Query 040934
Match_columns 72
No_of_seqs 100 out of 707
Neff 7.4
Searched_HMMs 46136
Date Fri Mar 29 13:16:05 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/040934.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/040934hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF03931 Skp1_POZ: Skp1 family 99.9 9.2E-28 2E-32 131.0 6.1 62 5-70 1-62 (62)
2 smart00512 Skp1 Found in Skp1 99.9 1.5E-24 3.2E-29 128.1 8.5 66 5-71 2-67 (104)
3 KOG1724 SCF ubiquitin ligase, 99.9 1.3E-22 2.8E-27 128.5 7.6 65 4-70 4-68 (162)
4 KOG3473 RNA polymerase II tran 99.8 2.2E-21 4.8E-26 114.0 6.0 69 4-72 16-84 (112)
5 COG5201 SKP1 SCF ubiquitin lig 99.7 8.1E-17 1.8E-21 99.2 7.0 61 6-70 3-63 (158)
6 PF00651 BTB: BTB/POZ domain; 98.1 2.8E-05 6.1E-10 44.7 7.4 62 5-67 11-73 (111)
7 smart00225 BTB Broad-Complex, 97.7 0.00015 3.3E-09 39.2 5.0 57 10-68 4-61 (90)
8 PHA02713 hypothetical protein; 97.4 0.0006 1.3E-08 50.0 5.9 60 6-67 27-88 (557)
9 PHA03098 kelch-like protein; P 95.6 0.054 1.2E-06 39.1 6.4 55 7-67 12-68 (534)
10 PHA02790 Kelch-like protein; P 95.5 0.026 5.7E-07 40.7 4.4 55 9-66 25-82 (480)
11 KOG4441 Proteins containing BT 95.5 0.04 8.7E-07 40.9 5.4 59 7-68 39-98 (571)
12 KOG4350 Uncharacterized conser 91.7 0.45 9.8E-06 35.0 4.8 59 6-67 46-105 (620)
13 PF07928 Vps54: Vps54-like pro 85.9 0.24 5.1E-06 30.6 0.0 45 13-67 1-45 (135)
14 PF02519 Auxin_inducible: Auxi 72.5 15 0.00032 21.5 4.7 58 7-66 42-100 (100)
15 PF02214 BTB_2: BTB/POZ domain 71.7 2.4 5.2E-05 23.7 1.2 54 13-67 6-62 (94)
16 COG4565 CitB Response regulato 67.3 7 0.00015 26.3 2.8 23 44-66 145-168 (224)
17 PF05871 ESCRT-II: ESCRT-II co 66.5 4.5 9.8E-05 25.1 1.7 13 59-71 27-39 (139)
18 PF11338 DUF3140: Protein of u 60.2 8.4 0.00018 22.5 1.9 21 50-70 54-74 (92)
19 PF11543 UN_NPL4: Nuclear pore 58.1 5.5 0.00012 22.3 0.9 21 1-21 1-22 (80)
20 PF14716 HHH_8: Helix-hairpin- 56.9 16 0.00034 19.5 2.6 20 47-66 49-68 (68)
21 PRK11566 hdeB acid-resistance 54.9 5.4 0.00012 23.7 0.5 25 46-70 62-86 (102)
22 KOG0511 Ankyrin repeat protein 53.9 25 0.00054 26.0 3.8 58 11-70 297-358 (516)
23 PF08727 P3A: Poliovirus 3A pr 52.0 12 0.00025 20.0 1.5 20 49-68 15-39 (57)
24 cd00068 GGL G protein gamma su 51.6 18 0.00039 18.9 2.2 16 55-70 23-38 (57)
25 KOG4068 Uncharacterized conser 51.6 8.5 0.00018 24.8 1.1 15 58-72 31-45 (174)
26 PF03474 DMA: DMRTA motif; In 48.7 20 0.00043 17.7 1.9 18 49-66 11-28 (39)
27 PF08154 NLE: NLE (NUC135) dom 48.3 40 0.00086 17.9 3.3 29 6-34 3-39 (65)
28 smart00224 GGL G protein gamma 42.4 28 0.00061 18.5 2.1 17 55-71 23-39 (63)
29 PF06851 DUF1247: Protein of u 41.9 9.3 0.0002 24.1 0.2 8 64-71 61-68 (148)
30 KOG2075 Topoisomerase TOP1-int 40.6 57 0.0012 24.6 4.0 50 15-66 129-179 (521)
31 smart00491 HELICc2 helicase su 40.4 28 0.00061 21.2 2.2 23 47-69 77-99 (142)
32 PF06540 GMAP: Galanin message 40.1 54 0.0012 17.7 2.9 16 53-68 21-36 (62)
33 COG5478 Predicted small integr 39.9 86 0.0019 19.7 4.2 28 43-70 90-117 (141)
34 COG4849 Predicted nucleotidylt 39.3 35 0.00076 23.3 2.6 25 45-69 135-159 (269)
35 PF10584 Proteasome_A_N: Prote 39.1 5.4 0.00012 17.5 -0.9 17 7-23 5-21 (23)
36 PF13711 DUF4160: Domain of un 38.8 36 0.00077 18.0 2.2 19 52-70 41-59 (66)
37 PF00646 F-box: F-box domain; 37.9 8.4 0.00018 18.5 -0.4 19 49-67 2-20 (48)
38 CHL00135 rps10 ribosomal prote 37.7 86 0.0019 18.3 4.1 38 6-52 10-47 (101)
39 PF05321 HHA: Haemolysin expre 37.7 39 0.00085 18.0 2.1 15 54-68 8-22 (57)
40 COG4049 Uncharacterized protei 36.9 36 0.00078 18.3 1.9 18 5-22 5-22 (65)
41 PF07818 HCNGP: HCNGP-like pro 36.0 30 0.00064 20.1 1.7 14 53-66 41-54 (96)
42 TIGR01689 EcbF-BcbF capsule bi 35.9 32 0.00069 20.9 1.8 18 52-69 60-77 (126)
43 PF04700 Baculo_gp41: Structur 35.7 47 0.001 21.8 2.7 34 19-57 55-88 (186)
44 PRK13602 putative ribosomal pr 33.3 56 0.0012 18.2 2.5 19 51-69 35-53 (82)
45 KOG3321 Mitochondrial ribosoma 33.2 30 0.00064 22.4 1.4 24 46-69 115-138 (175)
46 PF06411 HdeA: HdeA/HdeB famil 32.8 30 0.00065 19.6 1.3 25 45-70 64-88 (94)
47 PRK11675 LexA regulated protei 32.5 47 0.001 19.3 2.1 22 47-69 52-73 (90)
48 PRK12271 rps10p 30S ribosomal 32.3 93 0.002 18.2 3.4 37 6-51 5-41 (102)
49 PF00010 HLH: Helix-loop-helix 32.1 54 0.0012 16.3 2.1 14 54-67 40-53 (55)
50 PF08909 DUF1854: Domain of un 32.1 70 0.0015 19.8 2.9 33 3-35 17-49 (133)
51 KOG4682 Uncharacterized conser 32.0 65 0.0014 24.0 3.2 55 10-66 74-132 (488)
52 COG0499 SAM1 S-adenosylhomocys 32.0 91 0.002 22.9 3.8 59 4-65 338-398 (420)
53 cd01803 Ubiquitin Ubiquitin. U 31.4 50 0.0011 17.2 2.0 32 6-37 2-33 (76)
54 PF11165 DUF2949: Protein of u 31.2 51 0.0011 17.6 2.0 15 53-67 44-58 (58)
55 PRK13601 putative L7Ae-like ri 31.2 63 0.0014 18.1 2.4 19 51-69 32-50 (82)
56 PF13821 DUF4187: Domain of un 31.1 53 0.0011 17.1 2.0 19 53-71 11-29 (55)
57 PF11976 Rad60-SLD: Ubiquitin- 31.1 66 0.0014 16.7 2.5 15 6-20 2-16 (72)
58 PF03989 DNA_gyraseA_C: DNA gy 30.4 72 0.0016 15.3 2.4 18 6-23 2-19 (48)
59 PF15505 DUF4648: Domain of un 30.4 90 0.002 20.0 3.3 44 25-70 109-156 (170)
60 PF08183 SpoV: Stage V sporula 29.5 32 0.00069 15.4 0.8 20 47-66 5-24 (26)
61 PF00081 Sod_Fe_N: Iron/mangan 28.9 35 0.00076 19.0 1.1 19 51-71 16-34 (82)
62 PF13727 CoA_binding_3: CoA-bi 28.9 63 0.0014 19.1 2.4 23 47-69 146-168 (175)
63 PF13013 F-box-like_2: F-box-l 28.7 35 0.00076 20.3 1.2 21 47-67 19-39 (109)
64 PF02845 CUE: CUE domain; Int 28.5 66 0.0014 15.3 2.0 16 50-65 12-27 (42)
65 PF12836 HHH_3: Helix-hairpin- 28.4 88 0.0019 16.3 2.7 25 47-71 16-40 (65)
66 PF11197 DUF2835: Protein of u 28.4 82 0.0018 17.2 2.5 21 4-24 20-40 (68)
67 PRK01474 atpC F0F1 ATP synthas 28.4 64 0.0014 19.0 2.3 20 1-20 1-20 (112)
68 PF02736 Myosin_N: Myosin N-te 28.3 66 0.0014 15.5 2.0 18 4-21 23-40 (42)
69 PF08661 Rep_fac-A_3: Replicat 28.3 93 0.002 17.9 2.9 66 4-70 34-107 (109)
70 COG0051 RpsJ Ribosomal protein 28.2 1.4E+02 0.003 17.8 4.1 38 6-52 7-44 (104)
71 cd01806 Nedd8 Nebb8-like ubiq 27.9 47 0.001 17.3 1.5 32 6-37 2-33 (76)
72 PF01736 Polyoma_agno: Polyoma 27.7 44 0.00096 17.8 1.3 12 56-67 31-42 (62)
73 PHA01623 hypothetical protein 27.5 75 0.0016 16.5 2.2 21 48-69 16-36 (56)
74 TIGR01046 S10_Arc_S20_Euk ribo 27.4 1.3E+02 0.0028 17.5 3.4 37 6-51 4-40 (99)
75 PF08225 Antimicrobial19: Pseu 27.4 51 0.0011 14.1 1.2 11 56-66 3-13 (23)
76 PF03614 Flag1_repress: Repres 27.4 64 0.0014 20.7 2.2 15 6-20 31-45 (165)
77 PF11094 UL11: Membrane-associ 27.0 80 0.0017 15.5 2.1 17 7-23 16-32 (39)
78 TIGR01259 comE comEA protein. 26.9 95 0.0021 18.4 2.9 24 48-71 71-94 (120)
79 PF07034 ORC3_N: Origin recogn 26.8 2.2E+02 0.0048 19.7 5.0 47 13-69 258-304 (330)
80 COG5634 Uncharacterized conser 26.6 79 0.0017 21.0 2.6 20 3-22 23-42 (223)
81 TIGR00426 competence protein C 26.3 1.1E+02 0.0024 16.0 2.9 20 50-69 22-41 (69)
82 smart00546 CUE Domain that may 26.2 76 0.0016 15.1 2.0 17 50-66 13-29 (43)
83 PF09329 zf-primase: Primase z 26.2 12 0.00025 18.9 -1.1 10 60-69 26-35 (46)
84 PRK01018 50S ribosomal protein 26.1 85 0.0018 18.0 2.5 18 52-69 41-58 (99)
85 KOG0183 20S proteasome, regula 26.0 79 0.0017 21.5 2.6 19 4-22 5-23 (249)
86 PRK06683 hypothetical protein; 25.8 89 0.0019 17.4 2.5 19 51-69 35-53 (82)
87 PRK04966 hypothetical protein; 25.3 57 0.0012 18.1 1.5 16 48-63 3-18 (72)
88 PF12937 F-box-like: F-box-lik 24.8 44 0.00095 16.0 1.0 16 52-67 3-18 (47)
89 PF14730 DUF4468: Domain of un 24.8 1E+02 0.0022 17.2 2.6 24 46-69 3-27 (91)
90 PRK10543 superoxide dismutase; 24.4 47 0.001 21.5 1.3 19 51-71 17-35 (193)
91 smart00492 HELICc3 helicase su 24.3 77 0.0017 19.3 2.2 23 47-69 76-98 (141)
92 PF13315 DUF4085: Protein of u 24.2 1E+02 0.0022 20.6 2.8 24 45-68 69-92 (208)
93 COG1555 ComEA DNA uptake prote 24.1 1.1E+02 0.0025 18.9 2.9 25 47-71 99-123 (149)
94 PHA02754 hypothetical protein; 23.9 1.1E+02 0.0025 16.5 2.5 18 4-21 44-61 (67)
95 PTZ00039 40S ribosomal protein 23.6 1.7E+02 0.0036 17.6 3.5 8 44-51 49-56 (115)
96 PRK07714 hypothetical protein; 23.2 1E+02 0.0022 17.6 2.4 18 52-69 43-60 (100)
97 PF06794 UPF0270: Uncharacteri 22.9 64 0.0014 17.8 1.5 16 48-63 3-18 (70)
98 PF14420 Clr5: Clr5 domain 22.6 74 0.0016 16.2 1.6 17 55-71 20-36 (54)
99 PRK13446 atpC F0F1 ATP synthas 22.4 1E+02 0.0023 18.6 2.5 18 1-18 1-18 (136)
100 PRK05585 yajC preprotein trans 22.3 1.6E+02 0.0034 17.3 3.2 22 4-25 74-95 (106)
101 TIGR00739 yajC preprotein tran 22.3 1.6E+02 0.0034 16.5 3.1 22 4-25 59-80 (84)
102 PHA02087 hypothetical protein 22.2 72 0.0016 17.8 1.5 17 6-22 46-62 (83)
103 cd01807 GDX_N ubiquitin-like d 21.8 59 0.0013 17.2 1.2 32 6-37 2-33 (74)
104 COG2100 Predicted Fe-S oxidore 21.6 92 0.002 22.7 2.4 22 46-67 261-282 (414)
105 PF03579 SHP: Small hydrophobi 21.5 88 0.0019 16.8 1.7 18 53-70 36-53 (64)
106 PF14283 DUF4366: Domain of un 21.5 1.2E+02 0.0025 20.2 2.7 16 4-19 73-88 (218)
107 PF09872 DUF2099: Uncharacteri 21.4 1.2E+02 0.0025 21.0 2.7 43 8-64 10-52 (258)
108 PF09133 SANTA: SANTA (SANT As 21.4 1.1E+02 0.0023 17.6 2.2 18 6-23 42-59 (93)
109 PF11064 DUF2865: Protein of u 21.4 86 0.0019 18.9 1.9 19 4-22 3-21 (116)
110 PRK00596 rpsJ 30S ribosomal pr 21.4 1.8E+02 0.0039 16.8 4.0 38 6-52 7-44 (102)
111 KOG2716 Polymerase delta-inter 21.3 2.7E+02 0.0059 18.8 6.6 62 3-66 3-65 (230)
112 PF07430 PP1: Phloem filament 21.0 82 0.0018 20.9 1.9 25 45-69 8-32 (202)
113 cd00083 HLH Helix-loop-helix d 20.9 96 0.0021 15.3 1.8 16 54-69 41-56 (60)
114 PF15410 PH_9: Pleckstrin homo 20.9 1.3E+02 0.0027 17.6 2.6 17 4-20 84-100 (119)
115 PF13605 DUF4141: Domain of un 20.9 1.3E+02 0.0029 15.8 2.3 17 20-36 38-54 (55)
116 cd05171 PIKKc_ATM Ataxia telan 20.6 2.6E+02 0.0057 18.9 4.4 33 5-37 18-60 (279)
117 cd01805 RAD23_N Ubiquitin-like 20.5 85 0.0019 16.4 1.7 31 6-36 2-32 (77)
118 PTZ00078 Superoxide dismutase 20.5 68 0.0015 20.7 1.5 19 51-71 12-30 (193)
119 COG2845 Uncharacterized protei 20.5 2.7E+02 0.0059 20.1 4.4 33 4-36 288-323 (354)
120 PF04472 DUF552: Protein of un 20.4 1.3E+02 0.0027 16.1 2.3 22 45-66 24-45 (73)
No 1
>PF03931 Skp1_POZ: Skp1 family, tetramerisation domain; InterPro: IPR016073 SKP1 (together with SKP2) was identified as an essential component of the cyclin A-CDK2 S phase kinase complex []. It was found to bind several F-box containing proteins (e.g., Cdc4, Skp2, cyclin F) and to be involved in the ubiquitin protein degradation pathway. A yeast homologue of SKP1 (P52286) was identified in the centromere bound kinetochore complex [] and is also involved in the ubiquitin pathway []. In Dictyostelium discoideum (Slime mold) FP21 was shown to be glycosylated in the cytosol and has homology to SKP1 []. This entry represents a POZ domain with a core structure consisting of beta(2)/alpha(2)/beta(2)/alpha(2) in two layers, alpha/beta. This domain is found at the N-terminal of SKP1 proteins [] as well as in subunit D of the centromere DNA-binding protein complex Cbf3 []. ; GO: 0006511 ubiquitin-dependent protein catabolic process; PDB: 1LM8_C 2XAI_E 1VCB_E 3ZRC_K 3ZRF_E 3DCG_B 2C9W_C 1LQB_B 2IZV_C 1HV2_A ....
Probab=99.95 E-value=9.2e-28 Score=131.00 Aligned_cols=62 Identities=37% Similarity=0.542 Sum_probs=55.0
Q ss_pred ceEEEEeCCCcEEEeeHHHHHHhHHHHHHhcCCCCCCCCCCcccccCCCCHHHHHHHHHHHHhhcc
Q 040934 5 DTVKLISAEGFEFVISKEAAMVSQTIRNMLTSPGGFAETEHGEVTFPEISTTILEKICQYFYWSLQ 70 (72)
Q Consensus 5 ~~i~L~S~Dg~~f~v~~~~a~~S~~i~~~l~~~~~~~e~~~~~Ipl~~v~~~~L~kVieyc~~h~~ 70 (72)
++|+|+|+||++|+|++++|++|++|++|+++.+.. +.+||||+|++++|+||+|||+||++
T Consensus 1 ~~v~L~SsDg~~f~V~~~~a~~S~~i~~ml~~~~~~----~~~Ipl~~v~~~~L~kViewc~~H~~ 62 (62)
T PF03931_consen 1 MYVKLVSSDGQEFEVSREAAKQSKTIKNMLEDLGDE----DEPIPLPNVSSRILKKVIEWCEHHKN 62 (62)
T ss_dssp -EEEEEETTSEEEEEEHHHHTTSHHHHHHHHCTCCC----GTEEEETTS-HHHHHHHHHHHHHHHH
T ss_pred CEEEEEcCCCCEEEeeHHHHHHhHHHHHHHhhhccc----ccccccCccCHHHHHHHHHHHHhcCC
Confidence 369999999999999999999999999999987652 22899999999999999999999974
No 2
>smart00512 Skp1 Found in Skp1 protein family. Family of Skp1 (kinetochore protein required for cell cycle progression) and elongin C (subunit of RNA polymerase II transcription factor SIII) homologues.
Probab=99.92 E-value=1.5e-24 Score=128.06 Aligned_cols=66 Identities=29% Similarity=0.475 Sum_probs=59.5
Q ss_pred ceEEEEeCCCcEEEeeHHHHHHhHHHHHHhcCCCCCCCCCCcccccCCCCHHHHHHHHHHHHhhccC
Q 040934 5 DTVKLISAEGFEFVISKEAAMVSQTIRNMLTSPGGFAETEHGEVTFPEISTTILEKICQYFYWSLQY 71 (72)
Q Consensus 5 ~~i~L~S~Dg~~f~v~~~~a~~S~~i~~~l~~~~~~~e~~~~~Ipl~~v~~~~L~kVieyc~~h~~y 71 (72)
++|+|+|+||++|.|++++|++|++|++|+++.+...+ ...+||||+|++.+|+||++||+||++|
T Consensus 2 ~~v~L~S~Dg~~f~v~~~~a~~S~~i~~~l~~~~~~~~-~~~~Ipl~~v~~~~L~~Vi~yc~~h~~~ 67 (104)
T smart00512 2 KYIKLISSDGEVFEVEREVARQSKTIKAMIEDLGVDDE-NNNPIPLPNVTSKILSKVIEYCEHHVDD 67 (104)
T ss_pred CeEEEEeCCCCEEEecHHHHHHHHHHHHHHHccCcccC-CCCCccCCCcCHHHHHHHHHHHHHcccC
Confidence 57999999999999999999999999999998765333 2368999999999999999999999987
No 3
>KOG1724 consensus SCF ubiquitin ligase, Skp1 component [Posttranslational modification, protein turnover, chaperones]
Probab=99.88 E-value=1.3e-22 Score=128.51 Aligned_cols=65 Identities=26% Similarity=0.401 Sum_probs=57.8
Q ss_pred CceEEEEeCCCcEEEeeHHHHHHhHHHHHHhcCCCCCCCCCCcccccCCCCHHHHHHHHHHHHhhcc
Q 040934 4 EDTVKLISAEGFEFVISKEAAMVSQTIRNMLTSPGGFAETEHGEVTFPEISTTILEKICQYFYWSLQ 70 (72)
Q Consensus 4 ~~~i~L~S~Dg~~f~v~~~~a~~S~~i~~~l~~~~~~~e~~~~~Ipl~~v~~~~L~kVieyc~~h~~ 70 (72)
..+|+|+|+||++|+|++++|++|.+|++++.+.+...+ +.+||||+|+|.||+|||+||+||++
T Consensus 4 ~~~ikL~SsDG~~f~ve~~~a~~s~~i~~~~~~~~~~~~--~~~IPl~nV~~~iL~kVIewC~~Hk~ 68 (162)
T KOG1724|consen 4 KKKIKLESSDGEIFEVEEEVARQSQTISAHMIEDGCADE--NDPIPLPNVTSKILKKVIEWCKKHKD 68 (162)
T ss_pred CCeEEEEccCCceeehhHHHHHHhHHHHHHHHHcCCCcc--CCccccCccCHHHHHHHHHHHHHccc
Confidence 578999999999999999999999999998887654221 25899999999999999999999985
No 4
>KOG3473 consensus RNA polymerase II transcription elongation factor Elongin/SIII, subunit elongin C [Transcription]
Probab=99.85 E-value=2.2e-21 Score=114.04 Aligned_cols=69 Identities=46% Similarity=0.821 Sum_probs=66.3
Q ss_pred CceEEEEeCCCcEEEeeHHHHHHhHHHHHHhcCCCCCCCCCCcccccCCCCHHHHHHHHHHHHhhccCC
Q 040934 4 EDTVKLISAEGFEFVISKEAAMVSQTIRNMLTSPGGFAETEHGEVTFPEISTTILEKICQYFYWSLQYS 72 (72)
Q Consensus 4 ~~~i~L~S~Dg~~f~v~~~~a~~S~~i~~~l~~~~~~~e~~~~~Ipl~~v~~~~L~kVieyc~~h~~y~ 72 (72)
+++|+|+|+||.+|.+.|++|+.|+|||.|+.+.+.+.++..+++.|+++++.+|+|||+|+.|+.+|+
T Consensus 16 ~~yVkLvS~Ddhefiikre~AmtSgTiraml~gpg~~se~~~n~v~f~di~shiLeKvc~Yl~Yk~rY~ 84 (112)
T KOG3473|consen 16 SMYVKLVSSDDHEFIIKREHAMTSGTIRAMLSGPGVFSEAEKNEVYFRDIPSHILEKVCEYLAYKVRYT 84 (112)
T ss_pred hhheEeecCCCcEEEEeehhhhhhhHHHHHHcCCccccccccceEEeccchHHHHHHHHHHhhheeeec
Confidence 579999999999999999999999999999999999999899999999999999999999999999885
No 5
>COG5201 SKP1 SCF ubiquitin ligase, SKP1 component [Posttranslational modification, protein turnover, chaperones]
Probab=99.69 E-value=8.1e-17 Score=99.17 Aligned_cols=61 Identities=21% Similarity=0.305 Sum_probs=56.3
Q ss_pred eEEEEeCCCcEEEeeHHHHHHhHHHHHHhcCCCCCCCCCCcccccCCCCHHHHHHHHHHHHhhcc
Q 040934 6 TVKLISAEGFEFVISKEAAMVSQTIRNMLTSPGGFAETEHGEVTFPEISTTILEKICQYFYWSLQ 70 (72)
Q Consensus 6 ~i~L~S~Dg~~f~v~~~~a~~S~~i~~~l~~~~~~~e~~~~~Ipl~~v~~~~L~kVieyc~~h~~ 70 (72)
+|.|+|.||.+|.|+..+|..|-+|++|+.+.+. ..-+||+|+|++++|.||++||+||..
T Consensus 3 ~i~l~s~dge~F~vd~~iAerSiLikN~l~d~~~----~n~p~p~pnVrSsvl~kv~ew~ehh~~ 63 (158)
T COG5201 3 MIELESIDGEIFRVDENIAERSILIKNMLCDSTA----CNYPIPAPNVRSSVLMKVQEWMEHHTS 63 (158)
T ss_pred ceEEEecCCcEEEehHHHHHHHHHHHHHhccccc----cCCCCcccchhHHHHHHHHHHHHhccc
Confidence 7999999999999999999999999999987654 466799999999999999999999975
No 6
>PF00651 BTB: BTB/POZ domain; InterPro: IPR013069 The BTB (for BR-C, ttk and bab) [] or POZ (for Pox virus and Zinc finger) [] domain is present near the N terminus of a fraction of zinc finger (IPR007087 from INTERPRO) proteins and in proteins that contain the IPR006652 from INTERPRO motif such as Kelch and a family of pox virus proteins. The BTB/POZ domain mediates homomeric dimerisation and in some instances heteromeric dimerisation []. The structure of the dimerised PLZF BTB/POZ domain has been solved and consists of a tightly intertwined homodimer. The central scaffolding of the protein is made up of a cluster of alpha-helices flanked by short beta-sheets at both the top and bottom of the molecule []. POZ domains from several zinc finger proteins have been shown to mediate transcriptional repression and to interact with components of histone deacetylase co-repressor complexes including N-CoR and SMRT [, , ]. The POZ or BTB domain is also known as BR-C/Ttk or ZiN.; GO: 0005515 protein binding; PDB: 3M5B_A 1R28_B 3LBZ_A 3E4U_F 3BIM_B 1R2B_A 1R29_A 2VPK_A 2YY9_B 3GA1_A ....
Probab=98.12 E-value=2.8e-05 Score=44.68 Aligned_cols=62 Identities=26% Similarity=0.478 Sum_probs=48.8
Q ss_pred ceEEEEeCCCcEEEeeHHH-HHHhHHHHHHhcCCCCCCCCCCcccccCCCCHHHHHHHHHHHHh
Q 040934 5 DTVKLISAEGFEFVISKEA-AMVSQTIRNMLTSPGGFAETEHGEVTFPEISTTILEKICQYFYW 67 (72)
Q Consensus 5 ~~i~L~S~Dg~~f~v~~~~-a~~S~~i~~~l~~~~~~~e~~~~~Ipl~~v~~~~L~kVieyc~~ 67 (72)
.-++|+..||..|.+.+.+ +.+|+.+++++...+ ..+.....|++++++...++.+++||+.
T Consensus 11 ~D~~i~v~d~~~~~vhk~iL~~~S~~F~~~~~~~~-~~~~~~~~i~~~~~~~~~~~~~l~~~Y~ 73 (111)
T PF00651_consen 11 SDVTIRVGDGKTFYVHKNILAARSPYFRNLFEGSK-FKESTVPEISLPDVSPEAFEAFLEYMYT 73 (111)
T ss_dssp --EEEEETTTEEEEE-HHHHHHHBHHHHHHHTTTT-STTSSEEEEEETTSCHHHHHHHHHHHHH
T ss_pred CCEEEEECCCEEEeechhhhhccchhhhhcccccc-cccccccccccccccccccccccccccC
Confidence 3588999999999999999 577999999999762 1222234699999999999999999964
No 7
>smart00225 BTB Broad-Complex, Tramtrack and Bric a brac. Domain in Broad-Complex, Tramtrack and Bric a brac. Also known as POZ (poxvirus and zinc finger) domain. Known to be a protein-protein interaction motif found at the N-termini of several C2H2-type transcription factors as well as Shaw-type potassium channels. Known structure reveals a tightly intertwined dimer formed via interactions between N-terminal strand and helix structures. However in a subset of BTB/POZ domains, these two secondary structures appear to be missing. Be aware SMART predicts BTB/POZ domains without the beta1- and alpha1-secondary structures.
Probab=97.69 E-value=0.00015 Score=39.20 Aligned_cols=57 Identities=14% Similarity=0.292 Sum_probs=45.8
Q ss_pred EeCCCcEEEeeHHHHHH-hHHHHHHhcCCCCCCCCCCcccccCCCCHHHHHHHHHHHHhh
Q 040934 10 ISAEGFEFVISKEAAMV-SQTIRNMLTSPGGFAETEHGEVTFPEISTTILEKICQYFYWS 68 (72)
Q Consensus 10 ~S~Dg~~f~v~~~~a~~-S~~i~~~l~~~~~~~e~~~~~Ipl~~v~~~~L~kVieyc~~h 68 (72)
...+|..|.+.+.++.. |..++.|+.... .+.....|++++++...++.+++||+.-
T Consensus 4 i~v~~~~~~~h~~iL~~~s~~f~~~~~~~~--~~~~~~~i~l~~~~~~~f~~~l~~ly~~ 61 (90)
T smart00225 4 LVVGGKKFKAHKAVLAACSPYFKALFSGDF--KESKKSEIYLDDVSPEDFRALLEFLYTG 61 (90)
T ss_pred EEECCEEEehHHHHHhhcCHHHHHHHcCCC--ccCCCCEEEecCCCHHHHHHHHHeecCc
Confidence 35578999999988664 799999998643 2334678999999999999999998753
No 8
>PHA02713 hypothetical protein; Provisional
Probab=97.35 E-value=0.0006 Score=50.05 Aligned_cols=60 Identities=22% Similarity=0.262 Sum_probs=50.1
Q ss_pred eEEEEeCCCcEEEeeHHH-HHHhHHHHHHhcCCCCCCCC-CCcccccCCCCHHHHHHHHHHHHh
Q 040934 6 TVKLISAEGFEFVISKEA-AMVSQTIRNMLTSPGGFAET-EHGEVTFPEISTTILEKICQYFYW 67 (72)
Q Consensus 6 ~i~L~S~Dg~~f~v~~~~-a~~S~~i~~~l~~~~~~~e~-~~~~Ipl~~v~~~~L~kVieyc~~ 67 (72)
-|+|...+|++|.+.+.+ |..|.-++.|+.. ++.|. ..+.|.|.++++.+|+.|++|++.
T Consensus 27 DV~L~v~~~~~f~~Hr~vLaa~S~YF~amF~~--~~~e~~~~~~v~l~~v~~~~~~~ll~y~Yt 88 (557)
T PHA02713 27 DVIITIGDGEEIKAHKTILAAGSKYFRTLFTT--PMIIRDLVTRVNLQMFDKDAVKNIVQYLYN 88 (557)
T ss_pred CEEEEeCCCCEEeehHHHHhhcCHHHHHHhcC--CchhhccCceEEeccCCHHHHHHHHHHhcC
Confidence 478888779999999999 5579999999985 34443 356799999999999999999875
No 9
>PHA03098 kelch-like protein; Provisional
Probab=95.62 E-value=0.054 Score=39.05 Aligned_cols=55 Identities=16% Similarity=0.264 Sum_probs=44.6
Q ss_pred EEEE-eCCCcEEEeeHHHHH-HhHHHHHHhcCCCCCCCCCCcccccCCCCHHHHHHHHHHHHh
Q 040934 7 VKLI-SAEGFEFVISKEAAM-VSQTIRNMLTSPGGFAETEHGEVTFPEISTTILEKICQYFYW 67 (72)
Q Consensus 7 i~L~-S~Dg~~f~v~~~~a~-~S~~i~~~l~~~~~~~e~~~~~Ipl~~v~~~~L~kVieyc~~ 67 (72)
++|. +.+|++|.+.+.++. .|+.++.|+.+. +. ...|.|+. +..+++.|++|++.
T Consensus 12 v~l~~~~~~~~~~~Hk~vLaa~S~yF~~mf~~~--~~---~~~i~l~~-~~~~~~~~l~y~Yt 68 (534)
T PHA03098 12 ESIIIVNGGGIIKVHKIILSSSSEYFKKMFKNN--FK---ENEINLNI-DYDSFNEVIKYIYT 68 (534)
T ss_pred EEEEEEcCCEEEEeHHHHHHhhhHHHHHHHhCC--CC---CceEEecC-CHHHHHHHHHHhcC
Confidence 4444 478999999999955 699999999853 22 46788988 99999999999875
No 10
>PHA02790 Kelch-like protein; Provisional
Probab=95.50 E-value=0.026 Score=40.70 Aligned_cols=55 Identities=22% Similarity=0.336 Sum_probs=42.8
Q ss_pred EEeCCCcEEEeeHHH-HHHhHHHHHHhcCCCCCCCCCCccccc--CCCCHHHHHHHHHHHH
Q 040934 9 LISAEGFEFVISKEA-AMVSQTIRNMLTSPGGFAETEHGEVTF--PEISTTILEKICQYFY 66 (72)
Q Consensus 9 L~S~Dg~~f~v~~~~-a~~S~~i~~~l~~~~~~~e~~~~~Ipl--~~v~~~~L~kVieyc~ 66 (72)
+.-.-|.+|.+.|.+ |..|+-+|.|+.+ ++.|... .|.+ .+|+..+|+.|++|++
T Consensus 25 ~~~~~~~~~~~HR~VLAa~S~YFraMF~~--~~~Es~~-~v~~~~~~v~~~~l~~lldy~Y 82 (480)
T PHA02790 25 IIEAIGGNIIVNSTILKKLSPYFRTHLRQ--KYTKNKD-PVTRVCLDLDIHSLTSIVIYSY 82 (480)
T ss_pred EEEEcCcEEeeehhhhhhcCHHHHHHhcC--Ccccccc-ceEEEecCcCHHHHHHHHHhhe
Confidence 444568899999999 7779999999975 4555533 3544 3899999999999985
No 11
>KOG4441 consensus Proteins containing BTB/POZ and Kelch domains, involved in regulatory/signal transduction processes [Signal transduction mechanisms; General function prediction only]
Probab=95.49 E-value=0.04 Score=40.90 Aligned_cols=59 Identities=29% Similarity=0.429 Sum_probs=48.6
Q ss_pred EEEEeCCCcEEEeeHHH-HHHhHHHHHHhcCCCCCCCCCCcccccCCCCHHHHHHHHHHHHhh
Q 040934 7 VKLISAEGFEFVISKEA-AMVSQTIRNMLTSPGGFAETEHGEVTFPEISTTILEKICQYFYWS 68 (72)
Q Consensus 7 i~L~S~Dg~~f~v~~~~-a~~S~~i~~~l~~~~~~~e~~~~~Ipl~~v~~~~L~kVieyc~~h 68 (72)
+.|.- ++++|...|-+ |..|.-+|.|+.. +..|.....|.|..|++.+|+.+++|++..
T Consensus 39 v~L~v-~~~~~~aHR~VLAa~S~YFraMFt~--~l~e~~~~~i~l~~v~~~~l~~ll~y~Yt~ 98 (571)
T KOG4441|consen 39 VTLLV-GDREFPAHRVVLAACSPYFRAMFTS--GLKESKQKEINLEGVDPETLELLLDYAYTG 98 (571)
T ss_pred EEEEE-CCeeechHHHHHHhccHHHHHHhcC--CcccccceEEEEecCCHHHHHHHHHHhhcc
Confidence 44444 45999999998 6779999999995 455677888999999999999999998753
No 12
>KOG4350 consensus Uncharacterized conserved protein, contains BTB/POZ domain [General function prediction only]
Probab=91.67 E-value=0.45 Score=35.04 Aligned_cols=59 Identities=20% Similarity=0.386 Sum_probs=48.3
Q ss_pred eEEEEeCCCcEEEeeHHH-HHHhHHHHHHhcCCCCCCCCCCcccccCCCCHHHHHHHHHHHHh
Q 040934 6 TVKLISAEGFEFVISKEA-AMVSQTIRNMLTSPGGFAETEHGEVTFPEISTTILEKICQYFYW 67 (72)
Q Consensus 6 ~i~L~S~Dg~~f~v~~~~-a~~S~~i~~~l~~~~~~~e~~~~~Ipl~~v~~~~L~kVieyc~~ 67 (72)
-|+|+-.| .+|...+-+ |..|..+|.||= |++.|.....|||..-++..++.++.|++-
T Consensus 46 DVtfvve~-~rfpAHRvILAaRs~yFRAlLY--gGm~Es~q~~ipLq~t~~eAF~~lLrYiYt 105 (620)
T KOG4350|consen 46 DVTFVVED-TRFPAHRVILAARSSYFRALLY--GGMQESHQQLIPLQETNSEAFRALLRYIYT 105 (620)
T ss_pred ceEEEEec-cccchhhhhHHHHHHHHHHHHh--hhhhhhhhcccccccccHHHHHHHHHHHhh
Confidence 46777666 778777776 778999999987 467787788999988889999999999864
No 13
>PF07928 Vps54: Vps54-like protein; InterPro: IPR012501 This family contains various proteins that are homologues of the yeast Vps54 protein, such as the rat homologue (Q9JMK8 from SWISSPROT), the human homologue (Q86YF7 from SWISSPROT), and the mouse homologue (Q8R3X1 from SWISSPROT). In yeast, Vps54 associates with Vps52 and Vps53 proteins to form a trimolecular complex that is involved in protein transport between Golgi, endosomal, and vacuolar compartments []. All Vps54 homologues contain a coiled coil region (not found in the region featured in this family) and multiple dileucine motifs []. ; GO: 0042147 retrograde transport, endosome to Golgi; PDB: 3N1E_B 3N1B_B.
Probab=85.89 E-value=0.24 Score=30.60 Aligned_cols=45 Identities=18% Similarity=0.417 Sum_probs=0.0
Q ss_pred CCcEEEeeHHHHHHhHHHHHHhcCCCCCCCCCCcccccCCCCHHHHHHHHHHHHh
Q 040934 13 EGFEFVISKEAAMVSQTIRNMLTSPGGFAETEHGEVTFPEISTTILEKICQYFYW 67 (72)
Q Consensus 13 Dg~~f~v~~~~a~~S~~i~~~l~~~~~~~e~~~~~Ipl~~v~~~~L~kVieyc~~ 67 (72)
||+.|.|...+...-+.|.+.+.-.. .+|.+..+++.+++|++..
T Consensus 1 d~e~f~vv~s~l~ll~~l~~Y~~~~~----------~~P~~a~di~~~l~elLk~ 45 (135)
T PF07928_consen 1 DNEKFVVVGSALLLLKMLSDYLQLAS----------NFPSLAPDILSRLLELLKL 45 (135)
T ss_dssp -------------------------------------------------------
T ss_pred CCCceecHHHHHHHHHHHHHHHHHHH----------HCchhHHHHHHHHHHHHHH
Confidence 78999999999988888888776432 3666889999999998754
No 14
>PF02519 Auxin_inducible: Auxin responsive protein; InterPro: IPR003676 This family consists of the protein products of a gene cluster that encodes a group of auxin-regulated RNAs (small auxin up RNAs, SAURs) []. Proteins from this ARG7 auxin responsive genes family have no identified functional role [].
Probab=72.53 E-value=15 Score=21.48 Aligned_cols=58 Identities=16% Similarity=0.271 Sum_probs=39.5
Q ss_pred EEEEeCCCcEEEeeHHHHHHhHHHHHHhcCCCC-CCCCCCcccccCCCCHHHHHHHHHHHH
Q 040934 7 VKLISAEGFEFVISKEAAMVSQTIRNMLTSPGG-FAETEHGEVTFPEISTTILEKICQYFY 66 (72)
Q Consensus 7 i~L~S~Dg~~f~v~~~~a~~S~~i~~~l~~~~~-~~e~~~~~Ipl~~v~~~~L~kVieyc~ 66 (72)
...+..+.+.|.|+...+. .+.++.+|+.... |--..+++|.|| -+...++.|+..+|
T Consensus 42 ~VyVG~~~~Rfvvp~~~L~-hp~f~~LL~~aeeEfG~~~~G~l~iP-C~~~~Fe~~l~~le 100 (100)
T PF02519_consen 42 AVYVGEERRRFVVPVSYLN-HPLFQELLEQAEEEFGFDQDGPLTIP-CDVVLFEHLLWLLE 100 (100)
T ss_pred EEEeCccceEEEechHHcC-chhHHHHHHHHhhhcCcCCCCcEEee-CCHHHHHHHHHHhC
Confidence 4445556999999999887 4677777765421 111236778887 78888888876553
No 15
>PF02214 BTB_2: BTB/POZ domain; InterPro: IPR003131 Potassium channels are the most diverse group of the ion channel family [, ]. They are important in shaping the action potential, and in neuronal excitability and plasticity []. The potassium channel family is composed of several functionally distinct isoforms, which can be broadly separated into 2 groups []: the practically non-inactivating 'delayed' group and the rapidly inactivating 'transient' group. These are all highly similar proteins, with only small amino acid changes causing the diversity of the voltage-dependent gating mechanism, channel conductance and toxin binding properties. Each type of K+ channel is activated by different signals and conditions depending on their type of regulation: some open in response to depolarisation of the plasma membrane; others in response to hyperpolarisation or an increase in intracellular calcium concentration; some can be regulated by binding of a transmitter, together with intracellular kinases; while others are regulated by GTP-binding proteins or other second messengers []. In eukaryotic cells, K+ channels are involved in neural signalling and generation of the cardiac rhythm, act as effectors in signal transduction pathways involving G protein-coupled receptors (GPCRs) and may have a role in target cell lysis by cytotoxic T-lymphocytes []. In prokaryotic cells, they play a role in the maintenance of ionic homeostasis []. All K+ channels discovered so far possess a core of alpha subunits, each comprising either one or two copies of a highly conserved pore loop domain (P-domain). The P-domain contains the sequence (T/SxxTxGxG), which has been termed the K+ selectivity sequence. In families that contain one P-domain, four subunits assemble to form a selective pathway for K+ across the membrane. However, it remains unclear how the 2 P-domain subunits assemble to form a selective pore. The functional diversity of these families can arise through homo- or hetero-associations of alpha subunits or association with auxiliary cytoplasmic beta subunits. K+ channel subunits containing one pore domain can be assigned into one of two superfamilies: those that possess six transmembrane (TM) domains and those that possess only two TM domains. The six TM domain superfamily can be further subdivided into conserved gene families: the voltage-gated (Kv) channels; the KCNQ channels (originally known as KvLQT channels); the EAG-like K+ channels; and three types of calcium (Ca)-activated K+ channels (BK, IK and SK) []. The 2TM domain family comprises inward-rectifying K+ channels. In addition, there are K+ channel alpha-subunits that possess two P-domains. These are usually highly regulated K+ selective leak channels. The Kv family can be divided into several subfamilies on the basis of sequence similarity and function. Four of these subfamilies, Kv1 (Shaker), Kv2 (Shab), Kv3 (Shaw) and Kv4 (Shal), consist of pore-forming alpha subunits that associate with different types of beta subunit. Each alpha subunit comprises six hydrophobic TM domains with a P-domain between the fifth and sixth, which partially resides in the membrane. The fourth TM domain has positively charged residues at every third residue and acts as a voltage sensor, which triggers the conformational change that opens the channel pore in response to a displacement in membrane potential []. More recently, 4 new electrically-silent alpha subunits have been cloned: Kv5 (KCNF), Kv6 (KCNG), Kv8 and Kv9 (KCNS). These subunits do not themselves possess any functional activity, but appear to form heteromeric channels with Kv2 subunits, and thus modulate Shab channel activity []. When highly expressed, they inhibit channel activity, but at lower levels show more specific modulatory actions. The N-terminal, cytoplasmic tetramerization domain (T1) of voltage-gated potassium channels encodes molecular determinants for subfamily-specific assembly of alpha-subunits into functional tetrameric channels []. This domain is found in a subset of a larger group of proteins that contain the BTB/POZ domain.; GO: 0005249 voltage-gated potassium channel activity, 0006813 potassium ion transport, 0008076 voltage-gated potassium channel complex, 0016020 membrane; PDB: 1NN7_A 3KVT_A 1EXB_E 1QDV_A 1DSX_E 1QDW_F 3LUT_B 3LNM_B 2A79_B 3DRY_C ....
Probab=71.74 E-value=2.4 Score=23.69 Aligned_cols=54 Identities=15% Similarity=0.220 Sum_probs=35.7
Q ss_pred CCcEEEeeHHHHHHh--HHHHHHhcCC-CCCCCCCCcccccCCCCHHHHHHHHHHHHh
Q 040934 13 EGFEFVISKEAAMVS--QTIRNMLTSP-GGFAETEHGEVTFPEISTTILEKICQYFYW 67 (72)
Q Consensus 13 Dg~~f~v~~~~a~~S--~~i~~~l~~~-~~~~e~~~~~Ipl~~v~~~~L~kVieyc~~ 67 (72)
-|+.|.++++.+..- ..+..++... .....+.++.+=+ +=++...+.|+.|+..
T Consensus 6 GG~~f~~~~~tL~~~~~s~l~~~~~~~~~~~~~~~~~~~fi-DRdp~~F~~IL~ylr~ 62 (94)
T PF02214_consen 6 GGTIFETSRSTLTRYPDSLLARLFSGERSDDYDDDDGEYFI-DRDPELFEYILNYLRT 62 (94)
T ss_dssp TTEEEEEEHHHHHTSTTSTTTSHHHTGHGGGEETTTTEEEE-SS-HHHHHHHHHHHHH
T ss_pred CCEEEEEcHHHHhhCCCChhhhHHhhccccccCCccceEEe-ccChhhhhHHHHHHhh
Confidence 489999999988732 3456666643 1111223455645 6899999999999886
No 16
>COG4565 CitB Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]
Probab=67.31 E-value=7 Score=26.28 Aligned_cols=23 Identities=17% Similarity=0.278 Sum_probs=19.5
Q ss_pred CCcccccC-CCCHHHHHHHHHHHH
Q 040934 44 EHGEVTFP-EISTTILEKICQYFY 66 (72)
Q Consensus 44 ~~~~Ipl~-~v~~~~L~kVieyc~ 66 (72)
...+.+|| ++++.||.+|++|++
T Consensus 145 ~~~~~~LPkGi~~~Tl~~i~~~~~ 168 (224)
T COG4565 145 EQPPDDLPKGLDELTLQKVREALK 168 (224)
T ss_pred ccCcccCCCCcCHHHHHHHHHHHh
Confidence 34567788 799999999999998
No 17
>PF05871 ESCRT-II: ESCRT-II complex subunit; InterPro: IPR008570 This entry represents the vps25 subunit (vacuolar protein sorting-associated protein 25) of the endosome-associated complex ESCRT-II (Endosomal Sorting Complexes Required for Transport protein II). ESCRT (ESCRT-I, -II, -III) complexes orchestrate efficient sorting of ubiquitinated transmembrane receptors to lysosomes via multivesicular bodies (MVBs) []. ESCRT-II recruits the transport machinery for protein sorting at MVB []. In addition, the human ESCRT-II has been shown to form a complex with RNA polymerase II elongation factor ELL in order to exert transcriptional control activity. ESCRT-II transiently associates with the endosomal membrane and thereby initiates the formation of ESCRT-III, a membrane-associated protein complex that functions immediately downstream of ESCRT-II during sorting of MVB cargo. ESCRT-II in turn functions downstream of ESCRT-I, a protein complex that binds to ubiquitinated endosomal cargo []. ESCRT-II is a trilobal complex composed of two copies of vps25, one copy of vps22 and the C-terminal region of vps36. The crystal structure of vps25 revealed two winged-helix domains, the N-terminal domain of vps25 interacting with vps22 and vps35 [].; PDB: 1W7P_B 1U5T_D 1XB4_D 3HTU_E 3CUQ_C 2ZME_D.
Probab=66.51 E-value=4.5 Score=25.12 Aligned_cols=13 Identities=15% Similarity=0.240 Sum_probs=10.5
Q ss_pred HHHHHHHHhhccC
Q 040934 59 EKICQYFYWSLQY 71 (72)
Q Consensus 59 ~kVieyc~~h~~y 71 (72)
..|++||.||+.|
T Consensus 27 ~lIl~y~~~~k~~ 39 (139)
T PF05871_consen 27 DLILDYCRHHKIF 39 (139)
T ss_dssp HHHHHHHHHTT-S
T ss_pred HHHHHHHHHhcee
Confidence 5799999999876
No 18
>PF11338 DUF3140: Protein of unknown function (DUF3140); InterPro: IPR021487 Some members in this family of proteins are annotated as DNA binding proteins. No function is currently known.
Probab=60.20 E-value=8.4 Score=22.50 Aligned_cols=21 Identities=14% Similarity=0.218 Sum_probs=16.5
Q ss_pred cCCCCHHHHHHHHHHHHhhcc
Q 040934 50 FPEISTTILEKICQYFYWSLQ 70 (72)
Q Consensus 50 l~~v~~~~L~kVieyc~~h~~ 70 (72)
|.+=+-..++||+.||..|..
T Consensus 54 ltddD~~hMrkVV~yv~rhla 74 (92)
T PF11338_consen 54 LTDDDYEHMRKVVGYVKRHLA 74 (92)
T ss_pred CCHHHHHHHHHHHHHHHHHHh
Confidence 445566789999999999864
No 19
>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=58.08 E-value=5.5 Score=22.28 Aligned_cols=21 Identities=19% Similarity=0.341 Sum_probs=10.8
Q ss_pred CCCCceEEEEeCCCc-EEEeeH
Q 040934 1 MKKEDTVKLISAEGF-EFVISK 21 (72)
Q Consensus 1 m~~~~~i~L~S~Dg~-~f~v~~ 21 (72)
|+++..|+++|.||. +++++.
T Consensus 1 ~~~~milRvrS~dG~~Rie~~~ 22 (80)
T PF11543_consen 1 MASSMILRVRSKDGMKRIEVSP 22 (80)
T ss_dssp -----EEEEE-SSEEEEEEE-T
T ss_pred CCccEEEEEECCCCCEEEEcCC
Confidence 777788999999985 455553
No 20
>PF14716 HHH_8: Helix-hairpin-helix domain; PDB: 2W9M_A 1HUZ_A 1HUO_A 2BPG_B 2BPF_A 1DK3_A 1BPE_A 1BNO_A 1BNP_A 1DK2_A ....
Probab=56.91 E-value=16 Score=19.46 Aligned_cols=20 Identities=25% Similarity=0.313 Sum_probs=17.8
Q ss_pred ccccCCCCHHHHHHHHHHHH
Q 040934 47 EVTFPEISTTILEKICQYFY 66 (72)
Q Consensus 47 ~Ipl~~v~~~~L~kVieyc~ 66 (72)
.-.||+|-..+-.+|-||++
T Consensus 49 ~~~l~gIG~~ia~kI~E~le 68 (68)
T PF14716_consen 49 LKKLPGIGKSIAKKIDEILE 68 (68)
T ss_dssp HCTSTTTTHHHHHHHHHHHH
T ss_pred HhhCCCCCHHHHHHHHHHHC
Confidence 56799999999999999975
No 21
>PRK11566 hdeB acid-resistance protein; Provisional
Probab=54.94 E-value=5.4 Score=23.73 Aligned_cols=25 Identities=28% Similarity=0.260 Sum_probs=19.4
Q ss_pred cccccCCCCHHHHHHHHHHHHhhcc
Q 040934 46 GEVTFPEISTTILEKICQYFYWSLQ 70 (72)
Q Consensus 46 ~~Ipl~~v~~~~L~kVieyc~~h~~ 70 (72)
+-+.+.++.-.-..||++||..|-+
T Consensus 62 D~vd~~e~et~~tPkvie~Ckk~P~ 86 (102)
T PRK11566 62 DYVDLNETDTTQVPKVIEYCKKNPQ 86 (102)
T ss_pred ccccccceeeeechHHHHHHHhCCc
Confidence 3477777777667899999998853
No 22
>KOG0511 consensus Ankyrin repeat protein [General function prediction only]
Probab=53.92 E-value=25 Score=25.98 Aligned_cols=58 Identities=12% Similarity=0.250 Sum_probs=42.4
Q ss_pred eCCCcEEEeeHHHHHHhHHHHHHhcCCCCCCC-CCCcc---cccCCCCHHHHHHHHHHHHhhcc
Q 040934 11 SAEGFEFVISKEAAMVSQTIRNMLTSPGGFAE-TEHGE---VTFPEISTTILEKICQYFYWSLQ 70 (72)
Q Consensus 11 S~Dg~~f~v~~~~a~~S~~i~~~l~~~~~~~e-~~~~~---Ipl~~v~~~~L~kVieyc~~h~~ 70 (72)
+-...++.+..+++.....++.|+.+ .|.| ..++. ..||+....+.+-++.|++-|+.
T Consensus 297 l~~~~RyP~hla~i~R~eyfk~mf~g--~f~e~s~n~~~p~lslp~~~~~vveI~lr~lY~d~t 358 (516)
T KOG0511|consen 297 LPEEDRYPAHLARILRVEYFKSMFVG--DFIESSVNDTRPGLSLPSLADVVVEIDLRNLYCDQT 358 (516)
T ss_pred ccccccccHHHHHHHHHHHHHHHhcc--chhhhcCCccccccccchHHHHHHHHHHHHhhcccc
Confidence 34445688888999999999998874 4554 22333 44888889999999999876653
No 23
>PF08727 P3A: Poliovirus 3A protein like; InterPro: IPR014838 The 3A protein is found in positive-strand RNA viruses. It is a critical component of the poliovirus replication complex, and is also an inhibitor of host cell ER to Golgi transport. ; GO: 0003968 RNA-directed RNA polymerase activity, 0004197 cysteine-type endopeptidase activity, 0017111 nucleoside-triphosphatase activity; PDB: 1NG7_A.
Probab=52.04 E-value=12 Score=20.03 Aligned_cols=20 Identities=15% Similarity=0.197 Sum_probs=12.4
Q ss_pred ccCCCCHHHH-----HHHHHHHHhh
Q 040934 49 TFPEISTTIL-----EKICQYFYWS 68 (72)
Q Consensus 49 pl~~v~~~~L-----~kVieyc~~h 68 (72)
|-|..=.+.| .+|++||+.+
T Consensus 15 P~P~~I~DLL~SV~~~eV~~YC~~~ 39 (57)
T PF08727_consen 15 PPPPAIADLLRSVDSPEVREYCEEQ 39 (57)
T ss_dssp -SS-TTHHHHHHH--HHHHHHHHHH
T ss_pred CCCHHHHHHHHhcCCHHHHHHHHHC
Confidence 3444445555 5799999875
No 24
>cd00068 GGL G protein gamma subunit-like motifs, the alpha-helical G-gamma chain dimerizes with the G-beta propeller subunit as part of the heterotrimeric G-protein complex; involved in signal transduction via G-protein-coupled receptors
Probab=51.63 E-value=18 Score=18.87 Aligned_cols=16 Identities=6% Similarity=0.140 Sum_probs=12.8
Q ss_pred HHHHHHHHHHHHhhcc
Q 040934 55 TTILEKICQYFYWSLQ 70 (72)
Q Consensus 55 ~~~L~kVieyc~~h~~ 70 (72)
|....-++.||+.|..
T Consensus 23 S~a~~~l~~y~e~~~~ 38 (57)
T cd00068 23 SKAAAELLKYCEQNAE 38 (57)
T ss_pred HHHHHHHHHHHHhcCC
Confidence 5677889999999843
No 25
>KOG4068 consensus Uncharacterized conserved protein [Function unknown]
Probab=51.60 E-value=8.5 Score=24.82 Aligned_cols=15 Identities=27% Similarity=0.361 Sum_probs=12.2
Q ss_pred HHHHHHHHHhhccCC
Q 040934 58 LEKICQYFYWSLQYS 72 (72)
Q Consensus 58 L~kVieyc~~h~~y~ 72 (72)
-..|+.||.|++.|+
T Consensus 31 ~~lil~ycr~~k~~s 45 (174)
T KOG4068|consen 31 IDLILQYCRHNKIWS 45 (174)
T ss_pred HHHHHHHHHhcCeEE
Confidence 367999999998763
No 26
>PF03474 DMA: DMRTA motif; InterPro: IPR005173 This region is found to the C terminus of the DM DNA-binding domain IPR001275 from INTERPRO []. DM-domain proteins with this motif are known as DMRTA proteins. The function of this region is unknown.
Probab=48.69 E-value=20 Score=17.68 Aligned_cols=18 Identities=33% Similarity=0.451 Sum_probs=15.5
Q ss_pred ccCCCCHHHHHHHHHHHH
Q 040934 49 TFPEISTTILEKICQYFY 66 (72)
Q Consensus 49 pl~~v~~~~L~kVieyc~ 66 (72)
-||+-..++|+.|++-|.
T Consensus 11 vFP~~kr~~Le~iL~~C~ 28 (39)
T PF03474_consen 11 VFPHQKRSVLELILQRCN 28 (39)
T ss_pred HCCCCChHHHHHHHHHcC
Confidence 378889999999999885
No 27
>PF08154 NLE: NLE (NUC135) domain; InterPro: IPR012972 This domain is located N-terminal to WD40 repeats(IPR001680 from INTERPRO). It is found in the microtubule-associated protein Q12024 from SWISSPROT [].
Probab=48.33 E-value=40 Score=17.89 Aligned_cols=29 Identities=14% Similarity=0.400 Sum_probs=20.5
Q ss_pred eEEEEeCCC------cEEEeeHHH--HHHhHHHHHHh
Q 040934 6 TVKLISAEG------FEFVISKEA--AMVSQTIRNML 34 (72)
Q Consensus 6 ~i~L~S~Dg------~~f~v~~~~--a~~S~~i~~~l 34 (72)
.|+|.|++| ..|.|+..+ ...+.+++.++
T Consensus 3 ~v~F~t~~~~~~~~~~~~~VP~~~t~~~Ls~LvN~LL 39 (65)
T PF08154_consen 3 QVQFVTEDGEYEVPGTPISVPSNITRKELSELVNQLL 39 (65)
T ss_pred EEEEEcCCCCccCCCCCEEEeCCCCHHHHHHHHHHHh
Confidence 367777777 456665444 66789999998
No 28
>smart00224 GGL G protein gamma subunit-like motifs.
Probab=42.42 E-value=28 Score=18.51 Aligned_cols=17 Identities=12% Similarity=0.094 Sum_probs=13.0
Q ss_pred HHHHHHHHHHHHhhccC
Q 040934 55 TTILEKICQYFYWSLQY 71 (72)
Q Consensus 55 ~~~L~kVieyc~~h~~y 71 (72)
|....-++.||+.|..+
T Consensus 23 S~a~~~li~y~e~~~~~ 39 (63)
T smart00224 23 SKAAEELLAYCEQHAEE 39 (63)
T ss_pred HHHHHHHHHHHHcCCCC
Confidence 56778889999986543
No 29
>PF06851 DUF1247: Protein of unknown function (DUF1247); InterPro: IPR009657 This entry is represented by Autographa californica nuclear polyhedrosis virus (AcMNPV), Orf2; it is a family of uncharacterised viral proteins.
Probab=41.85 E-value=9.3 Score=24.08 Aligned_cols=8 Identities=13% Similarity=0.218 Sum_probs=6.8
Q ss_pred HHHhhccC
Q 040934 64 YFYWSLQY 71 (72)
Q Consensus 64 yc~~h~~y 71 (72)
||++|++|
T Consensus 61 rC~FHkky 68 (148)
T PF06851_consen 61 RCDFHKKY 68 (148)
T ss_pred hhhHhHhh
Confidence 88888877
No 30
>KOG2075 consensus Topoisomerase TOP1-interacting protein BTBD1 [Function unknown]
Probab=40.56 E-value=57 Score=24.62 Aligned_cols=50 Identities=20% Similarity=0.319 Sum_probs=36.8
Q ss_pred cEEEeeHHH-HHHhHHHHHHhcCCCCCCCCCCcccccCCCCHHHHHHHHHHHH
Q 040934 15 FEFVISKEA-AMVSQTIRNMLTSPGGFAETEHGEVTFPEISTTILEKICQYFY 66 (72)
Q Consensus 15 ~~f~v~~~~-a~~S~~i~~~l~~~~~~~e~~~~~Ipl~~v~~~~L~kVieyc~ 66 (72)
+.+...+-+ +.-|.++-.|+-. +..++...+|.+|+|..+.....+.|++
T Consensus 129 q~~paHk~vla~gS~VFdaMf~g--~~a~~~s~ei~lpdvepaaFl~~L~flY 179 (521)
T KOG2075|consen 129 QRIPAHKLVLADGSDVFDAMFYG--GLAEDASLEIRLPDVEPAAFLAFLRFLY 179 (521)
T ss_pred cccchhhhhhhcchHHHHHHhcc--CcccccCceeecCCcChhHhHHHHHHHh
Confidence 344444444 5557888888874 4555557889999999999999888875
No 31
>smart00491 HELICc2 helicase superfamily c-terminal domain.
Probab=40.43 E-value=28 Score=21.22 Aligned_cols=23 Identities=22% Similarity=0.315 Sum_probs=19.8
Q ss_pred ccccCCCCHHHHHHHHHHHHhhc
Q 040934 47 EVTFPEISTTILEKICQYFYWSL 69 (72)
Q Consensus 47 ~Ipl~~v~~~~L~kVieyc~~h~ 69 (72)
.+|+|+.+...++...+|++...
T Consensus 77 glPfp~~~d~~~~~~~~~~~~~~ 99 (142)
T smart00491 77 GIPFPNPDSPILRARLEYLDEKG 99 (142)
T ss_pred ecCCCCCCCHHHHHHHHHHHHhc
Confidence 58999999999999999987653
No 32
>PF06540 GMAP: Galanin message associated peptide (GMAP); InterPro: IPR013068 Galanin is a peptide hormone that controls various biological activities []. Galanin-like immuno-reactivity has been found in the central and peripheral nervous systems of mammals, with high concentrations demonstrated in discrete regions of the central nervous system, including the median eminence, hypothalamus, arcuate nucleus, septum, neuro-intermediate lobe of the pituitary, and the spinal cord. Its localisation within neurosecretory granules suggests that galanin may function as a neurotransmitter, and it has been shown to coexist with a variety of other peptide and amine neurotransmitters within individual neurons []. Although the precise physiological role of galanin is uncertain, it has a number of pharmacological properties: it stimulates food intake, when injected into the third ventricle of rats; it increases levels of plasma growth hormone and prolactin, and decreases dopamine levels in the median eminence []; and infusion into humans results in hyperglycemia and glucose intolerance, and inhibits pancreatic release of insulin, somatostatin and pancreatic peptide. Galanin also modulates smooth muscle contractility within the gastro-intestinal and genito-urinary tracts, all such activities suggesting that the hormone may play an important role in the nervous modulation of endocrine and smooth muscle function []. This domain represents the galanin message-associated peptide (GMAP) domain which is found C-terminal to the galanin domain in the preprogalanin precursor protein. GMAP sequences in different species show a high degree of homology, but the biological function of the GMAP peptide is not known [].
Probab=40.12 E-value=54 Score=17.75 Aligned_cols=16 Identities=13% Similarity=0.372 Sum_probs=13.9
Q ss_pred CCHHHHHHHHHHHHhh
Q 040934 53 ISTTILEKICQYFYWS 68 (72)
Q Consensus 53 v~~~~L~kVieyc~~h 68 (72)
-+.++++.|+||+.|-
T Consensus 21 ~d~nivrTiiEFLtfL 36 (62)
T PF06540_consen 21 ADDNIVRTIIEFLTFL 36 (62)
T ss_pred chhHHHHHHHHHHHHH
Confidence 4889999999999874
No 33
>COG5478 Predicted small integral membrane protein [Function unknown]
Probab=39.92 E-value=86 Score=19.70 Aligned_cols=28 Identities=11% Similarity=0.055 Sum_probs=23.8
Q ss_pred CCCcccccCCCCHHHHHHHHHHHHhhcc
Q 040934 43 TEHGEVTFPEISTTILEKICQYFYWSLQ 70 (72)
Q Consensus 43 ~~~~~Ipl~~v~~~~L~kVieyc~~h~~ 70 (72)
..++.|-|..-..+.++++++||+.+..
T Consensus 90 ~~n~~VgIEh~~~~~i~~~~~~~e~~a~ 117 (141)
T COG5478 90 ARNDVVGIEHLKPEEIEEIRDRLEDEAG 117 (141)
T ss_pred ccCceeeeccCCHHHHHHHHHHHHHHhc
Confidence 3567789999999999999999997653
No 34
>COG4849 Predicted nucleotidyltransferase [General function prediction only]
Probab=39.29 E-value=35 Score=23.27 Aligned_cols=25 Identities=12% Similarity=0.074 Sum_probs=21.7
Q ss_pred CcccccCCCCHHHHHHHHHHHHhhc
Q 040934 45 HGEVTFPEISTTILEKICQYFYWSL 69 (72)
Q Consensus 45 ~~~Ipl~~v~~~~L~kVieyc~~h~ 69 (72)
.-.|+||.+++-++-|...|+....
T Consensus 135 ~~~v~l~~~Pgl~~lKLhAWLDR~~ 159 (269)
T COG4849 135 GLTVHLPQPPGLAVLKLHAWLDRAD 159 (269)
T ss_pred CeeeecCCCCchHHHHHHHHHhhcc
Confidence 4568999999999999999998754
No 35
>PF10584 Proteasome_A_N: Proteasome subunit A N-terminal signature; InterPro: IPR000426 The proteasome (or macropain) (3.4.25.1 from EC) [, , , , ] is a eukaryotic and archaeal multicatalytic proteinase complex that seems to be involved in an ATP/ubiquitin-dependent nonlysosomal proteolytic pathway. In eukaryotes the proteasome is composed of about 28 distinct subunits which form a highly ordered ring-shaped structure (20S ring) of about 700 kDa. Most proteasome subunits can be classified, on the basis on sequence similarities into two groups, alpha (A) and beta (B). This family contains the alpha subunit sequences which range from 210 to 290 amino acids. These sequences are classified as non-peptidase homologues in MEROPS peptidase family T1 (clan PB(T)). ; GO: 0004175 endopeptidase activity, 0006511 ubiquitin-dependent protein catabolic process, 0019773 proteasome core complex, alpha-subunit complex; PDB: 3H4P_M 1IRU_O 3UN4_U 1FNT_A 3OEV_G 3OEU_U 3SDK_U 3DY3_G 3MG7_G 3L5Q_C ....
Probab=39.13 E-value=5.4 Score=17.48 Aligned_cols=17 Identities=18% Similarity=0.290 Sum_probs=12.9
Q ss_pred EEEEeCCCcEEEeeHHH
Q 040934 7 VKLISAEGFEFVISKEA 23 (72)
Q Consensus 7 i~L~S~Dg~~f~v~~~~ 23 (72)
++.-|.||+.|.|+.+.
T Consensus 5 ~t~FSp~Grl~QVEYA~ 21 (23)
T PF10584_consen 5 ITTFSPDGRLFQVEYAM 21 (23)
T ss_dssp TTSBBTTSSBHHHHHHH
T ss_pred ceeECCCCeEEeeEeee
Confidence 45568999999987653
No 36
>PF13711 DUF4160: Domain of unknown function (DUF4160)
Probab=38.78 E-value=36 Score=18.00 Aligned_cols=19 Identities=16% Similarity=0.132 Sum_probs=16.2
Q ss_pred CCCHHHHHHHHHHHHhhcc
Q 040934 52 EISTTILEKICQYFYWSLQ 70 (72)
Q Consensus 52 ~v~~~~L~kVieyc~~h~~ 70 (72)
.++...|++|.+|.+-|+.
T Consensus 41 ~l~~k~l~~i~~~i~~~~~ 59 (66)
T PF13711_consen 41 FLPRKELRKILEWIEENQE 59 (66)
T ss_pred CCCHHHHHHHHHHHHHHHH
Confidence 3789999999999988764
No 37
>PF00646 F-box: F-box domain; InterPro: IPR001810 The F-box domain was first described as a sequence motif found in cyclin-F that interacts with the protein SKP1 [, ]. This relatively conserved structural motif is present in numerous proteins and serves as a link between a target protein and a ubiquitin-conjugating enzyme. The SCF complex (e.g., Skp1-Cullin-F-box) plays a similar role as an E3 ligase in the ubiquitin protein degradation pathway [, ]. Different F-box proteins as a part of SCF complex recruit particular substrates for ubiquitination through specific protein-protein interaction domains. Many mammalian F-box domains contain leucine-rich or WD-40 repeats (IPR001680 from INTERPRO). However, several F-box proteins either have other previously described domains such as Sec7 domain found in FBS protein or do not contain defined protein-protein interaction domains or motifs.; GO: 0005515 protein binding; PDB: 2E32_A 2E31_A 3V7D_B 1NEX_B 3MKS_D 3L2O_B.
Probab=37.92 E-value=8.4 Score=18.53 Aligned_cols=19 Identities=21% Similarity=0.420 Sum_probs=13.1
Q ss_pred ccCCCCHHHHHHHHHHHHh
Q 040934 49 TFPEISTTILEKICQYFYW 67 (72)
Q Consensus 49 pl~~v~~~~L~kVieyc~~ 67 (72)
|+.+.+.+++..|++|+..
T Consensus 2 ~~~~LP~~il~~Il~~l~~ 20 (48)
T PF00646_consen 2 PLSDLPDEILQEILSYLDP 20 (48)
T ss_dssp HHHHS-HHHHHHHHHTS-H
T ss_pred CHHHCCHHHHHHHHHHCcH
Confidence 3456778899999988764
No 38
>CHL00135 rps10 ribosomal protein S10; Validated
Probab=37.69 E-value=86 Score=18.34 Aligned_cols=38 Identities=18% Similarity=0.308 Sum_probs=19.3
Q ss_pred eEEEEeCCCcEEEeeHHHHHHhHHHHHHhcCCCCCCCCCCcccccCC
Q 040934 6 TVKLISAEGFEFVISKEAAMVSQTIRNMLTSPGGFAETEHGEVTFPE 52 (72)
Q Consensus 6 ~i~L~S~Dg~~f~v~~~~a~~S~~i~~~l~~~~~~~e~~~~~Ipl~~ 52 (72)
.|+|.|-|- ..++..+ ..|.+.....+. .-.++||||.
T Consensus 10 rI~LkS~d~--~~L~~~~----~~I~~~~k~~~~---~~~GpipLPt 47 (101)
T CHL00135 10 RIKLKSFNH--ELLNSSC----KKIIDTASRTNA---TAVGPIPLPT 47 (101)
T ss_pred EEEEEECCH--HHHHHHH----HHHHHHHHHcCC---eEeCCcCCCc
Confidence 588888884 2223333 333333332222 1357888883
No 39
>PF05321 HHA: Haemolysin expression modulating protein; InterPro: IPR007985 This family consists of haemolysin expression modulating protein (Hha) from Escherichia coli and its enterobacterial homologues, such as YmoA from Yersinia enterocolitica, and RmoA encoded on the R100 plasmid. These proteins act as modulators of bacterial gene expression. Members of the Hha/YmoA/RmoA family act in conjunction with members of the H-NS family, participating in the thermoregulation of different virulence factors and in plasmid transfer []. Hha, along with the chromatin-associated protein H-NS, is involved in the regulation of expression of the toxin alpha-haemolysin in response to osmolarity and temperature []. YmoA modulates the expression of various virulence factors, such as Yop proteins and YadA adhesin, in response to temperature. RmoA is a plasmid R100 modulator involved in plasmid transfer []. The HHA family of proteins display striking similarity to the oligomerization domain of the H-NS proteins.; PDB: 1JW2_A 2K5S_A 2JQT_A.
Probab=37.67 E-value=39 Score=18.01 Aligned_cols=15 Identities=27% Similarity=0.266 Sum_probs=11.9
Q ss_pred CHHHHHHHHHHHHhh
Q 040934 54 STTILEKICQYFYWS 68 (72)
Q Consensus 54 ~~~~L~kVieyc~~h 68 (72)
+.++|+||++...+.
T Consensus 8 s~dtLEkv~e~~~~~ 22 (57)
T PF05321_consen 8 SLDTLEKVIEHNRYK 22 (57)
T ss_dssp -HHHHHHHHHHHHHH
T ss_pred CHhhHHHHHHHhhCc
Confidence 457999999988775
No 40
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=36.94 E-value=36 Score=18.30 Aligned_cols=18 Identities=22% Similarity=0.408 Sum_probs=14.2
Q ss_pred ceEEEEeCCCcEEEeeHH
Q 040934 5 DTVKLISAEGFEFVISKE 22 (72)
Q Consensus 5 ~~i~L~S~Dg~~f~v~~~ 22 (72)
+-+++.+.||++|.-=..
T Consensus 5 KA~Kv~~RDGE~~lrCPR 22 (65)
T COG4049 5 KAIKVRDRDGEEFLRCPR 22 (65)
T ss_pred eeeEeeccCCceeeeCCc
Confidence 568999999999975433
No 41
>PF07818 HCNGP: HCNGP-like protein; InterPro: IPR012479 This family comprises sequences bearing significant similarity to the mouse transcriptional regulator protein HCNGP (Q02614 from SWISSPROT). This protein is localised to the nucleus and is thought to be involved in the regulation of beta-2-microglobulin genes.
Probab=36.01 E-value=30 Score=20.11 Aligned_cols=14 Identities=36% Similarity=0.629 Sum_probs=12.0
Q ss_pred CCHHHHHHHHHHHH
Q 040934 53 ISTTILEKICQYFY 66 (72)
Q Consensus 53 v~~~~L~kVieyc~ 66 (72)
=|..+|+|+++||.
T Consensus 41 rNP~i~ekLi~~~~ 54 (96)
T PF07818_consen 41 RNPSILEKLIEFFG 54 (96)
T ss_pred CChHHHHHHHHHcC
Confidence 37889999999985
No 42
>TIGR01689 EcbF-BcbF capsule biosynthesis phosphatase. Due to the likelihood that the substrates of these enzymes are different depending on the nature of the particular polysaccharides associated with each species, this model has been classified as a subfamily despite the close homology.
Probab=35.90 E-value=32 Score=20.86 Aligned_cols=18 Identities=17% Similarity=0.115 Sum_probs=15.6
Q ss_pred CCCHHHHHHHHHHHHhhc
Q 040934 52 EISTTILEKICQYFYWSL 69 (72)
Q Consensus 52 ~v~~~~L~kVieyc~~h~ 69 (72)
.|+..++..+.+||..|.
T Consensus 60 ~i~~~~~~~t~~wL~k~~ 77 (126)
T TIGR01689 60 KINIHTLPIIILWLNQHN 77 (126)
T ss_pred ccchhhHHHHHHHHHHcC
Confidence 389999999999998763
No 43
>PF04700 Baculo_gp41: Structural glycoprotein p40/gp41 conserved region; InterPro: IPR006790 This is a family of viral structural glycoproteins [] from the baculoviridae.; GO: 0005198 structural molecule activity, 0019012 virion
Probab=35.70 E-value=47 Score=21.79 Aligned_cols=34 Identities=9% Similarity=0.315 Sum_probs=21.6
Q ss_pred eeHHHHHHhHHHHHHhcCCCCCCCCCCcccccCCCCHHH
Q 040934 19 ISKEAAMVSQTIRNMLTSPGGFAETEHGEVTFPEISTTI 57 (72)
Q Consensus 19 v~~~~a~~S~~i~~~l~~~~~~~e~~~~~Ipl~~v~~~~ 57 (72)
+..++...|..++-++.+.-. ...||||| ++.++
T Consensus 55 l~eAA~hLs~~vkYQiA~AVT----~n~PiPlp-~~~~~ 88 (186)
T PF04700_consen 55 LNEAARHLSDVVKYQIAEAVT----QNKPIPLP-FNQQL 88 (186)
T ss_pred HHHHHHHHHHHHHHHHHHHHH----cCCCcCcc-hhhHH
Confidence 445666778888887775422 46678886 44443
No 44
>PRK13602 putative ribosomal protein L7Ae-like; Provisional
Probab=33.34 E-value=56 Score=18.17 Aligned_cols=19 Identities=11% Similarity=-0.038 Sum_probs=16.5
Q ss_pred CCCCHHHHHHHHHHHHhhc
Q 040934 51 PEISTTILEKICQYFYWSL 69 (72)
Q Consensus 51 ~~v~~~~L~kVieyc~~h~ 69 (72)
.+.+..+.+++..+|+++.
T Consensus 35 ~D~~~~~~~~i~~~c~~~~ 53 (82)
T PRK13602 35 EDADPRLTEKVEALANEKG 53 (82)
T ss_pred CCCCHHHHHHHHHHHHHcC
Confidence 3799999999999999874
No 45
>KOG3321 consensus Mitochondrial ribosomal protein S10 [Translation, ribosomal structure and biogenesis]
Probab=33.24 E-value=30 Score=22.42 Aligned_cols=24 Identities=13% Similarity=0.295 Sum_probs=20.8
Q ss_pred cccccCCCCHHHHHHHHHHHHhhc
Q 040934 46 GEVTFPEISTTILEKICQYFYWSL 69 (72)
Q Consensus 46 ~~Ipl~~v~~~~L~kVieyc~~h~ 69 (72)
..|.+-++++.+|..-++|.+.+-
T Consensus 115 R~i~l~~~tgsTl~tfleYI~rn~ 138 (175)
T KOG3321|consen 115 RLIELYSVTGSTLDTFLEYIQRNL 138 (175)
T ss_pred HHHHHhhcCchHHHHHHHHHHhhC
Confidence 468888999999999999998763
No 46
>PF06411 HdeA: HdeA/HdeB family; InterPro: IPR010486 HNS (histone-like nucleoid structuring)-dependent expression A (HdeA) protein is a stress response protein found in highly acid resistant bacteria such as Shigella flexneri and Escherichia coli, but which is lacking in mildly acid tolerant bacteria such as Salmonella []. HdeA is one of the most abundant proteins found in the periplasmic space of E. coli, where it is one of a network of proteins that confer an acid resistance phenotype essential for the pathogenesis of enteric bacteria []. HdeA is thought to act as a chaperone, functioning to prevent the aggregation of periplasmic proteins denatured under acidic conditions. The HNS protein, a chromatin-associated protein that influences the gene expression of several environmentally-induced target genes, represses the expression of HdeA. HdeB, which is encoded within the same operon, may form heterodimers with HdeA. HdeA is a single domain protein with an overall fold that is similar to the fold of the N-terminal subdomain of the GluRS anticodon-binding domain. ; PDB: 1BG8_C 1DJ8_C 2XUV_C.
Probab=32.80 E-value=30 Score=19.61 Aligned_cols=25 Identities=24% Similarity=0.259 Sum_probs=17.0
Q ss_pred CcccccCCCCHHHHHHHHHHHHhhcc
Q 040934 45 HGEVTFPEISTTILEKICQYFYWSLQ 70 (72)
Q Consensus 45 ~~~Ipl~~v~~~~L~kVieyc~~h~~ 70 (72)
+..+.+.++... -.+|++||..|.+
T Consensus 64 ~d~vD~~~~~~~-tp~v~~~Ckk~P~ 88 (94)
T PF06411_consen 64 GDYVDFDGIETV-TPKVVEYCKKNPK 88 (94)
T ss_dssp GCBB-HHHHHHH-HHHHHHHHHCTTT
T ss_pred CCeeeHHHHHHh-hHHHHHHHHHCcc
Confidence 345566555555 7899999998754
No 47
>PRK11675 LexA regulated protein; Provisional
Probab=32.47 E-value=47 Score=19.27 Aligned_cols=22 Identities=5% Similarity=0.138 Sum_probs=18.6
Q ss_pred ccccCCCCHHHHHHHHHHHHhhc
Q 040934 47 EVTFPEISTTILEKICQYFYWSL 69 (72)
Q Consensus 47 ~Ipl~~v~~~~L~kVieyc~~h~ 69 (72)
.|.| .|+.+.++++-+||+.|.
T Consensus 52 RveV-Kldedl~ekL~eyAe~~n 73 (90)
T PRK11675 52 RVEL-KLNADLVDALNELAEARN 73 (90)
T ss_pred eEEE-EECHHHHHHHHHHHHHcC
Confidence 4556 699999999999999874
No 48
>PRK12271 rps10p 30S ribosomal protein S10P; Reviewed
Probab=32.32 E-value=93 Score=18.22 Aligned_cols=37 Identities=16% Similarity=0.323 Sum_probs=18.9
Q ss_pred eEEEEeCCCcEEEeeHHHHHHhHHHHHHhcCCCCCCCCCCcccccC
Q 040934 6 TVKLISAEGFEFVISKEAAMVSQTIRNMLTSPGGFAETEHGEVTFP 51 (72)
Q Consensus 6 ~i~L~S~Dg~~f~v~~~~a~~S~~i~~~l~~~~~~~e~~~~~Ipl~ 51 (72)
.|+|.|-|-. .++.. +.-|.+.....|. .-.+|||||
T Consensus 5 rI~L~S~d~~--~Ld~~----~~~I~~~~k~~g~---~~~GPipLP 41 (102)
T PRK12271 5 RIRLSSTNPE--DLDEV----CDQIKEIAEKTGV---DMSGPIPLP 41 (102)
T ss_pred EEEEEeCCHH--HHHHH----HHHHHHHHHHcCC---eEECCCcCC
Confidence 5778887721 12222 3444444443332 135788888
No 49
>PF00010 HLH: Helix-loop-helix DNA-binding domain only nuclear translocator protein (Arnt).; InterPro: IPR011598 The helix-loop-helix (HLH) DNA-binding domain consists of a closed bundle of four helices in a left-handed twist with two crossover connections. The HLH domain directs dimerisation, and is juxtaposed to basic regions to create a DNA interaction interface surface that recognises specific DNA sequences. Basic region/HLH (bHLH) proteins regulate diverse biological pathways []. bHLH proteins include MyoD [], SREBPs (sterol regulatory element binding proteins) [], and yeast Pho4 (phosphatase system) []. In certain proteins the bHLH domain contains a leucine-zipper motif. The bHLH/leucine zipper (bHLHZip) domain specifies dimerisation within a network of proteins and determines sequence-specific DNA binding []. bHLHZip domains occur in the transcription factors Myc, Mad, Max and Usf [, ]. This entry is bHLHZip, which covers the bHLH domain and the leucine zipper motif, when present.; PDB: 1NLW_A 1NKP_D 1A93_A 2A93_A 1AM9_C 3U5V_A 1A0A_B 2QL2_C 1UKL_C 1AN4_B ....
Probab=32.08 E-value=54 Score=16.33 Aligned_cols=14 Identities=29% Similarity=0.432 Sum_probs=11.8
Q ss_pred CHHHHHHHHHHHHh
Q 040934 54 STTILEKICQYFYW 67 (72)
Q Consensus 54 ~~~~L~kVieyc~~ 67 (72)
-..||...++|+.+
T Consensus 40 K~~iL~~ai~yI~~ 53 (55)
T PF00010_consen 40 KASILQKAIDYIKQ 53 (55)
T ss_dssp HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHH
Confidence 46899999999875
No 50
>PF08909 DUF1854: Domain of unknown function (DUF1854); InterPro: IPR015005 These protein is functionally uncharacterised. It is found at the C terminus of a number of ATP transporter proteins suggesting it may be involved in ligand binding.
Probab=32.05 E-value=70 Score=19.82 Aligned_cols=33 Identities=15% Similarity=0.381 Sum_probs=22.7
Q ss_pred CCceEEEEeCCCcEEEeeHHHHHHhHHHHHHhc
Q 040934 3 KEDTVKLISAEGFEFVISKEAAMVSQTIRNMLT 35 (72)
Q Consensus 3 ~~~~i~L~S~Dg~~f~v~~~~a~~S~~i~~~l~ 35 (72)
+...|.|++.||++.-.=........-.|.+++
T Consensus 17 P~~~isl~~~~G~El~~I~~l~~L~~~~r~lle 49 (133)
T PF08909_consen 17 PDEGISLVDEDGHELAWIDDLDDLPEESRALLE 49 (133)
T ss_pred CCccEEEEcCCCcEEEEEcChhHCCHHHHHHHH
Confidence 457899999999996664455555555555554
No 51
>KOG4682 consensus Uncharacterized conserved protein, contains BTB/POZ domain [General function prediction only]
Probab=32.03 E-value=65 Score=23.96 Aligned_cols=55 Identities=24% Similarity=0.423 Sum_probs=41.7
Q ss_pred EeCCCcEEEeeHHHHHHhHHHHHHhcCCCCCCCCCCc----ccccCCCCHHHHHHHHHHHH
Q 040934 10 ISAEGFEFVISKEAAMVSQTIRNMLTSPGGFAETEHG----EVTFPEISTTILEKICQYFY 66 (72)
Q Consensus 10 ~S~Dg~~f~v~~~~a~~S~~i~~~l~~~~~~~e~~~~----~Ipl~~v~~~~L~kVieyc~ 66 (72)
..+=|.+.++..--+.||+-+..|+++. +.|+..+ .||=|+|+.+.|.-++-=++
T Consensus 74 l~alg~eWrlHk~yL~QS~yf~smf~Gt--w~es~~~iIqleI~Dp~Id~~al~~a~gsLY 132 (488)
T KOG4682|consen 74 LEALGFEWRLHKPYLFQSEYFKSMFSGT--WKESSMNIIQLEIPDPNIDVVALQVAFGSLY 132 (488)
T ss_pred hhhccceeeeeeeeeeccHHHHHHhccc--cChhhCceEEEEcCCCcccHHHHHHHHhhhh
Confidence 3455889999999999999999999954 4454433 57778999999987765443
No 52
>COG0499 SAM1 S-adenosylhomocysteine hydrolase [Coenzyme metabolism]
Probab=31.96 E-value=91 Score=22.90 Aligned_cols=59 Identities=19% Similarity=0.219 Sum_probs=41.7
Q ss_pred CceEEEEeCCCcE-EEeeHHHHHHhHHHHHHhcCCCCCCCCCCcccccC-CCCHHHHHHHHHHH
Q 040934 4 EDTVKLISAEGFE-FVISKEAAMVSQTIRNMLTSPGGFAETEHGEVTFP-EISTTILEKICQYF 65 (72)
Q Consensus 4 ~~~i~L~S~Dg~~-f~v~~~~a~~S~~i~~~l~~~~~~~e~~~~~Ipl~-~v~~~~L~kVieyc 65 (72)
.+.+.|-..+|.- |.+|.+.+.|.-....++.+.+.+ .....+|| +++..+.+.-++.+
T Consensus 338 GRLvNLa~a~GHPs~VMd~SFanQaLa~~~L~~n~~~~---~~~Vy~lP~~lD~~VArl~L~~~ 398 (420)
T COG0499 338 GRLVNLAAATGHPSEVMDMSFANQALAQIYLVKNHGKL---EPGVYRLPKELDEEVARLKLEAM 398 (420)
T ss_pred ceeeeeccCCCCcHHHhhhhHHHHHHHHHHHHhccccc---CCceeeCcHHHHHHHHHHHHHHh
Confidence 4556677777765 344777788877778888875443 36778898 58888888777654
No 53
>cd01803 Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40e and Ubq/RPS27a fusions as well as homopolymeric multiubiquitin protein chains)
Probab=31.38 E-value=50 Score=17.16 Aligned_cols=32 Identities=6% Similarity=0.152 Sum_probs=22.7
Q ss_pred eEEEEeCCCcEEEeeHHHHHHhHHHHHHhcCC
Q 040934 6 TVKLISAEGFEFVISKEAAMVSQTIRNMLTSP 37 (72)
Q Consensus 6 ~i~L~S~Dg~~f~v~~~~a~~S~~i~~~l~~~ 37 (72)
.|.+.+.+|+.+.++-..-..-..|+..+...
T Consensus 2 ~i~v~~~~g~~~~~~v~~~~tV~~lK~~i~~~ 33 (76)
T cd01803 2 QIFVKTLTGKTITLEVEPSDTIENVKAKIQDK 33 (76)
T ss_pred EEEEEcCCCCEEEEEECCcCcHHHHHHHHHHH
Confidence 38899999999888765544456666666544
No 54
>PF11165 DUF2949: Protein of unknown function (DUF2949); InterPro: IPR021336 This family of proteins with unknown function appear to be restricted to Cyanobacteria.
Probab=31.20 E-value=51 Score=17.55 Aligned_cols=15 Identities=20% Similarity=0.319 Sum_probs=13.3
Q ss_pred CCHHHHHHHHHHHHh
Q 040934 53 ISTTILEKICQYFYW 67 (72)
Q Consensus 53 v~~~~L~kVieyc~~ 67 (72)
|+=.-|.+|.+|+++
T Consensus 44 ItL~QL~~i~DWl~~ 58 (58)
T PF11165_consen 44 ITLEQLDQIFDWLEN 58 (58)
T ss_pred ccHHHHHHHHHHHhC
Confidence 888999999999874
No 55
>PRK13601 putative L7Ae-like ribosomal protein; Provisional
Probab=31.17 E-value=63 Score=18.14 Aligned_cols=19 Identities=11% Similarity=0.010 Sum_probs=16.6
Q ss_pred CCCCHHHHHHHHHHHHhhc
Q 040934 51 PEISTTILEKICQYFYWSL 69 (72)
Q Consensus 51 ~~v~~~~L~kVieyc~~h~ 69 (72)
.+.+..+.+++..+|+++.
T Consensus 32 ~Da~~~~~k~i~~~c~~~~ 50 (82)
T PRK13601 32 KDAEEHVTKKIKELCEEKS 50 (82)
T ss_pred CCCCHHHHHHHHHHHHhCC
Confidence 3789999999999999864
No 56
>PF13821 DUF4187: Domain of unknown function (DUF4187)
Probab=31.10 E-value=53 Score=17.11 Aligned_cols=19 Identities=21% Similarity=0.316 Sum_probs=15.4
Q ss_pred CCHHHHHHHHHHHHhhccC
Q 040934 53 ISTTILEKICQYFYWSLQY 71 (72)
Q Consensus 53 v~~~~L~kVieyc~~h~~y 71 (72)
....-|.+++.|+...+.|
T Consensus 11 ~~~e~L~~l~~YLR~~~~Y 29 (55)
T PF13821_consen 11 SPEERLDKLLSYLREEHNY 29 (55)
T ss_pred CHHHHHHHHHHHHHhhCce
Confidence 4567899999999988766
No 57
>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=31.05 E-value=66 Score=16.68 Aligned_cols=15 Identities=33% Similarity=0.450 Sum_probs=12.7
Q ss_pred eEEEEeCCCcEEEee
Q 040934 6 TVKLISAEGFEFVIS 20 (72)
Q Consensus 6 ~i~L~S~Dg~~f~v~ 20 (72)
.|+|++.+|+.+.+.
T Consensus 2 ~i~v~~~~~~~~~~~ 16 (72)
T PF11976_consen 2 TIKVRSQDGKEIKFK 16 (72)
T ss_dssp EEEEEETTSEEEEEE
T ss_pred EEEEEeCCCCEEEEE
Confidence 489999999988875
No 58
>PF03989 DNA_gyraseA_C: DNA gyrase C-terminal domain, beta-propeller; InterPro: IPR006691 DNA topoisomerases regulate the number of topological links between two DNA strands (i.e. change the number of superhelical turns) by catalysing transient single- or double-strand breaks, crossing the strands through one another, then resealing the breaks []. These enzymes have several functions: to remove DNA supercoils during transcription and DNA replication; for strand breakage during recombination; for chromosome condensation; and to disentangle intertwined DNA during mitosis [, ]. DNA topoisomerases are divided into two classes: type I enzymes (5.99.1.2 from EC; topoisomerases I, III and V) break single-strand DNA, and type II enzymes (5.99.1.3 from EC; topoisomerases II, IV and VI) break double-strand DNA []. Type II topoisomerases are ATP-dependent enzymes, and can be subdivided according to their structure and reaction mechanisms: type IIA (topoisomerase II or gyrase, and topoisomerase IV) and type IIB (topoisomerase VI). These enzymes are responsible for relaxing supercoiled DNA as well as for introducing both negative and positive supercoils []. This entry represents the beta-pinwheel repeat found at the C-terminal end of subunit A of topoisomerase IV (ParC) and subunit A of DNA gyrase (GyrA). DNA gyrase is the topoisomerase II found primarily in bacteria and archaea that consists of two polypeptide subunits, gyrA and gyrB, which form a heterotetramer: (BA)2. This is distinct from the topoisomerase II found in most eukaryotes, which consists of a single polypeptide, with the N- and C-terminal regions corresponding to gyrB and gyrA, respectively, and which is not represented in this entry. The ability of DNA gyrase to introduce negative supercoils into DNA is mediated in part by the C-terminal domain of subunit A, which forms a beta-pinwheel fold that is similar to a beta-propeller but with a different blade topology, and which forms a superhelical spiral domain [, ]. This beta-pinwheel is capable of bending DNA by over 180 degrees over a 40 bp region, possibly by wrapping the DNA around the GyrA C-terminal beta-pinwheel domain. In topoisomerase IV, although the C-terminal domain forms a similar superhelical spiral to that of DNA gyrase A, it assembles as a broken form of a beta-pinwheel as distinct from that of gyrA, due to the absence of a DNA gyrase-specific GyrA box motif []. This difference may account for parC being less efficient than gyrA in mediating DNA-bending, leading to their divergence in terms of activity, where topoisomerase IV acts to relax positive supercoils, and DNA gyrase acts to introduce negative supercoils []. More information about this protein can be found at Protein of the Month: DNA Topoisomerase [].; GO: 0003677 DNA binding, 0003916 DNA topoisomerase activity, 0005524 ATP binding, 0006265 DNA topological change, 0005694 chromosome; PDB: 3L6V_A 3UC1_A 1ZI0_B 1SUU_A 1ZVU_A 1ZVT_B 3NO0_B.
Probab=30.36 E-value=72 Score=15.26 Aligned_cols=18 Identities=22% Similarity=0.361 Sum_probs=15.0
Q ss_pred eEEEEeCCCcEEEeeHHH
Q 040934 6 TVKLISAEGFEFVISKEA 23 (72)
Q Consensus 6 ~i~L~S~Dg~~f~v~~~~ 23 (72)
.|.+.|+.|..+.++..-
T Consensus 2 ~il~~T~~G~~~r~~~~~ 19 (48)
T PF03989_consen 2 EILLITSNGYVKRIPLSE 19 (48)
T ss_dssp EEEEEETTSEEEEEEGGG
T ss_pred EEEEEeCCCeEEEeeecc
Confidence 578999999999998743
No 59
>PF15505 DUF4648: Domain of unknown function (DUF4648)
Probab=30.36 E-value=90 Score=20.04 Aligned_cols=44 Identities=11% Similarity=0.201 Sum_probs=28.5
Q ss_pred HHhHHHHHHhcCCCCCCCCCCcccccCCC----CHHHHHHHHHHHHhhcc
Q 040934 25 MVSQTIRNMLTSPGGFAETEHGEVTFPEI----STTILEKICQYFYWSLQ 70 (72)
Q Consensus 25 ~~S~~i~~~l~~~~~~~e~~~~~Ipl~~v----~~~~L~kVieyc~~h~~ 70 (72)
+-|..++.|-++...+.-+.+-.+||..= ...||+|. |+.|+++
T Consensus 109 r~~r~lkKm~Ee~p~lpqGaeASlPLTG~~scG~P~iLRKM--W~rHKKK 156 (170)
T PF15505_consen 109 RGSRHLKKMTEEYPALPQGAEASLPLTGSASCGVPSILRKM--WMRHKKK 156 (170)
T ss_pred cchhHHhhchhhccCCCCcccccccccCCcccCccHHHHHH--HHhhhhh
Confidence 44677888877655444344555777642 24788875 8888875
No 60
>PF08183 SpoV: Stage V sporulation protein family; InterPro: IPR012609 This family consists of the stage V sporulation (SpoV) proteins of Bacillus subtilis which includes SpoVM. SpoVM is an small, 26 residue-long protein that is produced in the mother cell chamber of the sporangium during the process of sporulation in B. subtilis. SpoVM forms an amphipathic alpha-helix and is recruited to the polar septum shortly after the sporangium undergoes asymmetric division. The function of SpoVM depends on proper subcellular localisation [].
Probab=29.50 E-value=32 Score=15.45 Aligned_cols=20 Identities=10% Similarity=0.288 Sum_probs=14.4
Q ss_pred ccccCCCCHHHHHHHHHHHH
Q 040934 47 EVTFPEISTTILEKICQYFY 66 (72)
Q Consensus 47 ~Ipl~~v~~~~L~kVieyc~ 66 (72)
+|.||+.-+.+.++++.=++
T Consensus 5 tIKLpkf~Gg~v~~~L~sf~ 24 (26)
T PF08183_consen 5 TIKLPKFLGGVVRALLFSFK 24 (26)
T ss_pred eeechHHHhHHHHHHHHHHh
Confidence 47788888888887775444
No 61
>PF00081 Sod_Fe_N: Iron/manganese superoxide dismutases, alpha-hairpin domain Note: SCOP classifies the two domains separately.; InterPro: IPR019831 Superoxide dismutases (SODs) (1.15.1.1 from EC) catalyse the conversion of superoxide radicals to molecular oxygen. Their function is to destroy the radicals that are normally produced within cells and are toxic to biological systems. Three evolutionarily distinct families of SODs are known, of which the Mn/Fe-binding family is one [, , ]. This family includes both single metal-binding SODs and cambialistic SOD, which can bind either Mn or Fe. Fe/MnSODs are ubiquitous enzymes that are responsible for the majority of SOD activity in prokaryotes, fungi, blue-green algae and mitochondria. Fe/MnSODs are found as homodimers or homotetramers. The structure of Fe/MnSODs can be divided into two domains, an alpha N-terminal domain and an alpha/beta C-terminal domain, connected by a loop. The structure of the N-terminal domain consists of a two helices in an antiparallel hairpin, with a left-handed twist []. The structure of the C-terminal domain is of the alpha/beta type, and consists of a three-stranded antiparallel beta-sheet in the order 213, along with four helices in the arrangement alpha/beta(2)/alpha/beta/alpha(2) []. This entry represents the N-terminal domain of Manganese/iron superoxide dismutase. ; GO: 0004784 superoxide dismutase activity, 0046872 metal ion binding, 0006801 superoxide metabolic process, 0055114 oxidation-reduction process; PDB: 3TQJ_A 1MY6_A 1BT8_A 1BSM_B 1AR5_A 1BS3_A 1AR4_A 1AVM_A 3DC6_C 1ZSP_B ....
Probab=28.91 E-value=35 Score=18.97 Aligned_cols=19 Identities=26% Similarity=0.209 Sum_probs=13.9
Q ss_pred CCCCHHHHHHHHHHHHhhccC
Q 040934 51 PEISTTILEKICQYFYWSLQY 71 (72)
Q Consensus 51 ~~v~~~~L~kVieyc~~h~~y 71 (72)
|-|+..+|+ +.|-.||+.|
T Consensus 16 P~is~~t~~--~H~~kHh~~Y 34 (82)
T PF00081_consen 16 PYISEETME--LHHDKHHQGY 34 (82)
T ss_dssp TTS-HHHHH--HHHHTHHHHH
T ss_pred hhhhhHHHH--HHHHHHHHHH
Confidence 349999998 7887777765
No 62
>PF13727 CoA_binding_3: CoA-binding domain; PDB: 3NKL_B.
Probab=28.87 E-value=63 Score=19.14 Aligned_cols=23 Identities=9% Similarity=0.036 Sum_probs=17.2
Q ss_pred ccccCCCCHHHHHHHHHHHHhhc
Q 040934 47 EVTFPEISTTILEKICQYFYWSL 69 (72)
Q Consensus 47 ~Ipl~~v~~~~L~kVieyc~~h~ 69 (72)
-|-+|.-+...++++++.|+.+.
T Consensus 146 ~ial~~~~~~~i~~ii~~~~~~~ 168 (175)
T PF13727_consen 146 IIALPWSEEEQIKRIIEELENHG 168 (175)
T ss_dssp EE--TTS-HHHHHHHHHHHHTTT
T ss_pred EEEcCccCHHHHHHHHHHHHhCC
Confidence 46788889999999999999763
No 63
>PF13013 F-box-like_2: F-box-like domain
Probab=28.69 E-value=35 Score=20.33 Aligned_cols=21 Identities=19% Similarity=0.278 Sum_probs=17.2
Q ss_pred ccccCCCCHHHHHHHHHHHHh
Q 040934 47 EVTFPEISTTILEKICQYFYW 67 (72)
Q Consensus 47 ~Ipl~~v~~~~L~kVieyc~~ 67 (72)
+..+.+.+.++|..|.+||..
T Consensus 19 ~ltl~DLP~ELl~~I~~~C~~ 39 (109)
T PF13013_consen 19 SLTLLDLPWELLQLIFDYCND 39 (109)
T ss_pred ccchhhChHHHHHHHHhhcCc
Confidence 345667899999999999964
No 64
>PF02845 CUE: CUE domain; InterPro: IPR003892 This domain may be involved in binding ubiquitin-conjugating enzymes (UBCs). CUE domains also occur in two proteins of the IL-1 signal transduction pathway, tollip and TAB2.; GO: 0005515 protein binding; PDB: 2EKF_A 1OTR_A 1P3Q_Q 1MN3_A 1WGL_A 2EJS_A 2DAE_A 2DHY_A 2DI0_A.
Probab=28.47 E-value=66 Score=15.30 Aligned_cols=16 Identities=25% Similarity=0.592 Sum_probs=11.8
Q ss_pred cCCCCHHHHHHHHHHH
Q 040934 50 FPEISTTILEKICQYF 65 (72)
Q Consensus 50 l~~v~~~~L~kVieyc 65 (72)
||+++..+++.+++-+
T Consensus 12 FP~~~~~~I~~~L~~~ 27 (42)
T PF02845_consen 12 FPDLDREVIEAVLQAN 27 (42)
T ss_dssp SSSS-HHHHHHHHHHT
T ss_pred CCCCCHHHHHHHHHHc
Confidence 7889999988888543
No 65
>PF12836 HHH_3: Helix-hairpin-helix motif; PDB: 2EDU_A 2OCE_A 3BZK_A 3BZC_A 2DUY_A.
Probab=28.44 E-value=88 Score=16.30 Aligned_cols=25 Identities=16% Similarity=0.174 Sum_probs=17.0
Q ss_pred ccccCCCCHHHHHHHHHHHHhhccC
Q 040934 47 EVTFPEISTTILEKICQYFYWSLQY 71 (72)
Q Consensus 47 ~Ipl~~v~~~~L~kVieyc~~h~~y 71 (72)
-..+|.++...-+.|++|=+.+..|
T Consensus 16 L~~lpgi~~~~A~~Iv~~R~~~G~f 40 (65)
T PF12836_consen 16 LQALPGIGPKQAKAIVEYREKNGPF 40 (65)
T ss_dssp HHTSTT--HHHHHHHHHHHHHH-S-
T ss_pred HHHcCCCCHHHHHHHHHHHHhCcCC
Confidence 3568899999999999997666544
No 66
>PF11197 DUF2835: Protein of unknown function (DUF2835); InterPro: IPR021363 This is a bacterial family of uncharacterised proteins. One member of this family (A4VM42 from SWISSPROT) is annotated as the A subunit of Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV).
Probab=28.38 E-value=82 Score=17.20 Aligned_cols=21 Identities=14% Similarity=0.131 Sum_probs=17.8
Q ss_pred CceEEEEeCCCcEEEeeHHHH
Q 040934 4 EDTVKLISAEGFEFVISKEAA 24 (72)
Q Consensus 4 ~~~i~L~S~Dg~~f~v~~~~a 24 (72)
.+.|...|.||....++....
T Consensus 20 a~~V~v~s~~Gr~v~~Pa~~l 40 (68)
T PF11197_consen 20 ASKVVVRSDDGRRVQFPARHL 40 (68)
T ss_pred ccEEEEEecCCcEEEEeHHHC
Confidence 357999999999999998764
No 67
>PRK01474 atpC F0F1 ATP synthase subunit epsilon; Validated
Probab=28.36 E-value=64 Score=18.97 Aligned_cols=20 Identities=25% Similarity=0.303 Sum_probs=13.4
Q ss_pred CCCCceEEEEeCCCcEEEee
Q 040934 1 MKKEDTVKLISAEGFEFVIS 20 (72)
Q Consensus 1 m~~~~~i~L~S~Dg~~f~v~ 20 (72)
|+..-.++++|.+|..|.-+
T Consensus 1 m~~~~~l~IvTP~~~~~~~~ 20 (112)
T PRK01474 1 MNETILVKIITPLSIAFEKQ 20 (112)
T ss_pred CCceEEEEEEcCCceEEeee
Confidence 66555677777777777543
No 68
>PF02736 Myosin_N: Myosin N-terminal SH3-like domain; InterPro: IPR004009 This domain has an SH3-like fold. It is found at the N terminus of many but not all myosins. The function of this domain is unknown.; GO: 0003774 motor activity, 0005524 ATP binding, 0016459 myosin complex; PDB: 2EC6_A 2W4H_M 1O1E_P 1O1D_D 1O18_A 1O1C_P 1O1B_D 1O1F_A 2W4A_M 2W4G_M ....
Probab=28.31 E-value=66 Score=15.51 Aligned_cols=18 Identities=28% Similarity=0.460 Sum_probs=14.1
Q ss_pred CceEEEEeCCCcEEEeeH
Q 040934 4 EDTVKLISAEGFEFVISK 21 (72)
Q Consensus 4 ~~~i~L~S~Dg~~f~v~~ 21 (72)
...++++..||++..|++
T Consensus 23 g~~vtV~~~~G~~~tv~~ 40 (42)
T PF02736_consen 23 GDKVTVKTEDGKEVTVKK 40 (42)
T ss_dssp SSEEEEEETTTEEEEEEG
T ss_pred CCEEEEEECCCCEEEeCC
Confidence 356888888999888765
No 69
>PF08661 Rep_fac-A_3: Replication factor A protein 3; InterPro: IPR013970 Replication factor A is involved in eukaryotic DNA replication, recombination and repair. ; PDB: 2PI2_H 1L1O_D 3KDF_A 2Z6K_D 1QUQ_D 2PQA_D.
Probab=28.30 E-value=93 Score=17.95 Aligned_cols=66 Identities=9% Similarity=0.154 Sum_probs=30.9
Q ss_pred CceEEEEeCCCcEEEeeHHHHHHhHHHHHHhcCCCCCCCCC-------CcccccC-CCCHHHHHHHHHHHHhhcc
Q 040934 4 EDTVKLISAEGFEFVISKEAAMVSQTIRNMLTSPGGFAETE-------HGEVTFP-EISTTILEKICQYFYWSLQ 70 (72)
Q Consensus 4 ~~~i~L~S~Dg~~f~v~~~~a~~S~~i~~~l~~~~~~~e~~-------~~~Ipl~-~v~~~~L~kVieyc~~h~~ 70 (72)
+..+++.|+||..+.|...--. ...+...++--|--.++. ...+++. +++-+...++++.+..+..
T Consensus 34 g~~~~l~~~d~~~V~v~l~~~~-~~~~~~~vEviG~V~~~~~~~~i~~~~~~~~g~~~D~~~y~~lv~l~~~~p~ 107 (109)
T PF08661_consen 34 GGSATLSTSDGGQVTVSLNPPS-DEELSKYVEVIGKVNDDGTVLSIRYFSFTDFGDDFDMDLYNELVQLTHKFPE 107 (109)
T ss_dssp SSEEEEE-TTS-EEEEEESS---SS---SEEEEEEEE-TTS-EEEEEEEE---SSS---HHHHHHHHHHHHHSGG
T ss_pred CCEEEEEcCCCCEEEEEeCCCC-CCCCCCEEEEEEEEcCCCCceEEEEEEeccCCCCcCHHHHHHHHHHHhhCCc
Confidence 5689999999998888643210 011122222111100101 1122444 6999999999999987654
No 70
>COG0051 RpsJ Ribosomal protein S10 [Translation, ribosomal structure and biogenesis]
Probab=28.22 E-value=1.4e+02 Score=17.78 Aligned_cols=38 Identities=18% Similarity=0.272 Sum_probs=19.5
Q ss_pred eEEEEeCCCcEEEeeHHHHHHhHHHHHHhcCCCCCCCCCCcccccCC
Q 040934 6 TVKLISAEGFEFVISKEAAMVSQTIRNMLTSPGGFAETEHGEVTFPE 52 (72)
Q Consensus 6 ~i~L~S~Dg~~f~v~~~~a~~S~~i~~~l~~~~~~~e~~~~~Ipl~~ 52 (72)
.|+|.|-|-. .+=.-+.-|.+.....|. .-.+|||||.
T Consensus 7 rI~L~s~d~~------~LD~~~~~Ive~akrtg~---~v~GPiPLPT 44 (104)
T COG0051 7 RIRLKSFDHR------LLDQVCREIVETAKRTGA---DVKGPIPLPT 44 (104)
T ss_pred EEEEecCCHH------HHHHHHHHHHHHHHHhCC---eeeCCccCCC
Confidence 5778887732 222223344443333333 2367899983
No 71
>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=27.88 E-value=47 Score=17.28 Aligned_cols=32 Identities=19% Similarity=0.218 Sum_probs=20.6
Q ss_pred eEEEEeCCCcEEEeeHHHHHHhHHHHHHhcCC
Q 040934 6 TVKLISAEGFEFVISKEAAMVSQTIRNMLTSP 37 (72)
Q Consensus 6 ~i~L~S~Dg~~f~v~~~~a~~S~~i~~~l~~~ 37 (72)
.|++++.+|+.+.+.-..-..-.-|+..+...
T Consensus 2 ~i~v~~~~g~~~~~~v~~~~tv~~lK~~i~~~ 33 (76)
T cd01806 2 LIKVKTLTGKEIEIDIEPTDKVERIKERVEEK 33 (76)
T ss_pred EEEEEeCCCCEEEEEECCCCCHHHHHHHHhHh
Confidence 48899999999887644333345555555543
No 72
>PF01736 Polyoma_agno: Polyomavirus agnoprotein; InterPro: IPR002643 This family consists of the DNA-binding protein or agnoprotein from various polyomaviruses. This protein is highly basic and can bind single stranded and double stranded DNA []. Mutations in the agnoprotein produce smaller viral plaques, hence its function is not essential for growth in tissue culture cells but something has slowed in the normal replication cycle []. There is also evidence suggesting that the agnogene and agnoprotein act as regulators of structural protein synthesis [].; GO: 0003677 DNA binding
Probab=27.70 E-value=44 Score=17.80 Aligned_cols=12 Identities=25% Similarity=0.246 Sum_probs=9.8
Q ss_pred HHHHHHHHHHHh
Q 040934 56 TILEKICQYFYW 67 (72)
Q Consensus 56 ~~L~kVieyc~~ 67 (72)
-+|+.+++||+-
T Consensus 31 FiLElLL~FC~G 42 (62)
T PF01736_consen 31 FILELLLEFCRG 42 (62)
T ss_pred HHHHHHHHHhcC
Confidence 478999999974
No 73
>PHA01623 hypothetical protein
Probab=27.48 E-value=75 Score=16.51 Aligned_cols=21 Identities=5% Similarity=0.025 Sum_probs=17.0
Q ss_pred cccCCCCHHHHHHHHHHHHhhc
Q 040934 48 VTFPEISTTILEKICQYFYWSL 69 (72)
Q Consensus 48 Ipl~~v~~~~L~kVieyc~~h~ 69 (72)
+-+ .++.+.++++-.||..+.
T Consensus 16 ~sV-rldeel~~~Ld~y~~~~g 36 (56)
T PHA01623 16 FGI-YMDKDLKTRLKVYCAKNN 36 (56)
T ss_pred EEE-EeCHHHHHHHHHHHHHcC
Confidence 444 588999999999998774
No 74
>TIGR01046 S10_Arc_S20_Euk ribosomal protein S10(archaeal)/S20(eukaryotic). its equivalents in eukaryotes.
Probab=27.40 E-value=1.3e+02 Score=17.47 Aligned_cols=37 Identities=24% Similarity=0.347 Sum_probs=17.9
Q ss_pred eEEEEeCCCcEEEeeHHHHHHhHHHHHHhcCCCCCCCCCCcccccC
Q 040934 6 TVKLISAEGFEFVISKEAAMVSQTIRNMLTSPGGFAETEHGEVTFP 51 (72)
Q Consensus 6 ~i~L~S~Dg~~f~v~~~~a~~S~~i~~~l~~~~~~~e~~~~~Ipl~ 51 (72)
.|+|.|-|-. .++.. +.-|.+.....+. .-.+|||||
T Consensus 4 rI~L~S~d~~--~Ld~~----~~~I~~~ak~~g~---~~~GPipLP 40 (99)
T TIGR01046 4 RIKLTSTNVR--SLEKV----CAQIKRIAEKTGV---RMSGPVPLP 40 (99)
T ss_pred EEEEEECCHH--HHHHH----HHHHHHHHHHcCC---EEECCccCC
Confidence 4777777721 12222 3333333333222 135788888
No 75
>PF08225 Antimicrobial19: Pseudin antimicrobial peptide; InterPro: IPR013156 Pseudins are a subfamily of the FSAP family (Frog Secreted Active Peptides) extracted from the skin of the paradoxical frog Pseudis paradoxa (Paradoxical frog). The pseudins belong to the class of cationic, amphipathic-helical antimicrobial peptides [].; GO: 0006952 defense response
Probab=27.39 E-value=51 Score=14.14 Aligned_cols=11 Identities=27% Similarity=0.277 Sum_probs=7.7
Q ss_pred HHHHHHHHHHH
Q 040934 56 TILEKICQYFY 66 (72)
Q Consensus 56 ~~L~kVieyc~ 66 (72)
.+|+||++=+.
T Consensus 3 ntlkkv~qglh 13 (23)
T PF08225_consen 3 NTLKKVFQGLH 13 (23)
T ss_pred hHHHHHHHHHH
Confidence 47888887553
No 76
>PF03614 Flag1_repress: Repressor of phase-1 flagellin; InterPro: IPR003223 Flagellin is the subunit which polymerises to form the filaments of bacterial flagella. The proteins in this family are transcriptional repressors of phase-1 flagellin genes.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent
Probab=27.37 E-value=64 Score=20.66 Aligned_cols=15 Identities=27% Similarity=0.532 Sum_probs=12.9
Q ss_pred eEEEEeCCCcEEEee
Q 040934 6 TVKLISAEGFEFVIS 20 (72)
Q Consensus 6 ~i~L~S~Dg~~f~v~ 20 (72)
.|+++|+||+.|..=
T Consensus 31 pVrvv~~ng~~f~my 45 (165)
T PF03614_consen 31 PVRVVSENGQVFCMY 45 (165)
T ss_pred ceEEEecCCcEEEEE
Confidence 589999999999863
No 77
>PF11094 UL11: Membrane-associated tegument protein; InterPro: IPR024351 The UL11 gene product of herpes simplex virus is a membrane-associated tegument protein that is incorporated into the HSV virion and functions in viral envelopment []. UL11 is acylated, which is crucial for lipid raft association [].
Probab=26.96 E-value=80 Score=15.54 Aligned_cols=17 Identities=18% Similarity=0.243 Sum_probs=13.7
Q ss_pred EEEEeCCCcEEEeeHHH
Q 040934 7 VKLISAEGFEFVISKEA 23 (72)
Q Consensus 7 i~L~S~Dg~~f~v~~~~ 23 (72)
=.|++++|+.+.++.+.
T Consensus 16 N~LvT~~Ge~vsL~a~~ 32 (39)
T PF11094_consen 16 NVLVTHSGETVSLDAEE 32 (39)
T ss_pred CEEEccCCeEEEeChhh
Confidence 36899999999888654
No 78
>TIGR01259 comE comEA protein. This model describes the ComEA protein in bacteria. The com E locus is obligatory for bacterial cell competence - the process of internalizing the exogenous added DNA. Lesions in the loci has been variously described for the appearance of competence-related pheonotypes and impairment of competence, suggesting their intimate functional role in bacterial transformation.
Probab=26.87 E-value=95 Score=18.45 Aligned_cols=24 Identities=17% Similarity=0.198 Sum_probs=19.4
Q ss_pred cccCCCCHHHHHHHHHHHHhhccC
Q 040934 48 VTFPEISTTILEKICQYFYWSLQY 71 (72)
Q Consensus 48 Ipl~~v~~~~L~kVieyc~~h~~y 71 (72)
..||.|....-++|++|-+.|..|
T Consensus 71 ~~lpGIG~~~A~~Ii~~R~~~g~f 94 (120)
T TIGR01259 71 QALPGIGPAKAKAIIEYREENGAF 94 (120)
T ss_pred hcCCCCCHHHHHHHHHHHHhcCCc
Confidence 458899999999999998765443
No 79
>PF07034 ORC3_N: Origin recognition complex (ORC) subunit 3 N-terminus; InterPro: IPR020795 The Origin Recognition Complex (ORC) is a six-subunit ATP-dependent DNA-binding complex encoded in yeast by ORC1-6 []. ORC is a central component for eukaryotic DNA replication, and binds chromatin at replication origins throughout the cell cycle []. ORC directs DNA replication throughout the genome and is required for its initiation [, , ]. ORC bound at replication origins serves as the foundation for assembly of the pre-replicative complex (pre-RC), which includes Cdc6, Tah11 (aka Cdt1), and the Mcm2-7 complex [, , ]. Pre-RC assembly during G1 is required for replication licensing of chromosomes prior to DNA synthesis during S phase [, , ]. Cell cycle-regulated phosphorylation of Orc2, Orc6, Cdc6, and MCM by the cyclin-dependent protein kinase Cdc28 regulates initiation of DNA replication, including blocking reinitiation in G2/M phase [, , , ]. In yeast, ORC also plays a role in the establishment of silencing at the mating-type loci Hidden MAT Left (HML) and Hidden MAT Right (HMR) [, , ]. ORC participates in the assembly of transcriptionally silent chromatin at HML and HMR by recruiting the Sir1 silencing protein to the HML and HMR silencers [, , ]. Both Orc1 and Orc5 bind ATP, though only Orc1 has ATPase activity []. The binding of ATP by Orc1 is required for ORC binding to DNA and is essential for cell viability []. The ATPase activity of Orc1 is involved in formation of the pre-RC [, , ]. ATP binding by Orc5 is crucial for the stability of ORC as a whole. Only the Orc1-5 subunits are required for origin binding; Orc6 is essential for maintenance of pre-RCs once formed []. Interactions within ORC suggest that Orc2-3-6 may form a core complex []. ORC homologues have been found in various eukaryotes, including fission yeast, insects, amphibians, and humans []. ; GO: 0003677 DNA binding, 0006260 DNA replication, 0005664 nuclear origin of replication recognition complex
Probab=26.82 E-value=2.2e+02 Score=19.73 Aligned_cols=47 Identities=15% Similarity=0.306 Sum_probs=33.9
Q ss_pred CCcEEEeeHHHHHHhHHHHHHhcCCCCCCCCCCcccccCCCCHHHHHHHHHHHHhhc
Q 040934 13 EGFEFVISKEAAMVSQTIRNMLTSPGGFAETEHGEVTFPEISTTILEKICQYFYWSL 69 (72)
Q Consensus 13 Dg~~f~v~~~~a~~S~~i~~~l~~~~~~~e~~~~~Ipl~~v~~~~L~kVieyc~~h~ 69 (72)
.++.|.+.......-.++.+.+-+.. .|| .+++.+++.+.+.+.+|.
T Consensus 258 ~~~~F~~~~~~~~l~~v~~~~l~~~~---------~~~-~l~~~~~~~L~~~f~~~~ 304 (330)
T PF07034_consen 258 RIKKFQLQSSSEILERVLEKVLLSPD---------FPF-KLGPRVLQFLLDRFLDHD 304 (330)
T ss_pred CceEEEeCChHHHHHHHHHHHhcCCC---------CCc-eECHHHHHHHHHHHHHhC
Confidence 35678888888777788877666421 355 588999988888877663
No 80
>COG5634 Uncharacterized conserved protein [Function unknown]
Probab=26.59 E-value=79 Score=20.96 Aligned_cols=20 Identities=10% Similarity=0.127 Sum_probs=15.8
Q ss_pred CCceEEEEeCCCcEEEeeHH
Q 040934 3 KEDTVKLISAEGFEFVISKE 22 (72)
Q Consensus 3 ~~~~i~L~S~Dg~~f~v~~~ 22 (72)
+..++.++++|.++|.+-..
T Consensus 23 ~~~~~~~~~~~~~~~ki~vn 42 (223)
T COG5634 23 PHYVINVKGSDDTIFKIVVN 42 (223)
T ss_pred CCeEEEEecCCCcEEEEEEE
Confidence 45688999999999988543
No 81
>TIGR00426 competence protein ComEA helix-hairpin-helix repeat region. Members of the subfamily recognized by this model include competence protein ComEA and closely related proteins from a number of species that exhibit competence for transformation by exongenous DNA, including Streptococcus pneumoniae, Bacillus subtilis, Neisseria meningitidis, and Haemophilus influenzae. This model represents a region of two tandem copies of a helix-hairpin-helix domain (pfam00633), each about 30 residues in length. Limited sequence similarity can be found among some members of this family N-terminal to the region covered by this model.
Probab=26.29 E-value=1.1e+02 Score=15.97 Aligned_cols=20 Identities=15% Similarity=-0.037 Sum_probs=15.2
Q ss_pred cCCCCHHHHHHHHHHHHhhc
Q 040934 50 FPEISTTILEKICQYFYWSL 69 (72)
Q Consensus 50 l~~v~~~~L~kVieyc~~h~ 69 (72)
+|.+.....++|++|-..+.
T Consensus 22 ipgig~~~a~~Il~~R~~~g 41 (69)
T TIGR00426 22 MNGVGLKKAEAIVSYREEYG 41 (69)
T ss_pred CCCCCHHHHHHHHHHHHHcC
Confidence 67788888888888865443
No 82
>smart00546 CUE Domain that may be involved in binding ubiquitin-conjugating enzymes (UBCs). CUE domains also occur in two protein of the IL-1 signal transduction pathway, tollip and TAB2. Ponting (Biochem. J.) "Proteins of the Endoplasmic reticulum" (in press)
Probab=26.20 E-value=76 Score=15.08 Aligned_cols=17 Identities=12% Similarity=0.430 Sum_probs=13.4
Q ss_pred cCCCCHHHHHHHHHHHH
Q 040934 50 FPEISTTILEKICQYFY 66 (72)
Q Consensus 50 l~~v~~~~L~kVieyc~ 66 (72)
||+++...++.+++-+.
T Consensus 13 FP~l~~~~I~~~L~~~~ 29 (43)
T smart00546 13 FPNLDEEVIKAVLEANN 29 (43)
T ss_pred CCCCCHHHHHHHHHHcC
Confidence 78899988888887543
No 83
>PF09329 zf-primase: Primase zinc finger; InterPro: IPR015408 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This zinc finger domain is found in Mcm10 proteins and DnaG-type primases []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0006260 DNA replication, 0005634 nucleus; PDB: 3H15_A 3EBE_C.
Probab=26.17 E-value=12 Score=18.90 Aligned_cols=10 Identities=10% Similarity=0.255 Sum_probs=5.7
Q ss_pred HHHHHHHhhc
Q 040934 60 KICQYFYWSL 69 (72)
Q Consensus 60 kVieyc~~h~ 69 (72)
..-+||+||.
T Consensus 26 ~~~~~C~yH~ 35 (46)
T PF09329_consen 26 SKGEYCDYHV 35 (46)
T ss_dssp TT-SS-TTTH
T ss_pred CCCcccHHHH
Confidence 3467888886
No 84
>PRK01018 50S ribosomal protein L30e; Reviewed
Probab=26.14 E-value=85 Score=18.00 Aligned_cols=18 Identities=28% Similarity=0.115 Sum_probs=16.0
Q ss_pred CCCHHHHHHHHHHHHhhc
Q 040934 52 EISTTILEKICQYFYWSL 69 (72)
Q Consensus 52 ~v~~~~L~kVieyc~~h~ 69 (72)
+.+..+-+++..||+++.
T Consensus 41 D~~~~~~~~i~~~c~~~~ 58 (99)
T PRK01018 41 NCPKDIKEDIEYYAKLSG 58 (99)
T ss_pred CCCHHHHHHHHHHHHHcC
Confidence 788999999999999864
No 85
>KOG0183 consensus 20S proteasome, regulatory subunit alpha type PSMA7/PRE6 [Posttranslational modification, protein turnover, chaperones]
Probab=26.01 E-value=79 Score=21.49 Aligned_cols=19 Identities=16% Similarity=0.410 Sum_probs=15.8
Q ss_pred CceEEEEeCCCcEEEeeHH
Q 040934 4 EDTVKLISAEGFEFVISKE 22 (72)
Q Consensus 4 ~~~i~L~S~Dg~~f~v~~~ 22 (72)
.+-+++-|.||..|.|+.+
T Consensus 5 draltvFSPDGhL~QVEYA 23 (249)
T KOG0183|consen 5 DRALTVFSPDGHLFQVEYA 23 (249)
T ss_pred ccceEEECCCCCEEeeHhH
Confidence 3568999999999999754
No 86
>PRK06683 hypothetical protein; Provisional
Probab=25.81 E-value=89 Score=17.40 Aligned_cols=19 Identities=5% Similarity=-0.074 Sum_probs=16.5
Q ss_pred CCCCHHHHHHHHHHHHhhc
Q 040934 51 PEISTTILEKICQYFYWSL 69 (72)
Q Consensus 51 ~~v~~~~L~kVieyc~~h~ 69 (72)
.+.+..+.+++.++|+++.
T Consensus 35 ~Da~~~~~~~i~~~~~~~~ 53 (82)
T PRK06683 35 EDADMRLTHVIIRTALQHN 53 (82)
T ss_pred CCCCHHHHHHHHHHHHhcC
Confidence 3799999999999998864
No 87
>PRK04966 hypothetical protein; Provisional
Probab=25.31 E-value=57 Score=18.14 Aligned_cols=16 Identities=13% Similarity=0.509 Sum_probs=13.6
Q ss_pred cccCCCCHHHHHHHHH
Q 040934 48 VTFPEISTTILEKICQ 63 (72)
Q Consensus 48 Ipl~~v~~~~L~kVie 63 (72)
||...+++++|.-+|+
T Consensus 3 IP~~~L~~eTL~nLIe 18 (72)
T PRK04966 3 IPWQDLAPETLENLIE 18 (72)
T ss_pred CChHhCCHHHHHHHHH
Confidence 7888899999987775
No 88
>PF12937 F-box-like: F-box-like; PDB: 1P22_A 2OVP_B 2OVR_B 2OVQ_B 1FS1_A 1FS2_C 1FQV_I 1LDK_E 2AST_B 2ASS_B.
Probab=24.85 E-value=44 Score=16.00 Aligned_cols=16 Identities=25% Similarity=0.316 Sum_probs=10.9
Q ss_pred CCCHHHHHHHHHHHHh
Q 040934 52 EISTTILEKICQYFYW 67 (72)
Q Consensus 52 ~v~~~~L~kVieyc~~ 67 (72)
..+.++|.+|+.|+..
T Consensus 3 ~LP~Eil~~If~~L~~ 18 (47)
T PF12937_consen 3 SLPDEILLEIFSYLDP 18 (47)
T ss_dssp CS-HHHHHHHHTTS-H
T ss_pred HhHHHHHHHHHhcCCH
Confidence 5678888888888643
No 89
>PF14730 DUF4468: Domain of unknown function (DUF4468) with TBP-like fold
Probab=24.84 E-value=1e+02 Score=17.18 Aligned_cols=24 Identities=13% Similarity=0.285 Sum_probs=18.3
Q ss_pred cccccCCCCHHHH-HHHHHHHHhhc
Q 040934 46 GEVTFPEISTTIL-EKICQYFYWSL 69 (72)
Q Consensus 46 ~~Ipl~~v~~~~L-~kVieyc~~h~ 69 (72)
..|++|+.+.+.| .++.+|+....
T Consensus 3 ~~i~vpg~sk~~ly~~~~~W~~~~~ 27 (91)
T PF14730_consen 3 KVIEVPGMSKDQLYDRAKKWLAKNF 27 (91)
T ss_pred EEEEcCCCCHHHHHHHHHHHHHHhc
Confidence 4688898887766 88899987654
No 90
>PRK10543 superoxide dismutase; Provisional
Probab=24.40 E-value=47 Score=21.47 Aligned_cols=19 Identities=37% Similarity=0.494 Sum_probs=15.9
Q ss_pred CCCCHHHHHHHHHHHHhhccC
Q 040934 51 PEISTTILEKICQYFYWSLQY 71 (72)
Q Consensus 51 ~~v~~~~L~kVieyc~~h~~y 71 (72)
|-|++.+|+ +.|-.||+.|
T Consensus 17 p~is~~~~~--~H~~kHh~~Y 35 (193)
T PRK10543 17 PHISAETLE--YHYGKHHQTY 35 (193)
T ss_pred hhcCHHHHH--HHHHHHHHHH
Confidence 459999999 8898888876
No 91
>smart00492 HELICc3 helicase superfamily c-terminal domain.
Probab=24.33 E-value=77 Score=19.28 Aligned_cols=23 Identities=17% Similarity=0.144 Sum_probs=19.4
Q ss_pred ccccCCCCHHHHHHHHHHHHhhc
Q 040934 47 EVTFPEISTTILEKICQYFYWSL 69 (72)
Q Consensus 47 ~Ipl~~v~~~~L~kVieyc~~h~ 69 (72)
.+|+|+.+...++.-.+|...+.
T Consensus 76 glPfp~~~d~~~~~~~~~~~~~~ 98 (141)
T smart00492 76 GLPFPYPDSPILKARLELLRDKG 98 (141)
T ss_pred ecCCCCCCCHHHHHHHHHHHHhC
Confidence 58999999999998899987654
No 92
>PF13315 DUF4085: Protein of unknown function (DUF4085)
Probab=24.19 E-value=1e+02 Score=20.56 Aligned_cols=24 Identities=8% Similarity=-0.062 Sum_probs=19.2
Q ss_pred CcccccCCCCHHHHHHHHHHHHhh
Q 040934 45 HGEVTFPEISTTILEKICQYFYWS 68 (72)
Q Consensus 45 ~~~Ipl~~v~~~~L~kVieyc~~h 68 (72)
+..+.++-.+..+.+.+.+||+-.
T Consensus 69 d~~~~~~~~s~~l~~~~~ew~~~~ 92 (208)
T PF13315_consen 69 DIRFNLDYPSEKLKKAITEWCEDY 92 (208)
T ss_pred cCcccCCCCcHHHHHHHHHHHHHH
Confidence 344888878899999999999754
No 93
>COG1555 ComEA DNA uptake protein and related DNA-binding proteins [DNA replication, recombination, and repair]
Probab=24.12 E-value=1.1e+02 Score=18.91 Aligned_cols=25 Identities=16% Similarity=0.142 Sum_probs=20.9
Q ss_pred ccccCCCCHHHHHHHHHHHHhhccC
Q 040934 47 EVTFPEISTTILEKICQYFYWSLQY 71 (72)
Q Consensus 47 ~Ipl~~v~~~~L~kVieyc~~h~~y 71 (72)
-.-||.|....-++|++|=+.+-.|
T Consensus 99 L~~lpgIG~~kA~aIi~yRe~~G~f 123 (149)
T COG1555 99 LQALPGIGPKKAQAIIDYREENGPF 123 (149)
T ss_pred HHHCCCCCHHHHHHHHHHHHHcCCC
Confidence 3568999999999999998877655
No 94
>PHA02754 hypothetical protein; Provisional
Probab=23.90 E-value=1.1e+02 Score=16.48 Aligned_cols=18 Identities=22% Similarity=0.479 Sum_probs=14.2
Q ss_pred CceEEEEeCCCcEEEeeH
Q 040934 4 EDTVKLISAEGFEFVISK 21 (72)
Q Consensus 4 ~~~i~L~S~Dg~~f~v~~ 21 (72)
.+.|.++++||...+++.
T Consensus 44 GdkIVVi~aD~I~i~ls~ 61 (67)
T PHA02754 44 GDKIVVITADAIKIELSE 61 (67)
T ss_pred CCEEEEEEcceEEEEEEe
Confidence 556888999998888763
No 95
>PTZ00039 40S ribosomal protein S20; Provisional
Probab=23.58 E-value=1.7e+02 Score=17.60 Aligned_cols=8 Identities=38% Similarity=0.679 Sum_probs=6.0
Q ss_pred CCcccccC
Q 040934 44 EHGEVTFP 51 (72)
Q Consensus 44 ~~~~Ipl~ 51 (72)
-.+|||||
T Consensus 49 v~GPipLP 56 (115)
T PTZ00039 49 VTGPVRMP 56 (115)
T ss_pred eECCccCC
Confidence 35788888
No 96
>PRK07714 hypothetical protein; Provisional
Probab=23.16 E-value=1e+02 Score=17.61 Aligned_cols=18 Identities=17% Similarity=0.111 Sum_probs=16.0
Q ss_pred CCCHHHHHHHHHHHHhhc
Q 040934 52 EISTTILEKICQYFYWSL 69 (72)
Q Consensus 52 ~v~~~~L~kVieyc~~h~ 69 (72)
+++..+-+++..+|+++.
T Consensus 43 D~s~~~~~ki~~~~~~~~ 60 (100)
T PRK07714 43 DASVNTTKKITDKCTYYN 60 (100)
T ss_pred CCCHHHHHHHHHHHHhcC
Confidence 799999999999998853
No 97
>PF06794 UPF0270: Uncharacterised protein family (UPF0270); InterPro: IPR010648 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.; PDB: 1Y0N_A.
Probab=22.95 E-value=64 Score=17.79 Aligned_cols=16 Identities=6% Similarity=0.449 Sum_probs=11.0
Q ss_pred cccCCCCHHHHHHHHH
Q 040934 48 VTFPEISTTILEKICQ 63 (72)
Q Consensus 48 Ipl~~v~~~~L~kVie 63 (72)
||...+++.+|.-+|+
T Consensus 3 IP~~~L~~eTL~nLIe 18 (70)
T PF06794_consen 3 IPYQQLPPETLNNLIE 18 (70)
T ss_dssp --GGGS-HHHHHHHHH
T ss_pred CChHHCCHHHHHHHHH
Confidence 7888899999987775
No 98
>PF14420 Clr5: Clr5 domain
Probab=22.63 E-value=74 Score=16.20 Aligned_cols=17 Identities=12% Similarity=0.190 Sum_probs=12.2
Q ss_pred HHHHHHHHHHHHhhccC
Q 040934 55 TTILEKICQYFYWSLQY 71 (72)
Q Consensus 55 ~~~L~kVieyc~~h~~y 71 (72)
..+|+.|+++++.++++
T Consensus 20 ~~tl~~v~~~M~~~~~F 36 (54)
T PF14420_consen 20 NKTLEEVMEIMKEEHGF 36 (54)
T ss_pred CCcHHHHHHHHHHHhCC
Confidence 34678889998776654
No 99
>PRK13446 atpC F0F1 ATP synthase subunit epsilon; Provisional
Probab=22.41 E-value=1e+02 Score=18.62 Aligned_cols=18 Identities=17% Similarity=0.250 Sum_probs=10.6
Q ss_pred CCCCceEEEEeCCCcEEE
Q 040934 1 MKKEDTVKLISAEGFEFV 18 (72)
Q Consensus 1 m~~~~~i~L~S~Dg~~f~ 18 (72)
|+..-.++++|.||..|.
T Consensus 1 m~~~l~l~IvTP~~~~~~ 18 (136)
T PRK13446 1 MAKKLKLEIVTPEKKVLS 18 (136)
T ss_pred CCCccEEEEEcCCceEEe
Confidence 454445666666666554
No 100
>PRK05585 yajC preprotein translocase subunit YajC; Validated
Probab=22.34 E-value=1.6e+02 Score=17.31 Aligned_cols=22 Identities=32% Similarity=0.261 Sum_probs=18.4
Q ss_pred CceEEEEeCCCcEEEeeHHHHH
Q 040934 4 EDTVKLISAEGFEFVISKEAAM 25 (72)
Q Consensus 4 ~~~i~L~S~Dg~~f~v~~~~a~ 25 (72)
...+.|+.++|....+++.++.
T Consensus 74 ~~~v~lei~~g~~i~~~r~aI~ 95 (106)
T PRK05585 74 EDFVIIELNDDTEIKIQKSAIA 95 (106)
T ss_pred CCEEEEEECCCeEEEEEhHHhh
Confidence 3578999999999999998754
No 101
>TIGR00739 yajC preprotein translocase, YajC subunit. While this protein is part of the preprotein translocase in Escherichia coli, it is not essential for viability or protein secretion. The N-terminus region contains a predicted membrane-spanning region followed by a region consisting almost entirely of residues with charged (acidic, basic, or zwitterionic) side chains. This small protein is about 100 residues in length, and is restricted to bacteria; however, this protein is absent from some lineages, including spirochetes and Mycoplasmas.
Probab=22.33 E-value=1.6e+02 Score=16.49 Aligned_cols=22 Identities=27% Similarity=0.356 Sum_probs=17.9
Q ss_pred CceEEEEeCCCcEEEeeHHHHH
Q 040934 4 EDTVKLISAEGFEFVISKEAAM 25 (72)
Q Consensus 4 ~~~i~L~S~Dg~~f~v~~~~a~ 25 (72)
...+.+..++|....+++.+..
T Consensus 59 d~~v~vei~~g~~i~~~r~aI~ 80 (84)
T TIGR00739 59 ENTIVIELNDNTEITFSKNAIV 80 (84)
T ss_pred CCEEEEEECCCeEEEEEhHHhh
Confidence 3578888899999999988754
No 102
>PHA02087 hypothetical protein
Probab=22.18 E-value=72 Score=17.81 Aligned_cols=17 Identities=12% Similarity=0.403 Sum_probs=14.1
Q ss_pred eEEEEeCCCcEEEeeHH
Q 040934 6 TVKLISAEGFEFVISKE 22 (72)
Q Consensus 6 ~i~L~S~Dg~~f~v~~~ 22 (72)
-+.|+.+||...+++.+
T Consensus 46 ~y~lvdsdg~~ielpe~ 62 (83)
T PHA02087 46 QYMLVDSDGVKIELPES 62 (83)
T ss_pred eEEEEcCCCcEEECCcc
Confidence 47899999999998764
No 103
>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=21.77 E-value=59 Score=17.17 Aligned_cols=32 Identities=9% Similarity=0.151 Sum_probs=21.7
Q ss_pred eEEEEeCCCcEEEeeHHHHHHhHHHHHHhcCC
Q 040934 6 TVKLISAEGFEFVISKEAAMVSQTIRNMLTSP 37 (72)
Q Consensus 6 ~i~L~S~Dg~~f~v~~~~a~~S~~i~~~l~~~ 37 (72)
.|.+++.+|+.+.++-+--..-.-++..+...
T Consensus 2 ~i~vk~~~G~~~~l~v~~~~tV~~lK~~i~~~ 33 (74)
T cd01807 2 FLTVKLLQGRECSLQVSEKESVSTLKKLVSEH 33 (74)
T ss_pred EEEEEeCCCCEEEEEECCCCcHHHHHHHHHHH
Confidence 47889999999887654444445566666543
No 104
>COG2100 Predicted Fe-S oxidoreductase [General function prediction only]
Probab=21.64 E-value=92 Score=22.67 Aligned_cols=22 Identities=18% Similarity=0.241 Sum_probs=19.0
Q ss_pred cccccCCCCHHHHHHHHHHHHh
Q 040934 46 GEVTFPEISTTILEKICQYFYW 67 (72)
Q Consensus 46 ~~Ipl~~v~~~~L~kVieyc~~ 67 (72)
.|+-||++|.+-+.++|+|...
T Consensus 261 aPv~lPG~ND~E~~~iIe~A~~ 282 (414)
T COG2100 261 APVWLPGVNDDEMPKIIEWARE 282 (414)
T ss_pred eeeecCCcChHHHHHHHHHHHH
Confidence 4667999999999999999754
No 105
>PF03579 SHP: Small hydrophobic protein; InterPro: IPR005327 The small hydrophobic integral membrane protein, SH (previously designated 1A) is found to have a variety of glycosylated forms [, ]. This protein is a component of the mature respiratory syncytial virion [] where it may form complexes and appears to play a structural role.; GO: 0016020 membrane, 0016021 integral to membrane, 0048222 glycoprotein network
Probab=21.54 E-value=88 Score=16.85 Aligned_cols=18 Identities=28% Similarity=0.519 Sum_probs=14.0
Q ss_pred CCHHHHHHHHHHHHhhcc
Q 040934 53 ISTTILEKICQYFYWSLQ 70 (72)
Q Consensus 53 v~~~~L~kVieyc~~h~~ 70 (72)
+-.++|.|.++|=.+|.+
T Consensus 36 i~~AILNKLcd~n~~h~~ 53 (64)
T PF03579_consen 36 IMAAILNKLCDLNDFHTN 53 (64)
T ss_pred HHHHHHHHHHHhhhhccc
Confidence 456889999999877753
No 106
>PF14283 DUF4366: Domain of unknown function (DUF4366)
Probab=21.53 E-value=1.2e+02 Score=20.25 Aligned_cols=16 Identities=13% Similarity=0.370 Sum_probs=13.8
Q ss_pred CceEEEEeCCCcEEEe
Q 040934 4 EDTVKLISAEGFEFVI 19 (72)
Q Consensus 4 ~~~i~L~S~Dg~~f~v 19 (72)
...|+++|++|..|-+
T Consensus 73 kQFiTv~Tk~gn~Fyl 88 (218)
T PF14283_consen 73 KQFITVTTKSGNTFYL 88 (218)
T ss_pred cEEEEEEecCCCEEEE
Confidence 4589999999999976
No 107
>PF09872 DUF2099: Uncharacterized protein conserved in archaea (DUF2099); InterPro: IPR009181 The exact function of this protein is unknown, but likely is linked to methanogenesis or a process closely connected to it.
Probab=21.45 E-value=1.2e+02 Score=20.99 Aligned_cols=43 Identities=9% Similarity=0.197 Sum_probs=34.9
Q ss_pred EEEeCCCcEEEeeHHHHHHhHHHHHHhcCCCCCCCCCCcccccCCCCHHHHHHHHHH
Q 040934 8 KLISAEGFEFVISKEAAMVSQTIRNMLTSPGGFAETEHGEVTFPEISTTILEKICQY 64 (72)
Q Consensus 8 ~L~S~Dg~~f~v~~~~a~~S~~i~~~l~~~~~~~e~~~~~Ipl~~v~~~~L~kViey 64 (72)
+++=.||...+|....+..|++++.+- ++.+++....++.+||
T Consensus 10 rV~V~dGkVvevgeP~I~~CPLf~k~r--------------gI~~it~e~ik~niEf 52 (258)
T PF09872_consen 10 RVVVRDGKVVEVGEPLIKYCPLFDKFR--------------GIKEITKEAIKKNIEF 52 (258)
T ss_pred eEEEECCEEEEecCcccccCcchHHHC--------------CcccCCHHHHHHHHHH
Confidence 566689999999999999999988742 3557888888888886
No 108
>PF09133 SANTA: SANTA (SANT Associated); InterPro: IPR015216 The SANTA domain (SANT associated) is approximately 90 amino acids in length and is conserved in eukaryotes. It is sometimes found in association with the SANT domain (IPR001005 from INTERPRO, also known as the Myb-like DNA-binding domain) implying a putative function in regulating chromatin remodelling. Sequence analysis has showed that the SANTA domain is likely to form four central beta-sheets with three flanking alpha-helices. Many conserved hydrophobic residues are present which implies a possible role in protein-protein interactions.
Probab=21.43 E-value=1.1e+02 Score=17.56 Aligned_cols=18 Identities=11% Similarity=0.318 Sum_probs=15.0
Q ss_pred eEEEEeCCCcEEEeeHHH
Q 040934 6 TVKLISAEGFEFVISKEA 23 (72)
Q Consensus 6 ~i~L~S~Dg~~f~v~~~~ 23 (72)
..+|+|.||..+.+.-.+
T Consensus 42 ~~~l~T~sG~~y~L~G~i 59 (93)
T PF09133_consen 42 STTLETESGIIYILVGPI 59 (93)
T ss_pred CcEEEeCCCcEEEEeccc
Confidence 578999999999996544
No 109
>PF11064 DUF2865: Protein of unknown function (DUF2865); InterPro: IPR021293 This bacterial family of proteins has no known function.
Probab=21.40 E-value=86 Score=18.87 Aligned_cols=19 Identities=26% Similarity=0.300 Sum_probs=15.9
Q ss_pred CceEEEEeCCCcEEEeeHH
Q 040934 4 EDTVKLISAEGFEFVISKE 22 (72)
Q Consensus 4 ~~~i~L~S~Dg~~f~v~~~ 22 (72)
.+.+.++|+||.-|.|+..
T Consensus 3 ~rt~CVRtCDG~~FPis~~ 21 (116)
T PF11064_consen 3 YRTYCVRTCDGYYFPISFS 21 (116)
T ss_pred cceEEEeccCceeeccccC
Confidence 3578999999999999743
No 110
>PRK00596 rpsJ 30S ribosomal protein S10; Reviewed
Probab=21.39 E-value=1.8e+02 Score=16.80 Aligned_cols=38 Identities=13% Similarity=0.286 Sum_probs=20.1
Q ss_pred eEEEEeCCCcEEEeeHHHHHHhHHHHHHhcCCCCCCCCCCcccccCC
Q 040934 6 TVKLISAEGFEFVISKEAAMVSQTIRNMLTSPGGFAETEHGEVTFPE 52 (72)
Q Consensus 6 ~i~L~S~Dg~~f~v~~~~a~~S~~i~~~l~~~~~~~e~~~~~Ipl~~ 52 (72)
.|+|.|-|- ..+-..+..|.+.....+. .-.++||||.
T Consensus 7 rI~l~S~d~------~~L~~~~~~i~~~a~~~~i---~v~GpipLPt 44 (102)
T PRK00596 7 RIRLKAFDH------RLLDQSAKKIVETAKRTGA---QVRGPIPLPT 44 (102)
T ss_pred EEEEEECCH------HHHHHHHHHHHHHHHHcCC---eEECCcCCCc
Confidence 578888872 2233334555554443332 1356788873
No 111
>KOG2716 consensus Polymerase delta-interacting protein PDIP1 and related proteins, contain BTB/POZ domain [Inorganic ion transport and metabolism]
Probab=21.30 E-value=2.7e+02 Score=18.78 Aligned_cols=62 Identities=23% Similarity=0.281 Sum_probs=37.6
Q ss_pred CCceEEEEeCCCcEEEeeHHHHHH-hHHHHHHhcCCCCCCCCCCcccccCCCCHHHHHHHHHHHH
Q 040934 3 KEDTVKLISAEGFEFVISKEAAMV-SQTIRNMLTSPGGFAETEHGEVTFPEISTTILEKICQYFY 66 (72)
Q Consensus 3 ~~~~i~L~S~Dg~~f~v~~~~a~~-S~~i~~~l~~~~~~~e~~~~~Ipl~~v~~~~L~kVieyc~ 66 (72)
.+..|+| ---|.+|......+.. .+.++.|++..-.-.-+..+.|=+ +=++.-...|+-||+
T Consensus 3 ~~~~vkL-nvGG~~F~Tsk~TLtk~dg~fk~m~e~~i~~~~d~s~~IFI-DRSpKHF~~ILNfmR 65 (230)
T KOG2716|consen 3 MSETVKL-NVGGTIFKTSKSTLTKFDGFFKTMLETDIPVEKDESGCIFI-DRSPKHFDTILNFMR 65 (230)
T ss_pred ccceEEE-ecCCeEEEeehhhhhhhhhHHHHHhhcCCccccCCcCcEEe-cCChhHHHHHHHhhh
Confidence 3455664 4568899999888554 677799998653212223344433 455566666666654
No 112
>PF07430 PP1: Phloem filament protein PP1; InterPro: IPR009994 This domain represents a conserved region approximately 200 residues long, four copies of which are found within the plant phloem filament protein PP1. This is one of the constituents of the proteinaceous filaments found in the sieve elements of Cucurbita phloem [].
Probab=20.97 E-value=82 Score=20.92 Aligned_cols=25 Identities=8% Similarity=0.291 Sum_probs=20.2
Q ss_pred CcccccCCCCHHHHHHHHHHHHhhc
Q 040934 45 HGEVTFPEISTTILEKICQYFYWSL 69 (72)
Q Consensus 45 ~~~Ipl~~v~~~~L~kVieyc~~h~ 69 (72)
..=||+|+|....++-|++|.-...
T Consensus 8 ~~w~~ip~v~~~~~q~v~~~~veq~ 32 (202)
T PF07430_consen 8 PKWIKIPDVKEPCLQEVAKFAVEQF 32 (202)
T ss_pred cccccCCcccchHHHHHHHHHHHHH
Confidence 4458999999999999999865443
No 113
>cd00083 HLH Helix-loop-helix domain, found in specific DNA- binding proteins that act as transcription factors; 60-100 amino acids long. A DNA-binding basic region is followed by two alpha-helices separated by a variable loop region; HLH forms homo- and heterodimers, dimerization creates a parallel, left-handed, four helix bundle; the basic region N-terminal to the first amphipathic helix mediates high-affinity DNA-binding; there are several groups of HLH proteins: those (E12/E47) which bind specific hexanucleotide sequences such as E-box (5-CANNTG-3) or StRE 5-ATCACCCCAC-3), those lacking the basic domain (Emc, Id) function as negative regulators since they fail to bind DNA, those (hairy, E(spl), deadpan) which repress transcription although they can bind specific hexanucleotide sequences such as N-box (5-CACGc/aG-3), those which have a COE domain (Collier/Olf-1/EBF) which is involved in both in dimerization and in DNA binding, and those which bind pentanucleotides ACGTG or GCGTG and
Probab=20.94 E-value=96 Score=15.30 Aligned_cols=16 Identities=25% Similarity=0.252 Sum_probs=13.0
Q ss_pred CHHHHHHHHHHHHhhc
Q 040934 54 STTILEKICQYFYWSL 69 (72)
Q Consensus 54 ~~~~L~kVieyc~~h~ 69 (72)
-+.+|.+.++|+.+..
T Consensus 41 k~~iL~~a~~yI~~L~ 56 (60)
T cd00083 41 KAEILRKAVDYIKSLQ 56 (60)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 4688999999998754
No 114
>PF15410 PH_9: Pleckstrin homology domain; PDB: 1WJM_A 1BTN_A 1MPH_A.
Probab=20.94 E-value=1.3e+02 Score=17.64 Aligned_cols=17 Identities=24% Similarity=0.587 Sum_probs=12.4
Q ss_pred CceEEEEeCCCcEEEee
Q 040934 4 EDTVKLISAEGFEFVIS 20 (72)
Q Consensus 4 ~~~i~L~S~Dg~~f~v~ 20 (72)
...++|.++||.+|...
T Consensus 84 ~~VFrL~~~dg~e~Lfq 100 (119)
T PF15410_consen 84 KNVFRLRTADGSEYLFQ 100 (119)
T ss_dssp SSEEEEE-TTS-EEEEE
T ss_pred CeEEEEEeCCCCEEEEE
Confidence 34789999999999885
No 115
>PF13605 DUF4141: Domain of unknown function (DUF4141)
Probab=20.92 E-value=1.3e+02 Score=15.83 Aligned_cols=17 Identities=41% Similarity=0.481 Sum_probs=13.9
Q ss_pred eHHHHHHhHHHHHHhcC
Q 040934 20 SKEAAMVSQTIRNMLTS 36 (72)
Q Consensus 20 ~~~~a~~S~~i~~~l~~ 36 (72)
.+++++-|+|..+++++
T Consensus 38 a~eivqtS~Ta~N~~~n 54 (55)
T PF13605_consen 38 AKEIVQTSKTASNMLKN 54 (55)
T ss_pred HHHHHHHHHHHHHHHhc
Confidence 46788889999998875
No 116
>cd05171 PIKKc_ATM Ataxia telangiectasia mutated (ATM), catalytic domain; The ATM catalytic domain subfamily is part of a larger superfamily that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein kinases (PKs), aminoglycoside phosphotransferase, choline kinase, and RIO kinases. ATM is a member of the phosphoinositide 3-kinase-related protein kinase (PIKK) subfamily. PIKKs have intrinsic serine/threonine kinase activity and are distinguished from other PKs by their unique catalytic domain, similar to that of lipid PI3K, and their large molecular weight (240-470 kDa). ATM contains a FAT (FRAP, ATM and TRRAP) domain, a catalytic domain, and a FATC domain at the C-terminus. ATM is critical in the response to DNA double strand breaks (DSBs) caused by radiation. It is activated at the site of a DSB and phosphorylates key substrates that trigger pathways that regulate DNA repair and cell cycle checkpoints at the G1/S, S phase, and G2/M transi
Probab=20.57 E-value=2.6e+02 Score=18.91 Aligned_cols=33 Identities=12% Similarity=0.233 Sum_probs=25.5
Q ss_pred ceEEEEeCCCcEEEe----------eHHHHHHhHHHHHHhcCC
Q 040934 5 DTVKLISAEGFEFVI----------SKEAAMVSQTIRNMLTSP 37 (72)
Q Consensus 5 ~~i~L~S~Dg~~f~v----------~~~~a~~S~~i~~~l~~~ 37 (72)
+.+++.++||..+.. |..+.+.-.++..++...
T Consensus 18 kri~~~gsdG~~y~fl~K~~dDlR~D~rimQl~~~~n~il~~~ 60 (279)
T cd05171 18 KIITCVGSDGKKYKQLLKGGDDDRQDAVMEQVFQLVNTLLERN 60 (279)
T ss_pred EEEEEECCCCCEEEEEecCCCcccHHHHHHHHHHHHHHHHhhC
Confidence 478999999987543 677777788888888754
No 117
>cd01805 RAD23_N Ubiquitin-like domain of RAD23. RAD23 belongs to a family of adaptor molecules having affinity for both the proteasome and ubiquitinylated proteins and thought to shuttle these ubiquitinylated proteins to the proteasome for destruction. RAD23 interacts with ubiquitin through its C-terminal ubiquitin-associated domains (UBA) and with the proteasome through its N-terminal ubiquitin-like domain (UBL).
Probab=20.52 E-value=85 Score=16.43 Aligned_cols=31 Identities=6% Similarity=0.163 Sum_probs=20.7
Q ss_pred eEEEEeCCCcEEEeeHHHHHHhHHHHHHhcC
Q 040934 6 TVKLISAEGFEFVISKEAAMVSQTIRNMLTS 36 (72)
Q Consensus 6 ~i~L~S~Dg~~f~v~~~~a~~S~~i~~~l~~ 36 (72)
.|.+.+.+|..|.++-+.-..-.-|+..+..
T Consensus 2 ~i~vk~~~g~~~~l~v~~~~TV~~lK~~i~~ 32 (77)
T cd01805 2 KITFKTLKQQTFPIEVDPDDTVAELKEKIEE 32 (77)
T ss_pred EEEEEeCCCCEEEEEECCCCcHHHHHHHHHH
Confidence 3888999999998874443334455555554
No 118
>PTZ00078 Superoxide dismutase [Fe]; Provisional
Probab=20.52 E-value=68 Score=20.72 Aligned_cols=19 Identities=26% Similarity=0.445 Sum_probs=15.6
Q ss_pred CCCCHHHHHHHHHHHHhhccC
Q 040934 51 PEISTTILEKICQYFYWSLQY 71 (72)
Q Consensus 51 ~~v~~~~L~kVieyc~~h~~y 71 (72)
|-|++.+|+ +.|-.||+.|
T Consensus 12 p~iS~~~l~--~H~~~hh~~Y 30 (193)
T PTZ00078 12 PHLSEETLK--FHYSKHHAGY 30 (193)
T ss_pred ccCCHHHHH--HHHHHHHHHH
Confidence 459999999 7888888765
No 119
>COG2845 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.47 E-value=2.7e+02 Score=20.12 Aligned_cols=33 Identities=21% Similarity=0.375 Sum_probs=22.0
Q ss_pred CceEEEEeCCCcEEEeeHHHHHHh---HHHHHHhcC
Q 040934 4 EDTVKLISAEGFEFVISKEAAMVS---QTIRNMLTS 36 (72)
Q Consensus 4 ~~~i~L~S~Dg~~f~v~~~~a~~S---~~i~~~l~~ 36 (72)
.+.|+|.++||.-|...-.--... +-|+..++.
T Consensus 288 Gq~vrlR~~DGIh~T~~Gkrkla~~~~k~I~~~l~~ 323 (354)
T COG2845 288 GQPVRLRAKDGIHFTKEGKRKLAFYLEKPIRAELET 323 (354)
T ss_pred CceEEEeccCCceechhhHHHHHHHHHHHHHhhhcc
Confidence 568999999999999875443333 334444443
No 120
>PF04472 DUF552: Protein of unknown function (DUF552); InterPro: IPR007561 This entry represents a cell division protein, designated SepF, which is conserved in Gram-positive bacteria. SepF accumulates at the cell division site in an FtsZ-dependent manner and is required for proper septum formation []. Mutants are viable but the formation of the septum is much slower and occurs with a very abnormal morphology. This entry also includes archaeal related proteins of unknown function.; GO: 0000917 barrier septum formation; PDB: 3P04_A.
Probab=20.44 E-value=1.3e+02 Score=16.12 Aligned_cols=22 Identities=9% Similarity=0.160 Sum_probs=16.6
Q ss_pred CcccccCCCCHHHHHHHHHHHH
Q 040934 45 HGEVTFPEISTTILEKICQYFY 66 (72)
Q Consensus 45 ~~~Ipl~~v~~~~L~kVieyc~ 66 (72)
.-.+.|.+++.+..+++++|+.
T Consensus 24 ~Vivnl~~l~~~~~~Ri~Dfl~ 45 (73)
T PF04472_consen 24 IVIVNLENLDDEEAQRILDFLS 45 (73)
T ss_dssp -EEEE-TTS-HHHHHHHHHHHH
T ss_pred EEEEECCCCCHHHHHHHHHHHh
Confidence 4467888999999999999985
Done!