 87 (188)
++|||||||++|++||||+|+||+||+.|||++|+++. +++|||+||||+|||||||+|||+||+||+|++||+|+|
T Consensus 1 ~~kpfkV~~~~r~~k~GV~A~sL~EL~~K~~~~l~~~~~~~~lvL~eDGT~Vd~EeyF~~LpdnT~lm~L~~gq~W~p 78 (78)
T cd06539 1 PARPFRVSNHDRSSRRGVMASSLQELISKTLDALVITSGLVTLVLEEDGTVVDTEEFFQTLGDNTHFMVLEKGQKWTP 78 (78)
T ss_pred CCCcEEEecCCCCceEEEEecCHHHHHHHHHHHhCCCCCCcEEEEeCCCCEEccHHHHhhCCCCCEEEEECCCCccCC
Confidence 47999999999999999999999999999999999977 899999999999999999999999999999999999987
No 3
>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=100.00 E-value=2.7e-38 Score=232.93 Aligned_cols=77 Identities=49% Similarity=0.758 Sum_probs=70.6
Q ss_pred CCCceeEecCCCceEeEEeeCCHHHHHHHHHHHhCCCC-ceEEEEccCCcEEechhhhccCCCCceEeeecCCCeecc
Q psy12005 11 IGLPCKVVDSNREKKIGIVALSLKDLMNRARLKLGMSS-VVKVVLDLDGTEVDEEEYFSTLEKNTSLMILSKNDKWTP 87 (188)
Q Consensus 11 ~~KPfKV~~~~R~~kkGV~A~SL~EL~~Ka~~~l~l~~-~~~LvLeeDGT~VddEeYF~tLp~nT~lm~L~~ge~W~p 87 (188)
++|||||||++|++||||+|+||+||++|||++|+++. +++|||+||||+|||||||+|||+||+||+|++||+|+|
T Consensus 1 ~~kp~kv~~~~r~~k~Gv~A~sL~eL~~K~~~~l~~~~~~~~lvL~eDGT~VddEeyF~tLp~nT~lm~L~~ge~W~p 78 (78)
T PF02017_consen 1 KPKPFKVRNHDRSVKKGVAASSLEELLEKACDKLQLPEEPVRLVLEEDGTEVDDEEYFQTLPDNTVLMLLEKGEKWTP 78 (78)
T ss_dssp S-EEEEEEETTSSCEEEEEESSHHHHHHHHHHHHT-SSSTCEEEETTTTCBESSCHHHCCSSSSEEEEEEESSS--S-
T ss_pred CCCcEEEecCCCCceEeEEcCCHHHHHHHHHHHhCCCCcCcEEEEeCCCcEEccHHHHhhCCCCCEEEEECCCCccCC
Confidence 47999999999999999999999999999999999995 999999999999999999999999999999999999997
No 4
>cd06538 CIDE_N_FSP27 CIDE_N domain of FSP27 proteins. The CIDE-N (cell death-inducing DFF45-like effector, N-terminal) domain is found in the FSP27/CIDE-C protein, which has been identified as a n adipocyte lipid droplet protein that negatively regulates lipolysis and promotes triglyceride accumulation. The CIDE protein family includes 3 members: CIDE-A, CIDE-B, and FSP27(CIDE-C). Based on sequence similarity with DFF40 and DFF45, CIDE proteins were initially characterized as mitochondrial activators of apoptosis. The CIDE-N domain of FSP27 is sufficient to increase apoptosis in vitro when overexpressed.
Probab=100.00 E-value=5.2e-38 Score=232.02 Aligned_cols=78 Identities=41% Similarity=0.658 Sum_probs=75.9
Q ss_pred CCCceeEecCCCceEeEEeeCCHHHHHHHHHHHhCCCCceEEEEccCCcEEechhhhccCCCCceEeeecCCCeeccC
Q psy12005 11 IGLPCKVVDSNREKKIGIVALSLKDLMNRARLKLGMSSVVKVVLDLDGTEVDEEEYFSTLEKNTSLMILSKNDKWTPR 88 (188)
Q Consensus 11 ~~KPfKV~~~~R~~kkGV~A~SL~EL~~Ka~~~l~l~~~~~LvLeeDGT~VddEeYF~tLp~nT~lm~L~~ge~W~p~ 88 (188)
++|||||||++|++||||+|+||+||+.|||++|+++.+++|||+||||+|||||||+|||+||+||+|.+||+|+|+
T Consensus 1 ~~kp~kV~~~~rs~k~GV~A~sL~eL~~K~~~~l~l~~~~~lvL~eDGT~Vd~EeyF~tLp~nt~l~vL~~gq~W~p~ 78 (79)
T cd06538 1 RPRPFRVSNADRSLRKGIMADSLEDLLNKVLDALLLDCISSLVLDEDGTGVDTEEFFQALADNTVFMVLGKGQKWKPP 78 (79)
T ss_pred CCCcEEEecCCCceeEeEEcCCHHHHHHHHHHHcCCCCccEEEEecCCcEEccHHHHhhCCCCcEEEEECCCCccCCC
Confidence 469999999999999999999999999999999999878999999999999999999999999999999999999996
No 5
>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=100.00 E-value=5.6e-38 Score=231.38 Aligned_cols=77 Identities=52% Similarity=0.770 Sum_probs=74.8
Q ss_pred CCCceeEecCCCceEeEEeeCCHHHHHHHHHHHhCCCC-ceEEEEccCCcEEechhhhccCCCCceEeeecCCCeecc
Q psy12005 11 IGLPCKVVDSNREKKIGIVALSLKDLMNRARLKLGMSS-VVKVVLDLDGTEVDEEEYFSTLEKNTSLMILSKNDKWTP 87 (188)
Q Consensus 11 ~~KPfKV~~~~R~~kkGV~A~SL~EL~~Ka~~~l~l~~-~~~LvLeeDGT~VddEeYF~tLp~nT~lm~L~~ge~W~p 87 (188)
++|||||||++|++||||+|+||+||+.|||++|+++. +++|||++|||+|||||||+|||+||+||+|++||+|+|
T Consensus 1 ~~kp~kV~~~~r~~k~GV~A~sL~eL~~K~~~~l~l~~~~~~lvL~eDGTeVddEeYF~tLp~nT~l~~l~~gq~W~~ 78 (78)
T cd01615 1 PLRPFKVCDSDRSRKKGVAASSLEELLSKACEKLKLPSAPVTLVLEEDGTEVDDEEYFQTLPDNTVLMLLEPGQKWTP 78 (78)
T ss_pred CCCCEEEecCCCCeeEEEEcCCHHHHHHHHHHHcCCCCCCeEEEEeCCCcEEccHHHHhcCCCCcEEEEECCCCCcCC
Confidence 47999999999999999999999999999999999965 999999999999999999999999999999999999986
No 6
>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=100.00 E-value=8.2e-38 Score=231.46 Aligned_cols=77 Identities=40% Similarity=0.682 Sum_probs=74.5
Q ss_pred CCCceeEecCCCceEeEEeeCCHHHHHHHHHHHhCCCC---ceEEEEccCCcEEechhhhccCCCCceEeeecCCCeecc
Q psy12005 11 IGLPCKVVDSNREKKIGIVALSLKDLMNRARLKLGMSS---VVKVVLDLDGTEVDEEEYFSTLEKNTSLMILSKNDKWTP 87 (188)
Q Consensus 11 ~~KPfKV~~~~R~~kkGV~A~SL~EL~~Ka~~~l~l~~---~~~LvLeeDGT~VddEeYF~tLp~nT~lm~L~~ge~W~p 87 (188)
.+|||||||++|++||||+|+||+||+.|||++|++++ +++|||+||||+|||||||+|||+||+||+|++||+|+|
T Consensus 1 ~~kpfkV~~~~r~~k~GV~A~sL~eL~~K~~~~l~l~~~~~~~~lvL~eDGT~VddEeyF~tLp~nT~l~~L~~gq~W~p 80 (80)
T cd06536 1 ELKPCVVCNVSRQKQHGVAASSLEELRIKACESLGFDSSSAPITLVLAEDGTIVEDEDYFLCLPPNTKFVLLAENEKWAP 80 (80)
T ss_pred CCCceEEecCCCCeeEeEEcCCHHHHHHHHHHHhCCCCCCCceEEEEecCCcEEccHHHHhhCCCCcEEEEECCCCccCC
Confidence 37999999999999999999999999999999999983 699999999999999999999999999999999999987
No 7
>smart00266 CAD Domains present in proteins implicated in post-mortem DNA fragmentation.
Probab=100.00 E-value=6.1e-37 Score=223.97 Aligned_cols=73 Identities=47% Similarity=0.729 Sum_probs=72.1
Q ss_pred CceeEecCCCceEeEEeeCCHHHHHHHHHHHhCCCC-ceEEEEccCCcEEechhhhccCCCCceEeeecCCCee
Q psy12005 13 LPCKVVDSNREKKIGIVALSLKDLMNRARLKLGMSS-VVKVVLDLDGTEVDEEEYFSTLEKNTSLMILSKNDKW 85 (188)
Q Consensus 13 KPfKV~~~~R~~kkGV~A~SL~EL~~Ka~~~l~l~~-~~~LvLeeDGT~VddEeYF~tLp~nT~lm~L~~ge~W 85 (188)
|||||||++|++||||+|+||+||+.|||++|+++. +++|||+||||+|||||||+|||+||+||+|++||+|
T Consensus 1 kp~kV~~~~r~~k~GV~A~sL~eL~~K~~~~l~l~~~~~~l~L~eDGT~VddEeyF~tLp~nt~l~~L~~gq~W 74 (74)
T smart00266 1 RPFKVRDHDRNVRKGVAASSLEELLSKVCDKLALPDSPVTLVLEEDGTIVDDEEYFQTLPDNTELMALEKGEKW 74 (74)
T ss_pred CCEEEecCCCCeeEEEEcCCHHHHHHHHHHHhCCCCCCcEEEEecCCcEEccHHHHhcCCCCcEEEEEcCCCCC
Confidence 899999999999999999999999999999999986 9999999999999999999999999999999999999
No 8
>cd06535 CIDE_N_CAD CIDE_N domain of CAD nuclease. The CIDE_N (cell death-inducing DFF45-like effector, N-terminal) domain is found at the N-terminus of 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 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 the release of active DFF40/CAD nuclease.
Probab=100.00 E-value=2.1e-36 Score=222.57 Aligned_cols=76 Identities=34% Similarity=0.503 Sum_probs=73.6
Q ss_pred CCCceeEecCCCceEeEEeeCCHHHHHHHHHHHhCCCC-ceEEEEccCCcEEechhhhccCCCCceEeeecCCCeecc
Q psy12005 11 IGLPCKVVDSNREKKIGIVALSLKDLMNRARLKLGMSS-VVKVVLDLDGTEVDEEEYFSTLEKNTSLMILSKNDKWTP 87 (188)
Q Consensus 11 ~~KPfKV~~~~R~~kkGV~A~SL~EL~~Ka~~~l~l~~-~~~LvLeeDGT~VddEeYF~tLp~nT~lm~L~~ge~W~p 87 (188)
++|||||||++|++||||+|+||+||+.|||++|+++. +++|||+||||+| +||||+|||+||+||+|++||+|++
T Consensus 1 ~~kp~kV~~~~rs~k~GV~A~sL~eL~~K~~~~l~l~~~~~~l~L~eDGTeV-tEeyF~tLp~nT~lmvL~~gq~W~g 77 (77)
T cd06535 1 KPKCVKIRSLNSAQKYGVAAKNLKELLRKGCRLLQLPCAGSRLCLYEDGTEV-TEEYFPTLPDNTELVLLTPGQSWQG 77 (77)
T ss_pred CCCceEEecCCCCeeEeEEcCCHHHHHHHHHHHhCCCCCCcEEEEecCCcEe-hHHHHhcCCCCcEEEEEcCCCccCC
Confidence 47999999999999999999999999999999999987 8999999999999 6999999999999999999999985
No 9
>PF09033 DFF-C: DNA Fragmentation factor 45kDa, C terminal domain; InterPro: IPR015121 The C-terminal domain of DNA fragmentation factor 45 kDa (DFF-C) consists of four alpha-helices, which are folded in a helix-packing arrangement, with alpha-2 and alpha-3 packing against a long C-terminal helix (alpha-4). The main function of this domain is the inhibition of DFF40 by binding to its C-terminal catalytic domain through ionic interactions, thereby inhibiting the fragmentation of DNA in the apoptotic process. In addition to blocking the DNase activity of DFF40, the C-terminal region of DFF45 is also important for the DFF40-specific folding chaperone activity, as demonstrated by the ability of DFF45 to refold DFF40 []. ; PDB: 1KOY_A 1IYR_A.
Probab=99.96 E-value=6.1e-32 Score=220.72 Aligned_cols=89 Identities=9% Similarity=0.177 Sum_probs=0.0
Q ss_pred Cccceeccc-----cccch-----hHHHHHHHhhcCce-eeecCccchhhhcCCCCchhhhhccc-hHHHHHHHHHhhhh
Q psy12005 91 TTATLTLER-----NETNN-----DVTGFLTKIHGNNG-VSILGGLELELLSDMDPESLTDIIPD-KLFLDQFKEVSSRY 158 (188)
Q Consensus 91 ~~~~~~l~~-----~~~d~-----~~~~l~~qL~~dl~-i~ll~~~dLq~L~dm~~~~La~~~~~-~~~~~~lqet~~r~ 158 (188)
|+|++|+++ |++|+ -|+++|||||+||+ ||+|||+|||+|||+||++||.++++ +.++|.||||+|||
T Consensus 1 DGGTAWl~~eS~e~D~~ds~~g~~~WknlArQLK~DLssIILmSEeDLQ~LiDvpcsdLA~el~qs~~k~q~LQ~TLQqV 80 (164)
T PF09033_consen 1 DGGTAWLSQESFEVDETDSGAGADKWKNLARQLKEDLSSIILMSEEDLQVLIDVPCSDLAQELGQSCAKVQGLQNTLQQV 80 (164)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred CCccchhcccccccccccccccchhHHHHHHHHHhhhHHHhccCHHHHHHHhCCChHHHHHHHcccHHHHHHHHHHHHHH
Confidence 467888876 45553 19999999999999 99999999999999999999999988 99999999999999
Q ss_pred hhhccchhhhhhHHHHHHHHh
Q psy12005 159 FSNKNHHSKETKSEKILHHRY 179 (188)
Q Consensus 159 L~~r~e~rqs~~Ll~ly~~~~ 179 (188)
|||||||||||+||+||++|.
T Consensus 81 LDrREE~RQSkqLLeLYL~Al 101 (164)
T PF09033_consen 81 LDRREEERQSKQLLELYLQAL 101 (164)
T ss_dssp ---------------------
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999974
No 10
>PF11834 DUF3354: Domain of unknown function (DUF3354); InterPro: IPR021789 Potassium channels take part in important processes of higher plants, including opening and closing of stomatal pores and leaf movement. Inward rectifying potassium (K(+)in) channels play an important role in turgor regulation and ion uptake in higher plants. All of them comprise, from their N-terminal to their C-terminal ends: a short hydrophilic region, a hydrophobic region structurally analogous and partially homologous to the transmembrane domain of voltage-gated animal channels from the Shaker superfamily, a putative cyclic nucleotide-binding domain, and a conserved C-terminal KHA domain. Between these last two regions, some of them (AKT1, AKT2 and SKT1) contain an ankyrin-repeat domain with six repeats homologous to those of human erythrocyte ankyrin. This entry represents the KHA domain which is unique to plant K(+)in channels. The KHA domain contains two high-homology blocks enriched for hydrophobic and acidic residues, respectively. The KHA domain is essential for interaction of plant K(+)in channels. The KHA domain mediates tetramerization and/or stabilisation of the heteromers [, , ].
Probab=96.32 E-value=0.013 Score=42.59 Aligned_cols=40 Identities=35% Similarity=0.489 Sum_probs=32.7
Q ss_pred eEeEEeeCCHHHHHHHHHHHhCCCCceEEEEccCCcEEechh
Q psy12005 24 KKIGIVALSLKDLMNRARLKLGMSSVVKVVLDLDGTEVDEEE 65 (188)
Q Consensus 24 ~kkGV~A~SL~EL~~Ka~~~l~l~~~~~LvLeeDGT~VddEe 65 (188)
.|-=...+|++||+.-|+++|+++ .+-++.+||.+|||=+
T Consensus 19 GKvi~lP~SleeLl~ia~~kfg~~--~~~v~~~dgaeIdDI~ 58 (69)
T PF11834_consen 19 GKVIWLPDSLEELLKIASEKFGFS--ATKVLNEDGAEIDDID 58 (69)
T ss_pred CEEEEcCccHHHHHHHHHHHhCCC--ceEEEcCCCCEEeEEE
Confidence 444456799999999999999996 5666789999997644
No 11
>PF11470 TUG-UBL1: GLUT4 regulating protein TUG; InterPro: IPR021569 TUG is a GLUT4 regulating protein and functions to retain membrane vesicles containing GLUT4 intracellularly. TUG releases the GLUT4 containing vesicles to the cellular exocytic machinery in response to insulin stimulation which allows translocation to the plasma membrane []. TUG has an N-terminal ubiquitin-like domain (UBL1) which in similar proteins appears to participate in protein-protein interactions []. The region does have a area of negative electrostatic potential and increased backbone motility which leads to suggestions of a potential protein-protein interaction site []. ; PDB: 2AL3_A.
Probab=85.79 E-value=2.3 Score=30.37 Aligned_cols=58 Identities=21% Similarity=0.256 Sum_probs=32.7
Q ss_pred cCCCceEeEEee-CCHHHHHHHHHHHhCCCCceEEEEccCCcEEechhh--hccCCCCceEe
Q psy12005 19 DSNREKKIGIVA-LSLKDLMNRARLKLGMSSVVKVVLDLDGTEVDEEEY--FSTLEKNTSLM 77 (188)
Q Consensus 19 ~~~R~~kkGV~A-~SL~EL~~Ka~~~l~l~~~~~LvLeeDGT~VddEeY--F~tLp~nT~lm 77 (188)
-..|+.+.=|+. .++.++++.||++|+++. ..-.|...++.||-.-= |..||+|..|-
T Consensus 4 ~~~rr~~vkvtp~~~l~~VL~eac~k~~l~~-~~~~L~h~~k~ldlslp~R~snL~n~akLe 64 (65)
T PF11470_consen 4 YNFRRFKVKVTPNTTLNQVLEEACKKFGLDP-SSYDLKHNNKPLDLSLPFRLSNLPNNAKLE 64 (65)
T ss_dssp TTS-EEEE---TTSBHHHHHHHHHHHTT--G-GG-EEEETTEEESSS-BHHHH---SS-EEE
T ss_pred cCCcEEEEEECCCCCHHHHHHHHHHHcCCCc-cceEEEECCEEeccccceeecCCCCCCEEe
Confidence 344444544554 468999999999999985 35566688888874433 55688887764
No 12
>cd00196 UBQ Ubiquitin-like proteins. Ubiquitin homologs; Includes ubiquitin and ubiquitin-like proteins. Ubiquitin-mediated proteolysis is part of the regulated turnover of proteins required for controlling cell cycle progression. Other family members are protein modifiers that perform a wide range of functions. Ubiquitination usually results in a covalent bond between the C-terminus of ubiquitin and the epsilon-amino group of a substrate lysine. The three-step mechanism requires an activating enzyme (E1) that forms a thiol ester with the C-terminal carboxy group, a conjugating enzyme (E2) that transiently carries the activated ubiquitin molecule as a thiol ester, and a ligase (E3) that transfers the activated ubiquitin from the E2 to the substrate lysine residue. In poly-ubiquitination, ubiquitin itself is the substrate.
Probab=84.44 E-value=6.4 Score=23.24 Aligned_cols=48 Identities=19% Similarity=0.308 Sum_probs=31.4
Q ss_pred eCCHHHHHHHHHHHhCCCCceEEEEccCCcEEechhhh--ccCCCCceEee
Q psy12005 30 ALSLKDLMNRARLKLGMSSVVKVVLDLDGTEVDEEEYF--STLEKNTSLMI 78 (188)
Q Consensus 30 A~SL~EL~~Ka~~~l~l~~~~~LvLeeDGT~VddEeYF--~tLp~nT~lm~ 78 (188)
..|+++++.+.+++++++. -...|..+|..+++...- ..+.++..+.+
T Consensus 17 ~~tv~~l~~~i~~~~~~~~-~~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~ 66 (69)
T cd00196 17 GTTVADLKEKLAKKLGLPP-EQQRLLVNGKILPDSLTLEDYGLQDGDELVL 66 (69)
T ss_pred CCcHHHHHHHHHHHHCcCh-HHeEEEECCeECCCCCcHHHcCCCCCCEEEE
Confidence 5899999999999999764 333334677777665542 34444444444
No 13
>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=79.05 E-value=7.1 Score=26.37 Aligned_cols=63 Identities=19% Similarity=0.360 Sum_probs=38.9
Q ss_pred eeEecCCCceEeEEee-CCHHHHHHHHHHHhCCCC-ceEEEEccCCcEEechhhhcc--CCCCceEeee
Q psy12005 15 CKVVDSNREKKIGIVA-LSLKDLMNRARLKLGMSS-VVKVVLDLDGTEVDEEEYFST--LEKNTSLMIL 79 (188)
Q Consensus 15 fKV~~~~R~~kkGV~A-~SL~EL~~Ka~~~l~l~~-~~~LvLeeDGT~VddEeYF~t--Lp~nT~lm~L 79 (188)
+.|++..+....-|-. .|..+|+++..+..+++. .-+|. ..|...+++.-... +.++..++++
T Consensus 3 i~vk~~g~~~~i~v~~~~tv~~lK~~i~~~~gi~~~~q~L~--~~g~~l~d~~~L~~~~i~~g~~l~v~ 69 (71)
T cd01812 3 VRVKHGGESHDLSISSQATFGDLKKMLAPVTGVEPRDQKLI--FKGKERDDAETLDMSGVKDGSKVMLL 69 (71)
T ss_pred EEEEECCEEEEEEECCCCcHHHHHHHHHHhhCCChHHeEEe--eCCcccCccCcHHHcCCCCCCEEEEe
Confidence 3455554443333333 589999999999999985 44444 55888866543333 3556666554
No 14
>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=68.94 E-value=23 Score=26.77 Aligned_cols=48 Identities=23% Similarity=0.269 Sum_probs=33.9
Q ss_pred ceeEecC-CCceEeEEe-eCCHHHHHHHHHHHhCCCC-----ceEEEEccCCcEE
Q psy12005 14 PCKVVDS-NREKKIGIV-ALSLKDLMNRARLKLGMSS-----VVKVVLDLDGTEV 61 (188)
Q Consensus 14 PfKV~~~-~R~~kkGV~-A~SL~EL~~Ka~~~l~l~~-----~~~LvLeeDGT~V 61 (188)
|||..+. .|..|..+. ..|+.||++-..++|++.. ..-.+++.||-.|
T Consensus 2 ~FK~~~~~GrvhRf~~~~s~~~~~L~~~I~~Rl~~d~~~~~~~~L~YlDDEgD~V 56 (86)
T cd06409 2 AFKFKDPKGRVHRFRLRPSESLEELRTLISQRLGDDDFETHLYALSYVDDEGDIV 56 (86)
T ss_pred cEEeeCCCCCEEEEEecCCCCHHHHHHHHHHHhCCccccCCcccEEEEcCCCCEE
Confidence 5666654 567777777 7799999999999999973 2223455555544
No 15
>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=66.76 E-value=22 Score=26.81 Aligned_cols=47 Identities=19% Similarity=0.251 Sum_probs=31.8
Q ss_pred eEecCCCceEeEEee------CCHHHHHHHHHHHhCCCC--ceEE-EEccCCcEEe
Q psy12005 16 KVVDSNREKKIGIVA------LSLKDLMNRARLKLGMSS--VVKV-VLDLDGTEVD 62 (188)
Q Consensus 16 KV~~~~R~~kkGV~A------~SL~EL~~Ka~~~l~l~~--~~~L-vLeeDGT~Vd 62 (188)
||+=.+-.+|..+-. -++++|..|.++.|+++. .+.| ..++||..|.
T Consensus 4 Kv~y~~~~rRf~l~~~~~~~d~~~~~L~~kI~~~f~l~~~~~~~l~Y~Dedgd~V~ 59 (91)
T cd06398 4 KVKYGGTLRRFTFPVAENQLDLNMDGLREKVEELFSLSPDADLSLTYTDEDGDVVT 59 (91)
T ss_pred EEEeCCEEEEEEeccccccCCCCHHHHHHHHHHHhCCCCCCcEEEEEECCCCCEEE
Confidence 444444445555553 599999999999999985 3333 3557887763
No 16
>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=65.52 E-value=41 Score=23.15 Aligned_cols=47 Identities=28% Similarity=0.398 Sum_probs=29.9
Q ss_pred eeEecCCCceEeEEe--eCCHHHHHHHHHHHhCCCC-ceEEE-EccCCcEE
Q psy12005 15 CKVVDSNREKKIGIV--ALSLKDLMNRARLKLGMSS-VVKVV-LDLDGTEV 61 (188)
Q Consensus 15 fKV~~~~R~~kkGV~--A~SL~EL~~Ka~~~l~l~~-~~~Lv-LeeDGT~V 61 (188)
+|+.-.+...+.=+. ..|+++|..+.+++|+++. ..++- .++||-.|
T Consensus 3 vK~~~~~~~~~~~~~~~~~s~~~L~~~i~~~~~~~~~~~~l~y~D~e~d~v 53 (81)
T cd05992 3 VKVKYGGEIRRFVVVSRSISFEDLRSKIAEKFGLDAVSFKLKYPDEDGDLV 53 (81)
T ss_pred EEEEecCCCEEEEEecCCCCHHHHHHHHHHHhCCCCCcEEEEeeCCCCCEE
Confidence 445444433343333 5799999999999999973 34433 34677555
No 17
>PF02196 RBD: Raf-like Ras-binding domain; InterPro: IPR003116 This is the Ras-binding domain found in proteins related to Ras. It is found in association with the PE-bind and pkinase domains.; GO: 0005057 receptor signaling protein activity, 0007165 signal transduction; PDB: 1RFA_A 1C1Y_B 3KUD_B 1GUA_B 3KUC_B 2L05_A 3NY5_D 1RRB_A 1WFY_A 1WXM_A.
Probab=61.49 E-value=51 Score=23.43 Aligned_cols=63 Identities=19% Similarity=0.255 Sum_probs=36.0
Q ss_pred CceeEecCCCceEeEEee---CCHHHHHHHHHHHhCCCC-ceEEEEccCCcEEechhhhccCCCCceE
Q psy12005 13 LPCKVVDSNREKKIGIVA---LSLKDLMNRARLKLGMSS-VVKVVLDLDGTEVDEEEYFSTLEKNTSL 76 (188)
Q Consensus 13 KPfKV~~~~R~~kkGV~A---~SL~EL~~Ka~~~l~l~~-~~~LvLeeDGT~VddEeYF~tLp~nT~l 76 (188)
|+++|+=.+ ..+-.|.+ -|++|.+.|+|++-++.. .+.+.+--....++-+..=.+|+.+...
T Consensus 1 k~~~v~LP~-~q~t~V~vrpg~ti~d~L~~~~~kr~L~~~~~~V~~~~~~k~l~~~~d~~~L~~~El~ 67 (71)
T PF02196_consen 1 KTCRVHLPN-GQRTVVQVRPGMTIRDALSKACKKRGLNPECCDVRLVGEKKPLDWDQDSSSLPGEELR 67 (71)
T ss_dssp -EEEEEETT-TEEEEEEE-TTSBHHHHHHHHHHTTT--CCCEEEEEEEEEEEE-TTSBGGGGTTSEEE
T ss_pred CeEEEECCC-CCEEEEEEcCCCCHHHHHHHHHHHcCCCHHHEEEEEcCCCccccCCCceeeecCCEEE
Confidence 455666555 34444444 479999999999999986 5555543344444444444556554433
No 18
>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=61.12 E-value=18 Score=25.05 Aligned_cols=48 Identities=10% Similarity=0.245 Sum_probs=33.0
Q ss_pred CCHHHHHHHHHHHhCCCC-ceEEEEccCCcEEechhhhcc--C-CCCceEeeec
Q psy12005 31 LSLKDLMNRARLKLGMSS-VVKVVLDLDGTEVDEEEYFST--L-EKNTSLMILS 80 (188)
Q Consensus 31 ~SL~EL~~Ka~~~l~l~~-~~~LvLeeDGT~VddEeYF~t--L-p~nT~lm~L~ 80 (188)
.|..+|+++.+++.+++. .-+|+ ..|.+.+|+.-... + +..|..|+++
T Consensus 21 ~tV~~lK~~i~~~~gi~~~~q~L~--~~G~~L~d~~~L~~~~i~~~~~l~l~~~ 72 (74)
T cd01807 21 ESVSTLKKLVSEHLNVPEEQQRLL--FKGKALADDKRLSDYSIGPNAKLNLVVR 72 (74)
T ss_pred CcHHHHHHHHHHHHCCCHHHeEEE--ECCEECCCCCCHHHCCCCCCCEEEEEEc
Confidence 689999999999999986 55554 66888877653332 3 3445555554
No 19
>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=60.00 E-value=33 Score=22.92 Aligned_cols=48 Identities=15% Similarity=0.336 Sum_probs=33.0
Q ss_pred CCHHHHHHHHHHHhCCCCceEEEEccCCcEEechhhh--ccCCCCceEeee
Q psy12005 31 LSLKDLMNRARLKLGMSSVVKVVLDLDGTEVDEEEYF--STLEKNTSLMIL 79 (188)
Q Consensus 31 ~SL~EL~~Ka~~~l~l~~~~~LvLeeDGT~VddEeYF--~tLp~nT~lm~L 79 (188)
.|..+|+.+.++..+++. ....|-..|.+.+|+.-. -.+.+++++++.
T Consensus 16 ~tV~~lK~~i~~~~~~~~-~~~~L~~~G~~L~d~~tL~~~~i~~~~~I~l~ 65 (69)
T PF00240_consen 16 DTVADLKQKIAEETGIPP-EQQRLIYNGKELDDDKTLSDYGIKDGSTIHLV 65 (69)
T ss_dssp SBHHHHHHHHHHHHTSTG-GGEEEEETTEEESTTSBTGGGTTSTTEEEEEE
T ss_pred CCHHHhhhhccccccccc-ccceeeeeeecccCcCcHHHcCCCCCCEEEEE
Confidence 578999999999999985 333444688888665433 245666655544
No 20
>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=55.89 E-value=56 Score=22.66 Aligned_cols=32 Identities=25% Similarity=0.454 Sum_probs=23.3
Q ss_pred eCCHHHHHHHHHHHhCCCC-ceEE-EEccCCcEE
Q psy12005 30 ALSLKDLMNRARLKLGMSS-VVKV-VLDLDGTEV 61 (188)
Q Consensus 30 A~SL~EL~~Ka~~~l~l~~-~~~L-vLeeDGT~V 61 (188)
..|++||+.+.+++|+++. .++| +.++||..|
T Consensus 20 ~~s~~dL~~~i~~~~~~~~~~~~l~Y~Dedgd~v 53 (81)
T smart00666 20 DISFEDLRSKVAKRFGLDNQSFTLKYQDEDGDLV 53 (81)
T ss_pred CCCHHHHHHHHHHHhCCCCCCeEEEEECCCCCEE
Confidence 4489999999999999973 3433 335677555
No 21
>KOG2501|consensus
Probab=55.76 E-value=15 Score=30.73 Aligned_cols=28 Identities=32% Similarity=0.419 Sum_probs=24.1
Q ss_pred HHHHHHHHHhCCCC-ceEEEEccCCcEEe
Q psy12005 35 DLMNRARLKLGMSS-VVKVVLDLDGTEVD 62 (188)
Q Consensus 35 EL~~Ka~~~l~l~~-~~~LvLeeDGT~Vd 62 (188)
++++|.++++.+.. |.-+++..|||.|.
T Consensus 102 ~~~~~l~~ky~v~~iP~l~i~~~dG~~v~ 130 (157)
T KOG2501|consen 102 DLIQKLSEKYEVKGIPALVILKPDGTVVT 130 (157)
T ss_pred HHHHHHHHhcccCcCceeEEecCCCCEeh
Confidence 57889999999987 77788889999993
No 22
>PF15210 SFTA2: Surfactant-associated protein 2
Probab=53.23 E-value=16 Score=26.10 Aligned_cols=31 Identities=23% Similarity=0.296 Sum_probs=24.5
Q ss_pred eeCCHHHHHHHHHHHhCCCCceEEEEccCCc
Q psy12005 29 VALSLKDLMNRARLKLGMSSVVKVVLDLDGT 59 (188)
Q Consensus 29 ~A~SL~EL~~Ka~~~l~l~~~~~LvLeeDGT 59 (188)
.++|..|+++|.|-.+.+|.+-.+-|..-|.
T Consensus 21 ~~Ssfle~LeK~ClllhLP~GTnvTLh~ags 51 (59)
T PF15210_consen 21 YDSSFLEFLEKLCLLLHLPSGTNVTLHHAGS 51 (59)
T ss_pred hhhHHHHHHHHHHHHeeCCCCCceEEccCCC
Confidence 4689999999999999999855555555553
No 23
>cd01760 RBD Ubiquitin-like domain of RBD-like S/T kinases. The ras-binding domain (RBD) of the serine/threonine kinase raf is structurally quite similar to the beta-grasp fold of ubiquitin. A raf-like RBD is also present in RGS12 and other members of a family of GTPase activating proteins and TIAM1, a guanine nucleotide exchange protein.
Probab=51.96 E-value=42 Score=24.28 Aligned_cols=30 Identities=23% Similarity=0.284 Sum_probs=23.8
Q ss_pred eeCCHHHHHHHHHHHhCCCC-ceEEEEccCC
Q psy12005 29 VALSLKDLMNRARLKLGMSS-VVKVVLDLDG 58 (188)
Q Consensus 29 ~A~SL~EL~~Ka~~~l~l~~-~~~LvLeeDG 58 (188)
-..|++|.++|+|++-++.. .+.|.+--++
T Consensus 18 pg~ti~d~L~~~c~kr~l~~~~~~v~~~~~~ 48 (72)
T cd01760 18 PGMSVRDVLAKACKKRGLNPECCDVFLLGLD 48 (72)
T ss_pred CCCCHHHHHHHHHHHcCCCHHHEEEEEecCC
Confidence 45689999999999999987 6666665444
No 24
>PF03607 DCX: Doublecortin; InterPro: IPR003533 X-linked lissencephaly is a severe brain malformation affecting males. Recently it has been demonstrated that the doublecortin gene is implicated in this disorder []. Doublecortin was found to bind to the microtubule cytoskeleton. In vivo and in vitro assays show that Doublecortin stabilises microtubules and causes bundling []. Doublecortin is a basic protein with an iso-electric point of 10, typical of microtubule-binding proteins. However, its sequence contains no known microtubule-binding domain(s). The detailed sequence analysis of Doublecortin and Doublecortin-like proteins allowed the identification of an evolutionarily conserved Doublecortin (DC) domain. This domain is found in the N terminus of proteins and consists of one or two tandemly repeated copies of an around 80 amino acids region. It has been suggested that the first DC domain of Doublecortin binds tubulin and enhances microtubule polymerisation []. Some proteins known to contain a DC domain are listed below: Doublecortin. It is required for neuronal migration []. A large number of point mutations in the human DCX gene leading to lissencephaly are located within the DC domains []. Human serine/threonine-protein kinase DCAMKL1. It is a probable kinase that may be involved in a calcium-signaling pathway controling neuronal migration in the developing brain []. Retinitis pigmentosa 1 protein. It could play a role in the differentiation of photoreceptor cells. Mutation in the human RP1 gene cause retinitis pigmentosa of type 1 []. ; GO: 0035556 intracellular signal transduction; PDB: 1UF0_A 1MG4_A 1MFW_A 2DNF_A 2XRP_I 2BQQ_A 1MJD_A.
Probab=51.61 E-value=63 Score=22.11 Aligned_cols=47 Identities=26% Similarity=0.340 Sum_probs=37.2
Q ss_pred eCCHHHHHHHHHHHhCCCCceEEEEccCCcEEechhhhccCCCCceEeee
Q psy12005 30 ALSLKDLMNRARLKLGMSSVVKVVLDLDGTEVDEEEYFSTLEKNTSLMIL 79 (188)
Q Consensus 30 A~SL~EL~~Ka~~~l~l~~~~~LvLeeDGT~VddEeYF~tLp~nT~lm~L 79 (188)
..|++.|++...++++++.+++-.-.-||..|.+=+ -|.++...++.
T Consensus 8 ~~s~e~lL~~it~~v~l~~gVr~lyt~~G~~V~~l~---~l~dg~~yVa~ 54 (60)
T PF03607_consen 8 FRSFEQLLDEITEKVQLPSGVRKLYTLDGKRVKSLD---ELEDGGSYVAS 54 (60)
T ss_dssp HSSHHHHHHHHHHSSSSTTS-SEEEETTSSEESSGG---GS-TTEEEEEE
T ss_pred hcCHHHHHHHHHhhcCCCcccceEECCCCCEeCCHH---HHCCCCEEEEE
Confidence 468999999999999998777777789999997644 36788887776
No 25
>smart00213 UBQ Ubiquitin homologues. Ubiquitin-mediated proteolysis is involved in the regulated turnover of proteins required for controlling cell cycle progression
Probab=49.35 E-value=52 Score=21.05 Aligned_cols=46 Identities=9% Similarity=0.229 Sum_probs=28.9
Q ss_pred EecCCCceEeEEee-CCHHHHHHHHHHHhCCCC-ceEEEEccCCcEEech
Q psy12005 17 VVDSNREKKIGIVA-LSLKDLMNRARLKLGMSS-VVKVVLDLDGTEVDEE 64 (188)
Q Consensus 17 V~~~~R~~kkGV~A-~SL~EL~~Ka~~~l~l~~-~~~LvLeeDGT~VddE 64 (188)
|+..++.....|-+ .|..+|+.+.++.++++. ..+|. ..|..++++
T Consensus 5 vk~~~~~~~~~v~~~~tv~~lk~~i~~~~~~~~~~~~L~--~~g~~L~d~ 52 (64)
T smart00213 5 VKTLDGTITLEVKPSDTVSELKEKIAELTGIPVEQQRLI--YKGKVLEDD 52 (64)
T ss_pred EEECCceEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEE--ECCEECCCC
Confidence 34443333333333 479999999999999985 34444 458776543
No 26
>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=48.85 E-value=68 Score=24.38 Aligned_cols=48 Identities=13% Similarity=0.077 Sum_probs=33.5
Q ss_pred ceeEecCCCceEeEEe-eCCHHHHHHHHHHHhCCCC-c-eEEEEccCCcEE
Q psy12005 14 PCKVVDSNREKKIGIV-ALSLKDLMNRARLKLGMSS-V-VKVVLDLDGTEV 61 (188)
Q Consensus 14 PfKV~~~~R~~kkGV~-A~SL~EL~~Ka~~~l~l~~-~-~~LvLeeDGT~V 61 (188)
-|||+-.+-.+|.-.- -.|...|.+|-+..|++|. . .-=.+++||-+|
T Consensus 2 ~fKv~~~g~~RRf~~~~~pt~~~L~~kl~~Lf~lp~~~~~vtYiDeD~D~I 52 (82)
T cd06397 2 QFKSSFLGDTRRIVFPDIPTWEALASKLENLYNLPEIKVGVTYIDNDNDEI 52 (82)
T ss_pred eEEEEeCCceEEEecCCCccHHHHHHHHHHHhCCChhHeEEEEEcCCCCEE
Confidence 3788666655555432 3588899999999999996 2 222567898666
No 27
>PF14804 Jag_N: Jag N-terminus; PDB: 3GKU_B.
Probab=48.35 E-value=38 Score=23.11 Aligned_cols=21 Identities=14% Similarity=0.340 Sum_probs=17.6
Q ss_pred EeeCCHHHHHHHHHHHhCCCC
Q psy12005 28 IVALSLKDLMNRARLKLGMSS 48 (188)
Q Consensus 28 V~A~SL~EL~~Ka~~~l~l~~ 48 (188)
+.|.|++|-+++|+..|+++.
T Consensus 2 ~~gkt~eeAi~~A~~~l~~~~ 22 (52)
T PF14804_consen 2 FEGKTVEEAIEKALKELGVPR 22 (52)
T ss_dssp EEESSHHHHHHHHHHHTT--G
T ss_pred eeECCHHHHHHHHHHHhCCCh
Confidence 468999999999999999997
No 28
>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=46.63 E-value=67 Score=21.39 Aligned_cols=33 Identities=15% Similarity=0.436 Sum_probs=26.2
Q ss_pred CCHHHHHHHHHHHhCCCC-ceEEEEccCCcEEechh
Q psy12005 31 LSLKDLMNRARLKLGMSS-VVKVVLDLDGTEVDEEE 65 (188)
Q Consensus 31 ~SL~EL~~Ka~~~l~l~~-~~~LvLeeDGT~VddEe 65 (188)
.+..+|+++.++..+++. ..+|.. +|..++|+.
T Consensus 21 ~tv~~lK~~i~~~~gi~~~~q~L~~--~g~~L~d~~ 54 (72)
T cd01809 21 ITVLDLKEKIAEEVGIPVEQQRLIY--SGRVLKDDE 54 (72)
T ss_pred CcHHHHHHHHHHHHCcCHHHeEEEE--CCEECCCcC
Confidence 689999999999999986 556654 788886653
No 29
>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=46.39 E-value=79 Score=20.42 Aligned_cols=48 Identities=15% Similarity=0.274 Sum_probs=30.8
Q ss_pred CCHHHHHHHHHHHhCCCCceEEEEccCCcEEechhhhc--cCCCCceEeee
Q psy12005 31 LSLKDLMNRARLKLGMSSVVKVVLDLDGTEVDEEEYFS--TLEKNTSLMIL 79 (188)
Q Consensus 31 ~SL~EL~~Ka~~~l~l~~~~~LvLeeDGT~VddEeYF~--tLp~nT~lm~L 79 (188)
.|..+|+.+..+.++++. .++.|-.+|..+++..=+. .+.+++.+++.
T Consensus 18 ~ti~~lK~~i~~~~~~~~-~~~~l~~~g~~l~d~~~l~~~~v~~~~~i~v~ 67 (69)
T cd01769 18 DTVAELKAKIAAKEGVPP-EQQRLIYAGKILKDDKTLSDYGIQDGSTLHLV 67 (69)
T ss_pred ChHHHHHHHHHHHHCcCh-HHEEEEECCcCCCCcCCHHHCCCCCCCEEEEE
Confidence 579999999999999875 3344455787775544332 34555555543
No 30
>cd01801 Tsc13_N Ubiquitin-like domain of Tsc13. Tsc13_N N-terminal domain of Tsc13. Tsc13 is an enoyl reductase involved in elongation of long chain fatty acids that localizes to the endoplasmic reticulum and is highly enriched in a novel structure marking nuclear-vacuolar junctions.
Probab=45.86 E-value=87 Score=21.99 Aligned_cols=40 Identities=13% Similarity=0.161 Sum_probs=28.3
Q ss_pred CCHHHHHHHHHHHhCCC-C-ceEEEEccCCcEEechhhhccC
Q psy12005 31 LSLKDLMNRARLKLGMS-S-VVKVVLDLDGTEVDEEEYFSTL 70 (188)
Q Consensus 31 ~SL~EL~~Ka~~~l~l~-~-~~~LvLeeDGT~VddEeYF~tL 70 (188)
.+..||+....+..... . -.+|.+..+|..+.+++-+...
T Consensus 23 aTV~dlk~~i~~~~~~~~~~Rqrl~~~~~g~~L~d~~tL~~~ 64 (77)
T cd01801 23 ATIADLKKLIAKSSPQLTVNRQSLRLEPKGKSLKDDDTLVDL 64 (77)
T ss_pred ccHHHHHHHHHHHcCCCCcceeEEEeCCCCcccCCcccHhhc
Confidence 36788887777766542 2 5668888899998877766555
No 31
>PLN03192 Voltage-dependent potassium channel; Provisional
Probab=45.31 E-value=32 Score=34.42 Aligned_cols=48 Identities=29% Similarity=0.421 Sum_probs=40.1
Q ss_pred eCCHHHHHHHHHHHhCCCCceEEEEccCCcEEechhhhccCCCCceEeeec
Q psy12005 30 ALSLKDLMNRARLKLGMSSVVKVVLDLDGTEVDEEEYFSTLEKNTSLMILS 80 (188)
Q Consensus 30 A~SL~EL~~Ka~~~l~l~~~~~LvLeeDGT~VddEeYF~tLp~nT~lm~L~ 80 (188)
..|++||+.-+.++|+++..-.+++.+||-+||+-|=. -||-+|.+..
T Consensus 770 ~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~ 817 (823)
T PLN03192 770 PPSLEELKAIAGEKLGFDARKAMVTNEEGAEIDSIEVI---RDNDKLFVVE 817 (823)
T ss_pred CccHHHHHHHHHHHhCCCcccceeecCCCceeeeeEEE---ecCCEEEEee
Confidence 67999999999999999877779999999999988755 5666666554
No 32
>TIGR01584 citF citrate lyase, alpha subunit. This is a model of the alpha subunit of the holoenzyme citrate lyase (EC 4.1.3.6) composed of alpha (EC 2.8.3.10), beta (EC 4.1.3.34), and acyl carrier protein subunits in a stoichiometric relationship of 6:6:6. Citrate lyase is an enzyme which converts citrate to oxaloacetate. In bacteria, this reaction is involved in citrate fermentation. The alpha subunit catalyzes the reaction Acetyl-CoA + citrate = acetate + (3S)-citryl-CoA. The seed contains an experimentally characterized member from Lactococcus lactis subsp. lactis. The model covers both Gram positive and Gram negative bacteria. It is quite robust with queries scoring either quite well or quite poorly against the model. There are currently no hits in between the noise cutoff and trusted cutoff.
Probab=44.88 E-value=20 Score=34.95 Aligned_cols=38 Identities=34% Similarity=0.384 Sum_probs=32.5
Q ss_pred EeEEeeCCHHHHHHHHHHHhCCCC-------ceEEEEccCCcEEe
Q psy12005 25 KIGIVALSLKDLMNRARLKLGMSS-------VVKVVLDLDGTEVD 62 (188)
Q Consensus 25 kkGV~A~SL~EL~~Ka~~~l~l~~-------~~~LvLeeDGT~Vd 62 (188)
+-|+--.+.+||+++|...-+-|. .+-++-+.|||++|
T Consensus 441 ~~~l~~~~i~~l~~~a~~~~g~p~~~~~~d~~v~~v~yrdg~vid 485 (492)
T TIGR01584 441 KPGIPLYTIEELQEIAEEITGKPEPIEFTDKVVAVVEYRDGSIID 485 (492)
T ss_pred cCCCCcccHHHHHHHHHHhhCCCCCCCCCCCEEEEEEecCCceEE
Confidence 568888899999999999888875 56688889999996
No 33
>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=44.22 E-value=65 Score=21.71 Aligned_cols=33 Identities=12% Similarity=0.382 Sum_probs=26.0
Q ss_pred CCHHHHHHHHHHHhCCCC-ceEEEEccCCcEEechh
Q psy12005 31 LSLKDLMNRARLKLGMSS-VVKVVLDLDGTEVDEEE 65 (188)
Q Consensus 31 ~SL~EL~~Ka~~~l~l~~-~~~LvLeeDGT~VddEe 65 (188)
.|..+|+++.++..++|. ..+|+ .+|..++++.
T Consensus 21 ~tv~~lK~~i~~~~g~~~~~qrL~--~~g~~L~d~~ 54 (76)
T cd01806 21 DKVERIKERVEEKEGIPPQQQRLI--YSGKQMNDDK 54 (76)
T ss_pred CCHHHHHHHHhHhhCCChhhEEEE--ECCeEccCCC
Confidence 578999999999999986 55555 5788886553
No 34
>cd01793 Fubi Fubi ubiquitin-like protein. Fubi is a ubiquitin-like protein encoded by the fau gene which has an N-terminal ubiquitin-like domain (also referred to as FUBI) fused to the ribosomal protein S30. Fubi is thought to be a tumor suppressor protein and the FUBI domain may act as a substitute or an inhibitor of ubiquitin or one of ubiquitin's close relatives UCRP, FAT10, and Nedd8.
Probab=42.39 E-value=46 Score=23.07 Aligned_cols=50 Identities=16% Similarity=0.124 Sum_probs=32.5
Q ss_pred eCCHHHHHHHHHHHhCCCCceEEEEccCCcEEechhhhccC---CCCceEeeec
Q psy12005 30 ALSLKDLMNRARLKLGMSSVVKVVLDLDGTEVDEEEYFSTL---EKNTSLMILS 80 (188)
Q Consensus 30 A~SL~EL~~Ka~~~l~l~~~~~LvLeeDGT~VddEeYF~tL---p~nT~lm~L~ 80 (188)
..|..+|+++..++.++|. ....|-..|...+|+.-+... +..|..++++
T Consensus 18 ~~tV~~lK~~i~~~~gip~-~~q~Li~~Gk~L~D~~tL~~~~i~~~~tl~l~~~ 70 (74)
T cd01793 18 QETVSDIKAHVAGLEGIDV-EDQVLLLAGVPLEDDATLGQCGVEELCTLEVAGR 70 (74)
T ss_pred cCcHHHHHHHHHhhhCCCH-HHEEEEECCeECCCCCCHHHcCCCCCCEEEEEEe
Confidence 3578999999999999985 333334568888766544332 2345555543
No 35
>TIGR03252 uncharacterized HhH-GPD family protein. This model describes a small, well-conserved bacterial protein family. Its sequence largely consists of a domain, HhH-GPD, found in a variety of related base excision DNA repair enzymes (see pfam00730).
Probab=41.80 E-value=33 Score=29.07 Aligned_cols=60 Identities=13% Similarity=0.186 Sum_probs=38.8
Q ss_pred ccccccchhHHHHHHHhhcCceeeecCccchhhhcCCCCchhhhhc-------cc-hHHHHHHHHHhhhhhhh
Q psy12005 97 LERNETNNDVTGFLTKIHGNNGVSILGGLELELLSDMDPESLTDII-------PD-KLFLDQFKEVSSRYFSN 161 (188)
Q Consensus 97 l~~~~~d~~~~~l~~qL~~dl~i~ll~~~dLq~L~dm~~~~La~~~-------~~-~~~~~~lqet~~r~L~~ 161 (188)
+++...+....+...+|...+ ..-+-+.|+.+|.++|+..+ +. +.|...|++.++.++++
T Consensus 27 LSQqTtd~nv~kA~~~L~~~~-----g~~tp~~La~a~~eeL~~lI~~~pal~Gfy~~KAk~Lk~~a~~iie~ 94 (177)
T TIGR03252 27 LDQQVPMERAFAGPHKIARRM-----GSLDAEDIAKYDPQAFVALFSERPAVHRFPGSMAKRVQALAQYVVDT 94 (177)
T ss_pred HhccCcHHHHHHHHHHHHHHh-----CCCCHHHHHcCCHHHHHHHHhcCccccCchHHHHHHHHHHHHHHHHH
Confidence 444555433443444554331 11346777888888888887 33 68999999999999865
No 36
>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=40.94 E-value=49 Score=22.54 Aligned_cols=37 Identities=14% Similarity=0.227 Sum_probs=28.5
Q ss_pred CCHHHHHHHHHHHhCCCCceEEEEccCCcEEechhhhc
Q psy12005 31 LSLKDLMNRARLKLGMSSVVKVVLDLDGTEVDEEEYFS 68 (188)
Q Consensus 31 ~SL~EL~~Ka~~~l~l~~~~~LvLeeDGT~VddEeYF~ 68 (188)
.|..+++++.+++.+++. ....|-..|.+.+|+..+.
T Consensus 19 ~tV~~lK~~i~~~~gi~~-~~q~Li~~G~~L~d~~~l~ 55 (70)
T cd01798 19 TDIKQLKEVVAKRQGVPP-DQLRVIFAGKELRNTTTIQ 55 (70)
T ss_pred ChHHHHHHHHHHHHCCCH-HHeEEEECCeECCCCCcHH
Confidence 588999999999999986 3334446799988876554
No 37
>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=38.08 E-value=98 Score=21.35 Aligned_cols=47 Identities=28% Similarity=0.374 Sum_probs=30.8
Q ss_pred eeEecCCCceE-eEE-eeCCHHHHHHHHHHHhCCCC-ceEEE-EccCCcEE
Q psy12005 15 CKVVDSNREKK-IGI-VALSLKDLMNRARLKLGMSS-VVKVV-LDLDGTEV 61 (188)
Q Consensus 15 fKV~~~~R~~k-kGV-~A~SL~EL~~Ka~~~l~l~~-~~~Lv-LeeDGT~V 61 (188)
||++-.+-..+ .-+ ...|+.+|..+..++|+.+. .+.|. .++||-.|
T Consensus 4 vK~~~~~~~~~~~~~~~~~s~~~L~~~i~~~~~~~~~~~~l~Y~D~dgD~V 54 (84)
T PF00564_consen 4 VKVRYGGDIRRIISLPSDVSFDDLRSKIREKFGLLDEDFQLKYKDEDGDLV 54 (84)
T ss_dssp EEEEETTEEEEEEEECSTSHHHHHHHHHHHHHTTSTSSEEEEEEETTSSEE
T ss_pred EEEEECCeeEEEEEcCCCCCHHHHHHHHHHHhCCCCccEEEEeeCCCCCEE
Confidence 45555554444 223 24589999999999999963 44444 45888555
No 38
>PTZ00044 ubiquitin; Provisional
Probab=37.97 E-value=83 Score=21.48 Aligned_cols=32 Identities=9% Similarity=0.339 Sum_probs=26.0
Q ss_pred CCHHHHHHHHHHHhCCCC-ceEEEEccCCcEEech
Q psy12005 31 LSLKDLMNRARLKLGMSS-VVKVVLDLDGTEVDEE 64 (188)
Q Consensus 31 ~SL~EL~~Ka~~~l~l~~-~~~LvLeeDGT~VddE 64 (188)
.|..+|+.+.++..++|. ..+|+ ..|...+|+
T Consensus 21 ~tv~~lK~~i~~~~gi~~~~q~L~--~~g~~L~d~ 53 (76)
T PTZ00044 21 NTVQQVKMALQEKEGIDVKQIRLI--YSGKQMSDD 53 (76)
T ss_pred CcHHHHHHHHHHHHCCCHHHeEEE--ECCEEccCC
Confidence 578999999999999986 56666 568888766
No 39
>PF04223 CitF: Citrate lyase, alpha subunit (CitF); InterPro: IPR006472 These sequences, from both Gram-positive and Gram-negative bacteria, represent the alpha subunit of the holoenzyme citrate lyase composed of alpha (2.8.3.10 from EC), beta, and acyl carrier protein subunits in a stoichiometric relationship of 6:6:6. Citrate lyase is an enzyme which converts citrate to oxaloacetate. In bacteria, this reaction is involved in citrate fermentation. The alpha subunit catalyzes the reaction Acetyl-CoA + citrate = acetate + (3S)-citryl-CoA. The protein from Lactococcus lactis subsp. lactis (Streptococcus lactis) has been experimentally characterised [].; GO: 0008814 citrate CoA-transferase activity, 0006084 acetyl-CoA metabolic process, 0005737 cytoplasm, 0009346 citrate lyase complex; PDB: 2HJ0_B 1XR4_B.
Probab=37.45 E-value=26 Score=33.96 Aligned_cols=38 Identities=32% Similarity=0.434 Sum_probs=27.0
Q ss_pred EeEEeeCCHHHHHHHHHHHhCCCC-------ceEEEEccCCcEEe
Q psy12005 25 KIGIVALSLKDLMNRARLKLGMSS-------VVKVVLDLDGTEVD 62 (188)
Q Consensus 25 kkGV~A~SL~EL~~Ka~~~l~l~~-------~~~LvLeeDGT~Vd 62 (188)
+.|+--.+.+||+++|...-+.|. .+-+|-+.|||++|
T Consensus 417 ~a~lp~~~IeeL~~~A~~i~G~P~~i~~~d~iVavVeyRDGtviD 461 (466)
T PF04223_consen 417 KAGLPLKTIEELKEKAEKITGKPDPIEFTDRIVAVVEYRDGTVID 461 (466)
T ss_dssp CTTS-EE-HHHHHHHHHHHH-S-----EEEEEEEEEE-TTSSEEE
T ss_pred hCCCCEEEHHHHHHHHHHhcCCCCCCCCCCeEEEEEEecCCceEE
Confidence 456777899999999999999875 46678889999996
No 40
>cd01803 Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40e and Ubq/RPS27a fusions as well as homopolymeric multiubiquitin protein chains)
Probab=37.21 E-value=36 Score=23.00 Aligned_cols=33 Identities=9% Similarity=0.355 Sum_probs=25.7
Q ss_pred CCHHHHHHHHHHHhCCCC-ceEEEEccCCcEEechh
Q psy12005 31 LSLKDLMNRARLKLGMSS-VVKVVLDLDGTEVDEEE 65 (188)
Q Consensus 31 ~SL~EL~~Ka~~~l~l~~-~~~LvLeeDGT~VddEe 65 (188)
.|..+|+++..++.+++. ..+|. .+|..++|+.
T Consensus 21 ~tV~~lK~~i~~~~g~~~~~q~L~--~~g~~L~d~~ 54 (76)
T cd01803 21 DTIENVKAKIQDKEGIPPDQQRLI--FAGKQLEDGR 54 (76)
T ss_pred CcHHHHHHHHHHHhCCCHHHeEEE--ECCEECCCCC
Confidence 689999999999999985 44444 6788886654
No 41
>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=36.19 E-value=83 Score=21.47 Aligned_cols=46 Identities=9% Similarity=0.200 Sum_probs=29.9
Q ss_pred CCHHHHHHHHHHHhCC--CCceEEEEccCCcEEechhhhc--cCCCCceEe
Q psy12005 31 LSLKDLMNRARLKLGM--SSVVKVVLDLDGTEVDEEEYFS--TLEKNTSLM 77 (188)
Q Consensus 31 ~SL~EL~~Ka~~~l~l--~~~~~LvLeeDGT~VddEeYF~--tLp~nT~lm 77 (188)
.|..+|+++.++..++ +. ....|-..|..++|+.-.. .++++..++
T Consensus 21 ~TV~~lK~~i~~~~~i~~~~-~~q~L~~~G~~L~d~~~L~~~~i~~~~~i~ 70 (77)
T cd01805 21 DTVAELKEKIEEEKGCDYPP-EQQKLIYSGKILKDDTTLEEYKIDEKDFVV 70 (77)
T ss_pred CcHHHHHHHHHHhhCCCCCh-hHeEEEECCEEccCCCCHHHcCCCCCCEEE
Confidence 4689999999999998 53 3444445788887664322 344444333
No 42
>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=36.12 E-value=81 Score=22.26 Aligned_cols=35 Identities=9% Similarity=0.176 Sum_probs=26.8
Q ss_pred CCHHHHHHHHHHHhCCCC-ceEEEEccCCcEEechh
Q psy12005 31 LSLKDLMNRARLKLGMSS-VVKVVLDLDGTEVDEEE 65 (188)
Q Consensus 31 ~SL~EL~~Ka~~~l~l~~-~~~LvLeeDGT~VddEe 65 (188)
.|..||+.+..+..+++. .-+|.+-.+|..++|+.
T Consensus 23 ~TV~~lK~~I~~~~~i~~~~qrL~~~~~G~~L~D~~ 58 (80)
T cd01792 23 MTVSELKQQIAQKIGVPAFQQRLAHLDSREVLQDGV 58 (80)
T ss_pred CcHHHHHHHHHHHhCCCHHHEEEEeccCCCCCCCCC
Confidence 578999999999999985 55554356888887664
No 43
>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=35.86 E-value=76 Score=22.00 Aligned_cols=45 Identities=11% Similarity=0.260 Sum_probs=31.3
Q ss_pred CCHHHHHHHHHHHhCCCC-ceEEEEccCCcEEech-hh--hccCCCCceEe
Q psy12005 31 LSLKDLMNRARLKLGMSS-VVKVVLDLDGTEVDEE-EY--FSTLEKNTSLM 77 (188)
Q Consensus 31 ~SL~EL~~Ka~~~l~l~~-~~~LvLeeDGT~VddE-eY--F~tLp~nT~lm 77 (188)
.|..+|+++..+..++|. .-+| -..|...+|+ .. ...+.++..++
T Consensus 20 ~TV~~lK~~I~~~~gip~~~q~L--i~~Gk~L~D~~~~L~~~gi~~~~~l~ 68 (71)
T cd01796 20 LELENFKALCEAESGIPASQQQL--IYNGRELVDNKRLLALYGVKDGDLVV 68 (71)
T ss_pred CCHHHHHHHHHHHhCCCHHHeEE--EECCeEccCCcccHHHcCCCCCCEEE
Confidence 588999999999999986 4444 4568888765 22 33566665444
No 44
>cd01427 HAD_like Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others, all of which use a nucleophilic aspartate in their phosphoryl transfer reaction. All members possess a highly conserved alpha/beta core domain, and many also possess a small cap domain, the fold and function of which is variable. Members of this superfamily are sometimes referred to as belonging to the DDDD superfamily of phosphohydrolases.
Probab=34.09 E-value=69 Score=22.25 Aligned_cols=48 Identities=25% Similarity=0.317 Sum_probs=29.7
Q ss_pred EEEccCCcEEechhhhccCCCCceEeeecCCCeeccCCCCccceeccccccchhHHHHHHHhhcCce-eeecCccc
Q psy12005 52 VVLDLDGTEVDEEEYFSTLEKNTSLMILSKNDKWTPRSETTATLTLERNETNNDVTGFLTKIHGNNG-VSILGGLE 126 (188)
Q Consensus 52 LvLeeDGT~VddEeYF~tLp~nT~lm~L~~ge~W~p~~~~~~~~~l~~~~~d~~~~~l~~qL~~dl~-i~ll~~~d 126 (188)
++++-|||+...+.++.- .....+..++.++.++|+++=. |+++|...
T Consensus 2 ~vfD~D~tl~~~~~~~~~---------------------------~~~~~~~~~~~~~l~~l~~~g~~i~ivS~~~ 50 (139)
T cd01427 2 VLFDLDGTLLDSEPGIAE---------------------------IEELELYPGVKEALKELKEKGIKLALATNKS 50 (139)
T ss_pred eEEccCCceEccCccccc---------------------------cccCCcCcCHHHHHHHHHHCCCeEEEEeCch
Confidence 678899999876665543 1112223347777788777633 66666643
No 45
>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=33.39 E-value=43 Score=22.71 Aligned_cols=37 Identities=19% Similarity=0.288 Sum_probs=28.6
Q ss_pred CCHHHHHHHHHHHhCCCCceEEEEccCCcEEechhhh
Q psy12005 31 LSLKDLMNRARLKLGMSSVVKVVLDLDGTEVDEEEYF 67 (188)
Q Consensus 31 ~SL~EL~~Ka~~~l~l~~~~~LvLeeDGT~VddEeYF 67 (188)
.++..|+++-|+..+++..-.+.|.-||-.++.+.=+
T Consensus 21 ~~~~~l~~~~~~~~~i~~~~~~~l~fdG~~L~~~~T~ 57 (72)
T PF11976_consen 21 TTVSKLIEKYCEKKGIPPEESIRLIFDGKRLDPNDTP 57 (72)
T ss_dssp SCCHHHHHHHHHHHTTTT-TTEEEEETTEEE-TTSCH
T ss_pred CcHHHHHHHHHHhhCCCccceEEEEECCEEcCCCCCH
Confidence 5789999999999999853667777899999766533
No 46
>cd01808 hPLIC_N Ubiquitin-like domain of hPLIC-1 and hPLIC2. hPLIC-1 and hPLIC-2 (human homologs of the yeast ubiquitin-like Dsk2 protein) are type2 UBL's (ubiquitin-like) proteins that are thought to serve as adaptors that link the ubiquitination machinery to the proteasome. The hPLIC's have an N-terminal UBL domain that binds the S5a subunit of the proteasome and a C-terminal UBA (ubiquitin-associated) domain that binds a ubiquitylated protein.
Probab=32.72 E-value=99 Score=21.12 Aligned_cols=32 Identities=16% Similarity=0.293 Sum_probs=24.7
Q ss_pred CCHHHHHHHHHHHhCCCC-ceEEEEccCCcEEech
Q psy12005 31 LSLKDLMNRARLKLGMSS-VVKVVLDLDGTEVDEE 64 (188)
Q Consensus 31 ~SL~EL~~Ka~~~l~l~~-~~~LvLeeDGT~VddE 64 (188)
.|..+|+++..+..+++. ..+|+ .+|...+|+
T Consensus 20 ~TV~~lK~~I~~~~~i~~~~~~Li--~~Gk~L~d~ 52 (71)
T cd01808 20 ASVKDFKEAVSKKFKANQEQLVLI--FAGKILKDT 52 (71)
T ss_pred ChHHHHHHHHHHHhCCCHHHEEEE--ECCeEcCCC
Confidence 478999999999999875 45554 578888665
No 47
>PF10438 Cyc-maltodext_C: Cyclo-malto-dextrinase C-terminal domain; InterPro: IPR019492 This domain is at the very C terminus of cyclo-malto-dextrinase proteins and consists of 8 beta strands, is largely globular and appears to help stabilise the active sites created by upstream domains, IPR015171 from INTERPRO, and IPR006047 from INTERPRO. Cyclo-malto-dextrinases hydrolyse cyclodextrans to maltose and glucose and catalyse trans-glycosylation of oligosaccharides to the C3-, C4- or C6-hydroxyl groups of various acceptor sugar molecules. ; PDB: 3EDK_B 3EDD_A 3EDJ_B 3EDE_A 1H3G_B 3EDF_B.
Probab=32.58 E-value=29 Score=25.51 Aligned_cols=25 Identities=48% Similarity=0.736 Sum_probs=21.4
Q ss_pred cCCcEEechhhhccCCCCceEeeecCCCe
Q psy12005 56 LDGTEVDEEEYFSTLEKNTSLMILSKNDK 84 (188)
Q Consensus 56 eDGT~VddEeYF~tLp~nT~lm~L~~ge~ 84 (188)
+||+-| ||+...+.|+++++.++.+
T Consensus 8 ~~gvYv----YfR~~~~~tVmVilN~n~~ 32 (78)
T PF10438_consen 8 QDGVYV----YFRYYDGKTVMVILNKNDK 32 (78)
T ss_dssp BTTEEE----EEEEESSEEEEEEEE-SSS
T ss_pred cCCEEE----EEEEcCCCEEEEEEcCCCC
Confidence 799999 9999999999999977654
No 48
>PRK13669 hypothetical protein; Provisional
Probab=31.09 E-value=64 Score=24.14 Aligned_cols=34 Identities=9% Similarity=-0.033 Sum_probs=28.5
Q ss_pred cCCCCCceeEecCCCceEeEEeeCCHHHHHHHHHHHhCC
Q psy12005 8 EDGIGLPCKVVDSNREKKIGIVALSLKDLMNRARLKLGM 46 (188)
Q Consensus 8 e~~~~KPfKV~~~~R~~kkGV~A~SL~EL~~Ka~~~l~l 46 (188)
.+-+.+||-+.|.++ |.|.|-+||++|.-+++.-
T Consensus 41 G~C~~~~FAlVng~~-----V~a~t~eeL~~kI~~~i~e 74 (78)
T PRK13669 41 GICSEGLFALVNGEV-----VEGETPEELVENIYAHLEE 74 (78)
T ss_pred cCcccCceEEECCeE-----eecCCHHHHHHHHHHHHhh
Confidence 456789999999864 9999999999999887643
No 49
>PTZ00449 104 kDa microneme/rhoptry antigen; Provisional
Probab=29.45 E-value=47 Score=33.64 Aligned_cols=56 Identities=34% Similarity=0.417 Sum_probs=35.7
Q ss_pred CccccccCCCCCceeEecCCCceEeEEeeCCHHHHHHHHHHHhCCCC-ceEEEEccCCcEEechhhhc
Q psy12005 2 DYGLLEEDGIGLPCKVVDSNREKKIGIVALSLKDLMNRARLKLGMSS-VVKVVLDLDGTEVDEEEYFS 68 (188)
Q Consensus 2 ~~~~~~e~~~~KPfKV~~~~R~~kkGV~A~SL~EL~~Ka~~~l~l~~-~~~LvLeeDGT~VddEeYF~ 68 (188)
|-|-++..+.+|+.++..+ .|+++|-.- .++=.+.. ..+||.+.|||+-||||--.
T Consensus 833 ~~gr~~kd~sgk~v~lkrs----------ksfddlttv-~~~~~mg~~~~kivvdd~gteadde~thp 889 (943)
T PTZ00449 833 DAGRIAKDASGKIVKLKRS----------KSFDDLTTV-EEAEEMGAEARKIVVDDDGTEADDEDTHP 889 (943)
T ss_pred cccccccCCCCCeeEeecc----------cccccchhh-hhchhcCccceEEEECCCCccccccccCC
Confidence 3455556666777776544 356666432 22223433 67899999999999998443
No 50
>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=29.16 E-value=60 Score=23.66 Aligned_cols=44 Identities=18% Similarity=0.268 Sum_probs=26.6
Q ss_pred eeEecCCCceEeEEee-CCHHHHHHHHHHHhCCCC-ceEEEEccCC
Q psy12005 15 CKVVDSNREKKIGIVA-LSLKDLMNRARLKLGMSS-VVKVVLDLDG 58 (188)
Q Consensus 15 fKV~~~~R~~kkGV~A-~SL~EL~~Ka~~~l~l~~-~~~LvLeeDG 58 (188)
.||++.+...|.-+-. +++.+|++|..+.|+++. ...|+.+.++
T Consensus 7 lRvrS~dG~~Rie~~~~~t~~~L~~kI~~~l~~~~~~~~L~~~~~~ 52 (80)
T PF11543_consen 7 LRVRSKDGMKRIEVSPSSTLSDLKEKISEQLSIPDSSQSLSKDRNN 52 (80)
T ss_dssp EEEE-SSEEEEEEE-TTSBHHHHHHHHHHHS---TTT---BSSGGG
T ss_pred EEEECCCCCEEEEcCCcccHHHHHHHHHHHcCCCCcceEEEecCCC
Confidence 4677777777766653 579999999999999986 6666655443
No 51
>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=28.24 E-value=1.3e+02 Score=21.00 Aligned_cols=49 Identities=14% Similarity=0.231 Sum_probs=33.3
Q ss_pred eCCHHHHHHHHHHHhCCCC-ceEEEEccCCcEEechh---hhccCCCCceEeeec
Q psy12005 30 ALSLKDLMNRARLKLGMSS-VVKVVLDLDGTEVDEEE---YFSTLEKNTSLMILS 80 (188)
Q Consensus 30 A~SL~EL~~Ka~~~l~l~~-~~~LvLeeDGT~VddEe---YF~tLp~nT~lm~L~ 80 (188)
..|..+|+++.....++|. .-+|. ..|...+|+. ++.--+..|..|+++
T Consensus 17 ~~TV~~lK~~i~~~~gip~~~q~L~--~~G~~L~d~~tL~~~~i~~g~~l~v~~~ 69 (76)
T cd01800 17 SDPVSVLKVKIHEETGMPAGKQKLQ--YEGIFIKDSNSLAYYNLANGTIIHLQLK 69 (76)
T ss_pred CCcHHHHHHHHHHHHCCCHHHEEEE--ECCEEcCCCCcHHHcCCCCCCEEEEEEe
Confidence 3588999999999999986 44444 4577665552 445446666666664
No 52
>PF00788 RA: Ras association (RalGDS/AF-6) domain; InterPro: IPR000159 Proteins with this domain are mostly RasGTP effectors and include guanine-nucleotide releasing factor in mammals []. This factor stimulates the dissociation of GDP from the Ras-related RALA and RALB GTPases, which allows GTP binding and activation of the GTPases. It interacts and acts as an effector molecule for R-ras, K-Ras and Rap []. The domain is also present in a number of other proteins among them the sexual differentiation protein in yeast that is essential for mating and meiosis and yeast adenylate cyclase. These proteins contain repeated leucine-rich (LRR) segments.; GO: 0007165 signal transduction; PDB: 3EC8_A 2C5L_D 2BYF_A 2CS4_A 3KH0_A 2B3A_A 1RAX_A 2RGF_A 1WGR_A 1WXA_A ....
Probab=28.00 E-value=1.3e+02 Score=20.75 Aligned_cols=31 Identities=19% Similarity=0.277 Sum_probs=23.2
Q ss_pred CCHHHHHHHHHHHhCCCC---ceEE--EEccCCcEE
Q psy12005 31 LSLKDLMNRARLKLGMSS---VVKV--VLDLDGTEV 61 (188)
Q Consensus 31 ~SL~EL~~Ka~~~l~l~~---~~~L--vLeeDGT~V 61 (188)
.+.+|++..+.++|+++. ...| +....|++-
T Consensus 27 tTa~evi~~~l~k~~l~~~~~~y~L~~~~~~~~~er 62 (93)
T PF00788_consen 27 TTAREVIEMALEKFGLAEDPSDYCLVEVEESGGEER 62 (93)
T ss_dssp SBHHHHHHHHHHHTTTSSSGGGEEEEEEECTTTEEE
T ss_pred CCHHHHHHHHHHHhCCCCCCCCEEEEEEEcCCCEEE
Confidence 578999999999999933 5666 455566654
No 53
>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=27.24 E-value=63 Score=22.37 Aligned_cols=34 Identities=12% Similarity=0.280 Sum_probs=25.6
Q ss_pred CCHHHHHHHHHHHhCCCCceEEEEccCCcEEechh
Q psy12005 31 LSLKDLMNRARLKLGMSSVVKVVLDLDGTEVDEEE 65 (188)
Q Consensus 31 ~SL~EL~~Ka~~~l~l~~~~~LvLeeDGT~VddEe 65 (188)
.|..+|+++..++.++|. ....|-..|...+|+.
T Consensus 19 ~tV~~lK~~I~~~~gi~~-~~q~L~~~G~~L~D~~ 52 (74)
T cd01810 19 QTVATLKQQVSQRERVQA-DQFWLSFEGRPMEDEH 52 (74)
T ss_pred ChHHHHHHHHHHHhCCCH-HHeEEEECCEECCCCC
Confidence 479999999999999985 3334446788887664
No 54
>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=27.17 E-value=2.5e+02 Score=20.53 Aligned_cols=46 Identities=13% Similarity=0.183 Sum_probs=30.9
Q ss_pred eEecCCCceEeEEeeC-CHHHHHHHHHHHhCCCC--ceEE-EEccCCcEE
Q psy12005 16 KVVDSNREKKIGIVAL-SLKDLMNRARLKLGMSS--VVKV-VLDLDGTEV 61 (188)
Q Consensus 16 KV~~~~R~~kkGV~A~-SL~EL~~Ka~~~l~l~~--~~~L-vLeeDGT~V 61 (188)
|++=.+-..+.-+-.+ ++++|.++.+++|++.. +++| .+++||.-|
T Consensus 4 K~~~~~d~~r~~l~~~~~~~~L~~~i~~r~~~~~~~~f~LkY~Ddegd~v 53 (82)
T cd06407 4 KATYGEEKIRFRLPPSWGFTELKQEIAKRFKLDDMSAFDLKYLDDDEEWV 53 (82)
T ss_pred EEEeCCeEEEEEcCCCCCHHHHHHHHHHHhCCCCCCeeEEEEECCCCCeE
Confidence 4444444556665544 89999999999999973 3443 355667655
No 55
>PF02645 DegV: Uncharacterised protein, DegV family COG1307; InterPro: IPR003797 This family of proteins is related to DegV of Bacillus subtilis and includes paralogous sets in several species (B. subtilis, Deinococcus radiodurans, Mycoplasma pneumoniae) that are closer in percent identity to each other than to most homologs from other species. This suggests both recent paralogy and diversity of function.; PDB: 2DT8_A 3LUP_A 3NYI_B 3PL5_A 1PZX_B 1MGP_A 1VPV_B 3FYS_A 3EGL_C 3JR7_A ....
Probab=27.07 E-value=21 Score=30.90 Aligned_cols=51 Identities=25% Similarity=0.483 Sum_probs=34.9
Q ss_pred EeEEeeCCHHHHHHHHHHHhCCCC-ceEEEEc----cCCcEEechhhhccCCCCce
Q psy12005 25 KIGIVALSLKDLMNRARLKLGMSS-VVKVVLD----LDGTEVDEEEYFSTLEKNTS 75 (188)
Q Consensus 25 kkGV~A~SL~EL~~Ka~~~l~l~~-~~~LvLe----eDGT~VddEeYF~tLp~nT~ 75 (188)
|.+|+.+|--+|-..-.+..++.. |..+.++ .||..++.|+||..+..+..
T Consensus 1 Ki~IitDS~~dl~~~~~~~~~i~vvPl~i~~~~~~y~D~~~i~~~efy~~l~~~~~ 56 (280)
T PF02645_consen 1 KIAIITDSTSDLPPELAEEYGIYVVPLNIIIDGKEYRDGVDISPEEFYEKLRESGE 56 (280)
T ss_dssp -EEEEEEGGG---HHHHHHTTEEEE--EEEETTEEEETTTTSCHHHHHHHHHHTTS
T ss_pred CEEEEECCCCCCCHHHHHhCCeEEEeEEEecCCeEEecCCCCCHHHHHHHHHhcCC
Confidence 568889998888777777788876 7888775 48888889999988854443
No 56
>PF07293 DUF1450: Protein of unknown function (DUF1450); InterPro: IPR009910 This entry consists of several hypothetical bacterial proteins of around 80 residues in length representing two families. Members contain four highly conserved cysteine residues and their function is unknown.
Probab=26.58 E-value=83 Score=23.33 Aligned_cols=33 Identities=15% Similarity=0.252 Sum_probs=27.0
Q ss_pred cCCCCCceeEecCCCceEeEEeeCCHHHHHHHHHHHhC
Q psy12005 8 EDGIGLPCKVVDSNREKKIGIVALSLKDLMNRARLKLG 45 (188)
Q Consensus 8 e~~~~KPfKV~~~~R~~kkGV~A~SL~EL~~Ka~~~l~ 45 (188)
..-..+||=+.|.. =|+|.|-+||..|..+++.
T Consensus 41 g~C~~~pFAlVnG~-----~V~A~t~eeL~~kI~~~i~ 73 (78)
T PF07293_consen 41 GPCAKKPFALVNGE-----IVAAETAEELLEKIKEKIE 73 (78)
T ss_pred cCCCCCccEEECCE-----EEecCCHHHHHHHHHHHHh
Confidence 34567999999964 4999999999999988764
No 57
>PF14560 Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2KJ6_A 2KJR_A 1V6E_A 1T0Y_A.
Probab=26.48 E-value=1.3e+02 Score=21.42 Aligned_cols=37 Identities=14% Similarity=0.232 Sum_probs=28.2
Q ss_pred EeEEeeCCHHHHHHHHHHHhCCCC-ceEEEEc--cCCcEE
Q psy12005 25 KIGIVALSLKDLMNRARLKLGMSS-VVKVVLD--LDGTEV 61 (188)
Q Consensus 25 kkGV~A~SL~EL~~Ka~~~l~l~~-~~~LvLe--eDGT~V 61 (188)
|+-=-.-++.||+.|-...+|++. ..+|.+. .+|..+
T Consensus 18 kr~~~~~Tv~eLK~kl~~~~Gi~~~~m~L~l~~~~~~~~~ 57 (87)
T PF14560_consen 18 KRFPKSITVSELKQKLEKLTGIPPSDMRLQLKSDKDDSKI 57 (87)
T ss_dssp EEEETTSBHHHHHHHHHHHHTS-TTTEEEEEE-TSSSSEE
T ss_pred EEcCCCCCHHHHHHHHHHHhCCCcccEEEEEEecCCCccc
Confidence 344445789999999999999998 8888887 566655
No 58
>PF08621 RPAP1_N: RPAP1-like, N-terminal; InterPro: IPR013930 Inhibition of RNA polymerase II-associated protein 1 (RPAP1) synthesis in Saccharomyces cerevisiae (Baker's yeast) results in changes in global gene expression that are similar to those caused by the loss of the RNAPII subunit Rpb11 []. This entry represents the N-terminal region of RPAP-1 that is conserved from yeast to humans.
Probab=26.08 E-value=25 Score=23.90 Aligned_cols=43 Identities=12% Similarity=0.255 Sum_probs=30.2
Q ss_pred CccchhhhcCCCCchhhhhccchHHHHHHHHHhhhhhhhccchhh
Q psy12005 123 GGLELELLSDMDPESLTDIIPDKLFLDQFKEVSSRYFSNKNHHSK 167 (188)
Q Consensus 123 ~~~dLq~L~dm~~~~La~~~~~~~~~~~lqet~~r~L~~r~e~rq 167 (188)
.++.++.|+.|+++++.++ +...++.|--.+=.+|-+|...++
T Consensus 5 ~~EN~~rL~~MS~eEI~~e--r~eL~~~LdP~li~~L~~R~~~~~ 47 (49)
T PF08621_consen 5 HEENEARLASMSPEEIEEE--REELLESLDPKLIEFLKKRANKKE 47 (49)
T ss_pred hHHHHHHHHhCCHHHHHHH--HHHHHHhCCHHHHHHHHHhhhccc
Confidence 4567788999999988877 355556666666667766665544
No 59
>PF04904 NCD1: NAB conserved region 1 (NCD1); InterPro: IPR006988 Nab1 and Nab2 are co-repressors that specifically interact with and repress transcription mediated by the three members of the NGFI-A (Egr-1, Krox24, zif/268) family of eukaryotic (metazoa) transcription factors []. This entry represents the N-terminal NAB domain, which interacts with the EGR1 inhibitory domain (R1) []. It may also mediate multimerisation.; GO: 0045892 negative regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=25.80 E-value=39 Score=25.63 Aligned_cols=40 Identities=15% Similarity=0.349 Sum_probs=33.3
Q ss_pred eeecCccchhhhcCCCCchhhhhc---c---chHHHHHHHHHhhhh
Q psy12005 119 VSILGGLELELLSDMDPESLTDII---P---DKLFLDQFKEVSSRY 158 (188)
Q Consensus 119 i~ll~~~dLq~L~dm~~~~La~~~---~---~~~~~~~lqet~~r~ 158 (188)
.|-++++|.|-|++.+-++...++ | -+--+..||.|++..
T Consensus 28 fi~~GgDDvqQL~~~~e~eF~eim~lvGM~sKPLHVrRlqKAL~ew 73 (82)
T PF04904_consen 28 FIAQGGDDVQQLCEAGEEEFLEIMALVGMASKPLHVRRLQKALQEW 73 (82)
T ss_pred HHHHcChhHHHHHhcChHHHHHHHHHhCccCccHHHHHHHHHHHHH
Confidence 678899999999999999888877 2 266788999988765
No 60
>COG0637 Predicted phosphatase/phosphohexomutase [General function prediction only]
Probab=25.63 E-value=36 Score=28.42 Aligned_cols=16 Identities=50% Similarity=0.798 Sum_probs=12.6
Q ss_pred EEEccCCcEEechhhh
Q psy12005 52 VVLDLDGTEVDEEEYF 67 (188)
Q Consensus 52 LvLeeDGT~VddEeYF 67 (188)
+..+.|||+||+|.+.
T Consensus 5 vIFD~DGvLvDse~~~ 20 (221)
T COG0637 5 VIFDMDGTLVDSEPLH 20 (221)
T ss_pred EEEcCCCCcCcchHHH
Confidence 4567899999997654
No 61
>smart00455 RBD Raf-like Ras-binding domain.
Probab=25.52 E-value=1.2e+02 Score=21.50 Aligned_cols=26 Identities=23% Similarity=0.319 Sum_probs=20.5
Q ss_pred eeCCHHHHHHHHHHHhCCCC-ceEEEE
Q psy12005 29 VALSLKDLMNRARLKLGMSS-VVKVVL 54 (188)
Q Consensus 29 ~A~SL~EL~~Ka~~~l~l~~-~~~LvL 54 (188)
-..++.|.++++|++-++.. .+.+.+
T Consensus 18 pg~tl~e~L~~~~~kr~l~~~~~~v~~ 44 (70)
T smart00455 18 PGKTVRDALAKALKKRGLNPECCVVRL 44 (70)
T ss_pred CCCCHHHHHHHHHHHcCCCHHHEEEEE
Confidence 34689999999999999976 444444
No 62
>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=25.25 E-value=1.3e+02 Score=20.56 Aligned_cols=24 Identities=21% Similarity=0.282 Sum_probs=19.4
Q ss_pred CCHHHHHHHHHHHhCCCC--ceEEEE
Q psy12005 31 LSLKDLMNRARLKLGMSS--VVKVVL 54 (188)
Q Consensus 31 ~SL~EL~~Ka~~~l~l~~--~~~LvL 54 (188)
.+-+||.+++|++++|.. ...|..
T Consensus 17 ~t~~~l~~~v~~~l~l~e~~~FgL~~ 42 (80)
T PF09379_consen 17 TTGQDLLEQVCDKLGLKEKEYFGLQY 42 (80)
T ss_dssp SBHHHHHHHHHHHHTTSSGGGEEEEE
T ss_pred CcHHHHHHHHHHHcCCCCccEEEEEE
Confidence 346899999999999987 566665
No 63
>TIGR01449 PGP_bact 2-phosphoglycolate phosphatase, prokaryotic. This enzyme is a member of the Haloacid Dehalogenase (HAD) superfamily of aspartate-nucleophile hydrolase enzymes (pfam00702).
Probab=25.02 E-value=32 Score=27.33 Aligned_cols=15 Identities=53% Similarity=0.709 Sum_probs=12.0
Q ss_pred EEEccCCcEEechhh
Q psy12005 52 VVLDLDGTEVDEEEY 66 (188)
Q Consensus 52 LvLeeDGT~VddEeY 66 (188)
++.+-|||++|++..
T Consensus 1 viFD~DGTL~Ds~~~ 15 (213)
T TIGR01449 1 VLFDLDGTLVDSAPD 15 (213)
T ss_pred CeecCCCccccCHHH
Confidence 356889999998874
No 64
>cd01817 RGS12_RBD Ubiquitin domain of RGS12 and RGS14. RGS12 (regulator of G signalling 12), and RGS14, are members of a family of GTPase-activating proteins (GAP's) specific for the G-alpha subunit, which act as key inhibitors of G-protein-mediated cell responses in eukaryotes. Their domain architecture includes tandem RBD domains as well as PDZ , PTB, and RGS, and GoLoco domains.
Probab=24.68 E-value=1.4e+02 Score=22.15 Aligned_cols=36 Identities=22% Similarity=0.224 Sum_probs=26.1
Q ss_pred cCCCceEeEEeeCCHHHHHHHHHHHhCCCC-ceEEEE
Q psy12005 19 DSNREKKIGIVALSLKDLMNRARLKLGMSS-VVKVVL 54 (188)
Q Consensus 19 ~~~R~~kkGV~A~SL~EL~~Ka~~~l~l~~-~~~LvL 54 (188)
|..|+.-.-...-|+.|++.|+|++-+++. .+.+++
T Consensus 8 dg~~T~V~vrpG~ti~d~L~kllekRgl~~~~~~vf~ 44 (73)
T cd01817 8 DGSTTVVPTRPGESIRDLLSGLCEKRGINYAAVDLFL 44 (73)
T ss_pred CCCeEEEEecCCCCHHHHHHHHHHHcCCChhHEEEEE
Confidence 444555555567899999999999999986 444443
No 65
>TIGR01548 HAD-SF-IA-hyp1 haloacid dehalogenase superfamily, subfamily IA hydrolase, TIGR01548. All but the Halobacterium sequence currently found are annotated as "Imidazoleglycerol-phosphate dehydratase", however, the source of the annotation could not be traced and significant homology could not be found between any of these sequences and known IGPD's.
Probab=24.63 E-value=48 Score=26.47 Aligned_cols=15 Identities=40% Similarity=0.643 Sum_probs=12.3
Q ss_pred EEEccCCcEEechhh
Q psy12005 52 VVLDLDGTEVDEEEY 66 (188)
Q Consensus 52 LvLeeDGT~VddEeY 66 (188)
|+.+-|||++|++..
T Consensus 3 viFD~DGTLiDs~~~ 17 (197)
T TIGR01548 3 LVLDMDGVMADVSQS 17 (197)
T ss_pred eEEecCceEEechHH
Confidence 567889999998754
No 66
>cd01797 NIRF_N amino-terminal ubiquitin-like domain of Np95 and NIRF. NIRF_N This CD represents the amino-terminal ubiquitin-like domain of a family of nuclear proteins that includes Np95 and NIRF (Np95/ICBP90-like RING finger) protein. Both Np95 and NIRF have a domain architecture consisting of a ubiquitin-like domain, a PHD finger, a YDG/SRA domain, Rb-binding motifs and a RING finger domain. Both Np95 and NIRF are ubiquitin ligases that ubiquitinate PCNP (PEST-containing nuclear proteins). While Np95 is capable of binding histones, NIRF is involved in cell cycle regulation.
Probab=24.60 E-value=1.7e+02 Score=20.89 Aligned_cols=49 Identities=4% Similarity=0.222 Sum_probs=32.9
Q ss_pred CCHHHHHHHHHHHhCCCC-ceEEEEccCCcEEechh---hhccCCCCceEeeecC
Q psy12005 31 LSLKDLMNRARLKLGMSS-VVKVVLDLDGTEVDEEE---YFSTLEKNTSLMILSK 81 (188)
Q Consensus 31 ~SL~EL~~Ka~~~l~l~~-~~~LvLeeDGT~VddEe---YF~tLp~nT~lm~L~~ 81 (188)
.|..+|++|..++.+++. .-+|+ ..|.+.+|+. ++.--+..|..|.++.
T Consensus 23 ~TV~~lK~~i~~~~gi~~~~QrLi--~~Gk~L~D~~tL~~y~i~~~~~i~l~~~~ 75 (78)
T cd01797 23 TKVEELREKIQELFNVEPECQRLF--YRGKQMEDGHTLFDYNVGLNDIIQLLVRQ 75 (78)
T ss_pred CcHHHHHHHHHHHhCCCHHHeEEE--eCCEECCCCCCHHHcCCCCCCEEEEEEec
Confidence 489999999999999986 55555 4577765542 3344445566666554
No 67
>cd01763 Sumo Small ubiquitin-related modifier (SUMO). Small ubiquitin-related modifier (SUMO) proteins are conjugated to numerous intracellular targets and serve to modulate protein interaction, localization, activity or stability. SUMO (also known as "Smt3" and "sentrin" in other organisms) is linked to several different pathways, including nucleocytoplasmic transport. Attachment of SUMO to targets proteins is stimulated by PIAS (Protein inhibitor of activated STATs) proteins which serve as E3-like ligases.
Probab=24.60 E-value=99 Score=22.32 Aligned_cols=56 Identities=23% Similarity=0.246 Sum_probs=36.3
Q ss_pred CCCCCceeEecCCC-ceEeEEe-eCCHHHHHHHHHHHhCCCCceEEEEccCCcEEechh
Q psy12005 9 DGIGLPCKVVDSNR-EKKIGIV-ALSLKDLMNRARLKLGMSSVVKVVLDLDGTEVDEEE 65 (188)
Q Consensus 9 ~~~~KPfKV~~~~R-~~kkGV~-A~SL~EL~~Ka~~~l~l~~~~~LvLeeDGT~VddEe 65 (188)
.+..=..+|.+.+. ...+-|- ..+++.|+++-|++.+++. -.+.|--||..+++++
T Consensus 8 ~~~~i~I~v~~~~g~~~~~~v~~~~~l~~l~~~y~~~~gi~~-~~~rf~f~G~~L~~~~ 65 (87)
T cd01763 8 ISEHINLKVKGQDGNEVFFKIKRSTPLKKLMEAYCQRQGLSM-NSVRFLFDGQRIRDNQ 65 (87)
T ss_pred CCCeEEEEEECCCCCEEEEEEcCCCHHHHHHHHHHHHhCCCc-cceEEEECCeECCCCC
Confidence 33333456666532 2233332 2469999999999999985 4455556899997654
No 68
>TIGR01990 bPGM beta-phosphoglucomutase. The enzyme from L. lactis has been extensively characterized including a remarkable crystal structure which traps the pentacoordinate transition state.
Probab=24.44 E-value=39 Score=26.08 Aligned_cols=16 Identities=50% Similarity=0.868 Sum_probs=13.0
Q ss_pred EEEccCCcEEechhhh
Q psy12005 52 VVLDLDGTEVDEEEYF 67 (188)
Q Consensus 52 LvLeeDGT~VddEeYF 67 (188)
++.+.|||++|+++.+
T Consensus 2 iiFD~DGTL~ds~~~~ 17 (185)
T TIGR01990 2 VIFDLDGVITDTAEYH 17 (185)
T ss_pred eEEcCCCccccChHHH
Confidence 5788999999988643
No 69
>TIGR01493 HAD-SF-IA-v2 Haloacid dehalogenase superfamily, subfamily IA, variant 2 with 3rd motif like haloacid dehalogenase. The Subfamily IA and IB capping domains are predicted by PSI-PRED to consist of an alpha helical bundle. Subfamily I encompasses such a wide region of sequence space (the sequences are highly divergent) that modelling it with a single alignment is impossible, resulting in an overly broad description which allows in many unrelated sequences. Subfamily IA and IB are separated based on an aparrent phylogenetic bifurcation. Subfamily IA is still too broad to model, but cannot be further subdivided into large chunks based on phylogenetic trees. Of the three motifs defining the HAD superfamily, the third has three variant forms : (1) hhhhsDxxx(x)D, (2) hhhhssxxx(x)D and (3) hhhhDDxxx(x)s where _s_ refers to a small amino acid and _h_ to a hydrophobic one. All three of these variants are found in subfamily IA. Individual models were made based on seeds exhibiting only o
Probab=24.43 E-value=38 Score=26.17 Aligned_cols=18 Identities=33% Similarity=0.359 Sum_probs=13.8
Q ss_pred EEEccCCcEEechhhhcc
Q psy12005 52 VVLDLDGTEVDEEEYFST 69 (188)
Q Consensus 52 LvLeeDGT~VddEeYF~t 69 (188)
|+.+-|||+||++..+..
T Consensus 2 viFD~DGTL~D~~~~~~~ 19 (175)
T TIGR01493 2 MVFDVYGTLVDVHGGVRA 19 (175)
T ss_pred eEEecCCcCcccHHHHHH
Confidence 567889999998875443
No 70
>TIGR01993 Pyr-5-nucltdase pyrimidine 5'-nucleotidase. These enzymes are members of the haloacid dehalogenase (HAD) superfamily of hydrolases, specifically the IA subfamily (variant 3, TIGR01509).
Probab=24.32 E-value=39 Score=26.52 Aligned_cols=16 Identities=25% Similarity=0.129 Sum_probs=12.5
Q ss_pred EEEEccCCcEEechhh
Q psy12005 51 KVVLDLDGTEVDEEEY 66 (188)
Q Consensus 51 ~LvLeeDGT~VddEeY 66 (188)
.++.+-|||++|++++
T Consensus 2 ~viFDlDGTL~ds~~~ 17 (184)
T TIGR01993 2 VWFFDLDNTLYPHSAG 17 (184)
T ss_pred eEEEeCCCCCCCCccc
Confidence 3677899999998644
No 71
>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=24.26 E-value=82 Score=22.49 Aligned_cols=30 Identities=13% Similarity=0.282 Sum_probs=22.5
Q ss_pred CCHHHHHHHHHHHhCCCCceEEEEccCCcEEe
Q psy12005 31 LSLKDLMNRARLKLGMSSVVKVVLDLDGTEVD 62 (188)
Q Consensus 31 ~SL~EL~~Ka~~~l~l~~~~~LvLeeDGT~Vd 62 (188)
.|..+|+.|...+.++|. ..-.| .+|...+
T Consensus 23 ~TV~~lK~kI~~~~gip~-~~QrL-~~G~~L~ 52 (75)
T cd01799 23 MTVAQLKDKVFLDYGFPP-AVQRW-VIGQRLA 52 (75)
T ss_pred CcHHHHHHHHHHHHCcCH-HHEEE-EcCCeeC
Confidence 478999999999999985 33344 5676664
No 72
>TIGR01672 AphA HAD superfamily (subfamily IIIB) phosphatase, TIGR01672. Supporting evidence for the inclusion in the HAD superfamily, whose phosphatase members are magnesium dependent, is the inhibition by EDTA and calcium ions, and stimulation by magnesium ion.
Probab=24.24 E-value=80 Score=27.39 Aligned_cols=19 Identities=26% Similarity=0.324 Sum_probs=18.0
Q ss_pred ceEEEEccCCcEEechhhh
Q psy12005 49 VVKVVLDLDGTEVDEEEYF 67 (188)
Q Consensus 49 ~~~LvLeeDGT~VddEeYF 67 (188)
+..|+++-|||++|+-.||
T Consensus 63 p~aViFDlDgTLlDSs~~~ 81 (237)
T TIGR01672 63 PIAVSFDIDDTVLFSSPGF 81 (237)
T ss_pred CeEEEEeCCCccccCcHHH
Confidence 7799999999999999999
No 73
>PRK10725 fructose-1-P/6-phosphogluconate phosphatase; Provisional
Probab=23.80 E-value=42 Score=26.17 Aligned_cols=16 Identities=38% Similarity=0.667 Sum_probs=12.7
Q ss_pred EEEEccCCcEEechhh
Q psy12005 51 KVVLDLDGTEVDEEEY 66 (188)
Q Consensus 51 ~LvLeeDGT~VddEeY 66 (188)
.++.+-|||++|++..
T Consensus 7 ~viFD~DGTLiDs~~~ 22 (188)
T PRK10725 7 GLIFDMDGTILDTEPT 22 (188)
T ss_pred EEEEcCCCcCccCHHH
Confidence 4677899999998653
No 74
>PF11875 DUF3395: Domain of unknown function (DUF3395); InterPro: IPR024586 Chaperone DnaJ was originally characterised from Escherichia coli as a 41 kDa heat shock protein. DnaJ has a modular structure consisting of a J-domain, a proximal G/F-domain, and a distal zinc finger domain, followed by less conserved C-terminal sequences. Since then, a large number of DnaJ-related proteins containing a J-domain have been characterised from a variety of different organisms. In the genome of Arabidopsis thaliana a total of 89 J-domain proteins have been identified []. This entry represents a C-terminal domain found in some eukaryotic DnaJ-like proteins, including member 11 from the subfamily C1 and protein DnaJ 13 from Arabidopsis. This domain is typically between 147 to 176 amino acids in length.
Probab=23.69 E-value=1e+02 Score=24.99 Aligned_cols=38 Identities=21% Similarity=0.170 Sum_probs=26.5
Q ss_pred HHHHHHhhhhhhhccchhhhhhHHHHHHHH----------hhhheeee
Q psy12005 149 DQFKEVSSRYFSNKNHHSKETKSEKILHHR----------YVILFAVY 186 (188)
Q Consensus 149 ~~lqet~~r~L~~r~e~rqs~~Ll~ly~~~----------~~~~~~~~ 186 (188)
+.-+..-.++..+|+||.++.+|++--.++ .||+.|.|
T Consensus 13 ~~r~~~~~~~~~~r~eA~~~~~lm~~~a~r~~~~E~~~~GLVI~~A~Y 60 (151)
T PF11875_consen 13 EQREKNKEEIAEKRAEAESAIELMKETAERKQRKEEEKGGLVILKAWY 60 (151)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCeEEEEEEc
Confidence 344444456666779999999998866554 36788877
No 75
>PF03671 Ufm1: Ubiquitin fold modifier 1 protein; InterPro: IPR005375 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-like molecules (UBLs) can be divided into two subclasses: type-1 UBLs, which ligate to target proteins in a manner similar, but not identical, to the ubiquitylation pathway, such as SUMO, NEDD8, and UCRP/ISG15, and type-2 UBLs (also called UDPs, ubiquitin-domain proteins), which contain ubiquitin-like structure embedded in a variety of different classes of large proteins with apparently distinct functions, such as Rad23, Elongin B, Scythe, Parkin, and HOIL-1. This entry represents Ufm1 (ubiquitin-fold modifier), which is a ubiquitin-like protein with structural similarities to ubiquitin [, ]. Ufm1 is one of a number of ubiquitin-like modifiers that conjugate to target proteins in cells through Uba5 (E1) and Ufc1 (E2). The Ufm1-system is conserved in metazoa and plants, suggesting it has a potential role in multicellular organisms []. Human Ufm1 is synthesized as a precursor consisting of 85 amino-acid residues. Prior to activation by Uba5, the extra amino acids at the C-terminal region of Ufm1 are removed to expose Gly, which is necessary for conjugation to target molecule(s). C-terminal processing of Ufm1 requires two specific cysteine peptidases (IPR012462 from INTERPRO): UfSP1 and UfSP2; both peptidases are also able to release Ufm1 from Ufm1-conjugated cellular proteins. UfSP2 is present in most, if not all, of multi-cellular organisms including plant, nematode, fly, and mammal, whereas UfSP1 is not present in plants and nematodes []. For further information on ubiquitin, please see Protein of the Month [].; PDB: 1J0G_A 1WXS_A 1L7Y_A.
Probab=22.53 E-value=2.2e+02 Score=21.39 Aligned_cols=44 Identities=16% Similarity=0.302 Sum_probs=31.5
Q ss_pred CCCceeEecCCCceEeEEeeCCHHHHHHHHHHHhCCCCceEEEEccCCcEE
Q psy12005 11 IGLPCKVVDSNREKKIGIVALSLKDLMNRARLKLGMSSVVKVVLDLDGTEV 61 (188)
Q Consensus 11 ~~KPfKV~~~~R~~kkGV~A~SL~EL~~Ka~~~l~l~~~~~LvLeeDGT~V 61 (188)
+.-||||.+.-. +..+.-.+.=|++.|.++..-+.++-.||.-|
T Consensus 13 p~~p~kv~sVPE-------~apftaVlkfaAeeF~vp~~tsaiItndG~GI 56 (76)
T PF03671_consen 13 PKLPYKVISVPE-------EAPFTAVLKFAAEEFKVPPATSAIITNDGVGI 56 (76)
T ss_dssp STS-EEEEEEET-------TSBHHHHHHHHHHHTTS-SSSEEEEESSS-EE
T ss_pred CCCcceEEecCC-------CCchHHHHHHHHHHcCCCCceEEEEecCCccc
Confidence 447898887653 34577888999999999985556777999998
No 76
>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].
Probab=22.34 E-value=1e+02 Score=21.97 Aligned_cols=43 Identities=21% Similarity=0.363 Sum_probs=25.5
Q ss_pred cCCCCchhhhhccchHHHHHHHHHhhhhh----hhccchhhhhhHHH
Q psy12005 131 SDMDPESLTDIIPDKLFLDQFKEVSSRYF----SNKNHHSKETKSEK 173 (188)
Q Consensus 131 ~dm~~~~La~~~~~~~~~~~lqet~~r~L----~~r~e~rqs~~Ll~ 173 (188)
..+||.++-+.+|+..-+..|.+.+.+.| .++++.+-.+++.+
T Consensus 9 ~~ld~~~vL~~LP~~~~l~~l~~fl~~~l~~~~~~~~~~~i~~~l~~ 55 (109)
T PF10367_consen 9 SRLDPIDVLKLLPDDWPLSDLSDFLCKSLRKYSNRKRESQIEKNLLK 55 (109)
T ss_pred ccCCHHHHHHhCcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46788888888886444444544444444 55555554555444
No 77
>cd00351 TS_Pyrimidine_HMase Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the biosynthesis of DNA precursors and are active as homodimers. However, they exhibit distinct pyrimidine base specificities and differ in the details of their catalyzed reactions. TS is biologically ubiquitous and catalyzes the conversion of dUMP and methylene-tetrahydrofolate (CH2THF) to dTMP and dihydrofolate (DHF). It also acts as a regulator of its own expression by binding and inactivating its own RNA. Due to its key role in the de novo pathway for thymidylate synthesis and, hence, DNA synthesis, it is one of the most conserved enzymes across species and phyla. TS is a well-recognized target for anticancer chemotherapy, as well as a valuable new target against infectious diseases. Interestingly, in several protozoa,
Probab=21.88 E-value=99 Score=26.31 Aligned_cols=37 Identities=16% Similarity=0.284 Sum_probs=31.5
Q ss_pred hHHHHHHHhhcCce-----eeecCccchhhhcCCCCchhhhh
Q psy12005 105 DVTGFLTKIHGNNG-----VSILGGLELELLSDMDPESLTDI 141 (188)
Q Consensus 105 ~~~~l~~qL~~dl~-----i~ll~~~dLq~L~dm~~~~La~~ 141 (188)
++..++.+|++|+. |++.+..|+....+.||-...+.
T Consensus 109 Qi~~vi~~Lk~~p~sRR~ii~~w~p~~~~~~~~~PC~~~~qf 150 (215)
T cd00351 109 QIEKVIEKLKNNPDSRRAIISAWNPADLDLMALPPCHTLIQF 150 (215)
T ss_pred HHHHHHHHHhcCCCchheEEEecChhhccccCCCCceEEEEE
Confidence 59999999999994 56789999988999999876654
No 78
>cd01795 USP48_C USP ubiquitin-specific protease. The USP (ubiquitin-specific protease) family is one of at least seven deubiquitylating enzyme (DUB) families capable of deconjugating ubiquitin and ubiquitin-like adducts. While the USP's have a conserved catalytic core domain, they differ in their domain architectures. This subfamily, which includes USP31, and USP48, has a carboxy-terminal ubiquitin-like domain in addition to a DUSP (domain of ubiquitin-specific proteases) domain,
Probab=21.48 E-value=2.6e+02 Score=22.21 Aligned_cols=59 Identities=8% Similarity=0.112 Sum_probs=42.2
Q ss_pred eCCHHHHHHHHHHHhCCCC-ceEEEEccCCcEEechh-hh--ccCCCCceEeeecCCCeeccCCC
Q psy12005 30 ALSLKDLMNRARLKLGMSS-VVKVVLDLDGTEVDEEE-YF--STLEKNTSLMILSKNDKWTPRSE 90 (188)
Q Consensus 30 A~SL~EL~~Ka~~~l~l~~-~~~LvLeeDGT~VddEe-YF--~tLp~nT~lm~L~~ge~W~p~~~ 90 (188)
..++.+|+.+..++|++++ .=+|..+ |-+.+|+. =. --+.+.+.++++-..-.|.+..-
T Consensus 24 ~~TVg~LK~lImQ~f~V~P~dQkL~~d--G~~L~DDsrTLssyGv~sgSvl~LlideP~~d~~~~ 86 (107)
T cd01795 24 NQTLKELKIQIMHAFSVAPFDQNLSID--GKILSDDCATLGTLGVIPESVILLKADEPIADYAAM 86 (107)
T ss_pred cccHHHHHHHHHHHhcCCcccceeeec--CceeccCCccHHhcCCCCCCEEEEEecCCcccHHHH
Confidence 4689999999999999986 4566654 77664442 11 13567888888888888877543
No 79
>PRK13226 phosphoglycolate phosphatase; Provisional
Probab=21.46 E-value=55 Score=27.04 Aligned_cols=18 Identities=39% Similarity=0.547 Sum_probs=14.4
Q ss_pred eEEEEccCCcEEechhhh
Q psy12005 50 VKVVLDLDGTEVDEEEYF 67 (188)
Q Consensus 50 ~~LvLeeDGT~VddEeYF 67 (188)
-.++.+-|||++|+...+
T Consensus 13 k~viFD~DGTL~Ds~~~~ 30 (229)
T PRK13226 13 RAVLFDLDGTLLDSAPDM 30 (229)
T ss_pred CEEEEcCcCccccCHHHH
Confidence 467889999999987543
No 80
>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=21.27 E-value=1.4e+02 Score=22.33 Aligned_cols=25 Identities=20% Similarity=0.349 Sum_probs=19.5
Q ss_pred eCCHHHHHHHHHHHhCCCC-ceEEEE
Q psy12005 30 ALSLKDLMNRARLKLGMSS-VVKVVL 54 (188)
Q Consensus 30 A~SL~EL~~Ka~~~l~l~~-~~~LvL 54 (188)
+-|..+|.+|.+++|+++. .++|.-
T Consensus 20 ~~~y~~L~~ki~~kLkl~~e~i~LsY 45 (80)
T cd06406 20 GLSYATLLQKISSKLELPAEHITLSY 45 (80)
T ss_pred CCCHHHHHHHHHHHhCCCchhcEEEe
Confidence 3578999999999999974 555543
No 81
>PRK15265 subtilase cytotoxin subunit B-like protein; Provisional
Probab=21.00 E-value=1.2e+02 Score=24.99 Aligned_cols=63 Identities=14% Similarity=0.149 Sum_probs=43.0
Q ss_pred CCCceeEecCCCceEeEEeeCCHHHHHHHHHHHhCCCCceEEEEccCCcEEechhhhccCCCCceEeee
Q psy12005 11 IGLPCKVVDSNREKKIGIVALSLKDLMNRARLKLGMSSVVKVVLDLDGTEVDEEEYFSTLEKNTSLMIL 79 (188)
Q Consensus 11 ~~KPfKV~~~~R~~kkGV~A~SL~EL~~Ka~~~l~l~~~~~LvLeeDGT~VddEeYF~tLp~nT~lm~L 79 (188)
++-++-.|..+ ++|+.+.|.+++.+.|...---..+++|..++| +=.+..|-..+-.| .++.+
T Consensus 57 ~~~~~~ACaV~---~~s~w~~sF~~~~~qA~yyYtTg~~vRiy~~~n--VWTdp~F~~~fS~n-eLvgi 119 (134)
T PRK15265 57 PSTTITACSVK---DTSIWGASYNTLYDQAMYYYTTGKRIRVYYAPD--VWTNNSFVRALTAN-ALVGF 119 (134)
T ss_pred CCCceEEEEEe---ccchhhhhHHHHHHHhhheeecCCcEEEEEcCC--cccCcHHHhhhccc-ceeEe
Confidence 44566667765 799999999999999988765555899998766 22244544444444 34444
No 82
>PF08393 DHC_N2: Dynein heavy chain, N-terminal region 2; InterPro: IPR013602 Dyneins are described as motor proteins of eukaryotic cells, as they can convert energy derived from the hydrolysis of ATP to force and movement along cytoskeletal polymers, such as microtubules. Dyneins generally contain one to three heavy chains, where each heavy chain consists of a C-terminal globular head, a flexible microtubule-binding stalk, and a flexible N-terminal tail known as the cargo-binding domain []. The two categories of dyneins are the axonemal dyneins, which produce the bending motions that propagate along cilia and flagella, and the cytosolic dyneins, which drive a variety of fundamental cellular processes including nuclear migration, organisation of the mitotic spindle, chromosome separation during mitosis, and the positioning and function of many intracellular organelles. Cytoplasmic dyneins contain several accessory subunits ranging from light to intermediate chains. This entry represents a region found C-terminal to the dynein heavy chain N-terminal region 1 (IPR013594 from INTERPRO) in many members of this family. No functions seem to have been attributed specifically to this region. ; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.
Probab=20.77 E-value=91 Score=27.97 Aligned_cols=50 Identities=10% Similarity=0.262 Sum_probs=38.5
Q ss_pred hHHHHHHHhhcCce-eeecCccchhhhcCCCCchhhhhccc-hHHHHHHHHHhhhhhhhccch
Q psy12005 105 DVTGFLTKIHGNNG-VSILGGLELELLSDMDPESLTDIIPD-KLFLDQFKEVSSRYFSNKNHH 165 (188)
Q Consensus 105 ~~~~l~~qL~~dl~-i~ll~~~dLq~L~dm~~~~La~~~~~-~~~~~~lqet~~r~L~~r~e~ 165 (188)
.|+.+.++.++++. +.+++. +.+...+.. ...++.++..+..+|+.||++
T Consensus 259 ~~~~i~~~~~~~~~v~~~~~~-----------~~~~~~l~~~~~~l~~i~k~L~~~Le~kR~~ 310 (408)
T PF08393_consen 259 EWRSIMKRAQKDPNVLSVCSN-----------PDLLEKLESINESLEKIQKSLNDYLESKREA 310 (408)
T ss_dssp HHHHHHHHHHCT-CCHHHCCS-----------TTHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhCcchhHHhhH-----------hhHHHHHHHHHHHHHHHHHHHhHHHHHHHhh
Confidence 39999999999988 444433 346666644 778899999999999999986
No 83
>TIGR03351 PhnX-like phosphonatase-like hydrolase. This clade of sequences are the closest homologs to the PhnX enzyme, phosphonoacetaldehyde (Pald) hydrolase (phosphonatase, TIGR01422). This phosphonatase-like enzyme and PhnX itself are members of the haloacid dehalogenase (HAD) superfamily (pfam00702) having a a number of distinctive features that set them apart from typical HAD enzymes. The typical HAD N-terminal motif DxDx(T/V) here is DxAGT and the usual conserved lysine prior to the C-terminal motif is instead an arginine. Also distinctive of phosphonatase, and particular to its bi-catalytic mechanism is a conserved lysine in the variable "cap" domain. This lysine forms a Schiff base with the aldehyde of phosphonoacetaldehyde, providing, through the resulting positive charge, a polarization of the C-P bond necesary for cleavage as well as a route to the initial product of cleavage, an ene-amine. The conservation of these elements in this phosphonatase-like enzyme suggests that the
Probab=20.32 E-value=68 Score=25.78 Aligned_cols=17 Identities=53% Similarity=0.757 Sum_probs=13.0
Q ss_pred EEEEccCCcEEechhhh
Q psy12005 51 KVVLDLDGTEVDEEEYF 67 (188)
Q Consensus 51 ~LvLeeDGT~VddEeYF 67 (188)
.++.+-|||++|+.+.+
T Consensus 3 ~iiFD~DGTL~ds~~~~ 19 (220)
T TIGR03351 3 LVVLDMAGTTVDEDGLV 19 (220)
T ss_pred EEEEecCCCeeccCchH
Confidence 46778999999876543
No 84
>TIGR01826 CofD_related conserved hypothetical protein, cofD-related. This model represents a subfamily of conserved hypothetical proteins that forms a sister group to the family of CofD, (TIGR01819), LPPG:Fo 2-phospho-L-lactate transferase, an enzyme of cytochrome F420 biosynthesis. Both this family and TIGR01819 are within the scope of the pfam model pfam01933.
Probab=20.28 E-value=2.9e+02 Score=25.33 Aligned_cols=51 Identities=22% Similarity=0.207 Sum_probs=37.1
Q ss_pred CCHHHHHHHHHHHhCCCC--------ceEEEEc-cCCcEEechhhhccCCCCceEeeecC
Q psy12005 31 LSLKDLMNRARLKLGMSS--------VVKVVLD-LDGTEVDEEEYFSTLEKNTSLMILSK 81 (188)
Q Consensus 31 ~SL~EL~~Ka~~~l~l~~--------~~~LvLe-eDGT~VddEeYF~tLp~nT~lm~L~~ 81 (188)
+|+.+=+...++.|++.. +++++.+ +|||+|.-|.+|...+....=+.+.+
T Consensus 98 g~~~~Ai~~~~~~l~v~g~VlP~t~~~v~L~a~~~dG~~v~Ge~~i~~~~~~I~~v~l~~ 157 (310)
T TIGR01826 98 GSFLEAINLLSKILKVKGRVLPMSEHPVTLVAEFEDGREVRGESNIPKMGGKIDRVRLEP 157 (310)
T ss_pred CCHHHHHHHHHHHhCCCCEEECCCCCceEEEEEECCCCEEEEEEhhhcCCCCceEEEEeC
Confidence 455566677788888763 5666665 89999989999987776666666655
Done!