Query 026450
Match_columns 238
No_of_seqs 189 out of 430
Neff 5.8
Searched_HMMs 46136
Date Fri Mar 29 08:11:49 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/026450.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/026450hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1364 Predicted ubiquitin re 99.8 8.5E-20 1.8E-24 167.4 9.7 161 8-213 4-170 (356)
2 smart00594 UAS UAS domain. 99.6 4.5E-16 9.8E-21 124.0 6.0 81 156-236 2-86 (122)
3 PF14555 UBA_4: UBA-like domai 99.4 1.9E-13 4E-18 90.9 4.4 41 11-52 1-41 (43)
4 cd02991 UAS_ETEA UAS family, E 99.4 3.1E-13 6.7E-18 107.7 6.1 74 164-237 1-77 (116)
5 cd02958 UAS UAS family; UAS is 99.4 5.2E-13 1.1E-17 104.5 5.7 71 164-234 1-74 (114)
6 cd02990 UAS_FAF1 UAS family, F 99.1 4.9E-11 1.1E-15 97.8 5.2 59 164-222 1-63 (136)
7 PF13899 Thioredoxin_7: Thiore 98.7 1.4E-08 3E-13 75.1 4.6 60 167-226 4-63 (82)
8 cd02960 AGR Anterior Gradient 97.8 4.4E-05 9.4E-10 62.3 5.2 60 165-224 8-67 (130)
9 cd02955 SSP411 TRX domain, SSP 97.2 0.00061 1.3E-08 54.9 5.1 56 170-225 5-60 (124)
10 PF03943 TAP_C: TAP C-terminal 97.1 0.00028 6E-09 48.6 2.2 42 11-53 1-42 (51)
11 smart00804 TAP_C C-terminal do 97.1 0.00089 1.9E-08 48.2 4.5 42 8-50 10-51 (63)
12 PF00627 UBA: UBA/TS-N domain; 96.7 0.003 6.5E-08 40.2 4.2 35 10-46 2-36 (37)
13 cd00194 UBA Ubiquitin Associat 96.6 0.0047 1E-07 39.1 4.6 36 11-48 2-37 (38)
14 PF03190 Thioredox_DsbH: Prote 96.6 0.0018 3.9E-08 54.8 3.4 57 170-226 27-83 (163)
15 smart00165 UBA Ubiquitin assoc 96.6 0.0044 9.5E-08 39.1 4.3 36 11-48 2-37 (37)
16 KOG1363 Predicted regulator of 96.2 0.005 1.1E-07 59.9 4.3 72 150-221 148-223 (460)
17 KOG1364 Predicted ubiquitin re 94.9 0.0023 5.1E-08 59.8 -3.2 50 174-223 5-54 (356)
18 COG1331 Highly conserved prote 94.3 0.056 1.2E-06 54.7 4.6 63 170-232 33-95 (667)
19 KOG2507 Ubiquitin regulatory p 94.2 0.068 1.5E-06 51.5 4.8 68 163-231 2-69 (506)
20 KOG2086 Protein tyrosine phosp 93.8 0.024 5.1E-07 53.8 0.9 42 10-52 4-45 (380)
21 KOG4351 Uncharacterized conser 92.4 0.021 4.4E-07 50.9 -1.6 47 6-52 19-67 (244)
22 PF02845 CUE: CUE domain; Int 92.2 0.34 7.5E-06 31.4 4.5 39 11-49 2-40 (42)
23 cd02951 SoxW SoxW family; SoxW 91.8 0.29 6.4E-06 38.1 4.5 57 169-225 2-59 (125)
24 smart00546 CUE Domain that may 91.7 0.55 1.2E-05 30.5 5.0 40 11-50 3-42 (43)
25 TIGR00264 alpha-NAC-related pr 91.6 0.25 5.4E-06 39.7 3.8 35 10-45 78-112 (116)
26 PRK06369 nac nascent polypepti 91.2 0.29 6.3E-06 39.3 3.8 36 10-46 76-111 (115)
27 cd02959 ERp19 Endoplasmic reti 90.7 0.32 7E-06 38.3 3.7 58 167-225 6-63 (117)
28 COG2143 Thioredoxin-related pr 87.6 0.77 1.7E-05 39.1 4.0 59 165-223 27-85 (182)
29 COG1308 EGD2 Transcription fac 86.4 1 2.3E-05 36.4 3.9 35 11-46 85-119 (122)
30 KOG3763 mRNA export factor TAP 86.2 1.2 2.7E-05 44.4 5.1 42 10-52 535-576 (585)
31 cd02953 DsbDgamma DsbD gamma f 82.6 2.2 4.7E-05 31.9 4.1 55 171-225 2-56 (104)
32 PRK00293 dipZ thiol:disulfide 79.2 2.9 6.2E-05 41.8 4.7 58 166-224 460-517 (571)
33 KOG2244 Highly conserved prote 77.4 2.6 5.7E-05 42.3 3.7 66 170-235 102-172 (786)
34 CHL00098 tsf elongation factor 69.1 6.5 0.00014 34.4 3.9 39 12-51 3-41 (200)
35 KOG3077 Uncharacterized conser 68.5 2.7 5.8E-05 38.2 1.4 39 10-49 8-47 (260)
36 PRK09377 tsf elongation factor 67.9 7.7 0.00017 35.8 4.3 40 11-51 6-45 (290)
37 PRK12332 tsf elongation factor 67.8 7.2 0.00016 34.0 3.9 40 11-51 5-44 (198)
38 TIGR00116 tsf translation elon 67.3 7 0.00015 36.1 3.9 40 11-51 5-44 (290)
39 PF03765 CRAL_TRIO_N: CRAL/TRI 61.4 13 0.00028 25.0 3.5 26 22-47 27-52 (55)
40 KOG2756 Predicted Mg2+-depende 61.1 6.2 0.00013 36.6 2.2 40 11-51 26-65 (349)
41 PF11547 E3_UbLigase_EDD: E3 u 60.4 24 0.00052 24.3 4.5 43 8-50 7-49 (53)
42 KOG1071 Mitochondrial translat 54.9 15 0.00032 34.6 3.6 38 9-47 45-82 (340)
43 COG2103 Predicted sugar phosph 51.9 21 0.00046 32.9 4.1 39 11-50 234-272 (298)
44 COG0264 Tsf Translation elonga 49.9 25 0.00055 32.6 4.3 40 11-51 6-45 (296)
45 PRK05441 murQ N-acetylmuramic 49.1 20 0.00043 32.9 3.6 38 12-50 237-274 (299)
46 KOG0944 Ubiquitin-specific pro 48.2 30 0.00066 35.7 4.9 41 10-52 635-675 (763)
47 PF06972 DUF1296: Protein of u 47.3 48 0.001 23.7 4.5 41 10-50 5-45 (60)
48 TIGR00274 N-acetylmuramic acid 45.3 25 0.00055 32.2 3.6 39 11-50 231-269 (291)
49 PF03474 DMA: DMRTA motif; In 40.4 49 0.0011 21.6 3.4 26 22-47 13-38 (39)
50 PF13098 Thioredoxin_2: Thiore 40.1 3.7 8E-05 30.8 -2.3 49 176-224 1-49 (112)
51 PRK12570 N-acetylmuramic acid- 39.3 34 0.00073 31.4 3.5 39 11-50 232-270 (296)
52 TIGR01527 arch_NMN_Atrans nico 28.8 70 0.0015 26.9 3.5 52 154-215 85-136 (165)
53 PF04221 RelB: RelB antitoxin; 26.9 82 0.0018 23.2 3.2 25 26-50 13-37 (83)
54 KOG2456 Aldehyde dehydrogenase 22.6 1.2E+02 0.0026 29.8 4.2 50 152-214 332-381 (477)
55 cd02993 PDI_a_APS_reductase PD 21.1 1.7E+02 0.0036 21.9 4.0 55 167-225 9-64 (109)
No 1
>KOG1364 consensus Predicted ubiquitin regulatory protein, contains UAS and UBX domains [Posttranslational modification, protein turnover, chaperones]
Probab=99.81 E-value=8.5e-20 Score=167.42 Aligned_cols=161 Identities=30% Similarity=0.474 Sum_probs=116.8
Q ss_pred cchHHHHHhhcccccCCCHHHHHHHHHHcCCCHHHHHHHHhcCCCCCCCCCCCCCCccccCCCCCCCcccccCCCCCCCC
Q 026450 8 NDKQSMVSSFLEIAVGQTAETAVQFLQATSWKLDEAIQLFYVGNESGAIASASRSPAEEIANPGPEENSVTAGQEIGDEV 87 (238)
Q Consensus 8 ~~~~~~i~~F~~iTtg~~~~~A~~~Le~~~wdLe~Ai~lff~~~~~~~~~~~~~sp~~~~~~~~~d~~~~~~~~~~~d~V 87 (238)
..+.++|++|+.||...+.+.|++||++++|||+.||+|||+.++.....++ ...+
T Consensus 4 ~~~~~lv~~fl~It~~~t~e~A~q~L~~~~~~le~ai~Lffe~~~~~~~~s~------------------------~~~a 59 (356)
T KOG1364|consen 4 GAQRALVSKFLAITVQQTVEIATQYLSAADWDLEAAINLFFEHGGFTQVYSS------------------------SSAA 59 (356)
T ss_pred chHHHHHHHHHHHhccccHHHHHHHHHhcCCcHHHHHHHHHHhcccccccCC------------------------cccC
Confidence 4568899999999444999999999999999999999999998764222111 1223
Q ss_pred CCCCccccccccCCcccccCCCCCCCCCCCcchhccccchhhhcCCCcccccCCCCccccchhhhhhhhcCCCccccccc
Q 026450 88 RAPLPVVRDTLYDDAMFYAGSGARYPLHEPSSLIAFRNFDEEMKRPGVWESEQGAASTADSSRDNLASLYRPPFHLMFNG 167 (238)
Q Consensus 88 RAPip~~~etLv~~~~~~g~~~~~~~~~~~~~~~~~rdf~~e~~~~~~~~~~~~~~~~~~s~~~~La~LFrPP~dim~~g 167 (238)
-+||+.++|+|+.+........... ..|+ .+|++. +...+++.+|+.|||||++||++|
T Consensus 60 ~sp~~~~re~l~~~~~~~d~~~~s~--~~p~---------------~~~~~~----s~~~~~~srL~slfrpp~~i~~~g 118 (356)
T KOG1364|consen 60 PSPIEPQREVLFDPLGIMDQSTSSI--LDPS---------------ENQDDE----SEHASSQSRLASLFRPPTDILSHG 118 (356)
T ss_pred CCcccccceeeeccccccccCcccc--cCcc---------------cccchh----hhhccccchhhhhcCCCcchhhcC
Confidence 3499999999998632110000000 1111 111111 222467889999999999999999
Q ss_pred hHHHHHHHHHhcCceEEEEeccCCCccccccccc------ccCCHHHHHHhh
Q 026450 168 SFEKAKDAASVQDKWLLVNLQSTKEFSSHMLNRD------TWANEAVSQTIS 213 (238)
Q Consensus 168 ~f~~A~~~a~~~~kwllVniq~~~~F~~~~lnRD------~W~~~~v~~~v~ 213 (238)
+|+.||..|.++.+||||.++....+.+..++|. .|-|+..-+-|+
T Consensus 119 sld~ak~~a~sk~~wllV~~Dtseg~~~~~Fy~~~~~P~i~iiDp~Tge~v~ 170 (356)
T KOG1364|consen 119 SLDAAKSTASSKQRWLLVLDDTSEGQPFSAFYHISSLPHIAIIDPITGERVK 170 (356)
T ss_pred ChhhhhhcccccceEEEEeeccCCCCchhhheeccCCceEEEECCchhhhhh
Confidence 9999999999999999999999888999899888 566655444444
No 2
>smart00594 UAS UAS domain.
Probab=99.62 E-value=4.5e-16 Score=124.02 Aligned_cols=81 Identities=41% Similarity=0.621 Sum_probs=74.1
Q ss_pred hcCCCc-cccccchHHHHHHHHHhcCceEEEEeccCCCcccccccccccCCHHHHHHhhcCeEEeeeecchh---hhhhh
Q 026450 156 LYRPPF-HLMFNGSFEKAKDAASVQDKWLLVNLQSTKEFSSHMLNRDTWANEAVSQTISTNFIFWQVGMTFK---VFIDF 231 (238)
Q Consensus 156 LFrPP~-dim~~g~f~~A~~~a~~~~kwllVniq~~~~F~~~~lnRD~W~~~~v~~~v~~~Fifwq~~~d~~---~~~~~ 231 (238)
+|.||+ .+|+.|+|++|++.|++++|+|||+|+++.+-.|+.++|+||+|+.|+++|++|||+|+++-.+. .+++.
T Consensus 2 ~~~~~~~~~f~~gs~~~a~~~Ak~~~K~~lv~~~~~~c~~c~~~~r~vl~~~~V~~~i~~~fv~~~~dv~~~eg~~l~~~ 81 (122)
T smart00594 2 LFRPPYGPLFYQGSLEAAKQEASRQRRLLWLYLHSQDSPDSQVFNRDVLCNEAVKSLIRENFIFWQVDVDTSEGQRVSQF 81 (122)
T ss_pred CCCCCCCCceeeCCHHHHHHHHHhhcCCEEEEEeCCCCchHHHHHHHHccCHHHHHHHHcCEEEEEecCCChhHHHHHHh
Confidence 689999 99999999999999999999999999999999999999999999999999999999999965432 77777
Q ss_pred hceee
Q 026450 232 RYCCF 236 (238)
Q Consensus 232 ~~c~~ 236 (238)
|.|..
T Consensus 82 ~~~~~ 86 (122)
T smart00594 82 YKLDS 86 (122)
T ss_pred cCcCC
Confidence 77754
No 3
>PF14555 UBA_4: UBA-like domain; PDB: 2DAL_A 3BQ3_A 2L4E_A 2L4F_A 2DZL_A 2L2D_A 2DAM_A 1V92_A 3E21_A.
Probab=99.42 E-value=1.9e-13 Score=90.88 Aligned_cols=41 Identities=27% Similarity=0.714 Sum_probs=36.2
Q ss_pred HHHHHhhcccccCCCHHHHHHHHHHcCCCHHHHHHHHhcCCC
Q 026450 11 QSMVSSFLEIAVGQTAETAVQFLQATSWKLDEAIQLFYVGNE 52 (238)
Q Consensus 11 ~~~i~~F~~iTtg~~~~~A~~~Le~~~wdLe~Ai~lff~~~~ 52 (238)
+++|.+||+| ||+++++|++||++++|||+.||++||+.++
T Consensus 1 ~e~i~~F~~i-Tg~~~~~A~~~L~~~~wdle~Av~~y~~~~~ 41 (43)
T PF14555_consen 1 DEKIAQFMSI-TGADEDVAIQYLEANNWDLEAAVNAYFDDGE 41 (43)
T ss_dssp HHHHHHHHHH-H-SSHHHHHHHHHHTTT-HHHHHHHHHHSS-
T ss_pred CHHHHHHHHH-HCcCHHHHHHHHHHcCCCHHHHHHHHHhCCC
Confidence 5799999999 8999999999999999999999999999765
No 4
>cd02991 UAS_ETEA UAS family, ETEA subfamily; composed of proteins similar to human ETEA protein, the translation product of a highly expressed gene in the T-cells and eosinophils of atopic dermatitis patients compared with those of normal individuals. ETEA shows homology to Fas-associated factor 1 (FAF1); both containing UAS and UBX (ubiquitin-associated) domains. Compared to FAF1, however, ETEA lacks the ubiquitin-associated UBA domain and a nuclear targeting domain. The function of ETEA is still unknown. A yeast two-hybrid assay showed that it can interact with Fas. Because of its homology to FAF1, it is postulated that ETEA could be involved in modulating Fas-mediated apoptosis of T-cells and eosinophils of atopic dermatitis patients, making them more resistant to apoptosis.
Probab=99.41 E-value=3.1e-13 Score=107.69 Aligned_cols=74 Identities=19% Similarity=0.313 Sum_probs=66.7
Q ss_pred cccchHHHHHHHHHhcCceEEEEeccCCCcccccccccccCCHHHHHHhhcCeEEeeeecchh---hhhhhhceeec
Q 026450 164 MFNGSFEKAKDAASVQDKWLLVNLQSTKEFSSHMLNRDTWANEAVSQTISTNFIFWQVGMTFK---VFIDFRYCCFL 237 (238)
Q Consensus 164 m~~g~f~~A~~~a~~~~kwllVniq~~~~F~~~~lnRD~W~~~~v~~~v~~~Fifwq~~~d~~---~~~~~~~c~~~ 237 (238)
+|.|+|++|++.||++.|||||+|+++.+.+|..++|+|++|+.|.++|++|||+|..+-.+. +..+.+.|..+
T Consensus 1 ff~gs~~eAl~~ak~e~K~llVylhs~~~~~~~~fc~~~l~~~~v~~~ln~~fv~w~~dv~~~eg~~la~~l~~~~~ 77 (116)
T cd02991 1 FYQGTYSQALNDAKQELRFLLVYLHGDDHQDTDEFCRNTLCAPEVIEYINTRMLFWACSVAKPEGYRVSQALRERTY 77 (116)
T ss_pred CCcCcHHHHHHHHHhhCCEEEEEEeCCCCccHHHHHHHHcCCHHHHHHHHcCEEEEEEecCChHHHHHHHHhCCCCC
Confidence 389999999999999999999999999999999999999999999999999999999976543 67777776654
No 5
>cd02958 UAS UAS family; UAS is a domain of unknown function. Most members of this family are uncharacterized proteins with similarity to FAS-associated factor 1 (FAF1) and ETEA because of the presence of a UAS domain N-terminal to a ubiquitin-associated UBX domain. FAF1 is a longer protein, compared to the other members of this family, having additional N-terminal domains, a ubiquitin-associated UBA domain and a nuclear targeting domain. FAF1 is an apoptotic signaling molecule that acts downstream in the Fas signal transduction pathway. It interacts with the cytoplasmic domain of Fas, but not to a Fas mutant that is deficient in signal transduction. ETEA is the protein product of a highly expressed gene in T-cells and eosinophils of atopic dermatitis patients. The presence of the ubiquitin-associated UBX domain in the proteins of this family suggests the possibility of their involvement in ubiquitination. Recently, FAF1 has been shown to interact with valosin-containing protein (VCP),
Probab=99.39 E-value=5.2e-13 Score=104.47 Aligned_cols=71 Identities=49% Similarity=0.848 Sum_probs=63.3
Q ss_pred cccchHHHHHHHHHhcCceEEEEeccCCCcccccccccccCCHHHHHHhhcCeEEeeeecch---hhhhhhhce
Q 026450 164 MFNGSFEKAKDAASVQDKWLLVNLQSTKEFSSHMLNRDTWANEAVSQTISTNFIFWQVGMTF---KVFIDFRYC 234 (238)
Q Consensus 164 m~~g~f~~A~~~a~~~~kwllVniq~~~~F~~~~lnRD~W~~~~v~~~v~~~Fifwq~~~d~---~~~~~~~~c 234 (238)
+|.|+|++|++.|++++|||||+|+++....|+.++|++|+|+.|+++|++|||+|.++-++ .++...|-+
T Consensus 1 f~~gs~~~a~~~Ak~~~K~llv~~~~~~c~~c~~~~~~vl~~~~v~~~l~~~~v~~~~d~~~~e~~~~~~~~~~ 74 (114)
T cd02958 1 FFQGSFEDAKQEAKSEKKWLLVYLQSEDEFDSQVLNRDLWSNESVKEFIRENFIFWQCDIDSSEGQRFLQSYKV 74 (114)
T ss_pred CccCCHHHHHHHHHhhCceEEEEEecCCcchHHHHHHHHcCCHHHHHHHHhCEEEEEecCCCccHHHHHHHhCc
Confidence 47999999999999999999999999999999999999999999999999999999996643 255555543
No 6
>cd02990 UAS_FAF1 UAS family, FAS-associated factor 1 (FAF1) subfamily; FAF1 contains a UAS domain of unknown function N-terminal to a ubiquitin-associated UBX domain. FAF1 also contains ubiquitin-associated UBA and nuclear targeting domains, N-terminal to the UAS domain. FAF1 is an apoptotic signaling molecule that acts downstream in the Fas signal transduction pathway. It interacts with the cytoplasmic domain of Fas, but not to a Fas mutant that is deficient in signal transduction. It is widely expressed in adult and embryonic tissues, and in tumor cell lines, and is localized not only in the cytoplasm where it interacts with Fas, but also in the nucleus. FAF1 contains phosphorylation sites for protein kinase CK2 within the nuclear targeting domain. Phosphorylation influences nuclear localization of FAF1 but does not affect its potentiation of Fas-induced apoptosis. Other functions have also been attributed to FAF1. It inhibits nuclear factor-kB (NF-kB) by interfering with the nuclear
Probab=99.14 E-value=4.9e-11 Score=97.83 Aligned_cols=59 Identities=29% Similarity=0.415 Sum_probs=56.9
Q ss_pred cccchHHHHHHHH----HhcCceEEEEeccCCCcccccccccccCCHHHHHHhhcCeEEeeee
Q 026450 164 MFNGSFEKAKDAA----SVQDKWLLVNLQSTKEFSSHMLNRDTWANEAVSQTISTNFIFWQVG 222 (238)
Q Consensus 164 m~~g~f~~A~~~a----~~~~kwllVniq~~~~F~~~~lnRD~W~~~~v~~~v~~~Fifwq~~ 222 (238)
+|.|+|++|++.| |++.|+|+|+|+++.+-++..++|++.+|+.|.++|++|||+|..+
T Consensus 1 F~~Gs~~~Al~~A~~~~~~e~K~L~VYLH~~~~~~t~~Fc~~~L~se~Vi~fl~~nfv~Wg~d 63 (136)
T cd02990 1 FFIGSLEAAFQEACYRKARDRKLLAIYLHHDESVLSNVFCSQLLCAESIVQYLSQNFITWGWD 63 (136)
T ss_pred CccCcHHHHHHHHhhhhhhhcceEEEEEcCCCCccHHHHHHHHhcCHHHHHHHHcCEEEEeee
Confidence 3799999999999 9999999999999999999999999999999999999999999984
No 7
>PF13899 Thioredoxin_7: Thioredoxin-like; PDB: 2LST_A 3PH9_A 1UC7_A 2JU5_A 1VRS_D 2FWG_A 2FWF_A 2FWH_A 2FWE_A 3FK8_A ....
Probab=98.73 E-value=1.4e-08 Score=75.10 Aligned_cols=60 Identities=20% Similarity=0.332 Sum_probs=56.9
Q ss_pred chHHHHHHHHHhcCceEEEEeccCCCcccccccccccCCHHHHHHhhcCeEEeeeecchh
Q 026450 167 GSFEKAKDAASVQDKWLLVNLQSTKEFSSHMLNRDTWANEAVSQTISTNFIFWQVGMTFK 226 (238)
Q Consensus 167 g~f~~A~~~a~~~~kwllVniq~~~~F~~~~lnRD~W~~~~v~~~v~~~Fifwq~~~d~~ 226 (238)
.+|++|+..|++++|+|||++...-...|+.|.|.+|.++.|++++.+|||+++++.+.+
T Consensus 4 ~d~~~al~~A~~~~kpvlv~f~a~wC~~C~~l~~~~~~~~~v~~~~~~~fv~v~vd~~~~ 63 (82)
T PF13899_consen 4 SDYEEALAEAKKEGKPVLVDFGADWCPPCKKLEREVFSDPEVQEALNKNFVLVKVDVDDE 63 (82)
T ss_dssp SSHHHHHHHHHHHTSEEEEEEETTTTHHHHHHHHHTTTSHHHHHHHHHCSEEEEEETTTH
T ss_pred hhHHHHHHHHHHcCCCEEEEEECCCCHhHHHHHHHHcCCHHHHHHHHCCEEEEEEEcCCC
Confidence 579999999999999999999999999999999999999999999999999999987654
No 8
>cd02960 AGR Anterior Gradient (AGR) family; members of this family are similar to secreted proteins encoded by the cement gland-specific genes XAG-1 and XAG-2, expressed in the anterior region of dorsal ectoderm of Xenopus. They are implicated in the formation of the cement gland and the induction of forebrain fate. The human homologs, hAG-2 and hAG-3, are secreted proteins associated with estrogen-positive breast tumors. Yeast two-hybrid studies identified the metastasis-associated C4.4a protein and dystroglycan as binding partners, indicating possible roles in the development and progression of breast cancer. hAG-2 has also been implicated in prostate cancer. Its gene was cloned as an androgen-inducible gene and it was shown to be overexpressed in prostate cancer cells at the mRNA and protein levels. AGR proteins contain one conserved cysteine corresponding to the first cysteine in the CXXC motif of TRX. They show high sequence similarity to ERp19.
Probab=97.76 E-value=4.4e-05 Score=62.34 Aligned_cols=60 Identities=15% Similarity=0.155 Sum_probs=53.7
Q ss_pred ccchHHHHHHHHHhcCceEEEEeccCCCcccccccccccCCHHHHHHhhcCeEEeeeecc
Q 026450 165 FNGSFEKAKDAASVQDKWLLVNLQSTKEFSSHMLNRDTWANEAVSQTISTNFIFWQVGMT 224 (238)
Q Consensus 165 ~~g~f~~A~~~a~~~~kwllVniq~~~~F~~~~lnRD~W~~~~v~~~v~~~Fifwq~~~d 224 (238)
..-+|++|++.|++++|.|||++...--=.|+.|.+.+|+++.|++++.++||.--+..|
T Consensus 8 W~~~~eeal~~Ak~~~Kpvmv~f~sdwC~~Ck~l~k~~f~~~eV~~~l~~~Fv~V~l~~d 67 (130)
T cd02960 8 WVQTYEEGLYKAKKSNKPLMVIHHLEDCPHSQALKKAFAEHKEIQKLAQEDFIMLNLVHE 67 (130)
T ss_pred chhhHHHHHHHHHHCCCeEEEEEeCCcCHhHHHHHHHhhCCHHHHHHHHhCeEEEEEEec
Confidence 334899999999999999999999988888999999999999999999999997666544
No 9
>cd02955 SSP411 TRX domain, SSP411 protein family; members of this family are highly conserved proteins present in eukaryotes, bacteria and archaea, about 600-800 amino acids in length, which contain a TRX domain with a redox active CXXC motif. The human/rat protein, called SSP411, is specifically expressed in the testis in an age-dependent manner. The SSP411 mRNA is increased during spermiogenesis and is localized in round and elongated spermatids, suggesting a function in fertility regulation.
Probab=97.20 E-value=0.00061 Score=54.90 Aligned_cols=56 Identities=20% Similarity=0.323 Sum_probs=51.4
Q ss_pred HHHHHHHHhcCceEEEEeccCCCcccccccccccCCHHHHHHhhcCeEEeeeecch
Q 026450 170 EKAKDAASVQDKWLLVNLQSTKEFSSHMLNRDTWANEAVSQTISTNFIFWQVGMTF 225 (238)
Q Consensus 170 ~~A~~~a~~~~kwllVniq~~~~F~~~~lnRD~W~~~~v~~~v~~~Fifwq~~~d~ 225 (238)
++|.+.|++++|.|||.+-..--=.|+.|.+.++.++.|.+.|.++||+..++.+.
T Consensus 5 ~eal~~Ak~~~KpVll~f~a~WC~~Ck~me~~~f~~~~V~~~l~~~fv~VkvD~~~ 60 (124)
T cd02955 5 EEAFEKARREDKPIFLSIGYSTCHWCHVMEHESFEDEEVAAILNENFVPIKVDREE 60 (124)
T ss_pred HHHHHHHHHcCCeEEEEEccCCCHhHHHHHHHccCCHHHHHHHhCCEEEEEEeCCc
Confidence 47899999999999999988777789999999999999999999999999997654
No 10
>PF03943 TAP_C: TAP C-terminal domain; InterPro: IPR005637 This entry contains the NXF family of shuttling transport receptors for nuclear export of mRNA, which include: vertebrate mRNA export factor TAP or nuclear RNA export factor 1 (NXF1). Caenorhabditis elegans nuclear RNA export factor 1 (nxf-1). yeast mRNA export factor MEX67. Members of the NXF family have a modular structure. A nuclear localization sequence and a noncanonical RNA recognition motif (RRM) (see PDOC00030 from PROSITEDOC) followed by four LRR repeats are located in its N-terminal half. The C-terminal half contains a NTF2 domain (see PDOC50177 from PROSITEDOC) followed by a second domain, TAP-C. The TAP-C domain is important for binding to FG repeat-containing nuclear pore proteins (FG-nucleoporins) and is sufficient to mediate nuclear shuttling [,]. The Tap-C domain is made of four alpha helices packed against each other. The arrangement of helices 1, 2 and 3 is similar to that seen in a UBA fold. and is joined to the next module by flexible 12-residue Pro-rich linker [, ].; GO: 0051028 mRNA transport, 0005634 nucleus; PDB: 1OAI_A 1GO5_A 2KHH_A 2JP7_A.
Probab=97.15 E-value=0.00028 Score=48.61 Aligned_cols=42 Identities=26% Similarity=0.396 Sum_probs=36.2
Q ss_pred HHHHHhhcccccCCCHHHHHHHHHHcCCCHHHHHHHHhcCCCC
Q 026450 11 QSMVSSFLEIAVGQTAETAVQFLQATSWKLDEAIQLFYVGNES 53 (238)
Q Consensus 11 ~~~i~~F~~iTtg~~~~~A~~~Le~~~wdLe~Ai~lff~~~~~ 53 (238)
+++|.+|+.. ||-+.+-++++|+.++||++.|+..|......
T Consensus 1 q~mv~~~s~~-Tgmn~~~s~~CL~~n~Wd~~~A~~~F~~l~~~ 42 (51)
T PF03943_consen 1 QEMVQQFSQQ-TGMNLEWSQKCLEENNWDYERALQNFEELKAQ 42 (51)
T ss_dssp HHHHHHHHHH-CSS-CCHHHHHHHHTTT-CCHHHHHHHHCCCT
T ss_pred CHHHHHHHHH-HCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHc
Confidence 3689999999 99999999999999999999999999876543
No 11
>smart00804 TAP_C C-terminal domain of vertebrate Tap protein. The vertebrate Tap protein is a member of the NXF family of shuttling transport receptors for the nuclear export of mRNA. Its most C-terminal domain is important for binding to FG repeat-containing nuclear pore proteins (FG-nucleoporins) and is sufficient to mediate shuttling. This domain forms a compact four-helix fold related to that of a UBA domain.
Probab=97.09 E-value=0.00089 Score=48.17 Aligned_cols=42 Identities=26% Similarity=0.424 Sum_probs=38.9
Q ss_pred cchHHHHHhhcccccCCCHHHHHHHHHHcCCCHHHHHHHHhcC
Q 026450 8 NDKQSMVSSFLEIAVGQTAETAVQFLQATSWKLDEAIQLFYVG 50 (238)
Q Consensus 8 ~~~~~~i~~F~~iTtg~~~~~A~~~Le~~~wdLe~Ai~lff~~ 50 (238)
..+.++|..|... ||-+.+=++..|+.++||++.|+..|-+-
T Consensus 10 ~~q~~~v~~~~~~-Tgmn~~~s~~cLe~~~Wd~~~Al~~F~~l 51 (63)
T smart00804 10 PEQQEMVQAFSAQ-TGMNAEYSQMCLEDNNWDYERALKNFTEL 51 (63)
T ss_pred HHHHHHHHHHHHH-HCCCHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence 3578899999999 99999999999999999999999999773
No 12
>PF00627 UBA: UBA/TS-N domain; InterPro: IPR000449 UBA domains are a commonly occurring sequence motif of approximately 45 amino acid residues that are found in diverse proteins involved in the ubiquitin/proteasome pathway, DNA excision-repair, and cell signalling via protein kinases []. The human homologue of yeast Rad23A is one example of a nucleotide excision-repair protein that contains both an internal and a C-terminal UBA domain. The solution structure of human Rad23A UBA(2) showed that the domain forms a compact three-helix bundle []. Comparison of the structures of UBA(1) and UBA(2) reveals that both form very similar folds and have a conserved large hydrophobic surface patch which may be a common protein-interacting surface present in diverse UBA domains. Evidence that ubiquitin binds to UBA domains leads to the prediction that the hydrophobic surface patch of UBA domains interacts with the hydrophobic surface on the five-stranded beta-sheet of ubiquitin []. This domain is similar in sequence to the N-terminal domain of translation elongation factor EF1B (or EF-Ts) from bacteria, mitochondria and chloroplasts. More information about EF1B (EF-Ts) proteins can be found at Protein of the Month: Elongation Factors [].; GO: 0005515 protein binding; PDB: 2DAI_A 2OO9_C 2JUJ_A 1WHC_A 1YLA_A 2O25_B 3K9O_A 3K9P_A 3F92_A 3E46_A ....
Probab=96.73 E-value=0.003 Score=40.19 Aligned_cols=35 Identities=23% Similarity=0.379 Sum_probs=31.2
Q ss_pred hHHHHHhhcccccCCCHHHHHHHHHHcCCCHHHHHHH
Q 026450 10 KQSMVSSFLEIAVGQTAETAVQFLQATSWKLDEAIQL 46 (238)
Q Consensus 10 ~~~~i~~F~~iTtg~~~~~A~~~Le~~~wdLe~Ai~l 46 (238)
.+++|.+.+++ |-+.+.|+..|..++||++.|++.
T Consensus 2 ~~~~v~~L~~m--Gf~~~~~~~AL~~~~~nve~A~~~ 36 (37)
T PF00627_consen 2 DEEKVQQLMEM--GFSREQAREALRACNGNVERAVDW 36 (37)
T ss_dssp HHHHHHHHHHH--TS-HHHHHHHHHHTTTSHHHHHHH
T ss_pred CHHHHHHHHHc--CCCHHHHHHHHHHcCCCHHHHHHh
Confidence 36789999999 999999999999999999999973
No 13
>cd00194 UBA Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been suggested that UBA domains are involved in conferring protein target specificity. The domain, a compact three helix bundle, has a conserved GFP-loop and the proline is thought to be critical for binding. The UBA domain is distinct from the conserved three helical domain seen in the N-terminus of EF-TS and eukaryotic NAC proteins.
Probab=96.63 E-value=0.0047 Score=39.11 Aligned_cols=36 Identities=25% Similarity=0.415 Sum_probs=32.7
Q ss_pred HHHHHhhcccccCCCHHHHHHHHHHcCCCHHHHHHHHh
Q 026450 11 QSMVSSFLEIAVGQTAETAVQFLQATSWKLDEAIQLFY 48 (238)
Q Consensus 11 ~~~i~~F~~iTtg~~~~~A~~~Le~~~wdLe~Ai~lff 48 (238)
++.|++++++ |-+.+.|+.-|+.++||++.|++..|
T Consensus 2 ~~~v~~L~~m--Gf~~~~~~~AL~~~~~d~~~A~~~L~ 37 (38)
T cd00194 2 EEKLEQLLEM--GFSREEARKALRATNNNVERAVEWLL 37 (38)
T ss_pred HHHHHHHHHc--CCCHHHHHHHHHHhCCCHHHHHHHHh
Confidence 4688999998 89999999999999999999998765
No 14
>PF03190 Thioredox_DsbH: Protein of unknown function, DUF255; InterPro: IPR004879 This is a group of uncharacterised proteins.; PDB: 3IRA_A.
Probab=96.62 E-value=0.0018 Score=54.82 Aligned_cols=57 Identities=19% Similarity=0.318 Sum_probs=47.2
Q ss_pred HHHHHHHHhcCceEEEEeccCCCcccccccccccCCHHHHHHhhcCeEEeeeecchh
Q 026450 170 EKAKDAASVQDKWLLVNLQSTKEFSSHMLNRDTWANEAVSQTISTNFIFWQVGMTFK 226 (238)
Q Consensus 170 ~~A~~~a~~~~kwllVniq~~~~F~~~~lnRD~W~~~~v~~~v~~~Fifwq~~~d~~ 226 (238)
++|.++|++++|.|+|.|-....==||++-|.+..|+.|.++|.++||=--++.+.+
T Consensus 27 ~ea~~~Ak~e~KpIfl~ig~~~C~wChvM~~esf~d~eVa~~lN~~FI~VkvDree~ 83 (163)
T PF03190_consen 27 EEALEKAKKENKPIFLSIGYSWCHWCHVMERESFSDPEVAEYLNRNFIPVKVDREER 83 (163)
T ss_dssp HHHHHHHHHHT--EEEEEE-TT-HHHHHHHHHTTT-HHHHHHHHHH-EEEEEETTT-
T ss_pred HHHHHHHHhcCCcEEEEEEecCCcchhhhcccCcCCHHHHHHHhCCEEEEEeccccC
Confidence 589999999999999999887777799999999999999999999999999998876
No 15
>smart00165 UBA Ubiquitin associated domain. Present in Rad23, SNF1-like kinases. The newly-found UBA in p62 is known to bind ubiquitin.
Probab=96.60 E-value=0.0044 Score=39.06 Aligned_cols=36 Identities=22% Similarity=0.414 Sum_probs=32.3
Q ss_pred HHHHHhhcccccCCCHHHHHHHHHHcCCCHHHHHHHHh
Q 026450 11 QSMVSSFLEIAVGQTAETAVQFLQATSWKLDEAIQLFY 48 (238)
Q Consensus 11 ~~~i~~F~~iTtg~~~~~A~~~Le~~~wdLe~Ai~lff 48 (238)
++.|++++++ |-+.+.|++-|+.++||++.|++..|
T Consensus 2 ~~~v~~L~~m--Gf~~~~a~~aL~~~~~d~~~A~~~L~ 37 (37)
T smart00165 2 EEKIDQLLEM--GFSREEALKALRAANGNVERAAEYLL 37 (37)
T ss_pred HHHHHHHHHc--CCCHHHHHHHHHHhCCCHHHHHHHHC
Confidence 5689999999 89999999999999999999987543
No 16
>KOG1363 consensus Predicted regulator of the ubiquitin pathway (contains UAS and UBX domains) [Signal transduction mechanisms]
Probab=96.23 E-value=0.005 Score=59.92 Aligned_cols=72 Identities=22% Similarity=0.344 Sum_probs=60.0
Q ss_pred hhhhhhhcCCCccccccchHHHHHHHHHhcC----ceEEEEeccCCCcccccccccccCCHHHHHHhhcCeEEeee
Q 026450 150 RDNLASLYRPPFHLMFNGSFEKAKDAASVQD----KWLLVNLQSTKEFSSHMLNRDTWANEAVSQTISTNFIFWQV 221 (238)
Q Consensus 150 ~~~La~LFrPP~dim~~g~f~~A~~~a~~~~----kwllVniq~~~~F~~~~lnRD~W~~~~v~~~v~~~Fifwq~ 221 (238)
...+.+.|..+..-.+.|.+..|...|..+. |.|+++|++...-...+|++-|.||+.|.++|+++||+|..
T Consensus 148 ~~~f~~ry~~~~p~F~~d~l~~a~~~A~~~~~~~~~~l~~~~~~~~~~~~~~F~~~iL~~e~v~~~l~~~~llw~~ 223 (460)
T KOG1363|consen 148 VDNFGDRYGSELPSFYTDVLRNAFLEAFDRESEARKLLAIYLHDDKSDDTNVFCGQILCNEAVVDYLRENFLLWGW 223 (460)
T ss_pred HHHHHHhcCCCCCccchhHHHHHHHHHHhhhhhhheeeEEecCCCCcccHHHHHHhhhhhHHHHHHHhhceeeecc
Confidence 4556666654433338998888888887776 99999999999999999999999999999999999999997
No 17
>KOG1364 consensus Predicted ubiquitin regulatory protein, contains UAS and UBX domains [Posttranslational modification, protein turnover, chaperones]
Probab=94.90 E-value=0.0023 Score=59.76 Aligned_cols=50 Identities=24% Similarity=0.269 Sum_probs=46.1
Q ss_pred HHHHhcCceEEEEeccCCCcccccccccccCCHHHHHHhhcCeEEeeeec
Q 026450 174 DAASVQDKWLLVNLQSTKEFSSHMLNRDTWANEAVSQTISTNFIFWQVGM 223 (238)
Q Consensus 174 ~~a~~~~kwllVniq~~~~F~~~~lnRD~W~~~~v~~~v~~~Fifwq~~~ 223 (238)
+.++-.++||.|++|+.-+++||+|+++.|..+.+..|+.+++.+|++++
T Consensus 5 ~~~~lv~~fl~It~~~t~e~A~q~L~~~~~~le~ai~Lffe~~~~~~~~s 54 (356)
T KOG1364|consen 5 AQRALVSKFLAITVQQTVEIATQYLSAADWDLEAAINLFFEHGGFTQVYS 54 (356)
T ss_pred hHHHHHHHHHHHhccccHHHHHHHHHhcCCcHHHHHHHHHHhcccccccC
Confidence 34566789999999998899999999999999999999999999999987
No 18
>COG1331 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]
Probab=94.28 E-value=0.056 Score=54.68 Aligned_cols=63 Identities=17% Similarity=0.247 Sum_probs=56.3
Q ss_pred HHHHHHHHhcCceEEEEeccCCCcccccccccccCCHHHHHHhhcCeEEeeeecchhhhhhhh
Q 026450 170 EKAKDAASVQDKWLLVNLQSTKEFSSHMLNRDTWANEAVSQTISTNFIFWQVGMTFKVFIDFR 232 (238)
Q Consensus 170 ~~A~~~a~~~~kwllVniq~~~~F~~~~lnRD~W~~~~v~~~v~~~Fifwq~~~d~~~~~~~~ 232 (238)
++|..+|++++|.|||.|=-...==||++-+....|+.|-++|.+|||=--|+.+.+..|+.+
T Consensus 33 ~eAf~~A~~edkPIflSIGys~CHWChVM~~ESf~d~eiA~~lN~~FV~IKVDREERPDvD~~ 95 (667)
T COG1331 33 EEAFAKAKEEDKPILLSIGYSTCHWCHVMAHESFEDPEIAAILNENFVPVKVDREERPDVDSL 95 (667)
T ss_pred HHHHHHHHHhCCCEEEEeccccccchHHHhhhcCCCHHHHHHHHhCceeeeEChhhccCHHHH
Confidence 689999999999999999877777899999999999999999999999999999887544443
No 19
>KOG2507 consensus Ubiquitin regulatory protein UBXD2, contains UAS and UBX domains [General function prediction only]
Probab=94.22 E-value=0.068 Score=51.53 Aligned_cols=68 Identities=25% Similarity=0.387 Sum_probs=57.8
Q ss_pred ccccchHHHHHHHHHhcCceEEEEeccCCCcccccccccccCCHHHHHHhhcCeEEeeeecchhhhhhh
Q 026450 163 LMFNGSFEKAKDAASVQDKWLLVNLQSTKEFSSHMLNRDTWANEAVSQTISTNFIFWQVGMTFKVFIDF 231 (238)
Q Consensus 163 im~~g~f~~A~~~a~~~~kwllVniq~~~~F~~~~lnRD~W~~~~v~~~v~~~Fifwq~~~d~~~~~~~ 231 (238)
+-|+|..-+|+..||.+++.++|+|-.. +=.++.|||=+|.+..|.+.+...||.--+...+..|-||
T Consensus 2 lwfkGnipeAIa~aK~kkalfVVyI~gd-dE~s~kl~r~~w~d~~vs~~ls~~fVaIkiqags~aa~qF 69 (506)
T KOG2507|consen 2 LWFKGNIPEAIAEAKGKKALFVVYISGD-DEESDKLNRLTWTDASVSDSLSKYFVAIKIQAGSVAATQF 69 (506)
T ss_pred cccccchHHHHHHhhcCCeEEEEEEecC-chHhhHHhhccchhhhhhhhhhcceEEEEeccCchhhhhh
Confidence 3489999999999999999999999554 2358999999999999999999999999988777633333
No 20
>KOG2086 consensus Protein tyrosine phosphatase SHP1/Cofactor for p97 ATPase-mediated vesicle membrane fusion [Nuclear structure]
Probab=93.80 E-value=0.024 Score=53.78 Aligned_cols=42 Identities=17% Similarity=0.244 Sum_probs=39.2
Q ss_pred hHHHHHhhcccccCCCHHHHHHHHHHcCCCHHHHHHHHhcCCC
Q 026450 10 KQSMVSSFLEIAVGQTAETAVQFLQATSWKLDEAIQLFYVGNE 52 (238)
Q Consensus 10 ~~~~i~~F~~iTtg~~~~~A~~~Le~~~wdLe~Ai~lff~~~~ 52 (238)
..+.|++|+.+ ||.++..|+.||+.++||++.|...+++...
T Consensus 4 p~~~ls~f~~~-t~~se~~~~~~l~s~~~d~~~a~~~~~~~~~ 45 (380)
T KOG2086|consen 4 PLDSLSEFRAV-TGPSESRARFYLESIYWDREAAHRSELEAFA 45 (380)
T ss_pred chhHHHHHhcc-CCCCccccccccccCCCchhhhhhhhccccc
Confidence 57899999999 9999999999999999999999999998753
No 21
>KOG4351 consensus Uncharacterized conserved protein [Function unknown]
Probab=92.42 E-value=0.021 Score=50.87 Aligned_cols=47 Identities=15% Similarity=0.388 Sum_probs=39.5
Q ss_pred CCcchHHHHHhhcccc-cCCCH-HHHHHHHHHcCCCHHHHHHHHhcCCC
Q 026450 6 SANDKQSMVSSFLEIA-VGQTA-ETAVQFLQATSWKLDEAIQLFYVGNE 52 (238)
Q Consensus 6 ~~~~~~~~i~~F~~iT-tg~~~-~~A~~~Le~~~wdLe~Ai~lff~~~~ 52 (238)
.+.++.++|.+|-.++ +...+ .-|+.||++.+|+|..|++.||+.+.
T Consensus 19 tt~dr~~Li~qf~~lm~~qm~P~~~aaF~Ld~knW~lqna~sv~~d~~t 67 (244)
T KOG4351|consen 19 TTTDRPELIHQFQRLMNTQMNPMLSAAFVLDMKNWNLQNAGSVYWDQDT 67 (244)
T ss_pred CCCCcHHHHHHHHHHhhhccCcccccceeeeccceeccccccEEEcCCC
Confidence 4457899999999984 33445 88999999999999999999999765
No 22
>PF02845 CUE: CUE domain; InterPro: IPR003892 This domain may be involved in binding ubiquitin-conjugating enzymes (UBCs). CUE domains also occur in two proteins of the IL-1 signal transduction pathway, tollip and TAB2.; GO: 0005515 protein binding; PDB: 2EKF_A 1OTR_A 1P3Q_Q 1MN3_A 1WGL_A 2EJS_A 2DAE_A 2DHY_A 2DI0_A.
Probab=92.22 E-value=0.34 Score=31.43 Aligned_cols=39 Identities=23% Similarity=0.248 Sum_probs=33.2
Q ss_pred HHHHHhhcccccCCCHHHHHHHHHHcCCCHHHHHHHHhc
Q 026450 11 QSMVSSFLEIAVGQTAETAVQFLQATSWKLDEAIQLFYV 49 (238)
Q Consensus 11 ~~~i~~F~~iTtg~~~~~A~~~Le~~~wdLe~Ai~lff~ 49 (238)
++.|.+..++--.-+.+.-+..|++++||+|.||+..++
T Consensus 2 ~~~v~~L~~mFP~~~~~~I~~~L~~~~~~ve~ai~~LL~ 40 (42)
T PF02845_consen 2 EEMVQQLQEMFPDLDREVIEAVLQANNGDVEAAIDALLE 40 (42)
T ss_dssp HHHHHHHHHHSSSS-HHHHHHHHHHTTTTHHHHHHHHHH
T ss_pred HHHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHHc
Confidence 467788888877889999999999999999999998765
No 23
>cd02951 SoxW SoxW family; SoxW is a bacterial periplasmic TRX, containing a redox active CXXC motif, encoded by a genetic locus (sox operon) involved in thiosulfate oxidation. Sulfur bacteria oxidize sulfur compounds to provide reducing equivalents for carbon dioxide fixation during autotrophic growth and the respiratory electron transport chain. It is unclear what the role of SoxW is, since it has been found to be dispensable in the oxidation of thiosulfate to sulfate. SoxW is specifically kept in the reduced state by SoxV, which is essential in thiosulfate oxidation.
Probab=91.77 E-value=0.29 Score=38.09 Aligned_cols=57 Identities=19% Similarity=0.168 Sum_probs=49.5
Q ss_pred HHHHHHHHHhcC-ceEEEEeccCCCcccccccccccCCHHHHHHhhcCeEEeeeecch
Q 026450 169 FEKAKDAASVQD-KWLLVNLQSTKEFSSHMLNRDTWANEAVSQTISTNFIFWQVGMTF 225 (238)
Q Consensus 169 f~~A~~~a~~~~-kwllVniq~~~~F~~~~lnRD~W~~~~v~~~v~~~Fifwq~~~d~ 225 (238)
+.++.+.|++++ |++||++-.+..=.|+.+...+..+..++..++++|++..++-+.
T Consensus 2 ~~~~~~~a~~~~~k~vlv~f~a~wC~~C~~~~~~~~~~~~~~~~~~~~~~~~~i~~d~ 59 (125)
T cd02951 2 LYEDLAEAAADGKKPLLLLFSQPGCPYCDKLKRDYLNDPAVQAYIRAHFVVVYINIDG 59 (125)
T ss_pred hHHHHHHHHHcCCCcEEEEEeCCCCHHHHHHHHHhcCcHHHHHHHHhheEEEEEEccC
Confidence 456788999999 999999998877779999999999999999999899998886553
No 24
>smart00546 CUE Domain that may be involved in binding ubiquitin-conjugating enzymes (UBCs). CUE domains also occur in two protein of the IL-1 signal transduction pathway, tollip and TAB2. Ponting (Biochem. J.) "Proteins of the Endoplasmic reticulum" (in press)
Probab=91.73 E-value=0.55 Score=30.52 Aligned_cols=40 Identities=13% Similarity=0.194 Sum_probs=32.9
Q ss_pred HHHHHhhcccccCCCHHHHHHHHHHcCCCHHHHHHHHhcC
Q 026450 11 QSMVSSFLEIAVGQTAETAVQFLQATSWKLDEAIQLFYVG 50 (238)
Q Consensus 11 ~~~i~~F~~iTtg~~~~~A~~~Le~~~wdLe~Ai~lff~~ 50 (238)
.+.|.+..++=-..+.+..+..|+.++||+|.||+..++.
T Consensus 3 ~~~v~~L~~mFP~l~~~~I~~~L~~~~g~ve~~i~~LL~~ 42 (43)
T smart00546 3 DEALHDLKDMFPNLDEEVIKAVLEANNGNVEATINNLLEG 42 (43)
T ss_pred HHHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHHcC
Confidence 4456666666577799999999999999999999988763
No 25
>TIGR00264 alpha-NAC-related protein. This hypothetical protein is found so far only in the Archaea. Its C-terminal domain of about 40 amino acids is homologous to the C-termini of the nascent polypeptide-associated complex alpha chain (alpha-NAC) and its yeast ortholog Egd2p and to the huntingtin-interacting protein HYPK. It shows weaker similarity, possibly through shared structural constraints rather than through homology, with the amino-terminal domain of elongation factor Ts. Alpha-NAC plays a role in preventing nascent polypeptides from binding inappropriately to membrane-targeting apparatus during translation, but is also active as a transcription regulator.
Probab=91.60 E-value=0.25 Score=39.69 Aligned_cols=35 Identities=20% Similarity=0.198 Sum_probs=31.1
Q ss_pred hHHHHHhhcccccCCCHHHHHHHHHHcCCCHHHHHH
Q 026450 10 KQSMVSSFLEIAVGQTAETAVQFLQATSWKLDEAIQ 45 (238)
Q Consensus 10 ~~~~i~~F~~iTtg~~~~~A~~~Le~~~wdLe~Ai~ 45 (238)
..+.|.-.++- ||++.+.|+.-|+.|||||-.||-
T Consensus 78 ~~eDI~lV~eq-~gvs~e~A~~AL~~~~gDl~~AI~ 112 (116)
T TIGR00264 78 TEDDIELVMKQ-CNVSKEEARRALEECGGDLAEAIM 112 (116)
T ss_pred CHHHHHHHHHH-hCcCHHHHHHHHHHcCCCHHHHHH
Confidence 35678888888 999999999999999999999985
No 26
>PRK06369 nac nascent polypeptide-associated complex protein; Reviewed
Probab=91.15 E-value=0.29 Score=39.27 Aligned_cols=36 Identities=25% Similarity=0.219 Sum_probs=32.3
Q ss_pred hHHHHHhhcccccCCCHHHHHHHHHHcCCCHHHHHHH
Q 026450 10 KQSMVSSFLEIAVGQTAETAVQFLQATSWKLDEAIQL 46 (238)
Q Consensus 10 ~~~~i~~F~~iTtg~~~~~A~~~Le~~~wdLe~Ai~l 46 (238)
.++.|.-.++- ||++.+.|+.-|+.|+|||-.||-.
T Consensus 76 ~~edI~lv~~q-~gvs~~~A~~AL~~~~gDl~~AI~~ 111 (115)
T PRK06369 76 PEEDIELVAEQ-TGVSEEEARKALEEANGDLAEAILK 111 (115)
T ss_pred CHHHHHHHHHH-HCcCHHHHHHHHHHcCCcHHHHHHH
Confidence 46778888898 9999999999999999999999863
No 27
>cd02959 ERp19 Endoplasmic reticulum protein 19 (ERp19) family; ERp19 is also known as ERp18, a protein located in the ER containing one redox active TRX domain. Denaturation studies indicate that the reduced form is more stable than the oxidized form, suggesting that the protein is involved in disulfide bond formation. In vitro, ERp19 has been shown to possess thiol-disulfide oxidase activity which is dependent on the presence of both active site cysteines. Although described as protein disulfide isomerase (PDI)-like, the protein does not complement for PDI activity. ERp19 shows a wide tissue distribution but is most abundant in liver, testis, heart and kidney.
Probab=90.68 E-value=0.32 Score=38.27 Aligned_cols=58 Identities=17% Similarity=0.134 Sum_probs=47.7
Q ss_pred chHHHHHHHHHhcCceEEEEeccCCCcccccccccccCCHHHHHHhhcCeEEeeeecch
Q 026450 167 GSFEKAKDAASVQDKWLLVNLQSTKEFSSHMLNRDTWANEAVSQTISTNFIFWQVGMTF 225 (238)
Q Consensus 167 g~f~~A~~~a~~~~kwllVniq~~~~F~~~~lnRD~W~~~~v~~~v~~~Fifwq~~~d~ 225 (238)
.+|++|+..|+.++|.+||++-.+--=.|+.+.+.+-..+.+.. +..+||..-+..+.
T Consensus 6 ~~~~~al~~A~~~~kpVlV~F~a~WC~~C~~~~~~~~~~~~~~~-~~~~fv~v~vd~~~ 63 (117)
T cd02959 6 VTLEDGIKEAKDSGKPLMLLIHKTWCGACKALKPKFAESKEISE-LSHNFVMVNLEDDE 63 (117)
T ss_pred eeHHHHHHHHHHcCCcEEEEEeCCcCHHHHHHHHHHhhhHHHHh-hcCcEEEEEecCCC
Confidence 37999999999999999999988777779999888777666665 56689988776554
No 28
>COG2143 Thioredoxin-related protein [Posttranslational modification, protein turnover, chaperones]
Probab=87.61 E-value=0.77 Score=39.12 Aligned_cols=59 Identities=15% Similarity=0.177 Sum_probs=49.5
Q ss_pred ccchHHHHHHHHHhcCceEEEEeccCCCcccccccccccCCHHHHHHhhcCeEEeeeec
Q 026450 165 FNGSFEKAKDAASVQDKWLLVNLQSTKEFSSHMLNRDTWANEAVSQTISTNFIFWQVGM 223 (238)
Q Consensus 165 ~~g~f~~A~~~a~~~~kwllVniq~~~~F~~~~lnRD~W~~~~v~~~v~~~Fifwq~~~ 223 (238)
..-+.-++-..|.-++|+||+-.-+++.-=|..|-||+...+.+++.+++||+++-.+.
T Consensus 27 s~~~~~~d~ksi~~~~Kylllmfes~~C~yC~~~KKd~~~~krlrEylk~hf~~~~l~i 85 (182)
T COG2143 27 SNIDVFDDNKSISPNDKYLLLMFESNGCSYCERFKKDLKNVKRLREYLKEHFSAYYLNI 85 (182)
T ss_pred hhhhhHHHHHhcCccCcEEEEEEcCCCChHHHHHHHhhcchHHHHHHHhhCeEEEEEEe
Confidence 33334556667777888998888888899999999999999999999999999998743
No 29
>COG1308 EGD2 Transcription factor homologous to NACalpha-BTF3 [Transcription]
Probab=86.40 E-value=1 Score=36.45 Aligned_cols=35 Identities=26% Similarity=0.313 Sum_probs=30.8
Q ss_pred HHHHHhhcccccCCCHHHHHHHHHHcCCCHHHHHHH
Q 026450 11 QSMVSSFLEIAVGQTAETAVQFLQATSWKLDEAIQL 46 (238)
Q Consensus 11 ~~~i~~F~~iTtg~~~~~A~~~Le~~~wdLe~Ai~l 46 (238)
++-|.--|+- +|.+.+.|+.-|+.+|+||-.||-.
T Consensus 85 eeDIkLV~eQ-a~VsreeA~kAL~e~~GDlaeAIm~ 119 (122)
T COG1308 85 EEDIKLVMEQ-AGVSREEAIKALEEAGGDLAEAIMK 119 (122)
T ss_pred HHHHHHHHHH-hCCCHHHHHHHHHHcCCcHHHHHHH
Confidence 5667778888 9999999999999999999888853
No 30
>KOG3763 consensus mRNA export factor TAP/MEX67 [RNA processing and modification]
Probab=86.16 E-value=1.2 Score=44.38 Aligned_cols=42 Identities=21% Similarity=0.385 Sum_probs=38.4
Q ss_pred hHHHHHhhcccccCCCHHHHHHHHHHcCCCHHHHHHHHhcCCC
Q 026450 10 KQSMVSSFLEIAVGQTAETAVQFLQATSWKLDEAIQLFYVGNE 52 (238)
Q Consensus 10 ~~~~i~~F~~iTtg~~~~~A~~~Le~~~wdLe~Ai~lff~~~~ 52 (238)
.+++|..|++. ||-..+-+...||.++||.|.|+.+|-+...
T Consensus 535 ~~e~l~~~~~~-tGln~~~s~~c~e~~nWdy~~A~k~F~~~ks 576 (585)
T KOG3763|consen 535 TDEKLLKFQEE-TGLNSEWSTMCLEQNNWDYERALKLFIELKS 576 (585)
T ss_pred HHHHHHHHHHH-hcCChHHHHHHHHHccCCHHHHHHHHHHhhc
Confidence 47889999999 9999999999999999999999999987543
No 31
>cd02953 DsbDgamma DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD alpha). DsbD beta, a transmembrane domain comprising of eight helices, acquires its reducing potential from the cytoplasmic thioredoxin. DsbD alpha transfers the acquired reducing potential from DsbD gamma to target proteins such as the periplasmic protein disulphide isomerases, DsbC and DsbG. This flow of reducing potential from the cytoplasm through DsbD allows DsbC and DsbG to act as isomerases in the oxidizing environment of the bacterial periplasm. DsbD also transfers reducing potential from the cytoplasm to specific reductases in the periplasm which are involved in the maturation of cytochromes.
Probab=82.62 E-value=2.2 Score=31.93 Aligned_cols=55 Identities=13% Similarity=0.174 Sum_probs=45.6
Q ss_pred HHHHHHHhcCceEEEEeccCCCcccccccccccCCHHHHHHhhcCeEEeeeecch
Q 026450 171 KAKDAASVQDKWLLVNLQSTKEFSSHMLNRDTWANEAVSQTISTNFIFWQVGMTF 225 (238)
Q Consensus 171 ~A~~~a~~~~kwllVniq~~~~F~~~~lnRD~W~~~~v~~~v~~~Fifwq~~~d~ 225 (238)
++...|.+++|++||.+-.+..=.|+.+.+-+-.++.+.+.++++|+|..++.+.
T Consensus 2 ~~~~~~~~~~k~vlv~f~a~wC~~C~~~~~~~~~~~~~~~~~~~~~~~~~vd~~~ 56 (104)
T cd02953 2 AALAQALAQGKPVFVDFTADWCVTCKVNEKVVFSDPEVQAALKKDVVLLRADWTK 56 (104)
T ss_pred HHHHHHHHcCCeEEEEEEcchhHHHHHHHHHhcCCHHHHHHHhCCeEEEEEecCC
Confidence 4556777889999999988888889999877777889999998899998886543
No 32
>PRK00293 dipZ thiol:disulfide interchange protein precursor; Provisional
Probab=79.24 E-value=2.9 Score=41.81 Aligned_cols=58 Identities=16% Similarity=0.248 Sum_probs=51.7
Q ss_pred cchHHHHHHHHHhcCceEEEEeccCCCcccccccccccCCHHHHHHhhcCeEEeeeecc
Q 026450 166 NGSFEKAKDAASVQDKWLLVNLQSTKEFSSHMLNRDTWANEAVSQTISTNFIFWQVGMT 224 (238)
Q Consensus 166 ~g~f~~A~~~a~~~~kwllVniq~~~~F~~~~lnRD~W~~~~v~~~v~~~Fifwq~~~d 224 (238)
..+|+++.+.|+.++|.++|++-.+-.=.|+.+-+.++.++.|++.++ +|++.+++-+
T Consensus 460 ~~~l~~~l~~a~~~gK~VlVdF~A~WC~~Ck~~e~~~~~~~~v~~~l~-~~~~v~vDvt 517 (571)
T PRK00293 460 VAELDQALAEAKGKGKPVMLDLYADWCVACKEFEKYTFSDPQVQQALA-DTVLLQADVT 517 (571)
T ss_pred HHHHHHHHHHHHhcCCcEEEEEECCcCHhHHHHHHHhcCCHHHHHHhc-CCEEEEEECC
Confidence 468899999999999999999988878889999999999999999997 7999888644
No 33
>KOG2244 consensus Highly conserved protein containing a thioredoxin domain [General function prediction only]
Probab=77.38 E-value=2.6 Score=42.32 Aligned_cols=66 Identities=15% Similarity=0.348 Sum_probs=57.3
Q ss_pred HHHHHHHHhcCceEEEEeccCCCcccccccccccCCHHHHHHhhcCeEEeeeecchh-----hhhhhhcee
Q 026450 170 EKAKDAASVQDKWLLVNLQSTKEFSSHMLNRDTWANEAVSQTISTNFIFWQVGMTFK-----VFIDFRYCC 235 (238)
Q Consensus 170 ~~A~~~a~~~~kwllVniq~~~~F~~~~lnRD~W~~~~v~~~v~~~Fifwq~~~d~~-----~~~~~~~c~ 235 (238)
++|-++|+.++|.|++.+--...-=||++-..-|-|+..-+++.||||---|+...+ .|.+|.+..
T Consensus 102 qeaf~kar~enkpifLsvgystchwchvmekesfeneet~~ilnenfv~ikVDREERPDVDK~YM~Fv~as 172 (786)
T KOG2244|consen 102 QEAFNKARAENKPIFLSVGYSTCHWCHVMEKESFENEETGEILNENFVKIKVDREERPDVDKLYMAFVVAS 172 (786)
T ss_pred HHHHHHHHhcCCCEEEEcccccchheeeeecccccCHHHHHHHhhhhhhhccChhhcCchHHHHHHHHHhc
Confidence 689999999999999999666566699999999999999999999999999987654 777776543
No 34
>CHL00098 tsf elongation factor Ts
Probab=69.11 E-value=6.5 Score=34.38 Aligned_cols=39 Identities=13% Similarity=0.182 Sum_probs=34.8
Q ss_pred HHHHhhcccccCCCHHHHHHHHHHcCCCHHHHHHHHhcCC
Q 026450 12 SMVSSFLEIAVGQTAETAVQFLQATSWKLDEAIQLFYVGN 51 (238)
Q Consensus 12 ~~i~~F~~iTtg~~~~~A~~~Le~~~wdLe~Ai~lff~~~ 51 (238)
++|.+..+. ||+.--.++.-|+.++||++.|++.-=..+
T Consensus 3 ~~ik~LR~~-Tgag~~dck~AL~e~~gd~~~A~~~Lr~~g 41 (200)
T CHL00098 3 ELVKELRDK-TGAGMMDCKKALQEANGDFEKALESLRQKG 41 (200)
T ss_pred HHHHHHHHH-HCCCHHHHHHHHHHcCCCHHHHHHHHHHhh
Confidence 578889999 999999999999999999999998776644
No 35
>KOG3077 consensus Uncharacterized conserved protein [Function unknown]
Probab=68.51 E-value=2.7 Score=38.25 Aligned_cols=39 Identities=21% Similarity=0.462 Sum_probs=35.1
Q ss_pred hHHHHHhhcccccCCCHHHHHHHHHHcCCCHHHH-HHHHhc
Q 026450 10 KQSMVSSFLEIAVGQTAETAVQFLQATSWKLDEA-IQLFYV 49 (238)
Q Consensus 10 ~~~~i~~F~~iTtg~~~~~A~~~Le~~~wdLe~A-i~lff~ 49 (238)
+.+++.+||.. |..++.++..+|..++|+++.| ...||.
T Consensus 8 ~~d~~~~~~~~-~~~~~~~s~~~~~~~dw~~~~~~~~s~~~ 47 (260)
T KOG3077|consen 8 QKDKFEQFMSF-TASRKKTSLSCLAACDWNLKYAFNDSYYT 47 (260)
T ss_pred HHHHHHhhccc-ccccchhhhhhhcccccccchhcccchhc
Confidence 78999999999 9999999999999999999999 555553
No 36
>PRK09377 tsf elongation factor Ts; Provisional
Probab=67.92 E-value=7.7 Score=35.80 Aligned_cols=40 Identities=15% Similarity=0.189 Sum_probs=36.4
Q ss_pred HHHHHhhcccccCCCHHHHHHHHHHcCCCHHHHHHHHhcCC
Q 026450 11 QSMVSSFLEIAVGQTAETAVQFLQATSWKLDEAIQLFYVGN 51 (238)
Q Consensus 11 ~~~i~~F~~iTtg~~~~~A~~~Le~~~wdLe~Ai~lff~~~ 51 (238)
.++|.+..+. ||+.--.++.-|+.++||+|.|+..-=..|
T Consensus 6 ~~~IK~LR~~-Tgagm~dCKkAL~e~~gD~ekAi~~Lrk~G 45 (290)
T PRK09377 6 AALVKELRER-TGAGMMDCKKALTEADGDIEKAIEWLRKKG 45 (290)
T ss_pred HHHHHHHHHH-HCCCHHHHHHHHHHcCCCHHHHHHHHHHhc
Confidence 5689999999 999999999999999999999999876654
No 37
>PRK12332 tsf elongation factor Ts; Reviewed
Probab=67.81 E-value=7.2 Score=34.00 Aligned_cols=40 Identities=15% Similarity=0.199 Sum_probs=36.0
Q ss_pred HHHHHhhcccccCCCHHHHHHHHHHcCCCHHHHHHHHhcCC
Q 026450 11 QSMVSSFLEIAVGQTAETAVQFLQATSWKLDEAIQLFYVGN 51 (238)
Q Consensus 11 ~~~i~~F~~iTtg~~~~~A~~~Le~~~wdLe~Ai~lff~~~ 51 (238)
.++|.+..+. ||+.--.++.-|+.++||++.|+...=..+
T Consensus 5 a~~ik~LR~~-tga~~~~ck~AL~~~~gd~~~A~~~lr~~g 44 (198)
T PRK12332 5 AKLVKELREK-TGAGMMDCKKALEEANGDMEKAIEWLREKG 44 (198)
T ss_pred HHHHHHHHHH-HCCCHHHHHHHHHHcCCCHHHHHHHHHHhh
Confidence 4689999999 999999999999999999999999876644
No 38
>TIGR00116 tsf translation elongation factor Ts. This protein is found in Bacteria, mitochondria, and chloroplasts.
Probab=67.26 E-value=7 Score=36.06 Aligned_cols=40 Identities=15% Similarity=0.169 Sum_probs=36.0
Q ss_pred HHHHHhhcccccCCCHHHHHHHHHHcCCCHHHHHHHHhcCC
Q 026450 11 QSMVSSFLEIAVGQTAETAVQFLQATSWKLDEAIQLFYVGN 51 (238)
Q Consensus 11 ~~~i~~F~~iTtg~~~~~A~~~Le~~~wdLe~Ai~lff~~~ 51 (238)
.++|.+..+. ||+.--.++.-|+.++||+|.|+..-=..|
T Consensus 5 a~~IK~LRe~-Tgagm~dCKkAL~e~~gDiekAi~~LRkkG 44 (290)
T TIGR00116 5 AQLVKELRER-TGAGMMDCKKALTEANGDFEKAIKNLRESG 44 (290)
T ss_pred HHHHHHHHHH-HCCCHHHHHHHHHHcCCCHHHHHHHHHHhc
Confidence 5689999999 999999999999999999999999776544
No 39
>PF03765 CRAL_TRIO_N: CRAL/TRIO, N-terminal domain; InterPro: IPR008273 This entry defines the N-terminal of various retinaldehyde/retinal-binding proteins that may be functional components of the visual cycle. Cellular retinaldehyde-binding protein (CRALBP) carries 11-cis-retinol or 11-cis-retinaldehyde as endogenous ligands and may function as a substrate carrier protein that modulates interaction of these retinoids with visual cycle enzymes []. The multidomain protein Trio binds the LAR transmembrane tyrosine phosphatase, contains a protein kinase domain, and has separate rac-specific and rho-specific guanine nucleotide exchange factor domains []. Trio is a multifunctional protein that integrates and amplifies signals involved in coordinating actin remodeling, which is necessary for cell migration and growth. Other members of the family are transfer proteins that include, guanine nucleotide exchange factor that may function as an effector of RAC1, phosphatidylinositol/phosphatidylcholine transfer protein that is required for the transport of secretory proteins from the golgi complex and alpha-tocopherol transfer protein that enhances the transfer of the ligand between separate membranes.; PDB: 1OIZ_A 1R5L_A 1OIP_A 3HX3_A 3HY5_A 1AUA_A 3Q8G_A 3B7Q_B 3B7Z_A 3B7N_A ....
Probab=61.44 E-value=13 Score=24.99 Aligned_cols=26 Identities=15% Similarity=0.439 Sum_probs=21.2
Q ss_pred cCCCHHHHHHHHHHcCCCHHHHHHHH
Q 026450 22 VGQTAETAVQFLQATSWKLDEAIQLF 47 (238)
Q Consensus 22 tg~~~~~A~~~Le~~~wdLe~Ai~lf 47 (238)
...+...-.+||.+.+||++.|+.++
T Consensus 27 ~~~~d~~llRFLRARkf~v~~A~~mL 52 (55)
T PF03765_consen 27 EDHDDNFLLRFLRARKFDVEKAFKML 52 (55)
T ss_dssp SS-SHHHHHHHHHHTTT-HHHHHHHH
T ss_pred CCCCHHHHHHHHHHccCCHHHHHHHH
Confidence 45577899999999999999999876
No 40
>KOG2756 consensus Predicted Mg2+-dependent phosphodiesterase TTRAP [Signal transduction mechanisms]
Probab=61.05 E-value=6.2 Score=36.57 Aligned_cols=40 Identities=18% Similarity=0.451 Sum_probs=33.4
Q ss_pred HHHHHhhcccccCCCHHHHHHHHHHcCCCHHHHHHHHhcCC
Q 026450 11 QSMVSSFLEIAVGQTAETAVQFLQATSWKLDEAIQLFYVGN 51 (238)
Q Consensus 11 ~~~i~~F~~iTtg~~~~~A~~~Le~~~wdLe~Ai~lff~~~ 51 (238)
..++-.|-.| +.+++..|.-+|....|+++.|++.||+..
T Consensus 26 ~~ll~efa~~-~s~dea~aq~~l~~~dw~~~ral~~~~~se 65 (349)
T KOG2756|consen 26 RLLCVEFASV-ASCDAAVAQCFLAENDWEMERALNSYFEPE 65 (349)
T ss_pred HHHHHHHHHh-hhhHHHhHHHHhhcchhHHHHHHHhhcCce
Confidence 3345555555 999999999999999999999999999853
No 41
>PF11547 E3_UbLigase_EDD: E3 ubiquitin ligase EDD; InterPro: IPR024725 EDD, the ER ubiquitin ligase from the HECT ligases, contains an N-terminal ubiquitin-associated (UBA) domain which binds ubiquitin. Ubiquitin is recognised by helices alpha-1 and -3 in in the UBA domain. EDD is involved in DNA damage repair pathways and binds to mono-ubiquitinated proteins [].; GO: 0043130 ubiquitin binding; PDB: 2QHO_H.
Probab=60.38 E-value=24 Score=24.27 Aligned_cols=43 Identities=12% Similarity=0.192 Sum_probs=35.4
Q ss_pred cchHHHHHhhcccccCCCHHHHHHHHHHcCCCHHHHHHHHhcC
Q 026450 8 NDKQSMVSSFLEIAVGQTAETAVQFLQATSWKLDEAIQLFYVG 50 (238)
Q Consensus 8 ~~~~~~i~~F~~iTtg~~~~~A~~~Le~~~wdLe~Ai~lff~~ 50 (238)
.-.+++|.+-..+-.|.+.++-++=|+.+|-|+..||+..++.
T Consensus 7 ~vPedlI~q~q~VLqgksR~vIirELqrTnLdVN~AvNNlLsR 49 (53)
T PF11547_consen 7 QVPEDLINQAQVVLQGKSRNVIIRELQRTNLDVNLAVNNLLSR 49 (53)
T ss_dssp GS-HHHHHHHHHHSTTS-HHHHHHHHHHTTT-HHHHHHHHHHH
T ss_pred cCCHHHHHHHHHHHcCCcHHHHHHHHHHhcccHHHHHHHHhcc
Confidence 3467899998888899999999999999999999999987754
No 42
>KOG1071 consensus Mitochondrial translation elongation factor EF-Tsmt, catalyzes nucleotide exchange on EF-Tumt [Translation, ribosomal structure and biogenesis]
Probab=54.94 E-value=15 Score=34.59 Aligned_cols=38 Identities=13% Similarity=0.144 Sum_probs=34.3
Q ss_pred chHHHHHhhcccccCCCHHHHHHHHHHcCCCHHHHHHHH
Q 026450 9 DKQSMVSSFLEIAVGQTAETAVQFLQATSWKLDEAIQLF 47 (238)
Q Consensus 9 ~~~~~i~~F~~iTtg~~~~~A~~~Le~~~wdLe~Ai~lf 47 (238)
...++|.+..+= ||++-..+++-|+.|||||..|..--
T Consensus 45 ~~~allk~LR~k-Tgas~~ncKkALee~~gDl~~A~~~L 82 (340)
T KOG1071|consen 45 SSKALLKKLREK-TGASMVNCKKALEECGGDLVLAEEWL 82 (340)
T ss_pred ccHHHHHHHHHH-cCCcHHHHHHHHHHhCCcHHHHHHHH
Confidence 468899999999 99999999999999999999987643
No 43
>COG2103 Predicted sugar phosphate isomerase [General function prediction only]
Probab=51.94 E-value=21 Score=32.89 Aligned_cols=39 Identities=26% Similarity=0.346 Sum_probs=33.9
Q ss_pred HHHHHhhcccccCCCHHHHHHHHHHcCCCHHHHHHHHhcC
Q 026450 11 QSMVSSFLEIAVGQTAETAVQFLQATSWKLDEAIQLFYVG 50 (238)
Q Consensus 11 ~~~i~~F~~iTtg~~~~~A~~~Le~~~wdLe~Ai~lff~~ 50 (238)
+..+.-.+++ ||++.++|.++|+.++.++-.||-+....
T Consensus 234 dRa~RIv~~a-T~~~~~~A~~~L~~~~~~vK~AIvm~~~~ 272 (298)
T COG2103 234 DRAVRIVMEA-TGCSAEEAEALLEEAGGNVKLAIVMLLTG 272 (298)
T ss_pred HHHHHHHHHH-hCCCHHHHHHHHHHcCCccHhHHHHHHhC
Confidence 4566777888 99999999999999999999999988764
No 44
>COG0264 Tsf Translation elongation factor Ts [Translation, ribosomal structure and biogenesis]
Probab=49.86 E-value=25 Score=32.60 Aligned_cols=40 Identities=15% Similarity=0.208 Sum_probs=36.0
Q ss_pred HHHHHhhcccccCCCHHHHHHHHHHcCCCHHHHHHHHhcCC
Q 026450 11 QSMVSSFLEIAVGQTAETAVQFLQATSWKLDEAIQLFYVGN 51 (238)
Q Consensus 11 ~~~i~~F~~iTtg~~~~~A~~~Le~~~wdLe~Ai~lff~~~ 51 (238)
-.+|....+. ||+.--.+++-|+.+++|+|.||...=..|
T Consensus 6 a~~VKeLRe~-TgAGMmdCKkAL~E~~Gd~EkAie~LR~kG 45 (296)
T COG0264 6 AALVKELREK-TGAGMMDCKKALEEANGDIEKAIEWLREKG 45 (296)
T ss_pred HHHHHHHHHH-hCCcHHHHHHHHHHcCCCHHHHHHHHHHhc
Confidence 5688999999 999999999999999999999999776654
No 45
>PRK05441 murQ N-acetylmuramic acid-6-phosphate etherase; Reviewed
Probab=49.13 E-value=20 Score=32.89 Aligned_cols=38 Identities=26% Similarity=0.298 Sum_probs=32.7
Q ss_pred HHHHhhcccccCCCHHHHHHHHHHcCCCHHHHHHHHhcC
Q 026450 12 SMVSSFLEIAVGQTAETAVQFLQATSWKLDEAIQLFYVG 50 (238)
Q Consensus 12 ~~i~~F~~iTtg~~~~~A~~~Le~~~wdLe~Ai~lff~~ 50 (238)
..+.-.+.+ ||++.+.|+..|+.++|++-.||-+....
T Consensus 237 ra~~i~~~~-~~~~~~~a~~~l~~~~~~vk~a~~~~~~~ 274 (299)
T PRK05441 237 RAVRIVMEA-TGVSREEAEAALEAADGSVKLAIVMILTG 274 (299)
T ss_pred HHHHHHHHH-HCcCHHHHHHHHHHhCCCcHHHHHHHHhC
Confidence 345557888 99999999999999999999999987653
No 46
>KOG0944 consensus Ubiquitin-specific protease UBP14 [Posttranslational modification, protein turnover, chaperones]
Probab=48.23 E-value=30 Score=35.65 Aligned_cols=41 Identities=20% Similarity=0.383 Sum_probs=37.4
Q ss_pred hHHHHHhhcccccCCCHHHHHHHHHHcCCCHHHHHHHHhcCCC
Q 026450 10 KQSMVSSFLEIAVGQTAETAVQFLQATSWKLDEAIQLFYVGNE 52 (238)
Q Consensus 10 ~~~~i~~F~~iTtg~~~~~A~~~Le~~~wdLe~Ai~lff~~~~ 52 (238)
.++.+...+++ |-+..+|+.-|.+.|+|+|.|++=+|.+..
T Consensus 635 ~e~~v~si~sm--Gf~~~qa~~aL~~~n~nveravDWif~h~d 675 (763)
T KOG0944|consen 635 DEESVASIVSM--GFSRNQAIKALKATNNNVERAVDWIFSHMD 675 (763)
T ss_pred ChhHheeeeee--cCcHHHHHHHHHhcCccHHHHHHHHHhccc
Confidence 46778888888 999999999999999999999999998876
No 47
>PF06972 DUF1296: Protein of unknown function (DUF1296); InterPro: IPR009719 This family represents a conserved region approximately 60 residues long within a number of plant proteins of unknown function.
Probab=47.34 E-value=48 Score=23.68 Aligned_cols=41 Identities=22% Similarity=0.236 Sum_probs=34.2
Q ss_pred hHHHHHhhcccccCCCHHHHHHHHHHcCCCHHHHHHHHhcC
Q 026450 10 KQSMVSSFLEIAVGQTAETAVQFLQATSWKLDEAIQLFYVG 50 (238)
Q Consensus 10 ~~~~i~~F~~iTtg~~~~~A~~~Le~~~wdLe~Ai~lff~~ 50 (238)
-...|+...+||++.+++.---.|..||-|-+.|++-.+..
T Consensus 5 ~rk~VQ~iKEiv~~hse~eIya~L~ecnMDpnea~qrLL~q 45 (60)
T PF06972_consen 5 SRKTVQSIKEIVGCHSEEEIYAMLKECNMDPNEAVQRLLSQ 45 (60)
T ss_pred HHHHHHHHHHHhcCCCHHHHHHHHHHhCCCHHHHHHHHHhc
Confidence 36689999999444499999999999999999999977653
No 48
>TIGR00274 N-acetylmuramic acid 6-phosphate etherase. This protein, MurQ, is involved in recycling components of the bacterial murein sacculus turned over during cell growth. The cell wall metabolite anhydro-N-acetylmuramic acid (anhMurNAc) is converted by a kinase, AnmK, to MurNAc-phosphate, then converted to N-acetylglucosamine-phosphate by this etherase, called MurQ. This family of proteins is similar to the C-terminal half of a number of vertebrate glucokinase regulator proteins and contains a Prosite pattern which is shared by this group of proteins in a region of local similarity.
Probab=45.29 E-value=25 Score=32.19 Aligned_cols=39 Identities=21% Similarity=0.090 Sum_probs=33.0
Q ss_pred HHHHHhhcccccCCCHHHHHHHHHHcCCCHHHHHHHHhcC
Q 026450 11 QSMVSSFLEIAVGQTAETAVQFLQATSWKLDEAIQLFYVG 50 (238)
Q Consensus 11 ~~~i~~F~~iTtg~~~~~A~~~Le~~~wdLe~Ai~lff~~ 50 (238)
...+.-.+.+ ||++.++|+..|+.++|++-.||-+-...
T Consensus 231 ~Ra~~i~~~~-~~~~~~~a~~~l~~~~~~vk~Ai~~~~~~ 269 (291)
T TIGR00274 231 ARAVRIVRQA-TDCNKELAEQTLLAADQNVKLAIVMILST 269 (291)
T ss_pred HHHHHHHHHH-hCcCHHHHHHHHHHhCCCcHHHHHHHHhC
Confidence 3455567888 99999999999999999999999987653
No 49
>PF03474 DMA: DMRTA motif; InterPro: IPR005173 This region is found to the C terminus of the DM DNA-binding domain IPR001275 from INTERPRO []. DM-domain proteins with this motif are known as DMRTA proteins. The function of this region is unknown.
Probab=40.40 E-value=49 Score=21.63 Aligned_cols=26 Identities=23% Similarity=0.164 Sum_probs=21.6
Q ss_pred cCCCHHHHHHHHHHcCCCHHHHHHHH
Q 026450 22 VGQTAETAVQFLQATSWKLDEAIQLF 47 (238)
Q Consensus 22 tg~~~~~A~~~Le~~~wdLe~Ai~lf 47 (238)
-.....+=...|+.|+||+-.||+.+
T Consensus 13 P~~kr~~Le~iL~~C~GDvv~AIE~~ 38 (39)
T PF03474_consen 13 PHQKRSVLELILQRCNGDVVQAIEQF 38 (39)
T ss_pred CCCChHHHHHHHHHcCCcHHHHHHHh
Confidence 44566777889999999999999876
No 50
>PF13098 Thioredoxin_2: Thioredoxin-like domain; PDB: 1T3B_A 2L57_A 1EEJ_B 1TJD_A 1JZD_B 1JZO_A 1G0T_B 3GV1_A 1V58_A 2H0H_A ....
Probab=40.08 E-value=3.7 Score=30.80 Aligned_cols=49 Identities=14% Similarity=0.177 Sum_probs=40.6
Q ss_pred HHhcCceEEEEeccCCCcccccccccccCCHHHHHHhhcCeEEeeeecc
Q 026450 176 ASVQDKWLLVNLQSTKEFSSHMLNRDTWANEAVSQTISTNFIFWQVGMT 224 (238)
Q Consensus 176 a~~~~kwllVniq~~~~F~~~~lnRD~W~~~~v~~~v~~~Fifwq~~~d 224 (238)
|+.++|.+||.+-++.-=-|+.+...+..+..|...++++|.+..+..+
T Consensus 1 ~~~~~k~~v~~F~~~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 49 (112)
T PF13098_consen 1 AKGNGKPIVVVFTDPWCPYCKKLEKELFPDNDVARYLKDDFQVIFVNID 49 (112)
T ss_dssp EETTSSEEEEEEE-TT-HHHHHHHHHHHHHHHHHCEEHCECEEEECESH
T ss_pred CCCCCCEEEEEEECCCCHHHHHHHHHHHHHHHHHHHhhcCeEEEEEecC
Confidence 5778899999999998999999999999888888888888888887554
No 51
>PRK12570 N-acetylmuramic acid-6-phosphate etherase; Reviewed
Probab=39.35 E-value=34 Score=31.44 Aligned_cols=39 Identities=18% Similarity=0.308 Sum_probs=32.9
Q ss_pred HHHHHhhcccccCCCHHHHHHHHHHcCCCHHHHHHHHhcC
Q 026450 11 QSMVSSFLEIAVGQTAETAVQFLQATSWKLDEAIQLFYVG 50 (238)
Q Consensus 11 ~~~i~~F~~iTtg~~~~~A~~~Le~~~wdLe~Ai~lff~~ 50 (238)
...+.-.+.+ ||++.+.|...|+.++|++-.||-+....
T Consensus 232 ~Ra~~i~~~~-~~~~~~~a~~~l~~~~~~vk~ai~~~~~~ 270 (296)
T PRK12570 232 ARAVRIVMQA-TGCSEDEAKELLKESDNDVKLAILMILTG 270 (296)
T ss_pred HHHHHHHHHH-HCcCHHHHHHHHHHhCCccHHHHHHHHhC
Confidence 3455567788 99999999999999999999999987653
No 52
>TIGR01527 arch_NMN_Atrans nicotinamide-nucleotide adenylyltransferase. In some archaeal species, a lower-scoring paralog, uncharacterized with respect to activity, is also present. These score between trusted and noise cutoffs.
Probab=28.83 E-value=70 Score=26.87 Aligned_cols=52 Identities=12% Similarity=0.277 Sum_probs=33.9
Q ss_pred hhhcCCCccccccchHHHHHHHHHhcCceEEEEeccCCCcccccccccccCCHHHHHHhhcC
Q 026450 154 ASLYRPPFHLMFNGSFEKAKDAASVQDKWLLVNLQSTKEFSSHMLNRDTWANEAVSQTISTN 215 (238)
Q Consensus 154 a~LFrPP~dim~~g~f~~A~~~a~~~~kwllVniq~~~~F~~~~lnRD~W~~~~v~~~v~~~ 215 (238)
....-||||.+|.|+-.-.+... +...-.+.+ ..++|+.+|...|+++|.++
T Consensus 85 v~~~~p~~D~vf~~~~~~~~~f~--e~g~~v~~~--------p~~~r~~~S~T~IR~~i~~~ 136 (165)
T TIGR01527 85 VESMTPPFDVVYSNNPLVRRLFK--EAGYEVKRP--------PMFNRKEYSGTEIRRRMLNG 136 (165)
T ss_pred HHHhCCCCCEEEECCHHHHHHHH--HcCCEEEEC--------CCcCCCcccHHHHHHHHHcC
Confidence 34557999999999644432222 223222222 35679999999999999874
No 53
>PF04221 RelB: RelB antitoxin; InterPro: IPR007337 Plasmids may be maintained stably in bacterial populations through the action of addiction modules, in which a toxin and antidote are encoded in a cassette on the plasmid. In any daughter cell that lacks the plasmid, the toxin persists and is lethal after the antidote protein is depleted. Toxin/antitoxin pairs are also found on main chromosomes, and likely represent selfish DNA. Sequences in the seed for this alignment all were found adjacent to toxin genes. Several toxin/antitoxin pairs may occur in a single species. RelE and RelB form a toxin-antitoxin system; RelE represses translation, probably through binding ribosomes [, ]. RelB stably binds RelE, presumably deactivating it.; PDB: 2KC8_B 2K29_A.
Probab=26.86 E-value=82 Score=23.18 Aligned_cols=25 Identities=28% Similarity=0.401 Sum_probs=20.7
Q ss_pred HHHHHHHHHHcCCCHHHHHHHHhcC
Q 026450 26 AETAVQFLQATSWKLDEAIQLFYVG 50 (238)
Q Consensus 26 ~~~A~~~Le~~~wdLe~Ai~lff~~ 50 (238)
-+.|...|+..|=++..||++||..
T Consensus 13 K~~a~~il~~~Glt~s~ai~~fl~q 37 (83)
T PF04221_consen 13 KEEAEAILEELGLTLSDAINMFLKQ 37 (83)
T ss_dssp HHHHHHHHHHTT--HHHHHHHHHHH
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHHH
Confidence 3679999999999999999999975
No 54
>KOG2456 consensus Aldehyde dehydrogenase [Energy production and conversion]
Probab=22.59 E-value=1.2e+02 Score=29.77 Aligned_cols=50 Identities=14% Similarity=0.213 Sum_probs=43.6
Q ss_pred hhhhhcCCCccccccchHHHHHHHHHhcCceEEEEeccCCCcccccccccccCCHHHHHHhhc
Q 026450 152 NLASLYRPPFHLMFNGSFEKAKDAASVQDKWLLVNLQSTKEFSSHMLNRDTWANEAVSQTIST 214 (238)
Q Consensus 152 ~La~LFrPP~dim~~g~f~~A~~~a~~~~kwllVniq~~~~F~~~~lnRD~W~~~~v~~~v~~ 214 (238)
+=.+.|.|=..|+---++++|.+.=.++.|.|..+|-+. +...|++++.+
T Consensus 332 M~eEIFGPiLPIi~v~~l~Eai~~In~~eKPLa~Y~Fs~-------------n~~~vkr~l~~ 381 (477)
T KOG2456|consen 332 MQEEIFGPILPIITVQSLDEAINFINEREKPLALYIFSN-------------NEKLVKRFLTE 381 (477)
T ss_pred hhhhhccCccceeEhhhHHHHHHHHhcCCCceEEEEecC-------------CHHHHHHHHHh
Confidence 446899999999999999999999999999999999887 55667777766
No 55
>cd02993 PDI_a_APS_reductase PDIa family, 5'-Adenylylsulfate (APS) reductase subfamily; composed of plant-type APS reductases containing a C-terminal redox active TRX domain and an N-terminal reductase domain which is part of a superfamily that includes N type ATP PPases. APS reductase catalyzes the reduction of activated sulfate to sulfite, a key step in the biosynthesis of sulfur-containing metabolites. Sulfate is first activated by ATP sulfurylase, forming APS, which can be phosphorylated to 3'-phosphoadenosine-5'-phosphosulfate (PAPS). Depending on the organism, either APS or PAPS can be used for sulfate reduction. Prokaryotes and fungi use PAPS, whereas plants use both APS and PAPS. Since plant-type APS reductase uses glutathione (GSH) as its electron donor, the C-terminal domain may function like glutaredoxin, a GSH-dependent member of the TRX superfamily. The flow of reducing equivalents goes from GSH - C-terminal TRX domain - N-terminal reductase domain - APS. Plant-type APS red
Probab=21.14 E-value=1.7e+02 Score=21.93 Aligned_cols=55 Identities=13% Similarity=0.085 Sum_probs=38.7
Q ss_pred chHHHHHHHHHhcCceEEEEeccCCCcccccccccccCCHHHHHHhhc-CeEEeeeecch
Q 026450 167 GSFEKAKDAASVQDKWLLVNLQSTKEFSSHMLNRDTWANEAVSQTIST-NFIFWQVGMTF 225 (238)
Q Consensus 167 g~f~~A~~~a~~~~kwllVniq~~~~F~~~~lnRD~W~~~~v~~~v~~-~Fifwq~~~d~ 225 (238)
.+|+ +...+++++|.+||++-.+.-=.|+.+..- | +.+...++. +|.|..++.|.
T Consensus 9 ~~~~-~~~~~~~~~k~vlv~f~a~wC~~C~~~~~~-~--~~la~~~~~~~~~~~~vd~d~ 64 (109)
T cd02993 9 AEIE-ALAKGERRNQSTLVVLYAPWCPFCQAMEAS-Y--EELAEKLAGSNVKVAKFNADG 64 (109)
T ss_pred HHHH-HHHhhhhcCCCEEEEEECCCCHHHHHHhHH-H--HHHHHHhccCCeEEEEEECCc
Confidence 4555 555567778889999988877788888655 3 335555555 59999987765
Done!