Query 014126
Match_columns 430
No_of_seqs 192 out of 1116
Neff 4.6
Searched_HMMs 46136
Date Fri Mar 29 02:06:04 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/014126.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/014126hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd08068 MPN_BRCC36 Mov34/MPN/P 100.0 1.7E-63 3.6E-68 481.0 27.4 240 3-368 1-244 (244)
2 KOG1555 26S proteasome regulat 100.0 1.3E-33 2.8E-38 280.0 16.1 218 4-320 31-253 (316)
3 cd08067 MPN_2A_DUB Mov34/MPN/P 100.0 2.4E-29 5.2E-34 235.2 19.4 150 5-166 6-165 (187)
4 cd08058 MPN_euk_mb Mpr1p, Pad1 99.9 3.9E-27 8.4E-32 203.5 13.6 119 11-149 1-119 (119)
5 cd08069 MPN_RPN11_CSN5 Mov34/M 99.9 1.8E-26 3.9E-31 226.1 18.9 140 2-153 8-149 (268)
6 cd08070 MPN_like Mpr1p, Pad1p 99.9 6.4E-24 1.4E-28 185.3 15.5 121 11-153 2-123 (128)
7 cd08066 MPN_AMSH_like Mov34/MP 99.9 5.1E-23 1.1E-27 190.4 17.8 123 3-149 1-127 (173)
8 smart00232 JAB_MPN JAB/MPN dom 99.9 3.7E-22 7.9E-27 171.6 17.0 132 5-150 1-134 (135)
9 KOG1554 COP9 signalosome, subu 99.9 4.1E-23 8.8E-28 202.2 12.3 143 3-154 52-194 (347)
10 cd08065 MPN_eIF3h Mpr1p, Pad1p 99.9 1.1E-21 2.4E-26 191.8 16.8 138 4-153 1-139 (266)
11 PF01398 JAB: JAB1/Mov34/MPN/P 99.8 6.4E-21 1.4E-25 162.3 10.7 113 2-122 2-114 (114)
12 cd08073 MPN_NLPC_P60 Mpr1p, Pa 99.8 9E-20 1.9E-24 156.9 11.3 95 12-132 2-97 (108)
13 cd07767 MPN Mpr1p, Pad1p N-ter 99.8 6.5E-19 1.4E-23 148.3 13.0 105 14-132 2-106 (116)
14 cd08072 MPN_archaeal Mov34/MPN 99.8 1.6E-18 3.6E-23 150.7 13.8 110 8-151 1-110 (117)
15 cd08057 MPN_euk_non_mb Mpr1p, 99.7 1.3E-15 2.8E-20 137.8 16.5 136 6-153 1-139 (157)
16 KOG1560 Translation initiation 99.7 3E-16 6.6E-21 153.9 12.3 140 2-150 11-155 (339)
17 COG1310 Predicted metal-depend 99.7 6.5E-16 1.4E-20 136.1 12.9 104 6-131 2-106 (134)
18 PF14464 Prok-JAB: Prokaryotic 99.6 7.8E-15 1.7E-19 122.2 10.2 93 10-130 2-96 (104)
19 cd08062 MPN_RPN7_8 Mpr1p, Pad1 99.6 5E-14 1.1E-18 139.5 16.8 130 4-150 1-135 (280)
20 cd08064 MPN_eIF3f Mpr1p, Pad1p 99.5 1.3E-13 2.9E-18 134.8 16.6 129 6-150 1-131 (265)
21 cd08060 MPN_UPF0172 Mov34/MPN/ 99.5 9.4E-13 2E-17 123.2 13.7 130 8-153 1-134 (182)
22 cd08059 MPN_prok_mb Mpr1p, Pad 99.5 4.6E-13 1E-17 112.3 10.3 93 11-131 1-93 (101)
23 TIGR03735 PRTRC_A PRTRC system 99.4 1.2E-12 2.7E-17 123.5 11.5 111 7-150 74-184 (192)
24 KOG2880 SMAD6 interacting prot 99.4 1.5E-13 3.4E-18 138.6 5.0 128 2-153 250-382 (424)
25 PLN03246 26S proteasome regula 99.4 1.4E-11 3E-16 123.6 17.1 131 2-149 4-139 (303)
26 cd08063 MPN_CSN6 Mpr1p, Pad1p 99.4 1.7E-11 3.6E-16 121.6 15.6 131 5-149 2-138 (288)
27 TIGR02256 ICE_VC0181 integrati 99.0 3.8E-09 8.2E-14 94.7 13.4 111 12-130 2-114 (131)
28 KOG1556 26S proteasome regulat 99.0 3.1E-09 6.6E-14 103.7 12.2 118 2-132 7-129 (309)
29 cd08056 MPN_PRP8 Mpr1p, Pad1p 98.9 3.3E-08 7.2E-13 97.1 13.9 126 5-152 37-168 (252)
30 PF03665 UPF0172: Uncharacteri 98.1 8.3E-05 1.8E-09 70.8 14.4 117 4-131 2-119 (196)
31 cd08061 MPN_NPL4 Mov34/MPN/PAD 98.1 9.2E-05 2E-09 73.9 14.4 137 3-152 10-161 (274)
32 KOG2975 Translation initiation 97.8 8.7E-05 1.9E-09 73.5 9.3 128 5-150 22-151 (288)
33 PF05021 NPL4: NPL4 family; I 96.9 0.016 3.6E-07 58.9 13.1 112 29-153 2-145 (306)
34 KOG3289 Uncharacterized conser 96.5 0.066 1.4E-06 51.0 12.9 112 5-130 3-118 (199)
35 KOG3050 COP9 signalosome, subu 94.1 0.33 7.2E-06 48.4 9.4 143 5-162 10-160 (299)
36 cd08071 MPN_DUF2466 Mov34/MPN/ 88.7 7 0.00015 34.1 10.8 46 60-114 40-85 (113)
37 PF11471 Sugarporin_N: Maltopo 75.3 3.7 8.1E-05 32.5 3.4 28 359-386 29-56 (60)
38 PF11471 Sugarporin_N: Maltopo 73.9 14 0.00031 29.2 6.4 26 357-382 34-59 (60)
39 PF04002 RadC: RadC-like JAB d 71.0 48 0.001 29.1 9.8 46 60-114 45-90 (123)
40 TIGR01834 PHA_synth_III_E poly 65.2 31 0.00068 35.8 8.4 82 296-384 225-318 (320)
41 PRK00024 hypothetical protein; 63.3 81 0.0017 30.8 10.5 86 10-114 106-191 (224)
42 TIGR00608 radc DNA repair prot 62.7 1.1E+02 0.0023 29.9 11.3 86 9-113 99-184 (218)
43 KOG2834 Nuclear pore complex, 62.3 1.2E+02 0.0026 33.3 12.2 128 10-152 182-342 (510)
44 PF15458 NTR2: Nineteen comple 53.3 1.1E+02 0.0023 30.6 9.6 78 302-384 152-244 (254)
45 PF15659 Toxin-JAB1: JAB-like 52.1 15 0.00032 34.7 3.3 26 86-112 113-138 (162)
46 PF14220 DUF4329: Domain of un 51.4 13 0.00029 33.3 2.8 27 87-113 57-88 (123)
47 PF14778 ODR4-like: Olfactory 49.6 32 0.0007 35.8 5.6 68 326-404 250-320 (362)
48 PF13600 DUF4140: N-terminal d 48.4 41 0.00089 28.3 5.1 35 352-386 67-101 (104)
49 PRK00888 ftsB cell division pr 43.7 90 0.002 27.1 6.6 45 344-388 7-60 (105)
50 COG5509 Uncharacterized small 42.6 39 0.00084 27.3 3.7 26 365-390 28-53 (65)
51 PF08826 DMPK_coil: DMPK coile 42.1 69 0.0015 25.6 5.1 31 356-386 26-56 (61)
52 PF01621 Fusion_gly_K: Cell fu 40.5 30 0.00064 36.2 3.6 34 300-338 178-211 (337)
53 KOG1555 26S proteasome regulat 39.0 2 4.3E-05 44.3 -5.0 102 104-216 65-166 (316)
54 KOG1795 U5 snRNP spliceosome s 38.8 39 0.00084 41.2 4.5 123 7-155 2098-2226(2321)
55 TIGR03782 Bac_Flav_CT_J Bacter 34.3 62 0.0013 33.7 4.7 39 348-386 78-116 (322)
56 PF04977 DivIC: Septum formati 34.2 92 0.002 24.4 4.9 31 358-388 20-50 (80)
57 PF10883 DUF2681: Protein of u 33.9 2E+02 0.0044 24.6 7.0 35 351-385 12-46 (87)
58 PF14331 ImcF-related_N: ImcF- 32.1 3.5E+02 0.0076 26.8 9.6 100 279-392 68-178 (266)
59 KOG0804 Cytoplasmic Zn-finger 30.8 3.4E+02 0.0074 29.8 9.6 28 298-325 326-353 (493)
60 KOG0976 Rho/Rac1-interacting s 29.6 70 0.0015 37.4 4.5 33 353-385 125-157 (1265)
61 PF06305 DUF1049: Protein of u 29.0 2.4E+02 0.0052 21.7 6.3 38 347-386 28-65 (68)
62 COG3416 Uncharacterized protei 27.6 2.9E+02 0.0063 27.5 7.8 34 351-384 44-77 (233)
63 PF07716 bZIP_2: Basic region 27.0 1.6E+02 0.0034 22.2 4.8 24 360-383 30-53 (54)
64 PF00170 bZIP_1: bZIP transcri 26.7 1.6E+02 0.0035 22.7 5.0 29 357-385 28-56 (64)
65 PHA03275 envelope glycoprotein 26.6 71 0.0015 33.5 3.7 35 299-338 175-209 (340)
66 TIGR02449 conserved hypothetic 26.2 1.5E+02 0.0033 24.1 4.7 29 357-385 2-30 (65)
67 PHA03278 envelope glycoprotein 26.1 73 0.0016 33.5 3.7 33 300-337 178-210 (347)
68 PF11853 DUF3373: Protein of u 25.5 1E+02 0.0022 33.9 4.8 27 359-386 22-48 (489)
69 PF13815 Dzip-like_N: Iguana/D 24.6 2.2E+02 0.0048 24.9 6.0 34 353-386 78-111 (118)
70 PHA03276 envelope glycoprotein 24.5 82 0.0018 33.0 3.7 33 300-337 177-209 (337)
71 COG5178 PRP8 U5 snRNP spliceos 24.3 1E+02 0.0022 37.7 4.7 128 7-160 2137-2271(2365)
72 PF06005 DUF904: Protein of un 24.1 1.8E+02 0.004 23.8 5.0 29 357-385 20-48 (72)
73 PF10867 DUF2664: Protein of u 23.9 2.2E+02 0.0048 24.5 5.6 51 326-376 17-73 (89)
74 smart00338 BRLZ basic region l 23.8 1.9E+02 0.0041 22.4 4.8 30 356-385 27-56 (65)
75 PF06103 DUF948: Bacterial pro 23.8 2.2E+02 0.0047 23.4 5.5 35 351-385 15-49 (90)
76 TIGR02338 gimC_beta prefoldin, 23.6 1.7E+02 0.0036 25.2 5.0 49 338-386 50-98 (110)
77 cd00632 Prefoldin_beta Prefold 23.3 2.1E+02 0.0045 24.3 5.4 40 347-386 55-94 (105)
78 PF11740 KfrA_N: Plasmid repli 23.1 3.6E+02 0.0077 22.9 6.9 39 347-385 80-118 (120)
79 PF09849 DUF2076: Uncharacteri 23.1 2.4E+02 0.0053 28.3 6.6 25 356-380 49-73 (247)
80 PRK04325 hypothetical protein; 20.4 2E+02 0.0043 23.6 4.5 26 360-385 28-53 (74)
No 1
>cd08068 MPN_BRCC36 Mov34/MPN/PAD-1 family: BRCC36, a subunit of BRCA1-A complex. BRCC36 (BRCA1-A complex subunit BRCC36; BRCA1/BRCA2-containing complex subunit 36; BRCA1/BRCA2-containing complex subunit 3; BRCC3; BRISC complex subunit BRCC36; BRCC36 isopeptidase complex; Lys-63-specific deubiquitinase BRCC36) and BRCC36-like domains are members of JAMM/MPN+ deubiquitinases (DUBs), possibly with Zn2+-dependent ubiquitin isopeptidase activity. BRCC36 is part of the BRCA1/BRCA2/BARD1-containing nuclear complex that displays an E3 ubiquitin ligase activity. It is targeted to DNA damage foci after irradiation; RAP80 recruits the Abraxas-BRCC36-BRCA1-BARD1 complex to DNA double strand breaks (DSBs) for DNA repair through specific recognition of Lys 63-linked polyubiquitinated proteins by its tandem ubiquitin-interacting motifs. A new protein, MERIT40 (mediator of RAP80 interactions and targeting 40 kDa), also named NBA1 (new component of the BRCA1 A complex), exists in the same BRCA1-contai
Probab=100.00 E-value=1.7e-63 Score=480.98 Aligned_cols=240 Identities=53% Similarity=0.878 Sum_probs=215.9
Q ss_pred ccEEEECHHHHHHHHHHHccCCCceeEEEEeeeecC---CCCceeEEEEEeeecCCCCCCCCCceecCHHHHHHHHHHHH
Q 014126 3 LTGVKMSEDVWLTCLTHALSTETEEIMGLLLGDIEH---SKNGNVTALIWGASPQSRSDRRKDRVETNPEQLAAASAQAD 79 (430)
Q Consensus 3 l~~V~Is~~Vll~Il~HA~s~~P~EVCGLLlG~~~~---d~~g~vv~~It~a~P~~nsd~s~drfEIDPEql~aAq~eAe 79 (430)
+++|.|+++++++|+.||++++|+||||||+|..++ ..... ...|...+|+.+.++++++|+|||+++.+|+++|+
T Consensus 1 l~~V~Is~~~l~~il~HA~~~~P~EvCGLL~G~~~~~~~~~~~~-~v~i~~~~~~~~~~~s~~r~eidPee~~~a~~ea~ 79 (244)
T cd08068 1 LSKVHLSADVYLVCLTHALSTEKEEVMGLLIGEIEVSKKGEEVA-IVHISAVIILRRSDKRKDRVEISPEQLSAASTEAE 79 (244)
T ss_pred CcEEEECHHHHHHHHHHHHhCCCcceeEEEEeecccccccccce-eEEEeeeccccccCCCCceEEeCHHHHHHHHHHHH
Confidence 578999999999999999999999999999998753 00011 22344667777788899999999999999999999
Q ss_pred HHhhhcCCCceEEEEEecCCCCCCCCCHHHHHHHHHHhhhCCCcEEEEEcCCCCCc-cccCceEEEEEEeeCCCcceecc
Q 014126 80 RMTVLTGRTTRVIGWYHSHPHITVLPSHVDVRTQAMYQLLDTGFIGLIFSCFSEDA-NKVGRIQVIAFQSSDGKQNHISK 158 (430)
Q Consensus 80 el~r~~~rgleVVGWYHSHP~~~a~PS~~DI~TQ~~YQ~~~p~~V~LIvSp~~~d~-s~~G~i~lrAFRl~dg~~~~i~~ 158 (430)
++.+.+++++++||||||||+++++||.+|+++|..||+++|+++|||+|++++++ +..+.+.++|||+.+|+.
T Consensus 80 ~~~~~~~rgl~vVGwYHSHP~~~a~PS~~Dv~tq~~~q~~~p~~v~lIvS~~~~~~~~~~~~~~i~aFr~~~g~~----- 154 (244)
T cd08068 80 RLTEETGRPMRVVGWYHSHPHITVWPSHVDVRTQAMYQMMDSGFVGLIFSCFNEDKSTKMGEVQVTCFQSVQGNK----- 154 (244)
T ss_pred HHHhhccCCceEEEEEecCCCCCCCCCHhHHHHHHHHHhhCCCcEEEEEEecCCccccccCCEEEEEEEecCCCC-----
Confidence 99999999999999999999999999999999999999999999999999998763 577889999999977532
Q ss_pred ceeeccCCCccccccccccccccccccccCCcccCCCCCCCCcccccccccCCCCccCCCCCcccccCCCCcccccCCCC
Q 014126 159 PIALLPVNKSTVIDLESSLSSSESLSARSGNVLAENPEQDTGDSKIVAGSWKGGGRTSELGGFFANVDANHPERARTGGN 238 (430)
Q Consensus 159 pi~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 238 (430)
T Consensus 155 -------------------------------------------------------------------------------- 154 (244)
T cd08068 155 -------------------------------------------------------------------------------- 154 (244)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred CCCCCCCCCcCCCCCCCcchHHHHHhhhccccCCCCceeeeeeeeeeecCCCcccCCCcchhhHHHhHHHHHHHHHHHHH
Q 014126 239 YQTGDLSNAIGDIDPMDMSESMQEAMHRSNLDMSGAEYVRKEIPLHVLPTSSLLKLDSPLTSFTDLQRVLYEEERAAYNQ 318 (430)
Q Consensus 239 ~~~~~~~~~~~~~~~~~~~~~~~ea~h~s~~~~~~~~~~r~evpl~v~p~~~~~~~~~~l~s~~~l~~il~~ee~~ay~~ 318 (430)
+++|+|+||||+|+|+.++.++| |+++++||+||+|||++||++
T Consensus 155 ----------------------------------~~~~~~~e~pl~i~~~~~~~~~~--~~~~~~l~~~l~~e~~~a~~~ 198 (244)
T cd08068 155 ----------------------------------AGQYERIEVPLEIVPTSTISEAC--LESLVELPEILYQEEEDAYNK 198 (244)
T ss_pred ----------------------------------CCcceEEEeeeEEecCccccccC--HHHHHHHHHHHHHHHHHHHHH
Confidence 46899999999999999999985 999999999999999999999
Q ss_pred HHHhhccCCCCCccceeehhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHH
Q 014126 319 AIMQNMSDGKVHPLTYIHHTSTYQASMCKLIEYCLSPAISALQDRLKENE 368 (430)
Q Consensus 319 a~~q~~~~~~~~~l~~ih~~~~~~~~~~~~~~~~~~p~~~~l~~rl~~n~ 368 (430)
|+.|+.+ ||||+|||++|||++||+|||+|++|++++||+||++|+
T Consensus 199 ~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~l~~~~~~~~ 244 (244)
T cd08068 199 ALQSCDL----DPLTKIHNGSVYTKSLCHILETISGPLLQLLEARLEQNK 244 (244)
T ss_pred HHhcccc----hHHHHHHhhHHHHHHHHHHHHHHHhhHHHHHHHHHHhcC
Confidence 9977654 499999999999999999999999999999999999985
No 2
>KOG1555 consensus 26S proteasome regulatory complex, subunit RPN11 [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=1.3e-33 Score=280.02 Aligned_cols=218 Identities=36% Similarity=0.497 Sum_probs=163.0
Q ss_pred cEEEECHHHHHHHHHHHccCCCce-eEEEE-ee---eecCCCCceeEEEEEeeecCCCCCCCCCceecCHHHHHHHHHHH
Q 014126 4 TGVKMSEDVWLTCLTHALSTETEE-IMGLL-LG---DIEHSKNGNVTALIWGASPQSRSDRRKDRVETNPEQLAAASAQA 78 (430)
Q Consensus 4 ~~V~Is~~Vll~Il~HA~s~~P~E-VCGLL-lG---~~~~d~~g~vv~~It~a~P~~nsd~s~drfEIDPEql~aAq~eA 78 (430)
..|+|...++++|.+|.+...|.| ++|++ +| .+.+..+..++. +++.|..+..-+......||. .+.++
T Consensus 31 e~v~i~slall~m~rh~r~~~p~e~v~Glm~lg~~~~fv~~~Tv~vv~--v~am~~sg~~is~~~e~~d~V----~q~q~ 104 (316)
T KOG1555|consen 31 ETVYISSLALLKMLRHDRAGSPEETVMGLMSLGRLPEFVDDYTVRVVD--VFAMPQSGTGISKFVEAVDPV----FQTQM 104 (316)
T ss_pred ceeeeehhhhhhcccccccCCchhhccceeecccccceeeecceeeee--eeccccccceecccchhccHH----HHHHH
Confidence 468999999999999999999999 99999 99 544443222111 234444332211111223333 34667
Q ss_pred HHHhhhcCCCceEEEEEecCCCCCCCCCHHHHHHHHHHhhhCCCcEEEEEcCCCCCccccCceEEEEEEeeCCCcceecc
Q 014126 79 DRMTVLTGRTTRVIGWYHSHPHITVLPSHVDVRTQAMYQLLDTGFIGLIFSCFSEDANKVGRIQVIAFQSSDGKQNHISK 158 (430)
Q Consensus 79 eel~r~~~rgleVVGWYHSHP~~~a~PS~~DI~TQ~~YQ~~~p~~V~LIvSp~~~d~s~~G~i~lrAFRl~dg~~~~i~~ 158 (430)
..+++.+++.+.|||||||||+++||||..|+.||+.||++.+..++.+++|.. +..|.....||+..+....
T Consensus 105 ~~~l~~tGrp~~VVGWYHSHP~f~~wpS~vDi~tQ~syq~~~~r~~a~~v~~i~---S~~g~vv~d~f~~In~~~~---- 177 (316)
T KOG1555|consen 105 MDLLKQTGRPELVVGWYHSHPGFGCWPSLVDIDTQQSYQALSSRAVAVVVDPIQ---SPYGKVVPDAFSSINPQWI---- 177 (316)
T ss_pred HHHHHhcCCcceEEeeccCCCCCCCCccccchhHHHHHhhhccCCcceeeeccc---CCCCCccCChhhhcCcccc----
Confidence 788999999999999999999999999999999999999987666666666653 3446677779998774331
Q ss_pred ceeeccCCCccccccccccccccccccccCCcccCCCCCCCCcccccccccCCCCccCCCCCcccccCCCCcccccCCCC
Q 014126 159 PIALLPVNKSTVIDLESSLSSSESLSARSGNVLAENPEQDTGDSKIVAGSWKGGGRTSELGGFFANVDANHPERARTGGN 238 (430)
Q Consensus 159 pi~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 238 (430)
+|.+ .
T Consensus 178 ----~~~~----------------------------e------------------------------------------- 182 (316)
T KOG1555|consen 178 ----SPGG----------------------------E------------------------------------------- 182 (316)
T ss_pred ----cCCC----------------------------C-------------------------------------------
Confidence 1110 0
Q ss_pred CCCCCCCCCcCCCCCCCcchHHHHHhhhccccCCCCceeeeeeeeeeecCCCcccCCCcchhhHHHhHHHHHHHHHHHHH
Q 014126 239 YQTGDLSNAIGDIDPMDMSESMQEAMHRSNLDMSGAEYVRKEIPLHVLPTSSLLKLDSPLTSFTDLQRVLYEEERAAYNQ 318 (430)
Q Consensus 239 ~~~~~~~~~~~~~~~~~~~~~~~ea~h~s~~~~~~~~~~r~evpl~v~p~~~~~~~~~~l~s~~~l~~il~~ee~~ay~~ 318 (430)
-+..-..+++|||+++|||++|++| .|.|+|||++|.|.......|.|+.++.++|+++|+||+++|++
T Consensus 183 -----prqtts~~~~m~~~~s~q~~~~g~n------~y~~~ei~~~v~~~~~~~~~nv~~~s~~~~~~~~y~e~~k~~~~ 251 (316)
T KOG1555|consen 183 -----PRQTTSNGGHMDMQESLQEDIHGLN------RYYRIEIPLHVLPYEQLMLLNVPLKSWKSLQDVLYEEKLKAYLQ 251 (316)
T ss_pred -----CccccccccccccchhHHhHhhccC------ceEEEEeeEEechhhhhchhccchhhhhhcchhhHHHHHHHhhh
Confidence 1111235788999999999999999 69999999999997766667778999999999999999999996
Q ss_pred HH
Q 014126 319 AI 320 (430)
Q Consensus 319 a~ 320 (430)
.+
T Consensus 252 ~~ 253 (316)
T KOG1555|consen 252 SV 253 (316)
T ss_pred hh
Confidence 55
No 3
>cd08067 MPN_2A_DUB Mov34/MPN/PAD-1 family: Histone H2A deubiquitinase. This family includes histone H2A deubiquitinase (Histone H2A DUB;MYSM1; myb-like, SWIRM and MPN domains 1; 2ADUB; 2A-DUB; KIAA19152ADUB, or KIAA1915/MYSM1), a member of JAMM/MPN+ deubiquitinases (DUBs), with possible Zn2+-dependent ubiquitin isopeptidase activity. It contains the SWIRM (Swi3p, Rsc8p and Moira), and SANT (SWI-SNF, ADA N-CoR, TFIIIB)/Myb domains; the SANT, but not the SWIRM, domain can bind directly to DNA. 2A-DUB is specific for monoubiquitinated H2A (uH2A), regulating transcription by coordinating histone acetylation and deubiquitination, and destabilizing the association of linker histone H1 with nucleosomes. 2A-DUB interacts with p/CAF (p300/CBP-associated factor) in a co-regulatory protein complex, where the status of acetylation of nucleosomal histones modulates its deubiquitinase activity. 2A-DUB is a positive regulator of androgen receptor (AR) transactivation activity on a reporter gene; it p
Probab=99.97 E-value=2.4e-29 Score=235.17 Aligned_cols=150 Identities=25% Similarity=0.325 Sum_probs=125.4
Q ss_pred EEEECHHHHHHHHHHHccCCCceeEEEEeeeecCCCCceeEEEEEeeecCCCCCCCCCceecCHHHHHHHHHHHHHHhhh
Q 014126 5 GVKMSEDVWLTCLTHALSTETEEIMGLLLGDIEHSKNGNVTALIWGASPQSRSDRRKDRVETNPEQLAAASAQADRMTVL 84 (430)
Q Consensus 5 ~V~Is~~Vll~Il~HA~s~~P~EVCGLLlG~~~~d~~g~vv~~It~a~P~~nsd~s~drfEIDPEql~aAq~eAeel~r~ 84 (430)
+|.|+..++++|++||+.+. .||||+|+|..+++.. ...|+.++|+++.. ++++|++||+++.++.+.+++
T Consensus 6 ~V~Is~~all~m~~Ha~~~~-~EvcGlL~G~~d~~~~---~l~Vt~~~p~~~~~-~~~~~e~dp~~q~e~~~~l~~---- 76 (187)
T cd08067 6 KVTVSSNALLLMDFHCHLTT-SEVIGYLGGTWDPNTQ---NLTILQAFPCRSRL-TGLDCEMDPVSETEIRESLES---- 76 (187)
T ss_pred EEEECHHHHHHHHHHhcCCC-cEEEEEEEeEEcCCCC---eEEEEEEEecCCCC-CCcccccCHHHHHHHHHHHHH----
Confidence 59999999999999999987 9999999999765321 45788999998864 467899999988877777654
Q ss_pred cCCCceEEEEEecCCCCCCCCCHHHHHHHHHHhhhCC-------CcEEEEEcCCCCCccccCceEEEEEEeeCCC---cc
Q 014126 85 TGRTTRVIGWYHSHPHITVLPSHVDVRTQAMYQLLDT-------GFIGLIFSCFSEDANKVGRIQVIAFQSSDGK---QN 154 (430)
Q Consensus 85 ~~rgleVVGWYHSHP~~~a~PS~~DI~TQ~~YQ~~~p-------~~V~LIvSp~~~d~s~~G~i~lrAFRl~dg~---~~ 154 (430)
+|+++||||||||.++++||.+|++||+.||.+.+ +||+||+||++.+++ .....++||++.+.. ..
T Consensus 77 --~gl~vVGwYHSHP~~~~~pS~~Di~tQ~~yQ~~~~~~~~~~~p~v~~I~~P~~~~~~-~~~s~i~~f~~~~~~~~~~~ 153 (187)
T cd08067 77 --RGLSVVGWYHSHPTFPPNPSLRDIDTQLDYQIMFKGSDSGYEPCVGLICSPYDRRNS-TPESQITCFWVMPPPENRPN 153 (187)
T ss_pred --cCCEEEEEEecCCCCCcCCCHHHHHHHHHHHhhccccccCCCCeEEEEEccccCCCC-CCCCcEEEEEEECCCCCCCc
Confidence 88999999999999999999999999999998876 699999999987543 346789999998655 34
Q ss_pred eeccceeeccCC
Q 014126 155 HISKPIALLPVN 166 (430)
Q Consensus 155 ~i~~pi~~~~~~ 166 (430)
....||.+....
T Consensus 154 ~~~~p~~~~~~~ 165 (187)
T cd08067 154 EYGVPMLMSYTV 165 (187)
T ss_pred cCCcCeEEEecc
Confidence 667777766543
No 4
>cd08058 MPN_euk_mb Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); eukaryotic. This family contains eukaryotic MPN (also known as Mov34, PAD-1, JAMM, JAB, MPN+) domains found in proteins with a variety of functions, including AMSH (associated molecule with the Src homology 3 domain (SH3) of STAM), H2A-DUB (histone H2A deubiquitinase), BRCC36 (BRCA1/BRCA2-containing complex subunit 36), as well as Rpn11 (regulatory particle number 11) and CSN5 (COP9 signalosome complex subunit 5). These domains contain the signature JAB1/MPN/Mov34 metalloenzyme (JAMM) motif, EXnHS/THX7SXXD, which is involved in zinc ion coordination and provides the active site for isopeptidase activity. Rpn11 is responsible for substrate deubiquitination during proteasomal degradation. It is essential for maintaining a correct cell cycle and normal mitochondrial morphology and physiology. CSN5 is critical for nuclear export and the degradation of several tumor suppressor prot
Probab=99.95 E-value=3.9e-27 Score=203.47 Aligned_cols=119 Identities=34% Similarity=0.476 Sum_probs=93.1
Q ss_pred HHHHHHHHHHccCCCceeEEEEeeeecCCCCceeEEEEEeeecCCCCCCCCCceecCHHHHHHHHHHHHHHhhhcCCCce
Q 014126 11 DVWLTCLTHALSTETEEIMGLLLGDIEHSKNGNVTALIWGASPQSRSDRRKDRVETNPEQLAAASAQADRMTVLTGRTTR 90 (430)
Q Consensus 11 ~Vll~Il~HA~s~~P~EVCGLLlG~~~~d~~g~vv~~It~a~P~~nsd~s~drfEIDPEql~aAq~eAeel~r~~~rgle 90 (430)
+++++|++||+++.|+||||+|+|...++.....+..|+.++|.+. ..++.++.. .+.+..++|++
T Consensus 1 ~~~~~i~~ha~~~~p~E~cGlL~G~~~~~~~~~~~~~v~~~~p~~~--------~~~~~~~~~------~~~~~~~~g~~ 66 (119)
T cd08058 1 DALLKMLQHAESNTGIEVMGLLCGELTHNEFTDKHVIVPKQSAGPD--------SCTGENVEE------LFNVQTGRPLL 66 (119)
T ss_pred CHHHHHHHHhcCCCCeEEEEEeeeEEecCccceeEEEEeecCCCCC--------CchhHHHHH------HHHHHhCCCCe
Confidence 4789999999999999999999998764321111344555555432 334544333 33444579999
Q ss_pred EEEEEecCCCCCCCCCHHHHHHHHHHhhhCCCcEEEEEcCCCCCccccCceEEEEEEee
Q 014126 91 VIGWYHSHPHITVLPSHVDVRTQAMYQLLDTGFIGLIFSCFSEDANKVGRIQVIAFQSS 149 (430)
Q Consensus 91 VVGWYHSHP~~~a~PS~~DI~TQ~~YQ~~~p~~V~LIvSp~~~d~s~~G~i~lrAFRl~ 149 (430)
+||||||||+++++||..|+++|+.||++.|+++|||+||.+. .+.++|||++
T Consensus 67 ~vG~YHSHP~~~~~pS~~Di~~~~~~q~~~p~~~~lI~s~~~~------~~~~~a~rl~ 119 (119)
T cd08058 67 VVGWYHSHPTFTAWLSSVDIHTQASYQLMLPEAIAIVVSPKHR------NKDTGIFRLT 119 (119)
T ss_pred EEEEEecCCCCCCccCHHHHHHHHHHhccCCCeEEEEECcCCC------CcccceEEeC
Confidence 9999999999999999999999999999999999999999752 6789999984
No 5
>cd08069 MPN_RPN11_CSN5 Mov34/MPN/PAD-1 family: proteasomal regulatory protein Rpn11 and signalosome complex subunit CSN5. This family contains proteasomal regulatory protein Rpn11 (26S proteasome regulatory subunit rpn11; PAD1; POH1; RPN11; PSMD14; Rpn11 subunit of the 19S-proteasome; regulatory particle number 11) and signalosomal CSN5 (COP9 signalosome complex subunit 5; COP9 complex homolog subunit 5; c-Jun activation domain-binding protein-1; CSN5/JAB1; JAB1). COP9 signalosome (CSN) and the proteasome lid are paralogous complexes and their respective subunits CSN5 and Rpn11 are most closely related between the two complexes, both containing the conserved JAMM (JAB1/MPN/Mov34 metalloenzyme) motif involved in zinc ion coordination and providing the active site for isopeptidase activity. Rpn11 is responsible for substrate deubiquitination during proteasomal degradation. It is essential for maintaining a correct cell cycle and normal mitochondrial morphology and physiology; mutations i
Probab=99.95 E-value=1.8e-26 Score=226.11 Aligned_cols=140 Identities=28% Similarity=0.400 Sum_probs=118.3
Q ss_pred cccEEEECHHHHHHHHHHHccCCCceeEEEEeeeecCCCCceeEEEEEeeecCCCCCCCCCceecCHHHHHHHHHHHHH-
Q 014126 2 SLTGVKMSEDVWLTCLTHALSTETEEIMGLLLGDIEHSKNGNVTALIWGASPQSRSDRRKDRVETNPEQLAAASAQADR- 80 (430)
Q Consensus 2 ~l~~V~Is~~Vll~Il~HA~s~~P~EVCGLLlG~~~~d~~g~vv~~It~a~P~~nsd~s~drfEIDPEql~aAq~eAee- 80 (430)
.++.|.|++.++++|++||.++.|.||||+|+|..+++ ...|+.+||++.. ...++++++++. +.+|.+
T Consensus 8 ~~~~V~Is~~allkil~Ha~~~~p~Ev~GlLlG~~~~~-----~v~Vt~~fp~p~~-~t~~~v~~~~e~----~~~m~~~ 77 (268)
T cd08069 8 YFEKVYISSLALLKMLKHARAGGPIEVMGLMLGKVDDY-----TIIVVDVFALPVE-GTETRVNAQDEF----QEYMVQY 77 (268)
T ss_pred cccEEEECHHHHHHHHHHHhccCCceEEEEEEeeecCC-----eEEEEEEEECCcC-CCCCceeccHHH----HHHHHHH
Confidence 36789999999999999999999999999999997654 3567888888743 456788887743 344444
Q ss_pred -HhhhcCCCceEEEEEecCCCCCCCCCHHHHHHHHHHhhhCCCcEEEEEcCCCCCccccCceEEEEEEeeCCCc
Q 014126 81 -MTVLTGRTTRVIGWYHSHPHITVLPSHVDVRTQAMYQLLDTGFIGLIFSCFSEDANKVGRIQVIAFQSSDGKQ 153 (430)
Q Consensus 81 -l~r~~~rgleVVGWYHSHP~~~a~PS~~DI~TQ~~YQ~~~p~~V~LIvSp~~~d~s~~G~i~lrAFRl~dg~~ 153 (430)
+.+.+++++++||||||||+++||||..|+.||..||.+.+++|+||+||... ...|.+.++|||+.+...
T Consensus 78 ~~~~~~~~~~~vVGWYHSHP~~g~~~S~~Dv~tq~~yq~~~~~~V~lViDP~~t--~~~g~~~i~Afr~~~~~~ 149 (268)
T cd08069 78 EMLKQTGRPENVVGWYHSHPGYGCWLSGIDVNTQQLNQQLQDPFVAVVVDPIRS--LVKGKVVIGAFRTIPPGY 149 (268)
T ss_pred HHHHHhCCCceeEeeeccCCCcCCcCCHHHHHHHHHHHhcCCCcEEEEEeCCcc--ccCCcceeeEEEEECccc
Confidence 77888999999999999999999999999999999999988999999999752 267889999999987554
No 6
>cd08070 MPN_like Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding). This family contains archaeal and bacterial MPN (also known as Mov34, PAD-1, JAMM, JAB, MPN+)-like domains. These domains contain the signature JAB1/MPN/Mov34 metalloenzyme (JAMM) motif, EXnHS/THX7SXXD, which is involved in zinc ion coordination and provides the active site for isopeptidase activity for the release of ubiquitin from ubiquitinated proteins (thus having deubiquitinating (DUB) activity) that are tagged for degradation. The JAMM proteins likely hydrolyze ubiquitin conjugates in a manner similar to thermolysin, in which the zinc-polarized aqua ligand serves as the nucleophile, compared with the classical DUBs that do so with a cysteine residue in the active site.
Probab=99.91 E-value=6.4e-24 Score=185.34 Aligned_cols=121 Identities=30% Similarity=0.373 Sum_probs=102.0
Q ss_pred HHHHHHHHHHccCCCceeEEEEeeeecCCCCceeEEEEEeeecCCCCCCCC-CceecCHHHHHHHHHHHHHHhhhcCCCc
Q 014126 11 DVWLTCLTHALSTETEEIMGLLLGDIEHSKNGNVTALIWGASPQSRSDRRK-DRVETNPEQLAAASAQADRMTVLTGRTT 89 (430)
Q Consensus 11 ~Vll~Il~HA~s~~P~EVCGLLlG~~~~d~~g~vv~~It~a~P~~nsd~s~-drfEIDPEql~aAq~eAeel~r~~~rgl 89 (430)
.++.+|++||++++|+|+||||+|..++.. ..|+.++|++|....+ ++|+|||+++.++.+++++ .++
T Consensus 2 ~~~~~il~ha~~~~P~E~cGlL~G~~~~~~-----~~i~~~~p~~n~~~~~~~~f~~d~~~~~~~~~~~~~------~g~ 70 (128)
T cd08070 2 ELLEAILAHAEAEYPEECCGLLLGKGGGVT-----AIVTEVYPVRNVAESPRRRFEIDPAEQLAAQREARE------RGL 70 (128)
T ss_pred HHHHHHHHHHHhCCCCceEEEEEeecCCCC-----ceEEEEEEccCCCCCCCceEEECHHHHHHHHHHHHH------CCC
Confidence 578899999999999999999999977653 2345678999886666 8999999999988888765 789
Q ss_pred eEEEEEecCCCCCCCCCHHHHHHHHHHhhhCCCcEEEEEcCCCCCccccCceEEEEEEeeCCCc
Q 014126 90 RVIGWYHSHPHITVLPSHVDVRTQAMYQLLDTGFIGLIFSCFSEDANKVGRIQVIAFQSSDGKQ 153 (430)
Q Consensus 90 eVVGWYHSHP~~~a~PS~~DI~TQ~~YQ~~~p~~V~LIvSp~~~d~s~~G~i~lrAFRl~dg~~ 153 (430)
++||||||||..+++||..|+. ++..++.+|||+++... ...++||++.++..
T Consensus 71 ~~vG~~HSHP~~~~~PS~~D~~-----~~~~~~~~~lIv~~~~~------~~~~~~~~~~~~~~ 123 (128)
T cd08070 71 EVVGIYHSHPDGPARPSETDLR-----LAWPPGVSYLIVSLAGG------APELRAWRLEGGQF 123 (128)
T ss_pred eEEEEEeCCCCCCCCCCHHHHH-----hccCCCCeEEEEECCCC------CcEEEEEEEcCCCe
Confidence 9999999999999999999998 34456799999998642 57899999988643
No 7
>cd08066 MPN_AMSH_like Mov34/MPN/PAD-1 family. AMSH (associated molecule with the Src homology 3 domain (SH3) of STAM (signal-transducing adapter molecule, also known as STAMBP)) and AMSH-like proteins (AMSH-LP) are members of JAMM/MPN+ deubiquitinases (DUBs), with Zn2+-dependent ubiquitin isopeptidase activity. AMSH specifically cleaves Lys 63 and not Lys48-linked polyubiquitin (poly-Ub) chains, thus facilitating the recycling and subsequent trafficking of receptors to the cell surface. AMSH and AMSH-LP are anchored on the early endosomal membrane via interaction with the clathrin coat. AMSH shares a common SH3-binding site with another endosomal DUB, UBPY (ubiquitin-specific protease Y; also known as USP8), the latter being a cysteine protease that does not discriminate between Lys48 and Lys63-linked ubiquitin. AMSH is involved in the degradation of EGF receptor (EGFR) and possibly other ubiquitinated endocytosed proteins. AMSH also interacts with CHMP1, CHMP2, and CHMP3 proteins, al
Probab=99.90 E-value=5.1e-23 Score=190.41 Aligned_cols=123 Identities=25% Similarity=0.339 Sum_probs=96.5
Q ss_pred ccEEEECHHHHHHHHHHHccC--CCceeEEEEeeeecCCCCceeEEEEEee-ecCCCCCCCCCcee-cCHHHHHHHHHHH
Q 014126 3 LTGVKMSEDVWLTCLTHALST--ETEEIMGLLLGDIEHSKNGNVTALIWGA-SPQSRSDRRKDRVE-TNPEQLAAASAQA 78 (430)
Q Consensus 3 l~~V~Is~~Vll~Il~HA~s~--~P~EVCGLLlG~~~~d~~g~vv~~It~a-~P~~nsd~s~drfE-IDPEql~aAq~eA 78 (430)
++++.|++.++.+|+.||... .|+||||+|+|...++ +..|..+ +|.++. ....+. +++++ +.+.+
T Consensus 1 ~~~l~Ipk~il~~~l~~A~~~~~~p~E~cGlL~G~~~~~-----~~~I~~i~~~~q~~--~~~~~~~~~~~e---~~~~~ 70 (173)
T cd08066 1 LRQVVVPADLMDKFLQLAEPNTSRNLETCGILCGKLSNN-----AFFITHLIIPKQSG--TSDSCQTTNEEE---LFDFQ 70 (173)
T ss_pred CeEEEECHHHHHHHHHHHHhCCCCCCeEEEEEEeEcCCC-----eEEEEEEEeccccC--CCceecCCCHHH---HHHHH
Confidence 468999999999999999998 4699999999986543 2234333 443332 223333 45554 33334
Q ss_pred HHHhhhcCCCceEEEEEecCCCCCCCCCHHHHHHHHHHhhhCCCcEEEEEcCCCCCccccCceEEEEEEee
Q 014126 79 DRMTVLTGRTTRVIGWYHSHPHITVLPSHVDVRTQAMYQLLDTGFIGLIFSCFSEDANKVGRIQVIAFQSS 149 (430)
Q Consensus 79 eel~r~~~rgleVVGWYHSHP~~~a~PS~~DI~TQ~~YQ~~~p~~V~LIvSp~~~d~s~~G~i~lrAFRl~ 149 (430)
+ .+|+++||||||||..+++||..|++||+.||+++|+++|||+||. .+.++||++.
T Consensus 71 ~------~~gle~vGwyHSHP~~~~~pS~~Dv~t~~~~~~~~p~~~~lIvSp~--------~~~l~afrl~ 127 (173)
T cd08066 71 D------QHDLITLGWIHTHPTQTCFLSSVDLHTHCSYQLMLPEAIAIVCAPK--------YNEFGIFRLT 127 (173)
T ss_pred H------hCCCeeEEEEeccCCCCCccCHHHHHHHHHHHhcCCCeEEEEECCC--------CcEEeEEEee
Confidence 3 3899999999999999999999999999999999999999999984 4789999998
No 8
>smart00232 JAB_MPN JAB/MPN domain. Domain in Jun kinase activation domain binding protein and proteasomal subunits. Domain at Mpr1p and Pad1p N-termini. Domain of unknown function.
Probab=99.89 E-value=3.7e-22 Score=171.56 Aligned_cols=132 Identities=27% Similarity=0.372 Sum_probs=104.7
Q ss_pred EEEECHHHHHHHHHHHccCCCceeEEEEeeeecCCCCceeEEEEEeeecCCCCCCCCC--ceecCHHHHHHHHHHHHHHh
Q 014126 5 GVKMSEDVWLTCLTHALSTETEEIMGLLLGDIEHSKNGNVTALIWGASPQSRSDRRKD--RVETNPEQLAAASAQADRMT 82 (430)
Q Consensus 5 ~V~Is~~Vll~Il~HA~s~~P~EVCGLLlG~~~~d~~g~vv~~It~a~P~~nsd~s~d--rfEIDPEql~aAq~eAeel~ 82 (430)
.|.|++.++++|++||.+.+|.|+||+|+|...++ ...|+.++|+.+...... .+++++.+ ++.++.
T Consensus 1 ~v~i~~~v~~~i~~h~~~~~p~e~~G~L~G~~~~~-----~~~i~~~~~~p~~~~~~~~~~~~~~~~~------~~~~~~ 69 (135)
T smart00232 1 EVKVHPLVPLNILKHAIRDGPEEVCGVLLGKSNKD-----RPEVKEVFAVPNEPQDDSVQEYDEDYSH------LMDEEL 69 (135)
T ss_pred CEEEcHHHHHHHHHHHhcCCCcEEEEEEEEEEcCC-----EEEEEEEEecCcCCCCcchhhhhhhHHH------HHHHHH
Confidence 37899999999999999999999999999998654 234566666665432222 34444433 333344
Q ss_pred hhcCCCceEEEEEecCCCCCCCCCHHHHHHHHHHhhhCCCcEEEEEcCCCCCccccCceEEEEEEeeC
Q 014126 83 VLTGRTTRVIGWYHSHPHITVLPSHVDVRTQAMYQLLDTGFIGLIFSCFSEDANKVGRIQVIAFQSSD 150 (430)
Q Consensus 83 r~~~rgleVVGWYHSHP~~~a~PS~~DI~TQ~~YQ~~~p~~V~LIvSp~~~d~s~~G~i~lrAFRl~d 150 (430)
++...++++||||||||..+++||..|+++|..||..++.++++++++.. +..|.+.++||++.+
T Consensus 70 ~~~~~~~~~vGwyhshp~~~~~pS~~D~~~~~~~~~~~~~~~~~~v~~~~---s~~g~~~~~af~~~~ 134 (135)
T smart00232 70 KKVNKDLEIVGWYHSHPDESPFPSEVDVATHESYQAPWPISVVLIVDPIK---SFQGRLSLRAFRLTP 134 (135)
T ss_pred HhhCCCceEEEEEEcCCCCCCCcCHHHHHHHHHHHhcCCceEEEEECCCc---cccCcEEEEEEEecC
Confidence 56789999999999999999999999999999999999999999999875 345889999999864
No 9
>KOG1554 consensus COP9 signalosome, subunit CSN5 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=99.89 E-value=4.1e-23 Score=202.19 Aligned_cols=143 Identities=27% Similarity=0.375 Sum_probs=115.3
Q ss_pred ccEEEECHHHHHHHHHHHccCCCceeEEEEeeeecCCCCceeEEEEEeeecCCCCCCCCCceecCHHHHHHHHHHHHHHh
Q 014126 3 LTGVKMSEDVWLTCLTHALSTETEEIMGLLLGDIEHSKNGNVTALIWGASPQSRSDRRKDRVETNPEQLAAASAQADRMT 82 (430)
Q Consensus 3 l~~V~Is~~Vll~Il~HA~s~~P~EVCGLLlG~~~~d~~g~vv~~It~a~P~~nsd~s~drfEIDPEql~aAq~eAeel~ 82 (430)
++.|.|++.++++|+.||+++.+.|+||+|.|+++++. ++++=.|++|... +.+|+....+.+. ++.+--+..
T Consensus 52 fk~vkISalAllKm~~hA~~GgnlEiMGlm~Gkv~g~t---~IvmD~FaLPVeG---TETRVNAq~~AyE-Ymv~Y~e~~ 124 (347)
T KOG1554|consen 52 FKHVKISALALLKMVMHARSGGNLEIMGLMQGKVDGDT---IIVMDSFALPVEG---TETRVNAQAEAYE-YMVQYIEEA 124 (347)
T ss_pred hhhhhhHHHHHHHHHHHHhcCCCeEEEeeecccccCCe---EEEEecccccccc---ccceechHHHHHH-HHHHHHHHH
Confidence 57899999999999999999999999999999998863 2322356677654 4567766554442 222222345
Q ss_pred hhcCCCceEEEEEecCCCCCCCCCHHHHHHHHHHhhhCCCcEEEEEcCCCCCccccCceEEEEEEeeCCCcc
Q 014126 83 VLTGRTTRVIGWYHSHPHITVLPSHVDVRTQAMYQLLDTGFIGLIFSCFSEDANKVGRIQVIAFQSSDGKQN 154 (430)
Q Consensus 83 r~~~rgleVVGWYHSHP~~~a~PS~~DI~TQ~~YQ~~~p~~V~LIvSp~~~d~s~~G~i~lrAFRl~dg~~~ 154 (430)
+..++.+++||||||||+++||.|.+||.||...|.+..+||++|+||.++ -..|.+.+.|||.-+.+..
T Consensus 125 k~~gr~envVGWyHSHPgYgCWLSgIDVsTQ~lNQ~fQePfvAvViDP~Rt--lsagkv~iGAFRTyp~gyk 194 (347)
T KOG1554|consen 125 KNVGRLENVVGWYHSHPGYGCWLSGIDVSTQMLNQRFQEPFVAVVIDPTRT--LSAGKVNIGAFRTYPKGYK 194 (347)
T ss_pred HHhhhhhceeeeeecCCCCCccccCcchhHHHHhhhhcCCeEEEEecCccc--cccCceeeceeecccCCCC
Confidence 678999999999999999999999999999999999999999999999874 5778999999999776543
No 10
>cd08065 MPN_eIF3h Mpr1p, Pad1p N-terminal (MPN) domains without catalytic isopeptidase activity, found in eIF2h. Eukaryotic translation initiation factor 3 (eIF3) subunit h (eIF3h; eIF3 subunit 3; eIF3S3; eIF3-gamma; eIF3-p40) is an evolutionarily non-conserved subunit of the functional core that comprises eIF3a, eIF3b, eIF3c, eIF3e, eIF3f, and eIF3h, and contains the MPN domain. However, it lacks the canonical JAMM motif, and therefore does not show catalytic isopeptidase activity.Together with eIF3e and eIF3f, eIF3h stabilizes the eIF3 complex. Results suggest that eIF3h regulates cell growth and viability, and that over-expression of the gene may provide growth advantage to prostate, breast, and liver cancer cells. For example, EIF3h gene amplification is common in late-stage prostate cancer suggesting that it may be functionally involved in the progression of the disease. It has been shown that coamplification of MYC, a well characterized oncogene involved in cell growth, different
Probab=99.88 E-value=1.1e-21 Score=191.81 Aligned_cols=138 Identities=20% Similarity=0.222 Sum_probs=114.0
Q ss_pred cEEEECHHHHHHHHHHHccCCCceeEEEEeeeecCCCCceeEEEEEeeecCCCCCC-CCCceecCHHHHHHHHHHHHHHh
Q 014126 4 TGVKMSEDVWLTCLTHALSTETEEIMGLLLGDIEHSKNGNVTALIWGASPQSRSDR-RKDRVETNPEQLAAASAQADRMT 82 (430)
Q Consensus 4 ~~V~Is~~Vll~Il~HA~s~~P~EVCGLLlG~~~~d~~g~vv~~It~a~P~~nsd~-s~drfEIDPEql~aAq~eAeel~ 82 (430)
+.|.|++.|+++|++||.++.|.||||+|+|...++ +..|+.+||.++.+. ...++.+++.+ ++.+|.++.
T Consensus 1 ~~V~I~~~vllkIv~H~~~~~p~~v~G~LLG~~~~~-----~leVtn~Fp~P~~~~~~~~~~~~~~~~---yq~~m~~~~ 72 (266)
T cd08065 1 TSVQIDGLVVLKIIKHCKEELPELVQGQLLGLDVGG-----TLEVTNCFPFPKSEEDDSDRADEDIAD---YQLEMMRLL 72 (266)
T ss_pred CEEEEeHHHHHHHHHHHhcCCCcEEEEEEeeeEcCC-----EEEEEeccCCCCCCCCCcchhhhhHHH---HHHHHHHHH
Confidence 469999999999999999999999999999998753 467888888776532 12245555543 356777888
Q ss_pred hhcCCCceEEEEEecCCCCCCCCCHHHHHHHHHHhhhCCCcEEEEEcCCCCCccccCceEEEEEEeeCCCc
Q 014126 83 VLTGRTTRVIGWYHSHPHITVLPSHVDVRTQAMYQLLDTGFIGLIFSCFSEDANKVGRIQVIAFQSSDGKQ 153 (430)
Q Consensus 83 r~~~rgleVVGWYHSHP~~~a~PS~~DI~TQ~~YQ~~~p~~V~LIvSp~~~d~s~~G~i~lrAFRl~dg~~ 153 (430)
++++.+..+|||||||| .+++.+..++++|+.||...+++|+||+||.. +..|.+.++|||+.+..+
T Consensus 73 r~v~~~e~iVGWY~S~p-~~~~~~~s~id~~~~~q~~~~~~v~Li~D~~~---s~~g~l~lkAyrl~~~~~ 139 (266)
T cd08065 73 REVNVDHNHVGWYQSTY-LGSFFTRDLIETQYNYQEAIEESVVLVYDPSK---TSQGSLSLKAYRLSEKFM 139 (266)
T ss_pred HHhCCCCcEEEeEeecC-CCCcCCHHHHHHHHHHhccCCCCEEEEECCCc---ccccceeeEEEEEcHHHH
Confidence 89999999999999999 89998889999999999888899999999974 245789999999977443
No 11
>PF01398 JAB: JAB1/Mov34/MPN/PAD-1 ubiquitin protease; InterPro: IPR000555 Members of this family are found in proteasome regulatory subunits, eukaryotic initiation factor 3 (eIF3) subunits and regulators of transcription factors. This family is also known as the MPN domain [] and PAD-1-like domain []. It has been shown that this domain occurs in prokaryotes []. Mov34 proteins act as the regulatory subunit of the 26 proteasome, which is involved in the ATP-dependent degradation of ubiquitinated proteins. The function of this domain is unclear, but it is found in the N terminus of the proteasome regulatory subunits, eukaryotic initiation factor 3 (eIF3) subunits and regulators of transcription factors. A number of the proteins associated with this family belong to MEROPS peptidase family M67 (clan M-). This includes the Poh1 peptidase of Saccharomyces cerevisiae (Baker's yeast) which is a component of the 19S proteasome regulatory particle.; GO: 0005515 protein binding; PDB: 2ZNV_D 2ZNR_A 4E0Q_A 2P87_A 2P8R_A 2O96_B 2O95_A 3RZU_F 3RZV_A.
Probab=99.84 E-value=6.4e-21 Score=162.26 Aligned_cols=113 Identities=29% Similarity=0.528 Sum_probs=85.4
Q ss_pred cccEEEECHHHHHHHHHHHccCCCceeEEEEeeeecCCCCceeEEEEEeeecCCCCCCCCCceecCHHHHHHHHHHHHHH
Q 014126 2 SLTGVKMSEDVWLTCLTHALSTETEEIMGLLLGDIEHSKNGNVTALIWGASPQSRSDRRKDRVETNPEQLAAASAQADRM 81 (430)
Q Consensus 2 ~l~~V~Is~~Vll~Il~HA~s~~P~EVCGLLlG~~~~d~~g~vv~~It~a~P~~nsd~s~drfEIDPEql~aAq~eAeel 81 (430)
+++.|.|++.|+++|++||.+..+.||||+|+|..+++. +..|+.+||++... ....+.++..+.. .++.++
T Consensus 2 s~~~V~i~p~vll~i~~h~~r~~~~~v~G~LlG~~~~~~----~v~I~~~f~~p~~~-~~~~~~~~~~~~~---~~~~~~ 73 (114)
T PF01398_consen 2 SVQTVQIHPLVLLKIIDHATRSSPNEVIGLLLGTQDGDN----TVEITNSFPVPHSE-SEDDCDMDDEDFQ---KKMIEL 73 (114)
T ss_dssp SCEEEEEEHHHHHHHHHHHHHHHCTEEEEEEEEEEETT-----EEEEEEEEEESEEE-ESSEEEEECCHHH---HHHHHH
T ss_pred CcEEEEECHHHHHHHHHHHhcCCCCEEEEEEEEEecCce----EEEEEEEEEeeEec-CccccccchhhHH---HHHHhh
Confidence 678999999999999999999888899999999998763 35677777766542 2234444333322 334455
Q ss_pred hhhcCCCceEEEEEecCCCCCCCCCHHHHHHHHHHhhhCCC
Q 014126 82 TVLTGRTTRVIGWYHSHPHITVLPSHVDVRTQAMYQLLDTG 122 (430)
Q Consensus 82 ~r~~~rgleVVGWYHSHP~~~a~PS~~DI~TQ~~YQ~~~p~ 122 (430)
.++....+.+||||||||.++++||..|+.+|+.||.+.|+
T Consensus 74 ~~~~~~~~~iVGWY~s~p~~~~~~S~~di~~q~~~q~~~~~ 114 (114)
T PF01398_consen 74 LKKVNPNLEIVGWYHSHPNISCFPSPTDIETQKQYQRMNPN 114 (114)
T ss_dssp HHHCSTTSEEEEEEEEESSS-SS--HHHHHHHHHHHHHTTT
T ss_pred hccccccceEEEEEEccCCccccCCHHHHHHHHHHHHhCCC
Confidence 66666779999999999999999999999999999998764
No 12
>cd08073 MPN_NLPC_P60 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) found in proteins also containing NlpC/P60 domains. This family contains bacterial MPN (also known as Mov34, PAD-1, JAMM, JAB, MPN+)-like domains at the N-terminus of NlpC/P60 phage tail protein domains. These domains contain the signature JAB1/MPN/Mov34 metalloenzyme (JAMM) motif, EXnHS/THX7SXXD, which is involved in zinc ion coordination and provides the active site for isopeptidase activity for the release of ubiquitin from ubiquitinated proteins (thus having deubiquitinating (DUB) activity) that are tagged for degradation. The JAMM proteins likely hydrolyze ubiquitin conjugates in a manner similar to thermolysin, in which the zinc-polarized aqua ligand serves as the nucleophile, compared with the classical DUBs that do so with a cysteine residue in the active site.
Probab=99.82 E-value=9e-20 Score=156.86 Aligned_cols=95 Identities=26% Similarity=0.257 Sum_probs=78.6
Q ss_pred HHHHHHHHHccCCCceeEEEEeeeecCCCCceeEEEEEeeecCCCCCCCC-CceecCHHHHHHHHHHHHHHhhhcCCCce
Q 014126 12 VWLTCLTHALSTETEEIMGLLLGDIEHSKNGNVTALIWGASPQSRSDRRK-DRVETNPEQLAAASAQADRMTVLTGRTTR 90 (430)
Q Consensus 12 Vll~Il~HA~s~~P~EVCGLLlG~~~~d~~g~vv~~It~a~P~~nsd~s~-drfEIDPEql~aAq~eAeel~r~~~rgle 90 (430)
++..|+.||++++|+|+||||+|... +...+|+.|....+ ++|+|||+++.++++ .+ +
T Consensus 2 i~~~i~~ha~~~~P~E~CGll~g~~~----------~~~~~p~~N~~~~p~~~F~idp~e~~~a~~----------~~-~ 60 (108)
T cd08073 2 LEDAILAHAKAEYPREACGLVVRKGR----------KLRYIPCRNIAADPEEHFEISPEDYAAAED----------EG-E 60 (108)
T ss_pred HHHHHHHHHhHCCCCcceEEEEecCC----------ceEEEECccCCCCccceEEeCHHHHHHHhc----------CC-C
Confidence 57899999999999999999999641 12346888875444 899999999877652 22 8
Q ss_pred EEEEEecCCCCCCCCCHHHHHHHHHHhhhCCCcEEEEEcCCC
Q 014126 91 VIGWYHSHPHITVLPSHVDVRTQAMYQLLDTGFIGLIFSCFS 132 (430)
Q Consensus 91 VVGWYHSHP~~~a~PS~~DI~TQ~~YQ~~~p~~V~LIvSp~~ 132 (430)
+||.|||||+.+++||..|++ ++.+++.+|||++...
T Consensus 61 ivgi~HSHP~~~a~PS~~D~~-----~~~~~~~~~iIvs~~~ 97 (108)
T cd08073 61 IVAVVHSHPDGSPAPSEADRA-----QQEATGLPWIIVSWPE 97 (108)
T ss_pred EEEEEEcCCCCCCCCCHHHHH-----HhhcCCCcEEEEEcCC
Confidence 999999999999999999997 5567899999999853
No 13
>cd07767 MPN Mpr1p, Pad1p N-terminal (MPN) domains. MPN (also known as Mov34, PAD-1, JAMM, JAB, MPN+) domains are found in the N-terminal termini of proteins with a variety of functions; they are components of the proteasome regulatory subunits, the signalosome (CSN), eukaryotic translation initiation factor 3 (eIF3) complexes, and regulators of transcription factors. These domains are isopeptidases that release ubiquitin from ubiquitinated proteins (thus having deubiquitinating (DUB) activity) that are tagged for degradation. Catalytically active MPN domains contain a metalloprotease signature known as the JAB1/MPN/Mov34 metalloenzyme (JAMM) motif. For example, Rpn11 (also known as POH1 or PSMD14), a subunit of the 19S proteasome lid is involved in the ATP-dependent degradation of ubiquitinated proteins, contains the conserved JAMM motif involved in zinc ion coordination. Poh1 is a regulator of c-Jun, an important regulator of cell proliferation, differentiation, survival and death. J
Probab=99.80 E-value=6.5e-19 Score=148.32 Aligned_cols=105 Identities=21% Similarity=0.253 Sum_probs=79.3
Q ss_pred HHHHHHHccCCCceeEEEEeeeecCCCCceeEEEEEeeecCCCCCCCCCceecCHHHHHHHHHHHHHHhhhcCCCceEEE
Q 014126 14 LTCLTHALSTETEEIMGLLLGDIEHSKNGNVTALIWGASPQSRSDRRKDRVETNPEQLAAASAQADRMTVLTGRTTRVIG 93 (430)
Q Consensus 14 l~Il~HA~s~~P~EVCGLLlG~~~~d~~g~vv~~It~a~P~~nsd~s~drfEIDPEql~aAq~eAeel~r~~~rgleVVG 93 (430)
.+|++||....|.||||+|+|...++ +..|+.+++..+... ...++..++..+. ......++++||
T Consensus 2 k~il~~a~~~~~~ev~G~L~G~~~~~-----~~~i~~~~~~~~~~~---~~~~~~~~~~~~~------~~~~~~~~~iVG 67 (116)
T cd07767 2 KMFLDAAKSINGKEVIGLLYGSKTKK-----VLDVDEVIAVPFDEG---DKDDNVWFLMYLD------FKKLNAGLRIVG 67 (116)
T ss_pred HhHHHHHhcCCCcEEEEEeEEEEcCC-----EEEEEEEEecccCCC---CCccHHHHHHHHH------HHHhcCCCeEEE
Confidence 57899999999999999999997754 334555555544321 1122222322222 234468999999
Q ss_pred EEecCCCCCCCCCHHHHHHHHHHhhhCCCcEEEEEcCCC
Q 014126 94 WYHSHPHITVLPSHVDVRTQAMYQLLDTGFIGLIFSCFS 132 (430)
Q Consensus 94 WYHSHP~~~a~PS~~DI~TQ~~YQ~~~p~~V~LIvSp~~ 132 (430)
||||||..+++||..|+.+|..||..+++.++||+++..
T Consensus 68 wyhshp~~~~~~s~~dv~~~~~~q~~~~~~v~li~~~~~ 106 (116)
T cd07767 68 WYHTHPKPSCFLSPNDLATHELFQRYFPEKVMIIVDVKP 106 (116)
T ss_pred EEEcCCCCCCccCHHHHHHHHHHHHhCCCCEEEEEECCC
Confidence 999999999999999999999999988999999999975
No 14
>cd08072 MPN_archaeal Mov34/MPN/PAD-1 family: archaeal JAB1/MPN/Mov34 metalloenzyme. This family contains only archaeal MPN (also known as Mov34, PAD-1, JAMM, JAB, MPN+)-like domains. These domains contain the signature JAB1/MPN/Mov34 metalloenzyme (JAMM) motif, EXnHS/THX7SXXD, which is involved in zinc ion coordination and provides the active site for isopeptidase activity for the release of ubiquitin from ubiquitinated proteins (thus having deubiquitinating (DUB) activity) that are tagged for degradation. The JAMM proteins likely hydrolyze ubiquitin conjugates in a manner similar to thermolysin, in which the zinc-polarized aqua ligand serves as the nucleophile, compared with the classical DUBs that do so with a cysteine residue in the active site.
Probab=99.79 E-value=1.6e-18 Score=150.75 Aligned_cols=110 Identities=21% Similarity=0.186 Sum_probs=81.6
Q ss_pred ECHHHHHHHHHHHccCCCceeEEEEeeeecCCCCceeEEEEEeeecCCCCCCCCCceecCHHHHHHHHHHHHHHhhhcCC
Q 014126 8 MSEDVWLTCLTHALSTETEEIMGLLLGDIEHSKNGNVTALIWGASPQSRSDRRKDRVETNPEQLAAASAQADRMTVLTGR 87 (430)
Q Consensus 8 Is~~Vll~Il~HA~s~~P~EVCGLLlG~~~~d~~g~vv~~It~a~P~~nsd~s~drfEIDPEql~aAq~eAeel~r~~~r 87 (430)
|+..++..|++||++++|+||||||+|... .|+..+|..|.......+.++.+ +. ..
T Consensus 1 i~~~~~~~i~~ha~~~~P~E~CGlL~G~~~---------~v~~~~~~~n~~~~~~~~~f~~~--------~~------~~ 57 (117)
T cd08072 1 ISRDLLDSILEAAKSSHPNEFAALLRGKDG---------VITELLILPGTESGEVSAVFPLL--------ML------PL 57 (117)
T ss_pred CCHHHHHHHHHHHhhcCCceEEEEEEeecc---------EEEEEEECCCCCCCCcceeechH--------Hh------cC
Confidence 578899999999999999999999999642 13344555554333333333321 22 27
Q ss_pred CceEEEEEecCCCCCCCCCHHHHHHHHHHhhhCCCcEEEEEcCCCCCccccCceEEEEEEeeCC
Q 014126 88 TTRVIGWYHSHPHITVLPSHVDVRTQAMYQLLDTGFIGLIFSCFSEDANKVGRIQVIAFQSSDG 151 (430)
Q Consensus 88 gleVVGWYHSHP~~~a~PS~~DI~TQ~~YQ~~~p~~V~LIvSp~~~d~s~~G~i~lrAFRl~dg 151 (430)
++++||.|||||+.+++||..|++ ++.+++.+|+|+++-.+ ...++||.+..+
T Consensus 58 g~~ivgi~HSHP~~~~~PS~~D~~-----~~~~~~~~~lIvs~~~~------~~~~~a~~~~g~ 110 (117)
T cd08072 58 DMSIVGSVHSHPSGSPRPSDADLS-----FFSKTGLVHIIVGYPYD------EDDWRAYDSDGE 110 (117)
T ss_pred CCeEEEEEEcCCCCCCCCCHHHHH-----hhhcCCCEEEEEECcCC------CCCEEEEecCCC
Confidence 899999999999999999999987 45678999999996432 246899988554
No 15
>cd08057 MPN_euk_non_mb Mpr1p, Pad1p N-terminal (MPN) domains without catalytic isopeptidase activity (non metal-binding); eukaryotic. This family contains MPN (also known as Mov34, PAD-1, JAMM, JAB, MPN+) domains variants lacking key residues in the JAB1/MPN/Mov34 metalloenzyme (JAMM) motif and are unable to coordinate a metal ion. Comparisons of key catalytic and metal binding residues explain why the MPN-containing proteins Rpn7/PSMD7, Rpn8/PSMD8, CSN6, Prp8p, and the translation initiation factor 3 subunits f and h do not show catalytic isopeptidase activity. It has been proposed that the MPN domain in these proteins has a primarily structural function. Rpn7 is known to be critical for the integrity of the 26S proteasome complex by establishing a correct lid structure. It is necessary for the incorporation/anchoring of Rpn3 and Rpn12 to the lid and essential for viability and normal mitosis. CSN6 is a highly conserved protein complex with diverse functions, including several import
Probab=99.68 E-value=1.3e-15 Score=137.75 Aligned_cols=136 Identities=14% Similarity=0.242 Sum_probs=105.5
Q ss_pred EEECHHHHHHHHHHHccCC--CceeEEEEeeeecCCCCceeEEEEEeeecCCCCCCCCCceecCHHHHHHHHHHHHHHhh
Q 014126 6 VKMSEDVWLTCLTHALSTE--TEEIMGLLLGDIEHSKNGNVTALIWGASPQSRSDRRKDRVETNPEQLAAASAQADRMTV 83 (430)
Q Consensus 6 V~Is~~Vll~Il~HA~s~~--P~EVCGLLlG~~~~d~~g~vv~~It~a~P~~nsd~s~drfEIDPEql~aAq~eAeel~r 83 (430)
|.|++.|+++|++|+.+.. +.+++|+|+|...++ .+.|+.+||++-.+ ..+.+.+|.+ ++++|.++.+
T Consensus 1 V~ihplvll~I~dh~~R~~~~~~~v~G~LlG~~~~~-----~veV~nsF~lp~~~-~~~~~~~d~~----y~~~m~~~~~ 70 (157)
T cd08057 1 VQLHPLVLLNISDHYTRRKYGIKRVIGVLLGYVDGD-----KIEVTNSFELPFDE-EEESIFIDTE----YLEKRYNLHK 70 (157)
T ss_pred CEEccHHHhhHHHHHHhccCCCCeEEEEEEeEEeCC-----EEEEEEeEEccccC-CCcchhhhHH----HHHHHHHHHH
Confidence 5799999999999998877 899999999998754 45678888776532 2233445544 4567778888
Q ss_pred hcCCCceEEEEEecCCCCCCCCCHHHHHHHHHHhhh-CCCcEEEEEcCCCCCccccCceEEEEEEeeCCCc
Q 014126 84 LTGRTTRVIGWYHSHPHITVLPSHVDVRTQAMYQLL-DTGFIGLIFSCFSEDANKVGRIQVIAFQSSDGKQ 153 (430)
Q Consensus 84 ~~~rgleVVGWYHSHP~~~a~PS~~DI~TQ~~YQ~~-~p~~V~LIvSp~~~d~s~~G~i~lrAFRl~dg~~ 153 (430)
+++.+..+|||||+||.....++..|...+..|... .+..++|++||... +..+.+.++||++..+..
T Consensus 71 ~v~~~~~vVGWY~~~~~~~~~~~~~~~~i~~~~~~~~~~~~v~L~~D~~~~--~~~~~l~i~ay~~~~~~~ 139 (157)
T cd08057 71 KVYPQEKIVGWYSIGSNNSNEISKSDNSLHSQFSLISEENPLILILDPSLQ--SDSEKLEISTFTSAQREE 139 (157)
T ss_pred HhCCCCCEEEEEeecCCCCCCCChhHHHHHHHHHhccCCCCEEEEEcCCcc--cCCCcccEEEEEEecCCC
Confidence 999999999999999988777888887777766544 57789999999642 245789999999986543
No 16
>KOG1560 consensus Translation initiation factor 3, subunit h (eIF-3h) [Translation, ribosomal structure and biogenesis]
Probab=99.67 E-value=3e-16 Score=153.88 Aligned_cols=140 Identities=19% Similarity=0.205 Sum_probs=112.4
Q ss_pred cccEEEECHHHHHHHHHHHccCCCc--eeEEEEeeeecCCCCceeEEEEEeeecCCCCCC-CCCcee--cCHHHHHHHHH
Q 014126 2 SLTGVKMSEDVWLTCLTHALSTETE--EIMGLLLGDIEHSKNGNVTALIWGASPQSRSDR-RKDRVE--TNPEQLAAASA 76 (430)
Q Consensus 2 ~l~~V~Is~~Vll~Il~HA~s~~P~--EVCGLLlG~~~~d~~g~vv~~It~a~P~~nsd~-s~drfE--IDPEql~aAq~ 76 (430)
++++|.|+..++++|++||++..++ -|.|+|+|.+.++ ..+|+.|||.+.... ..+.+. ...++.-..+.
T Consensus 11 ~vk~v~ldsLvVMkiiKHc~ee~~n~d~~~GvL~Glvvd~-----~LeITncFp~p~~~~~edda~~~~~~de~rq~~~l 85 (339)
T KOG1560|consen 11 PVKRVELDSLVVMKIIKHCREEFPNGDGTQGVLLGLVVDG-----RLEITNCFPFPSVLENEDDAVNKSVSDEARQAYQL 85 (339)
T ss_pred ccceeeehhHHHHHHHHHHHhhcCCcchhhheeeeeeecc-----eeEeecccCCCccCCCccchhhhhhhHHHHHHHHH
Confidence 6899999999999999999998776 4889999998865 478999998775311 111111 11222224455
Q ss_pred HHHHHhhhcCCCceEEEEEecCCCCCCCCCHHHHHHHHHHhhhCCCcEEEEEcCCCCCccccCceEEEEEEeeC
Q 014126 77 QADRMTVLTGRTTRVIGWYHSHPHITVLPSHVDVRTQAMYQLLDTGFIGLIFSCFSEDANKVGRIQVIAFQSSD 150 (430)
Q Consensus 77 eAeel~r~~~rgleVVGWYHSHP~~~a~PS~~DI~TQ~~YQ~~~p~~V~LIvSp~~~d~s~~G~i~lrAFRl~d 150 (430)
+|.+.++.++.+...||||.||- ++.+.|+.-+++|+.||.+.|+.|.+|+||.. +.+|.+.+||||++.
T Consensus 86 ~mlrrlr~vnid~~hVGwYqs~~-vgs~lS~~lveSqy~YQ~a~pesVvliYD~~k---ssqG~L~lrAyrLTp 155 (339)
T KOG1560|consen 86 AMLRRLRYVNIDHLHVGWYQSAY-VGSFLSPALVESQYAYQKAIPESVVLIYDPIK---SSQGTLSLRAYRLTP 155 (339)
T ss_pred HHHHHhhhcCccceeeeeeeeeh-hccccCHHHHHHHHHHHhcCCccEEEEecccc---ccCceEEeehhhcCH
Confidence 66667788999999999999995 67899999999999999999999999999974 688999999999976
No 17
>COG1310 Predicted metal-dependent protease of the PAD1/JAB1 superfamily [General function prediction only]
Probab=99.67 E-value=6.5e-16 Score=136.14 Aligned_cols=104 Identities=30% Similarity=0.358 Sum_probs=77.3
Q ss_pred EEECHHHHHHHHHHHccCCCceeEEEEeeeecCCCCceeEEEEEeeecCCCCCC-CCCceecCHHHHHHHHHHHHHHhhh
Q 014126 6 VKMSEDVWLTCLTHALSTETEEIMGLLLGDIEHSKNGNVTALIWGASPQSRSDR-RKDRVETNPEQLAAASAQADRMTVL 84 (430)
Q Consensus 6 V~Is~~Vll~Il~HA~s~~P~EVCGLLlG~~~~d~~g~vv~~It~a~P~~nsd~-s~drfEIDPEql~aAq~eAeel~r~ 84 (430)
+.|+..++..|+.||.+++|.|+||+|+|...+. . .+++.|.+. ....+.++++... +...++.
T Consensus 2 ~~i~~~~l~~il~~a~~~~p~E~~g~l~~~~~~~--------~--~~~~~n~~~~~~~~~~~~~~~~~-~~~~~~~---- 66 (134)
T COG1310 2 LVIPKEVLGAILEHARREHPREVCGLLAGTREGE--------R--YFPLKNVSVEPVEYFEIDPEYSL-FYLAAED---- 66 (134)
T ss_pred ceecHHHHHHHHHHHHhcCChheEEEEEeecccc--------e--eeccccccCCcceeEeeCHHHHH-HHHHHhh----
Confidence 5789999999999999999999999999987651 1 123344432 3445777777554 4555543
Q ss_pred cCCCceEEEEEecCCCCCCCCCHHHHHHHHHHhhhCCCcEEEEEcCC
Q 014126 85 TGRTTRVIGWYHSHPHITVLPSHVDVRTQAMYQLLDTGFIGLIFSCF 131 (430)
Q Consensus 85 ~~rgleVVGWYHSHP~~~a~PS~~DI~TQ~~YQ~~~p~~V~LIvSp~ 131 (430)
.++.+||||||||+++++||..|++ +|.. .+..|+|++..
T Consensus 67 --~g~~vvg~yHSHP~~~~~pS~~D~~----~~~~-~~~~~~iv~~~ 106 (134)
T COG1310 67 --AGEVVVGWYHSHPGGPPYPSEADRR----LSKL-GPLPWLIVSVP 106 (134)
T ss_pred --CCCEEEEEEcCCCCCCCCcCHHHHh----hccc-cCCCEEEEEcC
Confidence 7899999999999999999999998 3333 45556666654
No 18
>PF14464 Prok-JAB: Prokaryotic homologs of the JAB domain; PDB: 1OI0_A 1R5X_B 2KKS_A 2KCQ_A.
Probab=99.59 E-value=7.8e-15 Score=122.19 Aligned_cols=93 Identities=26% Similarity=0.390 Sum_probs=64.9
Q ss_pred HHHHHHHHHHHccCCCceeEEEEeeeecCCCCceeEEEEEeeecCCCCCCCCCceecCHHHHHHHHH-HHHHHhhhcCCC
Q 014126 10 EDVWLTCLTHALSTETEEIMGLLLGDIEHSKNGNVTALIWGASPQSRSDRRKDRVETNPEQLAAASA-QADRMTVLTGRT 88 (430)
Q Consensus 10 ~~Vll~Il~HA~s~~P~EVCGLLlG~~~~d~~g~vv~~It~a~P~~nsd~s~drfEIDPEql~aAq~-eAeel~r~~~rg 88 (430)
+.++.+|+.||....|.|+||+|+|..... ...++..+ .++|.+..++.. .+. ..+
T Consensus 2 ~~~~~~i~~~~~~~~p~E~~G~L~g~~~~~-----~~~~~~~~------------~~~p~~~~~~~~~~~~------~~~ 58 (104)
T PF14464_consen 2 EEVLEQIIAHARAAYPNEACGLLLGRRDDQ-----RFIVVPNV------------NPDPRDSFRRERFEAR------ERG 58 (104)
T ss_dssp -HHHHHHHHHHHHHTTS-EEEEEEEEEECC-----EEEEEEEE------------E--HHCHHHHHH-HHH------HHT
T ss_pred HHHHHHHHHHHhhCCCCeEEEEEEEEecCC-----EEEEEeCC------------CCCcHHHHHHHhhhhh------ccc
Confidence 578999999999999999999999997332 12222211 166776666555 433 378
Q ss_pred ceEEEEEecCCCCCCCCCHHHHHHHHHHhhhCC-CcEEEEEcC
Q 014126 89 TRVIGWYHSHPHITVLPSHVDVRTQAMYQLLDT-GFIGLIFSC 130 (430)
Q Consensus 89 leVVGWYHSHP~~~a~PS~~DI~TQ~~YQ~~~p-~~V~LIvSp 130 (430)
+.+||+|||||...++||.+|+++ +... ++++||++.
T Consensus 59 ~~~vg~~HSHP~~~a~pS~~D~~~-----~~~~~~~~~iI~~~ 96 (104)
T PF14464_consen 59 LEIVGIWHSHPSGPAFPSSTDIRS-----MRDLAPPSYIIVGN 96 (104)
T ss_dssp -EEEEEEEEESSSSSS--HHHHHT-----HCCS-SCEEEEEEE
T ss_pred ceeeEEEEcCCCCCCCCCHHHHHh-----hhccCCeEEEEEeC
Confidence 999999999999999999999982 3333 789999987
No 19
>cd08062 MPN_RPN7_8 Mpr1p, Pad1p N-terminal (MPN) domains without catalytic isopeptidase activity, found in 19S proteasomal subunits Rpn7 and Rpn8. This family includes lid subunits of the 26 S proteasome regulatory particles, Rpn7 (PSMD7; proteasome 26S non-ATPase subunit 7; p44), and Rpn8 (PSMD8; proteasome 26S non-ATPase subunit 8; p40; Mov34). Rpn7 is known to be critical for the integrity of the 26 S proteasome complex by establishing a correct lid structure. It is necessary for the incorporation/anchoring of Rpn3 and Rpn12 to the lid and essential for viability and normal mitosis. Rpn7 and Rpn8 are ATP-independent components of the 19S regulator subunit, and contain the MPN structural motif on its N-terminal region. However, while they show a typical MPN metalloprotease fold, they lack the canonical JAMM motif, and therefore do not show catalytic isopeptidase activity. It is suggested that Rpn7 function is primarily structural.
Probab=99.58 E-value=5e-14 Score=139.46 Aligned_cols=130 Identities=12% Similarity=0.180 Sum_probs=100.4
Q ss_pred cEEEECHHHHHHHHHHHccC---CCceeEEEEeeeecCCCCceeEEEEEeeecCCCCCC--CCCceecCHHHHHHHHHHH
Q 014126 4 TGVKMSEDVWLTCLTHALST---ETEEIMGLLLGDIEHSKNGNVTALIWGASPQSRSDR--RKDRVETNPEQLAAASAQA 78 (430)
Q Consensus 4 ~~V~Is~~Vll~Il~HA~s~---~P~EVCGLLlG~~~~d~~g~vv~~It~a~P~~nsd~--s~drfEIDPEql~aAq~eA 78 (430)
++|.|++.|+++|++|+.+. .+.+|+|.|+|...++ .+.|+.+|+++..+. ....+.+|.+ ++.+|
T Consensus 1 ~~V~ihplVLl~I~dh~~R~~~~~~~~ViG~LLG~~~~~-----~veItnsF~~p~~~~~~~~~~~~~d~~----y~~~m 71 (280)
T cd08062 1 KKVVVHPLVLLSVVDHYNRVAKGTSKRVVGVLLGSWKKG-----VLDVTNSFAVPFEEDEKDPSVWFLDHN----YLENM 71 (280)
T ss_pred CeEEEehHHHHHHHHHHhhhcCCCCceEEEEEEEEEeCC-----EEEEEEeeecCccCCCCCcchhhhhHH----HHHHH
Confidence 47999999999999999764 3678999999998763 456777777654321 1112445543 45777
Q ss_pred HHHhhhcCCCceEEEEEecCCCCCCCCCHHHHHHHHHHhhhCCCcEEEEEcCCCCCccccCceEEEEEEeeC
Q 014126 79 DRMTVLTGRTTRVIGWYHSHPHITVLPSHVDVRTQAMYQLLDTGFIGLIFSCFSEDANKVGRIQVIAFQSSD 150 (430)
Q Consensus 79 eel~r~~~rgleVVGWYHSHP~~~a~PS~~DI~TQ~~YQ~~~p~~V~LIvSp~~~d~s~~G~i~lrAFRl~d 150 (430)
.++.++++.++.+||||||||.. +..|+..|..|+...+..++|+++|... .+.+.+++|....
T Consensus 72 ~~~~kkv~~~e~vVGWY~tg~~~----~~~d~~ih~~~~~~~~~pv~l~vd~~~~----~~~lpi~aY~s~~ 135 (280)
T cd08062 72 YGMFKKVNAKEKIVGWYSTGPKL----RPNDLDINELFRRYCPNPVLVIIDVRPK----DLGLPTEAYIAVE 135 (280)
T ss_pred HHHHHHhCCCCCeEEEecCCCCC----CcchHHHHHHHHHhCCCCEEEEEecCCC----CCCCceEEEEEee
Confidence 88899999999999999999973 5577888888888888889999999642 3568899998763
No 20
>cd08064 MPN_eIF3f Mpr1p, Pad1p N-terminal (MPN) domains without catalytic isopeptidase activity, found in eIF3f. Eukaryotic translation initiation factor 3 (eIF3) subunit F (eIF3F; EIF3S5; eIF3-p47; eukaryotic translation initiation factor 3, subunit 5 epsilon, 47kDa; Mov34/MPN/PAD-1 family protein) is an evolutionarily non-conserved subunit of the functional core that comprises eIF3a, eIF3b, eIF3c, eIF3e, eIF3f, and eIF3h, and contains the MPN domain. However, it lacks the canonical JAMM motif, and therefore does not show catalytic isopeptidase activity. It has been shown that eIF3f mRNA expression is significantly decreased in many human tumors including pancreatic cancer and melanoma. EIF3f is a potent inhibitor of HIV-1 replication; it mediates restriction of HIV-1 expression through several factors including the serine/arginine-rich (SR) protein 9G8, and cyclin-dependent kinase 11 (CDK11). EIF3f phosphorylation by CDK11 is important in regulating its function in translation and ap
Probab=99.55 E-value=1.3e-13 Score=134.83 Aligned_cols=129 Identities=17% Similarity=0.225 Sum_probs=97.6
Q ss_pred EEECHHHHHHHHHHHcc--CCCceeEEEEeeeecCCCCceeEEEEEeeecCCCCCCCCCceecCHHHHHHHHHHHHHHhh
Q 014126 6 VKMSEDVWLTCLTHALS--TETEEIMGLLLGDIEHSKNGNVTALIWGASPQSRSDRRKDRVETNPEQLAAASAQADRMTV 83 (430)
Q Consensus 6 V~Is~~Vll~Il~HA~s--~~P~EVCGLLlG~~~~d~~g~vv~~It~a~P~~nsd~s~drfEIDPEql~aAq~eAeel~r 83 (430)
|.|++.|+++|++|+.+ ..+..|+|.|+|...++ ...|+.+||++..+ ..+.+.+|.+. +.+|.++.+
T Consensus 1 v~ihPlVll~I~dH~~R~~~~~~~V~G~LLG~~~~~-----~veItnsF~~p~~~-~~~~~~~d~~y----~~~m~~~~k 70 (265)
T cd08064 1 VRVHPVVLFSILDSYERRNEGQERVIGTLLGTRSEG-----EVEITNCFAVPHNE-SEDQVAVDMEY----HRTMYELHQ 70 (265)
T ss_pred CEEccHHHHhHHHHHhhhcCCCcEEEEEEEEEEeCC-----EEEEEeCeecceeC-CCCeEEEcHHH----HHHHHHHHH
Confidence 57899999999999976 56789999999998763 46788888876543 23467777553 467778899
Q ss_pred hcCCCceEEEEEecCCCCCCCCCHHHHHHHHHHhhhCCCcEEEEEcCCCCCccccCceEEEEEEeeC
Q 014126 84 LTGRTTRVIGWYHSHPHITVLPSHVDVRTQAMYQLLDTGFIGLIFSCFSEDANKVGRIQVIAFQSSD 150 (430)
Q Consensus 84 ~~~rgleVVGWYHSHP~~~a~PS~~DI~TQ~~YQ~~~p~~V~LIvSp~~~d~s~~G~i~lrAFRl~d 150 (430)
+++.+..+|||||++|.. .++...+..|+.+|...+..++|++|+... .+.+.++||++..
T Consensus 71 kv~~~~~vVGWY~tg~~~--~~~~~~Ih~~~~~~~~~~~pI~L~~D~~~~----~~~l~i~ay~~~~ 131 (265)
T cd08064 71 KVNPKEVIVGWYATGSEI--TEHSALIHDYYSRECTSYNPIHLTVDTSLD----DGKMSIKAYVSSP 131 (265)
T ss_pred HhCCCCcEEeeeeCCCCC--CccHHHHHHHHHhhCCCCCCEEEEEeCCCC----CCCcceEEEEEEe
Confidence 999999999999999843 244555666555554433679999999643 2468999999865
No 21
>cd08060 MPN_UPF0172 Mov34/MPN/PAD-1 family: UPF0172 family of unknown function includes neighbor of COX4 (Noc4p). This family includes Noc4p (neighbor of COX4; neighbor of Cytochrome c Oxidase 4; nucleolar complex associated 4 homolog) which belongs to the family of unknown function, UPF0172, with MPN/JAMM-like domains. Proteins in this family are homologs of the NOC4 gene which is conserved in eukaryotic members including human, dog, mouse, rat, chicken, zebrafish, fruit fly, mosquito, S.pombe, K.lactis, E.gossypii, M.grisea, N.crassa, A.thaliana, and rice. NOC4 highly expressed in the pancreas and moderately in liver, heart, lung, kidney, brain, skeletal muscle, and placenta. This nucleolar protein forms a complex with Nop14p that mediates maturation and nuclear export of 40S ribosomal subunits. This family of eukaryotic MPN-like domains lacks the key residues that coordinate a metal ion and therefore does not show catalytic isopeptidase activity.
Probab=99.46 E-value=9.4e-13 Score=123.22 Aligned_cols=130 Identities=18% Similarity=0.204 Sum_probs=88.6
Q ss_pred ECHHHHHHHHHHHccCCCceeEEEEeeeecCCCCceeEEEEEeeecCCCCCCCCCceecCHHH---HHHHHHHHHHHhhh
Q 014126 8 MSEDVWLTCLTHALSTETEEIMGLLLGDIEHSKNGNVTALIWGASPQSRSDRRKDRVETNPEQ---LAAASAQADRMTVL 84 (430)
Q Consensus 8 Is~~Vll~Il~HA~s~~P~EVCGLLlG~~~~d~~g~vv~~It~a~P~~nsd~s~drfEIDPEq---l~aAq~eAeel~r~ 84 (430)
|+..++.+|+.||....|.||||||+|....+. ...|+.++|+.+. +|.++|.. +..+++++++
T Consensus 1 is~~ay~ki~~HA~k~p~~evcGlLlG~~~~~~----~~~V~d~vPl~h~-----~~~l~P~~Eval~~ve~~~~~---- 67 (182)
T cd08060 1 LSTLAYVKMLLHAAKYPHCAVNGLLLGKKSSGG----SVEITDAVPLFHS-----CLALAPMLEVALALVDAYCKS---- 67 (182)
T ss_pred CCHHHHHHHHHHHHHcCCchheEEEEeeecCCC----CEEEEEEEEcCCC-----ccccCHHHHHHHHHHHHHHHH----
Confidence 478899999999999877899999999976222 2457788999873 69999985 7777777765
Q ss_pred cCCCceEEEEEecCCCC-CCCCCHHHHHHHHHHhhhCCCcEEEEEcCCCCCccccCceEEEEEEeeCCCc
Q 014126 85 TGRTTRVIGWYHSHPHI-TVLPSHVDVRTQAMYQLLDTGFIGLIFSCFSEDANKVGRIQVIAFQSSDGKQ 153 (430)
Q Consensus 85 ~~rgleVVGWYHSHP~~-~a~PS~~DI~TQ~~YQ~~~p~~V~LIvSp~~~d~s~~G~i~lrAFRl~dg~~ 153 (430)
+|+.|||+|||||.. ...|+..=...-..-+...+..+.|+++-..-.. ......+..|...+++.
T Consensus 68 --~gl~IvG~Yhsh~~~~d~~~~~~a~kIadki~~~~~~a~ll~vdn~~l~~-~~~~~~~~~~~~~~~~W 134 (182)
T cd08060 68 --SGLVIVGYYQANERLDDSSPSPVAKKIADKIAENFSNACLLMVDNEKLTL-DCKGNALVVYKDKGGRW 134 (182)
T ss_pred --CCCEEEEEEecCCcccCCCCcHHHHHHHHHHHHhCCCCEEEEEeCccccc-cccCCceEEEEecCCCc
Confidence 899999999999976 3355554433323333445667777776543211 11112355566655544
No 22
>cd08059 MPN_prok_mb Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); prokaryotic. This family contains bacterial and archaeal MPN (also known as Mov34, PAD-1, JAMM, JAB, MPN+)-like domains. These catalytically active domains contain the signature JAB1/MPN/Mov34 metalloenzyme (JAMM) motif, EXnHS/THX7SXXD, which is involved in zinc ion coordination and provides the active site for isopeptidase activity for the release of ubiquitin from ubiquitinated proteins (thus having deubiquitinating (DUB) activity) that are tagged for degradation. The JAMM proteins likely hydrolyze ubiquitin conjugates in a manner similar to thermolysin, in which the zinc-polarized aqua ligand serves as the nucleophile, compared with the classical DUBs that do so with a cysteine residue in the active site.
Probab=99.45 E-value=4.6e-13 Score=112.27 Aligned_cols=93 Identities=23% Similarity=0.248 Sum_probs=68.9
Q ss_pred HHHHHHHHHHccCCCceeEEEEeeeecCCCCceeEEEEEeeecCCCCCCCCCceecCHHHHHHHHHHHHHHhhhcCCCce
Q 014126 11 DVWLTCLTHALSTETEEIMGLLLGDIEHSKNGNVTALIWGASPQSRSDRRKDRVETNPEQLAAASAQADRMTVLTGRTTR 90 (430)
Q Consensus 11 ~Vll~Il~HA~s~~P~EVCGLLlG~~~~d~~g~vv~~It~a~P~~nsd~s~drfEIDPEql~aAq~eAeel~r~~~rgle 90 (430)
+++..|..|+...+|.|+||+|+|..+. .+....+..+. .++++|.. .+++.+ .+..
T Consensus 1 ~~~~~i~~~~~~~~p~E~~gll~~~~~~--------~~~~~~~~~~~-----~~~~~~~~----~~~a~~------~~~~ 57 (101)
T cd08059 1 DLLKTILVHAKDAHPDEFCGFLSGSKDN--------VMDELIFLPFV-----SGSVSAVI----DLAALE------IGMK 57 (101)
T ss_pred CHHHHHHHHHHhcCChhhheeeecCCCC--------eEEEEEeCCCc-----CCccChHH----HHHHhh------CCCc
Confidence 3678899999999999999999997432 12223334332 46777765 233332 7889
Q ss_pred EEEEEecCCCCCCCCCHHHHHHHHHHhhhCCCcEEEEEcCC
Q 014126 91 VIGWYHSHPHITVLPSHVDVRTQAMYQLLDTGFIGLIFSCF 131 (430)
Q Consensus 91 VVGWYHSHP~~~a~PS~~DI~TQ~~YQ~~~p~~V~LIvSp~ 131 (430)
+||.|||||...+.||..|++ +...+...|+|++..
T Consensus 58 ~v~i~HsHP~g~~~PS~~D~~-----~~~~~~~~~iIv~~~ 93 (101)
T cd08059 58 VVGLVHSHPSGSCRPSEADLS-----LFTRFGLYHVIVCYP 93 (101)
T ss_pred EEEEEecCcCCCCCCCHHHHH-----HHHhcCCeEEEEECC
Confidence 999999999999999999998 233458899999864
No 23
>TIGR03735 PRTRC_A PRTRC system protein A. A novel genetic system characterized by six major proteins, included a ParB homolog and a ThiF homolog, is designated PRTRC, or ParB-Related,ThiF-Related Cassette. It is often found on plasmids. This protein family is designated protein A.
Probab=99.42 E-value=1.2e-12 Score=123.46 Aligned_cols=111 Identities=13% Similarity=0.113 Sum_probs=84.8
Q ss_pred EECHHHHHHHHHHHccCCCceeEEEEeeeecCCCCceeEEEEEeeecCCCCCCCCCceecCHHHHHHHHHHHHHHhhhcC
Q 014126 7 KMSEDVWLTCLTHALSTETEEIMGLLLGDIEHSKNGNVTALIWGASPQSRSDRRKDRVETNPEQLAAASAQADRMTVLTG 86 (430)
Q Consensus 7 ~Is~~Vll~Il~HA~s~~P~EVCGLLlG~~~~d~~g~vv~~It~a~P~~nsd~s~drfEIDPEql~aAq~eAeel~r~~~ 86 (430)
.|+..++.+|+.||+++.|+||||+|+|...+. ++..+|++|.+.++++|.+|+..+ .
T Consensus 74 ~Ip~~l~~~ii~hAr~~~P~EacG~Iag~~~~~--------~~r~~p~~N~~~Sp~~~~~d~~~~--------------~ 131 (192)
T TIGR03735 74 PIPASLLEEFAEAARAALPNEVAAWIVWNSETG--------SLRLAALESIEASPGHIDYRRPRL--------------D 131 (192)
T ss_pred CCCHHHHHHHHHHHHhcCCcceEEEEEEcCCCC--------EEEEEeccccccCCceEEEcchHH--------------h
Confidence 589999999999999999999999999973221 245579999999999999998732 3
Q ss_pred CCceEEEEEecCCCCCCCCCHHHHHHHHHHhhhCCCcEEEEEcCCCCCccccCceEEEEEEeeC
Q 014126 87 RTTRVIGWYHSHPHITVLPSHVDVRTQAMYQLLDTGFIGLIFSCFSEDANKVGRIQVIAFQSSD 150 (430)
Q Consensus 87 rgleVVGWYHSHP~~~a~PS~~DI~TQ~~YQ~~~p~~V~LIvSp~~~d~s~~G~i~lrAFRl~d 150 (430)
+|+.+|+.|||||..+++||.+|++ .-...--++.|+...+. +.++ -+||+.=
T Consensus 132 ~ge~lV~iyHSH~~spA~PS~tD~~-----Dd~~~~k~~~ViG~~~~-----~~p~-~~~Rl~~ 184 (192)
T TIGR03735 132 DGEHLVVDLHSHGTGSAFFSETDDA-----DDKGEVKISGVLGCLDQ-----GTPQ-AVFRLCL 184 (192)
T ss_pred CCCeEEEEEcCCCCCCCCCCcccch-----hhcCceEEEEEEEecCC-----CCce-EEEEEEe
Confidence 7899999999999999999999997 11122246666666542 2233 4567653
No 24
>KOG2880 consensus SMAD6 interacting protein AMSH, contains JAB/MPN/Mov34 domain [Signal transduction mechanisms]
Probab=99.41 E-value=1.5e-13 Score=138.60 Aligned_cols=128 Identities=27% Similarity=0.391 Sum_probs=102.0
Q ss_pred cccEEEECHHHHHHHHHHHcc--CCCceeEEEEeeeecCCCCceeEEEEEe-eecCCCCCCCCCcee-cCHHHHHHHHHH
Q 014126 2 SLTGVKMSEDVWLTCLTHALS--TETEEIMGLLLGDIEHSKNGNVTALIWG-ASPQSRSDRRKDRVE-TNPEQLAAASAQ 77 (430)
Q Consensus 2 ~l~~V~Is~~Vll~Il~HA~s--~~P~EVCGLLlG~~~~d~~g~vv~~It~-a~P~~nsd~s~drfE-IDPEql~aAq~e 77 (430)
++..|+|+.+.+.++++-|.+ ....|.||+|.|+...+ ...|+. .+|.+.. .+|.|. ++.++++.+|.+
T Consensus 250 ~lr~v~ip~~l~~~Fl~la~~NT~knlETCGiL~g~L~~n-----~f~IThliiPkQea--tsd~C~t~neeelF~vQdq 322 (424)
T KOG2880|consen 250 ILRDVHIPERLMEVFLQLAKSNTKKNLETCGILAGKLERN-----EFYITHLIIPKQEA--TSDSCNTMNEEELFEVQDQ 322 (424)
T ss_pred cceEEEecHHHHHHHHHHHhhcccccchHHHHhhhHhhcC-----cEEEEEEEeecccC--CCccccccCHHHHheeccc
Confidence 477899999999999999976 46689999999997654 234444 3466543 566666 466777666643
Q ss_pred HHHHhhhcCCCceEEEEEecCCCCCCCCCHHHHHHHHHHhhhCCCcEEEEEcCCCCCccccCceEEEEEEeeC-CCc
Q 014126 78 ADRMTVLTGRTTRVIGWYHSHPHITVLPSHVDVRTQAMYQLLDTGFIGLIFSCFSEDANKVGRIQVIAFQSSD-GKQ 153 (430)
Q Consensus 78 Aeel~r~~~rgleVVGWYHSHP~~~a~PS~~DI~TQ~~YQ~~~p~~V~LIvSp~~~d~s~~G~i~lrAFRl~d-g~~ 153 (430)
.++-.+||.|+||.-+||+|.+|+.|++.||.|.|+.+++|++|... ..+.||+.+ ++.
T Consensus 323 ---------~~L~tlGWIHTHPTQt~FmSSVDlHTHcSYQiMlPEAiAIV~aPk~~--------~tGiFrLt~~~Gm 382 (424)
T KOG2880|consen 323 ---------HELLTLGWIHTHPTQTCFMSSVDLHTHCSYQIMLPEAIAIVCAPKSK--------TTGIFRLTDPGGM 382 (424)
T ss_pred ---------ccceeeeeeecCCccchhheeccccccceeeeecchheeEEeccccC--------CcceEEecCCcch
Confidence 67899999999999999999999999999999999999999999742 466799984 444
No 25
>PLN03246 26S proteasome regulatory subunit; Provisional
Probab=99.38 E-value=1.4e-11 Score=123.55 Aligned_cols=131 Identities=15% Similarity=0.174 Sum_probs=100.9
Q ss_pred cccEEEECHHHHHHHHHHHccCCC---ceeEEEEeeeecCCCCceeEEEEEeeecCCCCCCCC--CceecCHHHHHHHHH
Q 014126 2 SLTGVKMSEDVWLTCLTHALSTET---EEIMGLLLGDIEHSKNGNVTALIWGASPQSRSDRRK--DRVETNPEQLAAASA 76 (430)
Q Consensus 2 ~l~~V~Is~~Vll~Il~HA~s~~P---~EVCGLLlG~~~~d~~g~vv~~It~a~P~~nsd~s~--drfEIDPEql~aAq~ 76 (430)
++..|.|++.|+++|++|+.+..+ ..|.|.|+|...+. .+.|+.+||++..+... ..+.+|.+ ++.
T Consensus 4 ~~~~V~vhPlVll~I~dh~~R~~~~~~~rviG~LLG~~~~~-----~ieItnsF~~p~~e~~~~~~~~~~D~~----y~~ 74 (303)
T PLN03246 4 GIEKVVVHPLVLLSIVDHYNRVAKDTRKRVVGVLLGSSFRG-----RVDVTNSFAVPFEEDDKDPSIWFLDHN----YLE 74 (303)
T ss_pred CCcEEEECcHHHHHHHHHHHhccCCCCCeeEEEEEeeecCC-----EEEEEeccccCcccCCCCccceeecHH----HHH
Confidence 678899999999999999987654 44999999998653 46788888776543222 23667743 467
Q ss_pred HHHHHhhhcCCCceEEEEEecCCCCCCCCCHHHHHHHHHHhhhCCCcEEEEEcCCCCCccccCceEEEEEEee
Q 014126 77 QADRMTVLTGRTTRVIGWYHSHPHITVLPSHVDVRTQAMYQLLDTGFIGLIFSCFSEDANKVGRIQVIAFQSS 149 (430)
Q Consensus 77 eAeel~r~~~rgleVVGWYHSHP~~~a~PS~~DI~TQ~~YQ~~~p~~V~LIvSp~~~d~s~~G~i~lrAFRl~ 149 (430)
.|.+++++++.+..+||||++.|.. +..|+..|..|....+..++|++++.. +.+.+.+++|...
T Consensus 75 ~m~~~~k~V~~~~~vVGWY~tg~~i----~~~d~~IH~~~~~~~~~Pv~L~vD~~~----~~~~lpi~aY~s~ 139 (303)
T PLN03246 75 SMFGMFKRINAKEHVVGWYSTGPKL----RENDLDIHELFNDYVPNPVLVIIDVQP----KELGIPTKAYYAV 139 (303)
T ss_pred HHHHHHHHhCCCCcEEeeecCCCCC----CcchHHHHHHHHhhCCCCeEEEEecCC----CCCCCceEEEEEE
Confidence 7888999999999999999998764 445677778787777888999999853 2356889999975
No 26
>cd08063 MPN_CSN6 Mpr1p, Pad1p N-terminal (MPN) domains without catalytic isopeptidase activity, found in COP9 signalosome complex subunit 6. CSN6 (COP9 signalosome subunit 6; COP9 subunit 6; MOV34 homolog, 34 kD) is one of the eight subunits of COP9 signalosome, a highly conserved protein complex with diverse functions, including several important intracellular pathways such as the ubiquitin/proteasome system, DNA repair, cell cycle, developmental changes, and some aspects of immune responses. CSN6 is an MPN-domain protein that directly interacts with the MPN+-domain subunit CSN5. It is cleaved during apoptosis by activated caspases. CSN6 processing occurs in CSN/CRL (cullin-RING Ub ligase) complexes and is followed by the cleavage of Rbx1, the direct interaction partner of CSN6. CSN6 cleavage enhances CSN-mediated deneddylating activity (i.e. cleavage of ubiquitin-like protein Nedd8 (neural precursor cell expressed, developmentally downregulated 8)) in the cullin 1 in cells. The cleav
Probab=99.35 E-value=1.7e-11 Score=121.55 Aligned_cols=131 Identities=15% Similarity=0.189 Sum_probs=97.8
Q ss_pred EEEECHHHHHHHHHHHccC----C--CceeEEEEeeeecCCCCceeEEEEEeeecCCCCCCCCCceecCHHHHHHHHHHH
Q 014126 5 GVKMSEDVWLTCLTHALST----E--TEEIMGLLLGDIEHSKNGNVTALIWGASPQSRSDRRKDRVETNPEQLAAASAQA 78 (430)
Q Consensus 5 ~V~Is~~Vll~Il~HA~s~----~--P~EVCGLLlG~~~~d~~g~vv~~It~a~P~~nsd~s~drfEIDPEql~aAq~eA 78 (430)
.|.|++.|+++|++|+.+. . +..|+|.|+|..++. .+.|+.+||++..+...+.+.+|.+. ++.|
T Consensus 2 ~V~lHPlVll~I~dH~~R~~~~~~~~~~~v~G~LLG~~~~~-----~veItnsF~~p~~~~~~~~~~id~~y----~~~m 72 (288)
T cd08063 2 SVKLHPLVILNISDHITRHRAQSQSEPPRVVGALLGQQDGR-----EIEIENSFELKYDTNEDGEIVLDKEF----LETR 72 (288)
T ss_pred eEEEecceeeeHHhhHhHHhccCCCCCCcEEEEEEEEEcCC-----EEEEEEEEecccccCCCCceeeCHHH----HHHH
Confidence 5899999999999999772 2 678999999987653 35677777766543222456677553 5677
Q ss_pred HHHhhhcCCCceEEEEEecCCCCCCCCCHHHHHHHHHHhhhCCCcEEEEEcCCCCCccccCceEEEEEEee
Q 014126 79 DRMTVLTGRTTRVIGWYHSHPHITVLPSHVDVRTQAMYQLLDTGFIGLIFSCFSEDANKVGRIQVIAFQSS 149 (430)
Q Consensus 79 eel~r~~~rgleVVGWYHSHP~~~a~PS~~DI~TQ~~YQ~~~p~~V~LIvSp~~~d~s~~G~i~lrAFRl~ 149 (430)
.++.++++.++.+||||++.|. + |...|...+..|....+..++|++||... .+.+.+.++||+..
T Consensus 73 ~~~~kkV~~~~~vVGWY~tg~~-~--~~~~~~~Ih~~~~~~~~~pv~L~~D~~~~--~~~~~lpi~ay~s~ 138 (288)
T cd08063 73 LEQFKQVFKDLDFVGWYTTGPG-G--PTESDLPIHKQILEINESPVLLLLDPEAN--ASGKDLPVTIYESV 138 (288)
T ss_pred HHHHHHhccCCceEEEEecCCC-C--CCHHHHHHHHHHHhhCCCcEEEEEccccc--cCCCCCceeEEEEE
Confidence 7888999999999999999987 3 44555555555555566789999999642 14567899999975
No 27
>TIGR02256 ICE_VC0181 integrative and conjugative element protein, VC0181 family. This uncharacterized protein is found in several Proteobacteria, among them Rhizobium sp. NGR234, Vibrio cholerae, Myxococcus xanthus, and E. coli strain ECOR31. In the latter, it is part of an integrative and conjugative element that is readily induced to excise and circularize.
Probab=99.04 E-value=3.8e-09 Score=94.68 Aligned_cols=111 Identities=23% Similarity=0.248 Sum_probs=71.3
Q ss_pred HHHHHHHHHcc-CCCceeEEEEeeeecCCCCceeEEEEEeee-cCCCCCCCCCceecCHHHHHHHHHHHHHHhhhcCCCc
Q 014126 12 VWLTCLTHALS-TETEEIMGLLLGDIEHSKNGNVTALIWGAS-PQSRSDRRKDRVETNPEQLAAASAQADRMTVLTGRTT 89 (430)
Q Consensus 12 Vll~Il~HA~s-~~P~EVCGLLlG~~~~d~~g~vv~~It~a~-P~~nsd~s~drfEIDPEql~aAq~eAeel~r~~~rgl 89 (430)
|+..|..|.+. ..+.|.||+|+|...+. . ..|+.+. |....-+++.+|..+.+.. ++...+..+..+..+
T Consensus 2 v~~~~~~~~Q~~~~~~EtGGiLiG~~~~~-~----~ii~~~t~P~p~d~~tr~~F~r~~~~~---q~~i~~~~~~s~g~~ 73 (131)
T TIGR02256 2 VVAMLKSYRQWHDLSTETGGVLIGERRGA-H----AVITKISEPGSGDIRTRKRFSRDGEHH---QSEVDEHFEVSGGVD 73 (131)
T ss_pred HHHHHHHHHhCcCCCCccceEEEEEEcCC-c----EEEEEEEcCCCCcccCceEEEeCcHHH---HHHHHHHHHHhCCce
Confidence 45566666665 46889999999998754 1 2233333 4433223445566554432 333444555556669
Q ss_pred eEEEEEecCCCCCCCCCHHHHHHHHHHhhhCCCcEEEEEcC
Q 014126 90 RVIGWYHSHPHITVLPSHVDVRTQAMYQLLDTGFIGLIFSC 130 (430)
Q Consensus 90 eVVGWYHSHP~~~a~PS~~DI~TQ~~YQ~~~p~~V~LIvSp 130 (430)
..||-|||||...+.||.+|+.+....-.....++.||+.-
T Consensus 74 ~ylGeWHtHP~~~p~PS~~D~~~~~~~~~~~~~~l~iIvG~ 114 (131)
T TIGR02256 74 TYLGEWHTHPEDQPEPSWTDRRSWRTIIRSPEAMLLLIVGR 114 (131)
T ss_pred EEEEecCcCCCCCCCCCHHHHHHHHHHHhCCCeeEEEEEcC
Confidence 99999999999999999999997774422233456666654
No 28
>KOG1556 consensus 26S proteasome regulatory complex, subunit RPN8/PSMD7 [Posttranslational modification, protein turnover, chaperones]
Probab=99.01 E-value=3.1e-09 Score=103.69 Aligned_cols=118 Identities=18% Similarity=0.256 Sum_probs=90.4
Q ss_pred cccEEEECHHHHHHHHHHHccCCC---ceeEEEEeeeecCCCCceeEEEE--EeeecCCCCCCCCCceecCHHHHHHHHH
Q 014126 2 SLTGVKMSEDVWLTCLTHALSTET---EEIMGLLLGDIEHSKNGNVTALI--WGASPQSRSDRRKDRVETNPEQLAAASA 76 (430)
Q Consensus 2 ~l~~V~Is~~Vll~Il~HA~s~~P---~EVCGLLlG~~~~d~~g~vv~~I--t~a~P~~nsd~s~drfEIDPEql~aAq~ 76 (430)
++++|.+.+.+++..++|..+... ..|.|+|+|.++++ +..| +||.|...-++...-+.+|... .+
T Consensus 7 ~~~kViVhPLVLLS~VDhynR~~k~~~KRvvGvLLG~~~~~-----~i~vtnSfAvpFeEDdk~~svWFlDh~Y----~e 77 (309)
T KOG1556|consen 7 TVEKVIVHPLVLLSAVDHYNRVGKDTNKRVVGVLLGSWNGD-----VIDVTNSFAVPFEEDDKDKSVWFLDHNY----IE 77 (309)
T ss_pred ccceeeeehhHHHHHHHHHhhhccCcCceEEEEEEecCCCC-----eEEeecceeccccccCCCCceEEeccHH----HH
Confidence 567899999999999999987544 78999999998765 2334 4778887665555555667664 35
Q ss_pred HHHHHhhhcCCCceEEEEEecCCCCCCCCCHHHHHHHHHHhhhCCCcEEEEEcCCC
Q 014126 77 QADRMTVLTGRTTRVIGWYHSHPHITVLPSHVDVRTQAMYQLLDTGFIGLIFSCFS 132 (430)
Q Consensus 77 eAeel~r~~~rgleVVGWYHSHP~~~a~PS~~DI~TQ~~YQ~~~p~~V~LIvSp~~ 132 (430)
.|-.|+++++..+.+|||||+-|.. +++..||. ..+..+.|..+.+|+++.-
T Consensus 78 sM~~mfkKvNakekivGWYhTGPkl--~~nDl~In--~l~k~y~pnpvLvIIdvkp 129 (309)
T KOG1556|consen 78 SMFGMFKKVNAKEKVVGWYHTGPKL--RENDLDIN--ELLKRYVPNPVLVIIDVKP 129 (309)
T ss_pred HHHHHHHHhcchhheeeeeccCCcc--ccchhhHH--HHHhhcCCCceEEEEeccc
Confidence 5667899999999999999999864 45666665 4445567889999999864
No 29
>cd08056 MPN_PRP8 Mpr1p, Pad1p N-terminal (MPN) domains without isopeptidase activity found in splicing factor Prp8. Members of this family are found in pre-mRNA-processing factor 8 (Prp8) which is a critical splicing factor, interacting with several other spliceosomal proteins, snRNAs, and the pre-mRNA, thus organizing and stabilizing the spliceosome catalytic core. Prp8 is one of the largest and most highly conserved of nuclear proteins, occupying a central position in the catalytic core of the spliceosome. Its C-terminal domain exhibits a JAB1/MPN-like core similar to deubiquitinating enzymes, but does not show catalytic isopeptidase activity, possibly because the putative isopeptidase center is covered by insertions and terminal appendices that are grafted onto this core, thus impairing the metal binding site. It is proposed that this domain is a protein interaction domain instead of a Zn(2+)-dependent metalloenzyme as proposed for some MPN proteins. The DEAD-box protein Brr2 and t
Probab=98.87 E-value=3.3e-08 Score=97.13 Aligned_cols=126 Identities=15% Similarity=0.124 Sum_probs=91.9
Q ss_pred EEEECHHHHHHHHHHHccCCCceeEEEEeeeecCCCCceeEEEEEe-eecCCCCCCCCCceecCHHHHHHHHHHHHHHhh
Q 014126 5 GVKMSEDVWLTCLTHALSTETEEIMGLLLGDIEHSKNGNVTALIWG-ASPQSRSDRRKDRVETNPEQLAAASAQADRMTV 83 (430)
Q Consensus 5 ~V~Is~~Vll~Il~HA~s~~P~EVCGLLlG~~~~d~~g~vv~~It~-a~P~~nsd~s~drfEIDPEql~aAq~eAeel~r 83 (430)
.+.|+..++.+++.-|.. ..++||+|.|....+... +.+|.. ++|-+. +..+.+.+..+. .. .+.
T Consensus 37 t~vlPknllkkFi~iaD~--rtQ~~GyLyG~~~~d~~~--vkeI~cIvipPQ~--gt~~sv~l~~~~-~~--~~~----- 102 (252)
T cd08056 37 TYILPKNLLKKFISISDL--RTQIAGYLYGKSPPDNPQ--VKEIRCIVLVPQL--GTHQTVTLPQQL-PQ--HEY----- 102 (252)
T ss_pred EEEeCHHHHHHHHHHhhh--cceEEEEEeccCCCCCCC--eEEEEEEEECCEe--CCcCcEECCccC-cc--chh-----
Confidence 478999999999988854 469999999997654322 223432 233221 234566664331 11 111
Q ss_pred hcCCCceEEEEEecCCCCCCCCCHHHHHHHHHHhhhCC-----CcEEEEEcCCCCCccccCceEEEEEEeeCCC
Q 014126 84 LTGRTTRVIGWYHSHPHITVLPSHVDVRTQAMYQLLDT-----GFIGLIFSCFSEDANKVGRIQVIAFQSSDGK 152 (430)
Q Consensus 84 ~~~rgleVVGWYHSHP~~~a~PS~~DI~TQ~~YQ~~~p-----~~V~LIvSp~~~d~s~~G~i~lrAFRl~dg~ 152 (430)
-.+++.+||.|+||.-.++.|..|+.+|+.||.+.| .+|.+++++. .|.+.+.||++++.+
T Consensus 103 --l~~Le~LGWIHTqp~e~~~Lss~Dv~tha~~~~~~~~w~~~~~V~it~Sft------pGs~sl~ay~LT~~G 168 (252)
T cd08056 103 --LEDLEPLGWIHTQPNELPQLSPQDVTTHAKILADNPSWDGEKTVILTCSFT------PGSCSLTAYKLTPEG 168 (252)
T ss_pred --hCCCEeeEEEEcCCCCccccCHHHHHHHHHHHHhccccCCCcEEEEEEcCC------CCceEEEEEecCHHH
Confidence 268999999999999999999999999999998877 5888888875 378999999998644
No 30
>PF03665 UPF0172: Uncharacterised protein family (UPF0172); InterPro: IPR005366 This is a small family of proteins of unknown function.
Probab=98.10 E-value=8.3e-05 Score=70.81 Aligned_cols=117 Identities=21% Similarity=0.239 Sum_probs=76.9
Q ss_pred cEEEECHHHHHHHHHHHccCCCceeEEEEeeeecCCCCceeEEEEEeeecCCCCCCCCCceecCHHHHHHHHHHHHHHhh
Q 014126 4 TGVKMSEDVWLTCLTHALSTETEEIMGLLLGDIEHSKNGNVTALIWGASPQSRSDRRKDRVETNPEQLAAASAQADRMTV 83 (430)
Q Consensus 4 ~~V~Is~~Vll~Il~HA~s~~P~EVCGLLlG~~~~d~~g~vv~~It~a~P~~nsd~s~drfEIDPEql~aAq~eAeel~r 83 (430)
..|.|+..++.+|+-||..-...-|+|+|+|...++.. .+.|++++|+-.. ...+.|- +.-|..+++...+
T Consensus 2 ~~v~is~~AY~K~~LHaaKyP~~aVnGvLlg~~~~~~~---~v~i~DaVPLfH~-----~~~L~Pm-lEvAL~qvd~~~~ 72 (196)
T PF03665_consen 2 SSVEISSRAYAKMILHAAKYPHCAVNGVLLGKSSKSSS---EVEIVDAVPLFHH-----WLSLSPM-LEVALAQVDAYAK 72 (196)
T ss_pred ceEEEcHHHHHHHHHHhccCCCCceeeEEEeccCCCCc---eEEEeeceecccc-----ccCcchH-HHHHHHHHHHHHh
Confidence 46899999999999999995447799999999665431 2567899998642 2233442 1113333444333
Q ss_pred hcCCCceEEEEEecCCCC-CCCCCHHHHHHHHHHhhhCCCcEEEEEcCC
Q 014126 84 LTGRTTRVIGWYHSHPHI-TVLPSHVDVRTQAMYQLLDTGFIGLIFSCF 131 (430)
Q Consensus 84 ~~~rgleVVGWYHSHP~~-~a~PS~~DI~TQ~~YQ~~~p~~V~LIvSp~ 131 (430)
..|+.|||+||..... ..-|+..=.+.-..-....+..+.|+++-.
T Consensus 73 --~~gl~IvGyY~Ane~~~d~~~~~~a~kiad~I~~~~~~a~ll~idn~ 119 (196)
T PF03665_consen 73 --SNGLVIVGYYQANERLDDNSPSPVAEKIADKIAENFSDACLLMIDNK 119 (196)
T ss_pred --hCCCEEEEEEEeccccccCCCCHHHHHHHHHHHhhCCCcEEEEEECc
Confidence 3789999999998743 345666633322223345677888888754
No 31
>cd08061 MPN_NPL4 Mov34/MPN/PAD-1 family: nuclear protein localization-4 (Npl4) domain. Npl4p (nuclear protein localization-4) is identical to Hmg-CoA reductase degradation 4 (HRD4) protein and contains a domain that is part of the pfam clan MPN/Mov34-like. Npl4 plays an intermediate role between endoplasmic reticulum-associated degradation (ERAD) substrate ubiquitylation and proteasomal degradation. Npl4p associates with Cdc48p (Cdc48 in yeast and p97 or valosin-containing protein (VCP) in higher eukaryotes), the highly conserved ATPase of the AAA family, via ubiquitin fusion degradation-1 protein (Ufd1p) to form a Cdc48p-Ufd1p-Npl4p complex which then functions in the recognition of several polyubiquitin-tagged proteins and facilitates their presentation to the 26S proteasome for processive degradation. This family of eukaryotic MPN-like domains lacks the key residues that coordinate a metal ion and therefore does not show catalytic isopeptidase activity.
Probab=98.06 E-value=9.2e-05 Score=73.93 Aligned_cols=137 Identities=18% Similarity=0.254 Sum_probs=90.0
Q ss_pred ccEEEECHHHHHHHHHH-HccCCCceeEEEEeeeecCCCCc--eeEEEEEeee-cCCCCCCCCCceecCHHHHH-HHHHH
Q 014126 3 LTGVKMSEDVWLTCLTH-ALSTETEEIMGLLLGDIEHSKNG--NVTALIWGAS-PQSRSDRRKDRVETNPEQLA-AASAQ 77 (430)
Q Consensus 3 l~~V~Is~~Vll~Il~H-A~s~~P~EVCGLLlG~~~~d~~g--~vv~~It~a~-P~~nsd~s~drfEIDPEql~-aAq~e 77 (430)
+..|.+.......-... ..+.....-||+|.|.+...... .+.+.|...+ |-+. ...+.+++.++... .+.+-
T Consensus 10 Vd~vef~~~~~~~~f~~~~w~~~~~QR~G~LyG~y~~~~~~plgika~VeaIYEPPQ~--~~~d~~~~l~d~~~~~vd~i 87 (274)
T cd08061 10 VDHVEFDNPSIVEFFLYVFWRKTGQQRIGFLYGRYDEDEDVPLGIKAVVEAIYEPPQE--GTPDGFELLEDPNADTVDAI 87 (274)
T ss_pred cCEEEEecHHHHHHHHHHHHHhhcceeEEEEEEEeecccCCCCceEEEEEEEECCCcc--CCCCCeEEccchhhhHHHHH
Confidence 44566655555444444 44445678999999998765210 0122232222 3222 23467887544221 22222
Q ss_pred HHHHhhhcCCCceEEEEEecCCCC----CCCCCHHHHHHHHHHhh------hCCCcEEEEEcCCCCCccccCceEEEEEE
Q 014126 78 ADRMTVLTGRTTRVIGWYHSHPHI----TVLPSHVDVRTQAMYQL------LDTGFIGLIFSCFSEDANKVGRIQVIAFQ 147 (430)
Q Consensus 78 Aeel~r~~~rgleVVGWYHSHP~~----~a~PS~~DI~TQ~~YQ~------~~p~~V~LIvSp~~~d~s~~G~i~lrAFR 147 (430)
|. ..|++.|||.+||+.- ..++|..++.+.+.||. ....||-+|+++.. .|.+.+.|||
T Consensus 88 A~------~lGL~~VG~IfT~l~~~~~d~~~LSs~Evi~aA~~Q~~~~~g~~gskFvT~vvs~~~-----~g~i~~~ayQ 156 (274)
T cd08061 88 AA------ALGLERVGWIFTDLPREDKDGYFLSAEEVILAAKFQLKHPTGKFGSKFVTVVVTGDK-----DGQIHFEAYQ 156 (274)
T ss_pred HH------HcCCeEEEEEEecCCCCCCCceeECHHHHHHHHHHhhhcccCCcCCeEEEEEEecCC-----CCceeeeeee
Confidence 22 3799999999999976 77999999999999995 45679999999853 3789999999
Q ss_pred eeCCC
Q 014126 148 SSDGK 152 (430)
Q Consensus 148 l~dg~ 152 (430)
+++.-
T Consensus 157 vSdq~ 161 (274)
T cd08061 157 VSDQA 161 (274)
T ss_pred ecHHH
Confidence 98753
No 32
>KOG2975 consensus Translation initiation factor 3, subunit f (eIF-3f) [Translation, ribosomal structure and biogenesis]
Probab=97.82 E-value=8.7e-05 Score=73.54 Aligned_cols=128 Identities=19% Similarity=0.279 Sum_probs=91.0
Q ss_pred EEEECHHHHHHHHHHHcc--CCCceeEEEEeeeecCCCCceeEEEEEeeecCCCCCCCCCceecCHHHHHHHHHHHHHHh
Q 014126 5 GVKMSEDVWLTCLTHALS--TETEEIMGLLLGDIEHSKNGNVTALIWGASPQSRSDRRKDRVETNPEQLAAASAQADRMT 82 (430)
Q Consensus 5 ~V~Is~~Vll~Il~HA~s--~~P~EVCGLLlG~~~~d~~g~vv~~It~a~P~~nsd~s~drfEIDPEql~aAq~eAeel~ 82 (430)
.|.|.+.++..|++|..+ ...+.|+|-|+|..++. ..+|+.||-.+..+ ..+.+++|-+ +..+|-++.
T Consensus 22 tv~ihP~Vlf~ivD~~~RR~~~~~rviGTLLG~~~~g-----~ieitNCFaVPhnE-ssdqvevdm~----y~~~M~~l~ 91 (288)
T KOG2975|consen 22 TVRLHPVVLFSIVDAYERRNKGAERVIGTLLGTVDKG-----SVEVTNCFAVPHNE-SSDQVEVDME----YAKNMYELH 91 (288)
T ss_pred eEEEcceEEeEeehhhhcCCccchhhhhheeecccCC-----eEEEEEeeeccCcc-ccccceeeHH----HHHHHHHHh
Confidence 588999999999988854 34467999999998743 34566555333322 2367777754 345566778
Q ss_pred hhcCCCceEEEEEecCCCCCCCCCHHHHHHHHHHhhhCCCcEEEEEcCCCCCccccCceEEEEEEeeC
Q 014126 83 VLTGRTTRVIGWYHSHPHITVLPSHVDVRTQAMYQLLDTGFIGLIFSCFSEDANKVGRIQVIAFQSSD 150 (430)
Q Consensus 83 r~~~rgleVVGWYHSHP~~~a~PS~~DI~TQ~~YQ~~~p~~V~LIvSp~~~d~s~~G~i~lrAFRl~d 150 (430)
++.+.+..+||||-+-++.+..-|- .|--|-.-.++++.|-+|..- +.|+..+|||-.+.
T Consensus 92 ~k~npnE~vvGWyaTg~dvt~~ssl----ihdyYare~~~pvhLtVDT~~----~n~rm~ikaYvss~ 151 (288)
T KOG2975|consen 92 KKVNPNELVVGWYATGHDVTEHSSL----IHDYYAREAPNPVHLTVDTSL----QNGRMSIKAYVSSL 151 (288)
T ss_pred cccCCCceeEEEEecCCCcccchhH----HHHHhhccCCCCeEEEEeccc----cCCccceeEEEEec
Confidence 8899999999999998887765443 233443345778999998642 35788999998765
No 33
>PF05021 NPL4: NPL4 family; InterPro: IPR007717 The HRD4 gene is identical to NPL4, a gene previously implicated in nuclear transport. Using a diverse set of substrates and direct ubiquitination assays, analysis revealed that HRD4/NPL4 is required for a poorly characterised step in ER-associated degradation following ubiquitination of target proteins but preceding their recognition by the 26S proteasome []. Npl4p physically associates with Cdc48p via Ufd1p to form a Cdc48p-Ufd1p-Npl4p complex. The Cdc48-Ufd1-Npl4 complex functions in the recognition of several polyubiquitin-tagged proteins and facilitates their presentation to the 26S proteasome for processive degradation or even more specific processing [].
Probab=96.88 E-value=0.016 Score=58.88 Aligned_cols=112 Identities=20% Similarity=0.262 Sum_probs=74.6
Q ss_pred EEEEeeeecCCCCc--eeEEEEEeee-cCCCCCCCCCceecCHHHH-HHHHHHHHHHhhhcCCCceEEEEEecCCC----
Q 014126 29 MGLLLGDIEHSKNG--NVTALIWGAS-PQSRSDRRKDRVETNPEQL-AAASAQADRMTVLTGRTTRVIGWYHSHPH---- 100 (430)
Q Consensus 29 CGLLlG~~~~d~~g--~vv~~It~a~-P~~nsd~s~drfEIDPEql-~aAq~eAeel~r~~~rgleVVGWYHSHP~---- 100 (430)
+|+|.|.++..... -+.+.|...+ |-+ ....+.+.+-+... ..+.+-|. ..|++.|||.=+|+.
T Consensus 2 ~G~LYG~Y~~~~~vplGika~VeaIYEPpQ--~~~~d~~~l~~d~~~~~vd~iA~------~lGL~rVG~IfTdl~~~~~ 73 (306)
T PF05021_consen 2 FGFLYGRYEEYDDVPLGIKAVVEAIYEPPQ--EGEPDGFTLLPDENEERVDAIAS------ALGLERVGWIFTDLTDDGS 73 (306)
T ss_pred eEEEEEEEeccCCCCCceEEEEEEEECCCc--CCCCCCEEEcCCccHHHHHHHHH------HCCCEEEEEEEecCccccc
Confidence 79999998765321 0122232222 323 23466788743321 12222222 279999999999987
Q ss_pred -----------CCCCCCHHHHHHHHHHhhhC-------------CCcEEEEEcCCCCCccccCceEEEEEEeeCCCc
Q 014126 101 -----------ITVLPSHVDVRTQAMYQLLD-------------TGFIGLIFSCFSEDANKVGRIQVIAFQSSDGKQ 153 (430)
Q Consensus 101 -----------~~a~PS~~DI~TQ~~YQ~~~-------------p~~V~LIvSp~~~d~s~~G~i~lrAFRl~dg~~ 153 (430)
-.-+.|...+.+.+.||... ..||-+|+++. ..|.+.+.|||+++.-+
T Consensus 74 ~~g~v~~~r~~~~~~LSs~Eii~aA~~Q~~~p~~~~~s~~g~fgSkFVT~vvsg~-----~~g~i~~~ayQvS~q~~ 145 (306)
T PF05021_consen 74 GDGTVKCKRHKDSYFLSSLEIIFAAKLQNKHPNPCKYSETGYFGSKFVTCVVSGD-----EEGEIHFEAYQVSNQCV 145 (306)
T ss_pred CCCceeeccccccccccHHHHHHHHHHHHhcCccccccCCCccCCeEEEEEEeCC-----CCCceeeEEeeehHHHH
Confidence 66789999999999999754 24889999884 34889999999987433
No 34
>KOG3289 consensus Uncharacterized conserved protein encoded by sequence overlapping the COX4 gene [General function prediction only]
Probab=96.46 E-value=0.066 Score=50.97 Aligned_cols=112 Identities=17% Similarity=0.215 Sum_probs=69.3
Q ss_pred EEEECHHHHHHHHHHHccCCCceeEEEEeeeecCCCCceeEEEEEeeecCCCCCCCCCceecCH-HHHHHH--HHHHHHH
Q 014126 5 GVKMSEDVWLTCLTHALSTETEEIMGLLLGDIEHSKNGNVTALIWGASPQSRSDRRKDRVETNP-EQLAAA--SAQADRM 81 (430)
Q Consensus 5 ~V~Is~~Vll~Il~HA~s~~P~EVCGLLlG~~~~d~~g~vv~~It~a~P~~nsd~s~drfEIDP-Eql~aA--q~eAeel 81 (430)
.|+|++.++.+|+-||..-...-|-|||+|...+. +. .+.|+.|+|+-.. ...+.| -+++-+ ..+..
T Consensus 3 ~veis~~aY~kmiLH~akyph~aVnGLLla~~~~k--g~-~v~itdcVPLfH~-----~laLaPmlEvAl~lId~~~~-- 72 (199)
T KOG3289|consen 3 EVEISALAYVKMILHAAKYPHAAVNGLLLAPATGK--GE-CVEITDCVPLFHS-----HLALAPMLEVALNLIDVWGA-- 72 (199)
T ss_pred ceeehhhHHHHHHHHhccCcccceeeEEEeccCCC--CC-eEEEEecchhhcc-----ccccccHHHHHHHHHHHHHH--
Confidence 58999999999999999855567999999966543 22 4568999997543 122222 333211 12222
Q ss_pred hhhcCCCceEEEEEecCCCCC-CCCCHHHHHHHHHHhhhCCCcEEEEEcC
Q 014126 82 TVLTGRTTRVIGWYHSHPHIT-VLPSHVDVRTQAMYQLLDTGFIGLIFSC 130 (430)
Q Consensus 82 ~r~~~rgleVVGWYHSHP~~~-a~PS~~DI~TQ~~YQ~~~p~~V~LIvSp 130 (430)
..|+-|+|+||+.-.+. ..|...=...-..-+..+|....|+++-
T Consensus 73 ----~~GlviaGyy~Ane~~~D~s~~~~A~kiadrIse~f~~A~ilv~dn 118 (199)
T KOG3289|consen 73 ----QAGLVIAGYYHANERVNDQSLNPVALKIADRISEFFPDAAILVLDN 118 (199)
T ss_pred ----hcCeEEEEEeecCCCccccCccHHHHHHHHHHHhhCCCCeEEEEec
Confidence 37999999999975422 2333332222222344567776666664
No 35
>KOG3050 consensus COP9 signalosome, subunit CSN6 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=94.08 E-value=0.33 Score=48.40 Aligned_cols=143 Identities=15% Similarity=0.199 Sum_probs=81.7
Q ss_pred EEEECHHHHHHHHHHHcc-----CCCc-eeEEEEeeeecCCCCceeEEEEEeeecCCCCCCCCCceecCHHHHHHHHHHH
Q 014126 5 GVKMSEDVWLTCLTHALS-----TETE-EIMGLLLGDIEHSKNGNVTALIWGASPQSRSDRRKDRVETNPEQLAAASAQA 78 (430)
Q Consensus 5 ~V~Is~~Vll~Il~HA~s-----~~P~-EVCGLLlG~~~~d~~g~vv~~It~a~P~~nsd~s~drfEIDPEql~aAq~eA 78 (430)
.|.+++.|++.|-+|--+ +.|. .|.|-|+|...+.. ++|...|-+. .+...+.-.||-+-+..-+
T Consensus 10 tv~LHPLVImniSdH~tR~k~Q~gpp~~~VyGaliG~Q~GR~-----vEi~NSFeL~-~d~~~~~~~~dke~l~kk~--- 80 (299)
T KOG3050|consen 10 TVKLHPLVIMNISDHYTRVKTQLGPPVKQVYGALIGKQRGRN-----VEIMNSFELK-MDTEEDTETIDKEYLEKKE--- 80 (299)
T ss_pred eEEeccEEEEehhHHHHHHHhhcCCcHHHhhhhheecccCce-----EEEeeeeEEE-ecchhhhhhccHHHHHHHH---
Confidence 578999999999999743 5665 79999999987642 3343222221 0111112235555443222
Q ss_pred HHHhhhcCCCceEEEEEecCCCCCCCCCHHHHHHHHHHhhhCCCcEEEEEcCCCCCccccCceEEEEE--EeeCCCccee
Q 014126 79 DRMTVLTGRTTRVIGWYHSHPHITVLPSHVDVRTQAMYQLLDTGFIGLIFSCFSEDANKVGRIQVIAF--QSSDGKQNHI 156 (430)
Q Consensus 79 eel~r~~~rgleVVGWYHSHP~~~a~PS~~DI~TQ~~YQ~~~p~~V~LIvSp~~~d~s~~G~i~lrAF--Rl~dg~~~~i 156 (430)
+..+++=.++.++|||-+- ..+.||..-| |...-......++|-..|.... +....+.+-.| .+.||....+
T Consensus 81 -eqykqVFpdl~vlGwYttG--~d~t~sd~~i--~k~l~~i~esplflkLNp~t~~-t~~~pv~lfese~dvidg~~q~~ 154 (299)
T KOG3050|consen 81 -EQYKQVFPDLYVLGWYTTG--SDPTPSDIHI--HKQLMDINESPLFLKLNPATNH-TDKDPVTLFESEIDVIDGEAQML 154 (299)
T ss_pred -HHHHHhcccceEEEEeecC--CCCChhhhHH--HHHHHhhhcCceEEEecchhcc-ccCCCceeeeeeheeecCcceee
Confidence 2355566899999999874 4455555444 4432234566788888886421 11112333333 3568776666
Q ss_pred ccceee
Q 014126 157 SKPIAL 162 (430)
Q Consensus 157 ~~pi~~ 162 (430)
=.|++-
T Consensus 155 f~~~ty 160 (299)
T KOG3050|consen 155 FVPLTY 160 (299)
T ss_pred eeeeEE
Confidence 555543
No 36
>cd08071 MPN_DUF2466 Mov34/MPN/PAD-1 family. Mov34 DUF2466 (also known as DNA repair protein RadC) domain of unknown function contains the signature JAB1/MPN/Mov34 metalloenzyme (JAMM) motif, EXnHS/THX7SXXD, which is involved in zinc ion coordination and provides the active site for isopeptidase activity. However, to date, the name RadC has been misleading and no function has been determined.
Probab=88.73 E-value=7 Score=34.09 Aligned_cols=46 Identities=22% Similarity=0.271 Sum_probs=34.7
Q ss_pred CCCceecCHHHHHHHHHHHHHHhhhcCCCceEEEEEecCCCCCCCCCHHHHHHHH
Q 014126 60 RKDRVETNPEQLAAASAQADRMTVLTGRTTRVIGWYHSHPHITVLPSHVDVRTQA 114 (430)
Q Consensus 60 s~drfEIDPEql~aAq~eAeel~r~~~rgleVVGWYHSHP~~~a~PS~~DI~TQ~ 114 (430)
..+.+.++|.++.+ .|.. .+..-|..-|.||.+.+.||..|+..-.
T Consensus 40 ~~~~~~v~~R~i~~---~aL~------~~A~~vil~HNHPsG~~~PS~~D~~~T~ 85 (113)
T cd08071 40 TLNSSLVHPREIFK---EALR------HNAAAIILAHNHPSGDPTPSREDIELTK 85 (113)
T ss_pred CCcceecCHHHHHH---HHHH------HhhheEEEEeeCCCCCCCCCHHHHHHHH
Confidence 34678889988643 2222 4557899999999999999999987443
No 37
>PF11471 Sugarporin_N: Maltoporin periplasmic N-terminal extension; InterPro: IPR021570 This N-terminal domain is found in members of the sugar porin family 1.B.3 from TC, They are related to LamB - the well characterised maltoporin of Escherichia coli for which the three-dimensional structures with and without its substrate have been obtained by X-ray diffraction. The protein consists of an 18 beta-stranded beta-barrel in contrast to proteins of the general bacterial porin family (GBP) and the Rhodobacter PorCa Porin (RPP) family which consist of 16 beta-stranded beta-barrels. Although maltoporin contains a wider beta-barrel than the porins of the GBP and RPP families (1.B.1 from TC and 1.B.7 from TC), it exhibits a narrower channel, showing only 5% of the ionic conductance of the latter porins.
Probab=75.28 E-value=3.7 Score=32.54 Aligned_cols=28 Identities=29% Similarity=0.344 Sum_probs=24.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 014126 359 ALQDRLKENEIRLAMLTDEAKSLESEAF 386 (430)
Q Consensus 359 ~l~~rl~~n~~~~~~l~~e~~~l~~~~~ 386 (430)
++|.||+.-|.||+..+.+++..|.++.
T Consensus 29 tiEqRLa~LE~rL~~ae~ra~~ae~~~~ 56 (60)
T PF11471_consen 29 TIEQRLAALEQRLQAAEQRAQAAEARAK 56 (60)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4899999999999999999999888874
No 38
>PF11471 Sugarporin_N: Maltoporin periplasmic N-terminal extension; InterPro: IPR021570 This N-terminal domain is found in members of the sugar porin family 1.B.3 from TC, They are related to LamB - the well characterised maltoporin of Escherichia coli for which the three-dimensional structures with and without its substrate have been obtained by X-ray diffraction. The protein consists of an 18 beta-stranded beta-barrel in contrast to proteins of the general bacterial porin family (GBP) and the Rhodobacter PorCa Porin (RPP) family which consist of 16 beta-stranded beta-barrels. Although maltoporin contains a wider beta-barrel than the porins of the GBP and RPP families (1.B.1 from TC and 1.B.7 from TC), it exhibits a narrower channel, showing only 5% of the ionic conductance of the latter porins.
Probab=73.92 E-value=14 Score=29.24 Aligned_cols=26 Identities=31% Similarity=0.408 Sum_probs=22.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 014126 357 ISALQDRLKENEIRLAMLTDEAKSLE 382 (430)
Q Consensus 357 ~~~l~~rl~~n~~~~~~l~~e~~~l~ 382 (430)
+..||.||++++.|++.-+.++++.+
T Consensus 34 La~LE~rL~~ae~ra~~ae~~~~~~k 59 (60)
T PF11471_consen 34 LAALEQRLQAAEQRAQAAEARAKQAK 59 (60)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 78899999999999999988888764
No 39
>PF04002 RadC: RadC-like JAB domain; InterPro: IPR001405 This family was named initially with reference to the Escherichia coli radC102 mutation which suggested that RadC was involved in repair of DNA lesions []. However the relevant mutation has subsequently been shown to be in recG, not radC []. In addition all attempts to characterise a radiation-related function for RadC in Streptococcus pneumoniae failed, suggesting that it is not involved in repair of DNA lesions, in recombination during transformation, in gene conversion, nor in mismatch repair [].; PDB: 2QLC_A.
Probab=71.02 E-value=48 Score=29.14 Aligned_cols=46 Identities=22% Similarity=0.280 Sum_probs=27.3
Q ss_pred CCCceecCHHHHHHHHHHHHHHhhhcCCCceEEEEEecCCCCCCCCCHHHHHHHH
Q 014126 60 RKDRVETNPEQLAAASAQADRMTVLTGRTTRVIGWYHSHPHITVLPSHVDVRTQA 114 (430)
Q Consensus 60 s~drfEIDPEql~aAq~eAeel~r~~~rgleVVGWYHSHP~~~a~PS~~DI~TQ~ 114 (430)
..+...++|.++++ .+.. .+..-|-..|=||.+.+.||..|+..-.
T Consensus 45 ~~~~~~v~~R~I~~---~al~------~~A~~vIl~HNHPsG~~~PS~~D~~~T~ 90 (123)
T PF04002_consen 45 TIDSAPVDPREIFR---RALR------LNASSVILAHNHPSGDPEPSDADIALTR 90 (123)
T ss_dssp TT-GGGCSHHHHHH---HHHH------TT-SEEEEEEE-TTS--S--HHHHHHHH
T ss_pred CCCcccccHHHHHH---HHHh------hCCceEEEEEEcCCCCCCCCHhHHHHHH
Confidence 44567788987643 2322 4556677899999999999999996433
No 40
>TIGR01834 PHA_synth_III_E poly(R)-hydroxyalkanoic acid synthase, class III, PhaE subunit. This model represents the PhaE subunit of the heterodimeric class (class III) of polymerase for poly(R)-hydroxyalkanoic acids (PHAs), carbon and energy storage polymers of many bacteria. The most common PHA is polyhydroxybutyrate but about 150 different constituent hydroxyalkanoic acids (HAs) have been identified in various species. This model must be designated subfamily to indicate the heterogeneity of PHAs.
Probab=65.15 E-value=31 Score=35.82 Aligned_cols=82 Identities=13% Similarity=0.200 Sum_probs=62.2
Q ss_pred CcchhhHHHhHHHHHHHHHHHHHHHHhhccCCCCCccceeeh-----hhHHHHHHHHHHHHHhhHH-------HHHHHHH
Q 014126 296 SPLTSFTDLQRVLYEEERAAYNQAIMQNMSDGKVHPLTYIHH-----TSTYQASMCKLIEYCLSPA-------ISALQDR 363 (430)
Q Consensus 296 ~~l~s~~~l~~il~~ee~~ay~~a~~q~~~~~~~~~l~~ih~-----~~~~~~~~~~~~~~~~~p~-------~~~l~~r 363 (430)
.+++++.++..+=...=.++|++++.. ..-+++|. .--|++.+-++||..|..+ |..+..|
T Consensus 225 ~~v~s~re~~d~W~~~ae~~~~e~~~S-------~efak~~G~lvna~m~lr~~~qe~~e~~L~~LnlPTRsElDe~~kr 297 (320)
T TIGR01834 225 KPVKTAKALYDLWVIAAEEAYAEVFAS-------EENAKVHGKFINALMRLRIQQQEIVEALLKMLNLPTRSELDEAHQR 297 (320)
T ss_pred CCchhHHHHHHHHHHHHHHHHHHHHcC-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHH
Confidence 357788888888777777788887722 33444443 2358899999999999887 7788899
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 014126 364 LKENEIRLAMLTDEAKSLESE 384 (430)
Q Consensus 364 l~~n~~~~~~l~~e~~~l~~~ 384 (430)
|.|-+.|++.|++++++|+++
T Consensus 298 L~ELrR~vr~L~k~l~~l~~~ 318 (320)
T TIGR01834 298 IQQLRREVKSLKKRLGDLEAN 318 (320)
T ss_pred HHHHHHHHHHHHHHHHHhhhc
Confidence 999999999998888888765
No 41
>PRK00024 hypothetical protein; Reviewed
Probab=63.26 E-value=81 Score=30.81 Aligned_cols=86 Identities=19% Similarity=0.144 Sum_probs=50.1
Q ss_pred HHHHHHHHHHHccCCCceeEEEEeeeecCCCCceeEEEEEeeecCCCCCCCCCceecCHHHHHHHHHHHHHHhhhcCCCc
Q 014126 10 EDVWLTCLTHALSTETEEIMGLLLGDIEHSKNGNVTALIWGASPQSRSDRRKDRVETNPEQLAAASAQADRMTVLTGRTT 89 (430)
Q Consensus 10 ~~Vll~Il~HA~s~~P~EVCGLLlG~~~~d~~g~vv~~It~a~P~~nsd~s~drfEIDPEql~aAq~eAeel~r~~~rgl 89 (430)
+..+...+.......+.|+.-+|.=.... .++. .. .+ ..+.-+...++|.++.+ .|.+ .+-
T Consensus 106 ~~~~~~~l~~~l~~~~~E~f~vl~Ld~~~----~li~-~~-~i----~~Gt~~~~~v~pRei~~---~Al~------~~A 166 (224)
T PRK00024 106 PEDVADYLMAELRDEEQEHFVVLFLDTKN----RVIA-DE-EL----FIGTLNSSIVHPREIVK---RALK------LNA 166 (224)
T ss_pred HHHHHHHHHHHccCCCceEEEEEEECCCC----CEee-EE-Ee----eeecCCeEEEcHHHHHH---HHHH------hhc
Confidence 33344444444455667777766533221 1111 11 11 12345678889988643 2322 344
Q ss_pred eEEEEEecCCCCCCCCCHHHHHHHH
Q 014126 90 RVIGWYHSHPHITVLPSHVDVRTQA 114 (430)
Q Consensus 90 eVVGWYHSHP~~~a~PS~~DI~TQ~ 114 (430)
.-|-.-|=||.+.+.||..|+..=.
T Consensus 167 ~~iIl~HNHPSG~~~PS~~D~~~T~ 191 (224)
T PRK00024 167 AALILAHNHPSGDPEPSQADILITK 191 (224)
T ss_pred cceEEEecCCCCCCCCCHHHHHHHH
Confidence 5667789999999999999987433
No 42
>TIGR00608 radc DNA repair protein radc. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=62.68 E-value=1.1e+02 Score=29.95 Aligned_cols=86 Identities=21% Similarity=0.201 Sum_probs=50.2
Q ss_pred CHHHHHHHHHHHccCCCceeEEEEeeeecCCCCceeEEEEEeeecCCCCCCCCCceecCHHHHHHHHHHHHHHhhhcCCC
Q 014126 9 SEDVWLTCLTHALSTETEEIMGLLLGDIEHSKNGNVTALIWGASPQSRSDRRKDRVETNPEQLAAASAQADRMTVLTGRT 88 (430)
Q Consensus 9 s~~Vll~Il~HA~s~~P~EVCGLLlG~~~~d~~g~vv~~It~a~P~~nsd~s~drfEIDPEql~aAq~eAeel~r~~~rg 88 (430)
+++.+...+.......+.|..-+|.=.... .++.. .. . ..+.-+...++|.++.+ .|.+ .+
T Consensus 99 s~~~v~~~l~~~l~~~~~E~f~vl~Ld~~n----~li~~--~~--i--~~Gt~~~~~v~pReI~~---~Al~------~~ 159 (218)
T TIGR00608 99 SPEAAAEFLHTDLAHETREHFMVLFLDRKN----RLIAK--EV--V--FIGTVNHVPVHPREIFK---EALK------LS 159 (218)
T ss_pred CHHHHHHHHHHHhcCCCceEEEEEEECCCC----cEEEE--EE--e--ecCCCCeEEEcHHHHHH---HHHH------hh
Confidence 344444555555555677777666522111 11111 11 1 12455778899988643 2322 34
Q ss_pred ceEEEEEecCCCCCCCCCHHHHHHH
Q 014126 89 TRVIGWYHSHPHITVLPSHVDVRTQ 113 (430)
Q Consensus 89 leVVGWYHSHP~~~a~PS~~DI~TQ 113 (430)
-.-|=.-|=||.+.+.||..|+..=
T Consensus 160 A~~vIlaHNHPSG~~~PS~~Di~~T 184 (218)
T TIGR00608 160 ASALILAHNHPSGEPSPSQEDILIT 184 (218)
T ss_pred CCeEEEEeecCCCCCCCCHHHHHHH
Confidence 4666778999999999999998743
No 43
>KOG2834 consensus Nuclear pore complex, rNpl4 component (sc Npl4) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=62.28 E-value=1.2e+02 Score=33.29 Aligned_cols=128 Identities=21% Similarity=0.259 Sum_probs=76.0
Q ss_pred HHHHHHHHHHHccCCCceeEEEEeeeecCCCCc--eeEEEEEeee-cCCCCCCCCCceecC--HHHHHHHHHHHHHHhhh
Q 014126 10 EDVWLTCLTHALSTETEEIMGLLLGDIEHSKNG--NVTALIWGAS-PQSRSDRRKDRVETN--PEQLAAASAQADRMTVL 84 (430)
Q Consensus 10 ~~Vll~Il~HA~s~~P~EVCGLLlG~~~~d~~g--~vv~~It~a~-P~~nsd~s~drfEID--PEql~aAq~eAeel~r~ 84 (430)
+.++..+++.-+.. -.--.|+|.|.+.+.... -+-++|.+.+ |-+ ...++.+++. +++. .+.+.|
T Consensus 182 ~~~v~~Fl~~wr~s-g~QR~GflyG~y~e~~~vPLGika~V~aIYEPPQ--~~~~dgl~l~~~~e~~-~vD~~a------ 251 (510)
T KOG2834|consen 182 AELVNHFLNEWRAS-GVQRFGFLYGRYTEHGNVPLGIKAVVAAIYEPPQ--HGEEDGLELLEDDEAK-RVDAIA------ 251 (510)
T ss_pred hHHHHHHHHHHHHh-hhhhcceEEEeecccccccccceeeEEEEecCCc--cCCcCCeEEeccchhh-hHHHHH------
Confidence 44555666555443 356779999998764321 1112233333 222 2346777775 2222 112222
Q ss_pred cCCCceEEEEEecCC---------------CCCCCCCHHHHHHHHHHhhhCCC-------------cEEEEEcCCCCCcc
Q 014126 85 TGRTTRVIGWYHSHP---------------HITVLPSHVDVRTQAMYQLLDTG-------------FIGLIFSCFSEDAN 136 (430)
Q Consensus 85 ~~rgleVVGWYHSHP---------------~~~a~PS~~DI~TQ~~YQ~~~p~-------------~V~LIvSp~~~d~s 136 (430)
.+.|++.|||.-+-- .-+.|.|..++.+-+++|...|. ||-++++--
T Consensus 252 ~~lGLrRVG~IFTDl~~~~s~egtV~~~rhkdsyFLSseE~~~aa~~Q~~hpn~~~~s~~~~fgSkfVT~visg~----- 326 (510)
T KOG2834|consen 252 EGLGLRRVGWIFTDLVTADSAEGTVHYKRHKDSYFLSSEECITAAMFQNKHPNICEWSRDGHFGSKFVTLVISGD----- 326 (510)
T ss_pred HhcCceeeEEEEeeeecccCccceEEeeeccchhcccHHHHHHHhhhhhcCCchheeeccccccceeEEEEEecC-----
Confidence 248999999975422 12358999999999999977553 555565542
Q ss_pred ccCceEEEEEEeeCCC
Q 014126 137 KVGRIQVIAFQSSDGK 152 (430)
Q Consensus 137 ~~G~i~lrAFRl~dg~ 152 (430)
..|.+.+-.||.++--
T Consensus 327 ~~~~V~f~~YQVSnqc 342 (510)
T KOG2834|consen 327 LDGEVHFEGYQVSNQC 342 (510)
T ss_pred CCcceeeeeeehhHHH
Confidence 3467889999987743
No 44
>PF15458 NTR2: Nineteen complex-related protein 2
Probab=53.31 E-value=1.1e+02 Score=30.60 Aligned_cols=78 Identities=22% Similarity=0.366 Sum_probs=43.9
Q ss_pred HHHhHHHHH-------HHHHHHHHHHHhhccCCCC--------CccceeehhhHHHHHHHHHHHHHhhHHHHHHHHHHHH
Q 014126 302 TDLQRVLYE-------EERAAYNQAIMQNMSDGKV--------HPLTYIHHTSTYQASMCKLIEYCLSPAISALQDRLKE 366 (430)
Q Consensus 302 ~~l~~il~~-------ee~~ay~~a~~q~~~~~~~--------~~l~~ih~~~~~~~~~~~~~~~~~~p~~~~l~~rl~~ 366 (430)
..+.+.+.+ ||..+|+.+....-..|.. -|+.+|=---+-...+- =|.=.+..|+.+.++
T Consensus 152 ~~i~e~I~~~~~d~~de~~~~wE~aQ~rkg~~~~~~~~~~~~~~~ip~~tpLP~L~~~~~-----rL~~~l~~le~~~~~ 226 (254)
T PF15458_consen 152 EEIEEAINDDDDDSEDEERAEWEAAQLRKGMDGLSDEKDRYKPPPIPKITPLPSLSECLE-----RLRESLSSLEDSKSQ 226 (254)
T ss_pred HHHHHHHHhcccccchhhHHHHHHHHHHhhccCCccchhccCCCCCcccCCCCchhHHHH-----HHHHHHHHHHHHHHH
Confidence 345566666 7889999977444323333 11111111111111111 122335778888888
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 014126 367 NEIRLAMLTDEAKSLESE 384 (430)
Q Consensus 367 n~~~~~~l~~e~~~l~~~ 384 (430)
...+|+.|+.|++.|...
T Consensus 227 ~~~~l~~l~~E~~~I~~r 244 (254)
T PF15458_consen 227 LQQQLESLEKEKEEIEER 244 (254)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 889999998888877653
No 45
>PF15659 Toxin-JAB1: JAB-like toxin 1
Probab=52.15 E-value=15 Score=34.68 Aligned_cols=26 Identities=31% Similarity=0.505 Sum_probs=21.8
Q ss_pred CCCceEEEEEecCCCCCCCCCHHHHHH
Q 014126 86 GRTTRVIGWYHSHPHITVLPSHVDVRT 112 (430)
Q Consensus 86 ~rgleVVGWYHSHP~~~a~PS~~DI~T 112 (430)
..+..++. +||||..+..||..|...
T Consensus 113 ~~~~~iid-iHSHP~~~~~~S~~D~~~ 138 (162)
T PF15659_consen 113 NNGNKIID-IHSHPENSNGPSGNDMKN 138 (162)
T ss_pred cCCceEEE-eccCCCCCCCCCcchhhh
Confidence 46667777 999999988999999874
No 46
>PF14220 DUF4329: Domain of unknown function (DUF4329)
Probab=51.44 E-value=13 Score=33.30 Aligned_cols=27 Identities=22% Similarity=0.391 Sum_probs=21.6
Q ss_pred CCceEEEEEecCCCCC-----CCCCHHHHHHH
Q 014126 87 RTTRVIGWYHSHPHIT-----VLPSHVDVRTQ 113 (430)
Q Consensus 87 rgleVVGWYHSHP~~~-----a~PS~~DI~TQ 113 (430)
.+..+|+.||+|.... -.||..|+..-
T Consensus 57 ~g~~~vA~yHTHG~~~~~y~~evfS~~D~~~~ 88 (123)
T PF14220_consen 57 NGSTIVASYHTHGAYSDGYDNEVFSPQDIRGD 88 (123)
T ss_pred cccceeeEeecccccCCCccccCCCHHHhhhh
Confidence 3679999999999644 47999999843
No 47
>PF14778 ODR4-like: Olfactory receptor 4-like
Probab=49.57 E-value=32 Score=35.77 Aligned_cols=68 Identities=22% Similarity=0.244 Sum_probs=39.2
Q ss_pred CCCCCccceeehhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC---CCCCCCCCCCCC
Q 014126 326 DGKVHPLTYIHHTSTYQASMCKLIEYCLSPAISALQDRLKENEIRLAMLTDEAKSLESEAFKGSD---SSLSSPHHSPSH 402 (430)
Q Consensus 326 ~~~~~~l~~ih~~~~~~~~~~~~~~~~~~p~~~~l~~rl~~n~~~~~~l~~e~~~l~~~~~~~~~---~~~~~~~~~~~~ 402 (430)
.|-++-.+++|.-.+... .+.++-.=+|.+|..|+ ++|-++...-+.+....++ ....=|||+--+
T Consensus 250 ~G~v~~rAyv~~K~sv~e----A~~alK~DIirSL~sR~-------ei~~d~l~~~~~~~~~~~~~~~~~~~lPrRv~~p 318 (362)
T PF14778_consen 250 SGSVSCRAYVHSKESVAE----AIQALKRDIIRSLSSRL-------EILCDDLEDDEEEESDSSEEEIEVHELPRRVFVP 318 (362)
T ss_pred EEEEEEEEEECCcccHHH----HHHHHHHHHHHHHHHHH-------HHHHHHhhccccccCcccccccccccCCceEEEe
Confidence 477888889988554443 45555566666776665 5565555544433322221 133578887655
Q ss_pred CC
Q 014126 403 GL 404 (430)
Q Consensus 403 ~~ 404 (430)
-.
T Consensus 319 ~~ 320 (362)
T PF14778_consen 319 WP 320 (362)
T ss_pred cC
Confidence 43
No 48
>PF13600 DUF4140: N-terminal domain of unknown function (DUF4140)
Probab=48.37 E-value=41 Score=28.27 Aligned_cols=35 Identities=34% Similarity=0.450 Sum_probs=30.9
Q ss_pred HhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 014126 352 CLSPAISALQDRLKENEIRLAMLTDEAKSLESEAF 386 (430)
Q Consensus 352 ~~~p~~~~l~~rl~~n~~~~~~l~~e~~~l~~~~~ 386 (430)
-..|.+..|++++++-+.+++.++.+.+.++++++
T Consensus 67 ~~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~ 101 (104)
T PF13600_consen 67 SDSPELKELEEELEALEDELAALQDEIQALEAQIA 101 (104)
T ss_pred cCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34678999999999999999999999999998873
No 49
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=43.68 E-value=90 Score=27.10 Aligned_cols=45 Identities=13% Similarity=0.047 Sum_probs=34.2
Q ss_pred HHHHHHHHHhhHH---------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 014126 344 SMCKLIEYCLSPA---------ISALQDRLKENEIRLAMLTDEAKSLESEAFKG 388 (430)
Q Consensus 344 ~~~~~~~~~~~p~---------~~~l~~rl~~n~~~~~~l~~e~~~l~~~~~~~ 388 (430)
-+|-++-++.-++ ...++.++++.+.+++.|+++.+.|..|+..-
T Consensus 7 vll~ll~~l~y~l~~g~~G~~~~~~l~~q~~~~~~e~~~l~~~n~~L~~eI~~L 60 (105)
T PRK00888 7 LLLALLVWLQYSLWFGKNGILDYWRVNDQVAAQQQTNAKLKARNDQLFAEIDDL 60 (105)
T ss_pred HHHHHHHHHHHHHhccCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4555666666665 45578888888999999999999999998543
No 50
>COG5509 Uncharacterized small protein containing a coiled-coil domain [Function unknown]
Probab=42.56 E-value=39 Score=27.28 Aligned_cols=26 Identities=35% Similarity=0.381 Sum_probs=21.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhcCCC
Q 014126 365 KENEIRLAMLTDEAKSLESEAFKGSD 390 (430)
Q Consensus 365 ~~n~~~~~~l~~e~~~l~~~~~~~~~ 390 (430)
.|-+.|++.|++|.+.|++|+++...
T Consensus 28 ~El~eRIalLq~EIeRlkAe~~kK~~ 53 (65)
T COG5509 28 AELEERIALLQAEIERLKAELAKKKA 53 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence 46678899999999999999977654
No 51
>PF08826 DMPK_coil: DMPK coiled coil domain like; InterPro: IPR014930 This domain is found in the myotonic dystrophy protein kinase (DMPK) and adopts a coiled coil structure. It plays a role in dimerisation []. ; GO: 0004674 protein serine/threonine kinase activity, 0005524 ATP binding, 0006468 protein phosphorylation; PDB: 1WT6_D.
Probab=42.09 E-value=69 Score=25.61 Aligned_cols=31 Identities=32% Similarity=0.314 Sum_probs=25.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 014126 356 AISALQDRLKENEIRLAMLTDEAKSLESEAF 386 (430)
Q Consensus 356 ~~~~l~~rl~~n~~~~~~l~~e~~~l~~~~~ 386 (430)
.-..++.||++-+.|...|..+.+.|+.++.
T Consensus 26 ~n~~~e~kLqeaE~rn~eL~~ei~~L~~e~e 56 (61)
T PF08826_consen 26 ANLAFESKLQEAEKRNRELEQEIERLKKEME 56 (61)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456788999999999999999999988873
No 52
>PF01621 Fusion_gly_K: Cell fusion glycoprotein K; InterPro: IPR002567 Human herpesvirus 1 (HHV-1) (Human herpes simplex virus 1) glycoprotein K (gK) plays an essential role in viral replication and cell fusion. gK is a very hydrophobic membrane protein that contains a signal sequence and several hydrophobic regions. gK contains three transmembrane domains (amino acids 125-139, 226-239, and 311-325) and another hydrophobic domain (amino acids 241-265), which is relatively less hydrophobic and much longer compared with the transmembrane sequences located in the extracellular loop. The domains may interact with each other to form a complex tertiary structure that is critical for the biological function of gK [].; GO: 0007155 cell adhesion, 0016020 membrane
Probab=40.48 E-value=30 Score=36.22 Aligned_cols=34 Identities=24% Similarity=0.487 Sum_probs=28.8
Q ss_pred hhHHHhHHHHHHHHHHHHHHHHhhccCCCCCccceeehh
Q 014126 300 SFTDLQRVLYEEERAAYNQAIMQNMSDGKVHPLTYIHHT 338 (430)
Q Consensus 300 s~~~l~~il~~ee~~ay~~a~~q~~~~~~~~~l~~ih~~ 338 (430)
.++.|+|.|+ |-+.+++++-|.+ +.||+|+.+|-
T Consensus 178 pYTK~arlmc--Els~~R~als~~F---~~DPitFl~~h 211 (337)
T PF01621_consen 178 PYTKMARLMC--ELSIQRQALSRIF---KADPITFLYRH 211 (337)
T ss_pred ChHHHHHHHH--HHHHHHHHHHHHh---ccCCCeeeeeC
Confidence 6899999999 8889999997775 45999998873
No 53
>KOG1555 consensus 26S proteasome regulatory complex, subunit RPN11 [Posttranslational modification, protein turnover, chaperones]
Probab=38.99 E-value=2 Score=44.27 Aligned_cols=102 Identities=18% Similarity=0.073 Sum_probs=67.9
Q ss_pred CCCHHHHHHHHHHhhhCCCcEEEEEcCCCCCccccCceEEEEEEeeCCCcceeccceeeccCCCcccccccccccccccc
Q 014126 104 LPSHVDVRTQAMYQLLDTGFIGLIFSCFSEDANKVGRIQVIAFQSSDGKQNHISKPIALLPVNKSTVIDLESSLSSSESL 183 (430)
Q Consensus 104 ~PS~~DI~TQ~~YQ~~~p~~V~LIvSp~~~d~s~~G~i~lrAFRl~dg~~~~i~~pi~~~~~~~~~~~~~~~~~~~~~~~ 183 (430)
.|+-+|..|+..++...-+..+++++.+-++.......++-.|.-.+|+. +.+.....+.++++..+|+.|--
T Consensus 65 ~~~fv~~~Tv~vv~v~am~~sg~~is~~~e~~d~V~q~q~~~~l~~tGrp-------~~VVGWYHSHP~f~~wpS~vDi~ 137 (316)
T KOG1555|consen 65 LPEFVDDYTVRVVDVFAMPQSGTGISKFVEAVDPVFQTQMMDLLKQTGRP-------ELVVGWYHSHPGFGCWPSLVDID 137 (316)
T ss_pred ccceeeecceeeeeeeccccccceecccchhccHHHHHHHHHHHHhcCCc-------ceEEeeccCCCCCCCCccccchh
Confidence 56667777888887777788899999766544444333343444445554 45667789999999999999998
Q ss_pred ccccCCcccCCCCCCCCcccccccccCCCCccC
Q 014126 184 SARSGNVLAENPEQDTGDSKIVAGSWKGGGRTS 216 (430)
Q Consensus 184 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 216 (430)
+|.+--.. .+.++.+-.....| +.|++..
T Consensus 138 tQ~syq~~---~~r~~a~~v~~i~S-~~g~vv~ 166 (316)
T KOG1555|consen 138 TQQSYQAL---SSRAVAVVVDPIQS-PYGKVVP 166 (316)
T ss_pred HHHHHhhh---ccCCcceeeecccC-CCCCccC
Confidence 88876554 44455544445556 4444443
No 54
>KOG1795 consensus U5 snRNP spliceosome subunit [RNA processing and modification]
Probab=38.82 E-value=39 Score=41.19 Aligned_cols=123 Identities=20% Similarity=0.174 Sum_probs=73.6
Q ss_pred EECHHHHHHHHHHHccCCCceeEEEEeeeecCCCCceeEEEEE-e-eecCCCCCCCCCceec---CHHHHHHHHHHHHHH
Q 014126 7 KMSEDVWLTCLTHALSTETEEIMGLLLGDIEHSKNGNVTALIW-G-ASPQSRSDRRKDRVET---NPEQLAAASAQADRM 81 (430)
Q Consensus 7 ~Is~~Vll~Il~HA~s~~P~EVCGLLlG~~~~d~~g~vv~~It-~-a~P~~nsd~s~drfEI---DPEql~aAq~eAeel 81 (430)
.|+..++.+++.- +....-+.|++.|....+. .+ +..|. . ..|.-.+. ..+.+ -|. ..
T Consensus 2098 ilPkNllkkFi~i--sD~r~qiag~~yG~s~~d~-pq-vkeIr~ivmvPQ~gs~---~~v~lp~~lP~------~~---- 2160 (2321)
T KOG1795|consen 2098 ILPKNLLKKFITI--SDLRTQIAGYLYGVSPPDN-PQ-VKEIRCIVMVPQWGSH---QGVHLPSFLPI------HG---- 2160 (2321)
T ss_pred eccHHHHhhheee--cchhhhhheeeeccCCCCC-Cc-cceEEEEEeccccccc---cccccCccCCc------ch----
Confidence 4666677666633 2444668899999755432 21 12221 1 12433221 11111 111 00
Q ss_pred hhhcCCCceEEEEEecCCCCCCCCCHHHHHHHHHHh-hhCCCcEEEEEcCCCCCccccCceEEEEEEeeCCCcce
Q 014126 82 TVLTGRTTRVIGWYHSHPHITVLPSHVDVRTQAMYQ-LLDTGFIGLIFSCFSEDANKVGRIQVIAFQSSDGKQNH 155 (430)
Q Consensus 82 ~r~~~rgleVVGWYHSHP~~~a~PS~~DI~TQ~~YQ-~~~p~~V~LIvSp~~~d~s~~G~i~lrAFRl~dg~~~~ 155 (430)
.-.+++.+||.|+-|.--++.|+.|+.|+..-- ..-..++.+-++. +.|.+.+.||.+++.+..+
T Consensus 2161 ---~l~d~e~Lgw~hTq~~el~~lsp~dV~th~ki~~~~k~k~i~~t~~~------tpgs~sl~ay~lt~~G~eW 2226 (2321)
T KOG1795|consen 2161 ---VLEDLEPLGWIHTQPNELPQLSPQDVTTHAKILVDNKEKCIIITCSF------TPGSCSLTAYKLTPSGYEW 2226 (2321)
T ss_pred ---hccCCcccchhhcCccccccCCHHHhhhhhhhhhcCccceEEEEeec------cCCcceeeeeccCcccccc
Confidence 125789999999999999999999999998542 2223455555553 3478999999998765543
No 55
>TIGR03782 Bac_Flav_CT_J Bacteroides conjugative transposon TraJ protein. Members of this protein family are designated TraM and are found in a proposed transfer region of a class of conjugative transposon found in the Bacteroides lineage. This family is related conjugation system proteins in the Proteobacteria, including TrbL of Agrobacterium Ti plasmids and VirB6.
Probab=34.28 E-value=62 Score=33.70 Aligned_cols=39 Identities=23% Similarity=0.360 Sum_probs=35.4
Q ss_pred HHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 014126 348 LIEYCLSPAISALQDRLKENEIRLAMLTDEAKSLESEAF 386 (430)
Q Consensus 348 ~~~~~~~p~~~~l~~rl~~n~~~~~~l~~e~~~l~~~~~ 386 (430)
.|..+++|+.+.=+.=++.+...++.|+++++.|+.|..
T Consensus 78 ~in~v~spvv~gT~~m~~~q~~dl~~l~~qkd~L~~e~~ 116 (322)
T TIGR03782 78 TINGVLSPVVQGTHSMLEGQTLDMNRYREQKDKLEYEAM 116 (322)
T ss_pred HhhhhhHHHHHhHHHHHHccHHHHHHHHHHHHHHHHHHH
Confidence 367788999999999999999999999999999999983
No 56
>PF04977 DivIC: Septum formation initiator; InterPro: IPR007060 DivIC, from the spore-forming, Gram-positive bacterium Bacillus subtilis, is necessary for both vegetative and sporulation septum formation []. These proteins are mainly composed of an N-terminal coiled-coil. DivIB, DivIC and FtsL inter-depend on each other for stabilisation and localisation. The latter two form a heterodimer. DivIC is always centre cell but the other two associate with it during septation [].; GO: 0007049 cell cycle
Probab=34.22 E-value=92 Score=24.35 Aligned_cols=31 Identities=19% Similarity=0.213 Sum_probs=23.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 014126 358 SALQDRLKENEIRLAMLTDEAKSLESEAFKG 388 (430)
Q Consensus 358 ~~l~~rl~~n~~~~~~l~~e~~~l~~~~~~~ 388 (430)
..+...+++.+.+++.|++|.++|++++.+-
T Consensus 20 ~~~~~ei~~l~~~i~~l~~e~~~L~~ei~~l 50 (80)
T PF04977_consen 20 YQLNQEIAELQKEIEELKKENEELKEEIERL 50 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4466777777888888888888888887543
No 57
>PF10883 DUF2681: Protein of unknown function (DUF2681); InterPro: IPR020274 This entry contains membrane proteins with no known function.
Probab=33.88 E-value=2e+02 Score=24.57 Aligned_cols=35 Identities=20% Similarity=0.209 Sum_probs=26.4
Q ss_pred HHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 014126 351 YCLSPAISALQDRLKENEIRLAMLTDEAKSLESEA 385 (430)
Q Consensus 351 ~~~~p~~~~l~~rl~~n~~~~~~l~~e~~~l~~~~ 385 (430)
.++.=++..++=++++-+.+.+.|++|+++|..|.
T Consensus 12 ~v~~~i~~y~~~k~~ka~~~~~kL~~en~qlk~Ek 46 (87)
T PF10883_consen 12 AVVALILAYLWWKVKKAKKQNAKLQKENEQLKTEK 46 (87)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445566778888888888888888888887775
No 58
>PF14331 ImcF-related_N: ImcF-related N-terminal domain
Probab=32.14 E-value=3.5e+02 Score=26.83 Aligned_cols=100 Identities=22% Similarity=0.287 Sum_probs=69.2
Q ss_pred eeeeeeeecCCCcccCCCcchhhHHHhHHHHHHHHHHHHHHHHhhccCCCCCccceeehhhH---HHHHHHHHHHHHhhH
Q 014126 279 KEIPLHVLPTSSLLKLDSPLTSFTDLQRVLYEEERAAYNQAIMQNMSDGKVHPLTYIHHTST---YQASMCKLIEYCLSP 355 (430)
Q Consensus 279 ~evpl~v~p~~~~~~~~~~l~s~~~l~~il~~ee~~ay~~a~~q~~~~~~~~~l~~ih~~~~---~~~~~~~~~~~~~~p 355 (430)
..+|++|+ +.|.| -+..|...-+-|-+||++ +++ |-.-|......... +...+-.|++.+..=
T Consensus 68 ~~~PVYvv----~Tk~D-~l~GF~ef~~~L~~~~r~---q~l------G~t~~~~~~~~~~~~~~~~~~~~~l~~~L~~~ 133 (266)
T PF14331_consen 68 VRLPVYVV----FTKCD-LLPGFDEFFSDLSEEERE---QVL------GFTFPYDEDADGDAWAWFDEEFDELVARLNAR 133 (266)
T ss_pred CCCCeEee----eECCC-cccCHHHHHHhCCHHHHh---CCc------ccccCCccccccchHHHHHHHHHHHHHHHHHH
Confidence 46899998 44654 688999999999999876 333 66667766665554 777777776666655
Q ss_pred HHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHhcCCCCC
Q 014126 356 AISALQDR--------LKENEIRLAMLTDEAKSLESEAFKGSDSS 392 (430)
Q Consensus 356 ~~~~l~~r--------l~~n~~~~~~l~~e~~~l~~~~~~~~~~~ 392 (430)
++..|.+- +-.-=.+++.|+.-...+..++|..+.-.
T Consensus 134 ~~~~l~~~~~~~~r~~l~~FP~ql~~L~~~L~~fl~~~f~~~~~~ 178 (266)
T PF14331_consen 134 VLERLAQERDAERRAALFSFPRQLAALRPPLREFLEELFRPNPYQ 178 (266)
T ss_pred HHHHHHhhcCcchhHHHHHHHHHHHHHHHHHHHHHHHHhccCCCC
Confidence 55544421 22223577888999999999998877655
No 59
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=30.81 E-value=3.4e+02 Score=29.84 Aligned_cols=28 Identities=36% Similarity=0.464 Sum_probs=23.1
Q ss_pred chhhHHHhHHHHHHHHHHHHHHHHhhcc
Q 014126 298 LTSFTDLQRVLYEEERAAYNQAIMQNMS 325 (430)
Q Consensus 298 l~s~~~l~~il~~ee~~ay~~a~~q~~~ 325 (430)
|+|-.+=|+..+++.-..|+|+-++|.+
T Consensus 326 l~sqleSqr~y~e~~~~e~~qsqlen~k 353 (493)
T KOG0804|consen 326 LTSQLESQRKYYEQIMSEYEQSQLENQK 353 (493)
T ss_pred hhhhhhHHHHHHHHHHHHHHHHHHHhHH
Confidence 7788899999999999999996656643
No 60
>KOG0976 consensus Rho/Rac1-interacting serine/threonine kinase Citron [Signal transduction mechanisms]
Probab=29.64 E-value=70 Score=37.40 Aligned_cols=33 Identities=39% Similarity=0.478 Sum_probs=30.3
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 014126 353 LSPAISALQDRLKENEIRLAMLTDEAKSLESEA 385 (430)
Q Consensus 353 ~~p~~~~l~~rl~~n~~~~~~l~~e~~~l~~~~ 385 (430)
|--.++.+|+-++||+++|..+..++.+|++|+
T Consensus 125 lQ~ti~~~q~d~ke~etelE~~~srlh~le~eL 157 (1265)
T KOG0976|consen 125 LQDTIQGAQDDKKENEIEIENLNSRLHKLEDEL 157 (1265)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence 445688999999999999999999999999998
No 61
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=29.00 E-value=2.4e+02 Score=21.66 Aligned_cols=38 Identities=26% Similarity=0.105 Sum_probs=22.4
Q ss_pred HHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 014126 347 KLIEYCLSPAISALQDRLKENEIRLAMLTDEAKSLESEAF 386 (430)
Q Consensus 347 ~~~~~~~~p~~~~l~~rl~~n~~~~~~l~~e~~~l~~~~~ 386 (430)
=++..+++-++... . .-..+.++..++++.++||+|+.
T Consensus 28 f~~G~llg~l~~~~-~-~~~~r~~~~~~~k~l~~le~e~~ 65 (68)
T PF06305_consen 28 FLLGALLGWLLSLP-S-RLRLRRRIRRLRKELKKLEKELE 65 (68)
T ss_pred HHHHHHHHHHHHHH-H-HHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444444433332 2 24456667888888888888874
No 62
>COG3416 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=27.57 E-value=2.9e+02 Score=27.53 Aligned_cols=34 Identities=18% Similarity=0.292 Sum_probs=27.4
Q ss_pred HHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 014126 351 YCLSPAISALQDRLKENEIRLAMLTDEAKSLESE 384 (430)
Q Consensus 351 ~~~~p~~~~l~~rl~~n~~~~~~l~~e~~~l~~~ 384 (430)
|.+.=.+..+|.-|+..++++++|++..+.|+++
T Consensus 44 Y~laQ~vliqE~ALk~a~~~i~eLe~ri~~lq~~ 77 (233)
T COG3416 44 YYLAQRVLIQEQALKKASTQIKELEKRIAILQAG 77 (233)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 4455556667888999999999999999999886
No 63
>PF07716 bZIP_2: Basic region leucine zipper; InterPro: IPR011700 The basic-leucine zipper (bZIP) transcription factors [, ] of eukaryotes are proteins that contain a basic region mediating sequence-specific DNA-binding, followed by a leucine zipper region (see IPR002158 from INTERPRO), which is required for dimerization.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0046983 protein dimerization activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1NWQ_A 1H89_B 1H88_A 1GTW_B 2E43_A 1IO4_A 1GU4_B 2E42_A 1H8A_B 1GU5_B ....
Probab=26.97 E-value=1.6e+02 Score=22.23 Aligned_cols=24 Identities=29% Similarity=0.320 Sum_probs=10.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 014126 360 LQDRLKENEIRLAMLTDEAKSLES 383 (430)
Q Consensus 360 l~~rl~~n~~~~~~l~~e~~~l~~ 383 (430)
|+.++.+-+.....|..+...|+.
T Consensus 30 le~~~~~L~~en~~L~~~i~~L~~ 53 (54)
T PF07716_consen 30 LEQEVQELEEENEQLRQEIAQLER 53 (54)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhc
Confidence 444444444444444444444443
No 64
>PF00170 bZIP_1: bZIP transcription factor cAMP response element binding (CREB) protein signature fos transforming protein signature jun transcription factor signature; InterPro: IPR011616 The basic-leucine zipper (bZIP) transcription factors [, ] of eukaryotic are proteins that contain a basic region mediating sequence-specific DNA-binding followed by a leucine zipper region (see IPR002158 from INTERPRO) required for dimerization.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0046983 protein dimerization activity, 0006355 regulation of transcription, DNA-dependent; PDB: 2H7H_B 2OQQ_B 1S9K_E 1JNM_A 1JUN_A 1FOS_H 1A02_J 1T2K_C 1CI6_A 1DH3_C ....
Probab=26.65 E-value=1.6e+02 Score=22.75 Aligned_cols=29 Identities=28% Similarity=0.376 Sum_probs=16.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 014126 357 ISALQDRLKENEIRLAMLTDEAKSLESEA 385 (430)
Q Consensus 357 ~~~l~~rl~~n~~~~~~l~~e~~~l~~~~ 385 (430)
+..|++++..-+.....|..+...|..++
T Consensus 28 ~~~Le~~~~~L~~en~~L~~~~~~L~~~~ 56 (64)
T PF00170_consen 28 IEELEEKVEELESENEELKKELEQLKKEI 56 (64)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34556665555555555555555555544
No 65
>PHA03275 envelope glycoprotein K; Provisional
Probab=26.57 E-value=71 Score=33.54 Aligned_cols=35 Identities=26% Similarity=0.396 Sum_probs=28.3
Q ss_pred hhhHHHhHHHHHHHHHHHHHHHHhhccCCCCCccceeehh
Q 014126 299 TSFTDLQRVLYEEERAAYNQAIMQNMSDGKVHPLTYIHHT 338 (430)
Q Consensus 299 ~s~~~l~~il~~ee~~ay~~a~~q~~~~~~~~~l~~ih~~ 338 (430)
..++.|.|.|+ |-+.+++++-+. -+.||+++.++-
T Consensus 175 ~~YTK~arllc--Els~~R~als~~---F~~DPItFl~~h 209 (340)
T PHA03275 175 TPYTKLARLLC--EVSLRRVALSKT---FKRDPIGFLCEH 209 (340)
T ss_pred CChHHHHHHHH--HHHHHHHHHHHh---hccCCcEEeeeC
Confidence 36899999999 888999998555 466999998654
No 66
>TIGR02449 conserved hypothetical protein TIGR02449. Members of this family are small proteins, typically 73 amino acids in length, with single copies in each of several Proteobacteria, including Xylella fastidiosa, Pseudomonas aeruginosa, and Xanthomonas campestris. The function is unknown.
Probab=26.21 E-value=1.5e+02 Score=24.06 Aligned_cols=29 Identities=21% Similarity=0.249 Sum_probs=22.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 014126 357 ISALQDRLKENEIRLAMLTDEAKSLESEA 385 (430)
Q Consensus 357 ~~~l~~rl~~n~~~~~~l~~e~~~l~~~~ 385 (430)
++.|++|+.+--.+.+.|+.|...|.++.
T Consensus 2 L~~Le~kle~Li~~~~~L~~EN~~Lr~q~ 30 (65)
T TIGR02449 2 LQALAAQVEHLLEYLERLKSENRLLRAQE 30 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56788888888888888888888777765
No 67
>PHA03278 envelope glycoprotein K; Provisional
Probab=26.06 E-value=73 Score=33.53 Aligned_cols=33 Identities=21% Similarity=0.441 Sum_probs=27.7
Q ss_pred hhHHHhHHHHHHHHHHHHHHHHhhccCCCCCccceeeh
Q 014126 300 SFTDLQRVLYEEERAAYNQAIMQNMSDGKVHPLTYIHH 337 (430)
Q Consensus 300 s~~~l~~il~~ee~~ay~~a~~q~~~~~~~~~l~~ih~ 337 (430)
.++.|.|.|+ |-+.+++++-+. -+.||+|+.++
T Consensus 178 ~YTK~arlmc--Els~~R~alsr~---F~~DPItFl~~ 210 (347)
T PHA03278 178 TYTKMARLMC--ELSIRRNALSRD---FKEDPITFAFR 210 (347)
T ss_pred ChHHHHHHHH--HHHHHHHHHHHh---hccCCceeeee
Confidence 6899999999 888999998555 56699999876
No 68
>PF11853 DUF3373: Protein of unknown function (DUF3373); InterPro: IPR021803 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 472 to 574 amino acids in length.
Probab=25.53 E-value=1e+02 Score=33.91 Aligned_cols=27 Identities=15% Similarity=0.288 Sum_probs=16.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 014126 359 ALQDRLKENEIRLAMLTDEAKSLESEAF 386 (430)
Q Consensus 359 ~l~~rl~~n~~~~~~l~~e~~~l~~~~~ 386 (430)
+.-+.+...| +|++|++|.++|++++.
T Consensus 22 a~~~~~~~~q-kie~L~kql~~Lk~q~~ 48 (489)
T PF11853_consen 22 AMADDIDLLQ-KIEALKKQLEELKAQQD 48 (489)
T ss_pred hhhhhhHHHH-HHHHHHHHHHHHHHhhc
Confidence 3445444444 66777777777777753
No 69
>PF13815 Dzip-like_N: Iguana/Dzip1-like DAZ-interacting protein N-terminal
Probab=24.63 E-value=2.2e+02 Score=24.87 Aligned_cols=34 Identities=26% Similarity=0.370 Sum_probs=23.2
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 014126 353 LSPAISALQDRLKENEIRLAMLTDEAKSLESEAF 386 (430)
Q Consensus 353 ~~p~~~~l~~rl~~n~~~~~~l~~e~~~l~~~~~ 386 (430)
|.--+..|++++++-....+.|+.+.+.+.++++
T Consensus 78 L~~~~~~l~~~~~~~~~~~~~l~~~~~~~~~~~k 111 (118)
T PF13815_consen 78 LSSQLEQLEERLQELQQEIEKLKQKLKKQKEEIK 111 (118)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4555677777777777777777777666666653
No 70
>PHA03276 envelope glycoprotein K; Provisional
Probab=24.52 E-value=82 Score=33.03 Aligned_cols=33 Identities=24% Similarity=0.503 Sum_probs=27.5
Q ss_pred hhHHHhHHHHHHHHHHHHHHHHhhccCCCCCccceeeh
Q 014126 300 SFTDLQRVLYEEERAAYNQAIMQNMSDGKVHPLTYIHH 337 (430)
Q Consensus 300 s~~~l~~il~~ee~~ay~~a~~q~~~~~~~~~l~~ih~ 337 (430)
.++.|.|.|+ |-+.+++++-+. -+.||+++.++
T Consensus 177 ~YTK~arlmc--E~s~~R~als~~---F~~DPitFl~~ 209 (337)
T PHA03276 177 PYTKITRLLC--ELSVQRQSLVEI---FEADPVTFLYH 209 (337)
T ss_pred ChHHHHHHHH--HHHHHHHHHHHh---hccCCceEeee
Confidence 6889999999 888999998555 46699999874
No 71
>COG5178 PRP8 U5 snRNP spliceosome subunit [RNA processing and modification]
Probab=24.32 E-value=1e+02 Score=37.69 Aligned_cols=128 Identities=20% Similarity=0.229 Sum_probs=73.0
Q ss_pred EECHHHHHHHHHHHccCCCceeEEEEeeeecCCCCceeEEEE-Ee-eecCCCCCCCCCceec---CHHHHHHHHHHHHHH
Q 014126 7 KMSEDVWLTCLTHALSTETEEIMGLLLGDIEHSKNGNVTALI-WG-ASPQSRSDRRKDRVET---NPEQLAAASAQADRM 81 (430)
Q Consensus 7 ~Is~~Vll~Il~HA~s~~P~EVCGLLlG~~~~d~~g~vv~~I-t~-a~P~~nsd~s~drfEI---DPEql~aAq~eAeel 81 (430)
.|+..++.+++.- +....-+.|++.|....+.- + +..| ++ .+|.-.+- ..+.+ -|.++
T Consensus 2137 ~lP~NLl~kF~~i--sD~~vqvag~vyG~s~~d~p-~-ikeI~~~~lVPQlgs~---~~vq~~s~vP~dl---------- 2199 (2365)
T COG5178 2137 RLPLNLLEKFMRI--SDPHVQVAGLVYGKSGSDNP-Q-IKEILSFGLVPQLGSL---SGVQSSSFVPHDL---------- 2199 (2365)
T ss_pred cccHHHHHhhhee--cccceeeEEEEeccCCccCc-c-hhheeEEEeecccccc---ccccccccCCCCC----------
Confidence 3566666666643 23446799999997543321 1 1122 22 23543221 01111 12211
Q ss_pred hhhcCCCceEEEEEecCCCCCCCCCHHHHHHHHHHhhhCCC--cEEEEEcCCCCCccccCceEEEEEEeeCCCcceeccc
Q 014126 82 TVLTGRTTRVIGWYHSHPHITVLPSHVDVRTQAMYQLLDTG--FIGLIFSCFSEDANKVGRIQVIAFQSSDGKQNHISKP 159 (430)
Q Consensus 82 ~r~~~rgleVVGWYHSHP~~~a~PS~~DI~TQ~~YQ~~~p~--~V~LIvSp~~~d~s~~G~i~lrAFRl~dg~~~~i~~p 159 (430)
--..+++++||.|.--+--++.+..|+.|+. +-..++. +|-|-++- ..|.+.++||.+.+.+.++=+.-
T Consensus 2200 --p~~e~le~lGwihtq~~el~~l~~~~v~th~-k~~~d~~~d~v~ltv~~------~pgsiSl~ay~v~keG~~Wg~~n 2270 (2365)
T COG5178 2200 --PGDEDLEILGWIHTQDDELPYLEVAGVLTHR-KKIVDPEWDAVTLTVSY------LPGSISLRAYVVKKEGCNWGSKN 2270 (2365)
T ss_pred --CCcccceeeEEEecCCcccchhhhhhhhhhh-hcccCccccceeeeeee------ccceeeeeeeeehhccccccccc
Confidence 0015789999999998878899999998776 2234443 34444432 34788999999987776655444
Q ss_pred e
Q 014126 160 I 160 (430)
Q Consensus 160 i 160 (430)
+
T Consensus 2271 ~ 2271 (2365)
T COG5178 2271 M 2271 (2365)
T ss_pred c
Confidence 4
No 72
>PF06005 DUF904: Protein of unknown function (DUF904); InterPro: IPR009252 Cell division protein ZapB is a non-essential, abundant cell division factor that is required for proper Z-ring formation. It is recruited early to the divisome by direct interaction with FtsZ, stimulating Z-ring assembly and thereby promoting cell division earlier in the cell cycle. Its recruitment to the Z-ring requires functional FtsA or ZipA.; GO: 0000917 barrier septum formation, 0043093 cytokinesis by binary fission, 0005737 cytoplasm; PDB: 2JEE_A.
Probab=24.13 E-value=1.8e+02 Score=23.80 Aligned_cols=29 Identities=28% Similarity=0.265 Sum_probs=17.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 014126 357 ISALQDRLKENEIRLAMLTDEAKSLESEA 385 (430)
Q Consensus 357 ~~~l~~rl~~n~~~~~~l~~e~~~l~~~~ 385 (430)
|..|+-++++-+.+-..|+++.++|..|.
T Consensus 20 i~~Lq~e~eeLke~n~~L~~e~~~L~~en 48 (72)
T PF06005_consen 20 IALLQMENEELKEKNNELKEENEELKEEN 48 (72)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence 44566666666666555555566666555
No 73
>PF10867 DUF2664: Protein of unknown function (DUF2664); InterPro: IPR022614 The proteins in this entry belong to the Herpesviridae UL96 family. Currently no function is known.
Probab=23.86 E-value=2.2e+02 Score=24.49 Aligned_cols=51 Identities=22% Similarity=0.206 Sum_probs=33.4
Q ss_pred CCCCCccceeehhhHHHHHHHHHHHHHhh------HHHHHHHHHHHHHHHHHHHHHH
Q 014126 326 DGKVHPLTYIHHTSTYQASMCKLIEYCLS------PAISALQDRLKENEIRLAMLTD 376 (430)
Q Consensus 326 ~~~~~~l~~ih~~~~~~~~~~~~~~~~~~------p~~~~l~~rl~~n~~~~~~l~~ 376 (430)
-|.-||||.++.--|-.+..-....++.. -++..=..+++.+..++..|+.
T Consensus 17 lG~~HpLt~~Q~ir~~~a~~~~~~~e~~~~v~~vs~~l~~~r~~~~k~~~~ar~Lq~ 73 (89)
T PF10867_consen 17 LGEQHPLTSHQGIRTMRAAAREQTRESQQTVRSVSASLLRQRARLQKQLQRARQLQR 73 (89)
T ss_pred hCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 48999999999988776666555555433 3333333566666667666665
No 74
>smart00338 BRLZ basic region leucin zipper.
Probab=23.79 E-value=1.9e+02 Score=22.43 Aligned_cols=30 Identities=23% Similarity=0.307 Sum_probs=20.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 014126 356 AISALQDRLKENEIRLAMLTDEAKSLESEA 385 (430)
Q Consensus 356 ~~~~l~~rl~~n~~~~~~l~~e~~~l~~~~ 385 (430)
-+..|+++++.-+.....|..+...|+.|+
T Consensus 27 ~~~~Le~~~~~L~~en~~L~~~~~~l~~e~ 56 (65)
T smart00338 27 EIEELERKVEQLEAENERLKKEIERLRREL 56 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 355677777777776677777777776665
No 75
>PF06103 DUF948: Bacterial protein of unknown function (DUF948); InterPro: IPR009293 This family consists of bacterial sequences several of which are thought to be general stress proteins.
Probab=23.79 E-value=2.2e+02 Score=23.36 Aligned_cols=35 Identities=17% Similarity=0.286 Sum_probs=21.8
Q ss_pred HHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 014126 351 YCLSPAISALQDRLKENEIRLAMLTDEAKSLESEA 385 (430)
Q Consensus 351 ~~~~p~~~~l~~rl~~n~~~~~~l~~e~~~l~~~~ 385 (430)
.++.|.+..|...+++.+..+..|+++...+..|.
T Consensus 15 i~l~~~l~~l~~~l~~~~~ti~~l~~~~~~i~~e~ 49 (90)
T PF06103_consen 15 IFLIKVLKKLKKTLDEVNKTIDTLQEQVDPITKEI 49 (90)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHH
Confidence 45556666666666666666666666666665554
No 76
>TIGR02338 gimC_beta prefoldin, beta subunit, archaeal. Chaperonins are cytosolic, ATP-dependent molecular chaperones, with a conserved toroidal architecture, that assist in the folding of nascent and/or denatured polypeptide chains. The group I chaperonin system consists of GroEL and GroES, and is found (usually) in bacteria and organelles of bacterial origin. The group II chaperonin system, called the thermosome in Archaea and TRiC or CCT in the Eukaryota, is structurally similar but only distantly related. Prefoldin, also called GimC, is a complex in Archaea and Eukaryota, that works with group II chaperonins. Members of this protein family are the archaeal clade of the beta class of prefoldin subunit. Closely related, but outside the scope of this family are the eukaryotic beta-class prefoldin subunits, Gim-1,3,4 and 6. The alpha class prefoldin subunits are more distantly related.
Probab=23.62 E-value=1.7e+02 Score=25.21 Aligned_cols=49 Identities=20% Similarity=0.269 Sum_probs=34.8
Q ss_pred hhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 014126 338 TSTYQASMCKLIEYCLSPAISALQDRLKENEIRLAMLTDEAKSLESEAF 386 (430)
Q Consensus 338 ~~~~~~~~~~~~~~~~~p~~~~l~~rl~~n~~~~~~l~~e~~~l~~~~~ 386 (430)
+-+|..-=-=|++.-..=++..|++|++.-+.+++.|++..+.|+.++.
T Consensus 50 ~~vyk~VG~vlv~~~~~e~~~~l~~r~e~ie~~i~~lek~~~~l~~~l~ 98 (110)
T TIGR02338 50 TPVYKSVGNLLVKTDKEEAIQELKEKKETLELRVKTLQRQEERLREQLK 98 (110)
T ss_pred chhHHHhchhhheecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445433334555555567788999999999999888888888887763
No 77
>cd00632 Prefoldin_beta Prefoldin beta; Prefoldin is a hexameric molecular chaperone complex, composed of two evolutionarily related subunits (alpha and beta), which are found in both eukaryotes and archaea. Prefoldin binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The hexameric structure consists of a double beta barrel assembly with six protruding coiled-coils. The alpha prefoldin subunits have two beta hairpin structures while the beta prefoldin subunits (this CD) have only one hairpin that is most similar to the second hairpin of the alpha subunit. The prefoldin hexamer consists of two alpha and four beta subunits and is assembled from the beta hairpins of all six subunits. The alpha subunits initially dimerize providing a structural nucleus for the assembly of the beta subunits. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the st
Probab=23.26 E-value=2.1e+02 Score=24.34 Aligned_cols=40 Identities=23% Similarity=0.315 Sum_probs=30.1
Q ss_pred HHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 014126 347 KLIEYCLSPAISALQDRLKENEIRLAMLTDEAKSLESEAF 386 (430)
Q Consensus 347 ~~~~~~~~p~~~~l~~rl~~n~~~~~~l~~e~~~l~~~~~ 386 (430)
-+++.-..=++..|++|++.-+.++..|+.+.+.|++++.
T Consensus 55 vfv~~~~~ea~~~Le~~~e~le~~i~~l~~~~~~l~~~~~ 94 (105)
T cd00632 55 VLVKQEKEEARTELKERLETIELRIKRLERQEEDLQEKLK 94 (105)
T ss_pred HHhhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444455556788899998888888888888888887763
No 78
>PF11740 KfrA_N: Plasmid replication region DNA-binding N-term; InterPro: IPR021104 The KfrA family of protiens are encoded on plasmids, generally in or near gene clusters invloved in stable inheritance functions. These proteins are thought to form an all-helical structure, consisting of an N-terminal helix-turn-helix DNA binding domain and an extended coiled-coil tail. The best-characterised KfrA protein, encoded on the broad host-range Plasmid RK2, is a site-specific DNA-binding protein whose operator overlaps its own promoter. The DNA-binding domain is essential for function, while the coiled-coil domain is probably responsible for formation of multimers, and may provide an example of a bridge to host structures required for plasmid partitioning []. This entry represents the N-terminal DNA-binding domain.
Probab=23.13 E-value=3.6e+02 Score=22.89 Aligned_cols=39 Identities=28% Similarity=0.239 Sum_probs=26.4
Q ss_pred HHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 014126 347 KLIEYCLSPAISALQDRLKENEIRLAMLTDEAKSLESEA 385 (430)
Q Consensus 347 ~~~~~~~~p~~~~l~~rl~~n~~~~~~l~~e~~~l~~~~ 385 (430)
+..+.-+..+...++.++++.+..++.+.++.+.|++++
T Consensus 80 ~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~e~ 118 (120)
T PF11740_consen 80 EEAEEELEAARAELEQERAAAEAELAEAEAQAEELEAEL 118 (120)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 344444555556677777777777777777777777776
No 79
>PF09849 DUF2076: Uncharacterized protein conserved in bacteria (DUF2076); InterPro: IPR018648 This family of hypothetical prokaryotic proteins has no known function but includes putative perimplasmic ligand-binding sensor proteins.
Probab=23.05 E-value=2.4e+02 Score=28.28 Aligned_cols=25 Identities=16% Similarity=0.304 Sum_probs=15.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 014126 356 AISALQDRLKENEIRLAMLTDEAKS 380 (430)
Q Consensus 356 ~~~~l~~rl~~n~~~~~~l~~e~~~ 380 (430)
.|-.+|.=||+.+.|+++|+.++++
T Consensus 49 ~vlvQE~AL~~a~~ri~eLe~ql~q 73 (247)
T PF09849_consen 49 TVLVQEQALKQAQARIQELEAQLQQ 73 (247)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3444566666666666666666555
No 80
>PRK04325 hypothetical protein; Provisional
Probab=20.37 E-value=2e+02 Score=23.56 Aligned_cols=26 Identities=15% Similarity=0.259 Sum_probs=13.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 014126 360 LQDRLKENEIRLAMLTDEAKSLESEA 385 (430)
Q Consensus 360 l~~rl~~n~~~~~~l~~e~~~l~~~~ 385 (430)
|-+=+-+.+..+..|+.+.+.|-..+
T Consensus 28 LN~vv~~Qq~~I~~L~~ql~~L~~rl 53 (74)
T PRK04325 28 LNATVARQQQTLDLLQAQLRLLYQQM 53 (74)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33334444455555555555555444
Done!