Query psy3995
Match_columns 67
No_of_seqs 106 out of 883
Neff 6.8
Searched_HMMs 46136
Date Fri Aug 16 22:40:14 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy3995.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/3995hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF00447 HSF_DNA-bind: HSF-typ 99.9 1.2E-28 2.6E-33 146.8 2.2 58 10-67 1-58 (103)
2 smart00415 HSF heat shock fact 99.9 3.9E-28 8.4E-33 145.5 3.8 61 7-67 1-61 (105)
3 COG5169 HSF1 Heat shock transc 99.9 1.9E-27 4.1E-32 162.7 3.6 67 1-67 3-69 (282)
4 KOG0627|consensus 99.9 1.3E-25 2.8E-30 153.3 5.0 63 5-67 9-71 (304)
5 PF00178 Ets: Ets-domain; Int 97.7 3.3E-05 7.1E-10 45.0 2.6 37 12-48 5-42 (85)
6 smart00413 ETS erythroblast tr 97.5 0.0002 4.2E-09 42.1 4.0 37 12-48 5-42 (87)
7 KOG3806|consensus 96.7 0.0047 1E-07 40.4 4.9 44 7-50 67-111 (177)
8 PF07676 PD40: WD40-like Beta 90.7 0.081 1.8E-06 25.4 0.1 24 17-40 3-26 (39)
9 KOG3805|consensus 75.3 3.7 8.1E-05 29.5 3.0 38 11-48 275-314 (361)
10 PF08675 RNA_bind: RNA binding 69.5 5.2 0.00011 23.5 2.3 27 26-52 35-61 (87)
11 PF10416 IBD: Transcription-in 68.7 5 0.00011 24.5 2.2 44 5-51 24-77 (128)
12 KOG4497|consensus 65.2 5.5 0.00012 29.2 2.1 26 21-48 90-115 (447)
13 PF12657 TFIIIC_delta: Transcr 63.9 7.9 0.00017 24.3 2.5 18 22-39 4-21 (173)
14 KOG2394|consensus 62.5 4.7 0.0001 30.9 1.5 21 26-46 336-356 (636)
15 PF04004 Leo1: Leo1-like prote 62.4 5.8 0.00013 25.4 1.7 19 23-41 65-83 (171)
16 PF09793 AD: Anticodon-binding 61.7 18 0.00038 20.8 3.5 33 5-41 29-61 (91)
17 KOG4497|consensus 60.2 14 0.00029 27.2 3.4 33 11-43 163-199 (447)
18 PF08662 eIF2A: Eukaryotic tra 59.8 8.7 0.00019 24.6 2.2 15 26-40 63-77 (194)
19 KOG1407|consensus 59.4 9.2 0.0002 27.1 2.3 22 25-46 109-130 (313)
20 KOG0284|consensus 52.8 10 0.00022 28.2 1.8 16 26-41 100-115 (464)
21 cd00266 MADS_SRF_like SRF-like 52.8 14 0.00031 20.9 2.1 39 19-59 37-75 (83)
22 KOG3741|consensus 51.4 7.8 0.00017 30.0 1.0 33 7-39 552-584 (655)
23 PRK00304 hypothetical protein; 49.7 31 0.00067 19.7 3.1 37 12-50 38-74 (75)
24 PF02879 PGM_PMM_II: Phosphogl 49.6 16 0.00036 20.7 2.0 33 11-43 71-103 (104)
25 PF11042 DUF2750: Protein of u 49.6 33 0.00071 19.9 3.4 38 10-48 65-102 (104)
26 KOG3330|consensus 47.2 28 0.00061 22.8 3.0 25 25-49 93-118 (183)
27 PF13184 KH_5: NusA-like KH do 46.0 21 0.00047 19.6 2.0 33 10-51 28-60 (69)
28 KOG0294|consensus 44.7 20 0.00044 25.9 2.2 18 24-41 170-187 (362)
29 cd00265 MADS_MEF2_like MEF2 (m 40.7 22 0.00047 19.9 1.6 36 18-56 36-71 (77)
30 COG3386 Gluconolactonase [Carb 40.7 19 0.00042 25.1 1.6 21 22-42 162-182 (307)
31 cd00250 CAS_like Clavaminic ac 39.3 35 0.00077 22.5 2.7 33 10-43 204-236 (262)
32 KOG3466|consensus 39.3 11 0.00024 24.1 0.3 32 26-57 79-119 (157)
33 KOG2919|consensus 37.0 24 0.00052 25.8 1.6 15 26-40 53-67 (406)
34 KOG2567|consensus 36.9 44 0.00096 22.0 2.7 44 4-51 25-68 (179)
35 cd06402 PB1_p62 The PB1 domain 36.7 77 0.0017 18.3 3.5 23 26-48 48-71 (87)
36 KOG1009|consensus 35.0 16 0.00035 27.0 0.5 21 27-47 347-367 (434)
37 PF00930 DPPIV_N: Dipeptidyl p 34.0 44 0.00095 23.1 2.5 16 25-40 103-118 (353)
38 KOG0973|consensus 33.5 23 0.0005 28.7 1.2 26 15-40 62-87 (942)
39 PF10955 DUF2757: Protein of u 33.3 19 0.00042 20.5 0.5 34 16-50 29-62 (76)
40 cd05803 PGM_like4 This PGM-lik 32.6 73 0.0016 22.9 3.6 35 9-43 219-253 (445)
41 PF10584 Proteasome_A_N: Prote 32.5 17 0.00037 16.2 0.2 12 26-37 4-15 (23)
42 COG2360 Aat Leu/Phe-tRNA-prote 30.8 29 0.00062 23.6 1.1 18 25-42 44-61 (221)
43 PRK00301 aat leucyl/phenylalan 29.7 36 0.00078 23.3 1.5 18 25-42 51-68 (233)
44 PF04051 TRAPP: Transport prot 29.6 1.1E+02 0.0023 18.9 3.5 32 10-42 59-91 (152)
45 PRK09553 tauD taurine dioxygen 29.6 57 0.0012 22.0 2.5 33 8-42 216-248 (277)
46 smart00357 CSP Cold shock prot 28.3 54 0.0012 16.3 1.8 15 27-41 3-17 (64)
47 TIGR00310 ZPR1_znf ZPR1 zinc f 28.0 98 0.0021 20.4 3.3 35 7-41 125-159 (192)
48 PF00400 WD40: WD domain, G-be 27.6 69 0.0015 14.2 2.0 16 26-41 15-30 (39)
49 PRK14323 glmM phosphoglucosami 27.5 89 0.0019 22.5 3.2 35 9-43 218-252 (440)
50 PF06794 UPF0270: Uncharacteri 27.2 1.2E+02 0.0027 16.9 3.2 32 12-45 39-70 (70)
51 PF01480 PWI: PWI domain; Int 26.8 45 0.00098 18.4 1.4 16 8-23 57-72 (77)
52 PF11074 DUF2779: Domain of un 26.4 1.3E+02 0.0029 18.4 3.5 35 5-51 54-88 (130)
53 KOG3804|consensus 26.3 93 0.002 22.8 3.2 37 11-47 296-334 (390)
54 PF01337 Barstar: Barstar (bar 26.3 1.2E+02 0.0027 16.7 3.5 36 12-54 32-68 (90)
55 PF05041 Pecanex_C: Pecanex pr 25.9 64 0.0014 22.0 2.2 41 6-52 37-77 (232)
56 cd03089 PMM_PGM The phosphoman 25.7 91 0.002 22.4 3.0 34 10-43 212-245 (443)
57 TIGR00667 aat leucyl/phenylala 25.4 51 0.0011 21.8 1.6 17 25-41 23-39 (185)
58 PF03367 zf-ZPR1: ZPR1 zinc-fi 24.9 89 0.0019 19.8 2.6 33 7-39 128-160 (161)
59 COG2867 Oligoketide cyclase/li 24.8 34 0.00074 21.9 0.7 24 12-35 14-38 (146)
60 PRK14317 glmM phosphoglucosami 24.7 1.4E+02 0.0029 21.8 3.8 34 10-43 234-267 (465)
61 cd04911 ACT_AKiii-YclM-BS_1 AC 24.7 1E+02 0.0022 17.4 2.5 46 7-52 13-62 (76)
62 COG4703 Uncharacterized protei 24.4 1.5E+02 0.0032 16.8 3.2 33 11-43 7-52 (74)
63 KOG0423|consensus 24.1 1.8E+02 0.0039 19.4 3.9 41 1-47 1-41 (223)
64 PF10313 DUF2415: Uncharacteri 24.1 81 0.0018 16.0 1.9 23 25-47 15-38 (43)
65 PHA00689 hypothetical protein 24.1 60 0.0013 17.3 1.4 15 26-40 26-40 (62)
66 PF10008 DUF2251: Uncharacteri 24.0 72 0.0016 19.0 1.9 11 26-36 58-68 (97)
67 cd05805 MPG1_transferase GTP-m 23.9 1.3E+02 0.0027 21.7 3.5 35 9-43 214-248 (441)
68 KOG0291|consensus 23.8 45 0.00098 26.8 1.3 16 26-41 100-115 (893)
69 TIGR00340 zpr1_rel ZPR1-relate 23.8 1.2E+02 0.0027 19.4 3.1 34 7-40 122-155 (163)
70 PHA00520 packaging NTPase P4 23.2 1.2E+02 0.0026 21.9 3.2 50 1-51 130-179 (330)
71 smart00709 Zpr1 Duplicated dom 22.7 1.2E+02 0.0025 19.4 2.8 33 7-39 127-159 (160)
72 PRK14320 glmM phosphoglucosami 22.6 1.4E+02 0.003 21.5 3.5 35 9-43 217-251 (443)
73 KOG2315|consensus 22.5 88 0.0019 24.2 2.5 17 24-40 356-372 (566)
74 PF14258 DUF4350: Domain of un 22.4 11 0.00023 20.1 -1.8 12 28-39 57-68 (70)
75 cd07812 SRPBCC START/RHO_alpha 22.3 77 0.0017 17.0 1.8 31 9-41 8-38 (141)
76 cd06408 PB1_NoxR The PB1 domai 22.3 1.7E+02 0.0038 16.9 3.6 44 4-48 20-63 (86)
77 KOG1532|consensus 22.2 91 0.002 22.6 2.4 23 5-27 29-51 (366)
78 PF00080 Sod_Cu: Copper/zinc s 22.1 57 0.0012 19.7 1.3 10 34-43 113-122 (142)
79 cd07347 harmonin_N_like N-term 22.1 52 0.0011 18.7 1.0 21 5-25 34-54 (78)
80 KOG2428|consensus 22.0 66 0.0014 24.1 1.7 20 23-42 209-228 (443)
81 PRK09542 manB phosphomannomuta 21.9 1.2E+02 0.0027 21.8 3.1 34 10-43 213-246 (445)
82 COG3490 Uncharacterized protei 21.8 85 0.0018 22.8 2.2 17 26-42 165-181 (366)
83 PF02668 TauD: Taurine catabol 21.6 76 0.0016 20.2 1.8 32 9-41 204-235 (258)
84 COG3538 Uncharacterized conser 21.5 1.2E+02 0.0027 22.5 3.0 18 23-40 38-55 (434)
85 cd07823 SRPBCC_5 Ligand-bindin 21.4 32 0.0007 20.4 0.1 26 9-36 8-33 (146)
86 PF08450 SGL: SMP-30/Gluconola 21.3 85 0.0018 20.1 2.0 19 24-42 135-153 (246)
87 cd07825 SRPBCC_7 Ligand-bindin 21.1 96 0.0021 17.9 2.1 21 12-34 12-32 (144)
88 TIGR02410 carnitine_TMLD trime 20.7 1.1E+02 0.0023 21.6 2.6 29 12-41 299-327 (362)
89 KOG0271|consensus 20.4 52 0.0011 24.6 0.9 18 27-44 162-188 (480)
90 PRK04966 hypothetical protein; 20.3 1.8E+02 0.0039 16.3 3.1 32 12-45 39-70 (72)
91 KOG2984|consensus 20.2 1.2E+02 0.0027 21.0 2.7 28 13-41 105-132 (277)
92 COG0182 Predicted translation 20.1 70 0.0015 23.2 1.5 18 26-44 4-21 (346)
93 cd05802 GlmM GlmM is a bacteri 20.1 1.4E+02 0.0031 21.3 3.1 34 10-43 215-248 (434)
No 1
>PF00447 HSF_DNA-bind: HSF-type DNA-binding; InterPro: IPR000232 Heat shock factor (HSF) is a transcriptional activator of heat shock genes []: it binds specifically to heat shock promoter elements, which are palindromic sequences rich with repetitive purine and pyrimidine motifs []. Under normal conditions, HSF is a homo-trimeric cytoplasmic protein, but heat shock activation results in relocalisation to the nucleus []. Each HSF monomer contains one C-terminal and three N-terminal leucine zipper repeats []. Point mutations in these regions result in disruption of cellular localisation, rendering the protein constitutively nuclear []. Two sequences flanking the N-terminal zippers fit the consensus of a bi- partite nuclear localisation signal (NLS). Interaction between the N- and C-terminal zippers may result in a structure that masks the NLS sequences: following activation of HSF, these may then be unmasked, resulting in relocalisation of the protein to the nucleus []. The DNA-binding component of HSF lies to the N terminus of the first NLS region, and is referred to as the HSF domain.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 1FBQ_B 1FYL_B 1FBS_A 1FYM_B 3HTS_B 2HTS_A 3HSF_A 1FBU_B 1FYK_A 2LDU_A ....
Probab=99.95 E-value=1.2e-28 Score=146.78 Aligned_cols=58 Identities=55% Similarity=1.111 Sum_probs=53.9
Q ss_pred hHHHHHHHhhcCCCCCCceEEcCCCCeEEEechhhHHHhhcccccCCCCcccceeccC
Q psy3995 10 AFLGKLWRMVEDPETNDLISWSENGQSFLIRNQSKFAKELLPRYYKHNNMASFIRQLN 67 (67)
Q Consensus 10 ~F~~kL~~~l~~~~~~~~I~W~~~G~~f~I~d~~~f~~~vLp~~F~~~~~~SF~RqLN 67 (67)
+|+.|||+||+|++++++|+|++||++|+|+|+++|+++|||+||+|++|+||+||||
T Consensus 1 ~F~~kL~~~l~~~~~~~~I~W~~~G~~fiI~d~~~f~~~vLp~~F~~~~~~SF~RQLn 58 (103)
T PF00447_consen 1 KFLSKLYEMLEDPENSDIIRWSPDGDSFIIHDPEEFEKEVLPKYFKHSNFSSFVRQLN 58 (103)
T ss_dssp HHHHHHHHHHCTTTTTTTCEECTTSSEEEES-HHHHHHHTHHHHSST--HHHHHHHHH
T ss_pred ChHHHHHHHHcCCCCCCEEEEeCCCCEEEEeecHHHhhhccccccCccccceeeeEee
Confidence 5999999999999999999999999999999999999999999999999999999998
No 2
>smart00415 HSF heat shock factor.
Probab=99.94 E-value=3.9e-28 Score=145.53 Aligned_cols=61 Identities=57% Similarity=1.039 Sum_probs=59.3
Q ss_pred CcchHHHHHHHhhcCCCCCCceEEcCCCCeEEEechhhHHHhhcccccCCCCcccceeccC
Q psy3995 7 NVAAFLGKLWRMVEDPETNDLISWSENGQSFLIRNQSKFAKELLPRYYKHNNMASFIRQLN 67 (67)
Q Consensus 7 ~~~~F~~kL~~~l~~~~~~~~I~W~~~G~~f~I~d~~~f~~~vLp~~F~~~~~~SF~RqLN 67 (67)
++|+|+.|||+||+|++++++|+|++||++|+|+|++.|+++|||+||+|++|+||+||||
T Consensus 1 ~~~~F~~kL~~~l~~~~~~~iI~W~~~G~~f~I~d~~~f~~~vLp~~Fk~~~~~SF~RqLn 61 (105)
T smart00415 1 QPPPFLTKLYLLVEDPSTDKIISWSPSGKSFVIWDPEEFAKNLLPRYFKHNNFSSFVRQLN 61 (105)
T ss_pred CCCcHHHHHHHHHhCCCCCCEEEECCCCCEEEEcCHHHHHHHHHHHhcCCCCHHHHHHHHH
Confidence 4789999999999999999999999999999999999999999999999999999999998
No 3
>COG5169 HSF1 Heat shock transcription factor [Transcription]
Probab=99.94 E-value=1.9e-27 Score=162.72 Aligned_cols=67 Identities=46% Similarity=0.871 Sum_probs=62.8
Q ss_pred CCCCCCCcchHHHHHHHhhcCCCCCCceEEcCCCCeEEEechhhHHHhhcccccCCCCcccceeccC
Q psy3995 1 MAEVGTNVAAFLGKLWRMVEDPETNDLISWSENGQSFLIRNQSKFAKELLPRYYKHNNMASFIRQLN 67 (67)
Q Consensus 1 m~~~~~~~~~F~~kL~~~l~~~~~~~~I~W~~~G~~f~I~d~~~f~~~vLp~~F~~~~~~SF~RqLN 67 (67)
|+....+++.|+.|||+||+++++.++|+|+++|++|+|.|++.|.+.|||+||+|.+|+|||||||
T Consensus 3 ~s~~~~~~~~FV~KLy~iLe~~e~~k~I~Ws~~G~sfvI~~~~~F~~~iLpr~FKh~NfaSFVRQLN 69 (282)
T COG5169 3 MSSRWSQPKEFVHKLYQILEEPEYYKLIQWSPDGRSFVILDPEEFTKVILPRYFKHGNFASFVRQLN 69 (282)
T ss_pred CCcCCCchhHHHHHHHHHhcCcccCCceEECCCCCEEEEeCcchhhhhhhhhhhcccCHHHHHHHHH
Confidence 3445667779999999999999999999999999999999999999999999999999999999998
No 4
>KOG0627|consensus
Probab=99.92 E-value=1.3e-25 Score=153.31 Aligned_cols=63 Identities=57% Similarity=1.003 Sum_probs=61.0
Q ss_pred CCCcchHHHHHHHhhcCCCCCCceEEcCCCCeEEEechhhHHHhhcccccCCCCcccceeccC
Q psy3995 5 GTNVAAFLGKLWRMVEDPETNDLISWSENGQSFLIRNQSKFAKELLPRYYKHNNMASFIRQLN 67 (67)
Q Consensus 5 ~~~~~~F~~kL~~~l~~~~~~~~I~W~~~G~~f~I~d~~~f~~~vLp~~F~~~~~~SF~RqLN 67 (67)
...+++|+.|||+||+||.++++|+|+++|.+|||.|+++|.+.+||+||||+||+||+||||
T Consensus 9 ~~~~~~Fl~K~y~~v~Dps~~~iisWs~~g~sFvv~d~~~F~~~~Lp~~FKh~NfsSFvRQLN 71 (304)
T KOG0627|consen 9 ASGPPPFLEKLYEMVEDPSTDEIISWSPSGNSFVIWNPEEFAKVLLPLYFKHNNFSSFVRQLN 71 (304)
T ss_pred cCCCCcHHHHHHHHhcCCCCCCceEECCCCCccccCCHHHHHHHHhHHhccccCccceeeeec
Confidence 347899999999999999999999999999999999999999999999999999999999998
No 5
>PF00178 Ets: Ets-domain; InterPro: IPR000418 Transcription factors are protein molecules that bind to specific DNA sequences in the genome, resulting in the induction or inhibition of gene transcription []. The ets oncogene is such a factor, possessing a region of 85-90 amino acids known as the ETS (erythroblast transformation specific) domain [, , ]. This domain is rich in positively-charged and aromatic residues, and binds to purine-rich segments of DNA. The ETS domain has been identified in other transcription factors such as PU.1, human erg, human elf-1, human elk-1, GA binding protein, and a number of others [, , ]. It is generally localized at the C terminus of the protein, with the exception of ELF-1, ELK-1, ELK-3, ELK-4 and ERF where it is found at the N terminus. NMR-analysis of the structure of the Ets domains revealed that it contains three alpha-helixes (1-3) and four-stranded beta-sheets (1-4) arranged in the order alpha1-beta1-beta2-alpha2-alpha3-beta3-beta4 forming a winged helix-turn-helix (wHTH) topology []. The third alpha-helix is responsive to contact to the major groove of the DNA. Different members of the Ets family proteins display distinct DNA binding specificities. The Ets domains and the flanking amino acid sequences of the proteins influence the binding affinity, and the alteration of a single amino acid in the Ets domain can change its DNA binding specificities. Avian leukemia virus E26 is a replication defective retrovirus that induces a mixed erythroid/myeloid leukemia in chickens.This virus carries two distinct oncogenes: v-myb and v-ets. The ets portion of this oncogene is required for the induction of erythroblastosis. V-ets and c-ets-1, its cellular progenitor, have been shown [] to be nuclear DNA-binding proteins. Ets-1 differs slightly from v-ets at its carboxy-terminal region. In most species where it has been sequenced, c-ets-1 exists in various isoforms generated by alternative splicing and differential phosphorylation.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1DUX_F 4AVP_B 1HBX_G 1BC7_C 1K6O_A 1BC8_C 1PUE_E 1FLI_A 2DAO_A 1WWX_A ....
Probab=97.70 E-value=3.3e-05 Score=45.03 Aligned_cols=37 Identities=30% Similarity=0.591 Sum_probs=32.7
Q ss_pred HHHHHHhhcCCCCCCceEEcC-CCCeEEEechhhHHHh
Q psy3995 12 LGKLWRMVEDPETNDLISWSE-NGQSFLIRNQSKFAKE 48 (67)
Q Consensus 12 ~~kL~~~l~~~~~~~~I~W~~-~G~~f~I~d~~~f~~~ 48 (67)
-.=|.++|+|+++.++|+|++ +|..|.|.|++++++-
T Consensus 5 w~FLl~LL~d~~~~~~I~Wt~~~~~eFki~d~~~vA~l 42 (85)
T PF00178_consen 5 WQFLLELLEDPSNSDIIAWTGKRGGEFKIVDPEAVARL 42 (85)
T ss_dssp HHHHHHHHHSGGGTTTEEEEETSTTEEEESSHHHHHHH
T ss_pred HHHHHHHhcCccCCCeeEeeccCCCeEEecCHHHHHHH
Confidence 445778899999999999999 9999999999999864
No 6
>smart00413 ETS erythroblast transformation specific domain. variation of the helix-turn-helix motif
Probab=97.51 E-value=0.0002 Score=42.10 Aligned_cols=37 Identities=27% Similarity=0.593 Sum_probs=31.6
Q ss_pred HHHHHHhhcCCCCCCceEEcC-CCCeEEEechhhHHHh
Q psy3995 12 LGKLWRMVEDPETNDLISWSE-NGQSFLIRNQSKFAKE 48 (67)
Q Consensus 12 ~~kL~~~l~~~~~~~~I~W~~-~G~~f~I~d~~~f~~~ 48 (67)
.+=|.++|.||++.++|+|.+ ++.-|.+.|+++.++.
T Consensus 5 w~FL~~LL~d~~~~~~I~W~~k~~g~Fkl~~~~~vA~l 42 (87)
T smart00413 5 WQFLLDLLLDPENGDIIRWTDRDGGEFKLVDPEEVARL 42 (87)
T ss_pred HHHHHHHHcCccCCCeEEeeCCCCCEEEecCHHHHHHH
Confidence 345788999999999999998 6888999999887764
No 7
>KOG3806|consensus
Probab=96.69 E-value=0.0047 Score=40.42 Aligned_cols=44 Identities=16% Similarity=0.356 Sum_probs=36.0
Q ss_pred CcchHHHHHHHhhcCCCCCCceEEcC-CCCeEEEechhhHHHhhc
Q psy3995 7 NVAAFLGKLWRMVEDPETNDLISWSE-NGQSFLIRNQSKFAKELL 50 (67)
Q Consensus 7 ~~~~F~~kL~~~l~~~~~~~~I~W~~-~G~~f~I~d~~~f~~~vL 50 (67)
+.-.-.+=|-++|+|+++.++|.|+. +|--|.+.|+++-++.--
T Consensus 67 g~iqLwqFLleLl~d~~~~~~I~Wtg~~g~EFkl~dp~eVArlWG 111 (177)
T KOG3806|consen 67 GQIQLWQFLLELLQDESNAHIIAWTGKDGLEFKLVDPDEVARLWG 111 (177)
T ss_pred chhhHHHHHHHHHhCcccCCeeEEeCCCCceEEecCHHHHHHHHh
Confidence 34455666788899999999999999 788999999998887543
No 8
>PF07676 PD40: WD40-like Beta Propeller Repeat; InterPro: IPR011659 WD-40 repeats (also known as WD or beta-transducin repeats) are short ~40 amino acid motifs, often terminating in a Trp-Asp (W-D) dipeptide. WD40 repeats usually assume a 7-8 bladed beta-propeller fold, but proteins have been found with 4 to 16 repeated units, which also form a circularised beta-propeller structure. WD-repeat proteins are a large family found in all eukaryotes and are implicated in a variety of functions ranging from signal transduction and transcription regulation to cell cycle control and apoptosis. Repeated WD40 motifs act as a site for protein-protein interaction, and proteins containing WD40 repeats are known to serve as platforms for the assembly of protein complexes or mediators of transient interplay among other proteins. The specificity of the proteins is determined by the sequences outside the repeats themselves. Examples of such complexes are G proteins (beta subunit is a beta-propeller), TAFII transcription factor, and E3 ubiquitin ligase [, ]. In Arabidopsis spp., several WD40-containing proteins act as key regulators of plant-specific developmental events. This region appears to be related to the IPR001680 from INTERPRO repeat. This model is likely to miss copies within a sequence.; PDB: 2HQS_D 1C5K_A 2IVZ_A 2W8B_D 3IAX_A 1CRZ_A 1N6F_D 1N6D_C 1N6E_C 1K32_A ....
Probab=90.66 E-value=0.081 Score=25.44 Aligned_cols=24 Identities=17% Similarity=0.519 Sum_probs=16.7
Q ss_pred HhhcCCCCCCceEEcCCCCeEEEe
Q psy3995 17 RMVEDPETNDLISWSENGQSFLIR 40 (67)
Q Consensus 17 ~~l~~~~~~~~I~W~~~G~~f~I~ 40 (67)
++++.+..+....|+|||+.|+..
T Consensus 3 ~~t~~~~~~~~p~~SpDGk~i~f~ 26 (39)
T PF07676_consen 3 QLTNSPGDDGSPAWSPDGKYIYFT 26 (39)
T ss_dssp EES-SSSSEEEEEE-TTSSEEEEE
T ss_pred CcccCCccccCEEEecCCCEEEEE
Confidence 345666667788999999998764
No 9
>KOG3805|consensus
Probab=75.27 E-value=3.7 Score=29.46 Aligned_cols=38 Identities=24% Similarity=0.406 Sum_probs=27.2
Q ss_pred HHHHHHHhhcCCC-CCCceEEcCCC-CeEEEechhhHHHh
Q psy3995 11 FLGKLWRMVEDPE-TNDLISWSENG-QSFLIRNQSKFAKE 48 (67)
Q Consensus 11 F~~kL~~~l~~~~-~~~~I~W~~~G-~~f~I~d~~~f~~~ 48 (67)
.-+-|.++|..|+ +..+|+|.+-. ..|-|.+.+++++.
T Consensus 275 LwQFLkELL~sP~~~~~~IrWVDkdKGiFkiess~~lArl 314 (361)
T KOG3805|consen 275 LWQFLKELLYSPEQMGSCIRWVDKDKGIFKIESSEKLARL 314 (361)
T ss_pred HHHHHHHHHhChhhhchheEeeccCCceEEeecHHHHHHH
Confidence 4455777888887 88999996544 45777777666653
No 10
>PF08675 RNA_bind: RNA binding domain; InterPro: IPR014789 This domain corresponds to the RNA binding domain of Poly(A)-specific ribonuclease (PARN). ; GO: 0003723 RNA binding, 0004535 poly(A)-specific ribonuclease activity, 0046872 metal ion binding, 0006402 mRNA catabolic process, 0005634 nucleus, 0005737 cytoplasm; PDB: 3CTR_A 2ROK_A 3D45_B 1WHV_A.
Probab=69.49 E-value=5.2 Score=23.48 Aligned_cols=27 Identities=19% Similarity=0.369 Sum_probs=21.8
Q ss_pred CceEEcCCCCeEEEechhhHHHhhccc
Q psy3995 26 DLISWSENGQSFLIRNQSKFAKELLPR 52 (67)
Q Consensus 26 ~~I~W~~~G~~f~I~d~~~f~~~vLp~ 52 (67)
=.|+|-+|..+||......-++.|+..
T Consensus 35 I~VsWi~dTSAfV~l~~r~~~~~v~~~ 61 (87)
T PF08675_consen 35 IYVSWINDTSAFVALHNRDQAKVVMNT 61 (87)
T ss_dssp EEEEEECTTEEEEEECCCHHHHHHHHH
T ss_pred EEEEEEcCCcEEEEeecHHHHHHHHHH
Confidence 579999999999998777777766654
No 11
>PF10416 IBD: Transcription-initiator DNA-binding domain IBD; InterPro: IPR018845 In Trichomonas vaginalis, thought to be the earliest extant eukaryote, the sole initiator element for control of the start of transcription is Inr, and this is recognised by the initiator binding protein IBP39. IBP39 contains an N-terminal Inr binding domain (IBD, represented by this entry) connected via a flexible, proteolytically sensitive, linker (residues 127-145) to a C-terminal domain. The IBD structure reveals a winged-helix-wing conformation with each element binding to DNA, the central helix-turn-helix contributing the majority of the specificity-determining contacts with the Inr core motif TCAPy(T/A). The binding of IBP39 to the Inr directly recruits RNA polymerase II and in this way initiates transcription []. ; PDB: 1PP8_O 1PP7_U.
Probab=68.66 E-value=5 Score=24.49 Aligned_cols=44 Identities=23% Similarity=0.291 Sum_probs=30.0
Q ss_pred CCCcchHHHHHHHhhcCCCCCC----------ceEEcCCCCeEEEechhhHHHhhcc
Q psy3995 5 GTNVAAFLGKLWRMVEDPETND----------LISWSENGQSFLIRNQSKFAKELLP 51 (67)
Q Consensus 5 ~~~~~~F~~kL~~~l~~~~~~~----------~I~W~~~G~~f~I~d~~~f~~~vLp 51 (67)
+.+...|..+|+.++.=....+ -|.|.++|. |.| +...|.. +|.
T Consensus 24 n~~~~~F~~~L~~il~~~~~~~~~d~~r~lvcGi~W~~~~~-iaI-Nt~qL~~-llg 77 (128)
T PF10416_consen 24 NKRNSRFQEKLENILKFCIRGPEDDWKRCLVCGICWLDDGV-IAI-NTRQLKL-LLG 77 (128)
T ss_dssp SSGGGSHHHHHHHHHHHHTT-HH----HHHHHTEEESSSSE-EEE-EHHHHHH-HTT
T ss_pred CcccchHHHHHHHHHHHHHcCCchhhhhhheeeEEEeCCce-EEE-eHHHHHH-HHh
Confidence 4567789999999884332222 289999986 444 7887876 444
No 12
>KOG4497|consensus
Probab=65.16 E-value=5.5 Score=29.15 Aligned_cols=26 Identities=31% Similarity=0.547 Sum_probs=16.8
Q ss_pred CCCCCCceEEcCCCCeEEEechhhHHHh
Q psy3995 21 DPETNDLISWSENGQSFLIRNQSKFAKE 48 (67)
Q Consensus 21 ~~~~~~~I~W~~~G~~f~I~d~~~f~~~ 48 (67)
++..-..++|+|||+.+.. -.+|.-+
T Consensus 90 g~agls~~~WSPdgrhiL~--tseF~lr 115 (447)
T KOG4497|consen 90 GQAGLSSISWSPDGRHILL--TSEFDLR 115 (447)
T ss_pred CCCcceeeeECCCcceEee--eecceeE
Confidence 3333467999999997654 4445443
No 13
>PF12657 TFIIIC_delta: Transcription factor IIIC subunit delta N-term; InterPro: IPR024761 This entry represents a domain found towards the N terminus of the 90 kDa subunit of transcription factor IIIC (also known as subunit 9 in yeast []). The whole subunit is involved in RNA polymerase III-mediated transcription. It is possible that this N-terminal domain interacts with TFIIIC subunit 8 [].
Probab=63.90 E-value=7.9 Score=24.34 Aligned_cols=18 Identities=33% Similarity=0.730 Sum_probs=13.4
Q ss_pred CCCCCceEEcCCCCeEEE
Q psy3995 22 PETNDLISWSENGQSFLI 39 (67)
Q Consensus 22 ~~~~~~I~W~~~G~~f~I 39 (67)
|...+.|.|++||+--|+
T Consensus 4 ps~~~~l~WS~Dg~laV~ 21 (173)
T PF12657_consen 4 PSCPNALAWSEDGQLAVA 21 (173)
T ss_pred CCCCcCeeECCCCCEEEE
Confidence 445689999999976444
No 14
>KOG2394|consensus
Probab=62.54 E-value=4.7 Score=30.91 Aligned_cols=21 Identities=14% Similarity=0.452 Sum_probs=16.7
Q ss_pred CceEEcCCCCeEEEechhhHH
Q psy3995 26 DLISWSENGQSFLIRNQSKFA 46 (67)
Q Consensus 26 ~~I~W~~~G~~f~I~d~~~f~ 46 (67)
-+++|+|||+-|++--++.+.
T Consensus 336 LCvcWSPDGKyIvtGGEDDLV 356 (636)
T KOG2394|consen 336 LCVCWSPDGKYIVTGGEDDLV 356 (636)
T ss_pred EEEEEcCCccEEEecCCcceE
Confidence 479999999999887665543
No 15
>PF04004 Leo1: Leo1-like protein; InterPro: IPR007149 Members of this family are part of the Paf1/RNA polymerase II complex [, ]. The Paf1 complex probably functions during the elongation phase of transcription [].
Probab=62.35 E-value=5.8 Score=25.42 Aligned_cols=19 Identities=26% Similarity=0.583 Sum_probs=15.9
Q ss_pred CCCCceEEcCCCCeEEEec
Q psy3995 23 ETNDLISWSENGQSFLIRN 41 (67)
Q Consensus 23 ~~~~~I~W~~~G~~f~I~d 41 (67)
++..+|+|+++.-++.|-+
T Consensus 65 SNAriVrWsDGS~sL~iG~ 83 (171)
T PF04004_consen 65 SNARIVRWSDGSLSLHIGN 83 (171)
T ss_pred cccEEEEEcCCceEEEecc
Confidence 4668999999998888876
No 16
>PF09793 AD: Anticodon-binding domain; InterPro: IPR019181 Sm and Sm-like proteins of the Lsm (like Sm) domain family are generally involved in essential RNA-processing tasks []. All the LSM proteins are evolutionarily conserved in eukaryotes with an N-terminal Lsm domain to bind nucleic acids, followed by an as yet uncharacterised C-terminal region, some of which have a C-terminal methyltransferase domain. This entry represents the central region of approximately 100 residues, which is conserved from plants to humans and is frequently found in association with Lsm domain-containing proteins.
Probab=61.67 E-value=18 Score=20.80 Aligned_cols=33 Identities=15% Similarity=0.356 Sum_probs=26.5
Q ss_pred CCCcchHHHHHHHhhcCCCCCCceEEcCCCCeEEEec
Q psy3995 5 GTNVAAFLGKLWRMVEDPETNDLISWSENGQSFLIRN 41 (67)
Q Consensus 5 ~~~~~~F~~kL~~~l~~~~~~~~I~W~~~G~~f~I~d 41 (67)
+.+++.-.++||+.|.-. . +-++|..+ .|+|.|
T Consensus 29 ~~~vs~egQ~lF~~l~Kt-~-~dv~W~g~--~IiV~d 61 (91)
T PF09793_consen 29 GPGVSPEGQKLFDALSKT-I-PDVRWDGK--NIIVLD 61 (91)
T ss_pred CCCcCHHHHHHHHHHHhh-C-CCCEECCC--eEEEeC
Confidence 567888999999999876 3 45889876 888877
No 17
>KOG4497|consensus
Probab=60.20 E-value=14 Score=27.19 Aligned_cols=33 Identities=18% Similarity=0.403 Sum_probs=23.7
Q ss_pred HHHHHHHhhcCCCCC----CceEEcCCCCeEEEechh
Q psy3995 11 FLGKLWRMVEDPETN----DLISWSENGQSFLIRNQS 43 (67)
Q Consensus 11 F~~kL~~~l~~~~~~----~~I~W~~~G~~f~I~d~~ 43 (67)
|..+-|.+|..-+.+ .-|.|+|||..+.|.|..
T Consensus 163 ~~c~~W~ll~~f~~dT~DltgieWsPdg~~laVwd~~ 199 (447)
T KOG4497|consen 163 SSCKAWILLKEFKLDTIDLTGIEWSPDGNWLAVWDNV 199 (447)
T ss_pred HhhHHHHHHHhcCCCcccccCceECCCCcEEEEecch
Confidence 445557777654432 458999999999998755
No 18
>PF08662 eIF2A: Eukaryotic translation initiation factor eIF2A; InterPro: IPR013979 This entry contains beta propellor domains found in eukaryotic translation initiation factors and TolB domain-containing proteins.
Probab=59.77 E-value=8.7 Score=24.60 Aligned_cols=15 Identities=33% Similarity=0.762 Sum_probs=12.8
Q ss_pred CceEEcCCCCeEEEe
Q psy3995 26 DLISWSENGQSFLIR 40 (67)
Q Consensus 26 ~~I~W~~~G~~f~I~ 40 (67)
..+.|+|+|+.|.|.
T Consensus 63 ~~~~WsP~g~~favi 77 (194)
T PF08662_consen 63 HDVAWSPNGNEFAVI 77 (194)
T ss_pred EEEEECcCCCEEEEE
Confidence 678999999998765
No 19
>KOG1407|consensus
Probab=59.42 E-value=9.2 Score=27.07 Aligned_cols=22 Identities=27% Similarity=0.474 Sum_probs=17.5
Q ss_pred CCceEEcCCCCeEEEechhhHH
Q psy3995 25 NDLISWSENGQSFLIRNQSKFA 46 (67)
Q Consensus 25 ~~~I~W~~~G~~f~I~d~~~f~ 46 (67)
.-.|.|+|+|..+++.+++.-.
T Consensus 109 ni~i~wsp~g~~~~~~~kdD~i 130 (313)
T KOG1407|consen 109 NINITWSPDGEYIAVGNKDDRI 130 (313)
T ss_pred ceEEEEcCCCCEEEEecCcccE
Confidence 3679999999999988766543
No 20
>KOG0284|consensus
Probab=52.85 E-value=10 Score=28.24 Aligned_cols=16 Identities=19% Similarity=0.754 Sum_probs=13.7
Q ss_pred CceEEcCCCCeEEEec
Q psy3995 26 DLISWSENGQSFLIRN 41 (67)
Q Consensus 26 ~~I~W~~~G~~f~I~d 41 (67)
.+|+|+|+|+.+++.-
T Consensus 100 ~~v~WtPeGRRLltgs 115 (464)
T KOG0284|consen 100 NVVRWTPEGRRLLTGS 115 (464)
T ss_pred eeEEEcCCCceeEeec
Confidence 6899999999988753
No 21
>cd00266 MADS_SRF_like SRF-like/Type I subfamily of MADS (MCM1, Agamous, Deficiens, and SRF (serum response factor) box family of eukaryotic transcriptional regulators. Binds DNA and exists as hetero- and homo-dimers. Differs from the MEF-like/Type II subgroup mainly in position of the alpha 2 helix responsible for the dimerization interface. Important in homeotic regulation in plants and in immediate-early development in animals. Also found in fungi.
Probab=52.79 E-value=14 Score=20.87 Aligned_cols=39 Identities=15% Similarity=0.355 Sum_probs=28.1
Q ss_pred hcCCCCCCceEEcCCCCeEEEechhhHHHhhcccccCCCCc
Q psy3995 19 VEDPETNDLISWSENGQSFLIRNQSKFAKELLPRYYKHNNM 59 (67)
Q Consensus 19 l~~~~~~~~I~W~~~G~~f~I~d~~~f~~~vLp~~F~~~~~ 59 (67)
|.|.+. .+|.++|+|.....+.... ...+|.+|......
T Consensus 37 Lc~~~v-~~iv~sp~~~~~~~~~~~~-~~~~l~~~~~~~~~ 75 (83)
T cd00266 37 LCGAEV-AVIVYSPSGKLYVFWPSSE-VEGVISRFEVLSAL 75 (83)
T ss_pred hhCCcE-EEEEECCCCCcceecCcHH-HHHHHHHHhhcCHh
Confidence 444443 6788999999999887776 66688877655443
No 22
>KOG3741|consensus
Probab=51.41 E-value=7.8 Score=29.96 Aligned_cols=33 Identities=36% Similarity=0.515 Sum_probs=27.9
Q ss_pred CcchHHHHHHHhhcCCCCCCceEEcCCCCeEEE
Q psy3995 7 NVAAFLGKLWRMVEDPETNDLISWSENGQSFLI 39 (67)
Q Consensus 7 ~~~~F~~kL~~~l~~~~~~~~I~W~~~G~~f~I 39 (67)
+.-.-+.||-.+.+.+++...+.|++.|+.|.|
T Consensus 552 RLfRll~Kln~I~dR~e~~~D~~WSesG~~fmi 584 (655)
T KOG3741|consen 552 RLFRLLLKLNFIDDRPEYVDDPDWSESGDRFMI 584 (655)
T ss_pred hHHHHHHHHhhhccCcccccCCcchhccceehH
Confidence 334567888889999999999999999999976
No 23
>PRK00304 hypothetical protein; Provisional
Probab=49.66 E-value=31 Score=19.67 Aligned_cols=37 Identities=14% Similarity=0.243 Sum_probs=28.3
Q ss_pred HHHHHHhhcCCCCCCceEEcCCCCeEEEechhhHHHhhc
Q psy3995 12 LGKLWRMVEDPETNDLISWSENGQSFLIRNQSKFAKELL 50 (67)
Q Consensus 12 ~~kL~~~l~~~~~~~~I~W~~~G~~f~I~d~~~f~~~vL 50 (67)
+..+...|...+ -+|.|++.-.++-|.++..|.++.|
T Consensus 38 v~qv~~qL~~G~--~vIvfse~~es~~i~~k~~~~~~~~ 74 (75)
T PRK00304 38 VLRVRQALTKGQ--AVILFDPESQQCQLMLKHDVPRELL 74 (75)
T ss_pred HHHHHHHHHcCC--EEEEECCCcceeeeeeHhhccHHhc
Confidence 344555665554 6899999999999999998888765
No 24
>PF02879 PGM_PMM_II: Phosphoglucomutase/phosphomannomutase, alpha/beta/alpha domain II; InterPro: IPR005845 The alpha-D-phosphohexomutase superfamily is composed of four related enzymes, each of which catalyses a phosphoryl transfer on their sugar substrates: phosphoglucomutase (PGM), phosphoglucomutase/phosphomannomutase (PGM/PMM), phosphoglucosamine mutase (PNGM), and phosphoacetylglucosamine mutase (PAGM) []. PGM (5.4.2.2 from EC) converts D-glucose 1-phosphate into D-glucose 6-phosphate, and participates in both the breakdown and synthesis of glucose []. PGM/PMM (5.4.2.2 from EC; 5.4.2.8 from EC) are primarily bacterial enzymes that use either glucose or mannose as substrate, participating in the biosynthesis of a variety of carbohydrates such as lipopolysaccharides and alginate [, ]. Both PNGM (5.4.2.3 from EC) and PAGM (5.4.2.10 from EC) are involved in the biosynthesis of UDP-N-acetylglucosamine [, ]. Despite differences in substrate specificity, these enzymes share a similar catalytic mechanism, converting 1-phospho-sugars to 6-phospho-sugars via a biphosphorylated 1,6-phospho-sugar. The active enzyme is phosphorylated at a conserved serine residue and binds one magnesium ion; residues around the active site serine are well conserved among family members. The reaction mechanism involves phosphoryl transfer from the phosphoserine to the substrate to create a biophosphorylated sugar, followed by a phosphoryl transfer from the substrate back to the enzyme []. The structures of PGM and PGM/PMM have been determined, and were found to be very similar in topology. These enzymes are both composed of four domains and a large central active site cleft, where each domain contains residues essential for catalysis and/or substrate recognition. Domain I contains the catalytic phosphoserine, domain II contains a metal-binding loop to coordinate the magnesium ion, domain III contains the sugar-binding loop that recognises the two different binding orientations of the 1- and 6-phospho-sugars, and domain IV contains a phosphate-binding site required for orienting the incoming phospho-sugar substrate. This entry represents domain II found in alpha-D-phosphohexomutase enzymes. This domain has a 3-layer alpha/beta/alpha topology.; GO: 0016868 intramolecular transferase activity, phosphotransferases, 0005975 carbohydrate metabolic process; PDB: 2F7L_A 3PDK_B 1KFQ_B 1KFI_A 1C47_A 1VKL_B 1LXT_A 1JDY_B 3PMG_A 1C4G_B ....
Probab=49.65 E-value=16 Score=20.72 Aligned_cols=33 Identities=12% Similarity=0.265 Sum_probs=24.9
Q ss_pred HHHHHHHhhcCCCCCCceEEcCCCCeEEEechh
Q psy3995 11 FLGKLWRMVEDPETNDLISWSENGQSFLIRNQS 43 (67)
Q Consensus 11 F~~kL~~~l~~~~~~~~I~W~~~G~~f~I~d~~ 43 (67)
=+..|..++.....+-.+..++||+.+.+.|++
T Consensus 71 ~l~~~~~~v~~~~ad~g~~~DgDaDRl~~vd~~ 103 (104)
T PF02879_consen 71 SLQRLIKIVRESGADLGIAFDGDADRLGVVDEN 103 (104)
T ss_dssp TTHHHHHHHHHSTTSEEEEE-TTSSBEEEEETT
T ss_pred hhHHHHHHhhccCceEEEEECCcCceeEEECCC
Confidence 456777777766667889999999999998764
No 25
>PF11042 DUF2750: Protein of unknown function (DUF2750); InterPro: IPR021284 This family is conserved in Proteobacteria. The function is not known.
Probab=49.59 E-value=33 Score=19.93 Aligned_cols=38 Identities=8% Similarity=0.066 Sum_probs=27.0
Q ss_pred hHHHHHHHhhcCCCCCCceEEcCCCCeEEEechhhHHHh
Q psy3995 10 AFLGKLWRMVEDPETNDLISWSENGQSFLIRNQSKFAKE 48 (67)
Q Consensus 10 ~F~~kL~~~l~~~~~~~~I~W~~~G~~f~I~d~~~f~~~ 48 (67)
.|+.+...-|.+....--|-|++++.+++| ++..|.++
T Consensus 65 ~Fle~wl~~L~~d~~~vgv~~~~~~~g~~v-~p~el~~~ 102 (104)
T PF11042_consen 65 EFLEEWLPGLQEDGVLVGVFPNPDLEGIEV-EPEELAED 102 (104)
T ss_pred HHHHHHhHhHHHCCCEEEEecCCCCcEEEE-cHHHHHHh
Confidence 577765555555555566889999988877 67777664
No 26
>KOG3330|consensus
Probab=47.22 E-value=28 Score=22.85 Aligned_cols=25 Identities=20% Similarity=0.519 Sum_probs=17.3
Q ss_pred CCceEEcCCCCeEEEe-chhhHHHhh
Q psy3995 25 NDLISWSENGQSFLIR-NQSKFAKEL 49 (67)
Q Consensus 25 ~~~I~W~~~G~~f~I~-d~~~f~~~v 49 (67)
..+-+|+++|+.|.|. +...+.+-|
T Consensus 93 psitswss~~~efsliLe~NPL~efV 118 (183)
T KOG3330|consen 93 PSITSWSSDGNEFSLILEDNPLVEFV 118 (183)
T ss_pred cceeeecCCCCEEEEEecCCcHHHHH
Confidence 4678999999999875 444444433
No 27
>PF13184 KH_5: NusA-like KH domain; PDB: 1HH2_P 1L2F_A 2ATW_A 1K0R_B 2ASB_A.
Probab=45.96 E-value=21 Score=19.59 Aligned_cols=33 Identities=15% Similarity=0.361 Sum_probs=21.8
Q ss_pred hHHHHHHHhhcCCCCCCceEEcCCCCeEEEechhhHHHhhcc
Q psy3995 10 AFLGKLWRMVEDPETNDLISWSENGQSFLIRNQSKFAKELLP 51 (67)
Q Consensus 10 ~F~~kL~~~l~~~~~~~~I~W~~~G~~f~I~d~~~f~~~vLp 51 (67)
.-+..+-+.|++... ++|.|++| +.+|.++.|.
T Consensus 28 ~rik~i~~~L~gekI-dvV~~s~d--------~~~fI~nal~ 60 (69)
T PF13184_consen 28 SRIKAISEELNGEKI-DVVEYSDD--------PKEFIKNALS 60 (69)
T ss_dssp CCHHHHHHHTTT-EE-EEEE--SS--------HHHHHHHHTT
T ss_pred HHHHHHHHHhCCCeE-EEEEcCCC--------HHHHHHHhCC
Confidence 346777888876665 89999987 7778777664
No 28
>KOG0294|consensus
Probab=44.66 E-value=20 Score=25.94 Aligned_cols=18 Identities=33% Similarity=0.835 Sum_probs=14.9
Q ss_pred CCCceEEcCCCCeEEEec
Q psy3995 24 TNDLISWSENGQSFLIRN 41 (67)
Q Consensus 24 ~~~~I~W~~~G~~f~I~d 41 (67)
+...|+|++.|+.|+|.-
T Consensus 170 ~at~v~w~~~Gd~F~v~~ 187 (362)
T KOG0294|consen 170 KATLVSWSPQGDHFVVSG 187 (362)
T ss_pred cceeeEEcCCCCEEEEEe
Confidence 456799999999998853
No 29
>cd00265 MADS_MEF2_like MEF2 (myocyte enhancer factor 2)-like/Type II subfamily of MADS ( MCM1, Agamous, Deficiens, and SRF (serum response factor) box family of eukaryotic transcriptional regulators. Binds DNA and exists as hetero and homo-dimers. Differs from SRF-like/Type I subgroup mainly in position of the alpha helix responsible for the dimerization interface. Important in homeotic regulation in plants and in immediate-early development in animals. Also found in fungi.
Probab=40.73 E-value=22 Score=19.86 Aligned_cols=36 Identities=28% Similarity=0.525 Sum_probs=23.2
Q ss_pred hhcCCCCCCceEEcCCCCeEEEechhhHHHhhcccccCC
Q psy3995 18 MVEDPETNDLISWSENGQSFLIRNQSKFAKELLPRYYKH 56 (67)
Q Consensus 18 ~l~~~~~~~~I~W~~~G~~f~I~d~~~f~~~vLp~~F~~ 56 (67)
+|.|.+. .+|-|+++|.-+....+. . ++|+.+|-.+
T Consensus 36 ~Lc~~~v-~lvv~sp~gk~~~f~s~s-~-~~vl~ry~~~ 71 (77)
T cd00265 36 VLCDAEV-ALIIFSSSGKLYEFSSPS-M-EKIIERYQKT 71 (77)
T ss_pred eccCCce-eEEEEcCCCceEEecCCC-H-HHHHHHHHhc
Confidence 3455554 567799999866654444 3 6688876443
No 30
>COG3386 Gluconolactonase [Carbohydrate transport and metabolism]
Probab=40.68 E-value=19 Score=25.09 Aligned_cols=21 Identities=10% Similarity=0.344 Sum_probs=17.1
Q ss_pred CCCCCceEEcCCCCeEEEech
Q psy3995 22 PETNDLISWSENGQSFLIRNQ 42 (67)
Q Consensus 22 ~~~~~~I~W~~~G~~f~I~d~ 42 (67)
-...+-|.|||||+.+.+.|-
T Consensus 162 ~~~~NGla~SpDg~tly~aDT 182 (307)
T COG3386 162 LTIPNGLAFSPDGKTLYVADT 182 (307)
T ss_pred EEecCceEECCCCCEEEEEeC
Confidence 445678999999999888775
No 31
>cd00250 CAS_like Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases catalyze a hydroxylation reaction, which leads to the incorporation of an oxygen atom from dioxygen into a hydroxyl group and conversion of 2OG to succinate and CO2
Probab=39.34 E-value=35 Score=22.47 Aligned_cols=33 Identities=21% Similarity=0.433 Sum_probs=24.3
Q ss_pred hHHHHHHHhhcCCCCCCceEEcCCCCeEEEechh
Q psy3995 10 AFLGKLWRMVEDPETNDLISWSENGQSFLIRNQS 43 (67)
Q Consensus 10 ~F~~kL~~~l~~~~~~~~I~W~~~G~~f~I~d~~ 43 (67)
.-+.+|.+++.+|++.-.++|.+ |+.+++.|.-
T Consensus 204 ~al~~l~~~~~~~~~~~~~~l~~-Gdivi~DN~r 236 (262)
T cd00250 204 EALAELVALIEDPDNQLTVKLEP-GDLLIFDNRR 236 (262)
T ss_pred HHHHHHHHHHcChhhEEEEEcCC-CCEEEEechh
Confidence 34788889999988777788877 6766665543
No 32
>KOG3466|consensus
Probab=39.29 E-value=11 Score=24.11 Aligned_cols=32 Identities=19% Similarity=0.253 Sum_probs=23.9
Q ss_pred CceEEcCCCCeEEEechh---------hHHHhhcccccCCC
Q psy3995 26 DLISWSENGQSFLIRNQS---------KFAKELLPRYYKHN 57 (67)
Q Consensus 26 ~~I~W~~~G~~f~I~d~~---------~f~~~vLp~~F~~~ 57 (67)
-++.|+|.|.++.-.+-. ..++...|.||-..
T Consensus 79 ~ifp~spGGssy~R~~~~Pdw~lD~Whpaeka~yp~Yfakr 119 (157)
T KOG3466|consen 79 YIFPDSPGGSSYEREPCPPDWCLDDWHPAEKAQYPDYFAKR 119 (157)
T ss_pred cccCCCCCCCccccCCCChHHhhcccChhhhHhhhHHhhhh
Confidence 578999999999766544 56677778888544
No 33
>KOG2919|consensus
Probab=37.00 E-value=24 Score=25.81 Aligned_cols=15 Identities=27% Similarity=0.470 Sum_probs=12.0
Q ss_pred CceEEcCCCCeEEEe
Q psy3995 26 DLISWSENGQSFLIR 40 (67)
Q Consensus 26 ~~I~W~~~G~~f~I~ 40 (67)
.-..|+|||.+|...
T Consensus 53 kgckWSPDGSciL~~ 67 (406)
T KOG2919|consen 53 KGCKWSPDGSCILSL 67 (406)
T ss_pred ccceeCCCCceEEee
Confidence 346899999998764
No 34
>KOG2567|consensus
Probab=36.88 E-value=44 Score=21.96 Aligned_cols=44 Identities=11% Similarity=0.291 Sum_probs=30.3
Q ss_pred CCCCcchHHHHHHHhhcCCCCCCceEEcCCCCeEEEechhhHHHhhcc
Q psy3995 4 VGTNVAAFLGKLWRMVEDPETNDLISWSENGQSFLIRNQSKFAKELLP 51 (67)
Q Consensus 4 ~~~~~~~F~~kL~~~l~~~~~~~~I~W~~~G~~f~I~d~~~f~~~vLp 51 (67)
++.++...+.--.++|++.+. ..|-|+..|+++. +.--+.+||.
T Consensus 25 ~g~kirN~i~~A~~~L~~~~~-r~VVfsg~Grai~---KTVscaEilK 68 (179)
T KOG2567|consen 25 SGSKIRNLIEFATELLQKGSH-RCVVFSGSGRAIV---KTVSCAEILK 68 (179)
T ss_pred cCchHHHHHHHHHHHhhCCCe-eEEEEecCCccee---eeeeHHHHHh
Confidence 455666677777788999886 5666999999763 3334555555
No 35
>cd06402 PB1_p62 The PB1 domain is an essential part of p62 scaffold protein (alias sequestosome 1,SQSTM) involved in cell signaling, receptor internalization, and protein turnover. The PB1 domain is a modular domain mediating specific protein-protein interaction which play roles in many critical cell processes. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi, animals, and plants.
Probab=36.65 E-value=77 Score=18.35 Aligned_cols=23 Identities=13% Similarity=0.322 Sum_probs=18.4
Q ss_pred CceEE-cCCCCeEEEechhhHHHh
Q psy3995 26 DLISW-SENGQSFLIRNQSKFAKE 48 (67)
Q Consensus 26 ~~I~W-~~~G~~f~I~d~~~f~~~ 48 (67)
=-|.| +++|+-+.|.+.++|..-
T Consensus 48 ftlky~DeeGDlvtIssdeEL~~A 71 (87)
T cd06402 48 FQLFWKDEEGDLVAFSSDEELVMA 71 (87)
T ss_pred EEEEEECCCCCEEeecCHHHHHHH
Confidence 35888 567999999998888764
No 36
>KOG1009|consensus
Probab=35.02 E-value=16 Score=27.05 Aligned_cols=21 Identities=29% Similarity=0.714 Sum_probs=17.4
Q ss_pred ceEEcCCCCeEEEechhhHHH
Q psy3995 27 LISWSENGQSFLIRNQSKFAK 47 (67)
Q Consensus 27 ~I~W~~~G~~f~I~d~~~f~~ 47 (67)
.|+|++||....|...+.|+.
T Consensus 347 Diaws~dg~~l~vSS~DGyCS 367 (434)
T KOG1009|consen 347 DIAWSDDGSVLLVSSTDGFCS 367 (434)
T ss_pred ceeecCCCcEEEEeccCCceE
Confidence 489999999888877777765
No 37
>PF00930 DPPIV_N: Dipeptidyl peptidase IV (DPP IV) N-terminal region; InterPro: IPR002469 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This domain defines serine peptidases belonging to MEROPS peptidase family S9 (clan SC), subfamily S9B (dipeptidyl-peptidase IV). The protein fold of the peptidase domain for members of this family resembles that of serine carboxypeptidase D, the type example of clan SC. This domain is an alignment of the region to the N-terminal side of the active site, which is found in IPR001375 from INTERPRO. CD26 (3.4.14.5 from EC) is also called adenosine deaminase-binding protein (ADA-binding protein) or dipeptidylpeptidase IV (DPP IV ectoenzyme). The exopeptidase cleaves off N-terminal X-Pro or X-Ala dipeptides from polypeptides (dipeptidyl peptidase IV activity). CD26 serves as the costimulatory molecule in T cell activation and is an associated marker of autoimmune diseases, adenosine deaminase-deficiency and HIV pathogenesis. Dipeptidyl peptidase IV (DPP IV) is responsible for the removal of N-terminal dipeptides sequentially from polypeptides having unsubstituted N termini, provided that the penultimate residue is proline. The enzyme catalyses the reaction: Dipeptidyl-Polypeptide + H(2)O = Dipeptide + Polypeptide It is a type II membrane protein that forms a homodimer. CD molecules are leucocyte antigens on cell surfaces. CD antigens nomenclature is updated at Protein Reviews On The Web (http://prow.nci.nih.gov/). ; GO: 0006508 proteolysis, 0016020 membrane; PDB: 2RIP_A 3Q8W_B 2AJL_I 1TKR_B 1TK3_B 3C45_A 2G5P_A 3G0C_D 1R9M_C 1RWQ_A ....
Probab=34.02 E-value=44 Score=23.09 Aligned_cols=16 Identities=13% Similarity=0.357 Sum_probs=12.3
Q ss_pred CCceEEcCCCCeEEEe
Q psy3995 25 NDLISWSENGQSFLIR 40 (67)
Q Consensus 25 ~~~I~W~~~G~~f~I~ 40 (67)
...++|+|||+.+...
T Consensus 103 ~~~~~WSpd~~~la~~ 118 (353)
T PF00930_consen 103 RSAVWWSPDSKYLAFL 118 (353)
T ss_dssp SBSEEE-TTSSEEEEE
T ss_pred ccceEECCCCCEEEEE
Confidence 4689999999987765
No 38
>KOG0973|consensus
Probab=33.54 E-value=23 Score=28.75 Aligned_cols=26 Identities=15% Similarity=0.246 Sum_probs=17.5
Q ss_pred HHHhhcCCCCCCceEEcCCCCeEEEe
Q psy3995 15 LWRMVEDPETNDLISWSENGQSFLIR 40 (67)
Q Consensus 15 L~~~l~~~~~~~~I~W~~~G~~f~I~ 40 (67)
|..|.+.-..-++|+|++||..+-+-
T Consensus 62 l~~m~~h~~sv~CVR~S~dG~~lAsG 87 (942)
T KOG0973|consen 62 LCTMDDHDGSVNCVRFSPDGSYLASG 87 (942)
T ss_pred heeeccccCceeEEEECCCCCeEeec
Confidence 34444444555899999999876553
No 39
>PF10955 DUF2757: Protein of unknown function (DUF2757); InterPro: IPR020115 This entry contains proteins with no known function.
Probab=33.26 E-value=19 Score=20.54 Aligned_cols=34 Identities=26% Similarity=0.459 Sum_probs=22.3
Q ss_pred HHhhcCCCCCCceEEcCCCCeEEEechhhHHHhhc
Q psy3995 16 WRMVEDPETNDLISWSENGQSFLIRNQSKFAKELL 50 (67)
Q Consensus 16 ~~~l~~~~~~~~I~W~~~G~~f~I~d~~~f~~~vL 50 (67)
+..|.+.+-.++|++.++|+ +.|.--=..+++-|
T Consensus 29 f~~Lt~eEr~dmI~~~~~G~-i~V~~iCe~C~eaL 62 (76)
T PF10955_consen 29 FHHLTPEERQDMISYDENGD-IHVKVICEDCQEAL 62 (76)
T ss_pred cccCCHHHHhhheEEcCCCC-EEEEEecHHHHHHH
Confidence 45566666679999999999 45543333444444
No 40
>cd05803 PGM_like4 This PGM-like (phosphoglucomutase-like) domain is located C-terminal to a mannose-1-phosphate guanyltransferase domain in a protein of unknown function that is found in both prokaryotes and eukaryotes. This domain belongs to the alpha-D-phosphohexomutase superfamily which includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this superfamily include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine mutase (PNGM), phosphoacetylglucosamine mutase (PAGM), the bacterial phosphomannomutase ManB, the bacterial phosphoglucosamine mutase GlmM, and the bifunctional phosphomannomutase/phosphoglucomutase (PMM/PGM). Each of these enzymes has four domains with a centrally located active site formed by four loops, one from each domain. All four domains are included in this alignment model.
Probab=32.60 E-value=73 Score=22.92 Aligned_cols=35 Identities=9% Similarity=0.141 Sum_probs=28.2
Q ss_pred chHHHHHHHhhcCCCCCCceEEcCCCCeEEEechh
Q psy3995 9 AAFLGKLWRMVEDPETNDLISWSENGQSFLIRNQS 43 (67)
Q Consensus 9 ~~F~~kL~~~l~~~~~~~~I~W~~~G~~f~I~d~~ 43 (67)
+.-+..|.+.+.....+-.|.+++||+.+.+.|++
T Consensus 219 ~~~l~~l~~~v~~~~adlgi~~D~DgDR~~ivd~~ 253 (445)
T cd05803 219 PENLTQLCAAVKESGADVGFAVDPDADRLALVDED 253 (445)
T ss_pred hHHHHHHHHHHHhcCCCEEEeeCCCCceEEEECCC
Confidence 35677888888777666789999999999998864
No 41
>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=32.48 E-value=17 Score=16.19 Aligned_cols=12 Identities=25% Similarity=0.686 Sum_probs=8.5
Q ss_pred CceEEcCCCCeE
Q psy3995 26 DLISWSENGQSF 37 (67)
Q Consensus 26 ~~I~W~~~G~~f 37 (67)
++..|||+|+-+
T Consensus 4 ~~t~FSp~Grl~ 15 (23)
T PF10584_consen 4 SITTFSPDGRLF 15 (23)
T ss_dssp STTSBBTTSSBH
T ss_pred CceeECCCCeEE
Confidence 345699999843
No 42
>COG2360 Aat Leu/Phe-tRNA-protein transferase [Posttranslational modification, protein turnover, chaperones]
Probab=30.78 E-value=29 Score=23.63 Aligned_cols=18 Identities=22% Similarity=0.516 Sum_probs=15.0
Q ss_pred CCceEEcCCCCeEEEech
Q psy3995 25 NDLISWSENGQSFLIRNQ 42 (67)
Q Consensus 25 ~~~I~W~~~G~~f~I~d~ 42 (67)
+.+.+|+||.++++..|.
T Consensus 44 ~~~~W~spdpR~vi~~d~ 61 (221)
T COG2360 44 DPLLWWSPDPRAVLPPDD 61 (221)
T ss_pred CceeEECCCCCeeecccc
Confidence 579999999999987553
No 43
>PRK00301 aat leucyl/phenylalanyl-tRNA--protein transferase; Reviewed
Probab=29.72 E-value=36 Score=23.26 Aligned_cols=18 Identities=17% Similarity=0.481 Sum_probs=14.6
Q ss_pred CCceEEcCCCCeEEEech
Q psy3995 25 NDLISWSENGQSFLIRNQ 42 (67)
Q Consensus 25 ~~~I~W~~~G~~f~I~d~ 42 (67)
+++.+|+|+-++++..+.
T Consensus 51 ~pi~WwsP~pR~Vl~~~~ 68 (233)
T PRK00301 51 QPILWWSPDPRAVLPPDE 68 (233)
T ss_pred CCceEEcCCCCEEecccc
Confidence 579999999998876543
No 44
>PF04051 TRAPP: Transport protein particle (TRAPP) component; InterPro: IPR007194 TRAPP plays a key role in the targeting and/or fusion of ER-to-Golgi transport vesicles with their acceptor compartment. TRAPP is a large multimeric protein that contains at least 10 subunits. This family contains many TRAPP family proteins. The Bet3 subunit is one of the better characterised TRAPP proteins and has a dimeric structure [] with hydrophobic channels. The channel entrances are located on a putative membrane-interacting surface that is distinctively flat, wide and decorated with positively charged residues. Bet3 is proposed to localise TRAPP to the Golgi [].; PDB: 2J3R_A 1WC9_A 2J3T_A 2PWN_A 2J3W_E 1WC8_A 3CUE_N 2C0J_B 3KXC_A 2CFH_A ....
Probab=29.64 E-value=1.1e+02 Score=18.91 Aligned_cols=32 Identities=19% Similarity=0.511 Sum_probs=22.1
Q ss_pred hHHHH-HHHhhcCCCCCCceEEcCCCCeEEEech
Q psy3995 10 AFLGK-LWRMVEDPETNDLISWSENGQSFLIRNQ 42 (67)
Q Consensus 10 ~F~~k-L~~~l~~~~~~~~I~W~~~G~~f~I~d~ 42 (67)
.|+.| +|.++=... .+.++|+.+...++|.|.
T Consensus 59 ~fI~k~~W~~~fgk~-~d~l~~n~~~~~y~i~d~ 91 (152)
T PF04051_consen 59 KFICKDFWKMLFGKQ-ADNLKTNHDRGEYVITDN 91 (152)
T ss_dssp HHHHHHHHHHHHSS---SEEEEETTSTEEEEEES
T ss_pred HHHHHHHHHHHhCCC-CccccccCCCCeEEEecC
Confidence 57777 888887665 489999995445666664
No 45
>PRK09553 tauD taurine dioxygenase; Reviewed
Probab=29.58 E-value=57 Score=21.97 Aligned_cols=33 Identities=27% Similarity=0.455 Sum_probs=24.2
Q ss_pred cchHHHHHHHhhcCCCCCCceEEcCCCCeEEEech
Q psy3995 8 VAAFLGKLWRMVEDPETNDLISWSENGQSFLIRNQ 42 (67)
Q Consensus 8 ~~~F~~kL~~~l~~~~~~~~I~W~~~G~~f~I~d~ 42 (67)
...|+..|++.+.+|++.-..+|.++ .++|+|-
T Consensus 216 s~~ll~~L~~~~~~p~~~~~~~w~~G--D~viwDN 248 (277)
T PRK09553 216 SEALLGFLFAHITKPEFQVRWRWQPN--DVAIWDN 248 (277)
T ss_pred HHHHHHHHHHHhcCcCeEEEEecCCC--CEEEEcC
Confidence 45789999999999987666677754 4556654
No 46
>smart00357 CSP Cold shock protein domain. RNA-binding domain that functions as a RNA-chaperone in bacteria and is involved in regulating translation in eukaryotes. Contains sub-family of RNA-binding domains in the Rho transcription termination factor.
Probab=28.32 E-value=54 Score=16.25 Aligned_cols=15 Identities=20% Similarity=0.694 Sum_probs=10.7
Q ss_pred ceEEcCCCCeEEEec
Q psy3995 27 LISWSENGQSFLIRN 41 (67)
Q Consensus 27 ~I~W~~~G~~f~I~d 41 (67)
+|.|..+|..|++.+
T Consensus 3 ~i~~~~~g~gfv~~~ 17 (64)
T smart00357 3 VVKWFNKGFGFIRPD 17 (64)
T ss_pred EEEEEcCCeeEEecC
Confidence 567777787777754
No 47
>TIGR00310 ZPR1_znf ZPR1 zinc finger domain.
Probab=28.00 E-value=98 Score=20.36 Aligned_cols=35 Identities=20% Similarity=0.217 Sum_probs=26.7
Q ss_pred CcchHHHHHHHhhcCCCCCCceEEcCCCCeEEEec
Q psy3995 7 NVAAFLGKLWRMVEDPETNDLISWSENGQSFLIRN 41 (67)
Q Consensus 7 ~~~~F~~kL~~~l~~~~~~~~I~W~~~G~~f~I~d 41 (67)
+...|+.||.++++....-.+|==+|.|+|||+.+
T Consensus 125 k~~~~i~kL~~~~~g~~pfTlIidDP~GNS~I~~~ 159 (192)
T TIGR00310 125 RAEEILERLKEAIEGKEKFTVILEDPLGGSYIQNV 159 (192)
T ss_pred HHHHHHHHHHHHHhCCCCEEEEEECCCCCeeeecC
Confidence 45679999999998754445555699999999843
No 48
>PF00400 WD40: WD domain, G-beta repeat; InterPro: IPR019781 WD-40 repeats (also known as WD or beta-transducin repeats) are short ~40 amino acid motifs, often terminating in a Trp-Asp (W-D) dipeptide. WD40 repeats usually assume a 7-8 bladed beta-propeller fold, but proteins have been found with 4 to 16 repeated units, which also form a circularised beta-propeller structure. WD-repeat proteins are a large family found in all eukaryotes and are implicated in a variety of functions ranging from signal transduction and transcription regulation to cell cycle control and apoptosis. Repeated WD40 motifs act as a site for protein-protein interaction, and proteins containing WD40 repeats are known to serve as platforms for the assembly of protein complexes or mediators of transient interplay among other proteins. The specificity of the proteins is determined by the sequences outside the repeats themselves. Examples of such complexes are G proteins (beta subunit is a beta-propeller), TAFII transcription factor, and E3 ubiquitin ligase [, ]. In Arabidopsis spp., several WD40-containing proteins act as key regulators of plant-specific developmental events.; PDB: 2ZKQ_a 3CFV_B 3CFS_B 1PEV_A 1NR0_A 1VYH_T 3RFH_A 3O2Z_T 3FRX_C 3U5G_g ....
Probab=27.58 E-value=69 Score=14.17 Aligned_cols=16 Identities=25% Similarity=0.557 Sum_probs=12.1
Q ss_pred CceEEcCCCCeEEEec
Q psy3995 26 DLISWSENGQSFLIRN 41 (67)
Q Consensus 26 ~~I~W~~~G~~f~I~d 41 (67)
..|.|+++|..++...
T Consensus 15 ~~i~~~~~~~~~~s~~ 30 (39)
T PF00400_consen 15 NSIAWSPDGNFLASGS 30 (39)
T ss_dssp EEEEEETTSSEEEEEE
T ss_pred EEEEEecccccceeeC
Confidence 4688999988777654
No 49
>PRK14323 glmM phosphoglucosamine mutase; Provisional
Probab=27.45 E-value=89 Score=22.46 Aligned_cols=35 Identities=11% Similarity=0.146 Sum_probs=29.5
Q ss_pred chHHHHHHHhhcCCCCCCceEEcCCCCeEEEechh
Q psy3995 9 AAFLGKLWRMVEDPETNDLISWSENGQSFLIRNQS 43 (67)
Q Consensus 9 ~~F~~kL~~~l~~~~~~~~I~W~~~G~~f~I~d~~ 43 (67)
+..+..|-+++.....+-.|..++||+.+.+.|..
T Consensus 218 ~~~l~~l~~~v~~~~adlGia~DgD~DR~~~vD~~ 252 (440)
T PRK14323 218 STHPEALQRFVVEGGLDLGVAFDGDADRALFVDRR 252 (440)
T ss_pred CCCHHHHHHHHhccCCCEEEEeCCCcceeEEECCC
Confidence 36788899999887777789999999999988865
No 50
>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=27.21 E-value=1.2e+02 Score=16.89 Aligned_cols=32 Identities=22% Similarity=0.289 Sum_probs=20.1
Q ss_pred HHHHHHhhcCCCCCCceEEcCCCCeEEEechhhH
Q psy3995 12 LGKLWRMVEDPETNDLISWSENGQSFLIRNQSKF 45 (67)
Q Consensus 12 ~~kL~~~l~~~~~~~~I~W~~~G~~f~I~d~~~f 45 (67)
+..+...|...+ -+|-|++.-.++-|..++.|
T Consensus 39 v~qv~~qL~~G~--avI~~se~~es~~I~~k~~~ 70 (70)
T PF06794_consen 39 VEQVKQQLKSGE--AVIVFSELHESVNIVPKEDF 70 (70)
T ss_dssp HHHHHHHHHTTS--EEEEE-TTT--EEEEEGGG-
T ss_pred HHHHHHHHHcCC--EEEEECCccCeecCeecccC
Confidence 445556666554 68999999999988877654
No 51
>PF01480 PWI: PWI domain; InterPro: IPR002483 The PWI domain, named after a highly conserved PWI tri-peptide located within its N-terminal region, is a ~80 amino acid module, which is found either at the N terminus or at the C terminus of eukaryotic proteins involved in pre-mRNA processing []. It is generally found in association with other domains such as RRM and RS. The PWI domain is a RNA/DNA-binding domain that has an equal preference for single- and double-stranded nucleic acids and is likely to have multiple important functions in pre-mRNA processing []. Proteins containing this domain include the SR-related nuclear matrix protein of 160kDa (SRm160) splicing and 3'-end cleavage-stimulatory factor, and the mammalian splicing factor PRP3. The PWI domain is a soluble, globular and independently folded domain which consists of a four-helix bundle, with structured N- and C-terminal elements [].; GO: 0006397 mRNA processing; PDB: 1MP1_A 1X4Q_A.
Probab=26.82 E-value=45 Score=18.38 Aligned_cols=16 Identities=25% Similarity=0.781 Sum_probs=12.7
Q ss_pred cchHHHHHHHhhcCCC
Q psy3995 8 VAAFLGKLWRMVEDPE 23 (67)
Q Consensus 8 ~~~F~~kL~~~l~~~~ 23 (67)
...|+.+||++|-..+
T Consensus 57 a~~Fv~~Lw~~l~~~q 72 (77)
T PF01480_consen 57 AEEFVDELWRLLISAQ 72 (77)
T ss_dssp CHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHHHHh
Confidence 4579999999996554
No 52
>PF11074 DUF2779: Domain of unknown function(DUF2779); InterPro: IPR021301 This domain is conserved in bacteria. The function is not known.
Probab=26.42 E-value=1.3e+02 Score=18.38 Aligned_cols=35 Identities=20% Similarity=0.241 Sum_probs=22.0
Q ss_pred CCCcchHHHHHHHhhcCCCCCCceEEcCCCCeEEEechhhHHHhhcc
Q psy3995 5 GTNVAAFLGKLWRMVEDPETNDLISWSENGQSFLIRNQSKFAKELLP 51 (67)
Q Consensus 5 ~~~~~~F~~kL~~~l~~~~~~~~I~W~~~G~~f~I~d~~~f~~~vLp 51 (67)
..+...|+..|.+.+.+.. .++++.+.. |++.+|.
T Consensus 54 ~DPr~~~~~~L~~~i~~~~-----------g~ivvyN~s-fE~~rL~ 88 (130)
T PF11074_consen 54 EDPRRELIEALIKAIGSIY-----------GSIVVYNKS-FEKTRLK 88 (130)
T ss_pred CCchHHHHHHHHHHhhhhc-----------CeEEEechH-HHHHHHH
Confidence 4555668888888886552 355565553 6666554
No 53
>KOG3804|consensus
Probab=26.31 E-value=93 Score=22.83 Aligned_cols=37 Identities=22% Similarity=0.515 Sum_probs=25.8
Q ss_pred HHHHHHHhhcCCCCCC-ceEEcCCCCe-EEEechhhHHH
Q psy3995 11 FLGKLWRMVEDPETND-LISWSENGQS-FLIRNQSKFAK 47 (67)
Q Consensus 11 F~~kL~~~l~~~~~~~-~I~W~~~G~~-f~I~d~~~f~~ 47 (67)
-..-|+++|.|+++.. .|.|.+--.+ |-|.|.+...+
T Consensus 296 LWefl~~lL~d~~~~p~~IkWedr~~GVFrvVds~a~ar 334 (390)
T KOG3804|consen 296 LWEFLRQLLLDPNYNPGFIKWEDREKGVFRVVDSEALAR 334 (390)
T ss_pred HHHHHHHHhcCCCcCCccccccccCCCeeEEecccHHHH
Confidence 4455667788888766 8999655444 66778777665
No 54
>PF01337 Barstar: Barstar (barnase inhibitor); InterPro: IPR000468 Barstar is a small single chain protein. Barnase is the extracellular ribonuclease IPR001887 from INTERPRO of Bacillus amyloliquefaciens, and barstar its specific intracellular inhibitor [, ]. Expression of barstar is necessary to counter the lethal effect of expressed active barnase. The structure of the barnase-barstar complex is known [].; PDB: 2CX6_A 1B2U_F 1A19_A 1X1U_F 1B27_E 1X1W_F 1BGS_E 1X1Y_D 1B3S_D 1B2S_D ....
Probab=26.26 E-value=1.2e+02 Score=16.66 Aligned_cols=36 Identities=33% Similarity=0.616 Sum_probs=17.0
Q ss_pred HHHHHHhhcCCCCCCceEEcCCCCeEEEe-chhhHHHhhccccc
Q psy3995 12 LGKLWRMVEDPETNDLISWSENGQSFLIR-NQSKFAKELLPRYY 54 (67)
Q Consensus 12 ~~kL~~~l~~~~~~~~I~W~~~G~~f~I~-d~~~f~~~vLp~~F 54 (67)
+..|++.|.+. +|.+.+.-.++. +-..+.+ -+|+.|
T Consensus 32 lDAl~D~L~d~------~~~~~~~~~i~~~~~~~~~~-~~~~~~ 68 (90)
T PF01337_consen 32 LDALWDCLTDL------SWIPEEPIVIIWENADKLKK-RLPEDF 68 (90)
T ss_dssp HHHHHHHHHCT---------S-SSEEEEEETHHHHHH-TTTCHC
T ss_pred HHHHHHHhcCc------ccCCCCCEEEEEcCcHHHHH-HhHHHH
Confidence 34555666555 566666655554 4555544 455443
No 55
>PF05041 Pecanex_C: Pecanex protein (C-terminus); InterPro: IPR007735 This family consists of pecanex protein homologues. The pecanex protein is a maternal-effect neurogenic gene found in Drosophila [].; GO: 0016021 integral to membrane
Probab=25.91 E-value=64 Score=22.01 Aligned_cols=41 Identities=22% Similarity=0.468 Sum_probs=31.4
Q ss_pred CCcchHHHHHHHhhcCCCCCCceEEcCCCCeEEEechhhHHHhhccc
Q psy3995 6 TNVAAFLGKLWRMVEDPETNDLISWSENGQSFLIRNQSKFAKELLPR 52 (67)
Q Consensus 6 ~~~~~F~~kL~~~l~~~~~~~~I~W~~~G~~f~I~d~~~f~~~vLp~ 52 (67)
.....|+.+||.+-. .-++|+. ++-++-.|++.+.+-|+|.
T Consensus 37 ~~~~~f~~gl~~lF~-----Gd~~~s~-~deWl~~d~elL~~vV~pA 77 (232)
T PF05041_consen 37 SSLDSFLYGLHRLFK-----GDFRWSS-RDEWLFADMELLHQVVLPA 77 (232)
T ss_pred cchhhHHHHHHHHhc-----CCCCCcc-CccchhcCHHHHHHHHHHH
Confidence 444579999998864 3457988 7788888888888888885
No 56
>cd03089 PMM_PGM The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a bisphosphorylated sugar intermediate. The reaction involves two phosphoryl transfers, with an intervening 180 degree reorientation of the reaction intermediate during catalysis. Reorientation of the intermediate occurs without dissociation from the active site of the enzyme and is thus, a simple example of processivity, as defined by multiple rounds of catalysis without release of substrate. Glucose-6-phosphate and glucose-1-phosphate are known to be utilized for energy metabolism and cell surface construction, respectively. PMM/PGM belongs to the alpha-D-phosphohexomutase superfamily which includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Other membe
Probab=25.71 E-value=91 Score=22.40 Aligned_cols=34 Identities=15% Similarity=0.219 Sum_probs=27.9
Q ss_pred hHHHHHHHhhcCCCCCCceEEcCCCCeEEEechh
Q psy3995 10 AFLGKLWRMVEDPETNDLISWSENGQSFLIRNQS 43 (67)
Q Consensus 10 ~F~~kL~~~l~~~~~~~~I~W~~~G~~f~I~d~~ 43 (67)
.-+..|.+++.....+-.|..++||+.+.|.|++
T Consensus 212 ~~l~~l~~~v~~~~adlgia~D~DaDR~~ivd~~ 245 (443)
T cd03089 212 ENLEDLIAAVKENGADLGIAFDGDGDRLGVVDEK 245 (443)
T ss_pred HHHHHHHHHHHHcCCCEEEEecCCcceeEEECCC
Confidence 5677788888777667789999999999998864
No 57
>TIGR00667 aat leucyl/phenylalanyl-tRNA--protein transferase. The N-terminal residue controls the biological half-life of many proteins via the N-end rule pathway. This enzyme transfers a Leu or Phe to the amino end of certain proteins to enable degradation.
Probab=25.42 E-value=51 Score=21.80 Aligned_cols=17 Identities=18% Similarity=0.495 Sum_probs=14.1
Q ss_pred CCceEEcCCCCeEEEec
Q psy3995 25 NDLISWSENGQSFLIRN 41 (67)
Q Consensus 25 ~~~I~W~~~G~~f~I~d 41 (67)
+++.+|+||-+.++..+
T Consensus 23 ~pi~WwsP~pR~vl~p~ 39 (185)
T TIGR00667 23 DPILWWSPDPRAVLWPE 39 (185)
T ss_pred CCeeEEcCCCCeEeccc
Confidence 47999999999887654
No 58
>PF03367 zf-ZPR1: ZPR1 zinc-finger domain; InterPro: IPR004457 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 ZPR1-type zinc finger domains. An orthologous protein found once in each of the completed archaeal genomes corresponds to a zinc finger-containing domain repeated as the N-terminal and C-terminal halves of the mouse protein ZPR1. ZPR1 is an experimentally proven zinc-binding protein that binds the tyrosine kinase domain of the epidermal growth factor receptor (EGFR); binding is inhibited by EGF stimulation and tyrosine phosphorylation, and activation by EGF is followed by some redistribution of ZPR1 to the nucleus. By analogy, other proteins with the ZPR1 zinc finger domain may be regulatory proteins that sense protein phosphorylation state and/or participate in signal transduction (see also IPR004470 from INTERPRO). Deficiencies in ZPR1 may contribute to neurodegenerative disorders. ZPR1 appears to be down-regulated in patients with spinal muscular atrophy (SMA), a disease characterised by degeneration of the alpha-motor neurons in the spinal cord that can arise from mutations affecting the expression of Survival Motor Neurons (SMN) []. ZPR1 interacts with complexes formed by SMN [], and may act as a modifier that effects the severity of SMA. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2QKD_A.
Probab=24.95 E-value=89 Score=19.84 Aligned_cols=33 Identities=27% Similarity=0.415 Sum_probs=21.4
Q ss_pred CcchHHHHHHHhhcCCCCCCceEEcCCCCeEEE
Q psy3995 7 NVAAFLGKLWRMVEDPETNDLISWSENGQSFLI 39 (67)
Q Consensus 7 ~~~~F~~kL~~~l~~~~~~~~I~W~~~G~~f~I 39 (67)
+...|+.+|-++++....-..|==+|.|+|||.
T Consensus 128 ~~~~~i~~L~~~~~g~~pfTlIidDP~GnS~I~ 160 (161)
T PF03367_consen 128 KIEEFIEKLDELIEGKRPFTLIIDDPSGNSFIQ 160 (161)
T ss_dssp HHHHHHHHHHHHHCTSS-EEEEEEETTS--EE-
T ss_pred HHHHHHHHHHHHHcCCCCEEEEEECCCCcceec
Confidence 345799999999986643344445899999875
No 59
>COG2867 Oligoketide cyclase/lipid transport protein [Lipid metabolism]
Probab=24.82 E-value=34 Score=21.85 Aligned_cols=24 Identities=13% Similarity=0.549 Sum_probs=19.9
Q ss_pred HHHHHHhhcC-CCCCCceEEcCCCC
Q psy3995 12 LGKLWRMVED-PETNDLISWSENGQ 35 (67)
Q Consensus 12 ~~kL~~~l~~-~~~~~~I~W~~~G~ 35 (67)
+.+||++|+| .+|...+.|....+
T Consensus 14 a~~mF~LV~dV~~YP~FlP~C~~s~ 38 (146)
T COG2867 14 ASQMFDLVNDVESYPEFLPWCSASR 38 (146)
T ss_pred HHHHHHHHHHHHhCchhccccccce
Confidence 6789999988 46889999987755
No 60
>PRK14317 glmM phosphoglucosamine mutase; Provisional
Probab=24.69 E-value=1.4e+02 Score=21.76 Aligned_cols=34 Identities=12% Similarity=0.114 Sum_probs=28.4
Q ss_pred hHHHHHHHhhcCCCCCCceEEcCCCCeEEEechh
Q psy3995 10 AFLGKLWRMVEDPETNDLISWSENGQSFLIRNQS 43 (67)
Q Consensus 10 ~F~~kL~~~l~~~~~~~~I~W~~~G~~f~I~d~~ 43 (67)
.-+..|.+++.....+-.|.+++||+.+.+.|..
T Consensus 234 ~~l~~l~~~v~~~~adlGia~DgDgDR~~~vd~~ 267 (465)
T PRK14317 234 THLEPLQAAVLEHGADMGFAFDGDADRVLAVDGQ 267 (465)
T ss_pred HhHHHHHHHHHhcCCCEEEEECCCCcEEEEECCC
Confidence 5788899988777667789999999999988865
No 61
>cd04911 ACT_AKiii-YclM-BS_1 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII. This CD includes the first of two ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII, a monofunctional class enzyme found in Bacilli (Bacillus subtilis (BS) YclM) and Clostridia species. Aspartokinase is the first enzyme in the aspartate metabolic pathway and catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP. Bacillus subtilis YclM is reported to be a single polypeptide of 50 kD. AKIII from Bacillus subtilis strain 168 is induced by lysine and repressed by threonine and it is synergistically inhibited by lysine and threonine. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=24.66 E-value=1e+02 Score=17.38 Aligned_cols=46 Identities=20% Similarity=0.312 Sum_probs=28.6
Q ss_pred CcchHHHHHHHhhcCCCCC-CceEEcCCCCeEEEech---hhHHHhhccc
Q psy3995 7 NVAAFLGKLWRMVEDPETN-DLISWSENGQSFLIRNQ---SKFAKELLPR 52 (67)
Q Consensus 7 ~~~~F~~kL~~~l~~~~~~-~~I~W~~~G~~f~I~d~---~~f~~~vLp~ 52 (67)
+---|.+|+.+++++-..+ +.+.=+-|+-+++|.+. +....+|+.+
T Consensus 13 ~evGF~rk~L~I~E~~~is~Eh~PSGID~~Siii~~~~~~~~~~~~i~~~ 62 (76)
T cd04911 13 REVGFGRKLLSILEDNGISYEHMPSGIDDISIIIRDNQLTDEKEQKILAE 62 (76)
T ss_pred chhcHHHHHHHHHHHcCCCEeeecCCCccEEEEEEccccchhhHHHHHHH
Confidence 3456999999999886532 33444555667888665 3244445544
No 62
>COG4703 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=24.41 E-value=1.5e+02 Score=16.83 Aligned_cols=33 Identities=24% Similarity=0.465 Sum_probs=22.0
Q ss_pred HHHHHHHhhcCCCCCCc-------------eEEcCCCCeEEEechh
Q psy3995 11 FLGKLWRMVEDPETNDL-------------ISWSENGQSFLIRNQS 43 (67)
Q Consensus 11 F~~kL~~~l~~~~~~~~-------------I~W~~~G~~f~I~d~~ 43 (67)
-+.+|..|.+|..+... |.++++..+|-+.+.+
T Consensus 7 IinRL~~m~edggn~k~~rnFEr~G~vv~eV~ys~~~e~F~lr~~~ 52 (74)
T COG4703 7 IINRLEAMQEDGGNEKRQRNFERNGEVVCEVKYSEDNETFELRDVE 52 (74)
T ss_pred HHHHHHHHHhccCCchhhhhhhcCCEEEEEEEecCCCceEEEEEcc
Confidence 46788888887654322 6677777777765543
No 63
>KOG0423|consensus
Probab=24.13 E-value=1.8e+02 Score=19.44 Aligned_cols=41 Identities=15% Similarity=0.276 Sum_probs=29.4
Q ss_pred CCCCCCCcchHHHHHHHhhcCCCCCCceEEcCCCCeEEEechhhHHH
Q psy3995 1 MAEVGTNVAAFLGKLWRMVEDPETNDLISWSENGQSFLIRNQSKFAK 47 (67)
Q Consensus 1 m~~~~~~~~~F~~kL~~~l~~~~~~~~I~W~~~G~~f~I~d~~~f~~ 47 (67)
|++..+-+|.-+..|+.-|..-..++ |||-.++| +.+.|..
T Consensus 1 m~snenlpp~vik~~~kEl~~l~~~P-----PdGIKV~~-NeeD~td 41 (223)
T KOG0423|consen 1 MASNENLPPNVIKQLAKELKSLDESP-----PDGIKVVV-NEEDFTD 41 (223)
T ss_pred CCcccCCChHHHHHHHHHHHhcccCC-----CCceEEec-ChHHhHH
Confidence 78888888889999998886654322 67777766 5666654
No 64
>PF10313 DUF2415: Uncharacterised protein domain (DUF2415); InterPro: IPR019417 This entry represents a short (30 residues) domain of unknown function found in a family of fungal proteins. It contains a characteristic DLL sequence motif.
Probab=24.11 E-value=81 Score=15.98 Aligned_cols=23 Identities=30% Similarity=0.671 Sum_probs=18.5
Q ss_pred CCceEEcCCCCeEEEechh-hHHH
Q psy3995 25 NDLISWSENGQSFLIRNQS-KFAK 47 (67)
Q Consensus 25 ~~~I~W~~~G~~f~I~d~~-~f~~ 47 (67)
.+..-|+++-..+.|.|-. .|.+
T Consensus 15 ~DLL~~~E~~g~vhi~D~R~~f~~ 38 (43)
T PF10313_consen 15 NDLLAWAEHQGRVHIVDTRSNFMR 38 (43)
T ss_pred ccEEEEEccCCeEEEEEcccCccc
Confidence 3889999999999999965 4554
No 65
>PHA00689 hypothetical protein
Probab=24.05 E-value=60 Score=17.33 Aligned_cols=15 Identities=13% Similarity=0.663 Sum_probs=11.9
Q ss_pred CceEEcCCCCeEEEe
Q psy3995 26 DLISWSENGQSFLIR 40 (67)
Q Consensus 26 ~~I~W~~~G~~f~I~ 40 (67)
.-++|.+||..+++.
T Consensus 26 tglrweddggewvlm 40 (62)
T PHA00689 26 TGLRWEDDGGEWVLM 40 (62)
T ss_pred cCceeecCCCcEEEE
Confidence 458999999888764
No 66
>PF10008 DUF2251: Uncharacterized protein conserved in bacteria (DUF2251); InterPro: IPR014449 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=24.02 E-value=72 Score=19.05 Aligned_cols=11 Identities=55% Similarity=0.930 Sum_probs=9.0
Q ss_pred CceEEcCCCCe
Q psy3995 26 DLISWSENGQS 36 (67)
Q Consensus 26 ~~I~W~~~G~~ 36 (67)
--|.|++||..
T Consensus 58 ~~I~Wsedg~~ 68 (97)
T PF10008_consen 58 VSICWSEDGQK 68 (97)
T ss_pred EEEEEcccccE
Confidence 45899999975
No 67
>cd05805 MPG1_transferase GTP-mannose-1-phosphate guanyltransferase (MPG1 transferase), also known as GDP-mannose pyrophosphorylase, is a bifunctional enzyme with both phosphomannose isomerase (PMI) activity and GDP-mannose phosphorylase (GMP) activity. The protein contains an N-terminal NTP transferase domain, an L-beta-H domain, and a C-terminal PGM-like domain that belongs to the alpha-D-phosphohexomutase superfamily. This subfamily is limited to bacteria and archaea. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this group appear to lack conserved residues necessary for metal binding and catalytic activity. Other members of this superfamily include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine mutase (PNGM), phosphoacetylglucosamine mutase (PAGM), the bacterial phosphomannomutase ManB, the bacterial phosphoglucosamine mutase GlmM, and the bifunctional
Probab=23.88 E-value=1.3e+02 Score=21.66 Aligned_cols=35 Identities=17% Similarity=0.264 Sum_probs=28.4
Q ss_pred chHHHHHHHhhcCCCCCCceEEcCCCCeEEEechh
Q psy3995 9 AAFLGKLWRMVEDPETNDLISWSENGQSFLIRNQS 43 (67)
Q Consensus 9 ~~F~~kL~~~l~~~~~~~~I~W~~~G~~f~I~d~~ 43 (67)
+.-+..|.+++.....+=.|..++||+.+.+.|..
T Consensus 214 ~~~l~~l~~~v~~~~adlgia~DgDaDR~~vvd~~ 248 (441)
T cd05805 214 QRSLDRLGRIVKALGADFGVIIDPNGERLILVDEA 248 (441)
T ss_pred hhHHHHHHHHHHhCCCCEEEEEcCCCCEEEEECCC
Confidence 45777888888777777789999999999988754
No 68
>KOG0291|consensus
Probab=23.81 E-value=45 Score=26.85 Aligned_cols=16 Identities=31% Similarity=0.490 Sum_probs=13.2
Q ss_pred CceEEcCCCCeEEEec
Q psy3995 26 DLISWSENGQSFLIRN 41 (67)
Q Consensus 26 ~~I~W~~~G~~f~I~d 41 (67)
..|.|+|+|+-|.|.-
T Consensus 100 ~~i~fSPng~~fav~~ 115 (893)
T KOG0291|consen 100 GAIKFSPNGKFFAVGC 115 (893)
T ss_pred ceEEECCCCcEEEEEe
Confidence 6799999999887743
No 69
>TIGR00340 zpr1_rel ZPR1-related zinc finger protein. A model ZPR1_znf (TIGR00310) has been created to describe the domain shared by this protein and ZPR1.
Probab=23.77 E-value=1.2e+02 Score=19.36 Aligned_cols=34 Identities=21% Similarity=0.248 Sum_probs=25.4
Q ss_pred CcchHHHHHHHhhcCCCCCCceEEcCCCCeEEEe
Q psy3995 7 NVAAFLGKLWRMVEDPETNDLISWSENGQSFLIR 40 (67)
Q Consensus 7 ~~~~F~~kL~~~l~~~~~~~~I~W~~~G~~f~I~ 40 (67)
+...|+.+|-++++....-.+|==+|.|+|||+.
T Consensus 122 k~~~~l~kL~~~~~g~~pfTlIldDP~GNS~I~~ 155 (163)
T TIGR00340 122 KCEEILKRIREVIEGKFKFTLIIEDPFGNSFIES 155 (163)
T ss_pred HHHHHHHHHHHHHhCCCCeEEEEECCCCCeeecC
Confidence 3457999999999875433555569999999883
No 70
>PHA00520 packaging NTPase P4
Probab=23.22 E-value=1.2e+02 Score=21.86 Aligned_cols=50 Identities=20% Similarity=0.314 Sum_probs=35.3
Q ss_pred CCCCCCCcchHHHHHHHhhcCCCCCCceEEcCCCCeEEEechhhHHHhhcc
Q psy3995 1 MAEVGTNVAAFLGKLWRMVEDPETNDLISWSENGQSFLIRNQSKFAKELLP 51 (67)
Q Consensus 1 m~~~~~~~~~F~~kL~~~l~~~~~~~~I~W~~~G~~f~I~d~~~f~~~vLp 51 (67)
|..++..+++|+..|-+++-...--..|||.+-++.+=- +.+.|.-.+|-
T Consensus 130 vG~t~sGKT~~~na~a~~vgg~d~y~vIR~GEp~~~Y~t-d~~~~~~~~l~ 179 (330)
T PHA00520 130 VGGTGSGKTPLLNALAPDVGGGDKYAVIRWGEPLEGYDT-DLHVFAALILA 179 (330)
T ss_pred EccCCCCCchhhhhhhhhhcCCCceeEEEecCcccccCc-hhHHHHHHHHH
Confidence 456788899999999888866554489999998887421 34445554443
No 71
>smart00709 Zpr1 Duplicated domain in the epidermal growth factor- and elongation factor-1alpha-binding protein Zpr1. Also present in archaeal proteins.
Probab=22.73 E-value=1.2e+02 Score=19.36 Aligned_cols=33 Identities=30% Similarity=0.440 Sum_probs=23.7
Q ss_pred CcchHHHHHHHhhcCCCCCCceEEcCCCCeEEE
Q psy3995 7 NVAAFLGKLWRMVEDPETNDLISWSENGQSFLI 39 (67)
Q Consensus 7 ~~~~F~~kL~~~l~~~~~~~~I~W~~~G~~f~I 39 (67)
+...|+.+|-++++....-.+|==+|.|+|+|+
T Consensus 127 k~~~~~~~L~~~~~g~~~fTliidDP~GnS~I~ 159 (160)
T smart00709 127 KIDEFLEKLKELIEGKEPFTLILDDPAGNSYIQ 159 (160)
T ss_pred HHHHHHHHHHHHHcCCCCEEEEEECCCCceecc
Confidence 456799999999976543344545888998875
No 72
>PRK14320 glmM phosphoglucosamine mutase; Provisional
Probab=22.61 E-value=1.4e+02 Score=21.51 Aligned_cols=35 Identities=14% Similarity=0.272 Sum_probs=28.9
Q ss_pred chHHHHHHHhhcCCCCCCceEEcCCCCeEEEechh
Q psy3995 9 AAFLGKLWRMVEDPETNDLISWSENGQSFLIRNQS 43 (67)
Q Consensus 9 ~~F~~kL~~~l~~~~~~~~I~W~~~G~~f~I~d~~ 43 (67)
+..+..|.+++.....+-.|..++||+.+.+.|..
T Consensus 217 ~~~l~~l~~~v~~~~adlGia~DgDaDR~~~vd~~ 251 (443)
T PRK14320 217 ATCVSNIKKAVKEQKADLGISLDGDADRIIIVDEN 251 (443)
T ss_pred hHhHHHHHHHHHHcCCCEEEEECCCCceEEEECCC
Confidence 36788888888777667789999999999988764
No 73
>KOG2315|consensus
Probab=22.54 E-value=88 Score=24.15 Aligned_cols=17 Identities=29% Similarity=0.751 Sum_probs=13.9
Q ss_pred CCCceEEcCCCCeEEEe
Q psy3995 24 TNDLISWSENGQSFLIR 40 (67)
Q Consensus 24 ~~~~I~W~~~G~~f~I~ 40 (67)
...+..|+|||+.|+..
T Consensus 356 ~tt~~eW~PdGe~flTA 372 (566)
T KOG2315|consen 356 NTTVFEWSPDGEYFLTA 372 (566)
T ss_pred CceEEEEcCCCcEEEEE
Confidence 45789999999988764
No 74
>PF14258 DUF4350: Domain of unknown function (DUF4350)
Probab=22.37 E-value=11 Score=20.09 Aligned_cols=12 Identities=25% Similarity=0.969 Sum_probs=5.1
Q ss_pred eEEcCCCCeEEE
Q psy3995 28 ISWSENGQSFLI 39 (67)
Q Consensus 28 I~W~~~G~~f~I 39 (67)
..|...|..++|
T Consensus 57 ~~~v~~G~~lvl 68 (70)
T PF14258_consen 57 LEWVEAGNTLVL 68 (70)
T ss_pred HHHHHcCCEEEE
Confidence 344444444443
No 75
>cd07812 SRPBCC START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily. SRPBCC domains have a deep hydrophobic ligand-binding pocket; they bind diverse ligands. Included in this superfamily are the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domains of mammalian STARD1-STARD15, and the C-terminal catalytic domains of the alpha oxygenase subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases (RHOs_alpha_C), as well as the SRPBCC domains of phosphatidylinositol transfer proteins (PITPs), Bet v 1 (the major pollen allergen of white birch, Betula verrucosa), CoxG, CalC, and related proteins. Other members of this superfamily include PYR/PYL/RCAR plant proteins, the aromatase/cyclase (ARO/CYC) domains of proteins such as Streptomyces glaucescens tetracenomycin, and the SRPBCC domains of Streptococcus mutans Smu.440 and related proteins.
Probab=22.33 E-value=77 Score=17.01 Aligned_cols=31 Identities=23% Similarity=0.436 Sum_probs=21.5
Q ss_pred chHHHHHHHhhcCCCCCCceEEcCCCCeEEEec
Q psy3995 9 AAFLGKLWRMVEDPETNDLISWSENGQSFLIRN 41 (67)
Q Consensus 9 ~~F~~kL~~~l~~~~~~~~I~W~~~G~~f~I~d 41 (67)
+.=+.++|+.+.|++ ..-.|.+.-....+..
T Consensus 8 ~a~~~~v~~~l~d~~--~~~~~~~~~~~~~~~~ 38 (141)
T cd07812 8 PAPPEAVWDLLSDPE--RWPEWSPGLERVEVLG 38 (141)
T ss_pred CCCHHHHHHHHhChh--hhhhhCcccceEEEcC
Confidence 345789999999986 4666776666555543
No 76
>cd06408 PB1_NoxR The PB1 domain is present in the Epichloe festucae NoxR protein (NADPH oxidase regulator), a key regulator of NADPH oxidase isoform, NoxA. NoxA is essential for growth control of the fungal endophyte in plant tissue in the process of symbiotic interaction between a fungi and its plant host. The Epichloe festucae p67(phox)-like regulator, NoxR, dispensable in culture but essential in plants for the symbiotic interaction. Plants infected with a noxR deletion mutant show severe stunting and premature senescence, whereas hyphae in the meristematic tissues show increased branching leading to increased fungal colonization of pseudostem and leaf blade tissue. The PB1 domain is a modular domain mediating specific protein-protein interactions which a play role in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is
Probab=22.27 E-value=1.7e+02 Score=16.89 Aligned_cols=44 Identities=16% Similarity=0.160 Sum_probs=34.3
Q ss_pred CCCCcchHHHHHHHhhcCCCCCCceEEcCCCCeEEEechhhHHHh
Q psy3995 4 VGTNVAAFLGKLWRMVEDPETNDLISWSENGQSFLIRNQSKFAKE 48 (67)
Q Consensus 4 ~~~~~~~F~~kL~~~l~~~~~~~~I~W~~~G~~f~I~d~~~f~~~ 48 (67)
.......|..|+-+.+.-.. .=.|.|-++|+-+-|.++..+..-
T Consensus 20 ~~i~f~dL~~kIrdkf~~~~-~~~iKykDEGD~iti~sq~DLd~A 63 (86)
T cd06408 20 PDTGFADFEDKIRDKFGFKR-RLKIKMKDDGDMITMGDQDDLDMA 63 (86)
T ss_pred CCCCHHHHHHHHHHHhCCCC-ceEEEEEcCCCCccccCHHHHHHH
Confidence 34456678888888887653 567999999999999998888763
No 77
>KOG1532|consensus
Probab=22.24 E-value=91 Score=22.57 Aligned_cols=23 Identities=17% Similarity=0.317 Sum_probs=18.3
Q ss_pred CCCcchHHHHHHHhhcCCCCCCc
Q psy3995 5 GTNVAAFLGKLWRMVEDPETNDL 27 (67)
Q Consensus 5 ~~~~~~F~~kL~~~l~~~~~~~~ 27 (67)
|.+.++|.++|+..+......++
T Consensus 29 GSGKTTF~QrL~~hl~~~~~ppY 51 (366)
T KOG1532|consen 29 GSGKTTFMQRLNSHLHAKKTPPY 51 (366)
T ss_pred CCCchhHHHHHHHHHhhccCCCe
Confidence 56788999999999987765433
No 78
>PF00080 Sod_Cu: Copper/zinc superoxide dismutase (SODC); InterPro: IPR001424 Superoxide dismutases are ubiquitous metalloproteins that prevent damage by oxygen-mediated free radicals by catalysing the dismutation of superoxide into molecular oxygen and hydrogen peroxide []. Superoxide is a normal by-product of aerobic respiration and is produced by a number of reactions, including oxidative phosphorylation and photosynthesis. The dismutase enzymes have a very high catalytic efficiency due to the attraction of superoxide to the ions bound at the active site [, ]. There are three forms of superoxide dismutase, depending on the metal cofactor: Cu/Zn (which binds both copper and zinc), Fe and Mn types. The Fe and Mn forms are similar in their primary, secondary and tertiary structures, but are distinct from the Cu/Zn form []. Prokaryotes and protists contain Mn, Fe or both types, while most eukaryotic organisms utilise the Cu/Zn type.; GO: 0046872 metal ion binding, 0006801 superoxide metabolic process, 0055114 oxidation-reduction process; PDB: 2K4W_A 2APS_B 2WWN_B 2WWO_B 1ESO_A 2AQM_A 3F7L_A 3F7K_A 2E47_A 2E46_A ....
Probab=22.10 E-value=57 Score=19.68 Aligned_cols=10 Identities=30% Similarity=0.601 Sum_probs=8.6
Q ss_pred CCeEEEechh
Q psy3995 34 GQSFLIRNQS 43 (67)
Q Consensus 34 G~~f~I~d~~ 43 (67)
|++||||+.+
T Consensus 113 GRSiVIH~~~ 122 (142)
T PF00080_consen 113 GRSIVIHSGP 122 (142)
T ss_dssp TSEEEEESSS
T ss_pred CCEEEEEeCC
Confidence 9999999864
No 79
>cd07347 harmonin_N_like N-terminal protein-binding module of harmonin and similar domains. This domain is found in harmonin, and similar proteins such as delphilin, and whirlin. These are postsynaptic density-95/discs-large/ZO-1 (PDZ) domain-containing scaffold proteins. Harmonin and whirlin are organizers of the Usher protein network of the inner ear and the retina, delphilin is found at the cerebellar parallel fiber-Purkinje cell synapses. This harmonin_N_like domain is found in either one or two copies. Harmonin contains a single copy, which is found at its N-terminus and binds specifically to a short internal peptide fragment of the cadherin 23 cytoplasmic domain; cadherin 23 is a component of the Usher protein network. Whirlin contains two copies of the harmonin_N_like domain; the first of these has been assayed for interaction with the cytoplasmic domain of cadherin 23 and no interaction could be detected.
Probab=22.05 E-value=52 Score=18.73 Aligned_cols=21 Identities=19% Similarity=0.408 Sum_probs=17.6
Q ss_pred CCCcchHHHHHHHhhcCCCCC
Q psy3995 5 GTNVAAFLGKLWRMVEDPETN 25 (67)
Q Consensus 5 ~~~~~~F~~kL~~~l~~~~~~ 25 (67)
+..+..|+..|+.+|+.|+-.
T Consensus 34 ~~~Vd~LV~~L~~vLdtPaK~ 54 (78)
T cd07347 34 ERNVDDLVRDLYLVLDTPAKL 54 (78)
T ss_pred cCCHHHHHHHHHHHcCcHhHH
Confidence 348889999999999999743
No 80
>KOG2428|consensus
Probab=22.03 E-value=66 Score=24.08 Aligned_cols=20 Identities=20% Similarity=0.572 Sum_probs=16.7
Q ss_pred CCCCceEEcCCCCeEEEech
Q psy3995 23 ETNDLISWSENGQSFLIRNQ 42 (67)
Q Consensus 23 ~~~~~I~W~~~G~~f~I~d~ 42 (67)
++..||+|++..-++.|-+.
T Consensus 209 SNAriVrWSDGS~SL~lGNE 228 (443)
T KOG2428|consen 209 SNARIVRWSDGSMSLHLGNE 228 (443)
T ss_pred ccceEEEecCCceeEeechh
Confidence 46789999999999998654
No 81
>PRK09542 manB phosphomannomutase/phosphoglucomutase; Reviewed
Probab=21.86 E-value=1.2e+02 Score=21.84 Aligned_cols=34 Identities=12% Similarity=0.196 Sum_probs=27.3
Q ss_pred hHHHHHHHhhcCCCCCCceEEcCCCCeEEEechh
Q psy3995 10 AFLGKLWRMVEDPETNDLISWSENGQSFLIRNQS 43 (67)
Q Consensus 10 ~F~~kL~~~l~~~~~~~~I~W~~~G~~f~I~d~~ 43 (67)
.-+..|.+++.....+-.|..++||+.+.|.|+.
T Consensus 213 ~~l~~l~~~v~~~~adlGia~DgD~DR~~ivd~~ 246 (445)
T PRK09542 213 ANLVDLQAFVRETGADIGLAFDGDADRCFVVDER 246 (445)
T ss_pred HHHHHHHHHHHHcCCCEEEEECCCCceEEEECCC
Confidence 4566777778777777789999999999998865
No 82
>COG3490 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=21.83 E-value=85 Score=22.76 Aligned_cols=17 Identities=12% Similarity=0.413 Sum_probs=14.4
Q ss_pred CceEEcCCCCeEEEech
Q psy3995 26 DLISWSENGQSFLIRNQ 42 (67)
Q Consensus 26 ~~I~W~~~G~~f~I~d~ 42 (67)
+-+.|.+||+.++|.+-
T Consensus 165 Hev~lm~DGrtlvvanG 181 (366)
T COG3490 165 HEVTLMADGRTLVVANG 181 (366)
T ss_pred ceeEEecCCcEEEEeCC
Confidence 56889999999998764
No 83
>PF02668 TauD: Taurine catabolism dioxygenase TauD, TfdA family; InterPro: IPR003819 This family consists of TauD/TfdA taurine catabolism dioxygenases. The Escherichia coli tauD gene is required for the utilization of taurine (2-aminoethanesulphonic acid) as a sulphur source and is expressed only under conditions of sulphate starvation. TauD is an alpha-ketoglutarate-dependent dioxygenase catalyzing the oxygenolytic release of sulphite from taurine []. The 2,4-dichlorophenoxyacetic acid/alpha-ketoglutarate dioxygenase from Burkholderia sp. (strain RASC) also belongs to this family []. TfdA from Ralstonia eutropha (Alcaligenes eutrophus) is a 2,4-D monooxygenase [].; GO: 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 3SWT_B 3R1J_A 1GVG_A 1DRT_A 1DS1_A 1DS0_A 1DRY_A 3V15_A 3PVJ_D 3V17_A ....
Probab=21.57 E-value=76 Score=20.24 Aligned_cols=32 Identities=25% Similarity=0.398 Sum_probs=22.3
Q ss_pred chHHHHHHHhhcCCCCCCceEEcCCCCeEEEec
Q psy3995 9 AAFLGKLWRMVEDPETNDLISWSENGQSFLIRN 41 (67)
Q Consensus 9 ~~F~~kL~~~l~~~~~~~~I~W~~~G~~f~I~d 41 (67)
..++.+|.+++.++++.-.+.|. .|+.+++.|
T Consensus 204 ~~~~~~l~~~l~~~~~~~~~~~~-~GDlli~dN 235 (258)
T PF02668_consen 204 QEALAALDALLKDPEYTYRHRWQ-PGDLLIWDN 235 (258)
T ss_dssp HHHHHHHHHHHTSGGGEEEEE---TTEEEEEET
T ss_pred HHHHHHHHHHHhChhhcccccCC-CceEEEEcC
Confidence 35778999999888776677887 577776655
No 84
>COG3538 Uncharacterized conserved protein [Function unknown]
Probab=21.45 E-value=1.2e+02 Score=22.47 Aligned_cols=18 Identities=22% Similarity=0.473 Sum_probs=15.3
Q ss_pred CCCCceEEcCCCCeEEEe
Q psy3995 23 ETNDLISWSENGQSFLIR 40 (67)
Q Consensus 23 ~~~~~I~W~~~G~~f~I~ 40 (67)
..+.-|+|.++|..|||-
T Consensus 38 TldTTi~~~e~g~~FvlT 55 (434)
T COG3538 38 TLDTTIRTTEDGTPFVLT 55 (434)
T ss_pred chhheeeeccCCCeEEEe
Confidence 356789999999999985
No 85
>cd07823 SRPBCC_5 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins. Uncharacterized group of the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain superfamily. SRPBCC domains have a deep hydrophobic ligand-binding pocket and they bind diverse ligands. SRPBCC domains include the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domains of mammalian STARD1-STARD15, the C-terminal catalytic domains of the alpha oxygenase subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases (RHOs_alpha_C), Class I and II phosphatidylinositol transfer proteins (PITPs), Bet v 1 (the major pollen allergen of white birch, Betula verrucosa), CoxG, CalC, and related proteins. Other members of the superfamily include PYR/PYL/RCAR plant proteins, the aromatase/cyclase (ARO/CYC) domains of proteins such as Streptomyces glaucescens tetracenomycin, and the SRPBCC domains of Streptococcus mutans Smu.440 and related proteins.
Probab=21.39 E-value=32 Score=20.43 Aligned_cols=26 Identities=15% Similarity=0.243 Sum_probs=18.6
Q ss_pred chHHHHHHHhhcCCCCCCceEEcCCCCe
Q psy3995 9 AAFLGKLWRMVEDPETNDLISWSENGQS 36 (67)
Q Consensus 9 ~~F~~kL~~~l~~~~~~~~I~W~~~G~~ 36 (67)
+.=+.++|++|.|++ ...+|.|+=.+
T Consensus 8 ~a~pe~vw~~l~D~~--~~~~~~pg~~~ 33 (146)
T cd07823 8 PAPPDRVWALLLDIE--RVAPCLPGASL 33 (146)
T ss_pred cCCHHHHHHHhcCHH--HHHhcCCCcee
Confidence 334789999999986 57788775333
No 86
>PF08450 SGL: SMP-30/Gluconolaconase/LRE-like region; InterPro: IPR013658 This family describes a region that is found in proteins expressed by a variety of eukaryotic and prokaryotic species. These proteins include various enzymes, such as senescence marker protein 30 (SMP-30, Q15493 from SWISSPROT), gluconolactonase (Q01578 from SWISSPROT) and luciferin-regenerating enzyme (LRE, Q86DU5 from SWISSPROT). SMP-30 is known to hydrolyse diisopropyl phosphorofluoridate in the liver, and has been noted as having sequence similarity, in the region described in this family, with PON1 (P52430 from SWISSPROT) and LRE. ; PDB: 2GHS_A 2DG0_L 2DG1_D 2DSO_D 3E5Z_A 2IAT_A 2IAV_A 2GVV_A 3HLI_A 2GVU_A ....
Probab=21.27 E-value=85 Score=20.12 Aligned_cols=19 Identities=16% Similarity=0.419 Sum_probs=14.9
Q ss_pred CCCceEEcCCCCeEEEech
Q psy3995 24 TNDLISWSENGQSFLIRNQ 42 (67)
Q Consensus 24 ~~~~I~W~~~G~~f~I~d~ 42 (67)
..+-|.|++||+.+.+.|.
T Consensus 135 ~pNGi~~s~dg~~lyv~ds 153 (246)
T PF08450_consen 135 FPNGIAFSPDGKTLYVADS 153 (246)
T ss_dssp SEEEEEEETTSSEEEEEET
T ss_pred cccceEECCcchheeeccc
Confidence 4467999999999887653
No 87
>cd07825 SRPBCC_7 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins. Uncharacterized group of the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain superfamily. SRPBCC domains have a deep hydrophobic ligand-binding pocket and they bind diverse ligands. SRPBCC domains include the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domains of mammalian STARD1-STARD15, the C-terminal catalytic domains of the alpha oxygenase subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases (RHOs_alpha_C), Class I and II phosphatidylinositol transfer proteins (PITPs), Bet v 1 (the major pollen allergen of white birch, Betula verrucosa), CoxG, CalC, and related proteins. Other members of the superfamily include PYR/PYL/RCAR plant proteins, the aromatase/cyclase (ARO/CYC) domains of proteins such as Streptomyces glaucescens tetracenomycin, and the SRPBCC domains of Streptococcus mutans Smu.440 and related proteins.
Probab=21.13 E-value=96 Score=17.89 Aligned_cols=21 Identities=14% Similarity=0.308 Sum_probs=16.3
Q ss_pred HHHHHHhhcCCCCCCceEEcCCC
Q psy3995 12 LGKLWRMVEDPETNDLISWSENG 34 (67)
Q Consensus 12 ~~kL~~~l~~~~~~~~I~W~~~G 34 (67)
+.++|+++.|++ .+-.|.+.+
T Consensus 12 ~e~Vw~~l~d~~--~~~~W~~~~ 32 (144)
T cd07825 12 AEAVFAVLADPR--RHPEIDGSG 32 (144)
T ss_pred HHHHHHHHhCcc--ccceeCCCC
Confidence 678999999996 466787643
No 88
>TIGR02410 carnitine_TMLD trimethyllysine dioxygenase. Members of this family with known function act as trimethyllysine dioxygenase, an enzyme in the pathway for carnitine biosynthesis from lysine. This enzyme is homologous to gamma-butyrobetaine,2-oxoglutarate dioxygenase, which catalyzes the last step in carnitine biosynthesis. Members of this family appear to be eukaryotic only.
Probab=20.72 E-value=1.1e+02 Score=21.60 Aligned_cols=29 Identities=14% Similarity=0.409 Sum_probs=20.1
Q ss_pred HHHHHHhhcCCCCCCceEEcCCCCeEEEec
Q psy3995 12 LGKLWRMVEDPETNDLISWSENGQSFLIRN 41 (67)
Q Consensus 12 ~~kL~~~l~~~~~~~~I~W~~~G~~f~I~d 41 (67)
+.+|.+++.+|++.-.+.|.+ |+.+++.|
T Consensus 299 l~~l~~~~~~p~~~~~~~l~p-Gd~vi~DN 327 (362)
T TIGR02410 299 IRRFNKIITDPDNEIEFKLRP-GTVLIFDN 327 (362)
T ss_pred HHHHHHHhcChhcEEEEEcCC-ccEEEEee
Confidence 456777788888766777877 66665543
No 89
>KOG0271|consensus
Probab=20.37 E-value=52 Score=24.62 Aligned_cols=18 Identities=22% Similarity=0.617 Sum_probs=13.8
Q ss_pred ceEEcCCCC---------eEEEechhh
Q psy3995 27 LISWSENGQ---------SFLIRNQSK 44 (67)
Q Consensus 27 ~I~W~~~G~---------~f~I~d~~~ 44 (67)
+|.|+|||. +|.++|++.
T Consensus 162 cvawsPDgk~iASG~~dg~I~lwdpkt 188 (480)
T KOG0271|consen 162 CVAWSPDGKKIASGSKDGSIRLWDPKT 188 (480)
T ss_pred EEEECCCcchhhccccCCeEEEecCCC
Confidence 589999996 477888643
No 90
>PRK04966 hypothetical protein; Provisional
Probab=20.33 E-value=1.8e+02 Score=16.35 Aligned_cols=32 Identities=25% Similarity=0.455 Sum_probs=23.6
Q ss_pred HHHHHHhhcCCCCCCceEEcCCCCeEEEechhhH
Q psy3995 12 LGKLWRMVEDPETNDLISWSENGQSFLIRNQSKF 45 (67)
Q Consensus 12 ~~kL~~~l~~~~~~~~I~W~~~G~~f~I~d~~~f 45 (67)
+..+...|...+ -+|-|++.-.++-|..++.|
T Consensus 39 v~qv~~qL~~G~--~viv~se~~ESv~I~~k~~~ 70 (72)
T PRK04966 39 VADVKRQLQSGE--AVLVWSELHETVNIMPKSQF 70 (72)
T ss_pred HHHHHHHHHcCC--EEEEECCCCCeeeeEEHHHc
Confidence 445555665554 68999999999999887766
No 91
>KOG2984|consensus
Probab=20.16 E-value=1.2e+02 Score=21.01 Aligned_cols=28 Identities=21% Similarity=0.362 Sum_probs=22.0
Q ss_pred HHHHHhhcCCCCCCceEEcCCCCeEEEec
Q psy3995 13 GKLWRMVEDPETNDLISWSENGQSFLIRN 41 (67)
Q Consensus 13 ~kL~~~l~~~~~~~~I~W~~~G~~f~I~d 41 (67)
.-|.+.|.-+.. .+..||+.|.+=+|..
T Consensus 105 vdLM~aLk~~~f-svlGWSdGgiTalivA 132 (277)
T KOG2984|consen 105 VDLMEALKLEPF-SVLGWSDGGITALIVA 132 (277)
T ss_pred HHHHHHhCCCCe-eEeeecCCCeEEEEee
Confidence 457888887775 7999999998866643
No 92
>COG0182 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]
Probab=20.08 E-value=70 Score=23.20 Aligned_cols=18 Identities=28% Similarity=0.571 Sum_probs=14.4
Q ss_pred CceEEcCCCCeEEEechhh
Q psy3995 26 DLISWSENGQSFLIRNQSK 44 (67)
Q Consensus 26 ~~I~W~~~G~~f~I~d~~~ 44 (67)
..|.|.++| ++.+.|+.+
T Consensus 4 ~~i~w~~~~-~v~llDQr~ 21 (346)
T COG0182 4 RPIEWKDDG-SVKLLDQRL 21 (346)
T ss_pred eeEEEcCCC-eEEEEeccc
Confidence 357899999 888888764
No 93
>cd05802 GlmM GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of UDP-N-acetylglucosamine, an essential precursor to components of the cell envelope. In order to be active, GlmM must be phosphorylated, which can occur via autophosphorylation or by the Ser/Thr kinase StkP. GlmM functions in a classical ping-pong bi-bi mechanism with glucosamine-1,6-diphosphate as an intermediate. Other members of the alpha-D-phosphohexomutase superfamily include phosphoglucosamine mutase (PNGM), phosphoacetylglucosamine mutase (PAGM), the bacterial phosphomannomutase ManB, and the bifunctional phosphomannomutase/phosphoglucomutase (PMM/PGM). Each of these enzymes has four domains with a centrally located active site formed by four loops, one from each domain. All four domains are included in this alignment model.
Probab=20.07 E-value=1.4e+02 Score=21.35 Aligned_cols=34 Identities=9% Similarity=0.127 Sum_probs=28.0
Q ss_pred hHHHHHHHhhcCCCCCCceEEcCCCCeEEEechh
Q psy3995 10 AFLGKLWRMVEDPETNDLISWSENGQSFLIRNQS 43 (67)
Q Consensus 10 ~F~~kL~~~l~~~~~~~~I~W~~~G~~f~I~d~~ 43 (67)
..+..|.+++.....+-.|..++||+.+++.|.+
T Consensus 215 ~~~~~l~~~v~~~~adlGia~DgDgDR~~~vd~~ 248 (434)
T cd05802 215 THPESLQKAVLENGADLGIAFDGDADRVIAVDEK 248 (434)
T ss_pred cCHHHHHHHHHhcCCCEEEEEcCCCceEEEECCC
Confidence 5678888888777666779999999999988764
Done!