Query psy3659
Match_columns 78
No_of_seqs 116 out of 1028
Neff 7.2
Searched_HMMs 46136
Date Fri Aug 16 22:21:11 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy3659.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/3659hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG5078 Ubiquitin-protein liga 99.9 5.2E-26 1.1E-30 147.3 8.4 70 8-77 6-83 (153)
2 KOG0417|consensus 99.9 1.4E-25 3.1E-30 143.8 7.4 70 8-77 2-78 (148)
3 PTZ00390 ubiquitin-conjugating 99.9 2.1E-24 4.6E-29 139.5 7.7 71 7-77 2-79 (152)
4 PLN00172 ubiquitin conjugating 99.9 1.1E-23 2.3E-28 135.4 7.7 70 8-77 2-78 (147)
5 KOG0418|consensus 99.9 1.5E-23 3.3E-28 138.7 7.4 73 5-77 1-83 (200)
6 KOG0419|consensus 99.8 5.2E-21 1.1E-25 121.0 7.4 72 6-77 3-81 (152)
7 PF00179 UQ_con: Ubiquitin-con 99.8 5.9E-21 1.3E-25 120.8 6.0 67 11-77 1-75 (140)
8 cd00195 UBCc Ubiquitin-conjuga 99.8 3.2E-20 6.9E-25 117.6 7.7 69 10-78 2-77 (141)
9 KOG0426|consensus 99.8 2.6E-20 5.6E-25 118.2 7.1 72 6-77 3-82 (165)
10 KOG0421|consensus 99.8 1.9E-19 4.2E-24 115.5 7.6 72 7-78 29-107 (175)
11 KOG0894|consensus 99.8 1.4E-19 3.1E-24 122.2 7.0 66 5-70 3-72 (244)
12 KOG0425|consensus 99.8 3E-19 6.5E-24 115.6 7.2 70 8-77 6-83 (171)
13 KOG0422|consensus 99.8 1.5E-19 3.3E-24 115.1 5.5 73 6-78 1-80 (153)
14 smart00212 UBCc Ubiquitin-conj 99.8 7.4E-19 1.6E-23 111.8 6.5 68 10-77 1-76 (145)
15 KOG0424|consensus 99.7 1E-17 2.3E-22 107.2 7.5 72 6-77 3-86 (158)
16 KOG0420|consensus 99.6 9.6E-16 2.1E-20 100.5 6.8 73 3-77 24-106 (184)
17 KOG0416|consensus 99.6 9.1E-16 2E-20 100.6 5.8 71 5-78 1-78 (189)
18 KOG0427|consensus 99.6 2.1E-15 4.6E-20 95.7 6.5 64 5-69 13-80 (161)
19 KOG0428|consensus 99.6 2.9E-15 6.3E-20 103.3 5.6 65 4-69 8-76 (314)
20 KOG0423|consensus 99.5 5.1E-15 1.1E-19 97.7 4.1 71 7-77 10-87 (223)
21 KOG0895|consensus 98.8 1.1E-08 2.5E-13 81.2 6.6 64 6-69 281-348 (1101)
22 KOG0895|consensus 98.7 3.1E-08 6.8E-13 78.7 5.0 62 8-69 852-917 (1101)
23 KOG0429|consensus 98.5 3.9E-07 8.5E-12 62.4 6.5 65 11-75 23-95 (258)
24 KOG0896|consensus 97.9 3.2E-05 7E-10 49.3 5.0 61 9-69 7-75 (138)
25 PF05773 RWD: RWD domain; Int 95.8 0.028 6E-07 33.2 4.7 60 9-69 3-68 (113)
26 smart00591 RWD domain in RING 95.3 0.081 1.8E-06 31.0 5.3 21 49-69 40-60 (107)
27 PF14461 Prok-E2_B: Prokaryoti 93.8 0.065 1.4E-06 33.6 2.6 22 48-69 34-55 (133)
28 PF08694 UFC1: Ubiquitin-fold 93.7 0.28 6.2E-06 31.9 5.4 59 7-69 24-94 (161)
29 PF05743 UEV: UEV domain; Int 92.1 0.16 3.5E-06 31.6 2.6 23 47-69 43-67 (121)
30 KOG3357|consensus 90.0 0.46 1E-05 30.6 3.2 60 7-69 27-97 (167)
31 KOG0897|consensus 85.1 0.71 1.5E-05 29.0 1.9 18 52-69 13-30 (122)
32 PF14462 Prok-E2_E: Prokaryoti 84.3 1.7 3.6E-05 27.4 3.3 27 43-69 35-61 (122)
33 PF09765 WD-3: WD-repeat regio 83.2 1.8 3.9E-05 30.8 3.5 56 8-69 100-156 (291)
34 KOG4018|consensus 80.0 7.2 0.00016 26.9 5.3 19 51-69 50-68 (215)
35 smart00340 HALZ homeobox assoc 78.8 2.1 4.5E-05 22.3 1.9 18 6-23 18-35 (44)
36 PF07443 HARP: HepA-related pr 69.1 1.2 2.6E-05 24.4 -0.5 9 70-78 27-35 (55)
37 PF06113 BRE: Brain and reprod 63.8 10 0.00022 27.7 3.3 25 51-75 307-333 (333)
38 PF14824 Sirohm_synth_M: Siroh 49.6 18 0.00038 17.3 1.8 18 2-19 11-29 (30)
39 COG4957 Predicted transcriptio 49.5 8.5 0.00018 24.9 0.8 19 51-69 103-121 (148)
40 KOG4445|consensus 48.8 18 0.0004 26.4 2.5 27 42-70 39-65 (368)
41 PF12065 DUF3545: Protein of u 48.0 15 0.00033 20.3 1.6 16 8-23 35-50 (59)
42 KOG0309|consensus 47.0 20 0.00043 29.5 2.7 22 48-69 463-485 (1081)
43 cd03459 3,4-PCD Protocatechuat 47.0 19 0.00042 23.3 2.3 21 49-69 72-97 (158)
44 cd03457 intradiol_dioxygenase_ 46.9 19 0.00042 24.0 2.3 26 48-73 85-111 (188)
45 cd00421 intradiol_dioxygenase 46.3 39 0.00084 21.3 3.5 27 49-75 65-93 (146)
46 PF11819 DUF3338: Domain of un 42.8 14 0.0003 23.8 1.1 13 58-70 69-85 (138)
47 cd05845 Ig2_L1-CAM_like Second 41.5 27 0.00059 20.7 2.2 21 47-69 16-36 (95)
48 PF11386 VERL: Vitelline envel 38.4 67 0.0015 18.7 3.3 28 48-75 6-33 (78)
49 TIGR02423 protocat_alph protoc 38.1 31 0.00066 23.2 2.2 21 49-69 96-121 (193)
50 KOG2391|consensus 36.7 35 0.00075 25.3 2.4 25 45-69 61-87 (365)
51 PF09606 Med15: ARC105 or Med1 36.0 12 0.00026 30.4 0.0 19 51-69 715-733 (799)
52 PF14347 DUF4399: Domain of un 35.0 59 0.0013 19.0 2.8 21 50-70 62-84 (87)
53 PF09458 H_lectin: H-type lect 33.8 40 0.00087 18.2 1.9 18 51-69 2-19 (72)
54 PF00845 Gemini_BL1: Geminivir 32.3 38 0.00082 24.1 2.0 25 51-75 124-164 (276)
55 PHA00458 single-stranded DNA-b 29.1 51 0.0011 23.0 2.1 22 46-67 33-54 (233)
56 PF11619 P53_C: Transcription 28.7 50 0.0011 18.7 1.7 12 49-60 14-25 (71)
57 TIGR01633 phi3626_gp14_N putat 28.6 1.3E+02 0.0028 17.6 5.3 54 8-62 63-122 (124)
58 PF08170 POPLD: POPLD (NUC188) 26.8 30 0.00064 20.3 0.6 11 56-66 41-51 (92)
59 COG3140 Uncharacterized protei 25.2 87 0.0019 17.2 2.2 21 8-28 33-53 (60)
60 cd03463 3,4-PCD_alpha Protocat 25.0 1.3E+02 0.0029 20.0 3.6 27 49-75 92-124 (185)
61 PF06113 BRE: Brain and reprod 25.0 95 0.0021 22.8 3.0 24 46-69 61-84 (333)
62 PF12328 Rpp20: Rpp20 subunit 24.9 82 0.0018 20.2 2.5 21 2-22 11-31 (144)
63 PRK00907 hypothetical protein; 24.0 31 0.00067 20.5 0.3 11 55-65 11-21 (92)
64 PF14501 HATPase_c_5: GHKL dom 23.5 63 0.0014 18.5 1.6 12 48-59 89-100 (100)
65 KOG1814|consensus 23.4 67 0.0014 24.5 2.0 17 53-69 77-94 (445)
66 PF04904 NCD1: NAB conserved r 23.4 82 0.0018 18.5 2.0 17 8-24 62-78 (82)
67 KOG1976|consensus 23.3 42 0.0009 24.8 0.9 16 50-65 309-324 (391)
68 PF03523 Macscav_rec: Macropha 23.2 24 0.00052 18.7 -0.2 8 70-77 19-26 (49)
69 PF12259 DUF3609: Protein of u 22.8 64 0.0014 23.7 1.8 52 8-59 33-86 (361)
70 PF08921 DUF1904: Domain of un 22.6 87 0.0019 19.1 2.2 28 5-32 14-41 (108)
71 PF12627 PolyA_pol_RNAbd: Prob 22.0 1.1E+02 0.0023 16.0 2.2 19 7-25 22-40 (64)
72 COG0544 Tig FKBP-type peptidyl 21.1 84 0.0018 23.7 2.2 14 51-64 210-223 (441)
73 cd05727 Ig2_Contactin-2-like S 21.0 84 0.0018 18.6 1.8 24 44-69 13-36 (96)
74 PF14457 Prok-E2_A: Prokaryoti 21.0 91 0.002 20.3 2.1 17 53-69 56-72 (162)
75 PF06031 SERTA: SERTA motif; 20.9 58 0.0013 16.4 0.9 12 6-17 27-38 (38)
No 1
>COG5078 Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.93 E-value=5.2e-26 Score=147.28 Aligned_cols=70 Identities=29% Similarity=0.480 Sum_probs=65.9
Q ss_pred HHHHHHHHHHHHhcCCCCCeEEccCCC-CCCe-eee---cCCCCCCCCeEEEEEEcCCCCCCCCCcc---eeeccccC
Q psy3659 8 SAKRIQKELAEITLDPPPNCSAGPKGD-NPGI-PCT---TTRARYALDIFTVKQGLRYHFCLRPERN---ERFWNFSL 77 (78)
Q Consensus 8 ~~~Rl~kEl~~l~~~~~~~i~~~p~~~-nl~~-~~~---P~~tpYegg~f~l~i~fp~~YP~~PP~v---~~~w~~~~ 77 (78)
|.+||++|+++|++++++++++.+.++ |+++ .++ |++||||||+|++.|.||++||++||+| ++|||+|+
T Consensus 6 a~~RL~kE~~~l~~~~~~~~~a~p~~d~~l~~w~~~i~GP~dtpYegg~f~~~l~fP~~YP~~PPkv~F~t~i~HPNV 83 (153)
T COG5078 6 ALKRLLKELKKLQKDPPPGISAGPVDDDNLFHWEATITGPPDTPYEGGIFKLTLEFPEDYPFKPPKVRFTTKIFHPNV 83 (153)
T ss_pred HHHHHHHHHHHHhcCCCCceEEEECCCCcceeEEEEEECCCCCCcCCCEEEEEEECCCCCCCCCCeeeeccCCcCCCc
Confidence 899999999999999999999999887 9988 444 9999999999999999999999999999 59999997
No 2
>KOG0417|consensus
Probab=99.92 E-value=1.4e-25 Score=143.77 Aligned_cols=70 Identities=31% Similarity=0.581 Sum_probs=65.4
Q ss_pred HHHHHHHHHHHHhcCCCCCeEEccCCCCCCe-eee---cCCCCCCCCeEEEEEEcCCCCCCCCCcc---eeeccccC
Q psy3659 8 SAKRIQKELAEITLDPPPNCSAGPKGDNPGI-PCT---TTRARYALDIFTVKQGLRYHFCLRPERN---ERFWNFSL 77 (78)
Q Consensus 8 ~~~Rl~kEl~~l~~~~~~~i~~~p~~~nl~~-~~~---P~~tpYegg~f~l~i~fp~~YP~~PP~v---~~~w~~~~ 77 (78)
+.+||+||+++|..++++|+++.++++|+++ .++ |.+||||||+|+|.|.||++|||+||+| |+|+|+|+
T Consensus 2 a~~RI~kE~~~l~~dp~~~~~~~~~~dnl~~w~a~I~GP~~SpYEgG~F~l~I~~p~~YP~~PPkV~F~TkIyHPNI 78 (148)
T KOG0417|consen 2 ASKRIIKELQDLLRDPPPGCSAGPVGDNLFHWQATILGPPGSPYEGGVFFLEIHFPEDYPFKPPKVRFLTKIYHPNI 78 (148)
T ss_pred cHHHHHHHHHHHhcCCCCCCccCCCCCceeeEEEEEECCCCCCcCCCEEEEEEECCCCCCCCCCceEeecccccCCc
Confidence 3569999999999999999999999999997 554 9999999999999999999999999999 69999997
No 3
>PTZ00390 ubiquitin-conjugating enzyme; Provisional
Probab=99.91 E-value=2.1e-24 Score=139.46 Aligned_cols=71 Identities=21% Similarity=0.362 Sum_probs=65.8
Q ss_pred HHHHHHHHHHHHHhcCCCCCeEEccCCCCCCe-eee---cCCCCCCCCeEEEEEEcCCCCCCCCCcc---eeeccccC
Q psy3659 7 TSAKRIQKELAEITLDPPPNCSAGPKGDNPGI-PCT---TTRARYALDIFTVKQGLRYHFCLRPERN---ERFWNFSL 77 (78)
Q Consensus 7 ~~~~Rl~kEl~~l~~~~~~~i~~~p~~~nl~~-~~~---P~~tpYegg~f~l~i~fp~~YP~~PP~v---~~~w~~~~ 77 (78)
++.+||++|+++|.+++++|+.+.+.++|+++ .++ |++|||+||.|+++|.||++||++||+| +++||+|+
T Consensus 2 ~~~kRl~~E~~~l~~~~~~~i~~~~~~~d~~~w~~~i~GP~~tpY~gg~f~~~i~~p~~YP~~pP~v~F~t~i~HPNV 79 (152)
T PTZ00390 2 SISKRIEKETQNLANDPPPGIKAEPDPGNYRHFKILMEGPDGTPYEGGYYKLELFLPEQYPMEPPKVRFLTKIYHPNI 79 (152)
T ss_pred cHHHHHHHHHHHHHhCCCCCeEEEECCCCccEEEEEEEcCCCCCCcCcEEEEEEECccccCCCCCEEEEecCCeeceE
Confidence 46899999999999999999999999899987 444 9999999999999999999999999999 59999986
No 4
>PLN00172 ubiquitin conjugating enzyme; Provisional
Probab=99.90 E-value=1.1e-23 Score=135.44 Aligned_cols=70 Identities=29% Similarity=0.518 Sum_probs=64.8
Q ss_pred HHHHHHHHHHHHhcCCCCCeEEccCCCCCCe-eee---cCCCCCCCCeEEEEEEcCCCCCCCCCcc---eeeccccC
Q psy3659 8 SAKRIQKELAEITLDPPPNCSAGPKGDNPGI-PCT---TTRARYALDIFTVKQGLRYHFCLRPERN---ERFWNFSL 77 (78)
Q Consensus 8 ~~~Rl~kEl~~l~~~~~~~i~~~p~~~nl~~-~~~---P~~tpYegg~f~l~i~fp~~YP~~PP~v---~~~w~~~~ 77 (78)
|.+||+||+++|++++++++.+.++++|+++ .++ |++|||+||.|+++|.||++||++||+| +++||+|+
T Consensus 2 a~~Rl~kE~~~l~~~~~~~~~~~~~~~nl~~w~~~i~GP~~tpyegg~f~~~i~fp~~YP~~pP~v~f~t~i~HPNv 78 (147)
T PLN00172 2 ATKRIQKEHKDLLKDPPSNCSAGPSDENLFRWTASIIGPSDSPYAGGVFFLSILFPPDYPFKPPKVQFTTKIYHPNI 78 (147)
T ss_pred hHHHHHHHHHHHHhCCCCCeEEEECCCChheEEEEEECCCCCCCCCCEEEEEEECCcccCCCCCEEEEecCcccceE
Confidence 3699999999999999999999999999988 444 9999999999999999999999999999 59999986
No 5
>KOG0418|consensus
Probab=99.89 E-value=1.5e-23 Score=138.68 Aligned_cols=73 Identities=18% Similarity=0.323 Sum_probs=65.2
Q ss_pred hhHHHHHHHHHHHHHhcCC---CCCeEEccCCCCCCe-eee---cCCCCCCCCeEEEEEEcCCCCCCCCCcc---eeecc
Q psy3659 5 LSTSAKRIQKELAEITLDP---PPNCSAGPKGDNPGI-PCT---TTRARYALDIFTVKQGLRYHFCLRPERN---ERFWN 74 (78)
Q Consensus 5 ~~~~~~Rl~kEl~~l~~~~---~~~i~~~p~~~nl~~-~~~---P~~tpYegg~f~l~i~fp~~YP~~PP~v---~~~w~ 74 (78)
|+.+.+||++|++++..++ ..+|.+...++|+.+ ... |++||||||+|.+.|++|++|||+||+| +||||
T Consensus 1 m~~~~~ri~~e~k~v~~~~eisq~~I~ve~vn~~~~~ikG~I~GP~~TPYEGG~FeldI~iPe~YPF~pPkv~F~TkIwH 80 (200)
T KOG0418|consen 1 MSNAFKRINREQKEVLDDPEISQAGIIVEMVNENLKEIKGHIAGPEDTPYEGGVFELDIKIPENYPFKPPKVKFITKIWH 80 (200)
T ss_pred CccHHHHHHHHHHHhccChhhhhcceEEEEccCChhhceeEecCCCCCCCCCceEEEEEecCCCCCCCCCceeeeeeeec
Confidence 3448899999999999987 678999988888887 333 9999999999999999999999999999 59999
Q ss_pred ccC
Q psy3659 75 FSL 77 (78)
Q Consensus 75 ~~~ 77 (78)
+|+
T Consensus 81 PnV 83 (200)
T KOG0418|consen 81 PNV 83 (200)
T ss_pred CCC
Confidence 996
No 6
>KOG0419|consensus
Probab=99.84 E-value=5.2e-21 Score=121.02 Aligned_cols=72 Identities=14% Similarity=0.305 Sum_probs=66.6
Q ss_pred hHHHHHHHHHHHHHhcCCCCCeEEccCCCCCCe-eee---cCCCCCCCCeEEEEEEcCCCCCCCCCcc---eeeccccC
Q psy3659 6 STSAKRIQKELAEITLDPPPNCSAGPKGDNPGI-PCT---TTRARYALDIFTVKQGLRYHFCLRPERN---ERFWNFSL 77 (78)
Q Consensus 6 ~~~~~Rl~kEl~~l~~~~~~~i~~~p~~~nl~~-~~~---P~~tpYegg~f~l~i~fp~~YP~~PP~v---~~~w~~~~ 77 (78)
..|.+||+++++.|+++++.||++.|.++|++. .++ |++|||+||+|+|.|+|+++||.+||.| ++..|+|+
T Consensus 3 tpArrrLmrDfkrlqedpp~gisa~P~~~niM~W~a~I~Gp~~tp~e~gtFkLtl~FteeYpnkPP~VrFvs~mFHPNv 81 (152)
T KOG0419|consen 3 TPARRRLMRDFKRLQEDPPAGISAAPVENNIMEWNAVIFGPQDTPFEGGTFKLTLEFTEEYPNKPPTVRFVSKMFHPNV 81 (152)
T ss_pred chHHHHHHHHHHHhhcCCCCCccCCCCccceeeeeeeEEcCCCCCcCCceEEEEEEcccccCCCCCeeEeeeeccCCCc
Confidence 468999999999999999999999999999987 333 9999999999999999999999999999 48899986
No 7
>PF00179 UQ_con: Ubiquitin-conjugating enzyme; InterPro: IPR000608 The post-translational attachment of ubiquitin (IPR000626 from INTERPRO) to proteins (ubiquitinylation) alters the function, location or trafficking of a protein, or targets it to the 26S proteasome for degradation [, , ]. Ubiquitinylation is an ATP-dependent process that involves the action of at least three enzymes: a ubiquitin-activating enzyme (E1, IPR000011 from INTERPRO), a ubiquitin-conjugating enzyme (E2), and a ubiquitin ligase (E3, IPR000569 from INTERPRO, IPR003613 from INTERPRO), which work sequentially in a cascade []. The E1 enzyme mediates an ATP-dependent transfer of a thioester-linked ubiquitin molecule to a cysteine residue on the E2 enzyme. The E2 enzyme (6.3.2.19 from EC) then either transfers the ubiquitin moiety directly to a substrate, or to an E3 ligase, which can also ubiquitinylate a substrate. There are several different E2 enzymes (over 30 in humans), which are broadly grouped into four classes, all of which have a core catalytic domain (containing the active site cysteine), and some of which have short N- and C-terminal amino acid extensions: class I enzymes consist of just the catalytic core domain (UBC), class II possess a UBC and a C-terminal extension, class III possess a UBC and an N-terminal extension, and class IV possess a UBC and both N- and C-terminal extensions. These extensions appear to be important for some subfamily function, including E2 localisation and protein-protein interactions []. In addition, there are proteins with an E2-like fold that are devoid of catalytic activity, but which appear to assist in poly-ubiquitin chain formation.; GO: 0016881 acid-amino acid ligase activity; PDB: 2AAK_A 3SY2_C 1FBV_C 3SQV_C 1C4Z_D 1JAT_B 2GMI_B 2H2Y_D 2R0J_A 3E95_B ....
Probab=99.83 E-value=5.9e-21 Score=120.77 Aligned_cols=67 Identities=27% Similarity=0.431 Sum_probs=58.6
Q ss_pred HHHHHHHHHhcCCCCCeEEccCCC-CCCe-eee---cCCCCCCCCeEEEEEEcCCCCCCCCCcc---eeeccccC
Q psy3659 11 RIQKELAEITLDPPPNCSAGPKGD-NPGI-PCT---TTRARYALDIFTVKQGLRYHFCLRPERN---ERFWNFSL 77 (78)
Q Consensus 11 Rl~kEl~~l~~~~~~~i~~~p~~~-nl~~-~~~---P~~tpYegg~f~l~i~fp~~YP~~PP~v---~~~w~~~~ 77 (78)
||++|+++++++++.|+.+.+.++ |+++ .++ |.+|||+||.|++.|.||++||++||+| +++||+++
T Consensus 1 Rl~~E~~~l~~~~~~~~~~~~~~~~~~~~w~~~i~gp~~t~y~gg~f~~~i~~p~~YP~~pP~v~f~t~i~HPni 75 (140)
T PF00179_consen 1 RLQKELKELQKNPPPGISVQPSEDDNLFEWHVTIFGPPGTPYEGGIFKFRISFPPDYPFSPPKVRFLTPIFHPNI 75 (140)
T ss_dssp HHHHHHHHHHHSHTTTEEEEEESTTETTEEEEEEEBETTSTTTTSEEEEEEEETTTTTTS--EEEESSS-SBTTB
T ss_pred CHHHHHHHHhhCCCCCEEEEECCCCChheEEEEEeccCccceecccccccccccccccccccccccccccccccc
Confidence 899999999999999999998776 8887 433 8999999999999999999999999999 59999987
No 8
>cd00195 UBCc Ubiquitin-conjugating enzyme E2, catalytic (UBCc) domain. This is part of the ubiquitin-mediated protein degradation pathway in which a thiol-ester linkage forms between a conserved cysteine and the C-terminus of ubiquitin and complexes with ubiquitin protein ligase enzymes, E3. This pathway regulates many fundamental cellular processes. There are also other E2s which form thiol-ester linkages without the use of E3s as well as several UBC homologs (TSG101, Mms2, Croc-1 and similar proteins) which lack the active site cysteine essential for ubiquitination and appear to function in DNA repair pathways which were omitted from the scope of this CD.
Probab=99.82 E-value=3.2e-20 Score=117.65 Aligned_cols=69 Identities=26% Similarity=0.434 Sum_probs=63.2
Q ss_pred HHHHHHHHHHhcCCCCCeEEccCCCCCCe-eee---cCCCCCCCCeEEEEEEcCCCCCCCCCcc---eeeccccCC
Q psy3659 10 KRIQKELAEITLDPPPNCSAGPKGDNPGI-PCT---TTRARYALDIFTVKQGLRYHFCLRPERN---ERFWNFSLE 78 (78)
Q Consensus 10 ~Rl~kEl~~l~~~~~~~i~~~p~~~nl~~-~~~---P~~tpYegg~f~l~i~fp~~YP~~PP~v---~~~w~~~~~ 78 (78)
+||++|+++++++++.|+++.+.++|+++ .++ |++|||+||.|+++|.||++||++||+| +++||+++.
T Consensus 2 ~Rl~~E~~~l~~~~~~~~~v~~~~~~~~~w~~~i~g~~~t~y~g~~~~~~~~~p~~yP~~pP~v~f~~~i~HpnV~ 77 (141)
T cd00195 2 KRLQKELKDLKKDPPSGISAEPVEENLLEWHGTIRGPPDTPYEGGIFKLDIEFPEDYPFKPPKVRFVTKIYHPNVD 77 (141)
T ss_pred chHHHHHHHHHhCCCCCeEEEECCCChhEEEEEEecCCCCCccCCEEEEEEECCCccCCCCCeEEEeCCcccCCCC
Confidence 79999999999999999999999889987 443 7899999999999999999999999999 499999873
No 9
>KOG0426|consensus
Probab=99.82 E-value=2.6e-20 Score=118.19 Aligned_cols=72 Identities=24% Similarity=0.444 Sum_probs=65.5
Q ss_pred hHHHHHHHHHHHHHhcCCCCCeEEccCC-CCCCe-eee---cCCCCCCCCeEEEEEEcCCCCCCCCCcce---eeccccC
Q psy3659 6 STSAKRIQKELAEITLDPPPNCSAGPKG-DNPGI-PCT---TTRARYALDIFTVKQGLRYHFCLRPERNE---RFWNFSL 77 (78)
Q Consensus 6 ~~~~~Rl~kEl~~l~~~~~~~i~~~p~~-~nl~~-~~~---P~~tpYegg~f~l~i~fp~~YP~~PP~v~---~~w~~~~ 77 (78)
..|.+||++|+++|.+++++||.+.|.+ ||++. .|+ |++|+|+||+|..++.||.|||.+||+++ .+.|+|+
T Consensus 3 ~~AlkRLm~EykqLt~~~P~GIvAgP~~EdnfF~W~cLI~GP~~T~f~~GvfpA~l~FP~DYPLsPPkm~Ftc~~fHPNi 82 (165)
T KOG0426|consen 3 GTALKRLMAEYKQLTLNPPEGIVAGPINEDNFFEWECLIQGPEDTCFEGGVFPARLSFPLDYPLSPPKMRFTCEMFHPNI 82 (165)
T ss_pred hhHHHHHHHHHHHHccCCCCcceeCCCCccceeeeeeeeeCCCCCcccCCccceeeecCCCCCCCCCceeeecccccCcc
Confidence 4689999999999999999999999864 68887 665 99999999999999999999999999995 8889875
No 10
>KOG0421|consensus
Probab=99.80 E-value=1.9e-19 Score=115.49 Aligned_cols=72 Identities=18% Similarity=0.235 Sum_probs=66.8
Q ss_pred HHHHHHHHHHHHHhcCCCCCeEEccCCCCCCeeee----cCCCCCCCCeEEEEEEcCCCCCCCCCcc---eeeccccCC
Q psy3659 7 TSAKRIQKELAEITLDPPPNCSAGPKGDNPGIPCT----TTRARYALDIFTVKQGLRYHFCLRPERN---ERFWNFSLE 78 (78)
Q Consensus 7 ~~~~Rl~kEl~~l~~~~~~~i~~~p~~~nl~~~~~----P~~tpYegg~f~l~i~fp~~YP~~PP~v---~~~w~~~~~ 78 (78)
+..+||++||..|.....+||+++|++|||+.|+. |.+|+|+|-.|++.+.||.+||++||+| +--||+||.
T Consensus 29 ~V~KRLq~ELm~Lmms~~~gISAFP~~dnlf~WvGtItGp~dTvyegl~yklSl~Fp~~YPy~pP~vkFltpc~HPNVD 107 (175)
T KOG0421|consen 29 SVTKRLQSELMGLMMSNTPGISAFPESDNLFKWVGTITGPKDTVYEGLKYKLSLSFPNNYPYKPPTVKFLTPCFHPNVD 107 (175)
T ss_pred hHHHHHHHHHHHHHhcCCCCcccCcCcCceeEEeeEeeCCCCccccCcEEEEEEecCCCCCCCCCeeEeeccccCCCcc
Confidence 56899999999999999999999999999998543 9999999999999999999999999999 488999974
No 11
>KOG0894|consensus
Probab=99.80 E-value=1.4e-19 Score=122.19 Aligned_cols=66 Identities=21% Similarity=0.212 Sum_probs=61.4
Q ss_pred hhHHHHHHHHHHHHHhcCCCCCeEEccCCCCCCe--eee--cCCCCCCCCeEEEEEEcCCCCCCCCCcce
Q psy3659 5 LSTSAKRIQKELAEITLDPPPNCSAGPKGDNPGI--PCT--TTRARYALDIFTVKQGLRYHFCLRPERNE 70 (78)
Q Consensus 5 ~~~~~~Rl~kEl~~l~~~~~~~i~~~p~~~nl~~--~~~--P~~tpYegg~f~l~i~fp~~YP~~PP~v~ 70 (78)
...|.+||+||++.|+++|.++|.+.|..+||++ .|+ |++|||+||.|+.+|.||.+||++||.|+
T Consensus 3 ~k~a~kRl~keY~~l~k~Pv~~i~A~P~p~nILEWHYvl~GpedTPy~GG~YhGkl~FP~eyP~KPPaI~ 72 (244)
T KOG0894|consen 3 SKAAVKRLQKEYRALCKDPVPYIVARPNPNNILEWHYVLRGPEDTPYYGGYYHGKLIFPPEYPFKPPAIT 72 (244)
T ss_pred chHHHHHHHHHHHHHHhCCchhhccCCCccceeeeEEEeeCCCCCCccCceeeeEEeCCCCCCCCCCeeE
Confidence 3578999999999999999999999999999987 455 99999999999999999999999999993
No 12
>KOG0425|consensus
Probab=99.79 E-value=3e-19 Score=115.60 Aligned_cols=70 Identities=17% Similarity=0.273 Sum_probs=62.8
Q ss_pred HHHHHHHHHHHHhcCCCCCeEEccCCC-CCCe-eee---cCCCCCCCCeEEEEEEcCCCCCCCCCcc---eeeccccC
Q psy3659 8 SAKRIQKELAEITLDPPPNCSAGPKGD-NPGI-PCT---TTRARYALDIFTVKQGLRYHFCLRPERN---ERFWNFSL 77 (78)
Q Consensus 8 ~~~Rl~kEl~~l~~~~~~~i~~~p~~~-nl~~-~~~---P~~tpYegg~f~l~i~fp~~YP~~PP~v---~~~w~~~~ 77 (78)
+..-|+++|++|++.+.+|+.+...++ |++. .+. |.+|+|+||.|+..+.||.+||++||++ +++||+|+
T Consensus 6 a~~ll~~qlk~L~~~pv~gf~~glvd~~dif~WeV~i~gppdTlYeGG~FkA~m~FP~dYP~sPP~~rF~s~mwHPNv 83 (171)
T KOG0425|consen 6 ASLLLLKQLKELQEEPVEGFSVGLVDDSDIFEWEVAIIGPPDTLYEGGFFKAHMKFPQDYPLSPPTFRFTSKMWHPNV 83 (171)
T ss_pred hHHHHHHHHHHHhcCCCCccccccccCCceeEEEEEEEcCCCccccCceeEEEEeCcccCCCCCCceeeehhhcCCCc
Confidence 667789999999999999999987665 8987 332 9999999999999999999999999999 49999996
No 13
>KOG0422|consensus
Probab=99.79 E-value=1.5e-19 Score=115.09 Aligned_cols=73 Identities=12% Similarity=0.202 Sum_probs=62.5
Q ss_pred hHHHHHHHHHHHHHhcCCCCCeEEc-cCCCCCCeee-e--cCCCCCCCCeEEEEEEcCCCCCCCCCcc---eeeccccCC
Q psy3659 6 STSAKRIQKELAEITLDPPPNCSAG-PKGDNPGIPC-T--TTRARYALDIFTVKQGLRYHFCLRPERN---ERFWNFSLE 78 (78)
Q Consensus 6 ~~~~~Rl~kEl~~l~~~~~~~i~~~-p~~~nl~~~~-~--P~~tpYegg~f~l~i~fp~~YP~~PP~v---~~~w~~~~~ 78 (78)
+.+.+||+|||.+|++++...+... .+++|+..|. . |++.||..|.|+++|+||.+|||+||+| +||+|+|+.
T Consensus 1 m~a~~Rl~kEL~dl~~~~~~~~rn~~~~e~nll~wt~llipd~ppY~kgaF~l~I~fp~eYPFKPP~i~f~tkiYHpNVD 80 (153)
T KOG0422|consen 1 MAAPRRLRKELADLQKNKMKFFRNIEVDEANLLKWTGLLIPDKPPYNKGAFRLEIDFPVEYPFKPPKIKFKTKIYHPNVD 80 (153)
T ss_pred CchhHHHHHHHHHHHhccHHHHhhhhcccccceeEEeEecCCCCCccCcceEEEeeCCCCCCCCCCeeeeeeeeccCCCC
Confidence 3578999999999999988876554 4556877633 2 9999999999999999999999999999 699999973
No 14
>smart00212 UBCc Ubiquitin-conjugating enzyme E2, catalytic domain homologues. Proteins destined for proteasome-mediated degradation may be ubiquitinated. Ubiquitination follows conjugation of ubiquitin to a conserved cysteine residue of UBC homologues. This pathway functions in regulating many fundamental processes required for cell viability.TSG101 is one of several UBC homologues that lacks this active site cysteine.
Probab=99.77 E-value=7.4e-19 Score=111.83 Aligned_cols=68 Identities=28% Similarity=0.427 Sum_probs=61.4
Q ss_pred HHHHHHHHHHhcCCCCCeEEccCCC-CCCe-eee---cCCCCCCCCeEEEEEEcCCCCCCCCCcc---eeeccccC
Q psy3659 10 KRIQKELAEITLDPPPNCSAGPKGD-NPGI-PCT---TTRARYALDIFTVKQGLRYHFCLRPERN---ERFWNFSL 77 (78)
Q Consensus 10 ~Rl~kEl~~l~~~~~~~i~~~p~~~-nl~~-~~~---P~~tpYegg~f~l~i~fp~~YP~~PP~v---~~~w~~~~ 77 (78)
+||++|+++++++.++|+.+.+.++ |++. .++ |++|||+||.|++.|.||++||++||+| +++||+++
T Consensus 1 ~Rl~~E~~~~~~~~~~~~~v~~~~~~~~~~w~~~i~gp~~~~y~g~~f~~~l~~p~~yP~~pP~v~f~~~i~Hp~i 76 (145)
T smart00212 1 KRLLKELKELLKDPPPGISAYPVDEDNLLEWTGTIVGPPGTPYEGGIFKLTIEFPPDYPFKPPKVKFITKIYHPNV 76 (145)
T ss_pred ChHHHHHHHHHhCCCCCeEEEECCCCChheEEEEEEcCCCCCcCCcEEEEEEECCcccCCCCCEEEEeCCceEeeE
Confidence 5999999999999999999888765 8877 444 9999999999999999999999999999 49999876
No 15
>KOG0424|consensus
Probab=99.74 E-value=1e-17 Score=107.20 Aligned_cols=72 Identities=13% Similarity=0.184 Sum_probs=64.4
Q ss_pred hHHHHHHHHHHHHHhcCCCCCeEEccCC-----CCCCe-eee---cCCCCCCCCeEEEEEEcCCCCCCCCCcce---eec
Q psy3659 6 STSAKRIQKELAEITLDPPPNCSAGPKG-----DNPGI-PCT---TTRARYALDIFTVKQGLRYHFCLRPERNE---RFW 73 (78)
Q Consensus 6 ~~~~~Rl~kEl~~l~~~~~~~i~~~p~~-----~nl~~-~~~---P~~tpYegg~f~l~i~fp~~YP~~PP~v~---~~w 73 (78)
+.+..||+.|.+.++++.+-|+++.|.. .||+. +|. +.+|+||||.|+|.+.||++||++||+|+ -+.
T Consensus 3 ~~~~~rl~eErk~wrk~hp~gf~AkP~~~~dg~~nl~~Wec~IPG~~~t~wEGg~y~l~v~F~~dyP~~PPkckF~~pl~ 82 (158)
T KOG0424|consen 3 GIALNRLAEERKKWRKDHPFGFYAKPVKNADGTLNLMNWECGIPGKKGTPWEGGLYKLTVNFPDDYPSSPPKCKFKPPLF 82 (158)
T ss_pred chHHHHHHHHHHHHhhcCCCceeeeccCCCCCcceeEEEEeecCCCCCCcCcCceEEEEEeCCccCCCCCCccccCCCCc
Confidence 4579999999999999999999998753 27777 666 89999999999999999999999999993 889
Q ss_pred cccC
Q psy3659 74 NFSL 77 (78)
Q Consensus 74 ~~~~ 77 (78)
|+||
T Consensus 83 HPNV 86 (158)
T KOG0424|consen 83 HPNV 86 (158)
T ss_pred CCCc
Confidence 9987
No 16
>KOG0420|consensus
Probab=99.63 E-value=9.6e-16 Score=100.55 Aligned_cols=73 Identities=22% Similarity=0.341 Sum_probs=56.5
Q ss_pred cchhHHHHHHHHHHHHHhcCCCCCeEE-c---cCCCCCCe-ee-e-cCCCCCCCCeEEEEEEcCCCCCCCCCcc---eee
Q psy3659 3 KALSTSAKRIQKELAEITLDPPPNCSA-G---PKGDNPGI-PC-T-TTRARYALDIFTVKQGLRYHFCLRPERN---ERF 72 (78)
Q Consensus 3 ~~~~~~~~Rl~kEl~~l~~~~~~~i~~-~---p~~~nl~~-~~-~-P~~tpYegg~f~l~i~fp~~YP~~PP~v---~~~ 72 (78)
.+.+.+..||++|+.++.. ++++++ . +++-+... .. + |+++.|+||.|+|++++|+.||++||+| +++
T Consensus 24 ~~~s~a~lrl~~di~elnL--p~t~~~s~~~~~~d~~~~~~elti~PdEGyY~gGkf~F~~~v~~~Yp~~PPKVkCltkV 101 (184)
T KOG0420|consen 24 KKVSAALLRLKKDILELNL--PPTCSLSFPDSPDDLNNLEFELTITPDEGYYQGGKFRFKFKVPNAYPHEPPKVKCLTKV 101 (184)
T ss_pred ccccHHHHHHHhhhhhccC--CCccccccccCCcccccceEEEEEccCcceecCceEEEEEECCCCCCCCCCeeeeeecc
Confidence 3467789999999988874 445543 1 22223323 22 3 9999999999999999999999999999 599
Q ss_pred ccccC
Q psy3659 73 WNFSL 77 (78)
Q Consensus 73 w~~~~ 77 (78)
||+|+
T Consensus 102 ~HPNI 106 (184)
T KOG0420|consen 102 YHPNI 106 (184)
T ss_pred ccCCc
Confidence 99986
No 17
>KOG0416|consensus
Probab=99.62 E-value=9.1e-16 Score=100.64 Aligned_cols=71 Identities=10% Similarity=0.249 Sum_probs=59.2
Q ss_pred hhHHHHHHHHHHHHHhcCCCCCeEEccCCCCCCe-eee---cCCCCCCCCeEEEEEEcCCCCCCCCCcc---eeeccccC
Q psy3659 5 LSTSAKRIQKELAEITLDPPPNCSAGPKGDNPGI-PCT---TTRARYALDIFTVKQGLRYHFCLRPERN---ERFWNFSL 77 (78)
Q Consensus 5 ~~~~~~Rl~kEl~~l~~~~~~~i~~~p~~~nl~~-~~~---P~~tpYegg~f~l~i~fp~~YP~~PP~v---~~~w~~~~ 77 (78)
|++..|||..|+..|... +..+...++++.+ .+. |.+|||+||+|+++|++|++||++.|.| +||.|+|+
T Consensus 1 ms~~~rRid~Dv~KL~~s---~yeV~~ind~m~ef~V~f~GP~ds~YegGvWkv~V~lPd~YP~KSPSIGFvnKIfHPNI 77 (189)
T KOG0416|consen 1 MSSGKRRIDTDVMKLLMS---DYEVTIINDGMQEFYVKFHGPKDSPYEGGVWKVRVELPDNYPFKSPSIGFVNKIFHPNI 77 (189)
T ss_pred CCCcccchhhHHHHHHhc---CCeEEEecCcccEEEEEeeCCCCCcccCceEEEEEECCCCCCCCCCcccceeeccCCCc
Confidence 456789999999998765 3455556676776 332 9999999999999999999999999999 69999997
Q ss_pred C
Q psy3659 78 E 78 (78)
Q Consensus 78 ~ 78 (78)
+
T Consensus 78 D 78 (189)
T KOG0416|consen 78 D 78 (189)
T ss_pred h
Confidence 4
No 18
>KOG0427|consensus
Probab=99.61 E-value=2.1e-15 Score=95.71 Aligned_cols=64 Identities=20% Similarity=0.274 Sum_probs=57.6
Q ss_pred hhHHHHHHHHHHHHHhcCCCCCeEEccCCCCCCeeee----cCCCCCCCCeEEEEEEcCCCCCCCCCcc
Q psy3659 5 LSTSAKRIQKELAEITLDPPPNCSAGPKGDNPGIPCT----TTRARYALDIFTVKQGLRYHFCLRPERN 69 (78)
Q Consensus 5 ~~~~~~Rl~kEl~~l~~~~~~~i~~~p~~~nl~~~~~----P~~tpYegg~f~l~i~fp~~YP~~PP~v 69 (78)
+..+.+|||||+.+|+.++|.|+... ..|||..|.+ .++|.|+|.+|.|.++||+.|||+.|+|
T Consensus 13 s~~at~RLqKEl~e~q~~pP~G~~~~-v~dnlqqWii~v~Ga~GTLYa~e~~qLq~~F~~~YP~esPqV 80 (161)
T KOG0427|consen 13 SKIATNRLQKELSEWQNNPPTGFKHR-VTDNLQQWIIEVTGAPGTLYANETYQLQVEFPEHYPMESPQV 80 (161)
T ss_pred HHHHHHHHHHHHHHHhcCCCCcceee-cccchheeEEEEecCCceeecCcEEEEEEecCCCCCCCCCeE
Confidence 45689999999999999999999887 5678877443 8999999999999999999999999998
No 19
>KOG0428|consensus
Probab=99.58 E-value=2.9e-15 Score=103.30 Aligned_cols=65 Identities=23% Similarity=0.267 Sum_probs=59.1
Q ss_pred chhHHHHHHHHHHHHHhcCCCCCeEEccCCCCCCe--eee--cCCCCCCCCeEEEEEEcCCCCCCCCCcc
Q psy3659 4 ALSTSAKRIQKELAEITLDPPPNCSAGPKGDNPGI--PCT--TTRARYALDIFTVKQGLRYHFCLRPERN 69 (78)
Q Consensus 4 ~~~~~~~Rl~kEl~~l~~~~~~~i~~~p~~~nl~~--~~~--P~~tpYegg~f~l~i~fp~~YP~~PP~v 69 (78)
-.+++.+||+||.++|+ ++...+.+.|.+|||++ +.+ |.+|-|+||+|+.+|.||.||||+||.+
T Consensus 8 ~KnpaVkRlmkEa~El~-~Ptd~yha~plEdNlFEWhFtiRGp~dtdFeGGiYHGRI~lPadYPmKPPs~ 76 (314)
T KOG0428|consen 8 LKNPAVKRLMKEAAELK-DPTDHYHAQPLEDNLFEWHFTIRGPPDTDFEGGIYHGRIVLPADYPMKPPSI 76 (314)
T ss_pred ccCHHHHHHHHHHHHhc-CchhhhhhccchhceeeEEEEeeCCCCCCccCceeeeeEecCCCCCCCCCeE
Confidence 35689999999999998 78788889999999998 334 9999999999999999999999999998
No 20
>KOG0423|consensus
Probab=99.54 E-value=5.1e-15 Score=97.70 Aligned_cols=71 Identities=18% Similarity=0.299 Sum_probs=64.9
Q ss_pred HHHHHHHHHHHHHhcCCCCCeEEccCCCCCCe-eee---cCCCCCCCCeEEEEEEcCCCCCCCCCcc---eeeccccC
Q psy3659 7 TSAKRIQKELAEITLDPPPNCSAGPKGDNPGI-PCT---TTRARYALDIFTVKQGLRYHFCLRPERN---ERFWNFSL 77 (78)
Q Consensus 7 ~~~~Rl~kEl~~l~~~~~~~i~~~p~~~nl~~-~~~---P~~tpYegg~f~l~i~fp~~YP~~PP~v---~~~w~~~~ 77 (78)
...+-++||++.|..+++.||.+.++++|+.. .+. |.+|||++|.|+.++.+..|||++||+- ++|.|+||
T Consensus 10 ~vik~~~kEl~~l~~~PPdGIKV~~NeeD~tdiqa~IeGP~GTPYa~GlFRmKL~L~kDFP~sPPKgYFlTKIFHPNV 87 (223)
T KOG0423|consen 10 NVIKQLAKELKSLDESPPDGIKVVVNEEDFTDIQADIEGPVGTPYANGLFRMKLALSKDFPHSPPKGYFLTKIFHPNV 87 (223)
T ss_pred HHHHHHHHHHHhcccCCCCceEEecChHHhHHHHhhccCCCCCccccceeeehhhhcCCCCCCCCcceeeeeeccCCc
Confidence 46788999999999999999999999998887 332 9999999999999999999999999998 59999987
No 21
>KOG0895|consensus
Probab=98.81 E-value=1.1e-08 Score=81.17 Aligned_cols=64 Identities=17% Similarity=0.210 Sum_probs=57.0
Q ss_pred hHHHHHHHHHHHHHhcCCCCCeEEccCCCCCCe---eee-cCCCCCCCCeEEEEEEcCCCCCCCCCcc
Q psy3659 6 STSAKRIQKELAEITLDPPPNCSAGPKGDNPGI---PCT-TTRARYALDIFTVKQGLRYHFCLRPERN 69 (78)
Q Consensus 6 ~~~~~Rl~kEl~~l~~~~~~~i~~~p~~~nl~~---~~~-P~~tpYegg~f~l~i~fp~~YP~~PP~v 69 (78)
....+|+++|++.+.++.++++.+.+.+..+.. ..+ |+++||++|.|.+.|.||..||..||.|
T Consensus 281 ~~~skrv~ke~~llskdlpEgifvrp~e~RMd~I~alIig~~gtPy~~glf~Fdiq~P~~yPa~pp~v 348 (1101)
T KOG0895|consen 281 KNWSKKVAKELKLLSKDLPEGIFVRPDEGRMDLIKALIIGPDGTPYADGLFLFDIQFPDTYPAVPPHV 348 (1101)
T ss_pred hhhHHHHHHHhhhhcccCCCCccccccccccceeeeEEecCCCCCCcCCceeeEeecCCCCCCCCcee
Confidence 457899999999999999999999988775543 333 9999999999999999999999999999
No 22
>KOG0895|consensus
Probab=98.66 E-value=3.1e-08 Score=78.74 Aligned_cols=62 Identities=16% Similarity=0.121 Sum_probs=51.9
Q ss_pred HHHHHHHHHHHHhcCCCCCeEEccCCC--CCCe-eee-cCCCCCCCCeEEEEEEcCCCCCCCCCcc
Q psy3659 8 SAKRIQKELAEITLDPPPNCSAGPKGD--NPGI-PCT-TTRARYALDIFTVKQGLRYHFCLRPERN 69 (78)
Q Consensus 8 ~~~Rl~kEl~~l~~~~~~~i~~~p~~~--nl~~-~~~-P~~tpYegg~f~l~i~fp~~YP~~PP~v 69 (78)
.++..+.|.+.|..+.+.+|.+...++ ||+. ..+ |.+|||++|.|.|.|.||++||..||.|
T Consensus 852 ~~~~~~~~~~~~~~~~~~~~~vr~~e~r~d~~~~~~~g~~~tpy~~~~f~fd~~~~~~yp~~pp~~ 917 (1101)
T KOG0895|consen 852 WAKKVQTEWKILPLSLPSGIFVRAYEDRMDLLRAVIVGAAGTPYQDGLFFFDFQFPQDYPSSPPLV 917 (1101)
T ss_pred HHHHHHHHHHhhhccCCCceEEEechHHHHHHHHHhhCCCCCccccceEEEEeecCCCCCCCCCce
Confidence 344556677777778889998887776 7777 444 9999999999999999999999999999
No 23
>KOG0429|consensus
Probab=98.52 E-value=3.9e-07 Score=62.41 Aligned_cols=65 Identities=12% Similarity=0.017 Sum_probs=53.0
Q ss_pred HHHHHHHHHhcCCCCCeEEccCCCC-CCeeee--cCCCCCCCCeEEEEEEcCCCCC--CCCCcc---eeeccc
Q psy3659 11 RIQKELAEITLDPPPNCSAGPKGDN-PGIPCT--TTRARYALDIFTVKQGLRYHFC--LRPERN---ERFWNF 75 (78)
Q Consensus 11 Rl~kEl~~l~~~~~~~i~~~p~~~n-l~~~~~--P~~tpYegg~f~l~i~fp~~YP--~~PP~v---~~~w~~ 75 (78)
-|..|+..+.+.+.+||++.|.-.| |++.++ -..+.|+||+|+++|-+|++|| .+-|+| +.+-|+
T Consensus 23 ~llAEf~lV~~ekL~gIyviPSyan~l~WFGViFvr~GiyaggVFRFtIliPdnfPdd~dlPrvvF~q~vfHP 95 (258)
T KOG0429|consen 23 ALLAEFVLVCREKLDGIYVIPSYANKLLWFGVIFVRKGIYAGGVFRFTILIPDNFPDDSDLPRVVFEQSVFHP 95 (258)
T ss_pred HHHHHHHHHHhccCCceEEcccccccceEEEEEEEecccccCceEEEEEEcCccCCCcCCCCeEEeecccccc
Confidence 4778888999899999999997665 566554 8999999999999999999999 556777 345554
No 24
>KOG0896|consensus
Probab=97.89 E-value=3.2e-05 Score=49.31 Aligned_cols=61 Identities=20% Similarity=0.139 Sum_probs=43.8
Q ss_pred HHHHHHHHHHHhcCCCCC-eEEcc-CCCCCCe--ee---e-cCCCCCCCCeEEEEEEcCCCCCCCCCcc
Q psy3659 9 AKRIQKELAEITLDPPPN-CSAGP-KGDNPGI--PC---T-TTRARYALDIFTVKQGLRYHFCLRPERN 69 (78)
Q Consensus 9 ~~Rl~kEl~~l~~~~~~~-i~~~p-~~~nl~~--~~---~-P~~tpYegg~f~l~i~fp~~YP~~PP~v 69 (78)
.-||..|+..=++.--++ ++-.. +++|++- |. + |..|+||+-+|.|+|....+||-.||.|
T Consensus 7 nfrlleele~g~kg~g~~~~s~gl~d~~dmtl~rWtg~IiGPprT~yEnRiysLKI~Cgp~YPe~PP~v 75 (138)
T KOG0896|consen 7 NFRLLEELEEGEKGIGDGTVSWGLEDDDDMTLTRWTGTIIGPPRTMYENRIYSLKIECGPKYPELPPTV 75 (138)
T ss_pred chhhhhhhccccccccCceeeccccCCCcceEeeeccceeCCCCcccccceeeEEEecCCCCCCCCcee
Confidence 456777777665554343 22222 2345532 33 2 9999999999999999999999999999
No 25
>PF05773 RWD: RWD domain; InterPro: IPR006575 The RWD eukaryotic domain is found in RING finger (IPR001841 from INTERPRO) and WD repeat (IPR001680 from INTERPRO) containing proteins and DEXDc-like helicase (IPR001410 from INTERPRO) subfamily related to the ubiquitin-conjugating enzymes domain (IPR000608 from INTERPRO). ; GO: 0005515 protein binding; PDB: 2EBM_A 2EBK_A 2DAX_A 2DAW_A 2DAY_A 2DMF_A 1UKX_A 2YZ0_A.
Probab=95.82 E-value=0.028 Score=33.20 Aligned_cols=60 Identities=10% Similarity=0.057 Sum_probs=33.4
Q ss_pred HHHHHHHHHHHhcCCCCCeEEccCCCCC--Ceeee----cCCCCCCCCeEEEEEEcCCCCCCCCCcc
Q psy3659 9 AKRIQKELAEITLDPPPNCSAGPKGDNP--GIPCT----TTRARYALDIFTVKQGLRYHFCLRPERN 69 (78)
Q Consensus 9 ~~Rl~kEl~~l~~~~~~~i~~~p~~~nl--~~~~~----P~~tpYegg~f~l~i~fp~~YP~~PP~v 69 (78)
..+...|+..|..--+..+ ......+- ....+ ...+.-....+.|.|.||++||..+|.+
T Consensus 3 ~e~~~~EieaL~sIy~~~~-~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~p~~YP~~~P~i 68 (113)
T PF05773_consen 3 EEQQEEEIEALQSIYPDDF-IEIESKSPPSLEVKLDESSSSFESSSFPSVTLHFTLPPGYPESPPKI 68 (113)
T ss_dssp HHHHHHHHHHHHHHSSSSE-SSSTSSSSEEEEEEE--CEECCTTTTSEEEEEEEEE-SSTTSS--EE
T ss_pred HHHHHHHHHHHHHHcCCCc-cccccCCCCceeeeecccccccccccceeEEEEEeCCCcCCCcCCEE
Confidence 4466778888876444433 11111111 11111 2344444568999999999999999998
No 26
>smart00591 RWD domain in RING finger and WD repeat containing proteins and DEXDc-like helicases subfamily related to the UBCc domain.
Probab=95.26 E-value=0.081 Score=30.98 Aligned_cols=21 Identities=10% Similarity=-0.051 Sum_probs=18.9
Q ss_pred CCeEEEEEEcCCCCCCCCCcc
Q psy3659 49 LDIFTVKQGLRYHFCLRPERN 69 (78)
Q Consensus 49 gg~f~l~i~fp~~YP~~PP~v 69 (78)
.-.+.|.+.||.+||..+|.+
T Consensus 40 ~~~~~l~~~~p~~YP~~~P~i 60 (107)
T smart00591 40 YVSLTLQVKLPENYPDEAPPI 60 (107)
T ss_pred ceEEEEEEECCCCCCCCCCCe
Confidence 346899999999999999998
No 27
>PF14461 Prok-E2_B: Prokaryotic E2 family B
Probab=93.75 E-value=0.065 Score=33.60 Aligned_cols=22 Identities=18% Similarity=0.158 Sum_probs=21.0
Q ss_pred CCCeEEEEEEcCCCCCCCCCcc
Q psy3659 48 ALDIFTVKQGLRYHFCLRPERN 69 (78)
Q Consensus 48 egg~f~l~i~fp~~YP~~PP~v 69 (78)
.++.+.+.|.||++||..||.|
T Consensus 34 ~~~~~~l~l~~p~~FP~~pp~v 55 (133)
T PF14461_consen 34 GGGPFPLRLVFPDDFPYLPPRV 55 (133)
T ss_pred CCeEEEEEEEECCcccCcCCEE
Confidence 6889999999999999999999
No 28
>PF08694 UFC1: Ubiquitin-fold modifier-conjugating enzyme 1; InterPro: IPR014806 Ubiquitin-like (UBL) post-translational modifiers are covalently linked to most, if not all, target protein(s) through an enzymatic cascade analogous to ubiquitylation, consisting of E1 (activating), E2 (conjugating), and E3 (ligating) enzymes. Ubiquitin-fold modifier 1 (Ufm1) a ubiquitin-like protein is activated by a novel E1-like enzyme, Uba5, by forming a high-energy thioester bond. Activated Ufm1 is then transferred to its cognate E2-like enzyme, Ufc1, in a similar thioester linkage. This family represents the E2-like enzyme [].; PDB: 2Z6P_A 2K07_A 2Z6O_A 3EVX_D 3KPA_A.
Probab=93.67 E-value=0.28 Score=31.91 Aligned_cols=59 Identities=7% Similarity=0.017 Sum_probs=31.1
Q ss_pred HHHHHHHHHHHHHhcCCCCCeEEc-cCCCCCCe-eeecCCCCCCC----------CeEEEEEEcCCCCCCCCCcc
Q psy3659 7 TSAKRIQKELAEITLDPPPNCSAG-PKGDNPGI-PCTTTRARYAL----------DIFTVKQGLRYHFCLRPERN 69 (78)
Q Consensus 7 ~~~~Rl~kEl~~l~~~~~~~i~~~-p~~~nl~~-~~~P~~tpYeg----------g~f~l~i~fp~~YP~~PP~v 69 (78)
.-..||..|++.|-+. +... ..+++.+. ..-+++|-|.| ..|.+++++|..||..||.+
T Consensus 24 ~W~~RLKEEy~aLI~Y----v~~nK~~DndWF~lesn~~GT~W~GkCW~~h~l~kYEF~~eFdIP~tYP~t~pEi 94 (161)
T PF08694_consen 24 LWVQRLKEEYQALIKY----VENNKENDNDWFRLESNKEGTRWFGKCWYIHNLLKYEFDLEFDIPVTYPTTAPEI 94 (161)
T ss_dssp HHHHHHHHHHHHHHHH----HHHHHHTT---EEEEE-TTSSEEEEEEEEEETTEEEEEEEEEE--TTTTTS----
T ss_pred HHHHHHHHHHHHHHHH----HHhcccccCCeEEeccCCCCCccccEEEEEeeeeeEEEeeecCCCccCCCCCcce
Confidence 3578999999987542 1110 12223333 22256666554 25789999999999999988
No 29
>PF05743 UEV: UEV domain; InterPro: IPR008883 The N-terminal ubiquitin E2 variant (UEV) domain is ~145 amino acid residues in length and shows significant sequence similarity to E2 ubiquitin ligases but is unable to catalyze ubiquitin transfer as it lacks the active site cysteine that forms the transient thioester bond with the C terminus of ubiquitin (Ub). Nevertheless, at least some UEVs have retained the ability to bind Ub, and appear to act either as cofactors in ubiquitylation reactions, or as ubiquitin sensors. UEV domains also frequently contain other protein recognition motifs, and may generally serve to couple protein and Ub binding functions to facilitate the formation of multiprotein complexes [, , , ]. The UEV domain consists of a twisted four-stranded antiparallel beta-sheet having a meander topology, with four alpha-helices packed against one face of the sheet. The UEV fold is generally similar to canonical E2 ligases in the hydrophobic core and 'active site' regions, but differs significantly at both its N- and C-termini [, ]. The UEV domain is found in the eukaryotic tumour susceptibility gene 101 protein (TSG101). Altered transcripts of this gene have been detected in sporadic breast cancers and many other Homo sapiens malignancies. However, the involvement of this gene in neoplastic transformation and tumourigenesis is still elusive. TSG101 is required for normal cell function of embryonic and adult tissues but this gene is not a tumour suppressor for sporadic forms of breast cancer [].; GO: 0006464 protein modification process, 0015031 protein transport; PDB: 3R3Q_A 3R42_A 1UZX_A 3OBX_A 3OBS_A 3P9H_A 2F0R_A 3P9G_A 3OBQ_A 3OBU_A ....
Probab=92.08 E-value=0.16 Score=31.57 Aligned_cols=23 Identities=13% Similarity=0.124 Sum_probs=18.6
Q ss_pred CCCCeE--EEEEEcCCCCCCCCCcc
Q psy3659 47 YALDIF--TVKQGLRYHFCLRPERN 69 (78)
Q Consensus 47 Yegg~f--~l~i~fp~~YP~~PP~v 69 (78)
|+|..| -+.|-+|.+||..||.|
T Consensus 43 y~g~~y~iPi~Iwlp~~yP~~pP~v 67 (121)
T PF05743_consen 43 YKGSTYNIPICIWLPENYPYSPPIV 67 (121)
T ss_dssp CTTCCEEEEEEEEE-TTTTTSSSEE
T ss_pred cCCcccceeEEEEEcccCCCCCCEE
Confidence 566555 78999999999999998
No 30
>KOG3357|consensus
Probab=90.02 E-value=0.46 Score=30.59 Aligned_cols=60 Identities=10% Similarity=0.036 Sum_probs=39.1
Q ss_pred HHHHHHHHHHHHHhcCCCCCeEEccCCCCCCe-eeecCCCCCCC----------CeEEEEEEcCCCCCCCCCcc
Q psy3659 7 TSAKRIQKELAEITLDPPPNCSAGPKGDNPGI-PCTTTRARYAL----------DIFTVKQGLRYHFCLRPERN 69 (78)
Q Consensus 7 ~~~~Rl~kEl~~l~~~~~~~i~~~p~~~nl~~-~~~P~~tpYeg----------g~f~l~i~fp~~YP~~PP~v 69 (78)
.-..||..|++.|-+.-..+ ...++|.+. ..-+++|-|-| ..|.+++.+|-.||..+|.+
T Consensus 27 ~wvqrlkeey~sli~yvqnn---k~~d~dwfrlesn~egtrwfgkcwy~hnllkyefdvefdipityp~tapei 97 (167)
T KOG3357|consen 27 LWVQRLKEEYQSLIAYVQNN---KSNDNDWFRLESNKEGTRWFGKCWYVHNLLKYEFDVEFDIPITYPTTAPEI 97 (167)
T ss_pred HHHHHHHHHHHHHHHHHHhC---cccCCcceEeccCccccceehhhhHhhhhhhheeeeeeccccccCCCCccc
Confidence 34789999999886431111 011233333 22277777765 35788999999999999987
No 31
>KOG0897|consensus
Probab=85.09 E-value=0.71 Score=28.96 Aligned_cols=18 Identities=11% Similarity=0.060 Sum_probs=16.1
Q ss_pred EEEEEEcCCCCCCCCCcc
Q psy3659 52 FTVKQGLRYHFCLRPERN 69 (78)
Q Consensus 52 f~l~i~fp~~YP~~PP~v 69 (78)
-.+.+.|+++||+.||-+
T Consensus 13 ill~~~f~~~fp~~ppf~ 30 (122)
T KOG0897|consen 13 ILLLDIFDDNFPFMPPFP 30 (122)
T ss_pred eEeeeecccCCCCCCCcc
Confidence 467889999999999988
No 32
>PF14462 Prok-E2_E: Prokaryotic E2 family E
Probab=84.30 E-value=1.7 Score=27.38 Aligned_cols=27 Identities=7% Similarity=0.011 Sum_probs=24.1
Q ss_pred CCCCCCCCeEEEEEEcCCCCCCCCCcc
Q psy3659 43 TRARYALDIFTVKQGLRYHFCLRPERN 69 (78)
Q Consensus 43 ~~tpYegg~f~l~i~fp~~YP~~PP~v 69 (78)
..+.|+...=.+-|.+|..||..+|.+
T Consensus 35 P~G~y~~~~~dili~iP~gYP~~~~Dm 61 (122)
T PF14462_consen 35 PEGKYNHNEVDILILIPPGYPDAPLDM 61 (122)
T ss_pred CCCccCccceEEEEECCCCCCCCCCCc
Confidence 455699999999999999999999876
No 33
>PF09765 WD-3: WD-repeat region; InterPro: IPR019162 This entry represents a region of approximately 100 residues containing three WD repeats and six cysteine residues- possibly as three cysteine-bridges associated with FancL. FancL is the ubiquitin ligase protein that mediates ubiquitination of FancD2, a key step in the DNA damage pathway [, ]. FancL belongs to the multisubunit Fanconi anemia (FA) complex, which is composed of subunits: FancA, FancB, FancC, FancE, FancF, FancG, FancL/PHF9 and FancM. The WD repeats are required for interaction of FancL with other subunits of the FA complex []. In humans defects in FancL are a cause of Fanconi anemia (FA) [MIM:227650], and the FA complex is not found in FA patients. FA is a genetically heterogeneous, autosomal recessive disorder characterised by progressive pancytopenia, a diverse assortment of congenital malformations, and a predisposition to the development of malignancies. At the cellular level it is associated with hypersensitivity to DNA-damaging agents, chromosomal instability (increased chromosome breakage), and defective DNA repair.; PDB: 3ZQS_B 3K1L_A.
Probab=83.22 E-value=1.8 Score=30.81 Aligned_cols=56 Identities=13% Similarity=0.086 Sum_probs=35.4
Q ss_pred HHHHHHHHHHHHhcCCCCCeEEccCCCCCCe-eeecCCCCCCCCeEEEEEEcCCCCCCCCCcc
Q psy3659 8 SAKRIQKELAEITLDPPPNCSAGPKGDNPGI-PCTTTRARYALDIFTVKQGLRYHFCLRPERN 69 (78)
Q Consensus 8 ~~~Rl~kEl~~l~~~~~~~i~~~p~~~nl~~-~~~P~~tpYegg~f~l~i~fp~~YP~~PP~v 69 (78)
...+|.+|+.++..+..-.+. .++++.. ...-.++- ..-.++|.++.+||+.+|.+
T Consensus 100 ~ys~ll~EIe~IGW~kl~~i~---~d~~ls~i~l~~~D~~---R~H~l~l~l~~~yp~~~p~~ 156 (291)
T PF09765_consen 100 YYSNLLKEIEAIGWDKLVQIQ---FDDDLSTIKLKIFDSS---RQHYLELKLPSNYPFEPPSC 156 (291)
T ss_dssp GC-CHHHHHHHHHCGCCEEEE---E-CCCSEEEEEEETTC---EEEEEEEETTTTTTTSEEEE
T ss_pred HHHHHHHHHHHhccccceEEe---cCCCccEEEEEEEcCC---ceEEEEEEECCCCCCCCcee
Confidence 456788888888766432221 1455655 33322222 46779999999999999987
No 34
>KOG4018|consensus
Probab=79.97 E-value=7.2 Score=26.86 Aligned_cols=19 Identities=11% Similarity=-0.033 Sum_probs=18.4
Q ss_pred eEEEEEEcCCCCCCCCCcc
Q psy3659 51 IFTVKQGLRYHFCLRPERN 69 (78)
Q Consensus 51 ~f~l~i~fp~~YP~~PP~v 69 (78)
.+.|.++++.+||-.+|-+
T Consensus 50 ~~~l~~s~tEnYPDe~Pli 68 (215)
T KOG4018|consen 50 SFILVFSLTENYPDEAPLI 68 (215)
T ss_pred cEEEEEEccCCCCCCCcce
Confidence 8999999999999999998
No 35
>smart00340 HALZ homeobox associated leucin zipper.
Probab=78.75 E-value=2.1 Score=22.28 Aligned_cols=18 Identities=28% Similarity=0.427 Sum_probs=14.2
Q ss_pred hHHHHHHHHHHHHHhcCC
Q psy3659 6 STSAKRIQKELAEITLDP 23 (78)
Q Consensus 6 ~~~~~Rl~kEl~~l~~~~ 23 (78)
+.-.+||++|+++|..-.
T Consensus 18 teeNrRL~ke~~eLralk 35 (44)
T smart00340 18 TEENRRLQKEVQELRALK 35 (44)
T ss_pred HHHHHHHHHHHHHHHhcc
Confidence 445799999999998643
No 36
>PF07443 HARP: HepA-related protein (HARP); InterPro: IPR010003 This entry represents a conserved region approximately 60 residues long within eukaryotic HepA-related protein (HARP). This exhibits single-stranded DNA-dependent ATPase activity, and is ubiquitously expressed in human and mouse tissues []. Family members may contain more than one copy of this region.; GO: 0004386 helicase activity, 0005524 ATP binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0016568 chromatin modification, 0005634 nucleus
Probab=69.15 E-value=1.2 Score=24.35 Aligned_cols=9 Identities=78% Similarity=1.335 Sum_probs=7.6
Q ss_pred eeeccccCC
Q psy3659 70 ERFWNFSLE 78 (78)
Q Consensus 70 ~~~w~~~~~ 78 (78)
+|.|+|+||
T Consensus 27 Tr~W~F~L~ 35 (55)
T PF07443_consen 27 TRKWNFSLE 35 (55)
T ss_pred ceeeeeeHH
Confidence 599999985
No 37
>PF06113 BRE: Brain and reproductive organ-expressed protein (BRE); InterPro: IPR010358 This family consists of several eukaryotic brain and reproductive organ-expressed (BRE) proteins. BRE is a putative stress-modulating gene, found able to down-regulate TNF-alpha-induced-NF-kappaB activation upon over expression. A total of six isoforms are produced by alternative splicing predominantly at either end of the gene. Compared to normal cells, immortalised human cell lines uniformly express higher levels of BRE. Peripheral blood monocytes respond to LPS by down-regulating the expression of all the BRE isoforms. It is thought that the function of BRE and its isoforms is to regulate peroxisomal activities [].
Probab=63.81 E-value=10 Score=27.72 Aligned_cols=25 Identities=20% Similarity=0.304 Sum_probs=22.4
Q ss_pred eEEEEEEcCCCCCCCCCcc--eeeccc
Q psy3659 51 IFTVKQGLRYHFCLRPERN--ERFWNF 75 (78)
Q Consensus 51 ~f~l~i~fp~~YP~~PP~v--~~~w~~ 75 (78)
.|-+.|.+|..||.+.|.+ +-++||
T Consensus 307 ~flvHi~Lp~~FP~~qP~ltlqS~yHf 333 (333)
T PF06113_consen 307 TFLVHISLPIQFPKDQPSLTLQSVYHF 333 (333)
T ss_pred EEEEEEeccCCCCCcCCeEEEEeeccC
Confidence 5899999999999999999 478886
No 38
>PF14824 Sirohm_synth_M: Sirohaem biosynthesis protein central; PDB: 1KYQ_B.
Probab=49.55 E-value=18 Score=17.35 Aligned_cols=18 Identities=28% Similarity=0.410 Sum_probs=11.5
Q ss_pred CcchhH-HHHHHHHHHHHH
Q psy3659 2 SKALST-SAKRIQKELAEI 19 (78)
Q Consensus 2 ~~~~~~-~~~Rl~kEl~~l 19 (78)
|+++++ .+++|.+|+++.
T Consensus 11 TnG~sP~la~~iR~~ie~~ 29 (30)
T PF14824_consen 11 TNGKSPRLARLIRKEIERL 29 (30)
T ss_dssp ESSS-HHHHHHHHHHHHHH
T ss_pred CCCCChHHHHHHHHHHHHh
Confidence 455555 577788888764
No 39
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=49.47 E-value=8.5 Score=24.91 Aligned_cols=19 Identities=16% Similarity=0.200 Sum_probs=15.4
Q ss_pred eEEEEEEcCCCCCCCCCcc
Q psy3659 51 IFTVKQGLRYHFCLRPERN 69 (78)
Q Consensus 51 ~f~l~i~fp~~YP~~PP~v 69 (78)
.|+-+-.+|.|||+.+|.-
T Consensus 103 ~YR~KW~LP~dYPMvAPnY 121 (148)
T COG4957 103 EYRAKWGLPPDYPMVAPNY 121 (148)
T ss_pred HHHHhcCCCCCCCccchHH
Confidence 3566778999999999964
No 40
>KOG4445|consensus
Probab=48.78 E-value=18 Score=26.45 Aligned_cols=27 Identities=7% Similarity=0.117 Sum_probs=22.1
Q ss_pred cCCCCCCCCeEEEEEEcCCCCCCCCCcce
Q psy3659 42 TTRARYALDIFTVKQGLRYHFCLRPERNE 70 (78)
Q Consensus 42 P~~tpYegg~f~l~i~fp~~YP~~PP~v~ 70 (78)
-+++-|. -+.|.+..+..||...|+|+
T Consensus 39 edesqyv--cvtl~m~vs~gYP~esPtvt 65 (368)
T KOG4445|consen 39 EDESQYV--CVTLEMTVSEGYPAESPTVT 65 (368)
T ss_pred cccceeE--EEEEEEecCCCCCCcCCceE
Confidence 3555553 68999999999999999994
No 41
>PF12065 DUF3545: Protein of unknown function (DUF3545); InterPro: IPR021932 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 60 to 77 amino acids in length. This protein has two completely conserved residues (R and L) that may be functionally important.
Probab=48.00 E-value=15 Score=20.32 Aligned_cols=16 Identities=25% Similarity=0.459 Sum_probs=12.4
Q ss_pred HHHHHHHHHHHHhcCC
Q psy3659 8 SAKRIQKELAEITLDP 23 (78)
Q Consensus 8 ~~~Rl~kEl~~l~~~~ 23 (78)
-.+||++||++|.-+.
T Consensus 35 Dr~rL~kEL~d~D~~~ 50 (59)
T PF12065_consen 35 DRQRLRKELQDMDMCF 50 (59)
T ss_pred HHHHHHHHHHHccccc
Confidence 3679999999997543
No 42
>KOG0309|consensus
Probab=47.00 E-value=20 Score=29.50 Aligned_cols=22 Identities=9% Similarity=0.007 Sum_probs=17.7
Q ss_pred CCCeE-EEEEEcCCCCCCCCCcc
Q psy3659 48 ALDIF-TVKQGLRYHFCLRPERN 69 (78)
Q Consensus 48 egg~f-~l~i~fp~~YP~~PP~v 69 (78)
.|.+| ++.|.||.+||.++|-+
T Consensus 463 d~y~flrm~V~FP~nYPn~a~P~ 485 (1081)
T KOG0309|consen 463 DDYIFLRMLVKFPANYPNNAAPS 485 (1081)
T ss_pred ccceeEEEEEeccccCCCCCCCc
Confidence 45566 89999999999886654
No 43
>cd03459 3,4-PCD Protocatechuate 3,4-dioxygenase (3,4-PCD) catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and beta-subunit and an Fe3+ ion bound in the beta-subunit at the alpha-beta-subunit interface. 3,4-PCD is a member of the aromatic dioxygenases which are non-heme iron intradiol-cleaving enzymes that break the C1-C2 bond and utilize Fe3+.
Probab=46.96 E-value=19 Score=23.29 Aligned_cols=21 Identities=5% Similarity=-0.113 Sum_probs=19.3
Q ss_pred CCeEEEEEEcCCCCC-----CCCCcc
Q psy3659 49 LDIFTVKQGLRYHFC-----LRPERN 69 (78)
Q Consensus 49 gg~f~l~i~fp~~YP-----~~PP~v 69 (78)
.|.|.|+-.+|--|| ..||.|
T Consensus 72 ~G~~~f~Ti~Pg~Y~~p~~~~R~~HI 97 (158)
T cd03459 72 DGRYRFRTIKPGAYPWRNGAWRAPHI 97 (158)
T ss_pred CCcEEEEEECCCCcCCCCCCCcCCEE
Confidence 489999999999999 899998
No 44
>cd03457 intradiol_dioxygenase_like Intradiol dioxygenase supgroup. Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. They break the catechol C1-C2 bond and utilize Fe3+, as opposed to the extradiol-cleaving enzymes which break the C2-C3 or C1-C6 bond and utilize Fe2+ and Mn+. The family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases. The specific function of this subgroup is unknown.
Probab=46.87 E-value=19 Score=23.99 Aligned_cols=26 Identities=12% Similarity=-0.066 Sum_probs=21.7
Q ss_pred CCCeEEEEEEcCCCCCCCCCcc-eeec
Q psy3659 48 ALDIFTVKQGLRYHFCLRPERN-ERFW 73 (78)
Q Consensus 48 egg~f~l~i~fp~~YP~~PP~v-~~~w 73 (78)
+.|.|.|+=.+|--||..||.| -+++
T Consensus 85 ~~G~~~F~TI~PG~Y~gR~~HIH~~V~ 111 (188)
T cd03457 85 ADGVVTFTTIFPGWYPGRATHIHFKVH 111 (188)
T ss_pred CCccEEEEEECCCCCCCCCceEEEEEE
Confidence 3589999999999999999999 2444
No 45
>cd00421 intradiol_dioxygenase Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear non-heme iron enzymes that catalyze the oxygenation of catecholates to aliphatic acids via the cleavage of aromatic rings. The members are intradiol-cleaving enzymes which break the catechol C1-C2 bond and utilize Fe3+, as opposed to the extradiol-cleaving enzymes which break the C2-C3 or C1-C6 bond and utilize Fe2+ and Mn+. Catechol 1,2-dioxygenases are mostly homodimers with one catalytic ferric ion per monomer. Protocatechuate 3,4-dioxygenases form more diverse oligomers.
Probab=46.25 E-value=39 Score=21.32 Aligned_cols=27 Identities=7% Similarity=-0.014 Sum_probs=22.2
Q ss_pred CCeEEEEEEcCCCCC-CCCCcce-eeccc
Q psy3659 49 LDIFTVKQGLRYHFC-LRPERNE-RFWNF 75 (78)
Q Consensus 49 gg~f~l~i~fp~~YP-~~PP~v~-~~w~~ 75 (78)
.|.|.+.-.+|--|| ..||.|- ++++.
T Consensus 65 ~G~y~f~ti~Pg~Y~~~R~~HiH~~V~~~ 93 (146)
T cd00421 65 DGRYRFRTIKPGPYPIGRPPHIHFKVFAP 93 (146)
T ss_pred CcCEEEEEEcCCCCCCCCCCEEEEEEECC
Confidence 489999999999999 9999982 55443
No 46
>PF11819 DUF3338: Domain of unknown function (DUF3338); InterPro: IPR021774 This family of proteins are functionally uncharacterised. This family is found in eukaryotes. This presumed domain is about 130 amino acids in length.
Probab=42.81 E-value=14 Score=23.76 Aligned_cols=13 Identities=23% Similarity=0.424 Sum_probs=7.1
Q ss_pred cCCCCCC----CCCcce
Q psy3659 58 LRYHFCL----RPERNE 70 (78)
Q Consensus 58 fp~~YP~----~PP~v~ 70 (78)
+|.+||. +||+|+
T Consensus 69 LP~E~PL~pGEk~P~iR 85 (138)
T PF11819_consen 69 LPPEYPLEPGEKPPKIR 85 (138)
T ss_pred CCCccCCCCCCCCCccc
Confidence 4444543 567774
No 47
>cd05845 Ig2_L1-CAM_like Second immunoglobulin (Ig)-like domain of the L1 cell adhesion molecule (CAM) and similar proteins. Ig2_L1-CAM_like: domain similar to the second immunoglobulin (Ig)-like domain of the L1 cell adhesion molecule (CAM). L1 belongs to the L1 subfamily of cell adhesion molecules (CAMs) and is comprised of an extracellular region having six Ig-like domains, five fibronectin type III domains, a transmembrane region and an intracellular domain. L1 is primarily expressed in the nervous system and is involved in its development and function. L1 is associated with an X-linked recessive disorder, X-linked hydrocephalus, MASA syndrome, or spastic paraplegia type 1, that involves abnormalities of axonal growth.
Probab=41.47 E-value=27 Score=20.66 Aligned_cols=21 Identities=14% Similarity=-0.092 Sum_probs=15.7
Q ss_pred CCCCeEEEEEEcCCCCCCCCCcc
Q psy3659 47 YALDIFTVKQGLRYHFCLRPERN 69 (78)
Q Consensus 47 Yegg~f~l~i~fp~~YP~~PP~v 69 (78)
-+|..+.|...-|..|| +|.|
T Consensus 16 ~eG~~~~L~C~pP~g~P--~P~i 36 (95)
T cd05845 16 EEGDSVVLPCNPPKSAV--PLRI 36 (95)
T ss_pred ecCCCEEEEecCCCCCC--CCEE
Confidence 35667788888888888 4777
No 48
>PF11386 VERL: Vitelline envelope receptor for lysin; InterPro: IPR021526 VERL, the egg vitelline envelope (VE) receptor for lysin, is a giant unbranched glycoprotein comprising 30% of the vitelline envelope. Lysin binds to VERL and creates a hole as VERL molecules lose cohesion and splay apart. These proteins are important in the mediation of fertilisation [].
Probab=38.43 E-value=67 Score=18.66 Aligned_cols=28 Identities=11% Similarity=0.008 Sum_probs=23.6
Q ss_pred CCCeEEEEEEcCCCCCCCCCcceeeccc
Q psy3659 48 ALDIFTVKQGLRYHFCLRPERNERFWNF 75 (78)
Q Consensus 48 egg~f~l~i~fp~~YP~~PP~v~~~w~~ 75 (78)
+-|.+-+.|.+|.++..+-|..-=||++
T Consensus 6 esgfnmmrI~yp~n~~~~~pg~CVf~GP 33 (78)
T PF11386_consen 6 ESGFNMMRIYYPSNKLLDSPGMCVFWGP 33 (78)
T ss_pred ccceEEEEEEccCcccCCCCccEEEecC
Confidence 4588999999999999888887677775
No 49
>TIGR02423 protocat_alph protocatechuate 3,4-dioxygenase, alpha subunit. This model represents the alpha chain of protocatechuate 3,4-dioxygenase. The most closely related family outside this family is that of the beta chain (TIGR02422), typically encoded in an adjacent locus. This enzyme acts in the degradation of aromatic compounds by way of p-hydroxybenzoate to succinate and acetyl-CoA.
Probab=38.14 E-value=31 Score=23.17 Aligned_cols=21 Identities=10% Similarity=-0.202 Sum_probs=18.8
Q ss_pred CCeEEEEEEcCCCCCC-----CCCcc
Q psy3659 49 LDIFTVKQGLRYHFCL-----RPERN 69 (78)
Q Consensus 49 gg~f~l~i~fp~~YP~-----~PP~v 69 (78)
.|.|.++-..|-.||. .||.|
T Consensus 96 ~G~y~f~TI~Pg~Yp~~~g~~R~~Hi 121 (193)
T TIGR02423 96 SGEFTFETVKPGAVPDRDGVLQAPHI 121 (193)
T ss_pred CCCEEEEEEcCCCcCCCCCCCcCCeE
Confidence 4889999999999998 88888
No 50
>KOG2391|consensus
Probab=36.72 E-value=35 Score=25.28 Aligned_cols=25 Identities=16% Similarity=0.020 Sum_probs=19.9
Q ss_pred CCCCCCeE--EEEEEcCCCCCCCCCcc
Q psy3659 45 ARYALDIF--TVKQGLRYHFCLRPERN 69 (78)
Q Consensus 45 tpYegg~f--~l~i~fp~~YP~~PP~v 69 (78)
.+|.|-.| -+.|=+.+.||+.||-|
T Consensus 61 ~~~~G~tYnIPV~iWlldtyP~~pP~c 87 (365)
T KOG2391|consen 61 VPYQGVTYNIPVIIWLLDTYPYYPPIC 87 (365)
T ss_pred ccccCCcccceEEEEecccCCCCCCeE
Confidence 45666555 57788899999999998
No 51
>PF09606 Med15: ARC105 or Med15 subunit of Mediator complex non-fungal; InterPro: IPR019087 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. The proteins in this entry represent subunit Med15 of the Mediator complex. They contain a single copy of the approximately 70 residue ARC105 domain. The ARC105 domain of the ARC-Mediator co-activator is a three-helix bundle with marked similarity to the KIX domain. The sterol regulatory element binding protein (SREBP) family of transcription activators use the ARC105 subunit to activate target genes in the regulation of cholesterol and fatty acid homeostasis. In addition, ARC105 is a critical transducer of gene activation signals that control early metazoan development []. ; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex; PDB: 2GUT_A.
Probab=36.03 E-value=12 Score=30.38 Aligned_cols=19 Identities=0% Similarity=0.023 Sum_probs=0.0
Q ss_pred eEEEEEEcCCCCCCCCCcc
Q psy3659 51 IFTVKQGLRYHFCLRPERN 69 (78)
Q Consensus 51 ~f~l~i~fp~~YP~~PP~v 69 (78)
+=-|.|.+|.|||..+|.+
T Consensus 715 VPPl~l~vP~~YP~~sp~~ 733 (799)
T PF09606_consen 715 VPPLRLTVPADYPRQSPQC 733 (799)
T ss_dssp -------------------
T ss_pred CCCeeEeCCCCCCccCCcC
Confidence 3457899999999999998
No 52
>PF14347 DUF4399: Domain of unknown function (DUF4399)
Probab=34.97 E-value=59 Score=19.05 Aligned_cols=21 Identities=19% Similarity=0.063 Sum_probs=14.1
Q ss_pred CeEEEEEEcCC--CCCCCCCcce
Q psy3659 50 DIFTVKQGLRY--HFCLRPERNE 70 (78)
Q Consensus 50 g~f~l~i~fp~--~YP~~PP~v~ 70 (78)
|.|.|.+.|.+ ..|+.||.++
T Consensus 62 G~htLtl~~~d~~h~~~~~~v~s 84 (87)
T PF14347_consen 62 GKHTLTLQLGDGDHVPHDPPVMS 84 (87)
T ss_pred CCEEEEEEeCCCCcccCCCceee
Confidence 55666666655 4688998773
No 53
>PF09458 H_lectin: H-type lectin domain; InterPro: IPR019019 The H-type lectin domain is a unit of six beta chains, combined into a homo-hexamer. It is involved in self/non-self recognition of cells, through binding with carbohydrates []. It is sometimes found in association with the C-terminal domain of coagulation factor F5/8 (IPR000421 from INTERPRO). ; GO: 0005529 sugar binding, 0007155 cell adhesion; PDB: 2CGY_A 2CGZ_A 2CCV_A 2CE6_A 2VME_B 2VMC_A 2VMD_A 2VM9_A 2W94_A 2WN3_C ....
Probab=33.80 E-value=40 Score=18.21 Aligned_cols=18 Identities=11% Similarity=0.213 Sum_probs=10.4
Q ss_pred eEEEEEEcCCCCCCCCCcc
Q psy3659 51 IFTVKQGLRYHFCLRPERN 69 (78)
Q Consensus 51 ~f~l~i~fp~~YP~~PP~v 69 (78)
.+...|.|+..|. .||+|
T Consensus 2 ~~~~~I~F~~~F~-~~P~V 19 (72)
T PF09458_consen 2 EYSQTITFSKPFS-SPPQV 19 (72)
T ss_dssp EEEEEEE-SS--S-S--EE
T ss_pred ceEEEeEcChhcC-CCCEE
Confidence 3578899999999 59998
No 54
>PF00845 Gemini_BL1: Geminivirus BL1 movement protein; InterPro: IPR000211 The movement of bipartite Geminiviruses such as squash leaf curl virus (SqLCV) requires the cooperative interaction of two essential virus-encoded movement proteins, BR1 and BL1. Recent studies of SqLCV and bean dwarf mosaic virus have shown that BR1 and BL1 act in a cooperative manner to move the viral genome intracellularly from the nucleus to the cytoplasm and across the wall cell to cell. BR1 is a nuclear shuttle protein, and it has been proposed to bind newly replicated viral ssDNA genomes and move these between the nucleus and cytoplasm. These BR1-genome complexes are then directed to the cell periphery through interactions between BR1 and BL1, where, as the result of BL1 action, the complexes are moved to adjacent uninfected cells. The precise mechanism by which BL1 acts to transport these genome complexes across the cell wall, and whether this may differ in different cell types, remains at issue [].; GO: 0003677 DNA binding, 0046740 spread of virus in host, cell to cell, 0033644 host cell membrane
Probab=32.32 E-value=38 Score=24.06 Aligned_cols=25 Identities=24% Similarity=0.392 Sum_probs=19.2
Q ss_pred eEEEEEEcCC-----CCCCCCCcce-----------eeccc
Q psy3659 51 IFTVKQGLRY-----HFCLRPERNE-----------RFWNF 75 (78)
Q Consensus 51 ~f~l~i~fp~-----~YP~~PP~v~-----------~~w~~ 75 (78)
.|+.++.+.. |-||+||+|+ -|||.
T Consensus 124 k~kgKLKLStAKHS~DI~Fr~PtikILSK~ft~~~vDF~~V 164 (276)
T PF00845_consen 124 KFKGKLKLSTAKHSVDIPFRAPTIKILSKQFTEKDVDFWHV 164 (276)
T ss_pred eeeceeeecccccccccccCCCceEeeecccCcCCCceeec
Confidence 5666776654 7999999993 78986
No 55
>PHA00458 single-stranded DNA-binding protein
Probab=29.11 E-value=51 Score=23.00 Aligned_cols=22 Identities=5% Similarity=-0.114 Sum_probs=17.8
Q ss_pred CCCCCeEEEEEEcCCCCCCCCC
Q psy3659 46 RYALDIFTVKQGLRYHFCLRPE 67 (78)
Q Consensus 46 pYegg~f~l~i~fp~~YP~~PP 67 (78)
-.+.|.|++.+.|+.+.|..-+
T Consensus 33 ~n~rG~Ykv~lt~~~d~P~~qk 54 (233)
T PHA00458 33 FNPRGVYKVSLTVSNDDPRCQK 54 (233)
T ss_pred cCCCceeEEEEEecCCChHHHH
Confidence 4668999999999999975433
No 56
>PF11619 P53_C: Transcription factor P53 - C terminal domain; InterPro: IPR024631 The p53 tumour suppressor [, , , , ] is a protein found in increased amounts in a wide variety of transformed cells. It is also detectable in many proliferating non-transformed cells, but it is undetectable or present at low levels in resting cells. It is frequently mutated or inactivated in many types of cancer. p53 seems to act as a tumour suppressor in some, but probably not all, tumour types. p53 has been implicated in cell cycle regulation, particularly in the monitoring of genomic DNA integrity prior to replication; for this reason it has been dubbed `guardian of the genome'. p53 is a sequence-specific DNA-binding protein and transcription factor. The structure of p53 comprises 4 domains: an N-terminal transactivation domain; a central DNA-binding domain; an oligomerisation domain; and a C-terminal, basic, regulatory domain [, ]. The structure of the oligomerisation domain consists of a dimer of dimers, each dimer consisting of 2 anti-parallel alpha-helices and an anti-parallel beta-sheet. The sheets lie on opposite sides of the tetramer and the helices form an unusual 4-helix bundle [, ]. While the majority of p53 mutations found in human cancers are located in the DNA-binding domain, some are also found in the oligomerisation domain. This entry represents the C-terminal domain of Drosophila transcription factor p53. While the rest of the protein is quite conserved between the different transcription factors such as p53 and p73, the C-terminal domain is highly divergent. The Drosophila p53 structure is characterised by an additional N-terminal beta-strand and a C-terminal helix [].; PDB: 2RP4_B.
Probab=28.69 E-value=50 Score=18.75 Aligned_cols=12 Identities=0% Similarity=-0.280 Sum_probs=10.5
Q ss_pred CCeEEEEEEcCC
Q psy3659 49 LDIFTVKQGLRY 60 (78)
Q Consensus 49 gg~f~l~i~fp~ 60 (78)
+|.|+|.|++|.
T Consensus 14 dGdYrL~itcp~ 25 (71)
T PF11619_consen 14 DGDYRLVITCPK 25 (71)
T ss_dssp TTCEEEEEEESS
T ss_pred CCceEEEEecCc
Confidence 589999999986
No 57
>TIGR01633 phi3626_gp14_N putative phage tail component, N-terminal domain. This model represents the best-conserved region of about 125 amino acids, toward the N-terminus, of a family of proteins from temperate phage of a number of Gram-positive bacteria. These phage proteins range in length from 230 to 525 amino acids.
Probab=28.59 E-value=1.3e+02 Score=17.64 Aligned_cols=54 Identities=9% Similarity=-0.072 Sum_probs=30.6
Q ss_pred HHHHHHHHHHHHhcCCCCCeEEccCCCCCCeeee------cCCCCCCCCeEEEEEEcCCCC
Q psy3659 8 SAKRIQKELAEITLDPPPNCSAGPKGDNPGIPCT------TTRARYALDIFTVKQGLRYHF 62 (78)
Q Consensus 8 ~~~Rl~kEl~~l~~~~~~~i~~~p~~~nl~~~~~------P~~tpYegg~f~l~i~fp~~Y 62 (78)
..+.+.++++.+.......--+..++.+....++ +++. ...|.+.+++.+|+-|
T Consensus 63 ~~~~~~~~l~~~L~~~~~~~L~f~dePd~yy~a~~~~~~~~~~~-~~~~~~titF~c~dP~ 122 (124)
T TIGR01633 63 DLRELFRELAGWLNSQEPVPLIFSDEPDKTYYARVDEEIDLDED-TTFGKGTLNFICPDPY 122 (124)
T ss_pred HHHHHHHHHHHHhCCCCCcceEeccCCCcEEEEEEcCccCHHHh-hcccEEEEEEEecCCc
Confidence 4566777888887644322122334445555333 3222 3458999999998743
No 58
>PF08170 POPLD: POPLD (NUC188) domain; InterPro: IPR012590 This domain is found in POP1-like nucleolar proteins [].; GO: 0004526 ribonuclease P activity, 0006396 RNA processing
Probab=26.79 E-value=30 Score=20.30 Aligned_cols=11 Identities=9% Similarity=0.132 Sum_probs=7.7
Q ss_pred EEcCCCCCCCC
Q psy3659 56 QGLRYHFCLRP 66 (78)
Q Consensus 56 i~fp~~YP~~P 66 (78)
..||.|||..+
T Consensus 41 ~~FP~DyPdt~ 51 (92)
T PF08170_consen 41 PSFPDDYPDTP 51 (92)
T ss_pred CcCCCCCCCCH
Confidence 45788888653
No 59
>COG3140 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=25.22 E-value=87 Score=17.20 Aligned_cols=21 Identities=14% Similarity=0.059 Sum_probs=13.6
Q ss_pred HHHHHHHHHHHHhcCCCCCeE
Q psy3659 8 SAKRIQKELAEITLDPPPNCS 28 (78)
Q Consensus 8 ~~~Rl~kEl~~l~~~~~~~i~ 28 (78)
|..-+.+|+++..++......
T Consensus 33 AIa~VA~elRe~hk~~~~~~~ 53 (60)
T COG3140 33 AIALVAQELRENHKGENRIVA 53 (60)
T ss_pred HHHHHHHHHHHHhcccccccc
Confidence 566677788877776544443
No 60
>cd03463 3,4-PCD_alpha Protocatechuate 3,4-dioxygenase (3,4-PCD) , alpha subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and beta-subunit and an Fe3+ ion bound in the beta-subunit at the alpha-subunit-beta-subunit interface. 3,4-PCD is a member of the aromatic dioxygenases which are non-heme iron intradiol-cleaving enzymes that break the C1-C2 bond and utilize Fe3+.
Probab=25.02 E-value=1.3e+02 Score=19.96 Aligned_cols=27 Identities=4% Similarity=-0.247 Sum_probs=21.1
Q ss_pred CCeEEEEEEcCCCCCC-----CCCcc-eeeccc
Q psy3659 49 LDIFTVKQGLRYHFCL-----RPERN-ERFWNF 75 (78)
Q Consensus 49 gg~f~l~i~fp~~YP~-----~PP~v-~~~w~~ 75 (78)
.|.|.+.-.+|--||. .||.| -++++.
T Consensus 92 ~G~y~F~Ti~Pg~Y~~~~g~~R~~HIH~~V~~~ 124 (185)
T cd03463 92 DGRFSFTTVKPGAVPGRDGAGQAPHINVWVFAR 124 (185)
T ss_pred CCCEEEEEEcCCCcCCCCCCCcCCeEEEEEECC
Confidence 3889999999999995 88888 355443
No 61
>PF06113 BRE: Brain and reproductive organ-expressed protein (BRE); InterPro: IPR010358 This family consists of several eukaryotic brain and reproductive organ-expressed (BRE) proteins. BRE is a putative stress-modulating gene, found able to down-regulate TNF-alpha-induced-NF-kappaB activation upon over expression. A total of six isoforms are produced by alternative splicing predominantly at either end of the gene. Compared to normal cells, immortalised human cell lines uniformly express higher levels of BRE. Peripheral blood monocytes respond to LPS by down-regulating the expression of all the BRE isoforms. It is thought that the function of BRE and its isoforms is to regulate peroxisomal activities [].
Probab=25.01 E-value=95 Score=22.82 Aligned_cols=24 Identities=8% Similarity=-0.006 Sum_probs=21.9
Q ss_pred CCCCCeEEEEEEcCCCCCCCCCcc
Q psy3659 46 RYALDIFTVKQGLRYHFCLRPERN 69 (78)
Q Consensus 46 pYegg~f~l~i~fp~~YP~~PP~v 69 (78)
||.|...+-+|-|...||..||-+
T Consensus 61 Py~~~~l~W~viFd~~~p~~pPDf 84 (333)
T PF06113_consen 61 PYCGEYLKWDVIFDAQYPEFPPDF 84 (333)
T ss_pred eccCCEEEEEEEEcCCCCCCCCCE
Confidence 688888899999999999999987
No 62
>PF12328 Rpp20: Rpp20 subunit of nuclear RNase MRP and P; PDB: 3IAB_B.
Probab=24.94 E-value=82 Score=20.16 Aligned_cols=21 Identities=19% Similarity=0.292 Sum_probs=16.2
Q ss_pred CcchhHHHHHHHHHHHHHhcC
Q psy3659 2 SKALSTSAKRIQKELAEITLD 22 (78)
Q Consensus 2 ~~~~~~~~~Rl~kEl~~l~~~ 22 (78)
++.++++.+|++|=|....+.
T Consensus 11 ~TPfmSavKRv~K~L~~~~k~ 31 (144)
T PF12328_consen 11 KTPFMSAVKRVRKLLDKAEKR 31 (144)
T ss_dssp S--HHHHHHHHHHHHHHHHHH
T ss_pred CCchHHHHHHHHHHHHhhhcc
Confidence 456789999999999887765
No 63
>PRK00907 hypothetical protein; Provisional
Probab=24.00 E-value=31 Score=20.54 Aligned_cols=11 Identities=18% Similarity=-0.001 Sum_probs=8.5
Q ss_pred EEEcCCCCCCC
Q psy3659 55 KQGLRYHFCLR 65 (78)
Q Consensus 55 ~i~fp~~YP~~ 65 (78)
.|+||-+||++
T Consensus 11 liEFPc~fpiK 21 (92)
T PRK00907 11 GFQFPGTFELS 21 (92)
T ss_pred cEecCCCCeEE
Confidence 47888888864
No 64
>PF14501 HATPase_c_5: GHKL domain
Probab=23.50 E-value=63 Score=18.47 Aligned_cols=12 Identities=42% Similarity=0.360 Sum_probs=7.9
Q ss_pred CCCeEEEEEEcC
Q psy3659 48 ALDIFTVKQGLR 59 (78)
Q Consensus 48 egg~f~l~i~fp 59 (78)
+++.|.++|.||
T Consensus 89 ~~~~f~~~i~ip 100 (100)
T PF14501_consen 89 EDGIFTVKIVIP 100 (100)
T ss_pred ECCEEEEEEEEC
Confidence 356777777765
No 65
>KOG1814|consensus
Probab=23.41 E-value=67 Score=24.46 Aligned_cols=17 Identities=18% Similarity=0.188 Sum_probs=12.9
Q ss_pred EEEEEcCCCCCC-CCCcc
Q psy3659 53 TVKQGLRYHFCL-RPERN 69 (78)
Q Consensus 53 ~l~i~fp~~YP~-~PP~v 69 (78)
.++..+|++||. +||+.
T Consensus 77 vlkf~LP~~YPs~spP~f 94 (445)
T KOG1814|consen 77 VLKFHLPNDYPSVSPPKF 94 (445)
T ss_pred eeeeecCCccccCCCCce
Confidence 478889999995 45554
No 66
>PF04904 NCD1: NAB conserved region 1 (NCD1); InterPro: IPR006988 Nab1 and Nab2 are co-repressors that specifically interact with and repress transcription mediated by the three members of the NGFI-A (Egr-1, Krox24, zif/268) family of eukaryotic (metazoa) transcription factors []. This entry represents the N-terminal NAB domain, which interacts with the EGR1 inhibitory domain (R1) []. It may also mediate multimerisation.; GO: 0045892 negative regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=23.36 E-value=82 Score=18.48 Aligned_cols=17 Identities=35% Similarity=0.599 Sum_probs=14.5
Q ss_pred HHHHHHHHHHHHhcCCC
Q psy3659 8 SAKRIQKELAEITLDPP 24 (78)
Q Consensus 8 ~~~Rl~kEl~~l~~~~~ 24 (78)
-.+|++|-++++..+|.
T Consensus 62 HVrRlqKAL~ew~~~p~ 78 (82)
T PF04904_consen 62 HVRRLQKALQEWSTNPH 78 (82)
T ss_pred HHHHHHHHHHHHhcChh
Confidence 58999999999988763
No 67
>KOG1976|consensus
Probab=23.35 E-value=42 Score=24.81 Aligned_cols=16 Identities=0% Similarity=-0.193 Sum_probs=13.6
Q ss_pred CeEEEEEEcCCCCCCC
Q psy3659 50 DIFTVKQGLRYHFCLR 65 (78)
Q Consensus 50 g~f~l~i~fp~~YP~~ 65 (78)
..|...|.||+.||.+
T Consensus 309 kl~E~~i~FpPsypys 324 (391)
T KOG1976|consen 309 KLKEETIFFPPSYPYS 324 (391)
T ss_pred HHhheeecCCCCCCCC
Confidence 3678999999999975
No 68
>PF03523 Macscav_rec: Macrophage scavenger receptor; InterPro: IPR003543 The egg peptide speract receptor is a transmembrane glycoprotein of about 500 amino acids []. Topologically, it comprises a large extracellular domain of about 450 residues, followed by a transmembrane domain and a short cytoplasmic region of about 12 amino acids. The extracellular domain contains 4 repeats of a well-conserved region, which spans 115 amino acids and contains 6 conserved cysteines. A similar domain is also found towards the C terminus of macrophage scavenger receptor type I [], a membrane glycoprotein implicated in the pathologic deposition of cholesterol in arterial walls during artherogenesis, and in the CD5 glycoprotein, which acts as a receptor in regulating T-cell proliferation. The type I and type II human scavenger receptors are similar to their bovine, rabbit and murine counterparts. They consist of 6 domains: cytoplasmic (I); membrane-spanning (II); spacer (III); alpha-helical coiled- coil (IV); collagen-like (V); and a type-specific C-terminal (VI) []. Immunohistochemical studies have indicated the presence of scavenger receptors in the macrophages of lipid-rich atherosclerotic lesions, suggesting the involvement of these receptors in atherogenesis []. The macrophage scavenger receptor is trimeric and has unusual ligand-binding properties []. The trimeric structure of the bovine type I scavenger receptor contains 3 extracellular C-terminal cysteine-rich domains connected to the transmembrane domain by a long fibrous stalk. The stalk structure, which consists of an alpha-helical coiled coil and a collagen-like triple helix, has not previously been observed in an integral membrane protein []. ; GO: 0005044 scavenger receptor activity, 0006898 receptor-mediated endocytosis, 0016020 membrane
Probab=23.24 E-value=24 Score=18.70 Aligned_cols=8 Identities=75% Similarity=1.182 Sum_probs=5.2
Q ss_pred eeeccccC
Q psy3659 70 ERFWNFSL 77 (78)
Q Consensus 70 ~~~w~~~~ 77 (78)
++||+||+
T Consensus 19 e~FqNfS~ 26 (49)
T PF03523_consen 19 ERFQNFSM 26 (49)
T ss_pred HHhcccch
Confidence 36777764
No 69
>PF12259 DUF3609: Protein of unknown function (DUF3609); InterPro: IPR022048 This domain family is found in eukaryotes and viruses, and is typically between 348 and 360 amino acids in length.
Probab=22.80 E-value=64 Score=23.73 Aligned_cols=52 Identities=12% Similarity=0.003 Sum_probs=28.0
Q ss_pred HHHHHHHHHHHHhcCCCCCeEEccCCCCCCe-eee-cCCCCCCCCeEEEEEEcC
Q psy3659 8 SAKRIQKELAEITLDPPPNCSAGPKGDNPGI-PCT-TTRARYALDIFTVKQGLR 59 (78)
Q Consensus 8 ~~~Rl~kEl~~l~~~~~~~i~~~p~~~nl~~-~~~-P~~tpYegg~f~l~i~fp 59 (78)
..++|++|++++....+.+..+.....++.. ..+ .-.....+...-|.|++|
T Consensus 33 sP~~L~~em~~V~~~L~~~~~lp~~~~~m~~ly~l~~v~~~~~~~~liF~i~VP 86 (361)
T PF12259_consen 33 SPKQLLDEMKNVSSHLPRDWSLPLEKSNMHDLYRLIKVHFITPDNKLIFVIEVP 86 (361)
T ss_pred CHHHHHHHHHHHHhcCCcccccCccccHHHHHhhhEEEEEEeeCCEEEEEEEec
Confidence 4789999999997766666544333333322 111 111223344555555554
No 70
>PF08921 DUF1904: Domain of unknown function (DUF1904); InterPro: IPR015017 This entry represents a family of hypothetical bacterial proteins. ; PDB: 1U9D_B.
Probab=22.58 E-value=87 Score=19.05 Aligned_cols=28 Identities=29% Similarity=0.204 Sum_probs=20.0
Q ss_pred hhHHHHHHHHHHHHHhcCCCCCeEEccC
Q psy3659 5 LSTSAKRIQKELAEITLDPPPNCSAGPK 32 (78)
Q Consensus 5 ~~~~~~Rl~kEl~~l~~~~~~~i~~~p~ 32 (78)
.....+.|..||.+|...+...+++.-.
T Consensus 14 v~~~S~~LideLa~i~~~p~e~ftlE~i 41 (108)
T PF08921_consen 14 VQELSKELIDELAEICGCPRENFTLEWI 41 (108)
T ss_dssp HHHHHHHHHHHHHHHHT--GGG-EEEE-
T ss_pred HHHHhHHHHHHHHHHHCCCcceEEEEEe
Confidence 4566788999999999999999887653
No 71
>PF12627 PolyA_pol_RNAbd: Probable RNA and SrmB- binding site of polymerase A; PDB: 1OU5_B 3H38_A 3H3A_B 3H39_B 3H37_A 3AQN_A 3AQK_A 3AQM_B 3AQL_B 1MIY_A ....
Probab=21.96 E-value=1.1e+02 Score=15.98 Aligned_cols=19 Identities=42% Similarity=0.667 Sum_probs=14.6
Q ss_pred HHHHHHHHHHHHHhcCCCC
Q psy3659 7 TSAKRIQKELAEITLDPPP 25 (78)
Q Consensus 7 ~~~~Rl~kEl~~l~~~~~~ 25 (78)
.+..||..|+..+...+.+
T Consensus 22 is~ERi~~El~kil~~~~~ 40 (64)
T PF12627_consen 22 ISKERIREELEKILSSPNP 40 (64)
T ss_dssp S-HHHHHHHHHHHHTSTTH
T ss_pred CCHHHHHHHHHHHHcCCCH
Confidence 4678999999999877643
No 72
>COG0544 Tig FKBP-type peptidyl-prolyl cis-trans isomerase (trigger factor) [Posttranslational modification, protein turnover, chaperones]
Probab=21.08 E-value=84 Score=23.74 Aligned_cols=14 Identities=7% Similarity=-0.019 Sum_probs=11.1
Q ss_pred eEEEEEEcCCCCCC
Q psy3659 51 IFTVKQGLRYHFCL 64 (78)
Q Consensus 51 ~f~l~i~fp~~YP~ 64 (78)
...+.++||.+|+.
T Consensus 210 ~k~i~vtFP~dy~a 223 (441)
T COG0544 210 EKDIKVTFPEDYHA 223 (441)
T ss_pred eeEEEEEcccccch
Confidence 44588999999984
No 73
>cd05727 Ig2_Contactin-2-like Second Ig domain of the neural cell adhesion molecule contactin-2 and similar proteins. Ig2_Contactin-2-like: second Ig domain of the neural cell adhesion molecule contactin-2. Contactins are comprised of six Ig domains followed by four fibronectin type III (FnIII) domains anchored to the membrane by glycosylphosphatidylinositol. Contactin-2 (aliases TAG-1, axonin-1) facilitates cell adhesion by homophilic binding between molecules in apposed membranes. The first four Ig domains form the intermolecular binding fragment which arranges as a compact U-shaped module by contacts between Ig domains 1 and 4, and domains 2 and 3. It has been proposed that a linear zipper-like array forms, from contactin-2 molecules alternatively provided by the two apposed membranes.
Probab=21.04 E-value=84 Score=18.56 Aligned_cols=24 Identities=4% Similarity=-0.381 Sum_probs=17.0
Q ss_pred CCCCCCCeEEEEEEcCCCCCCCCCcc
Q psy3659 44 RARYALDIFTVKQGLRYHFCLRPERN 69 (78)
Q Consensus 44 ~tpYegg~f~l~i~fp~~YP~~PP~v 69 (78)
.+.-+|-.+.|...-|+.|| +|++
T Consensus 13 ~~v~eG~~~~L~C~pP~g~P--~p~~ 36 (96)
T cd05727 13 VKVKEGWGVVLFCDPPPHYP--DLSY 36 (96)
T ss_pred eeeeeCCcEEEeeCCCCCCC--CCEE
Confidence 44566677788888888888 4666
No 74
>PF14457 Prok-E2_A: Prokaryotic E2 family A
Probab=20.98 E-value=91 Score=20.30 Aligned_cols=17 Identities=12% Similarity=-0.156 Sum_probs=14.8
Q ss_pred EEEEEcCCCCCCCCCcc
Q psy3659 53 TVKQGLRYHFCLRPERN 69 (78)
Q Consensus 53 ~l~i~fp~~YP~~PP~v 69 (78)
.+.|-|+.+||+.+|.|
T Consensus 56 ~~~i~~~~~~~~~~P~v 72 (162)
T PF14457_consen 56 RVAIVFPPDSPLSAPEV 72 (162)
T ss_pred eEEEEecCCCCCCCccc
Confidence 46789999999999966
No 75
>PF06031 SERTA: SERTA motif; InterPro: IPR009263 This entry represents a novel motif designated as SERTA (for SEI-1, RBT1, and TARA), corresponding to the largest conserved region among TRIP-Br proteins []. The function of this motif is uncertain, but the CDK4-interacting segment of p34SEI-1 (amino acid residues 44-161) includes most of the SERTA motif [].
Probab=20.86 E-value=58 Score=16.38 Aligned_cols=12 Identities=33% Similarity=0.634 Sum_probs=9.0
Q ss_pred hHHHHHHHHHHH
Q psy3659 6 STSAKRIQKELA 17 (78)
Q Consensus 6 ~~~~~Rl~kEl~ 17 (78)
....+||+.|++
T Consensus 27 ~Ntlr~iq~E~~ 38 (38)
T PF06031_consen 27 NNTLRRIQEEIR 38 (38)
T ss_pred hhhHHHHHHHhC
Confidence 456889998873
Done!