Query 035580
Match_columns 83
No_of_seqs 27 out of 29
Neff 2.5
Searched_HMMs 46136
Date Fri Mar 29 04:14:45 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/035580.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/035580hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF12861 zf-Apc11: Anaphase-pr 83.8 0.53 1.2E-05 31.7 1.0 24 11-34 61-84 (85)
2 PF13920 zf-C3HC4_3: Zinc fing 78.6 0.93 2E-05 25.7 0.6 11 20-30 36-46 (50)
3 KOG4265 Predicted E3 ubiquitin 73.5 1.1 2.5E-05 36.7 0.1 24 1-30 311-334 (349)
4 PRK01343 zinc-binding protein; 69.4 3.3 7.2E-05 26.2 1.5 19 14-32 2-20 (57)
5 PF14634 zf-RING_5: zinc-RING 62.9 3.8 8.2E-05 22.9 0.8 11 19-29 34-44 (44)
6 KOG4172 Predicted E3 ubiquitin 61.9 2.6 5.6E-05 27.5 -0.0 11 20-30 42-52 (62)
7 PF13639 zf-RING_2: Ring finge 59.3 3.2 7E-05 22.8 0.1 7 22-28 38-44 (44)
8 PF04423 Rad50_zn_hook: Rad50 57.8 3.1 6.7E-05 24.3 -0.1 10 21-30 20-29 (54)
9 PRK05978 hypothetical protein; 52.0 5.4 0.00012 28.9 0.3 18 22-39 34-51 (148)
10 cd00350 rubredoxin_like Rubred 51.9 7 0.00015 21.2 0.7 12 20-31 16-27 (33)
11 PRK06921 hypothetical protein; 51.8 80 0.0017 23.7 6.5 50 10-59 21-84 (266)
12 cd00162 RING RING-finger (Real 51.2 8.1 0.00018 19.5 0.8 11 20-30 34-44 (45)
13 KOG1493 Anaphase-promoting com 50.8 8 0.00017 26.5 0.9 23 11-33 60-82 (84)
14 PF04431 Pec_lyase_N: Pectate 50.5 20 0.00044 22.4 2.7 15 51-65 6-20 (56)
15 cd00729 rubredoxin_SM Rubredox 46.7 9.7 0.00021 21.1 0.7 18 11-31 11-28 (34)
16 PF14411 LHH: A nuclease of th 46.7 11 0.00025 24.7 1.1 12 49-60 68-79 (81)
17 PF11433 DUF3198: Protein of u 46.3 38 0.00081 21.4 3.4 28 38-74 22-49 (51)
18 PF02891 zf-MIZ: MIZ/SP-RING z 44.5 8.1 0.00018 22.8 0.2 11 20-30 40-50 (50)
19 KOG1571 Predicted E3 ubiquitin 44.3 5.7 0.00012 32.8 -0.7 11 22-32 337-347 (355)
20 PF02197 RIIa: Regulatory subu 42.5 23 0.00051 20.0 1.9 14 49-63 25-38 (38)
21 PF14570 zf-RING_4: RING/Ubox 42.4 12 0.00026 22.8 0.7 12 19-30 35-46 (48)
22 COG1592 Rubrerythrin [Energy p 41.0 13 0.00029 27.4 0.9 13 19-31 147-159 (166)
23 PF07146 DUF1389: Protein of u 39.1 18 0.00039 29.0 1.4 24 35-58 109-132 (314)
24 PF12678 zf-rbx1: RING-H2 zinc 38.6 13 0.00027 23.1 0.4 6 23-28 68-73 (73)
25 smart00504 Ubox Modified RING 38.5 20 0.00042 20.3 1.2 19 21-39 35-53 (63)
26 PF09654 DUF2396: Protein of u 37.7 3.9 8.5E-05 30.7 -2.3 39 19-57 4-57 (161)
27 PF04710 Pellino: Pellino; In 37.2 11 0.00024 31.8 0.0 13 21-33 328-340 (416)
28 KOG3842 Adaptor protein Pellin 36.4 18 0.0004 30.6 1.1 14 20-33 340-353 (429)
29 PF09946 DUF2178: Predicted me 35.7 57 0.0012 22.1 3.3 31 44-78 42-72 (111)
30 TIGR02652 conserved hypothetic 34.8 4.4 9.5E-05 30.5 -2.5 38 19-56 7-59 (163)
31 PF07800 DUF1644: Protein of u 34.2 19 0.00042 27.0 0.8 16 15-30 74-89 (162)
32 PF10386 DUF2441: Protein of u 33.9 31 0.00068 25.5 1.9 12 63-74 129-140 (141)
33 PF14926 DUF4498: Domain of un 33.8 13 0.00029 29.0 -0.1 57 3-65 90-154 (247)
34 COG5574 PEX10 RING-finger-cont 33.7 14 0.0003 29.7 0.0 17 20-37 250-266 (271)
35 PHA02929 N1R/p28-like protein; 33.6 18 0.0004 27.8 0.7 11 20-30 215-225 (238)
36 PRK00418 DNA gyrase inhibitor; 33.2 21 0.00045 22.9 0.8 15 20-34 5-19 (62)
37 KOG0317 Predicted E3 ubiquitin 33.1 18 0.00039 29.4 0.5 11 20-30 272-282 (293)
38 TIGR01147 V_ATP_synt_G vacuola 31.5 43 0.00093 23.3 2.1 12 60-71 27-38 (113)
39 PF11347 DUF3148: Protein of u 31.2 2.9 6.2E-05 27.2 -3.5 37 15-58 15-51 (63)
40 PF14473 RD3: RD3 protein 30.6 91 0.002 22.5 3.8 27 38-70 27-53 (133)
41 cd07665 BAR_SNX1 The Bin/Amphi 30.3 86 0.0019 23.9 3.8 24 56-79 194-218 (234)
42 PF08274 PhnA_Zn_Ribbon: PhnA 28.1 17 0.00037 20.2 -0.2 16 21-36 2-17 (30)
43 PF07529 HSA: HSA; InterPro: 26.4 1.4E+02 0.0031 17.5 3.6 19 46-64 41-59 (73)
44 PF13445 zf-RING_UBOX: RING-ty 26.3 24 0.00052 20.5 0.2 6 24-29 1-6 (43)
45 PF08031 BBE: Berberine and be 26.1 71 0.0015 18.3 2.1 23 54-76 15-37 (47)
46 smart00394 RIIa RIIalpha, Regu 25.9 35 0.00075 18.7 0.8 13 49-62 25-37 (38)
47 KOG4739 Uncharacterized protei 25.7 33 0.00071 26.8 0.8 17 15-33 32-48 (233)
48 PF05310 Tenui_NS3: Tenuivirus 25.4 18 0.00039 27.7 -0.6 32 2-33 79-110 (186)
49 PF12107 VEK-30: Plasminogen ( 25.4 68 0.0015 16.3 1.7 10 55-64 5-14 (17)
50 PF03884 DUF329: Domain of unk 24.9 26 0.00056 21.9 0.1 12 22-33 3-14 (57)
51 KOG3466 NADH:ubiquinone oxidor 24.8 61 0.0013 24.4 2.1 22 36-57 53-74 (157)
52 PF10212 TTKRSYEDQ: Predicted 23.2 91 0.002 27.1 3.1 46 30-76 284-331 (518)
53 PF12907 zf-met2: Zinc-binding 23.0 29 0.00063 20.4 0.1 9 22-30 2-10 (40)
54 PRK11088 rrmA 23S rRNA methylt 23.0 33 0.00072 25.0 0.4 9 23-31 4-12 (272)
55 PHA02926 zinc finger-like prot 23.0 36 0.00079 27.0 0.6 10 22-31 220-229 (242)
56 KOG4275 Predicted E3 ubiquitin 22.4 28 0.0006 29.0 -0.1 10 22-31 332-341 (350)
57 PF15176 LRR19-TM: Leucine-ric 22.3 18 0.0004 25.4 -1.0 8 22-29 38-45 (102)
58 cd07630 BAR_SNX_like The Bin/A 22.2 1.6E+02 0.0034 21.7 3.8 25 55-79 159-184 (198)
59 PF10446 DUF2457: Protein of u 22.0 52 0.0011 28.3 1.4 20 34-53 427-446 (458)
60 PF10367 Vps39_2: Vacuolar sor 21.9 47 0.001 20.2 0.9 12 19-30 76-87 (109)
61 smart00734 ZnF_Rad18 Rad18-lik 21.7 38 0.00082 17.8 0.4 9 22-30 2-10 (26)
62 PF11500 Cut12: Spindle pole b 21.7 2.1E+02 0.0045 21.0 4.3 13 52-64 69-81 (152)
63 PF13961 DUF4219: Domain of un 21.4 1.1E+02 0.0023 16.1 2.1 18 52-74 7-24 (27)
64 PLN03208 E3 ubiquitin-protein 21.3 46 0.00099 25.3 0.9 12 20-31 67-78 (193)
65 PF13453 zf-TFIIB: Transcripti 21.1 39 0.00084 18.8 0.3 32 23-57 1-32 (41)
66 PF13166 AAA_13: AAA domain 20.3 3.4E+02 0.0073 22.4 5.7 20 11-30 245-264 (712)
No 1
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=83.78 E-value=0.53 Score=31.69 Aligned_cols=24 Identities=29% Similarity=0.722 Sum_probs=17.7
Q ss_pred hhcccccCCCCCCCcccccccccC
Q 035580 11 IVDGLKAAEPKEKCPLCREAGVYE 34 (83)
Q Consensus 11 i~~GlK~A~~~~KCPlCRe~gVy~ 34 (83)
|.+=|.+.+.+..||+||++-+|.
T Consensus 61 I~kWl~~~~~~~~CPmCR~~w~~k 84 (85)
T PF12861_consen 61 ILKWLSTQSSKGQCPMCRQPWKFK 84 (85)
T ss_pred HHHHHccccCCCCCCCcCCeeeeC
Confidence 334456666788999999987764
No 2
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=78.60 E-value=0.93 Score=25.75 Aligned_cols=11 Identities=55% Similarity=1.416 Sum_probs=9.6
Q ss_pred CCCCCcccccc
Q 035580 20 PKEKCPLCREA 30 (83)
Q Consensus 20 ~~~KCPlCRe~ 30 (83)
...+||+||++
T Consensus 36 ~~~~CP~Cr~~ 46 (50)
T PF13920_consen 36 RKKKCPICRQP 46 (50)
T ss_dssp TTSBBTTTTBB
T ss_pred cCCCCCcCChh
Confidence 67899999986
No 3
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=73.52 E-value=1.1 Score=36.66 Aligned_cols=24 Identities=29% Similarity=0.951 Sum_probs=15.1
Q ss_pred CcccccchhhhhcccccCCCCCCCcccccc
Q 035580 1 MCACSAASVTIVDGLKAAEPKEKCPLCREA 30 (83)
Q Consensus 1 ~CACsAASV~i~~GlK~A~~~~KCPlCRe~ 30 (83)
+|-||+-+=... -..-+|||||++
T Consensus 311 LCLCs~Ca~~Lr------~q~n~CPICRqp 334 (349)
T KOG4265|consen 311 LCLCSGCAKSLR------YQTNNCPICRQP 334 (349)
T ss_pred hehhHhHHHHHH------HhhcCCCccccc
Confidence 366666443332 345689999996
No 4
>PRK01343 zinc-binding protein; Provisional
Probab=69.37 E-value=3.3 Score=26.18 Aligned_cols=19 Identities=21% Similarity=0.660 Sum_probs=15.6
Q ss_pred ccccCCCCCCCcccccccc
Q 035580 14 GLKAAEPKEKCPLCREAGV 32 (83)
Q Consensus 14 GlK~A~~~~KCPlCRe~gV 32 (83)
+.+...|..+||+|+.+-+
T Consensus 2 ~~~~~~p~~~CP~C~k~~~ 20 (57)
T PRK01343 2 KVEPLRPTRPCPECGKPST 20 (57)
T ss_pred CcccCCCCCcCCCCCCcCc
Confidence 4667778999999999855
No 5
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=62.93 E-value=3.8 Score=22.92 Aligned_cols=11 Identities=45% Similarity=1.189 Sum_probs=9.1
Q ss_pred CCCCCCccccc
Q 035580 19 EPKEKCPLCRE 29 (83)
Q Consensus 19 ~~~~KCPlCRe 29 (83)
....+||+||+
T Consensus 34 ~~~~~CP~C~k 44 (44)
T PF14634_consen 34 GKSVKCPICRK 44 (44)
T ss_pred CCCCCCcCCCC
Confidence 56789999985
No 6
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=61.92 E-value=2.6 Score=27.49 Aligned_cols=11 Identities=36% Similarity=1.002 Sum_probs=9.3
Q ss_pred CCCCCcccccc
Q 035580 20 PKEKCPLCREA 30 (83)
Q Consensus 20 ~~~KCPlCRe~ 30 (83)
-...|||||.+
T Consensus 42 ~~g~CPiCRap 52 (62)
T KOG4172|consen 42 LHGCCPICRAP 52 (62)
T ss_pred cCCcCcchhhH
Confidence 57889999976
No 7
>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A ....
Probab=59.25 E-value=3.2 Score=22.82 Aligned_cols=7 Identities=57% Similarity=1.811 Sum_probs=5.1
Q ss_pred CCCcccc
Q 035580 22 EKCPLCR 28 (83)
Q Consensus 22 ~KCPlCR 28 (83)
.+||+||
T Consensus 38 ~~CP~CR 44 (44)
T PF13639_consen 38 NSCPVCR 44 (44)
T ss_dssp SB-TTTH
T ss_pred CcCCccC
Confidence 4999998
No 8
>PF04423 Rad50_zn_hook: Rad50 zinc hook motif; InterPro: IPR007517 The Mre11 complex (Mre11 Rad50 Nbs1) is central to chromosomal maintenance and functions in homologous recombination, telomere maintenance and sister chromatid association. The Rad50 coiled-coil region contains a dimer interface at the apex of the coiled coils in which pairs of conserved Cys-X-X-Cys motifs form interlocking hooks that bind one Zn ion. This alignment includes the zinc hook motif and a short stretch of coiled-coil on either side.; GO: 0004518 nuclease activity, 0005524 ATP binding, 0008270 zinc ion binding, 0006281 DNA repair; PDB: 1L8D_B.
Probab=57.83 E-value=3.1 Score=24.35 Aligned_cols=10 Identities=50% Similarity=1.129 Sum_probs=5.2
Q ss_pred CCCCcccccc
Q 035580 21 KEKCPLCREA 30 (83)
Q Consensus 21 ~~KCPlCRe~ 30 (83)
+.+||+|..+
T Consensus 20 ~~~CPlC~r~ 29 (54)
T PF04423_consen 20 KGCCPLCGRP 29 (54)
T ss_dssp SEE-TTT--E
T ss_pred CCcCCCCCCC
Confidence 3499999764
No 9
>PRK05978 hypothetical protein; Provisional
Probab=52.01 E-value=5.4 Score=28.92 Aligned_cols=18 Identities=22% Similarity=0.720 Sum_probs=14.7
Q ss_pred CCCcccccccccCcchhh
Q 035580 22 EKCPLCREAGVYEGAVHL 39 (83)
Q Consensus 22 ~KCPlCRe~gVy~~AVhl 39 (83)
-|||-|.|..+|.+-..+
T Consensus 34 grCP~CG~G~LF~g~Lkv 51 (148)
T PRK05978 34 GRCPACGEGKLFRAFLKP 51 (148)
T ss_pred CcCCCCCCCccccccccc
Confidence 589999999999865544
No 10
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=51.88 E-value=7 Score=21.21 Aligned_cols=12 Identities=25% Similarity=0.675 Sum_probs=9.5
Q ss_pred CCCCCccccccc
Q 035580 20 PKEKCPLCREAG 31 (83)
Q Consensus 20 ~~~KCPlCRe~g 31 (83)
+..+||+|..+.
T Consensus 16 ~~~~CP~Cg~~~ 27 (33)
T cd00350 16 APWVCPVCGAPK 27 (33)
T ss_pred CCCcCcCCCCcH
Confidence 778999997643
No 11
>PRK06921 hypothetical protein; Provisional
Probab=51.79 E-value=80 Score=23.65 Aligned_cols=50 Identities=22% Similarity=0.430 Sum_probs=31.0
Q ss_pred hhhcccccCCCCCCCccccccccc----Ccc--------hhhHHHhHHHhhhh--HHHHHHHHH
Q 035580 10 TIVDGLKAAEPKEKCPLCREAGVY----EGA--------VHLDELNLLLSRSC--QEYWEERLK 59 (83)
Q Consensus 10 ~i~~GlK~A~~~~KCPlCRe~gVy----~~A--------Vhl~EL~lLlk~rc--~eYW~eRl~ 59 (83)
+.--|..+.++.-.||.|.-.|.+ .+. ..-.-++.+++.+- +.|.+..+.
T Consensus 21 l~~~g~~~~~~~~~Cp~C~dtG~i~~~~~~~~~~~~C~C~~~~~~~~~~~~s~i~~~~~~~~F~ 84 (266)
T PRK06921 21 TTTKPEESDAERYDCPKCKDRGIIIYRRNTAEVWRQCECVEQRKIERLLKASEITEAFRKLTFK 84 (266)
T ss_pred HHhCCCCCcCCCCCCCCCCCCEEEEeecCCCcceeeCccHHHHHHHHHHHHcCCCHHHHhhhhh
Confidence 444577666777889999999988 332 12234555666554 455555553
No 12
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=51.17 E-value=8.1 Score=19.48 Aligned_cols=11 Identities=55% Similarity=1.274 Sum_probs=8.4
Q ss_pred CCCCCcccccc
Q 035580 20 PKEKCPLCREA 30 (83)
Q Consensus 20 ~~~KCPlCRe~ 30 (83)
...+||+||..
T Consensus 34 ~~~~Cp~C~~~ 44 (45)
T cd00162 34 GKNTCPLCRTP 44 (45)
T ss_pred CcCCCCCCCCc
Confidence 46689999863
No 13
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=50.85 E-value=8 Score=26.51 Aligned_cols=23 Identities=26% Similarity=0.732 Sum_probs=17.3
Q ss_pred hhcccccCCCCCCCccccccccc
Q 035580 11 IVDGLKAAEPKEKCPLCREAGVY 33 (83)
Q Consensus 11 i~~GlK~A~~~~KCPlCRe~gVy 33 (83)
|..=|-+-.....||+|||.=++
T Consensus 60 I~~wl~~~tsq~~CPmcRq~~~~ 82 (84)
T KOG1493|consen 60 ILKWLNTPTSQGQCPMCRQTWQF 82 (84)
T ss_pred HHHHhcCccccccCCcchheeEe
Confidence 55566677778999999997554
No 14
>PF04431 Pec_lyase_N: Pectate lyase, N terminus; InterPro: IPR007524 This region is found N-terminal to the pectate lyase domain (IPR002022 from INTERPRO) in some plant pectate lyase enzymes.; GO: 0030570 pectate lyase activity
Probab=50.47 E-value=20 Score=22.39 Aligned_cols=15 Identities=40% Similarity=0.820 Sum_probs=11.4
Q ss_pred HHHHHHHHHHHHHHH
Q 035580 51 QEYWEERLKMERVAR 65 (83)
Q Consensus 51 ~eYW~eRl~~ER~e~ 65 (83)
-|||++|-.+-|..-
T Consensus 6 DeyW~~Ra~eA~~~a 20 (56)
T PF04431_consen 6 DEYWQKRAEEARKAA 20 (56)
T ss_pred HHHHHHHHHHHHHHH
Confidence 489999987776543
No 15
>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=46.72 E-value=9.7 Score=21.07 Aligned_cols=18 Identities=44% Similarity=0.929 Sum_probs=12.0
Q ss_pred hhcccccCCCCCCCccccccc
Q 035580 11 IVDGLKAAEPKEKCPLCREAG 31 (83)
Q Consensus 11 i~~GlK~A~~~~KCPlCRe~g 31 (83)
|++|- .+..+||+|-.+.
T Consensus 11 i~~g~---~~p~~CP~Cg~~~ 28 (34)
T cd00729 11 IHEGE---EAPEKCPICGAPK 28 (34)
T ss_pred EeECC---cCCCcCcCCCCch
Confidence 45553 2556999998753
No 16
>PF14411 LHH: A nuclease of the HNH/ENDO VII superfamily with conserved LHH
Probab=46.70 E-value=11 Score=24.67 Aligned_cols=12 Identities=33% Similarity=0.590 Sum_probs=8.8
Q ss_pred hhHHHHHHHHHH
Q 035580 49 SCQEYWEERLKM 60 (83)
Q Consensus 49 rc~eYW~eRl~~ 60 (83)
-=++||++|...
T Consensus 68 ~r~~YWk~Ra~~ 79 (81)
T PF14411_consen 68 WRREYWKWRAEE 79 (81)
T ss_pred HHHHHHHHHHHc
Confidence 346899998754
No 17
>PF11433 DUF3198: Protein of unknown function (DUF3198); InterPro: IPR024504 This domain is found at the C-terminal of a family of archaeal proteins annotated as membrane proteins.; PDB: 1X9B_A.
Probab=46.30 E-value=38 Score=21.40 Aligned_cols=28 Identities=36% Similarity=0.642 Sum_probs=19.7
Q ss_pred hhHHHhHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHH
Q 035580 38 HLDELNLLLSRSCQEYWEERLKMERVARVRQAKEHWE 74 (83)
Q Consensus 38 hl~EL~lLlk~rc~eYW~eRl~~ER~e~vkq~KE~wd 74 (83)
||.||.-|-++--..| .+|+.++|+-|.
T Consensus 22 nL~ELE~is~rlg~~Y---------~~~LeeaK~kWk 49 (51)
T PF11433_consen 22 NLTELERISKRLGKSY---------QIRLEEAKEKWK 49 (51)
T ss_dssp HHHHHHHHHHHH-SHH---------HHHHHHHHHHH-
T ss_pred hHHHHHHHHHHHchHH---------HHHHHHHHHhhc
Confidence 7888888877666665 345788999985
No 18
>PF02891 zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR004181 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 entry represents MIZ-type zinc finger domains. Miz1 (Msx-interacting-zinc finger) is a zinc finger-containing protein with homology to the yeast protein, Nfi-1. Miz1 is a sequence specific DNA binding protein that can function as a positive-acting transcription factor. Miz1 binds to the homeobox protein Msx2, enhancing the specific DNA-binding ability of Msx2 []. Other proteins containing this domain include the human pias family (protein inhibitor of activated STAT protein). More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3I2D_A.
Probab=44.54 E-value=8.1 Score=22.81 Aligned_cols=11 Identities=55% Similarity=1.359 Sum_probs=3.8
Q ss_pred CCCCCcccccc
Q 035580 20 PKEKCPLCREA 30 (83)
Q Consensus 20 ~~~KCPlCRe~ 30 (83)
+.-+||+|.++
T Consensus 40 ~~W~CPiC~~~ 50 (50)
T PF02891_consen 40 PKWKCPICNKP 50 (50)
T ss_dssp ---B-TTT---
T ss_pred CCeECcCCcCc
Confidence 34789999874
No 19
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=44.26 E-value=5.7 Score=32.79 Aligned_cols=11 Identities=36% Similarity=0.990 Sum_probs=8.7
Q ss_pred CCCcccccccc
Q 035580 22 EKCPLCREAGV 32 (83)
Q Consensus 22 ~KCPlCRe~gV 32 (83)
.+||+||+.+.
T Consensus 337 ~~CPvCR~rI~ 347 (355)
T KOG1571|consen 337 PQCPVCRQRIR 347 (355)
T ss_pred CCCchhHHHHH
Confidence 34999999864
No 20
>PF02197 RIIa: Regulatory subunit of type II PKA R-subunit; InterPro: IPR003117 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases. Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. In the absence of cAMP, Protein Kinase A (PKA) exists as an equimolar tetramer of regulatory (R) and catalytic (C) subunits []. In addition to its role as an inhibitor of the C subunit, the R subunit anchors the holoenzyme to specific intracellular locations and prevents the C subunit from entering the nucleus. All R subunits have a conserved domain structure consisting of the N-terminal dimerization domain, inhibitory region, cAMP-binding domain A and cAMP-binding domain B. R subunits interact with C subunits primarily through the inhibitory site. The cAMP-binding domains show extensive sequence similarity and bind cAMP cooperatively. Two types of regulatory (R) subunits exist - types I and I - which differ in molecular weight, sequence, autophosphorylation cabaility, cellular location and tissue distribution. Types I and II were further sub-divided into alpha and beta subtypes, based mainly on sequence similarity. This entry represents types I-alpha, I-beta, II-alpha and II-beta regulatory subunits of PKA proteins. These subunits contain the dimerisation interface and binding site for A-kinase-anchoring proteins (AKAPs).; GO: 0008603 cAMP-dependent protein kinase regulator activity, 0007165 signal transduction; PDB: 2IZY_E 1R2A_A 1L6E_A 2IZX_B 2KYG_A 2EZW_B 3IM4_B 3IM3_A 4F9K_C 2HWN_B ....
Probab=42.51 E-value=23 Score=19.96 Aligned_cols=14 Identities=29% Similarity=0.672 Sum_probs=12.0
Q ss_pred hhHHHHHHHHHHHHH
Q 035580 49 SCQEYWEERLKMERV 63 (83)
Q Consensus 49 rc~eYW~eRl~~ER~ 63 (83)
-|.+|+ ++|.++|.
T Consensus 25 F~a~yF-~~L~~~R~ 38 (38)
T PF02197_consen 25 FAADYF-EKLEKQRA 38 (38)
T ss_dssp HHHHHH-HHHHHHHC
T ss_pred HHHHHH-HHHHHhhC
Confidence 588999 99999983
No 21
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=42.43 E-value=12 Score=22.80 Aligned_cols=12 Identities=42% Similarity=0.999 Sum_probs=6.4
Q ss_pred CCCCCCcccccc
Q 035580 19 EPKEKCPLCREA 30 (83)
Q Consensus 19 ~~~~KCPlCRe~ 30 (83)
+...+||-||++
T Consensus 35 ~~~g~CPgCr~~ 46 (48)
T PF14570_consen 35 NEGGRCPGCREP 46 (48)
T ss_dssp SS-SB-TTT--B
T ss_pred ccCCCCCCCCCC
Confidence 457899999985
No 22
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=40.99 E-value=13 Score=27.42 Aligned_cols=13 Identities=38% Similarity=0.943 Sum_probs=10.4
Q ss_pred CCCCCCccccccc
Q 035580 19 EPKEKCPLCREAG 31 (83)
Q Consensus 19 ~~~~KCPlCRe~g 31 (83)
.|..+||+|-.+.
T Consensus 147 e~P~~CPiCga~k 159 (166)
T COG1592 147 EAPEVCPICGAPK 159 (166)
T ss_pred CCCCcCCCCCChH
Confidence 6788999997653
No 23
>PF07146 DUF1389: Protein of unknown function (DUF1389); InterPro: IPR010792 This family consists of several hypothetical bacterial proteins, which seem to be specific to Chlamydia pneumoniae (Chlamydophila pneumoniae). Members of this family are typically around 400 residues in length. The function of this family is unknown.
Probab=39.08 E-value=18 Score=28.98 Aligned_cols=24 Identities=25% Similarity=0.740 Sum_probs=21.4
Q ss_pred cchhhHHHhHHHhhhhHHHHHHHH
Q 035580 35 GAVHLDELNLLLSRSCQEYWEERL 58 (83)
Q Consensus 35 ~AVhl~EL~lLlk~rc~eYW~eRl 58 (83)
+-++|..|+-+|-.-||=||..|+
T Consensus 109 ~~~~Lp~Ld~iLlknCPlYwL~kF 132 (314)
T PF07146_consen 109 EGIDLPDLDDILLKNCPLYWLKKF 132 (314)
T ss_pred cccCCCCHHHHHHHcCCHHHHHHH
Confidence 456788999999999999999998
No 24
>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 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 domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....
Probab=38.59 E-value=13 Score=23.12 Aligned_cols=6 Identities=83% Similarity=2.184 Sum_probs=4.6
Q ss_pred CCcccc
Q 035580 23 KCPLCR 28 (83)
Q Consensus 23 KCPlCR 28 (83)
.||+||
T Consensus 68 ~CP~CR 73 (73)
T PF12678_consen 68 TCPLCR 73 (73)
T ss_dssp B-TTSS
T ss_pred cCCCCC
Confidence 899998
No 25
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=38.54 E-value=20 Score=20.29 Aligned_cols=19 Identities=11% Similarity=0.029 Sum_probs=12.7
Q ss_pred CCCCcccccccccCcchhh
Q 035580 21 KEKCPLCREAGVYEGAVHL 39 (83)
Q Consensus 21 ~~KCPlCRe~gVy~~AVhl 39 (83)
+.+||+|++.=-..+.+.+
T Consensus 35 ~~~cP~~~~~~~~~~l~~~ 53 (63)
T smart00504 35 HGTDPVTGQPLTHEDLIPN 53 (63)
T ss_pred CCCCCCCcCCCChhhceeC
Confidence 5689999987544444443
No 26
>PF09654 DUF2396: Protein of unknown function (DUF2396); InterPro: IPR013472 These conserved hypothetical proteins have so far been found only in the Cyanobacteria. They are about 170 amino acids long and contain a CxxCx(14)CxxH motif near the N terminus.
Probab=37.70 E-value=3.9 Score=30.75 Aligned_cols=39 Identities=33% Similarity=0.653 Sum_probs=29.0
Q ss_pred CCCCCCcccccc---------------cccCcchhhHHHhHHHhhhhHHHHHHH
Q 035580 19 EPKEKCPLCREA---------------GVYEGAVHLDELNLLLSRSCQEYWEER 57 (83)
Q Consensus 19 ~~~~KCPlCRe~---------------gVy~~AVhl~EL~lLlk~rc~eYW~eR 57 (83)
-|+-.||.|||. |.|+.--.-.||--|-+.|+=--|+.+
T Consensus 4 Gpei~CPhCRq~ipALtLTDtYLC~rHGaFEAdp~t~eLVHLqSgR~Wr~W~~~ 57 (161)
T PF09654_consen 4 GPEIQCPHCRQTIPALTLTDTYLCPRHGAFEADPKTGELVHLQSGRHWRLWEGE 57 (161)
T ss_pred CCcCcCchhhcccchheecceeeccCccccccCCCCCceEEeecCceeeeccch
Confidence 367899999996 888776666777667777776666543
No 27
>PF04710 Pellino: Pellino; InterPro: IPR006800 Pellino is involved in Toll-like signalling pathways, and associates with the kinase domain of the Pelle Ser/Thr kinase [, , ].; PDB: 3EGB_B 3EGA_A.
Probab=37.24 E-value=11 Score=31.83 Aligned_cols=13 Identities=54% Similarity=1.390 Sum_probs=0.0
Q ss_pred CCCCccccccccc
Q 035580 21 KEKCPLCREAGVY 33 (83)
Q Consensus 21 ~~KCPlCRe~gVy 33 (83)
...||+||++|-|
T Consensus 328 ~r~CPlCr~~g~~ 340 (416)
T PF04710_consen 328 SRTCPLCRQVGPY 340 (416)
T ss_dssp -------------
T ss_pred cccCCCccccCCc
Confidence 6789999999988
No 28
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=36.41 E-value=18 Score=30.57 Aligned_cols=14 Identities=43% Similarity=1.208 Sum_probs=11.3
Q ss_pred CCCCCccccccccc
Q 035580 20 PKEKCPLCREAGVY 33 (83)
Q Consensus 20 ~~~KCPlCRe~gVy 33 (83)
.+-+||+||..|-|
T Consensus 340 ~~r~CPmC~~~gp~ 353 (429)
T KOG3842|consen 340 RERECPMCRVVGPY 353 (429)
T ss_pred ccCcCCeeeeecce
Confidence 36799999988765
No 29
>PF09946 DUF2178: Predicted membrane protein (DUF2178); InterPro: IPR019235 This entry, found in various hypothetical bacterial and archaeal proteins, has no known function, but contains several predicted transmembrane helices.
Probab=35.71 E-value=57 Score=22.07 Aligned_cols=31 Identities=19% Similarity=0.260 Sum_probs=23.8
Q ss_pred HHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 035580 44 LLLSRSCQEYWEERLKMERVARVRQAKEHWESQCR 78 (83)
Q Consensus 44 lLlk~rc~eYW~eRl~~ER~e~vkq~KE~wd~Q~~ 78 (83)
.++++|.+| -+..||.+|+.+.--++-.|.-
T Consensus 42 ~~~~~~v~~----v~eDER~~~I~ekAs~~Tl~V~ 72 (111)
T PF09946_consen 42 YLYRRRVED----VVEDERTERISEKASRRTLQVF 72 (111)
T ss_pred HHHHHhcCc----chhhHHHHHHHHHHHHHHHHHH
Confidence 445566655 7899999999998888877753
No 30
>TIGR02652 conserved hypothetical protein TIGR02652, cyanobacterial. Members of this family of conserved hypothetical proteins are found, so far, only in the Cyanobacteria. Members are about 170 amino acids long and share a motif CxxCx(14)CxxH near the amino end.
Probab=34.77 E-value=4.4 Score=30.52 Aligned_cols=38 Identities=34% Similarity=0.660 Sum_probs=28.4
Q ss_pred CCCCCCcccccc---------------cccCcchhhHHHhHHHhhhhHHHHHH
Q 035580 19 EPKEKCPLCREA---------------GVYEGAVHLDELNLLLSRSCQEYWEE 56 (83)
Q Consensus 19 ~~~~KCPlCRe~---------------gVy~~AVhl~EL~lLlk~rc~eYW~e 56 (83)
-|+-.||.|||. |.|+.--.-.||--|-+-|+=--|+.
T Consensus 7 Gpei~CPhCRQ~ipALtLTDtYLC~rHGaFEAdP~t~eLVHLqSgR~Wr~W~g 59 (163)
T TIGR02652 7 GPEIRCPHCRQNIPALTLTDTYLCNRHGAFEADPETGELVHLQSGRRWRLWEG 59 (163)
T ss_pred CCcCcCchhhcccchheecceeeccCCCccccCCCCCceEEeecCceeeeccc
Confidence 377899999997 88877666677766777777666654
No 31
>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function. The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.
Probab=34.18 E-value=19 Score=26.98 Aligned_cols=16 Identities=38% Similarity=0.893 Sum_probs=11.7
Q ss_pred cccCCCCCCCcccccc
Q 035580 15 LKAAEPKEKCPLCREA 30 (83)
Q Consensus 15 lK~A~~~~KCPlCRe~ 30 (83)
-+...++-.||+||-.
T Consensus 74 ~~~~~~~L~CPLCRG~ 89 (162)
T PF07800_consen 74 ESQEQPELACPLCRGE 89 (162)
T ss_pred cccccccccCccccCc
Confidence 3455678899999953
No 32
>PF10386 DUF2441: Protein of unknown function (DUF2441); InterPro: IPR018840 This is a family of highly conserved predicted proteins primarily found in Bacillus species. Structurally they form homo-dimers, but their function is unknown. ; PDB: 2AUA_A.
Probab=33.88 E-value=31 Score=25.49 Aligned_cols=12 Identities=33% Similarity=0.828 Sum_probs=9.3
Q ss_pred HHHHHHHHHHHH
Q 035580 63 VARVRQAKEHWE 74 (83)
Q Consensus 63 ~e~vkq~KE~wd 74 (83)
.|.+.||++||.
T Consensus 129 ~e~~e~Ar~YWk 140 (141)
T PF10386_consen 129 SEKIEQAREYWK 140 (141)
T ss_dssp HHHHHHHHHHHC
T ss_pred HHHHHHHHHhhC
Confidence 356779999994
No 33
>PF14926 DUF4498: Domain of unknown function (DUF4498)
Probab=33.80 E-value=13 Score=29.04 Aligned_cols=57 Identities=26% Similarity=0.300 Sum_probs=41.7
Q ss_pred ccccchhhhhcccccCCCCCCCcccccccccCcchhh--------HHHhHHHhhhhHHHHHHHHHHHHHHH
Q 035580 3 ACSAASVTIVDGLKAAEPKEKCPLCREAGVYEGAVHL--------DELNLLLSRSCQEYWEERLKMERVAR 65 (83)
Q Consensus 3 ACsAASV~i~~GlK~A~~~~KCPlCRe~gVy~~AVhl--------~EL~lLlk~rc~eYW~eRl~~ER~e~ 65 (83)
.||+-|..+||=|.+ ++|.|+.|.-.+-.+. +||.-+|-.--.|.-.-=-..||.|=
T Consensus 90 ~ct~~SM~fFDkL~~------~gIvr~~G~i~kC~de~~~~~~vsDeLrk~Ll~edse~y~~fs~~~R~Ef 154 (247)
T PF14926_consen 90 PCTATSMDFFDKLYS------NGIVRESGHIVKCFDEVFDGFLVSDELRKMLLDEDSENYDLFSEEEREEF 154 (247)
T ss_pred cceeeehhhhhhhcc------CCeeccCCcEEechhHhcCCcchhHHHHHHhccccCceeeecCHHHHHHH
Confidence 489999999999988 8899999865555555 89987776655555444445566553
No 34
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=33.66 E-value=14 Score=29.67 Aligned_cols=17 Identities=53% Similarity=0.962 Sum_probs=12.1
Q ss_pred CCCCCcccccccccCcch
Q 035580 20 PKEKCPLCREAGVYEGAV 37 (83)
Q Consensus 20 ~~~KCPlCRe~gVy~~AV 37 (83)
.-.+||+||+- ||+++|
T Consensus 250 k~~~CplCRak-~~pk~v 266 (271)
T COG5574 250 KYEFCPLCRAK-VYPKKV 266 (271)
T ss_pred ccccCchhhhh-ccchhh
Confidence 34579999964 667666
No 35
>PHA02929 N1R/p28-like protein; Provisional
Probab=33.61 E-value=18 Score=27.80 Aligned_cols=11 Identities=45% Similarity=1.241 Sum_probs=8.8
Q ss_pred CCCCCcccccc
Q 035580 20 PKEKCPLCREA 30 (83)
Q Consensus 20 ~~~KCPlCRe~ 30 (83)
....||+||.+
T Consensus 215 ~~~tCPlCR~~ 225 (238)
T PHA02929 215 EKNTCPVCRTP 225 (238)
T ss_pred cCCCCCCCCCE
Confidence 35689999986
No 36
>PRK00418 DNA gyrase inhibitor; Reviewed
Probab=33.17 E-value=21 Score=22.86 Aligned_cols=15 Identities=20% Similarity=0.541 Sum_probs=12.2
Q ss_pred CCCCCcccccccccC
Q 035580 20 PKEKCPLCREAGVYE 34 (83)
Q Consensus 20 ~~~KCPlCRe~gVy~ 34 (83)
...+||+|+..-+|.
T Consensus 5 ~~v~CP~C~k~~~w~ 19 (62)
T PRK00418 5 ITVNCPTCGKPVEWG 19 (62)
T ss_pred ccccCCCCCCccccc
Confidence 457899999998774
No 37
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=33.08 E-value=18 Score=29.35 Aligned_cols=11 Identities=64% Similarity=1.404 Sum_probs=8.1
Q ss_pred CCCCCcccccc
Q 035580 20 PKEKCPLCREA 30 (83)
Q Consensus 20 ~~~KCPlCRe~ 30 (83)
.++-||+||+.
T Consensus 272 ek~eCPlCR~~ 282 (293)
T KOG0317|consen 272 EKAECPLCREK 282 (293)
T ss_pred cccCCCccccc
Confidence 34459999985
No 38
>TIGR01147 V_ATP_synt_G vacuolar ATP synthase, subunit G. This model describes the vacuolar ATP synthase G subunit in eukaryotes and includes members from diverse groups e.g., fungi, plants, parasites etc. V-ATPases are multi-subunit enzymes composed of two functional domains: A transmembrane Vo domain and a peripheral catalytic domain V1. The G subunit is one of the subunits of the catalytic domain. V-ATPases are responsible for the acidification of endosomes and lysosomes, which are part of the central vacuolar system.
Probab=31.50 E-value=43 Score=23.29 Aligned_cols=12 Identities=42% Similarity=0.623 Sum_probs=7.6
Q ss_pred HHHHHHHHHHHH
Q 035580 60 MERVARVRQAKE 71 (83)
Q Consensus 60 ~ER~e~vkq~KE 71 (83)
..|..|+||||+
T Consensus 27 ~~r~~RLKqAK~ 38 (113)
T TIGR01147 27 KRKTKRLKQAKE 38 (113)
T ss_pred HHHHHHHHHHHH
Confidence 356666777664
No 39
>PF11347 DUF3148: Protein of unknown function (DUF3148); InterPro: IPR021495 This family of proteins has no known function.
Probab=31.24 E-value=2.9 Score=27.19 Aligned_cols=37 Identities=32% Similarity=0.693 Sum_probs=30.2
Q ss_pred cccCCCCCCCcccccccccCcchhhHHHhHHHhhhhHHHHHHHH
Q 035580 15 LKAAEPKEKCPLCREAGVYEGAVHLDELNLLLSRSCQEYWEERL 58 (83)
Q Consensus 15 lK~A~~~~KCPlCRe~gVy~~AVhl~EL~lLlk~rc~eYW~eRl 58 (83)
||+|+|- |.+|-++ -|...|....+.+|=.+||.=|+
T Consensus 15 lKTAdpM---PmLRp~d----lv~~ge~G~i~~rrp~~~w~VRf 51 (63)
T PF11347_consen 15 LKTADPM---PMLRPPD----LVKIGEVGRIVDRRPGDYWAVRF 51 (63)
T ss_pred eeccCCc---cccCCcC----ccccCCcEEEEEecCCCEEEEEE
Confidence 7888885 8888855 57789999999999999996554
No 40
>PF14473 RD3: RD3 protein
Probab=30.60 E-value=91 Score=22.49 Aligned_cols=27 Identities=33% Similarity=0.384 Sum_probs=22.5
Q ss_pred hhHHHhHHHhhhhHHHHHHHHHHHHHHHHHHHH
Q 035580 38 HLDELNLLLSRSCQEYWEERLKMERVARVRQAK 70 (83)
Q Consensus 38 hl~EL~lLlk~rc~eYW~eRl~~ER~e~vkq~K 70 (83)
-|.||..-||++ ||++.||.+..|++|
T Consensus 27 Lm~EL~~~lke~------Er~~~Ere~E~r~~~ 53 (133)
T PF14473_consen 27 LMRELEWQLKER------ERQQRERENEERKRK 53 (133)
T ss_pred HHHHHHHHHHHH------HHHHHHHHHHHHHHh
Confidence 578999999986 889999988877766
No 41
>cd07665 BAR_SNX1 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 1. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. SNX1 is a component of the retromer complex, a membrane coat multimeric complex required for endosomal retrieval of lysosomal hydrolase receptors to the Golgi. The retromer consists of a cargo-recognition subcomplex and a subcomplex formed by a dimer of sorting nexins (SNX1 and/or SNX2), which ensures effcient cargo sorting by facilitating proper membrane localization
Probab=30.27 E-value=86 Score=23.91 Aligned_cols=24 Identities=13% Similarity=0.155 Sum_probs=20.2
Q ss_pred HHHHHHHHHHHHH-HHHHHHHHhhh
Q 035580 56 ERLKMERVARVRQ-AKEHWESQCRA 79 (83)
Q Consensus 56 eRl~~ER~e~vkq-~KE~wd~Q~~~ 79 (83)
+|++.||++..|. ..+|+++|...
T Consensus 194 ~rFe~er~~Dfk~~v~~fles~ie~ 218 (234)
T cd07665 194 IRFEKEKSKDFKNHIIKYLETLLHS 218 (234)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 7999999999998 67888888654
No 42
>PF08274 PhnA_Zn_Ribbon: PhnA Zinc-Ribbon ; InterPro: IPR013987 The PhnA protein family includes the uncharacterised Escherichia coli protein PhnA and its homologues. The E. coli phnA gene is part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage []. The protein is not related to the characterised phosphonoacetate hydrolase designated PhnA []. This entry represents the N-terminal domain of PhnA, which is predicted to form a zinc-ribbon.; PDB: 2AKL_A.
Probab=28.11 E-value=17 Score=20.16 Aligned_cols=16 Identities=44% Similarity=0.883 Sum_probs=5.3
Q ss_pred CCCCcccccccccCcc
Q 035580 21 KEKCPLCREAGVYEGA 36 (83)
Q Consensus 21 ~~KCPlCRe~gVy~~A 36 (83)
..|||.|-..-.|.+-
T Consensus 2 ~p~Cp~C~se~~y~D~ 17 (30)
T PF08274_consen 2 LPKCPLCGSEYTYEDG 17 (30)
T ss_dssp S---TTT-----EE-S
T ss_pred CCCCCCCCCcceeccC
Confidence 4699999999888654
No 43
>PF07529 HSA: HSA; InterPro: IPR006562 This domain of unknown function is found in helicases and other DNA-binding proteins of eukaryotes [].
Probab=26.37 E-value=1.4e+02 Score=17.54 Aligned_cols=19 Identities=26% Similarity=0.447 Sum_probs=12.2
Q ss_pred HhhhhHHHHHHHHHHHHHH
Q 035580 46 LSRSCQEYWEERLKMERVA 64 (83)
Q Consensus 46 lk~rc~eYW~eRl~~ER~e 64 (83)
|.+.|..||..+-..|-.+
T Consensus 41 ~a~~v~~~~~~~~~~~~k~ 59 (73)
T PF07529_consen 41 LAKAVAQYHKNREKEEQKR 59 (73)
T ss_pred HHHHHHHHHHhhHHHHHHH
Confidence 5567889997665544333
No 44
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=26.32 E-value=24 Score=20.46 Aligned_cols=6 Identities=67% Similarity=2.200 Sum_probs=2.8
Q ss_pred Cccccc
Q 035580 24 CPLCRE 29 (83)
Q Consensus 24 CPlCRe 29 (83)
||||+|
T Consensus 1 CpIc~e 6 (43)
T PF13445_consen 1 CPICKE 6 (43)
T ss_dssp -TTT--
T ss_pred CCcccc
Confidence 899998
No 45
>PF08031 BBE: Berberine and berberine like ; InterPro: IPR012951 This domain is found in the berberine bridge and berberine bridge-like enzymes, which are involved in the biosynthesis of numerous isoquinoline alkaloids. They catalyse the transformation of the N-methyl group of (S)-reticuline into the C-8 berberine bridge carbon of (S)-scoulerine [].; GO: 0016491 oxidoreductase activity, 0050660 flavin adenine dinucleotide binding, 0055114 oxidation-reduction process; PDB: 2IPI_A 2Y3S_A 2Y3R_D 2Y08_B 2Y4G_A 3D2H_A 3FW9_A 3FW8_A 3FWA_A 3D2J_A ....
Probab=26.07 E-value=71 Score=18.27 Aligned_cols=23 Identities=26% Similarity=0.556 Sum_probs=14.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 035580 54 WEERLKMERVARVRQAKEHWESQ 76 (83)
Q Consensus 54 W~eRl~~ER~e~vkq~KE~wd~Q 76 (83)
|.+..-.+-.+|++++|.-||-.
T Consensus 15 ~~~~yyg~n~~rL~~iK~~yDP~ 37 (47)
T PF08031_consen 15 WQEAYYGENYDRLRAIKRKYDPD 37 (47)
T ss_dssp HHHHHHGGGHHHHHHHHHHH-TT
T ss_pred HHHHHhchhHHHHHHHHHHhCcc
Confidence 34444445577788888888843
No 46
>smart00394 RIIa RIIalpha, Regulatory subunit portion of type II PKA R-subunit. RIIalpha, Regulatory subunit portion of type II PKA R-subunit. Contains dimerisation interface and binding site for A-kinase-anchoring proteins (AKAPs).
Probab=25.89 E-value=35 Score=18.72 Aligned_cols=13 Identities=31% Similarity=0.705 Sum_probs=10.4
Q ss_pred hhHHHHHHHHHHHH
Q 035580 49 SCQEYWEERLKMER 62 (83)
Q Consensus 49 rc~eYW~eRl~~ER 62 (83)
=|.+|. ++|+.+|
T Consensus 25 f~~~yF-~kL~~~r 37 (38)
T smart00394 25 FAADYF-EKLEEQR 37 (38)
T ss_pred HHHHHH-HHHHHcc
Confidence 477898 8888877
No 47
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=25.74 E-value=33 Score=26.79 Aligned_cols=17 Identities=47% Similarity=1.140 Sum_probs=11.9
Q ss_pred cccCCCCCCCccccccccc
Q 035580 15 LKAAEPKEKCPLCREAGVY 33 (83)
Q Consensus 15 lK~A~~~~KCPlCRe~gVy 33 (83)
.|+..++ .||+|+.. |+
T Consensus 32 ~k~~~~~-~C~lCkk~-ir 48 (233)
T KOG4739|consen 32 LKASSPD-VCPLCKKS-IR 48 (233)
T ss_pred cccCCcc-ccccccce-ee
Confidence 3444444 99999998 54
No 48
>PF05310 Tenui_NS3: Tenuivirus movement protein; InterPro: IPR007974 This family of ssRNA negative-strand crop plant tenuivirus proteins appears to combine PV2 [], NS2 [], NS3, and PV3 proteins. Plant viruses encode specific proteins known as movement proteins (MPs) to control their spread through plasmodesmata (PD) in walls between cells as well as from leaf to leaf via vascular-dependent transport. During this movement process, the virally encoded MPs interact with viral genomes for transport from the viral replication sites to the PDs in the walls of infected cells along the cytoskeleton and/or endoplasmic reticulum (ER) network. The virus is then thought to move through the PDs in the form of MP-associated ribonucleoprotein complexes or as virions []. The NS3 protein appears to function as an RNA silencing suppressor [].; PDB: 3AJF_A.
Probab=25.38 E-value=18 Score=27.72 Aligned_cols=32 Identities=31% Similarity=0.387 Sum_probs=10.8
Q ss_pred cccccchhhhhcccccCCCCCCCccccccccc
Q 035580 2 CACSAASVTIVDGLKAAEPKEKCPLCREAGVY 33 (83)
Q Consensus 2 CACsAASV~i~~GlK~A~~~~KCPlCRe~gVy 33 (83)
|+++++-+.++--+|-+.|.-||-+|+.+.-+
T Consensus 79 ~~~vs~~~~~~l~lkp~~~~tKCWlCdk~~~~ 110 (186)
T PF05310_consen 79 IMLVSAYSNIFLSLKPRVPKTKCWLCDKPSYQ 110 (186)
T ss_dssp HHHHHHHHGGGGT-------------------
T ss_pred HHHHHHhhhheeeccCCCCccceEEecchhhh
Confidence 67788888899999999999999999965433
No 49
>PF12107 VEK-30: Plasminogen (Pg) ligand in fibrinolytic pathway; InterPro: IPR021965 Pg is an important mediator of angiostatin production in the fibrinolytic pathway. Pg is made up of five subunit kringle molecules (Pg-K1 to Pg-K5), of which the first three make the protein angiostatin. VEK-30 is a domain of the group A streptococcal protein PAM. It binds to Pg-K2 of angiostatin and activates the molecule to mediate its anti-angiogenic effects. VEK-30 binds to angiostatin via a C-terminal lysine with argininyl and glutamyl side chain residues known as a 'through space isostere' [].; PDB: 2KJ4_B 2DOI_B 2DOH_C 1I5K_D.
Probab=25.36 E-value=68 Score=16.31 Aligned_cols=10 Identities=60% Similarity=0.551 Sum_probs=7.9
Q ss_pred HHHHHHHHHH
Q 035580 55 EERLKMERVA 64 (83)
Q Consensus 55 ~eRl~~ER~e 64 (83)
.|||..||-+
T Consensus 5 LerLknerH~ 14 (17)
T PF12107_consen 5 LERLKNERHD 14 (17)
T ss_dssp HHHHHHHHHH
T ss_pred HHHHHHhccc
Confidence 4789999865
No 50
>PF03884 DUF329: Domain of unknown function (DUF329); InterPro: IPR005584 The biological function of these short proteins is unknown, but they contain four conserved cysteines, suggesting that they all bind zinc. YacG (Q5X8H6 from SWISSPROT) from Escherichia coli has been shown to bind zinc and contains the structural motifs typical of zinc-binding proteins []. The conserved four cysteine motif in these proteins (-C-X(2)-C-X(15)-C-X(3)-C-) is not found in other zinc-binding proteins with known structures.; GO: 0008270 zinc ion binding; PDB: 1LV3_A.
Probab=24.93 E-value=26 Score=21.93 Aligned_cols=12 Identities=33% Similarity=0.946 Sum_probs=6.7
Q ss_pred CCCccccccccc
Q 035580 22 EKCPLCREAGVY 33 (83)
Q Consensus 22 ~KCPlCRe~gVy 33 (83)
.+||+|+.+-++
T Consensus 3 v~CP~C~k~~~~ 14 (57)
T PF03884_consen 3 VKCPICGKPVEW 14 (57)
T ss_dssp EE-TTT--EEE-
T ss_pred ccCCCCCCeecc
Confidence 479999998877
No 51
>KOG3466 consensus NADH:ubiquinone oxidoreductase, NDUFB9/B22 subunit [Energy production and conversion]
Probab=24.76 E-value=61 Score=24.38 Aligned_cols=22 Identities=32% Similarity=0.462 Sum_probs=19.5
Q ss_pred chhhHHHhHHHhhhhHHHHHHH
Q 035580 36 AVHLDELNLLLSRSCQEYWEER 57 (83)
Q Consensus 36 AVhl~EL~lLlk~rc~eYW~eR 57 (83)
.+-|.+...||+--|.|||+-|
T Consensus 53 ~kD~~k~~~LLa~ge~E~w~~r 74 (157)
T KOG3466|consen 53 EKDVDKAIRLLAEGERELWEWR 74 (157)
T ss_pred hhhHHHHHHHHHHHHHHHHhhc
Confidence 3678899999999999999976
No 52
>PF10212 TTKRSYEDQ: Predicted coiled-coil domain-containing protein; InterPro: IPR019348 This entry represents a C-terminal 500 residue region, which contains a conserved TTKRSYEDQ motif. It is found in a family of coiled-coil domain-containing proteins that are conserved from nematodes to humans. These proteins also contain an N-terminal domain with a KLRAQ motif (IPR019343 from INTERPRO). The function of these proteins is not known.
Probab=23.23 E-value=91 Score=27.09 Aligned_cols=46 Identities=30% Similarity=0.484 Sum_probs=29.0
Q ss_pred ccccCcchhhHHHhHHHhhhhHHHHHHHH--HHHHHHHHHHHHHHHHHH
Q 035580 30 AGVYEGAVHLDELNLLLSRSCQEYWEERL--KMERVARVRQAKEHWESQ 76 (83)
Q Consensus 30 ~gVy~~AVhl~EL~lLlk~rc~eYW~eRl--~~ER~e~vkq~KE~wd~Q 76 (83)
-=-|+.||+=.-+ ++.+..-+|=-.+-. -+||.+++.|-||||-..
T Consensus 284 svpy~~a~~n~ri-l~sstes~e~L~qqV~qs~EKIa~LEqEKEHw~LE 331 (518)
T PF10212_consen 284 SVPYEEALANRRI-LLSSTESREGLAQQVQQSQEKIAKLEQEKEHWMLE 331 (518)
T ss_pred cCChHHHHhhhHH-HhhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3458888764432 344445554333333 369999999999999843
No 53
>PF12907 zf-met2: Zinc-binding
Probab=23.03 E-value=29 Score=20.42 Aligned_cols=9 Identities=33% Similarity=1.014 Sum_probs=6.1
Q ss_pred CCCcccccc
Q 035580 22 EKCPLCREA 30 (83)
Q Consensus 22 ~KCPlCRe~ 30 (83)
-+|++||+.
T Consensus 2 i~C~iC~qt 10 (40)
T PF12907_consen 2 IICKICRQT 10 (40)
T ss_pred cCcHHhhHH
Confidence 368888763
No 54
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=23.02 E-value=33 Score=24.99 Aligned_cols=9 Identities=44% Similarity=1.268 Sum_probs=7.4
Q ss_pred CCccccccc
Q 035580 23 KCPLCREAG 31 (83)
Q Consensus 23 KCPlCRe~g 31 (83)
.||+|+++=
T Consensus 4 ~CP~C~~~l 12 (272)
T PRK11088 4 QCPLCHQPL 12 (272)
T ss_pred cCCCCCcch
Confidence 699999863
No 55
>PHA02926 zinc finger-like protein; Provisional
Probab=23.02 E-value=36 Score=27.05 Aligned_cols=10 Identities=40% Similarity=1.188 Sum_probs=8.0
Q ss_pred CCCccccccc
Q 035580 22 EKCPLCREAG 31 (83)
Q Consensus 22 ~KCPlCRe~g 31 (83)
..||+||+.-
T Consensus 220 rsCPiCR~~f 229 (242)
T PHA02926 220 DNCPICRTRF 229 (242)
T ss_pred CcCCCCccee
Confidence 4599999864
No 56
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=22.40 E-value=28 Score=28.99 Aligned_cols=10 Identities=40% Similarity=1.172 Sum_probs=7.8
Q ss_pred CCCccccccc
Q 035580 22 EKCPLCREAG 31 (83)
Q Consensus 22 ~KCPlCRe~g 31 (83)
.-|||||+--
T Consensus 332 ~eCPICRqyi 341 (350)
T KOG4275|consen 332 NECPICRQYI 341 (350)
T ss_pred ccCchHHHHH
Confidence 3799999853
No 57
>PF15176 LRR19-TM: Leucine-rich repeat family 19 TM domain
Probab=22.33 E-value=18 Score=25.37 Aligned_cols=8 Identities=38% Similarity=0.937 Sum_probs=6.8
Q ss_pred CCCccccc
Q 035580 22 EKCPLCRE 29 (83)
Q Consensus 22 ~KCPlCRe 29 (83)
+|||+||.
T Consensus 38 aKC~~~~k 45 (102)
T PF15176_consen 38 AKCPVWYK 45 (102)
T ss_pred HHhHHHHH
Confidence 68999985
No 58
>cd07630 BAR_SNX_like The Bin/Amphiphysin/Rvs (BAR) domain of uncharacterized Sorting Nexins. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. This subfamily is composed of uncharacterized proteins with similarity to sorting nexins (SNXs), which are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=22.15 E-value=1.6e+02 Score=21.69 Aligned_cols=25 Identities=32% Similarity=0.276 Sum_probs=20.0
Q ss_pred HHHHHHHHHHHHHHH-HHHHHHHhhh
Q 035580 55 EERLKMERVARVRQA-KEHWESQCRA 79 (83)
Q Consensus 55 ~eRl~~ER~e~vkq~-KE~wd~Q~~~ 79 (83)
.+|++.||+..+|.+ .+|.++|.++
T Consensus 159 L~rF~~~Rv~~fk~~l~~~~E~~i~~ 184 (198)
T cd07630 159 LERFHRQRVLELQSALVCYAESQIKN 184 (198)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 378999999988764 7788888765
No 59
>PF10446 DUF2457: Protein of unknown function (DUF2457); InterPro: IPR018853 This entry represents a family of uncharacterised proteins.
Probab=22.00 E-value=52 Score=28.26 Aligned_cols=20 Identities=30% Similarity=0.531 Sum_probs=18.9
Q ss_pred CcchhhHHHhHHHhhhhHHH
Q 035580 34 EGAVHLDELNLLLSRSCQEY 53 (83)
Q Consensus 34 ~~AVhl~EL~lLlk~rc~eY 53 (83)
.+|-.|.||+|+..-||+-|
T Consensus 427 ~GAERMrELGL~mA~r~~ay 446 (458)
T PF10446_consen 427 KGAERMRELGLEMAGRFRAY 446 (458)
T ss_pred chHHHHHHHHHHHhhhhhhc
Confidence 68999999999999999998
No 60
>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].
Probab=21.92 E-value=47 Score=20.24 Aligned_cols=12 Identities=25% Similarity=0.786 Sum_probs=10.0
Q ss_pred CCCCCCcccccc
Q 035580 19 EPKEKCPLCREA 30 (83)
Q Consensus 19 ~~~~KCPlCRe~ 30 (83)
++..+|++|.+.
T Consensus 76 ~~~~~C~vC~k~ 87 (109)
T PF10367_consen 76 TESTKCSVCGKP 87 (109)
T ss_pred CCCCCccCcCCc
Confidence 467899999886
No 61
>smart00734 ZnF_Rad18 Rad18-like CCHC zinc finger. Yeast Rad18p functions with Rad5p in error-free post-replicative DNA repair. This zinc finger is likely to bind nucleic-acids.
Probab=21.69 E-value=38 Score=17.77 Aligned_cols=9 Identities=33% Similarity=1.080 Sum_probs=6.8
Q ss_pred CCCcccccc
Q 035580 22 EKCPLCREA 30 (83)
Q Consensus 22 ~KCPlCRe~ 30 (83)
..||+|-+.
T Consensus 2 v~CPiC~~~ 10 (26)
T smart00734 2 VQCPVCFRE 10 (26)
T ss_pred CcCCCCcCc
Confidence 369999765
No 62
>PF11500 Cut12: Spindle pole body formation-associated protein; InterPro: IPR021589 This is the central coiled-coil region of cut12 also found in other fungi, barring S. cerevisiae. The full protein has two predicted coiled-coil regions, and one consensus phosphorylation site for p34cdc2 and two for MAP kinase. During Schizosaccharomyces japonicus yFS275 mitosis, the duplicated spindle pole bodies (SPBs) nucleate microtubule arrays that interdigitate to form the mitotic spindle. Cut12 is localised to the SPB throughout the cell cycle, predominantly around the inner face of the interphase SPB, adjacent to the nucleus []. Cut12 associates with Fin1 and is important in this context for the activity of Plo1 [].
Probab=21.66 E-value=2.1e+02 Score=21.03 Aligned_cols=13 Identities=23% Similarity=0.662 Sum_probs=7.9
Q ss_pred HHHHHHHHHHHHH
Q 035580 52 EYWEERLKMERVA 64 (83)
Q Consensus 52 eYW~eRl~~ER~e 64 (83)
-|||+++..-|.+
T Consensus 69 kYWK~eFe~Y~~~ 81 (152)
T PF11500_consen 69 KYWKEEFESYHEK 81 (152)
T ss_pred chHHHHHHHHHHH
Confidence 4777777655543
No 63
>PF13961 DUF4219: Domain of unknown function (DUF4219)
Probab=21.44 E-value=1.1e+02 Score=16.07 Aligned_cols=18 Identities=22% Similarity=0.735 Sum_probs=11.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 035580 52 EYWEERLKMERVARVRQAKEHWE 74 (83)
Q Consensus 52 eYW~eRl~~ER~e~vkq~KE~wd 74 (83)
.+|+-||+. .=++++-|+
T Consensus 7 ~~W~~~M~~-----~L~~~~lW~ 24 (27)
T PF13961_consen 7 STWKIRMKA-----YLESQDLWD 24 (27)
T ss_pred HHHHHHHHH-----HHHHcchhh
Confidence 578877765 335555665
No 64
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=21.27 E-value=46 Score=25.28 Aligned_cols=12 Identities=33% Similarity=0.924 Sum_probs=9.4
Q ss_pred CCCCCccccccc
Q 035580 20 PKEKCPLCREAG 31 (83)
Q Consensus 20 ~~~KCPlCRe~g 31 (83)
...+||+||..=
T Consensus 67 ~~~~CPvCR~~I 78 (193)
T PLN03208 67 EPPKCPVCKSDV 78 (193)
T ss_pred CCCcCCCCCCcC
Confidence 456899999864
No 65
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=21.13 E-value=39 Score=18.76 Aligned_cols=32 Identities=28% Similarity=0.651 Sum_probs=15.0
Q ss_pred CCcccccccccCcchhhHHHhHHHhhhhHHHHHHH
Q 035580 23 KCPLCREAGVYEGAVHLDELNLLLSRSCQEYWEER 57 (83)
Q Consensus 23 KCPlCRe~gVy~~AVhl~EL~lLlk~rc~eYW~eR 57 (83)
|||.|+..= ..+.+.++.+-.=.+|...|-..
T Consensus 1 ~CP~C~~~l---~~~~~~~~~id~C~~C~G~W~d~ 32 (41)
T PF13453_consen 1 KCPRCGTEL---EPVRLGDVEIDVCPSCGGIWFDA 32 (41)
T ss_pred CcCCCCccc---ceEEECCEEEEECCCCCeEEccH
Confidence 688887631 12222333333334555555443
No 66
>PF13166 AAA_13: AAA domain
Probab=20.33 E-value=3.4e+02 Score=22.36 Aligned_cols=20 Identities=25% Similarity=0.835 Sum_probs=15.7
Q ss_pred hhcccccCCCCCCCcccccc
Q 035580 11 IVDGLKAAEPKEKCPLCREA 30 (83)
Q Consensus 11 i~~GlK~A~~~~KCPlCRe~ 30 (83)
+-+|+.--+...+||.|.|.
T Consensus 245 v~~G~~~~~~~~~CpfC~q~ 264 (712)
T PF13166_consen 245 VEQGLELHKEGDTCPFCQQE 264 (712)
T ss_pred HHcCccCCCCCCcCCCCCCc
Confidence 45777777777899999994
Done!