Query 004854
Match_columns 727
No_of_seqs 279 out of 1307
Neff 5.7
Searched_HMMs 46136
Date Thu Mar 28 14:02:03 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/004854.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/004854hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0895 Ubiquitin-conjugating 100.0 8.7E-36 1.9E-40 345.6 11.8 675 29-726 121-919 (1101)
2 KOG0417 Ubiquitin-protein liga 99.8 6.5E-19 1.4E-23 167.1 7.7 69 659-727 2-70 (148)
3 COG5078 Ubiquitin-protein liga 99.7 7.6E-18 1.6E-22 162.9 10.5 69 659-727 6-75 (153)
4 PTZ00390 ubiquitin-conjugating 99.7 9.4E-17 2E-21 156.1 10.2 69 659-727 3-71 (152)
5 PLN00172 ubiquitin conjugating 99.7 1.5E-16 3.2E-21 154.0 9.9 69 659-727 2-70 (147)
6 KOG0419 Ubiquitin-protein liga 99.7 1.1E-16 2.3E-21 148.1 7.6 70 658-727 4-73 (152)
7 KOG0426 Ubiquitin-protein liga 99.6 1.9E-16 4.2E-21 146.2 7.3 71 657-727 3-74 (165)
8 KOG0894 Ubiquitin-protein liga 99.6 2.8E-16 6.2E-21 156.1 7.9 72 656-727 3-74 (244)
9 PF00179 UQ_con: Ubiquitin-con 99.6 4.9E-15 1.1E-19 141.5 8.5 66 662-727 1-67 (140)
10 cd00195 UBCc Ubiquitin-conjuga 99.5 2E-14 4.3E-19 137.6 9.6 67 661-727 2-68 (141)
11 KOG0418 Ubiquitin-protein liga 99.5 1.5E-14 3.2E-19 141.6 7.9 69 659-727 4-75 (200)
12 KOG0421 Ubiquitin-protein liga 99.5 1E-13 2.2E-18 130.1 8.3 72 656-727 27-98 (175)
13 smart00212 UBCc Ubiquitin-conj 99.5 1.3E-13 2.8E-18 132.6 9.2 67 661-727 1-68 (145)
14 KOG0425 Ubiquitin-protein liga 99.5 1.6E-13 3.5E-18 130.7 8.3 69 659-727 6-75 (171)
15 KOG0895 Ubiquitin-conjugating 99.3 1.7E-12 3.7E-17 152.9 8.5 99 627-727 253-351 (1101)
16 KOG0428 Non-canonical ubiquiti 99.3 1.6E-12 3.5E-17 131.4 6.6 72 654-726 7-78 (314)
17 KOG0424 Ubiquitin-protein liga 99.3 4.8E-12 1E-16 119.2 7.8 70 658-727 4-78 (158)
18 KOG0427 Ubiquitin conjugating 99.2 1.8E-11 3.9E-16 113.5 8.5 71 656-727 13-83 (161)
19 KOG0422 Ubiquitin-protein liga 99.2 1.9E-11 4.2E-16 114.6 5.9 67 659-726 3-70 (153)
20 KOG0423 Ubiquitin-protein liga 99.2 1.8E-11 3.9E-16 118.1 3.6 74 654-727 6-79 (223)
21 KOG0416 Ubiquitin-protein liga 98.9 3.3E-09 7.2E-14 102.8 7.5 65 660-727 5-69 (189)
22 KOG0420 Ubiquitin-protein liga 98.5 3.1E-07 6.6E-12 89.6 6.6 68 657-727 27-98 (184)
23 KOG0896 Ubiquitin-conjugating 98.0 5.2E-06 1.1E-10 78.2 5.1 66 662-727 9-78 (138)
24 KOG0429 Ubiquitin-conjugating 97.8 7.7E-05 1.7E-09 75.6 8.0 64 662-726 23-88 (258)
25 PF05773 RWD: RWD domain; Int 92.3 0.26 5.6E-06 44.5 5.4 65 661-726 4-70 (113)
26 smart00591 RWD domain in RING 91.3 0.74 1.6E-05 41.2 7.2 25 702-726 38-62 (107)
27 PF15057 DUF4537: Domain of un 85.1 6.9 0.00015 37.3 9.5 103 334-474 1-113 (124)
28 KOG1999 RNA polymerase II tran 82.9 5.8 0.00013 48.9 9.7 80 57-138 407-495 (1024)
29 PF08694 UFC1: Ubiquitin-fold 81.6 0.82 1.8E-05 44.3 1.7 65 655-725 21-95 (161)
30 PRK03174 sspH acid-soluble spo 71.3 4.2 9E-05 34.0 2.9 34 356-394 26-59 (59)
31 PF05743 UEV: UEV domain; Int 65.7 14 0.00031 34.9 5.8 44 683-726 24-69 (121)
32 PF14461 Prok-E2_B: Prokaryoti 59.3 9.6 0.00021 36.4 3.4 24 703-726 34-57 (133)
33 PF09926 DUF2158: Uncharacteri 55.1 11 0.00024 30.8 2.6 42 399-463 1-42 (53)
34 PF08141 SspH: Small acid-solu 52.6 16 0.00034 30.6 3.1 33 356-393 26-58 (58)
35 TIGR02861 SASP_H small acid-so 51.1 16 0.00035 30.5 2.9 32 356-392 26-57 (58)
36 PRK01625 sspH acid-soluble spo 48.8 17 0.00037 30.4 2.8 33 356-393 26-58 (59)
37 PF15057 DUF4537: Domain of un 47.9 70 0.0015 30.4 7.2 70 298-374 24-99 (124)
38 PF14462 Prok-E2_E: Prokaryoti 47.3 46 0.00099 31.9 5.7 49 677-726 13-63 (122)
39 KOG3357 Uncharacterized conser 45.4 23 0.00051 34.0 3.4 66 654-725 23-98 (167)
40 PRK04192 V-type ATP synthase s 42.8 73 0.0016 38.1 7.7 76 51-126 50-142 (586)
41 KOG0309 Conserved WD40 repeat- 37.6 87 0.0019 38.3 7.1 67 659-727 421-489 (1081)
42 cd04721 BAH_plant_1 BAH, or Br 34.2 62 0.0013 31.1 4.5 44 326-375 3-49 (130)
43 PF00924 MS_channel: Mechanose 33.9 68 0.0015 32.1 5.1 39 104-142 57-96 (206)
44 PF00924 MS_channel: Mechanose 33.1 48 0.001 33.2 3.8 39 52-94 55-94 (206)
45 PRK10334 mechanosensitive chan 31.8 60 0.0013 35.2 4.5 38 52-93 124-162 (286)
46 KOG4018 Uncharacterized conser 31.3 98 0.0021 32.4 5.6 20 706-725 50-69 (215)
47 cd04713 BAH_plant_3 BAH, or Br 31.0 69 0.0015 31.3 4.3 45 326-375 16-63 (146)
48 PF08940 DUF1918: Domain of un 29.8 74 0.0016 26.7 3.6 30 439-468 19-53 (58)
49 cd00421 intradiol_dioxygenase 29.5 57 0.0012 31.7 3.5 25 703-727 64-89 (146)
50 KOG1999 RNA polymerase II tran 29.5 9.2E+02 0.02 30.8 14.1 89 57-145 459-561 (1024)
51 smart00739 KOW KOW (Kyprides, 29.0 75 0.0016 21.4 3.1 24 58-81 2-26 (28)
52 PRK10334 mechanosensitive chan 28.3 1.3E+02 0.0028 32.7 6.2 38 105-142 127-165 (286)
53 PRK05886 yajC preprotein trans 28.2 1E+02 0.0022 29.0 4.7 40 105-144 36-77 (109)
54 TIGR00739 yajC preprotein tran 28.0 1.4E+02 0.0029 26.7 5.3 38 106-143 36-75 (84)
55 PRK06531 yajC preprotein trans 27.6 93 0.002 29.4 4.4 38 106-144 35-76 (113)
56 TIGR01043 ATP_syn_A_arch ATP s 26.1 1.4E+02 0.003 35.8 6.4 70 56-125 54-138 (578)
57 smart00439 BAH Bromo adjacent 26.0 1.3E+02 0.0027 27.3 5.0 41 331-375 2-46 (120)
58 COG0668 MscS Small-conductance 26.0 1E+02 0.0022 32.8 5.0 42 51-95 141-183 (316)
59 cd03457 intradiol_dioxygenase_ 25.8 65 0.0014 33.0 3.3 25 703-727 85-109 (188)
60 COG1862 YajC Preprotein transl 25.6 1.3E+02 0.0027 27.8 4.7 39 105-143 41-81 (97)
61 smart00743 Agenet Tudor-like d 25.4 1.7E+02 0.0038 23.6 5.2 57 330-396 2-58 (61)
62 PF09765 WD-3: WD-repeat regio 24.9 1.3E+02 0.0029 32.9 5.6 60 657-725 98-157 (291)
63 PRK05585 yajC preprotein trans 24.8 1.4E+02 0.003 27.9 4.9 39 105-143 50-90 (106)
64 TIGR02760 TraI_TIGR conjugativ 24.1 2.4E+02 0.0052 38.8 8.8 103 97-209 671-784 (1960)
65 cd04370 BAH BAH, or Bromo Adja 24.0 1.2E+02 0.0026 27.3 4.5 44 330-375 3-49 (123)
66 PF07202 Tcp10_C: T-complex pr 23.9 1E+02 0.0022 31.5 4.1 30 444-473 67-96 (179)
67 PF02559 CarD_CdnL_TRCF: CarD- 22.8 2.2E+02 0.0048 25.4 5.8 23 107-129 1-24 (98)
68 cd04370 BAH BAH, or Bromo Adja 22.3 1.3E+02 0.0028 27.1 4.3 39 398-458 3-46 (123)
69 cd04714 BAH_BAHCC1 BAH, or Bro 21.8 1.4E+02 0.0031 28.0 4.6 36 399-458 4-44 (121)
70 CHL00010 infA translation init 21.6 1.9E+02 0.0041 25.3 4.9 48 73-120 9-59 (78)
71 PF00467 KOW: KOW motif; Inte 21.6 1.3E+02 0.0028 21.7 3.2 23 60-82 1-24 (32)
72 cd03459 3,4-PCD Protocatechuat 20.8 1E+02 0.0023 30.6 3.5 25 703-727 71-100 (158)
73 cd04720 BAH_Orc1p_Yeast BAH, o 20.8 1.5E+02 0.0034 29.9 4.8 44 327-375 49-96 (179)
74 PF09926 DUF2158: Uncharacteri 20.5 1.7E+02 0.0037 24.0 4.0 36 331-375 1-40 (53)
75 PF07593 UnbV_ASPIC: ASPIC and 20.4 73 0.0016 27.0 2.1 14 452-465 46-59 (71)
76 cd04721 BAH_plant_1 BAH, or Br 20.4 1.6E+02 0.0034 28.3 4.5 37 397-459 6-47 (130)
77 PRK05609 nusG transcription an 20.3 1.7E+02 0.0036 29.0 4.9 49 56-104 125-179 (181)
78 PRK05585 yajC preprotein trans 20.0 1.9E+02 0.0042 26.9 4.9 34 56-92 51-85 (106)
No 1
>KOG0895 consensus Ubiquitin-conjugating enzyme [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=8.7e-36 Score=345.59 Aligned_cols=675 Identities=21% Similarity=0.195 Sum_probs=453.6
Q ss_pred CCCCcEEEEeccCceeeeccCceEEeeccccCCCeeeecCCCCCCeEEEEEEe---EEEEEEecCCeeee-C-CCccccc
Q 004854 29 LYGGQATSILSSLEESIGKIDDFLSFDRGFTHGDIVRSVTDPSGQMGRVININ---MLVDLEGIPGYIIK-D-VNSKNIL 103 (727)
Q Consensus 29 l~~g~vrv~w~~g~e~i~~e~~l~L~DR~~~~GDvVr~~~d~~gQ~G~V~~V~---~~vdL~~~~g~vi~-~-V~s~~L~ 103 (727)
...+.+++-|.+-..++..++.++..+|.+..+..+...++++|+.++|+.++ ++++|-.-++.+.+ + .....|.
T Consensus 121 ~~~v~~~v~W~~ns~si~~~~~l~sser~~i~~~~~~~~seats~t~vvq~~~~~~it~dl~~k~~a~y~~~~fst~~l~ 200 (1101)
T KOG0895|consen 121 PTGVPVSVRWTDNSNSIETANSLKSSERLWIALLYLGKASEATSSTNVVQGANAGPITVDLPQKSIAIYKKVLFSTQNLP 200 (1101)
T ss_pred cccCceeeeccccccchhhhcccccccccccccccccccccccCccceeecccccccccccccccccccccchhhcccCC
Confidence 34788999999999999999999999999999999999999999999999999 77888765655555 2 4558889
Q ss_pred cCCCcCCCCEEEeC----Ceee-EEEEEEeeEEEEeCCCCeEEEcccCccccccCCC-CCCCCCCCCcCC--CceeEeec
Q 004854 104 KIRSISVGDFVVLG----AWLG-RVDKVIDSVNIVLDDGSKYEVTAVDHEKLLPISP-SLLEDSQYPYYP--GQRVKVRL 175 (727)
Q Consensus 104 ~i~~f~~GDyVv~g----~WlG-~V~~V~~~v~v~~~dGs~c~v~~~d~~~L~~~~~-~~~~d~~~~~yP--GQ~V~~~~ 175 (727)
+...+..|++...+ .||+ ++..+.++..+.+.+++.|.+....+.+|.++.. .+.++..+.+|+ |+....-.
T Consensus 201 ~t~d~~sg~~~~P~~~~~~~i~sr~~~v~e~~~~lv~d~~~~k~~~~~plrl~~i~kf~~~ed~~~~~~~~k~~~~k~hs 280 (1101)
T KOG0895|consen 201 PTPDTVSGTIRRPFPPNYPGIHSRSHVVKDEPYELVPDFSMLKVETEEPLRLDLIPKFKLVEDKSFHHYAKKGKSSKPHS 280 (1101)
T ss_pred CCCCccccccCCCCCCcccchhccccccccccccccccccccccccccCccccchhhhccccccccccccccCCCCCccc
Confidence 99999999999988 9999 9999999999999999999988888888877664 344677888898 99999888
Q ss_pred Ccc-cccccccCCCCCceeeeEEEEEEeE---EEEEEEEEecccCCCCCCCCCCcccCCCCCcccccccccceecC-Cee
Q 004854 176 STV-KSVSWLCGTGRENQVEGTVCKVDAG---LVYVDWLASALMGSDLNLAAPPRLQDSKNLTLLSGFSHANWQLG-DWC 250 (727)
Q Consensus 176 ~~~-~~~~Wl~g~~~~~r~~gtV~~V~~~---~v~V~Wla~~~~g~~~~~~~P~~~~d~~~L~ll~~f~~~~~qiG-D~~ 250 (727)
.+. ++.+|..+.|.+..++|+......+ .+.+.|++....... .-.-+..+|-|. ++..++.|++|+.| ++|
T Consensus 281 ~~~skrv~ke~~llskdlpEgifvrp~e~RMd~I~alIig~~gtPy~-~glf~Fdiq~P~--~yPa~pp~v~~lt~~~~R 357 (1101)
T KOG0895|consen 281 KNWSKKVAKELKLLSKDLPEGIFVRPDEGRMDLIKALIIGPDGTPYA-DGLFLFDIQFPD--TYPAVPPHVKYLTGGGVR 357 (1101)
T ss_pred hhhHHHHHHHhhhhcccCCCCccccccccccceeeeEEecCCCCCCc-CCceeeEeecCC--CCCCCCceeEEeecccee
Confidence 888 9999999999999999998887776 999999998763221 111234556655 99999999999999 999
Q ss_pred eccCC--CCccccCC-----c-cc----cCCCC--------------------Cc-----h----hhc----cc------
Q 004854 251 MLPTA--DDKVITEP-----T-FI----NSSTC--------------------DN-----K----KLE----RG------ 279 (727)
Q Consensus 251 ~lp~~--~~k~~~~~-----~-~~----~~~~~--------------------d~-----~----~~~----~g------ 279 (727)
++|.- +-|-.-++ . .. ..++. .+ + .+. .+
T Consensus 358 ~nPNlYn~GKVcLslLgTwtg~~~e~wtp~~~sl~qvL~sIQ~Li~~e~Py~ne~ga~~~~~~a~~~qvs~cv~~~aii~ 437 (1101)
T KOG0895|consen 358 LNPNLYNDGKVCLSLLGTWTGSRREKWTPNGSSLLQVLESIQGLILNEEPYFNEPGALQKRTSADPYQVSKCVSEEAIIE 437 (1101)
T ss_pred ecCCcccCceEEeeeeeecccccccCCCccccchhhhhhhhhhhhcccCcccccccccccccCCCccccccccccchhhh
Confidence 99863 11100000 0 00 00000 00 0 000 00
Q ss_pred ------ccccCC---------C--CCCcceEEEEeeEEEEEEEe---CCCceeeCcCCCceeecccCCCcccCCCcEEEe
Q 004854 280 ------LRRRNP---------G--SSLAEVFVIVKTKTKFDVVW---QDGSCSVGLDSQALLPVNVVNSHEFWPDQFVLE 339 (727)
Q Consensus 280 ------~k~r~~---------~--~~~~~~~~V~~t~T~vdV~W---QDGt~~~~i~st~L~P~~~~d~~Ef~PGd~V~~ 339 (727)
++.|+. . ..+...++|....+.++.-| +||....-..+...+++-.+-++.++=.+.+.+
T Consensus 438 vl~~~~~~Irrpp~~fe~~vqeh~s~~~~~vvievs~y~a~~tl~~~~~~~p~~r~ea~gs~~~~~~~dL~~~~Eq~lee 517 (1101)
T KOG0895|consen 438 VLPMMVYEIRRPPEPFESTVQEHYSSREHDVVIEVSAYRAGATLGAKVDGIPSGREEAAGSIELKFPTDLAGFAEQVLEE 517 (1101)
T ss_pred hhhhhhhhhcCCccccchHHhhhhcccchhhhhhhhhcccCcChhhcCCCcccccccccccccccchhhhhhHHHHHHHh
Confidence 111111 0 12335556666689999999 999988777788888888888888777777766
Q ss_pred cCCCCCCCCCCCCceEEEEeecCCCCEEE-EEceecCCCC--CC-CCceeeeeeecccCCCCccccCcEEEEeccCCccc
Q 004854 340 KGISDDPHIPSGQRWGVVQGVDAKERTVT-VQWRAKANSD--SD-ANQSEVSAYELVEHPDYSYCYGDVVFKLVQNQFGM 415 (727)
Q Consensus 340 k~~~~~~~~~~~~~~GVVqsvd~~eRta~-V~W~~~~~~~--~~-~~~e~VSvYel~~hpd~~~~~GD~V~r~~~~~~~~ 415 (727)
+..+......+.++-|+.+++++.-|+.. .+|+...+.. +. .++++-. ..||++.+++||.|+++.......
T Consensus 518 e~~~~gels~gs~~sg~~ss~na~~rs~~~t~~~t~ldra~eps~~~kkd~~----~~e~~~~~~i~~~l~~lS~~~~al 593 (1101)
T KOG0895|consen 518 EFQCLGELSLGSRDSGETSSLNASIRSSKLTRSLTVLDRAFEPSPVEKKDGV----ALEPGRDHLILDCLSDLSKHSPAL 593 (1101)
T ss_pred hcccccccccCcCccccccccccccccCcccccccccccccCCcccchhhcc----ccCCCcccceeeehhhcccccccc
Confidence 66666666778899999999999999999 8998764332 22 2222222 899999999999999998764300
Q ss_pred -----cc---cccccCCCC-C-CcCCCCCCCCCCCeeEEEeeecCCcEEEEEcCCCeeEeecceeeeeeecCCCCCCCCC
Q 004854 416 -----CK---DAALEGTIS-D-WEQNDCPDTHYSSCIGIVTGFKDGAVEVRWATGFTTKVGPNEIYGVEKYEGSATTPGT 485 (727)
Q Consensus 416 -----~~---~~~~~~~~~-~-~~~~~~~~~~~ls~vG~V~~~~dG~v~V~W~dg~~s~v~p~~l~~v~~~~d~~s~~~~ 485 (727)
.+ +.-+.|-.. . ..+......+..+|++...++..|...|.|.+|..+.|.|.-+|..+ .+.++....+
T Consensus 594 ~~s~~tq~~~e~~~kg~p~~~~e~~~~~~~~t~~s~~~~~s~~~~~~~~~~~~~~~~stv~p~~~~~~g-d~~s~~~~~~ 672 (1101)
T KOG0895|consen 594 PRSSVTQFFPELSFKGNPTCTEEQQLEPATGTGFSTGSTASGLDVEQELVKQRDGTASTVNPVVSYVNG-DAQSEHETGG 672 (1101)
T ss_pred cCCcccccHHHHhhcCCCcCChhhcccccccccccccccccceeeccccccccCCccCccCCeeEEecC-CCcchhhhcc
Confidence 00 011111110 0 01111122256889999999999999999999999999999999997 2222222222
Q ss_pred CCCcccccchhh-cCCcCCCCCCCCCCCCCCCC---CCC-CCCCC--CCccchhhhhhhhhhhhhhhccccCCCCCCCCC
Q 004854 486 NEGNIEELNREL-HGKQYSSHGGENLPSFDGSG---EGC-KKYPW--ESSSFSLACAAIGFFTSIVTSLFGPLGSTSQSD 558 (727)
Q Consensus 486 ~e~~~~~~swEt-~d~~~~~~~~~d~~~~~~~~---~~~-~~~~~--~~~~~~~~~~a~~~~~~~~~~~~~~~g~~~~~~ 558 (727)
-+.. +.-+|++ .+++---...|.+.-.-++. .+. .+.+. .....+++.++|.|.+.+++++| +++.+.+..
T Consensus 673 ~~~~-~~~s~~~~~~e~~~~~~~~~~~l~~s~~~~i~~~~~~e~~~~~~~~~~~~~~ti~~~~~~~s~~~-~~~~~~v~~ 750 (1101)
T KOG0895|consen 673 VESS-ALPSWLLLLREQRCLIEAMSSYLRRSSVLDIANHVPNELGELLRGIASLNLETIEFQSELQSSVF-TRLAKMVTC 750 (1101)
T ss_pred eehh-hccccchhhhhhccCchhHHHHHhHHHHHHHhccCCcccchhhcccccCCcchhhHHHHHHHHHH-hhhhhhhhh
Confidence 2222 2346777 33311111111100000000 000 01111 12334456789999999999999 788777655
Q ss_pred CCCCCCCCCCCchhh--------------hhHHHHHhhhhccCCCCCCccccccccccccccccCCcchhhhhhhccccC
Q 004854 559 SVSSGHIPEDANETE--------------ILLEKEVFEAKNICCEPHPSELQTRGKTNLIQEVEEDPEKEEFKAFTACEN 624 (727)
Q Consensus 559 s~~~~~~~~d~~e~~--------------~~~~~~~~e~~~~~~e~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~ 624 (727)
..+...+ +-++-+. +..+.+..++|++..- . ......+..+.-.+-+....+-...
T Consensus 751 ~~~y~~i-k~~~~~~~~~~~~~~~~~e~~s~~~~~i~~~~e~~~~-~--------a~~~n~~~~d~~~~l~~~s~~~~~~ 820 (1101)
T KOG0895|consen 751 VDTYTNI-KRENVKTGVKPDASKQEPEDLSLLKPDIQKTAEIVYA-S--------ANQANQLKGDVMKKLAFDSFSVVSE 820 (1101)
T ss_pred hhceeee-cceeeecccCCCccccCccccchhhhHHHHHHHHhhh-h--------hhhhhhhhhhhhchhccCCcccccC
Confidence 4443332 2221110 1111111222222110 0 0000000000000000000000000
Q ss_pred CCCCcceeEeccCCCCCccccccccccccccchHHHHHHHHHHHHHHhCCCCCEEEEEcCCCCceEEEEEEcCCCCCCCC
Q 004854 625 SEDQFRQFDMVSDSSDHHFLGASKGLALSQVKRAWVKKVQQEWSILEKSLPETIYVRIFEDRVDLIRAAIVGAKGTPYHD 704 (727)
Q Consensus 625 ~~~~f~~f~~~~~~~dhhf~~~~~~~~~~~~~~~~~kRL~kEl~~L~~~~p~gI~v~~~ednl~~w~~~I~GP~~TPYeg 704 (727)
+...-.+|++++.+++|||....... ...+.+++..+.|++.|..++|.||+||.+|+||++++++|+||.+|||++
T Consensus 821 ~d~~~~~F~v~~~~~~~h~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~vr~~e~r~d~~~~~~~g~~~tpy~~ 897 (1101)
T KOG0895|consen 821 DDDGSLRFDVNYDYMDHHKNANDGNK---AAEAQWAKKVQTEWKILPLSLPSGIFVRAYEDRMDLLRAVIVGAAGTPYQD 897 (1101)
T ss_pred CCchhccccccCchHHHhhhhccccc---HHHHHHHHHHHHHHHhhhccCCCceEEEechHHHHHHHHHhhCCCCCcccc
Confidence 11111689999999999998654432 223388999999999999999999999999999999999999999999999
Q ss_pred cEEEEEEECCCCCCCCCCeeEe
Q 004854 705 GLFFFDIFLPPEYPHEPPVSFR 726 (727)
Q Consensus 705 G~F~f~I~fP~~YP~~PP~V~F 726 (727)
|+|+|+|+||++||..||.|+|
T Consensus 898 ~~f~fd~~~~~~yp~~pp~~~~ 919 (1101)
T KOG0895|consen 898 GLFFFDFQFPQDYPSSPPLVHY 919 (1101)
T ss_pred ceEEEEeecCCCCCCCCCceEe
Confidence 9999999999999999999987
No 2
>KOG0417 consensus Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.76 E-value=6.5e-19 Score=167.13 Aligned_cols=69 Identities=29% Similarity=0.540 Sum_probs=66.6
Q ss_pred HHHHHHHHHHHHHhCCCCCEEEEEcCCCCceEEEEEEcCCCCCCCCcEEEEEEECCCCCCCCCCeeEeC
Q 004854 659 WVKKVQQEWSILEKSLPETIYVRIFEDRVDLIRAAIVGAKGTPYHDGLFFFDIFLPPEYPHEPPVSFRI 727 (727)
Q Consensus 659 ~~kRL~kEl~~L~~~~p~gI~v~~~ednl~~w~~~I~GP~~TPYegG~F~f~I~fP~~YP~~PP~V~Fl 727 (727)
+.+||.||++.|++++|+||.+.+.++||++|+|+|.||.+||||||.|+++|+||++||++||+|+|+
T Consensus 2 a~~RI~kE~~~l~~dp~~~~~~~~~~dnl~~w~a~I~GP~~SpYEgG~F~l~I~~p~~YP~~PPkV~F~ 70 (148)
T KOG0417|consen 2 ASKRIIKELQDLLRDPPPGCSAGPVGDNLFHWQATILGPPGSPYEGGVFFLEIHFPEDYPFKPPKVRFL 70 (148)
T ss_pred cHHHHHHHHHHHhcCCCCCCccCCCCCceeeEEEEEECCCCCCcCCCEEEEEEECCCCCCCCCCceEee
Confidence 356999999999999999999999999999999999999999999999999999999999999999995
No 3
>COG5078 Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.74 E-value=7.6e-18 Score=162.95 Aligned_cols=69 Identities=29% Similarity=0.483 Sum_probs=67.2
Q ss_pred HHHHHHHHHHHHHhCCCCCEEEEEcCC-CCceEEEEEEcCCCCCCCCcEEEEEEECCCCCCCCCCeeEeC
Q 004854 659 WVKKVQQEWSILEKSLPETIYVRIFED-RVDLIRAAIVGAKGTPYHDGLFFFDIFLPPEYPHEPPVSFRI 727 (727)
Q Consensus 659 ~~kRL~kEl~~L~~~~p~gI~v~~~ed-nl~~w~~~I~GP~~TPYegG~F~f~I~fP~~YP~~PP~V~Fl 727 (727)
+.+||+||++.|++++|++|.+.+.++ ||++|.++|.||.+||||||.|++.|.||++||++||+|+|+
T Consensus 6 a~~RL~kE~~~l~~~~~~~~~a~p~~d~~l~~w~~~i~GP~dtpYegg~f~~~l~fP~~YP~~PPkv~F~ 75 (153)
T COG5078 6 ALKRLLKELKKLQKDPPPGISAGPVDDDNLFHWEATITGPPDTPYEGGIFKLTLEFPEDYPFKPPKVRFT 75 (153)
T ss_pred HHHHHHHHHHHHhcCCCCceEEEECCCCcceeEEEEEECCCCCCcCCCEEEEEEECCCCCCCCCCeeeec
Confidence 789999999999999999999999887 999999999999999999999999999999999999999995
No 4
>PTZ00390 ubiquitin-conjugating enzyme; Provisional
Probab=99.68 E-value=9.4e-17 Score=156.14 Aligned_cols=69 Identities=28% Similarity=0.507 Sum_probs=66.9
Q ss_pred HHHHHHHHHHHHHhCCCCCEEEEEcCCCCceEEEEEEcCCCCCCCCcEEEEEEECCCCCCCCCCeeEeC
Q 004854 659 WVKKVQQEWSILEKSLPETIYVRIFEDRVDLIRAAIVGAKGTPYHDGLFFFDIFLPPEYPHEPPVSFRI 727 (727)
Q Consensus 659 ~~kRL~kEl~~L~~~~p~gI~v~~~ednl~~w~~~I~GP~~TPYegG~F~f~I~fP~~YP~~PP~V~Fl 727 (727)
+.|||+||+++|++++++||.+.+.++|+++|+++|.||++|||+||.|+|+|.||++||++||+|+|+
T Consensus 3 ~~kRl~~E~~~l~~~~~~~i~~~~~~~d~~~w~~~i~GP~~tpY~gg~f~~~i~~p~~YP~~pP~v~F~ 71 (152)
T PTZ00390 3 ISKRIEKETQNLANDPPPGIKAEPDPGNYRHFKILMEGPDGTPYEGGYYKLELFLPEQYPMEPPKVRFL 71 (152)
T ss_pred HHHHHHHHHHHHHhCCCCCeEEEECCCCccEEEEEEEcCCCCCCcCcEEEEEEECccccCCCCCEEEEe
Confidence 468999999999999999999999999999999999999999999999999999999999999999995
No 5
>PLN00172 ubiquitin conjugating enzyme; Provisional
Probab=99.67 E-value=1.5e-16 Score=153.96 Aligned_cols=69 Identities=30% Similarity=0.563 Sum_probs=66.8
Q ss_pred HHHHHHHHHHHHHhCCCCCEEEEEcCCCCceEEEEEEcCCCCCCCCcEEEEEEECCCCCCCCCCeeEeC
Q 004854 659 WVKKVQQEWSILEKSLPETIYVRIFEDRVDLIRAAIVGAKGTPYHDGLFFFDIFLPPEYPHEPPVSFRI 727 (727)
Q Consensus 659 ~~kRL~kEl~~L~~~~p~gI~v~~~ednl~~w~~~I~GP~~TPYegG~F~f~I~fP~~YP~~PP~V~Fl 727 (727)
+.+||+||+++|++++++++.+.+.++|+.+|+++|.||++|||+||.|+|.|.||++||++||+|+|+
T Consensus 2 a~~Rl~kE~~~l~~~~~~~~~~~~~~~nl~~w~~~i~GP~~tpyegg~f~~~i~fp~~YP~~pP~v~f~ 70 (147)
T PLN00172 2 ATKRIQKEHKDLLKDPPSNCSAGPSDENLFRWTASIIGPSDSPYAGGVFFLSILFPPDYPFKPPKVQFT 70 (147)
T ss_pred hHHHHHHHHHHHHhCCCCCeEEEECCCChheEEEEEECCCCCCCCCCEEEEEEECCcccCCCCCEEEEe
Confidence 468999999999999999999999999999999999999999999999999999999999999999995
No 6
>KOG0419 consensus Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.67 E-value=1.1e-16 Score=148.11 Aligned_cols=70 Identities=23% Similarity=0.447 Sum_probs=68.0
Q ss_pred HHHHHHHHHHHHHHhCCCCCEEEEEcCCCCceEEEEEEcCCCCCCCCcEEEEEEECCCCCCCCCCeeEeC
Q 004854 658 AWVKKVQQEWSILEKSLPETIYVRIFEDRVDLIRAAIVGAKGTPYHDGLFFFDIFLPPEYPHEPPVSFRI 727 (727)
Q Consensus 658 ~~~kRL~kEl~~L~~~~p~gI~v~~~ednl~~w~~~I~GP~~TPYegG~F~f~I~fP~~YP~~PP~V~Fl 727 (727)
.+.+||+|+++.|++++|.||+..|.++||.+|.++|.||.+|||+||+|++.|+|+.+||++||.|+|+
T Consensus 4 pArrrLmrDfkrlqedpp~gisa~P~~~niM~W~a~I~Gp~~tp~e~gtFkLtl~FteeYpnkPP~VrFv 73 (152)
T KOG0419|consen 4 PARRRLMRDFKRLQEDPPAGISAAPVENNIMEWNAVIFGPQDTPFEGGTFKLTLEFTEEYPNKPPTVRFV 73 (152)
T ss_pred hHHHHHHHHHHHhhcCCCCCccCCCCccceeeeeeeEEcCCCCCcCCceEEEEEEcccccCCCCCeeEee
Confidence 4678999999999999999999999999999999999999999999999999999999999999999996
No 7
>KOG0426 consensus Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.65 E-value=1.9e-16 Score=146.16 Aligned_cols=71 Identities=25% Similarity=0.329 Sum_probs=67.7
Q ss_pred hHHHHHHHHHHHHHHhCCCCCEEEEE-cCCCCceEEEEEEcCCCCCCCCcEEEEEEECCCCCCCCCCeeEeC
Q 004854 657 RAWVKKVQQEWSILEKSLPETIYVRI-FEDRVDLIRAAIVGAKGTPYHDGLFFFDIFLPPEYPHEPPVSFRI 727 (727)
Q Consensus 657 ~~~~kRL~kEl~~L~~~~p~gI~v~~-~ednl~~w~~~I~GP~~TPYegG~F~f~I~fP~~YP~~PP~V~Fl 727 (727)
..++|||++|+++|.+++|+||.+.+ .++|++.|.|+|.||++|||+||.|-..+.||.+||.+||+++|.
T Consensus 3 ~~AlkRLm~EykqLt~~~P~GIvAgP~~EdnfF~W~cLI~GP~~T~f~~GvfpA~l~FP~DYPLsPPkm~Ft 74 (165)
T KOG0426|consen 3 GTALKRLMAEYKQLTLNPPEGIVAGPINEDNFFEWECLIQGPEDTCFEGGVFPARLSFPLDYPLSPPKMRFT 74 (165)
T ss_pred hhHHHHHHHHHHHHccCCCCcceeCCCCccceeeeeeeeeCCCCCcccCCccceeeecCCCCCCCCCceeee
Confidence 56899999999999999999999988 578999999999999999999999999999999999999999984
No 8
>KOG0894 consensus Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.64 E-value=2.8e-16 Score=156.10 Aligned_cols=72 Identities=31% Similarity=0.488 Sum_probs=69.7
Q ss_pred chHHHHHHHHHHHHHHhCCCCCEEEEEcCCCCceEEEEEEcCCCCCCCCcEEEEEEECCCCCCCCCCeeEeC
Q 004854 656 KRAWVKKVQQEWSILEKSLPETIYVRIFEDRVDLIRAAIVGAKGTPYHDGLFFFDIFLPPEYPHEPPVSFRI 727 (727)
Q Consensus 656 ~~~~~kRL~kEl~~L~~~~p~gI~v~~~ednl~~w~~~I~GP~~TPYegG~F~f~I~fP~~YP~~PP~V~Fl 727 (727)
.+++.|||+||++.|.++|+++|.+++.++||.+|+.+|.||++|||+||.|+..|.||++||++||.|+++
T Consensus 3 ~k~a~kRl~keY~~l~k~Pv~~i~A~P~p~nILEWHYvl~GpedTPy~GG~YhGkl~FP~eyP~KPPaI~Mi 74 (244)
T KOG0894|consen 3 SKAAVKRLQKEYRALCKDPVPYIVARPNPNNILEWHYVLRGPEDTPYYGGYYHGKLIFPPEYPFKPPAITMI 74 (244)
T ss_pred chHHHHHHHHHHHHHHhCCchhhccCCCccceeeeEEEeeCCCCCCccCceeeeEEeCCCCCCCCCCeeEEE
Confidence 477899999999999999999999999999999999999999999999999999999999999999999875
No 9
>PF00179 UQ_con: Ubiquitin-conjugating enzyme; InterPro: IPR000608 The post-translational attachment of ubiquitin (IPR000626 from INTERPRO) to proteins (ubiquitinylation) alters the function, location or trafficking of a protein, or targets it to the 26S proteasome for degradation [, , ]. Ubiquitinylation is an ATP-dependent process that involves the action of at least three enzymes: a ubiquitin-activating enzyme (E1, IPR000011 from INTERPRO), a ubiquitin-conjugating enzyme (E2), and a ubiquitin ligase (E3, IPR000569 from INTERPRO, IPR003613 from INTERPRO), which work sequentially in a cascade []. The E1 enzyme mediates an ATP-dependent transfer of a thioester-linked ubiquitin molecule to a cysteine residue on the E2 enzyme. The E2 enzyme (6.3.2.19 from EC) then either transfers the ubiquitin moiety directly to a substrate, or to an E3 ligase, which can also ubiquitinylate a substrate. There are several different E2 enzymes (over 30 in humans), which are broadly grouped into four classes, all of which have a core catalytic domain (containing the active site cysteine), and some of which have short N- and C-terminal amino acid extensions: class I enzymes consist of just the catalytic core domain (UBC), class II possess a UBC and a C-terminal extension, class III possess a UBC and an N-terminal extension, and class IV possess a UBC and both N- and C-terminal extensions. These extensions appear to be important for some subfamily function, including E2 localisation and protein-protein interactions []. In addition, there are proteins with an E2-like fold that are devoid of catalytic activity, but which appear to assist in poly-ubiquitin chain formation.; GO: 0016881 acid-amino acid ligase activity; PDB: 2AAK_A 3SY2_C 1FBV_C 3SQV_C 1C4Z_D 1JAT_B 2GMI_B 2H2Y_D 2R0J_A 3E95_B ....
Probab=99.57 E-value=4.9e-15 Score=141.53 Aligned_cols=66 Identities=38% Similarity=0.644 Sum_probs=62.3
Q ss_pred HHHHHHHHHHhCCCCCEEEEEcCC-CCceEEEEEEcCCCCCCCCcEEEEEEECCCCCCCCCCeeEeC
Q 004854 662 KVQQEWSILEKSLPETIYVRIFED-RVDLIRAAIVGAKGTPYHDGLFFFDIFLPPEYPHEPPVSFRI 727 (727)
Q Consensus 662 RL~kEl~~L~~~~p~gI~v~~~ed-nl~~w~~~I~GP~~TPYegG~F~f~I~fP~~YP~~PP~V~Fl 727 (727)
||+||++.|+++++.||.+.+.++ ++++|+++|.||.+|||+||.|+|.|.||++||++||+|+|+
T Consensus 1 Rl~~E~~~l~~~~~~~~~~~~~~~~~~~~w~~~i~gp~~t~y~gg~f~~~i~~p~~YP~~pP~v~f~ 67 (140)
T PF00179_consen 1 RLQKELKELQKNPPPGISVQPSEDDNLFEWHVTIFGPPGTPYEGGIFKFRISFPPDYPFSPPKVRFL 67 (140)
T ss_dssp HHHHHHHHHHHSHTTTEEEEEESTTETTEEEEEEEBETTSTTTTSEEEEEEEETTTTTTS--EEEES
T ss_pred CHHHHHHHHhhCCCCCEEEEECCCCChheEEEEEeccCccceecccccccccccccccccccccccc
Confidence 899999999999999999999886 999999999999999999999999999999999999999995
No 10
>cd00195 UBCc Ubiquitin-conjugating enzyme E2, catalytic (UBCc) domain. This is part of the ubiquitin-mediated protein degradation pathway in which a thiol-ester linkage forms between a conserved cysteine and the C-terminus of ubiquitin and complexes with ubiquitin protein ligase enzymes, E3. This pathway regulates many fundamental cellular processes. There are also other E2s which form thiol-ester linkages without the use of E3s as well as several UBC homologs (TSG101, Mms2, Croc-1 and similar proteins) which lack the active site cysteine essential for ubiquitination and appear to function in DNA repair pathways which were omitted from the scope of this CD.
Probab=99.54 E-value=2e-14 Score=137.60 Aligned_cols=67 Identities=33% Similarity=0.549 Sum_probs=65.3
Q ss_pred HHHHHHHHHHHhCCCCCEEEEEcCCCCceEEEEEEcCCCCCCCCcEEEEEEECCCCCCCCCCeeEeC
Q 004854 661 KKVQQEWSILEKSLPETIYVRIFEDRVDLIRAAIVGAKGTPYHDGLFFFDIFLPPEYPHEPPVSFRI 727 (727)
Q Consensus 661 kRL~kEl~~L~~~~p~gI~v~~~ednl~~w~~~I~GP~~TPYegG~F~f~I~fP~~YP~~PP~V~Fl 727 (727)
+||++|+++|++++++|+++.+.++++..|+++|.||++|||+||.|+|.|.||++||++||+|+|+
T Consensus 2 ~Rl~~E~~~l~~~~~~~~~v~~~~~~~~~w~~~i~g~~~t~y~g~~~~~~~~~p~~yP~~pP~v~f~ 68 (141)
T cd00195 2 KRLQKELKDLKKDPPSGISAEPVEENLLEWHGTIRGPPDTPYEGGIFKLDIEFPEDYPFKPPKVRFV 68 (141)
T ss_pred chHHHHHHHHHhCCCCCeEEEECCCChhEEEEEEecCCCCCccCCEEEEEEECCCccCCCCCeEEEe
Confidence 7999999999999999999999999999999999999999999999999999999999999999994
No 11
>KOG0418 consensus Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.53 E-value=1.5e-14 Score=141.56 Aligned_cols=69 Identities=29% Similarity=0.526 Sum_probs=66.0
Q ss_pred HHHHHHHHHHHHHhCC---CCCEEEEEcCCCCceEEEEEEcCCCCCCCCcEEEEEEECCCCCCCCCCeeEeC
Q 004854 659 WVKKVQQEWSILEKSL---PETIYVRIFEDRVDLIRAAIVGAKGTPYHDGLFFFDIFLPPEYPHEPPVSFRI 727 (727)
Q Consensus 659 ~~kRL~kEl~~L~~~~---p~gI~v~~~ednl~~w~~~I~GP~~TPYegG~F~f~I~fP~~YP~~PP~V~Fl 727 (727)
+++||+||++++..++ -.||.+....+++.+.+..|.||++||||||.|.++|++|.+|||+||+|+|.
T Consensus 4 ~~~ri~~e~k~v~~~~eisq~~I~ve~vn~~~~~ikG~I~GP~~TPYEGG~FeldI~iPe~YPF~pPkv~F~ 75 (200)
T KOG0418|consen 4 AFKRINREQKEVLDDPEISQAGIIVEMVNENLKEIKGHIAGPEDTPYEGGVFELDIKIPENYPFKPPKVKFI 75 (200)
T ss_pred HHHHHHHHHHHhccChhhhhcceEEEEccCChhhceeEecCCCCCCCCCceEEEEEecCCCCCCCCCceeee
Confidence 6899999999999888 58999999999999999999999999999999999999999999999999994
No 12
>KOG0421 consensus Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.47 E-value=1e-13 Score=130.11 Aligned_cols=72 Identities=24% Similarity=0.231 Sum_probs=68.9
Q ss_pred chHHHHHHHHHHHHHHhCCCCCEEEEEcCCCCceEEEEEEcCCCCCCCCcEEEEEEECCCCCCCCCCeeEeC
Q 004854 656 KRAWVKKVQQEWSILEKSLPETIYVRIFEDRVDLIRAAIVGAKGTPYHDGLFFFDIFLPPEYPHEPPVSFRI 727 (727)
Q Consensus 656 ~~~~~kRL~kEl~~L~~~~p~gI~v~~~ednl~~w~~~I~GP~~TPYegG~F~f~I~fP~~YP~~PP~V~Fl 727 (727)
.....|||++||..|....-+||.+.|.++|++.|..+|.||.+|+|+|-.|++.+.||.+||+.||+|+|+
T Consensus 27 ~~~V~KRLq~ELm~Lmms~~~gISAFP~~dnlf~WvGtItGp~dTvyegl~yklSl~Fp~~YPy~pP~vkFl 98 (175)
T KOG0421|consen 27 GHSVTKRLQSELMGLMMSNTPGISAFPESDNLFKWVGTITGPKDTVYEGLKYKLSLSFPNNYPYKPPTVKFL 98 (175)
T ss_pred CchHHHHHHHHHHHHHhcCCCCcccCcCcCceeEEeeEeeCCCCccccCcEEEEEEecCCCCCCCCCeeEee
Confidence 345689999999999999999999999999999999999999999999999999999999999999999996
No 13
>smart00212 UBCc Ubiquitin-conjugating enzyme E2, catalytic domain homologues. Proteins destined for proteasome-mediated degradation may be ubiquitinated. Ubiquitination follows conjugation of ubiquitin to a conserved cysteine residue of UBC homologues. This pathway functions in regulating many fundamental processes required for cell viability.TSG101 is one of several UBC homologues that lacks this active site cysteine.
Probab=99.47 E-value=1.3e-13 Score=132.57 Aligned_cols=67 Identities=34% Similarity=0.570 Sum_probs=64.0
Q ss_pred HHHHHHHHHHHhCCCCCEEEEEcCC-CCceEEEEEEcCCCCCCCCcEEEEEEECCCCCCCCCCeeEeC
Q 004854 661 KKVQQEWSILEKSLPETIYVRIFED-RVDLIRAAIVGAKGTPYHDGLFFFDIFLPPEYPHEPPVSFRI 727 (727)
Q Consensus 661 kRL~kEl~~L~~~~p~gI~v~~~ed-nl~~w~~~I~GP~~TPYegG~F~f~I~fP~~YP~~PP~V~Fl 727 (727)
+||++|++.+++++++|+.+.+.++ |+..|+++|.||.+|||+||.|.|.|.||++||++||+|+|+
T Consensus 1 ~Rl~~E~~~~~~~~~~~~~v~~~~~~~~~~w~~~i~gp~~~~y~g~~f~~~l~~p~~yP~~pP~v~f~ 68 (145)
T smart00212 1 KRLLKELKELLKDPPPGISAYPVDEDNLLEWTGTIVGPPGTPYEGGIFKLTIEFPPDYPFKPPKVKFI 68 (145)
T ss_pred ChHHHHHHHHHhCCCCCeEEEECCCCChheEEEEEEcCCCCCcCCcEEEEEEECCcccCCCCCEEEEe
Confidence 5999999999999999999988775 999999999999999999999999999999999999999984
No 14
>KOG0425 consensus Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.45 E-value=1.6e-13 Score=130.74 Aligned_cols=69 Identities=23% Similarity=0.330 Sum_probs=64.7
Q ss_pred HHHHHHHHHHHHHhCCCCCEEEEEcCC-CCceEEEEEEcCCCCCCCCcEEEEEEECCCCCCCCCCeeEeC
Q 004854 659 WVKKVQQEWSILEKSLPETIYVRIFED-RVDLIRAAIVGAKGTPYHDGLFFFDIFLPPEYPHEPPVSFRI 727 (727)
Q Consensus 659 ~~kRL~kEl~~L~~~~p~gI~v~~~ed-nl~~w~~~I~GP~~TPYegG~F~f~I~fP~~YP~~PP~V~Fl 727 (727)
+..-|+++|+.|++.+.+|+.+...++ |++.|.+.|+||++|+|+||.|+..+.||.+||++||+++|+
T Consensus 6 a~~ll~~qlk~L~~~pv~gf~~glvd~~dif~WeV~i~gppdTlYeGG~FkA~m~FP~dYP~sPP~~rF~ 75 (171)
T KOG0425|consen 6 ASLLLLKQLKELQEEPVEGFSVGLVDDSDIFEWEVAIIGPPDTLYEGGFFKAHMKFPQDYPLSPPTFRFT 75 (171)
T ss_pred hHHHHHHHHHHHhcCCCCccccccccCCceeEEEEEEEcCCCccccCceeEEEEeCcccCCCCCCceeee
Confidence 566789999999999999999988655 999999999999999999999999999999999999999995
No 15
>KOG0895 consensus Ubiquitin-conjugating enzyme [Posttranslational modification, protein turnover, chaperones]
Probab=99.33 E-value=1.7e-12 Score=152.93 Aligned_cols=99 Identities=45% Similarity=0.786 Sum_probs=91.0
Q ss_pred CCcceeEeccCCCCCccccccccccccccchHHHHHHHHHHHHHHhCCCCCEEEEEcCCCCceEEEEEEcCCCCCCCCcE
Q 004854 627 DQFRQFDMVSDSSDHHFLGASKGLALSQVKRAWVKKVQQEWSILEKSLPETIYVRIFEDRVDLIRAAIVGAKGTPYHDGL 706 (727)
Q Consensus 627 ~~f~~f~~~~~~~dhhf~~~~~~~~~~~~~~~~~kRL~kEl~~L~~~~p~gI~v~~~ednl~~w~~~I~GP~~TPYegG~ 706 (727)
..|+.|.+.+..++|||....... .+.++.+.+|+++|++.+.+++|++|++++.+.||+..+++|+||.+|||++|+
T Consensus 253 ~~i~kf~~~ed~~~~~~~~k~~~~--k~hs~~~skrv~ke~~llskdlpEgifvrp~e~RMd~I~alIig~~gtPy~~gl 330 (1101)
T KOG0895|consen 253 DLIPKFKLVEDKSFHHYAKKGKSS--KPHSKNWSKKVAKELKLLSKDLPEGIFVRPDEGRMDLIKALIIGPDGTPYADGL 330 (1101)
T ss_pred cchhhhccccccccccccccCCCC--CccchhhHHHHHHHhhhhcccCCCCccccccccccceeeeEEecCCCCCCcCCc
Confidence 367899999999999999654332 367888999999999999999999999999999999999999999999999999
Q ss_pred EEEEEECCCCCCCCCCeeEeC
Q 004854 707 FFFDIFLPPEYPHEPPVSFRI 727 (727)
Q Consensus 707 F~f~I~fP~~YP~~PP~V~Fl 727 (727)
|.|+|+||..||..||+|+|+
T Consensus 331 f~Fdiq~P~~yPa~pp~v~~l 351 (1101)
T KOG0895|consen 331 FLFDIQFPDTYPAVPPHVKYL 351 (1101)
T ss_pred eeeEeecCCCCCCCCceeEEe
Confidence 999999999999999999974
No 16
>KOG0428 consensus Non-canonical ubiquitin conjugating enzyme 1 [Posttranslational modification, protein turnover, chaperones]
Probab=99.33 E-value=1.6e-12 Score=131.42 Aligned_cols=72 Identities=25% Similarity=0.403 Sum_probs=66.5
Q ss_pred ccchHHHHHHHHHHHHHHhCCCCCEEEEEcCCCCceEEEEEEcCCCCCCCCcEEEEEEECCCCCCCCCCeeEe
Q 004854 654 QVKRAWVKKVQQEWSILEKSLPETIYVRIFEDRVDLIRAAIVGAKGTPYHDGLFFFDIFLPPEYPHEPPVSFR 726 (727)
Q Consensus 654 ~~~~~~~kRL~kEl~~L~~~~p~gI~v~~~ednl~~w~~~I~GP~~TPYegG~F~f~I~fP~~YP~~PP~V~F 726 (727)
+....+.|||+||.++|+ +|.+.+...+.|+|+++|+++|.||.+|-|+||+|+.+|.||.+||++||.+-.
T Consensus 7 N~KnpaVkRlmkEa~El~-~Ptd~yha~plEdNlFEWhFtiRGp~dtdFeGGiYHGRI~lPadYPmKPPs~iL 78 (314)
T KOG0428|consen 7 NLKNPAVKRLMKEAAELK-DPTDHYHAQPLEDNLFEWHFTIRGPPDTDFEGGIYHGRIVLPADYPMKPPSIIL 78 (314)
T ss_pred cccCHHHHHHHHHHHHhc-CchhhhhhccchhceeeEEEEeeCCCCCCccCceeeeeEecCCCCCCCCCeEEE
Confidence 345667999999999998 777888999999999999999999999999999999999999999999998854
No 17
>KOG0424 consensus Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.30 E-value=4.8e-12 Score=119.21 Aligned_cols=70 Identities=24% Similarity=0.428 Sum_probs=64.9
Q ss_pred HHHHHHHHHHHHHHhCCCCCEEEEEcC-----CCCceEEEEEEcCCCCCCCCcEEEEEEECCCCCCCCCCeeEeC
Q 004854 658 AWVKKVQQEWSILEKSLPETIYVRIFE-----DRVDLIRAAIVGAKGTPYHDGLFFFDIFLPPEYPHEPPVSFRI 727 (727)
Q Consensus 658 ~~~kRL~kEl~~L~~~~p~gI~v~~~e-----dnl~~w~~~I~GP~~TPYegG~F~f~I~fP~~YP~~PP~V~Fl 727 (727)
.++.||+.|-+.+.++.|-|+++.|.. .|+..|.|.|.||.+||||||+|.+.+.||.+||+.||+++|.
T Consensus 4 ~~~~rl~eErk~wrk~hp~gf~AkP~~~~dg~~nl~~Wec~IPG~~~t~wEGg~y~l~v~F~~dyP~~PPkckF~ 78 (158)
T KOG0424|consen 4 IALNRLAEERKKWRKDHPFGFYAKPVKNADGTLNLMNWECGIPGKKGTPWEGGLYKLTVNFPDDYPSSPPKCKFK 78 (158)
T ss_pred hHHHHHHHHHHHHhhcCCCceeeeccCCCCCcceeEEEEeecCCCCCCcCcCceEEEEEeCCccCCCCCCccccC
Confidence 358899999999999999999998843 3799999999999999999999999999999999999999983
No 18
>KOG0427 consensus Ubiquitin conjugating enzyme [Posttranslational modification, protein turnover, chaperones]
Probab=99.25 E-value=1.8e-11 Score=113.46 Aligned_cols=71 Identities=23% Similarity=0.396 Sum_probs=66.6
Q ss_pred chHHHHHHHHHHHHHHhCCCCCEEEEEcCCCCceEEEEEEcCCCCCCCCcEEEEEEECCCCCCCCCCeeEeC
Q 004854 656 KRAWVKKVQQEWSILEKSLPETIYVRIFEDRVDLIRAAIVGAKGTPYHDGLFFFDIFLPPEYPHEPPVSFRI 727 (727)
Q Consensus 656 ~~~~~kRL~kEl~~L~~~~p~gI~v~~~ednl~~w~~~I~GP~~TPYegG~F~f~I~fP~~YP~~PP~V~Fl 727 (727)
.+.+.+|||||+.+++.++|.|+..+ ..+|+..|.+-+.|.+||.|+|..|.+.+.||+.||+..|+|.|+
T Consensus 13 s~~at~RLqKEl~e~q~~pP~G~~~~-v~dnlqqWii~v~Ga~GTLYa~e~~qLq~~F~~~YP~esPqVmF~ 83 (161)
T KOG0427|consen 13 SKIATNRLQKELSEWQNNPPTGFKHR-VTDNLQQWIIEVTGAPGTLYANETYQLQVEFPEHYPMESPQVMFV 83 (161)
T ss_pred HHHHHHHHHHHHHHHhcCCCCcceee-cccchheeEEEEecCCceeecCcEEEEEEecCCCCCCCCCeEEEe
Confidence 45678999999999999999999888 667899999999999999999999999999999999999999985
No 19
>KOG0422 consensus Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.20 E-value=1.9e-11 Score=114.64 Aligned_cols=67 Identities=22% Similarity=0.382 Sum_probs=61.8
Q ss_pred HHHHHHHHHHHHHhCCCCCEE-EEEcCCCCceEEEEEEcCCCCCCCCcEEEEEEECCCCCCCCCCeeEe
Q 004854 659 WVKKVQQEWSILEKSLPETIY-VRIFEDRVDLIRAAIVGAKGTPYHDGLFFFDIFLPPEYPHEPPVSFR 726 (727)
Q Consensus 659 ~~kRL~kEl~~L~~~~p~gI~-v~~~ednl~~w~~~I~GP~~TPYegG~F~f~I~fP~~YP~~PP~V~F 726 (727)
+.+||+||+.+|+++....+. +...+.|++.|+++|+ |.+-||..|.|.+.|.||.+|||+||+|+|
T Consensus 3 a~~Rl~kEL~dl~~~~~~~~rn~~~~e~nll~wt~lli-pd~ppY~kgaF~l~I~fp~eYPFKPP~i~f 70 (153)
T KOG0422|consen 3 APRRLRKELADLQKNKMKFFRNIEVDEANLLKWTGLLI-PDKPPYNKGAFRLEIDFPVEYPFKPPKIKF 70 (153)
T ss_pred hhHHHHHHHHHHHhccHHHHhhhhcccccceeEEeEec-CCCCCccCcceEEEeeCCCCCCCCCCeeee
Confidence 478999999999999888664 5667889999999999 899999999999999999999999999998
No 20
>KOG0423 consensus Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.15 E-value=1.8e-11 Score=118.06 Aligned_cols=74 Identities=32% Similarity=0.606 Sum_probs=70.7
Q ss_pred ccchHHHHHHHHHHHHHHhCCCCCEEEEEcCCCCceEEEEEEcCCCCCCCCcEEEEEEECCCCCCCCCCeeEeC
Q 004854 654 QVKRAWVKKVQQEWSILEKSLPETIYVRIFEDRVDLIRAAIVGAKGTPYHDGLFFFDIFLPPEYPHEPPVSFRI 727 (727)
Q Consensus 654 ~~~~~~~kRL~kEl~~L~~~~p~gI~v~~~ednl~~w~~~I~GP~~TPYegG~F~f~I~fP~~YP~~PP~V~Fl 727 (727)
+-++..++.|+||++.|..++|+||.|.+.++++...++.|.||.||||++|+|++.+.+..+||++||+-+|+
T Consensus 6 nlpp~vik~~~kEl~~l~~~PPdGIKV~~NeeD~tdiqa~IeGP~GTPYa~GlFRmKL~L~kDFP~sPPKgYFl 79 (223)
T KOG0423|consen 6 NLPPNVIKQLAKELKSLDESPPDGIKVVVNEEDFTDIQADIEGPVGTPYANGLFRMKLALSKDFPHSPPKGYFL 79 (223)
T ss_pred CCChHHHHHHHHHHHhcccCCCCceEEecChHHhHHHHhhccCCCCCccccceeeehhhhcCCCCCCCCcceee
Confidence 55677899999999999999999999999999999999999999999999999999999999999999999985
No 21
>KOG0416 consensus Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.89 E-value=3.3e-09 Score=102.80 Aligned_cols=65 Identities=23% Similarity=0.395 Sum_probs=59.1
Q ss_pred HHHHHHHHHHHHhCCCCCEEEEEcCCCCceEEEEEEcCCCCCCCCcEEEEEEECCCCCCCCCCeeEeC
Q 004854 660 VKKVQQEWSILEKSLPETIYVRIFEDRVDLIRAAIVGAKGTPYHDGLFFFDIFLPPEYPHEPPVSFRI 727 (727)
Q Consensus 660 ~kRL~kEl~~L~~~~p~gI~v~~~ednl~~w~~~I~GP~~TPYegG~F~f~I~fP~~YP~~PP~V~Fl 727 (727)
-|||..++..|-.+ +..|...+++|.++.+.|.||.+|||+||.|++++.+|++||++.|.|.|+
T Consensus 5 ~rRid~Dv~KL~~s---~yeV~~ind~m~ef~V~f~GP~ds~YegGvWkv~V~lPd~YP~KSPSIGFv 69 (189)
T KOG0416|consen 5 KRRIDTDVMKLLMS---DYEVTIINDGMQEFYVKFHGPKDSPYEGGVWKVRVELPDNYPFKSPSIGFV 69 (189)
T ss_pred ccchhhHHHHHHhc---CCeEEEecCcccEEEEEeeCCCCCcccCceEEEEEECCCCCCCCCCcccce
Confidence 45888888888554 567889999999999999999999999999999999999999999999995
No 22
>KOG0420 consensus Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.45 E-value=3.1e-07 Score=89.61 Aligned_cols=68 Identities=26% Similarity=0.428 Sum_probs=52.5
Q ss_pred hHHHHHHHHHHHHHHhCCCCCEEEEE-c-CCCCc--eEEEEEEcCCCCCCCCcEEEEEEECCCCCCCCCCeeEeC
Q 004854 657 RAWVKKVQQEWSILEKSLPETIYVRI-F-EDRVD--LIRAAIVGAKGTPYHDGLFFFDIFLPPEYPHEPPVSFRI 727 (727)
Q Consensus 657 ~~~~kRL~kEl~~L~~~~p~gI~v~~-~-ednl~--~w~~~I~GP~~TPYegG~F~f~I~fP~~YP~~PP~V~Fl 727 (727)
+.+.-||++++.+| ++|+++.+.. . .+++. +++.+|. |.+.-|+||.|.|.|.+|+.||+.||+|+|+
T Consensus 27 s~a~lrl~~di~el--nLp~t~~~s~~~~~~d~~~~~~elti~-PdEGyY~gGkf~F~~~v~~~Yp~~PPKVkCl 98 (184)
T KOG0420|consen 27 SAALLRLKKDILEL--NLPPTCSLSFPDSPDDLNNLEFELTIT-PDEGYYQGGKFRFKFKVPNAYPHEPPKVKCL 98 (184)
T ss_pred cHHHHHHHhhhhhc--cCCCccccccccCCcccccceEEEEEc-cCcceecCceEEEEEECCCCCCCCCCeeeee
Confidence 44455666666555 7888876422 2 33333 5888888 9999999999999999999999999999985
No 23
>KOG0896 consensus Ubiquitin-conjugating enzyme E2 [Posttranslational modification, protein turnover, chaperones]
Probab=98.05 E-value=5.2e-06 Score=78.24 Aligned_cols=66 Identities=21% Similarity=0.311 Sum_probs=53.2
Q ss_pred HHHHHHHHHHhCCCCCEEEEEc--CCC--CceEEEEEEcCCCCCCCCcEEEEEEECCCCCCCCCCeeEeC
Q 004854 662 KVQQEWSILEKSLPETIYVRIF--EDR--VDLIRAAIVGAKGTPYHDGLFFFDIFLPPEYPHEPPVSFRI 727 (727)
Q Consensus 662 RL~kEl~~L~~~~p~gI~v~~~--edn--l~~w~~~I~GP~~TPYegG~F~f~I~fP~~YP~~PP~V~Fl 727 (727)
||.+|+..-++-.-++..-.-. .++ |..|..+|+||+.|+||+.+|.+.|.+-++||-.||.|+|.
T Consensus 9 rlleele~g~kg~g~~~~s~gl~d~~dmtl~rWtg~IiGPprT~yEnRiysLKI~Cgp~YPe~PP~vrf~ 78 (138)
T KOG0896|consen 9 RLLEELEEGEKGIGDGTVSWGLEDDDDMTLTRWTGTIIGPPRTMYENRIYSLKIECGPKYPELPPTVRFG 78 (138)
T ss_pred hhhhhhccccccccCceeeccccCCCcceEeeeccceeCCCCcccccceeeEEEecCCCCCCCCceeEEE
Confidence 7888888776665555332222 233 56799999999999999999999999999999999999984
No 24
>KOG0429 consensus Ubiquitin-conjugating enzyme-related protein Ft1, involved in programmed cell death [Posttranslational modification, protein turnover, chaperones]
Probab=97.76 E-value=7.7e-05 Score=75.63 Aligned_cols=64 Identities=25% Similarity=0.373 Sum_probs=56.6
Q ss_pred HHHHHHHHHHhCCCCCEEEEEcCCCCceEEEEEEcCCCCCCCCcEEEEEEECCCCCCCC--CCeeEe
Q 004854 662 KVQQEWSILEKSLPETIYVRIFEDRVDLIRAAIVGAKGTPYHDGLFFFDIFLPPEYPHE--PPVSFR 726 (727)
Q Consensus 662 RL~kEl~~L~~~~p~gI~v~~~ednl~~w~~~I~GP~~TPYegG~F~f~I~fP~~YP~~--PP~V~F 726 (727)
.|..|+....+.+-+||+|.|.-.|-++|-.+|.+-.| .|.||.|+|.|.+|.+||.. -|+|.|
T Consensus 23 ~llAEf~lV~~ekL~gIyviPSyan~l~WFGViFvr~G-iyaggVFRFtIliPdnfPdd~dlPrvvF 88 (258)
T KOG0429|consen 23 ALLAEFVLVCREKLDGIYVIPSYANKLLWFGVIFVRKG-IYAGGVFRFTILIPDNFPDDSDLPRVVF 88 (258)
T ss_pred HHHHHHHHHHhccCCceEEcccccccceEEEEEEEecc-cccCceEEEEEEcCccCCCcCCCCeEEe
Confidence 57778888888899999999999999999999997665 99999999999999999943 588876
No 25
>PF05773 RWD: RWD domain; InterPro: IPR006575 The RWD eukaryotic domain is found in RING finger (IPR001841 from INTERPRO) and WD repeat (IPR001680 from INTERPRO) containing proteins and DEXDc-like helicase (IPR001410 from INTERPRO) subfamily related to the ubiquitin-conjugating enzymes domain (IPR000608 from INTERPRO). ; GO: 0005515 protein binding; PDB: 2EBM_A 2EBK_A 2DAX_A 2DAW_A 2DAY_A 2DMF_A 1UKX_A 2YZ0_A.
Probab=92.34 E-value=0.26 Score=44.48 Aligned_cols=65 Identities=17% Similarity=0.252 Sum_probs=41.0
Q ss_pred HHHHHHHHHHHhCCCCCEEEEEcCCCCceEEEEEEc--CCCCCCCCcEEEEEEECCCCCCCCCCeeEe
Q 004854 661 KKVQQEWSILEKSLPETIYVRIFEDRVDLIRAAIVG--AKGTPYHDGLFFFDIFLPPEYPHEPPVSFR 726 (727)
Q Consensus 661 kRL~kEl~~L~~~~p~gI~v~~~ednl~~w~~~I~G--P~~TPYegG~F~f~I~fP~~YP~~PP~V~F 726 (727)
.+...|+..|+.--+..+ ......+-..+++.|.+ ...+.-....+.+.|.||++||..||.|..
T Consensus 4 e~~~~EieaL~sIy~~~~-~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~p~~YP~~~P~i~l 70 (113)
T PF05773_consen 4 EQQEEEIEALQSIYPDDF-IEIESKSPPSLEVKLDESSSSFESSSFPSVTLHFTLPPGYPESPPKISL 70 (113)
T ss_dssp HHHHHHHHHHHHHSSSSE-SSSTSSSSEEEEEEE--CEECCTTTTSEEEEEEEEE-SSTTSS--EEEE
T ss_pred HHHHHHHHHHHHHcCCCc-cccccCCCCceeeeecccccccccccceeEEEEEeCCCcCCCcCCEEEE
Confidence 466788888887555444 22223344566666632 345556667899999999999999999864
No 26
>smart00591 RWD domain in RING finger and WD repeat containing proteins and DEXDc-like helicases subfamily related to the UBCc domain.
Probab=91.33 E-value=0.74 Score=41.20 Aligned_cols=25 Identities=24% Similarity=0.313 Sum_probs=21.3
Q ss_pred CCCcEEEEEEECCCCCCCCCCeeEe
Q 004854 702 YHDGLFFFDIFLPPEYPHEPPVSFR 726 (727)
Q Consensus 702 YegG~F~f~I~fP~~YP~~PP~V~F 726 (727)
-+.-.+.+.|.||++||..+|.|.+
T Consensus 38 ~~~~~~~l~~~~p~~YP~~~P~i~~ 62 (107)
T smart00591 38 DQYVSLTLQVKLPENYPDEAPPISL 62 (107)
T ss_pred ccceEEEEEEECCCCCCCCCCCeEE
Confidence 3456699999999999999999875
No 27
>PF15057 DUF4537: Domain of unknown function (DUF4537)
Probab=85.12 E-value=6.9 Score=37.26 Aligned_cols=103 Identities=23% Similarity=0.216 Sum_probs=73.1
Q ss_pred CcEEEecCCCCCCCCCCCCceEEEEeecCCCCEEEEEceecCCCCCCCCceeeeeeecccCCC---CccccCcEEEEecc
Q 004854 334 DQFVLEKGISDDPHIPSGQRWGVVQGVDAKERTVTVQWRAKANSDSDANQSEVSAYELVEHPD---YSYCYGDVVFKLVQ 410 (727)
Q Consensus 334 Gd~V~~k~~~~~~~~~~~~~~GVVqsvd~~eRta~V~W~~~~~~~~~~~~e~VSvYel~~hpd---~~~~~GD~V~r~~~ 410 (727)
|+-|+-+...+. -=--|+|.+.- ..+.+-|+|-. ...+.|+.+++-.+.+ ..+..||.|+=..+
T Consensus 1 g~~VlAR~~~DG-----~YY~GtV~~~~-~~~~~lV~f~~-------~~~~~v~~~~iI~~~~~~~~~L~~GD~VLA~~~ 67 (124)
T PF15057_consen 1 GQKVLARREEDG-----FYYPGTVKKCV-SSGQFLVEFDD-------GDTQEVPISDIIALSDAMRHSLQVGDKVLAPWE 67 (124)
T ss_pred CCeEEEeeCCCC-----cEEeEEEEEcc-CCCEEEEEECC-------CCEEEeChHHeEEccCcccCcCCCCCEEEEecC
Confidence 566776555331 12347666665 88999999922 4677888888876655 48999999973322
Q ss_pred CCccccccccccCCCCCCcCCCCCCCCCCCee-EEEe------eecCCcEEEEEcCCCeeEeecceeeeee
Q 004854 411 NQFGMCKDAALEGTISDWEQNDCPDTHYSSCI-GIVT------GFKDGAVEVRWATGFTTKVGPNEIYGVE 474 (727)
Q Consensus 411 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~v-G~V~------~~~dG~v~V~W~dg~~s~v~p~~l~~v~ 474 (727)
. ....++ |.|+ ...+..+.|..-||.+..|...+++.|.
T Consensus 68 ~-------------------------~~~~Y~Pg~V~~~~~~~~~~~~~~~V~f~ng~~~~vp~~~~~~I~ 113 (124)
T PF15057_consen 68 P-------------------------DDCRYGPGTVIAGPERRASEDKEYTVRFYNGKTAKVPRGEVIWIS 113 (124)
T ss_pred c-------------------------CCCEEeCEEEEECccccccCCceEEEEEECCCCCccchhhEEECC
Confidence 1 113466 9998 3469999999999999999999999884
No 28
>KOG1999 consensus RNA polymerase II transcription elongation factor DSIF/SUPT5H/SPT5 [Transcription]
Probab=82.87 E-value=5.8 Score=48.86 Aligned_cols=80 Identities=25% Similarity=0.223 Sum_probs=59.9
Q ss_pred cccCCCeee-ecCCCCCCeEEEEEEeEEEEEEecCCeeee---CCCccccccCCCcCCCCEEE-----eCCeeeEEEEEE
Q 004854 57 GFTHGDIVR-SVTDPSGQMGRVININMLVDLEGIPGYIIK---DVNSKNILKIRSISVGDFVV-----LGAWLGRVDKVI 127 (727)
Q Consensus 57 ~~~~GDvVr-~~~d~~gQ~G~V~~V~~~vdL~~~~g~vi~---~V~s~~L~~i~~f~~GDyVv-----~g~WlG~V~~V~ 127 (727)
.|+|||.|. -..+..|..|.|..|+-++-+.....+-++ .|++.+|++ .|.+||+|- |.-=-|.|+.|.
T Consensus 407 ~F~~GD~VeV~~Gel~glkG~ve~vdg~~vti~~~~e~l~~pl~~~~~eLrK--yF~~GDhVKVi~G~~eG~tGlVvrVe 484 (1024)
T KOG1999|consen 407 LFSPGDAVEVIVGELKGLKGKVESVDGTIVTIMSKHEDLKGPLEVPASELRK--YFEPGDHVKVIAGRYEGDTGLVVRVE 484 (1024)
T ss_pred ccCCCCeEEEeeeeeccceeEEEeccCceEEEeeccccCCCccccchHhhhh--hccCCCeEEEEeccccCCcceEEEEe
Confidence 399999995 456777889999999886554433323333 589999975 599999984 455678999999
Q ss_pred eeEEEEeCCCC
Q 004854 128 DSVNIVLDDGS 138 (727)
Q Consensus 128 ~~v~v~~~dGs 138 (727)
...++++++--
T Consensus 485 ~~~vi~~Sd~t 495 (1024)
T KOG1999|consen 485 QGDVILLSDLT 495 (1024)
T ss_pred CCeEEEEecCc
Confidence 98888777664
No 29
>PF08694 UFC1: Ubiquitin-fold modifier-conjugating enzyme 1; InterPro: IPR014806 Ubiquitin-like (UBL) post-translational modifiers are covalently linked to most, if not all, target protein(s) through an enzymatic cascade analogous to ubiquitylation, consisting of E1 (activating), E2 (conjugating), and E3 (ligating) enzymes. Ubiquitin-fold modifier 1 (Ufm1) a ubiquitin-like protein is activated by a novel E1-like enzyme, Uba5, by forming a high-energy thioester bond. Activated Ufm1 is then transferred to its cognate E2-like enzyme, Ufc1, in a similar thioester linkage. This family represents the E2-like enzyme [].; PDB: 2Z6P_A 2K07_A 2Z6O_A 3EVX_D 3KPA_A.
Probab=81.60 E-value=0.82 Score=44.30 Aligned_cols=65 Identities=20% Similarity=0.298 Sum_probs=32.0
Q ss_pred cchHHHHHHHHHHHHHHhCCCCCEEEEEcCCCCceEEEEEEcCCCCCCCCcE----------EEEEEECCCCCCCCCCee
Q 004854 655 VKRAWVKKVQQEWSILEKSLPETIYVRIFEDRVDLIRAAIVGAKGTPYHDGL----------FFFDIFLPPEYPHEPPVS 724 (727)
Q Consensus 655 ~~~~~~kRL~kEl~~L~~~~p~gI~v~~~ednl~~w~~~I~GP~~TPYegG~----------F~f~I~fP~~YP~~PP~V 724 (727)
....|..||..|++.|-+- |....++=..|--+=.-+.||-|.|-+ |.|.+.+|..||..||.|
T Consensus 21 d~~~W~~RLKEEy~aLI~Y------v~~nK~~DndWF~lesn~~GT~W~GkCW~~h~l~kYEF~~eFdIP~tYP~t~pEi 94 (161)
T PF08694_consen 21 DGDLWVQRLKEEYQALIKY------VENNKENDNDWFRLESNKEGTRWFGKCWYIHNLLKYEFDLEFDIPVTYPTTAPEI 94 (161)
T ss_dssp SCHHHHHHHHHHHHHHHHH------HHHHHHTT---EEEEE-TTSSEEEEEEEEEETTEEEEEEEEEE--TTTTTS----
T ss_pred CHHHHHHHHHHHHHHHHHH------HHhcccccCCeEEeccCCCCCccccEEEEEeeeeeEEEeeecCCCccCCCCCcce
Confidence 3478999999999987331 111111111221111235555555433 566677899999999987
Q ss_pred E
Q 004854 725 F 725 (727)
Q Consensus 725 ~ 725 (727)
.
T Consensus 95 ~ 95 (161)
T PF08694_consen 95 A 95 (161)
T ss_dssp B
T ss_pred e
Confidence 4
No 30
>PRK03174 sspH acid-soluble spore protein H; Provisional
Probab=71.32 E-value=4.2 Score=34.02 Aligned_cols=34 Identities=24% Similarity=0.277 Sum_probs=29.5
Q ss_pred EEEeecCCCCEEEEEceecCCCCCCCCceeeeeeecccC
Q 004854 356 VVQGVDAKERTVTVQWRAKANSDSDANQSEVSAYELVEH 394 (727)
Q Consensus 356 VVqsvd~~eRta~V~W~~~~~~~~~~~~e~VSvYel~~h 394 (727)
-||+||-...||+|.....+ ..+-+|+|.+|.+|
T Consensus 26 ~Ie~vde~~~tA~I~~l~~p-----~~~~~Vpv~~L~E~ 59 (59)
T PRK03174 26 YIQHVDEQNGTARIHPLDNP-----NQEQSVPLASLKEH 59 (59)
T ss_pred EEEEEcCCCCeEEEEECCCC-----CcEEEEEHHHhccC
Confidence 39999999999999999765 56778999999876
No 31
>PF05743 UEV: UEV domain; InterPro: IPR008883 The N-terminal ubiquitin E2 variant (UEV) domain is ~145 amino acid residues in length and shows significant sequence similarity to E2 ubiquitin ligases but is unable to catalyze ubiquitin transfer as it lacks the active site cysteine that forms the transient thioester bond with the C terminus of ubiquitin (Ub). Nevertheless, at least some UEVs have retained the ability to bind Ub, and appear to act either as cofactors in ubiquitylation reactions, or as ubiquitin sensors. UEV domains also frequently contain other protein recognition motifs, and may generally serve to couple protein and Ub binding functions to facilitate the formation of multiprotein complexes [, , , ]. The UEV domain consists of a twisted four-stranded antiparallel beta-sheet having a meander topology, with four alpha-helices packed against one face of the sheet. The UEV fold is generally similar to canonical E2 ligases in the hydrophobic core and 'active site' regions, but differs significantly at both its N- and C-termini [, ]. The UEV domain is found in the eukaryotic tumour susceptibility gene 101 protein (TSG101). Altered transcripts of this gene have been detected in sporadic breast cancers and many other Homo sapiens malignancies. However, the involvement of this gene in neoplastic transformation and tumourigenesis is still elusive. TSG101 is required for normal cell function of embryonic and adult tissues but this gene is not a tumour suppressor for sporadic forms of breast cancer [].; GO: 0006464 protein modification process, 0015031 protein transport; PDB: 3R3Q_A 3R42_A 1UZX_A 3OBX_A 3OBS_A 3P9H_A 2F0R_A 3P9G_A 3OBQ_A 3OBU_A ....
Probab=65.73 E-value=14 Score=34.90 Aligned_cols=44 Identities=25% Similarity=0.559 Sum_probs=27.2
Q ss_pred cCCCCceEEEEEEcCCCCCCCCcEE--EEEEECCCCCCCCCCeeEe
Q 004854 683 FEDRVDLIRAAIVGAKGTPYHDGLF--FFDIFLPPEYPHEPPVSFR 726 (727)
Q Consensus 683 ~ednl~~w~~~I~GP~~TPYegG~F--~f~I~fP~~YP~~PP~V~F 726 (727)
.++.-...-..+.|--.=.|+|..| -+.|.||.+||..||.+..
T Consensus 24 ~~~G~~~~LL~L~Gtipi~y~g~~y~iPi~Iwlp~~yP~~pP~v~v 69 (121)
T PF05743_consen 24 FNDGSSKLLLCLYGTIPITYKGSTYNIPICIWLPENYPYSPPIVYV 69 (121)
T ss_dssp STTSTEEEEEEEEEEEEECCTTCCEEEEEEEEE-TTTTTSSSEEEE
T ss_pred cCCCChheEEEEecCcccccCCcccceeEEEEEcccCCCCCCEEEE
Confidence 3443333333444422235888887 5667799999999999864
No 32
>PF14461 Prok-E2_B: Prokaryotic E2 family B
Probab=59.32 E-value=9.6 Score=36.43 Aligned_cols=24 Identities=25% Similarity=0.628 Sum_probs=22.4
Q ss_pred CCcEEEEEEECCCCCCCCCCeeEe
Q 004854 703 HDGLFFFDIFLPPEYPHEPPVSFR 726 (727)
Q Consensus 703 egG~F~f~I~fP~~YP~~PP~V~F 726 (727)
.++.|.+.|.||+.||..||.|..
T Consensus 34 ~~~~~~l~l~~p~~FP~~pp~v~l 57 (133)
T PF14461_consen 34 GGGPFPLRLVFPDDFPYLPPRVYL 57 (133)
T ss_pred CCeEEEEEEEECCcccCcCCEEEe
Confidence 799999999999999999999864
No 33
>PF09926 DUF2158: Uncharacterized small protein (DUF2158); InterPro: IPR019226 This entry represents a family of predominantly prokaryotic proteins with no known function.
Probab=55.11 E-value=11 Score=30.79 Aligned_cols=42 Identities=31% Similarity=0.431 Sum_probs=28.3
Q ss_pred cccCcEEEEeccCCccccccccccCCCCCCcCCCCCCCCCCCeeEEEeeecCCcEEEEEcCCCee
Q 004854 399 YCYGDVVFKLVQNQFGMCKDAALEGTISDWEQNDCPDTHYSSCIGIVTGFKDGAVEVRWATGFTT 463 (727)
Q Consensus 399 ~~~GD~V~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~vG~V~~~~dG~v~V~W~dg~~s 463 (727)
|..||+|- +......|. ..++|...+...+.++-.|-++...
T Consensus 1 f~~GDvV~-LKSGGp~MT----------------------V~~v~~~~~~~~~~v~C~WFd~~~~ 42 (53)
T PF09926_consen 1 FKIGDVVQ-LKSGGPRMT----------------------VTEVGPNAGASGGWVECQWFDGHGE 42 (53)
T ss_pred CCCCCEEE-EccCCCCeE----------------------EEEccccccCCCCeEEEEeCCCCCc
Confidence 67899994 665443333 3455555455678999999998655
No 34
>PF08141 SspH: Small acid-soluble spore protein H family; InterPro: IPR012610 This family consists of the small acid-soluble spore proteins (SASP) of the H type (sspH). SspH are unique to spores of Bacillus subtilis and are expressed only in the forespore compartment during sporulation of this organism. The sspH genes are monocistronic and are recognised by the forespore-specific sigma factor for RNA polymerase - sigma-G. The specific role of this protein is unclear but is thought to play a role in sporulation under conditions different from that of the common laboratory tests of spore properties [].; GO: 0030436 asexual sporulation, 0042601 endospore-forming forespore
Probab=52.55 E-value=16 Score=30.56 Aligned_cols=33 Identities=24% Similarity=0.283 Sum_probs=27.8
Q ss_pred EEEeecCCCCEEEEEceecCCCCCCCCceeeeeeeccc
Q 004854 356 VVQGVDAKERTVTVQWRAKANSDSDANQSEVSAYELVE 393 (727)
Q Consensus 356 VVqsvd~~eRta~V~W~~~~~~~~~~~~e~VSvYel~~ 393 (727)
-||+||....||+|.-...+ +.+-+|+|.+|.+
T Consensus 26 ~Ie~vde~~~tA~V~~l~~p-----~~~~~Vpv~~L~E 58 (58)
T PF08141_consen 26 WIEHVDEENGTARVHPLDNP-----EEEQEVPVNDLEE 58 (58)
T ss_pred EEEEEcCCCCeEEEEECCCC-----CcEEEEEHHHccC
Confidence 39999999999999999665 5677899988853
No 35
>TIGR02861 SASP_H small acid-soluble spore protein, H-type. This model is derived from pfam08141 but has been expanded to include in the seed corresponding proteins from three species of Clostridium. Members of this family should occur only in endospore-forming bacteria, typically with two members per genome, but may be absent from the genomes of some endospore-forming bacteria. SspH (previously designated YfjU) was shown to be expressed specifically in spores of Bacillus subtilis.
Probab=51.07 E-value=16 Score=30.47 Aligned_cols=32 Identities=19% Similarity=0.249 Sum_probs=27.2
Q ss_pred EEEeecCCCCEEEEEceecCCCCCCCCceeeeeeecc
Q 004854 356 VVQGVDAKERTVTVQWRAKANSDSDANQSEVSAYELV 392 (727)
Q Consensus 356 VVqsvd~~eRta~V~W~~~~~~~~~~~~e~VSvYel~ 392 (727)
.||+||-...||+|.....+ +.+-+|.|-+|.
T Consensus 26 ~Ie~vde~~~tA~V~~l~~p-----~~~~~Vpv~~L~ 57 (58)
T TIGR02861 26 YIEHVDEQSGTARVYSLDNP-----GKEQDVPVNDLE 57 (58)
T ss_pred EEEEEcCCCCeEEEEECCCC-----CcEEEEEHHHcc
Confidence 49999999999999999865 567788888775
No 36
>PRK01625 sspH acid-soluble spore protein H; Provisional
Probab=48.83 E-value=17 Score=30.43 Aligned_cols=33 Identities=15% Similarity=0.140 Sum_probs=27.6
Q ss_pred EEEeecCCCCEEEEEceecCCCCCCCCceeeeeeeccc
Q 004854 356 VVQGVDAKERTVTVQWRAKANSDSDANQSEVSAYELVE 393 (727)
Q Consensus 356 VVqsvd~~eRta~V~W~~~~~~~~~~~~e~VSvYel~~ 393 (727)
-||.||-...||+|.....+ ..+-+|.|.+|.+
T Consensus 26 ~Iq~vde~~~tA~V~~~~~p-----~~e~~Vpv~~L~E 58 (59)
T PRK01625 26 WIESCDEQSGVAQVYDVSNP-----GESVHVDVTALEE 58 (59)
T ss_pred EEEEEcCCCCeEEEEecCCC-----CcEEEEEHHHccc
Confidence 39999999999999999876 5566788888764
No 37
>PF15057 DUF4537: Domain of unknown function (DUF4537)
Probab=47.89 E-value=70 Score=30.44 Aligned_cols=70 Identities=19% Similarity=0.266 Sum_probs=53.6
Q ss_pred eEEEEEEEeCCCceeeCcCCCceeecccCCCcccCCCcEEEecCCCCCCCCCCCCce--EEEEee----cCCCCEEEEEc
Q 004854 298 TKTKFDVVWQDGSCSVGLDSQALLPVNVVNSHEFWPDQFVLEKGISDDPHIPSGQRW--GVVQGV----DAKERTVTVQW 371 (727)
Q Consensus 298 t~T~vdV~WQDGt~~~~i~st~L~P~~~~d~~Ef~PGd~V~~k~~~~~~~~~~~~~~--GVVqsv----d~~eRta~V~W 371 (727)
..+.+-|.|-+|..+. ++..++++...--.|-.-|||+|+-+.... ..+| |+|++. -..++..+|+.
T Consensus 24 ~~~~~lV~f~~~~~~~-v~~~~iI~~~~~~~~~L~~GD~VLA~~~~~------~~~Y~Pg~V~~~~~~~~~~~~~~~V~f 96 (124)
T PF15057_consen 24 SSGQFLVEFDDGDTQE-VPISDIIALSDAMRHSLQVGDKVLAPWEPD------DCRYGPGTVIAGPERRASEDKEYTVRF 96 (124)
T ss_pred CCCEEEEEECCCCEEE-eChHHeEEccCcccCcCCCCCEEEEecCcC------CCEEeCEEEEECccccccCCceEEEEE
Confidence 6888999998888775 799999998865599999999999884432 2335 689875 56667777776
Q ss_pred eec
Q 004854 372 RAK 374 (727)
Q Consensus 372 ~~~ 374 (727)
++-
T Consensus 97 ~ng 99 (124)
T PF15057_consen 97 YNG 99 (124)
T ss_pred ECC
Confidence 654
No 38
>PF14462 Prok-E2_E: Prokaryotic E2 family E
Probab=47.31 E-value=46 Score=31.89 Aligned_cols=49 Identities=20% Similarity=0.257 Sum_probs=33.7
Q ss_pred CEEEEEcCCCCceEEEEEEc--CCCCCCCCcEEEEEEECCCCCCCCCCeeEe
Q 004854 677 TIYVRIFEDRVDLIRAAIVG--AKGTPYHDGLFFFDIFLPPEYPHEPPVSFR 726 (727)
Q Consensus 677 gI~v~~~ednl~~w~~~I~G--P~~TPYegG~F~f~I~fP~~YP~~PP~V~F 726 (727)
|+......+.-..|-+ |.| -+...|....=.+-|.+|+.||..+|-+.|
T Consensus 13 g~~~E~v~eg~~~~li-i~~~~LP~G~y~~~~~dili~iP~gYP~~~~DmfY 63 (122)
T PF14462_consen 13 GLRWETVTEGGRRWLI-IKGYPLPEGKYNHNEVDILILIPPGYPDAPLDMFY 63 (122)
T ss_pred CceEEEEEeCCccEEE-EeCCcCCCCccCccceEEEEECCCCCCCCCCCcEE
Confidence 4444443333334433 655 345569999999999999999999987655
No 39
>KOG3357 consensus Uncharacterized conserved protein [Function unknown]
Probab=45.38 E-value=23 Score=33.95 Aligned_cols=66 Identities=18% Similarity=0.287 Sum_probs=41.0
Q ss_pred ccchHHHHHHHHHHHHHHhCCCCCEEEEEcCCCCceEEEEEEcCCCCCCCCcE--------EEE--EEECCCCCCCCCCe
Q 004854 654 QVKRAWVKKVQQEWSILEKSLPETIYVRIFEDRVDLIRAAIVGAKGTPYHDGL--------FFF--DIFLPPEYPHEPPV 723 (727)
Q Consensus 654 ~~~~~~~kRL~kEl~~L~~~~p~gI~v~~~ednl~~w~~~I~GP~~TPYegG~--------F~f--~I~fP~~YP~~PP~ 723 (727)
.....|..||..|++.|-.- +.-..++=..|--+-.-+.||-|-|-+ |.| .+-+|-.||...|.
T Consensus 23 rd~~~wvqrlkeey~sli~y------vqnnk~~d~dwfrlesn~egtrwfgkcwy~hnllkyefdvefdipityp~tape 96 (167)
T KOG3357|consen 23 RDGDLWVQRLKEEYQSLIAY------VQNNKSNDNDWFRLESNKEGTRWFGKCWYVHNLLKYEFDVEFDIPITYPTTAPE 96 (167)
T ss_pred ccchHHHHHHHHHHHHHHHH------HHhCcccCCcceEeccCccccceehhhhHhhhhhhheeeeeeccccccCCCCcc
Confidence 34567899999999988431 111111222332223447888887755 344 45569999999998
Q ss_pred eE
Q 004854 724 SF 725 (727)
Q Consensus 724 V~ 725 (727)
+.
T Consensus 97 ia 98 (167)
T KOG3357|consen 97 IA 98 (167)
T ss_pred cc
Confidence 64
No 40
>PRK04192 V-type ATP synthase subunit A; Provisional
Probab=42.79 E-value=73 Score=38.11 Aligned_cols=76 Identities=24% Similarity=0.403 Sum_probs=41.6
Q ss_pred eEEee--ccccCCCeeeecCCC------CCCeEEEEEEeEE-EE-EEecCCeee-eCCCcccccc--CCC----cCCCCE
Q 004854 51 FLSFD--RGFTHGDIVRSVTDP------SGQMGRVININML-VD-LEGIPGYII-KDVNSKNILK--IRS----ISVGDF 113 (727)
Q Consensus 51 l~L~D--R~~~~GDvVr~~~d~------~gQ~G~V~~V~~~-vd-L~~~~g~vi-~~V~s~~L~~--i~~----f~~GDy 113 (727)
+.+++ +++.+||-|.....| .|..|.|.|.--. .| +....|..| ++|....|-+ .++ +..||.
T Consensus 50 iqv~e~T~Gl~~G~~V~~tg~plsv~lGpglLGrv~Dg~grPLd~~~~~~~~~i~rG~~~~~l~~~~~w~f~p~~k~gd~ 129 (586)
T PRK04192 50 IQVYEETSGIKPGEPVEFTGEPLSVELGPGLLGSIFDGIQRPLDELAEKSGDFLERGVYVPALDREKKWEFTPTVKVGDK 129 (586)
T ss_pred EEEecCCcCCCCCCEEEeCCCccEEEcCHHhcCCeecCCCCcccccchhcccccccCCCCCCCCcccccceecccccCCE
Confidence 34444 467888888764322 2355666554322 11 110112222 3444444432 333 457999
Q ss_pred EEeCCeeeEEEEE
Q 004854 114 VVLGAWLGRVDKV 126 (727)
Q Consensus 114 Vv~g~WlG~V~~V 126 (727)
|.-|+|||.|.|.
T Consensus 130 v~~gdi~g~v~e~ 142 (586)
T PRK04192 130 VEAGDILGTVQET 142 (586)
T ss_pred ecCCceEEEEecC
Confidence 9999999999885
No 41
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=37.61 E-value=87 Score=38.28 Aligned_cols=67 Identities=12% Similarity=0.195 Sum_probs=40.2
Q ss_pred HHHHHHHHHHHHHhCCCCCEEEEEcCCCCceEEEEEEcCCCCCCCCcE-EEEEEECCCCCCCC-CCeeEeC
Q 004854 659 WVKKVQQEWSILEKSLPETIYVRIFEDRVDLIRAAIVGAKGTPYHDGL-FFFDIFLPPEYPHE-PPVSFRI 727 (727)
Q Consensus 659 ~~kRL~kEl~~L~~~~p~gI~v~~~ednl~~w~~~I~GP~~TPYegG~-F~f~I~fP~~YP~~-PP~V~Fl 727 (727)
...-|..|+.-|...-+.-.+-.. +---....+.+.+|-..- .+-+ .++.|+||.+||++ ||+++|.
T Consensus 421 ~pQnLgeE~S~Ig~k~~nV~fEki-dva~Rsctvsln~p~~~~-d~y~flrm~V~FP~nYPn~a~P~Fq~e 489 (1081)
T KOG0309|consen 421 LPQNLGEEFSLIGVKIRNVNFEKI-DVADRSCTVSLNCPNHRV-DDYIFLRMLVKFPANYPNNAAPSFQFE 489 (1081)
T ss_pred hhhhHHhHHhHhhccccccceEee-ccccceEEEEecCCCCcc-ccceeEEEEEeccccCCCCCCCceEEe
Confidence 355788899888655443211111 111124555667765433 3333 47888999999998 6888873
No 42
>cd04721 BAH_plant_1 BAH, or Bromo Adjacent Homology domain, plant-specific sub-family with unknown function. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=34.22 E-value=62 Score=31.05 Aligned_cols=44 Identities=14% Similarity=0.206 Sum_probs=33.8
Q ss_pred CCCcccCCCcEEEecCCCCCCCCCCCCceEEEEeecCC---CCEEEEEceecC
Q 004854 326 VNSHEFWPDQFVLEKGISDDPHIPSGQRWGVVQGVDAK---ERTVTVQWRAKA 375 (727)
Q Consensus 326 ~d~~Ef~PGd~V~~k~~~~~~~~~~~~~~GVVqsvd~~---eRta~V~W~~~~ 375 (727)
.|+-+|=+||+|+-+...+ ..-+|.|+.+-.. ...+.|+||-.+
T Consensus 3 r~~~~i~vGD~V~v~~~~~------~~~va~Ie~i~ed~~g~~~v~v~WF~~p 49 (130)
T cd04721 3 RNGVTISVHDFVYVLSEEE------DRYVAYIEDLYEDKKGSKMVKVRWFHTT 49 (130)
T ss_pred cCCEEEECCCEEEEeCCCC------CcEEEEEEEEEEcCCCCEEEEEEEecCH
Confidence 3566788999999986542 3568999988664 468999999875
No 43
>PF00924 MS_channel: Mechanosensitive ion channel; InterPro: IPR006685 Mechanosensitive (MS) channels provide protection against hypo-osmotic shock, responding both to stretching of the cell membrane and to membrane depolarisation. They are present in the membranes of organisms from the three domains of life: bacteria, archaea, and eukarya []. There are two families of MS channels: large-conductance MS channels (MscL) and small-conductance MS channels (MscS or YGGB). The pressure threshold for MscS opening is 50% that of MscL []. The MscS family is much larger and more variable in size and sequence than the MscL family. Much of the diversity in MscS proteins occurs in the size of the transmembrane regions, which ranges from three to eleven transmembrane helices, although the three C-terminal helices are conserved. This family contains sequences form the MscS family of proteins. MscS folds as a homo-heptamer with a cylindrical shape, and can be divided into transmembrane and extramembrane regions: an N-terminal periplasmic region, a transmembrane region, and a C-terminal cytoplasmic region (middle and C-terminal domains). The transmembrane region forms a channel through the membrane that opens into a chamber enclosed by the extramembrane portion, the latter connecting to the cytoplasm through distinct portals [].; GO: 0055085 transmembrane transport, 0016020 membrane; PDB: 2OAU_E 2VV5_F.
Probab=33.92 E-value=68 Score=32.08 Aligned_cols=39 Identities=26% Similarity=0.239 Sum_probs=26.1
Q ss_pred cCCCcCCCCEEEeCCeeeEEEEEEeeEEE-EeCCCCeEEE
Q 004854 104 KIRSISVGDFVVLGAWLGRVDKVIDSVNI-VLDDGSKYEV 142 (727)
Q Consensus 104 ~i~~f~~GDyVv~g~WlG~V~~V~~~v~v-~~~dGs~c~v 142 (727)
--++|..||+|..+..-|+|+++--..+. +..||.+.-|
T Consensus 57 ~~~pf~vGD~I~i~~~~G~V~~I~l~~t~l~~~~g~~v~I 96 (206)
T PF00924_consen 57 FERPFKVGDRIEIGGVEGRVEEIGLRSTRLRTWDGEIVII 96 (206)
T ss_dssp CC-SS-TT-EEESSS-EEEEEEE-SSEEEEEETTS-EEEE
T ss_pred ccCCccCCCEEEEEEeehHHHhcCcceeeeecCCCCEEEE
Confidence 35699999999999999999999876655 5567765544
No 44
>PF00924 MS_channel: Mechanosensitive ion channel; InterPro: IPR006685 Mechanosensitive (MS) channels provide protection against hypo-osmotic shock, responding both to stretching of the cell membrane and to membrane depolarisation. They are present in the membranes of organisms from the three domains of life: bacteria, archaea, and eukarya []. There are two families of MS channels: large-conductance MS channels (MscL) and small-conductance MS channels (MscS or YGGB). The pressure threshold for MscS opening is 50% that of MscL []. The MscS family is much larger and more variable in size and sequence than the MscL family. Much of the diversity in MscS proteins occurs in the size of the transmembrane regions, which ranges from three to eleven transmembrane helices, although the three C-terminal helices are conserved. This family contains sequences form the MscS family of proteins. MscS folds as a homo-heptamer with a cylindrical shape, and can be divided into transmembrane and extramembrane regions: an N-terminal periplasmic region, a transmembrane region, and a C-terminal cytoplasmic region (middle and C-terminal domains). The transmembrane region forms a channel through the membrane that opens into a chamber enclosed by the extramembrane portion, the latter connecting to the cytoplasm through distinct portals [].; GO: 0055085 transmembrane transport, 0016020 membrane; PDB: 2OAU_E 2VV5_F.
Probab=33.11 E-value=48 Score=33.21 Aligned_cols=39 Identities=33% Similarity=0.500 Sum_probs=26.0
Q ss_pred EEeeccccCCCeeeecCCCCCCeEEEEEEeEE-EEEEecCCeee
Q 004854 52 LSFDRGFTHGDIVRSVTDPSGQMGRVININML-VDLEGIPGYII 94 (727)
Q Consensus 52 ~L~DR~~~~GDvVr~~~d~~gQ~G~V~~V~~~-vdL~~~~g~vi 94 (727)
.+++|.|..||.|.=. |..|+|+++..+ ..|+..+|+++
T Consensus 55 i~~~~pf~vGD~I~i~----~~~G~V~~I~l~~t~l~~~~g~~v 94 (206)
T PF00924_consen 55 ILFERPFKVGDRIEIG----GVEGRVEEIGLRSTRLRTWDGEIV 94 (206)
T ss_dssp HHCC-SS-TT-EEESS----S-EEEEEEE-SSEEEEEETTS-EE
T ss_pred HhccCCccCCCEEEEE----EeehHHHhcCcceeeeecCCCCEE
Confidence 3689999999999755 689999999995 66677777543
No 45
>PRK10334 mechanosensitive channel MscS; Provisional
Probab=31.78 E-value=60 Score=35.23 Aligned_cols=38 Identities=26% Similarity=0.438 Sum_probs=30.2
Q ss_pred EEeeccccCCCeeeecCCCCCCeEEEEEEeEEE-EEEecCCee
Q 004854 52 LSFDRGFTHGDIVRSVTDPSGQMGRVININMLV-DLEGIPGYI 93 (727)
Q Consensus 52 ~L~DR~~~~GDvVr~~~d~~gQ~G~V~~V~~~v-dL~~~~g~v 93 (727)
.+++|.|..||.|.-. |+.|+|.+++.+. .|+..+|.+
T Consensus 124 i~~~rpf~vGD~I~i~----~~~G~V~~I~~r~T~i~t~d~~~ 162 (286)
T PRK10334 124 LVMFRPFRAGEYVDLG----GVAGTVLSVQIFSTTMRTADGKI 162 (286)
T ss_pred HHhcCCCCCCCEEEEC----CEEEEEEEEEeEEEEEEcCCCCE
Confidence 4789999999999753 5899999999974 455566654
No 46
>KOG4018 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=31.33 E-value=98 Score=32.37 Aligned_cols=20 Identities=30% Similarity=0.519 Sum_probs=18.6
Q ss_pred EEEEEEECCCCCCCCCCeeE
Q 004854 706 LFFFDIFLPPEYPHEPPVSF 725 (727)
Q Consensus 706 ~F~f~I~fP~~YP~~PP~V~ 725 (727)
.|.+.|.++.+||..||.+.
T Consensus 50 ~~~l~~s~tEnYPDe~Pli~ 69 (215)
T KOG4018|consen 50 SFILVFSLTENYPDEAPLIE 69 (215)
T ss_pred cEEEEEEccCCCCCCCccee
Confidence 89999999999999999884
No 47
>cd04713 BAH_plant_3 BAH, or Bromo Adjacent Homology domain, plant-specific sub-family with unknown function. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=30.97 E-value=69 Score=31.29 Aligned_cols=45 Identities=13% Similarity=0.240 Sum_probs=33.5
Q ss_pred CCCcccCCCcEEEecCCCCCCCCCCCCceEEEEeecC---CCCEEEEEceecC
Q 004854 326 VNSHEFWPDQFVLEKGISDDPHIPSGQRWGVVQGVDA---KERTVTVQWRAKA 375 (727)
Q Consensus 326 ~d~~Ef~PGd~V~~k~~~~~~~~~~~~~~GVVqsvd~---~eRta~V~W~~~~ 375 (727)
.|+.+|-+||+|+-+...+ ...-+|.|..+-. ....++|+||-.+
T Consensus 16 ~dg~~y~vgD~Vlv~~~~~-----~~pyI~~I~~i~~~~~~~~~v~V~WFyRp 63 (146)
T cd04713 16 KDGNKYRLEDCVLLVPEDD-----QKPYIAIIKDIYKQEEGSLKLEVQWLYRP 63 (146)
T ss_pred ECCEEEECCCEEEEeCCCC-----CCCEEEEEEEEEEcCCCCEEEEEEeeECH
Confidence 6788999999999886542 1344787776643 5679999999764
No 48
>PF08940 DUF1918: Domain of unknown function (DUF1918); InterPro: IPR015035 This domain is found in various hypothetical bacterial proteins, and has no known function. ; PDB: 2A7Y_A.
Probab=29.77 E-value=74 Score=26.66 Aligned_cols=30 Identities=30% Similarity=0.525 Sum_probs=21.5
Q ss_pred CCeeEEEeeec--CC--cEEEEEcC-CCeeEeecc
Q 004854 439 SSCIGIVTGFK--DG--AVEVRWAT-GFTTKVGPN 468 (727)
Q Consensus 439 ls~vG~V~~~~--dG--~v~V~W~d-g~~s~v~p~ 468 (727)
..-.|+|+.+. || --.|+|.| |+.+.++|-
T Consensus 19 ~~r~GeIveV~g~dG~PPY~VRw~D~Ghe~lv~PG 53 (58)
T PF08940_consen 19 PDRHGEIVEVRGPDGSPPYLVRWDDTGHESLVFPG 53 (58)
T ss_dssp -EEEEEEEE-S-SSS-S-EEEEETTTTEEEEE---
T ss_pred CCcEeEEEEEECCCCCCCEEEEecCCCcEEEEeCC
Confidence 46889999874 88 78999999 999999883
No 49
>cd00421 intradiol_dioxygenase Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear non-heme iron enzymes that catalyze the oxygenation of catecholates to aliphatic acids via the cleavage of aromatic rings. The members are intradiol-cleaving enzymes which break the catechol C1-C2 bond and utilize Fe3+, as opposed to the extradiol-cleaving enzymes which break the C2-C3 or C1-C6 bond and utilize Fe2+ and Mn+. Catechol 1,2-dioxygenases are mostly homodimers with one catalytic ferric ion per monomer. Protocatechuate 3,4-dioxygenases form more diverse oligomers.
Probab=29.55 E-value=57 Score=31.73 Aligned_cols=25 Identities=32% Similarity=0.548 Sum_probs=22.6
Q ss_pred CCcEEEEEEECCCCCC-CCCCeeEeC
Q 004854 703 HDGLFFFDIFLPPEYP-HEPPVSFRI 727 (727)
Q Consensus 703 egG~F~f~I~fP~~YP-~~PP~V~Fl 727 (727)
+.|.|.|.-.+|--|| ..||.|||.
T Consensus 64 ~~G~y~f~ti~Pg~Y~~~R~~HiH~~ 89 (146)
T cd00421 64 ADGRYRFRTIKPGPYPIGRPPHIHFK 89 (146)
T ss_pred CCcCEEEEEEcCCCCCCCCCCEEEEE
Confidence 4699999999999999 999999983
No 50
>KOG1999 consensus RNA polymerase II transcription elongation factor DSIF/SUPT5H/SPT5 [Transcription]
Probab=29.53 E-value=9.2e+02 Score=30.81 Aligned_cols=89 Identities=20% Similarity=0.220 Sum_probs=56.5
Q ss_pred cccCCCeeeecCCC-CCCeEEEEEEeE-EEEEEecCCeeeeCCCccccc----------cCCCcCCCCEEEeC-CeeeEE
Q 004854 57 GFTHGDIVRSVTDP-SGQMGRVININM-LVDLEGIPGYIIKDVNSKNIL----------KIRSISVGDFVVLG-AWLGRV 123 (727)
Q Consensus 57 ~~~~GDvVr~~~d~-~gQ~G~V~~V~~-~vdL~~~~g~vi~~V~s~~L~----------~i~~f~~GDyVv~g-~WlG~V 123 (727)
.|-+||+|+=.+.. .|-.|.|+-|.- .|-|..-...-=--|-+++|+ .+.+|..+|.|-+. .=+|.|
T Consensus 459 yF~~GDhVKVi~G~~eG~tGlVvrVe~~~vi~~Sd~t~eel~Vf~~dlq~c~ev~~gv~~~ge~e~hdlVqLd~~~vgvI 538 (1024)
T KOG1999|consen 459 YFEPGDHVKVIAGRYEGDTGLVVRVEQGDVILLSDLTMEELKVFARDLQLCSEVTLGVEKSGEYELHDLVQLDNQNVGVI 538 (1024)
T ss_pred hccCCCeEEEEeccccCCcceEEEEeCCeEEEEecCccceeeEEehhcccchheeecccccccccccceeecCCCcEEEE
Confidence 78999999865433 456899998876 344432111000011122222 35588899999854 579999
Q ss_pred EEEEeeEEEEeC-CCCeEEEccc
Q 004854 124 DKVIDSVNIVLD-DGSKYEVTAV 145 (727)
Q Consensus 124 ~~V~~~v~v~~~-dGs~c~v~~~ 145 (727)
+.+..+...++. +|.+|.|...
T Consensus 539 ~rle~e~~~vl~~~g~v~~i~~~ 561 (1024)
T KOG1999|consen 539 VRLERETFQVLGMNGKVVTIRKS 561 (1024)
T ss_pred EEecchheeeecCcCceEEEeec
Confidence 999888877666 8877766544
No 51
>smart00739 KOW KOW (Kyprides, Ouzounis, Woese) motif. Motif in ribosomal proteins, NusG, Spt5p, KIN17 and T54.
Probab=28.97 E-value=75 Score=21.38 Aligned_cols=24 Identities=33% Similarity=0.742 Sum_probs=18.4
Q ss_pred ccCCCeeeecC-CCCCCeEEEEEEe
Q 004854 58 FTHGDIVRSVT-DPSGQMGRVININ 81 (727)
Q Consensus 58 ~~~GDvVr~~~-d~~gQ~G~V~~V~ 81 (727)
|.+||.|+=.. .-.|+.|+|+.++
T Consensus 2 ~~~G~~V~I~~G~~~g~~g~i~~i~ 26 (28)
T smart00739 2 FEVGDTVRVIAGPFKGKVGKVLEVD 26 (28)
T ss_pred CCCCCEEEEeECCCCCcEEEEEEEc
Confidence 67899997554 3478899998875
No 52
>PRK10334 mechanosensitive channel MscS; Provisional
Probab=28.26 E-value=1.3e+02 Score=32.73 Aligned_cols=38 Identities=26% Similarity=0.337 Sum_probs=31.1
Q ss_pred CCCcCCCCEEEeCCeeeEEEEEEeeEE-EEeCCCCeEEE
Q 004854 105 IRSISVGDFVVLGAWLGRVDKVIDSVN-IVLDDGSKYEV 142 (727)
Q Consensus 105 i~~f~~GDyVv~g~WlG~V~~V~~~v~-v~~~dGs~c~v 142 (727)
-++|.+||+|-.|.-.|+|+++.-..+ |+..||....|
T Consensus 127 ~rpf~vGD~I~i~~~~G~V~~I~~r~T~i~t~d~~~v~I 165 (286)
T PRK10334 127 FRPFRAGEYVDLGGVAGTVLSVQIFSTTMRTADGKIIVI 165 (286)
T ss_pred cCCCCCCCEEEECCEEEEEEEEEeEEEEEEcCCCCEEEE
Confidence 479999999999999999999976555 46678876555
No 53
>PRK05886 yajC preprotein translocase subunit YajC; Validated
Probab=28.16 E-value=1e+02 Score=28.95 Aligned_cols=40 Identities=18% Similarity=0.186 Sum_probs=31.9
Q ss_pred CCCcCCCCEEE-eCCeeeEEEEEEee-EEEEeCCCCeEEEcc
Q 004854 105 IRSISVGDFVV-LGAWLGRVDKVIDS-VNIVLDDGSKYEVTA 144 (727)
Q Consensus 105 i~~f~~GDyVv-~g~WlG~V~~V~~~-v~v~~~dGs~c~v~~ 144 (727)
+.++.+||-|+ .|-=.|+|.++.++ ++|.+.+|.+.++..
T Consensus 36 ~~~Lk~GD~VvT~gGi~G~V~~I~d~~v~leia~gv~i~~~r 77 (109)
T PRK05886 36 HESLQPGDRVHTTSGLQATIVGITDDTVDLEIAPGVVTTWMK 77 (109)
T ss_pred HHhcCCCCEEEECCCeEEEEEEEeCCEEEEEECCCeEEEEEh
Confidence 35788999999 79999999999875 566788887666653
No 54
>TIGR00739 yajC preprotein translocase, YajC subunit. While this protein is part of the preprotein translocase in Escherichia coli, it is not essential for viability or protein secretion. The N-terminus region contains a predicted membrane-spanning region followed by a region consisting almost entirely of residues with charged (acidic, basic, or zwitterionic) side chains. This small protein is about 100 residues in length, and is restricted to bacteria; however, this protein is absent from some lineages, including spirochetes and Mycoplasmas.
Probab=28.01 E-value=1.4e+02 Score=26.69 Aligned_cols=38 Identities=29% Similarity=0.540 Sum_probs=29.8
Q ss_pred CCcCCCCEEE-eCCeeeEEEEEEeeE-EEEeCCCCeEEEc
Q 004854 106 RSISVGDFVV-LGAWLGRVDKVIDSV-NIVLDDGSKYEVT 143 (727)
Q Consensus 106 ~~f~~GDyVv-~g~WlG~V~~V~~~v-~v~~~dGs~c~v~ 143 (727)
.++.+||.|+ .|-=.|+|.++.++. .|..+.|-++++.
T Consensus 36 ~~L~~Gd~VvT~gGi~G~V~~i~d~~v~vei~~g~~i~~~ 75 (84)
T TIGR00739 36 ESLKKGDKVLTIGGIIGTVTKIAENTIVIELNDNTEITFS 75 (84)
T ss_pred HhCCCCCEEEECCCeEEEEEEEeCCEEEEEECCCeEEEEE
Confidence 4788999999 788999999998765 5567777666554
No 55
>PRK06531 yajC preprotein translocase subunit YajC; Validated
Probab=27.65 E-value=93 Score=29.41 Aligned_cols=38 Identities=32% Similarity=0.460 Sum_probs=29.6
Q ss_pred CCcCCCCEEE-eCCeeeEEEEEEee---EEEEeCCCCeEEEcc
Q 004854 106 RSISVGDFVV-LGAWLGRVDKVIDS---VNIVLDDGSKYEVTA 144 (727)
Q Consensus 106 ~~f~~GDyVv-~g~WlG~V~~V~~~---v~v~~~dGs~c~v~~ 144 (727)
..+.+||-|+ .|-=+|+|.+|.++ +.|.. +|.++++..
T Consensus 35 ~sLk~GD~VvT~GGi~G~V~~I~~~~~~v~le~-~gv~i~v~r 76 (113)
T PRK06531 35 NAIQKGDEVVTIGGLYGTVDEVDTEAKTIVLDV-DGVYLTFEL 76 (113)
T ss_pred HhcCCCCEEEECCCcEEEEEEEecCCCEEEEEE-CCEEEEEEh
Confidence 4788999999 89999999999863 55555 777666653
No 56
>TIGR01043 ATP_syn_A_arch ATP synthase archaeal, A subunit. Archaeal ATP synthase shares extensive sequence similarity with eukaryotic and prokaryotic V-type (H+)-ATPases.
Probab=26.14 E-value=1.4e+02 Score=35.77 Aligned_cols=70 Identities=24% Similarity=0.349 Sum_probs=39.6
Q ss_pred ccccCCCeeeecCCC------CCCeEEEEEEeEE-EE-EEecCCee-eeCCCccccc--cCCC----cCCCCEEEeCCee
Q 004854 56 RGFTHGDIVRSVTDP------SGQMGRVININML-VD-LEGIPGYI-IKDVNSKNIL--KIRS----ISVGDFVVLGAWL 120 (727)
Q Consensus 56 R~~~~GDvVr~~~d~------~gQ~G~V~~V~~~-vd-L~~~~g~v-i~~V~s~~L~--~i~~----f~~GDyVv~g~Wl 120 (727)
.++.+||.|.+...+ .|..|.|.|---. .| +...+|.. -++|+..-|- +.++ +..||.|--|+.+
T Consensus 54 ~Gl~~G~~V~~tg~plsV~lGpglLGrV~DgigrPLd~~~~~~g~~i~rg~~~~~l~~~~~w~f~p~~~~gd~v~~g~i~ 133 (578)
T TIGR01043 54 SGIKPGEPVVGTGAPLSVELGPGLLGSIYDGVQRPLDVLKEKTGDFIARGVDAPGLDRDKKWHFKPTVKEGDKVEGGDII 133 (578)
T ss_pred CCCCCCCEEEECCCccEEEcCHHHhcceeccCCccccCcccccccccccCccCCCcCcccccccccccccCccccCCceE
Confidence 468889999763222 2466777665332 22 11111222 2344333332 3333 5689999999999
Q ss_pred eEEEE
Q 004854 121 GRVDK 125 (727)
Q Consensus 121 G~V~~ 125 (727)
|.|.|
T Consensus 134 g~v~e 138 (578)
T TIGR01043 134 GVVPE 138 (578)
T ss_pred EEEec
Confidence 99876
No 57
>smart00439 BAH Bromo adjacent homology domain.
Probab=25.98 E-value=1.3e+02 Score=27.28 Aligned_cols=41 Identities=20% Similarity=0.283 Sum_probs=29.9
Q ss_pred cCCCcEEEecCCCCCCCCCCCCceEEEEeecCC---C-CEEEEEceecC
Q 004854 331 FWPDQFVLEKGISDDPHIPSGQRWGVVQGVDAK---E-RTVTVQWRAKA 375 (727)
Q Consensus 331 f~PGd~V~~k~~~~~~~~~~~~~~GVVqsvd~~---e-Rta~V~W~~~~ 375 (727)
|-.||+|+-+..+.. ++..+|.|+.+-.. . ..++|+||-.+
T Consensus 2 ~~vgd~V~v~~~~~~----~~~~i~~I~~i~~~~~~~~~~~~v~Wf~rp 46 (120)
T smart00439 2 IRVGDFVLVEPDDAD----EPYYIGRIEEIFETKKNSEKMVRVRWFYRP 46 (120)
T ss_pred cccCCEEEEeCCCCC----CCCEEEEEEEEEECCCCCEEEEEEEEEECh
Confidence 568999998876522 25679999888442 2 58999999764
No 58
>COG0668 MscS Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]
Probab=25.97 E-value=1e+02 Score=32.75 Aligned_cols=42 Identities=29% Similarity=0.475 Sum_probs=32.9
Q ss_pred eEEeeccccCCCeeeecCCCCCCeEEEEEEeEEEEE-EecCCeeee
Q 004854 51 FLSFDRGFTHGDIVRSVTDPSGQMGRVININMLVDL-EGIPGYIIK 95 (727)
Q Consensus 51 l~L~DR~~~~GDvVr~~~d~~gQ~G~V~~V~~~vdL-~~~~g~vi~ 95 (727)
+.+++|.|..||.|.-.. +..|+|.+++...+. +..+|.++.
T Consensus 141 ~il~~~~f~vGD~I~i~~---~~~G~V~~i~~~~T~ir~~dg~~v~ 183 (316)
T COG0668 141 FLLLERPFKVGDWIEIGS---GVEGTVEDIGLRSTTIRTLDGRIVT 183 (316)
T ss_pred HhheecCcCcCCEEEECC---CceEEEEEEEEEEEEEEcCCCCEEE
Confidence 456799999999998765 479999999998654 456776654
No 59
>cd03457 intradiol_dioxygenase_like Intradiol dioxygenase supgroup. Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. They break the catechol C1-C2 bond and utilize Fe3+, as opposed to the extradiol-cleaving enzymes which break the C2-C3 or C1-C6 bond and utilize Fe2+ and Mn+. The family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases. The specific function of this subgroup is unknown.
Probab=25.84 E-value=65 Score=32.96 Aligned_cols=25 Identities=24% Similarity=0.360 Sum_probs=23.3
Q ss_pred CCcEEEEEEECCCCCCCCCCeeEeC
Q 004854 703 HDGLFFFDIFLPPEYPHEPPVSFRI 727 (727)
Q Consensus 703 egG~F~f~I~fP~~YP~~PP~V~Fl 727 (727)
+.|.|.|.-.||--||..||.|||.
T Consensus 85 ~~G~~~F~TI~PG~Y~gR~~HIH~~ 109 (188)
T cd03457 85 ADGVVTFTTIFPGWYPGRATHIHFK 109 (188)
T ss_pred CCccEEEEEECCCCCCCCCceEEEE
Confidence 6899999999999999999999984
No 60
>COG1862 YajC Preprotein translocase subunit YajC [Intracellular trafficking and secretion]
Probab=25.65 E-value=1.3e+02 Score=27.81 Aligned_cols=39 Identities=44% Similarity=0.639 Sum_probs=32.2
Q ss_pred CCCcCCCCEEE-eCCeeeEEEEEEee-EEEEeCCCCeEEEc
Q 004854 105 IRSISVGDFVV-LGAWLGRVDKVIDS-VNIVLDDGSKYEVT 143 (727)
Q Consensus 105 i~~f~~GDyVv-~g~WlG~V~~V~~~-v~v~~~dGs~c~v~ 143 (727)
+.++..||-|+ .|-=+|+|.+|.++ +.|.+.+|-+.++.
T Consensus 41 l~sL~kGD~VvT~gGi~G~V~~v~d~~v~I~l~~~~~i~~~ 81 (97)
T COG1862 41 LNSLKKGDEVVTIGGIVGTVTKVGDDTVEIELGDGTKIKFE 81 (97)
T ss_pred HHhccCCCEEEEcCCeEEEEEEEecCcEEEEECCCeEEEEE
Confidence 45778999999 67799999999996 88888888766554
No 61
>smart00743 Agenet Tudor-like domain present in plant sequences. Domain in plant sequences with possible chromatin-associated functions.
Probab=25.38 E-value=1.7e+02 Score=23.59 Aligned_cols=57 Identities=19% Similarity=0.161 Sum_probs=40.2
Q ss_pred ccCCCcEEEecCCCCCCCCCCCCceEEEEeecCCCCEEEEEceecCCCCCCCCceeeeeeecccCCC
Q 004854 330 EFWPDQFVLEKGISDDPHIPSGQRWGVVQGVDAKERTVTVQWRAKANSDSDANQSEVSAYELVEHPD 396 (727)
Q Consensus 330 Ef~PGd~V~~k~~~~~~~~~~~~~~GVVqsvd~~eRta~V~W~~~~~~~~~~~~e~VSvYel~~hpd 396 (727)
.|-.|+.|--...++ ..=.-|+|.+++. +....|+... .....+|+|..-+|.+||+
T Consensus 2 ~~~~G~~Ve~~~~~~-----~~W~~a~V~~~~~-~~~~~V~~~~----~~~~~~e~v~~~~LRp~~~ 58 (61)
T smart00743 2 DFKKGDRVEVFSKEE-----DSWWEAVVTKVLG-DGKYLVRYLT----ESEPLKETVDWSDLRPHPP 58 (61)
T ss_pred CcCCCCEEEEEECCC-----CEEEEEEEEEECC-CCEEEEEECC----CCcccEEEEeHHHcccCCC
Confidence 567888887554321 1234499999998 5568998876 1124789999999999985
No 62
>PF09765 WD-3: WD-repeat region; InterPro: IPR019162 This entry represents a region of approximately 100 residues containing three WD repeats and six cysteine residues- possibly as three cysteine-bridges associated with FancL. FancL is the ubiquitin ligase protein that mediates ubiquitination of FancD2, a key step in the DNA damage pathway [, ]. FancL belongs to the multisubunit Fanconi anemia (FA) complex, which is composed of subunits: FancA, FancB, FancC, FancE, FancF, FancG, FancL/PHF9 and FancM. The WD repeats are required for interaction of FancL with other subunits of the FA complex []. In humans defects in FancL are a cause of Fanconi anemia (FA) [MIM:227650], and the FA complex is not found in FA patients. FA is a genetically heterogeneous, autosomal recessive disorder characterised by progressive pancytopenia, a diverse assortment of congenital malformations, and a predisposition to the development of malignancies. At the cellular level it is associated with hypersensitivity to DNA-damaging agents, chromosomal instability (increased chromosome breakage), and defective DNA repair.; PDB: 3ZQS_B 3K1L_A.
Probab=24.91 E-value=1.3e+02 Score=32.86 Aligned_cols=60 Identities=20% Similarity=0.450 Sum_probs=42.8
Q ss_pred hHHHHHHHHHHHHHHhCCCCCEEEEEcCCCCceEEEEEEcCCCCCCCCcEEEEEEECCCCCCCCCCeeE
Q 004854 657 RAWVKKVQQEWSILEKSLPETIYVRIFEDRVDLIRAAIVGAKGTPYHDGLFFFDIFLPPEYPHEPPVSF 725 (727)
Q Consensus 657 ~~~~kRL~kEl~~L~~~~p~gI~v~~~ednl~~w~~~I~GP~~TPYegG~F~f~I~fP~~YP~~PP~V~ 725 (727)
....++|.+|+..+..+.. +.+. .++++...++.+.. +.....+.|.+|.+||..||.+.
T Consensus 98 ~~~ys~ll~EIe~IGW~kl--~~i~-~d~~ls~i~l~~~D------~~R~H~l~l~l~~~yp~~~p~~~ 157 (291)
T PF09765_consen 98 PQYYSNLLKEIEAIGWDKL--VQIQ-FDDDLSTIKLKIFD------SSRQHYLELKLPSNYPFEPPSCS 157 (291)
T ss_dssp -GGC-CHHHHHHHHHCGCC--EEEE-E-CCCSEEEEEEET------TCEEEEEEEETTTTTTTSEEEEC
T ss_pred cHHHHHHHHHHHHhccccc--eEEe-cCCCccEEEEEEEc------CCceEEEEEEECCCCCCCCceee
Confidence 4456789999999987643 2222 35678888888872 22568899999999999999763
No 63
>PRK05585 yajC preprotein translocase subunit YajC; Validated
Probab=24.82 E-value=1.4e+02 Score=27.85 Aligned_cols=39 Identities=36% Similarity=0.573 Sum_probs=30.7
Q ss_pred CCCcCCCCEEE-eCCeeeEEEEEEee-EEEEeCCCCeEEEc
Q 004854 105 IRSISVGDFVV-LGAWLGRVDKVIDS-VNIVLDDGSKYEVT 143 (727)
Q Consensus 105 i~~f~~GDyVv-~g~WlG~V~~V~~~-v~v~~~dGs~c~v~ 143 (727)
...+.+||-|+ .|-=.|+|.++.++ ++|..++|.+.++.
T Consensus 50 ~~~Lk~Gd~VvT~gGi~G~Vv~i~~~~v~lei~~g~~i~~~ 90 (106)
T PRK05585 50 LSSLAKGDEVVTNGGIIGKVTKVSEDFVIIELNDDTEIKIQ 90 (106)
T ss_pred HHhcCCCCEEEECCCeEEEEEEEeCCEEEEEECCCeEEEEE
Confidence 34788999998 78999999999865 44568888766654
No 64
>TIGR02760 TraI_TIGR conjugative transfer relaxase protein TraI. This protein is a component of the relaxosome complex. In the process of conjugative plasmid transfer the realaxosome binds to the plasmid at the oriT (origin of transfer) site. The relaxase protein TraI mediates the single-strand nicking and ATP-dependent unwinding (relaxation, helicase activity) of the plasmid molecule. These two activities reside in separate domains of the protein.
Probab=24.10 E-value=2.4e+02 Score=38.77 Aligned_cols=103 Identities=13% Similarity=0.036 Sum_probs=64.6
Q ss_pred CCccccccCCCcCCCCEEEe-CC-----eeeEEEEEE---eeEEEEeCCCCeEEEcccCccccccC--CCCCCCCCCCCc
Q 004854 97 VNSKNILKIRSISVGDFVVL-GA-----WLGRVDKVI---DSVNIVLDDGSKYEVTAVDHEKLLPI--SPSLLEDSQYPY 165 (727)
Q Consensus 97 V~s~~L~~i~~f~~GDyVv~-g~-----WlG~V~~V~---~~v~v~~~dGs~c~v~~~d~~~L~~~--~~~~~~d~~~~~ 165 (727)
.+..+.+..+.+.+||.|.. .. =+++|..|. +.++|.+++|....+. +..|.+. .-.+|+-...++
T Consensus 671 lt~~e~r~~~~Yr~Gdvv~~y~~~~~~~~~y~V~~V~~~~n~L~l~~~dG~~~~~~---p~~l~~~~~~~svy~~~~l~i 747 (1960)
T TIGR02760 671 LTGIQRRNAAHYKQGMVIRFWQKGKIPHDDYVVTNVNKHNNTLTLKDAQGKTQKFK---PSSLKDLERPFSVYRPEQLEV 747 (1960)
T ss_pred CCHHHHhhHhhcCCCCEEEeecccCccCCcEEEEEEeCCCCEEEEEcCCCCEEEEC---HHHhcccccceeeeccccccc
Confidence 45667777889999999995 11 136787776 5788889999866554 3333211 113444445577
Q ss_pred CCCceeEeecCcccccccccCCCCCceeeeEEEEEEeEEEEEEE
Q 004854 166 YPGQRVKVRLSTVKSVSWLCGTGRENQVEGTVCKVDAGLVYVDW 209 (727)
Q Consensus 166 yPGQ~V~~~~~~~~~~~Wl~g~~~~~r~~gtV~~V~~~~v~V~W 209 (727)
..|.++...-+.. ...-.|...+||.++....+.|.-
T Consensus 748 a~Gdrl~~trn~~-------~~gl~ng~~~tV~~i~~~~i~l~~ 784 (1960)
T TIGR02760 748 AAGERLQVTGNHF-------HSRVRNGELLTVSSINNEGITLIT 784 (1960)
T ss_pred cCCCEEEEccCCc-------ccCccCCCEEEEEEEcCCeEEEEe
Confidence 8888877653222 111123346889999888877753
No 65
>cd04370 BAH BAH, or Bromo Adjacent Homology domain (also called ELM1 and BAM for Bromo Adjacent Motif). BAH domains have first been described as domains found in the polybromo protein and Yeast Rsc1/Rsc2 (Remodeling of the Structure of Chromatin). They also occur in mammalian DNA methyltransferases and the MTA1 subunits of histone deacetylase complexes. A BAH domain is also found in Yeast Sir3p and in the origin receptor complex protein 1 (Orc1p), where it was found to interact with the N-terminal lobe of the silence information regulator 1 protein (Sir1p), confirming the initial hypothesis that BAH plays a role in protein-protein interactions.
Probab=24.05 E-value=1.2e+02 Score=27.28 Aligned_cols=44 Identities=9% Similarity=0.049 Sum_probs=32.3
Q ss_pred ccCCCcEEEecCCCCCCCCCCCCceEEEEeecC---CCCEEEEEceecC
Q 004854 330 EFWPDQFVLEKGISDDPHIPSGQRWGVVQGVDA---KERTVTVQWRAKA 375 (727)
Q Consensus 330 Ef~PGd~V~~k~~~~~~~~~~~~~~GVVqsvd~---~eRta~V~W~~~~ 375 (727)
+|-.||+|+-+..... ...+--+|.|+.+-. ....++|+||-.+
T Consensus 3 ~y~vgd~V~v~~~~~~--~~~~~~i~~I~~i~~~~~~~~~~~v~wf~rp 49 (123)
T cd04370 3 TYEVGDSVYVEPDDSI--KSDPPYIARIEELWEDTNGSKQVKVRWFYRP 49 (123)
T ss_pred EEecCCEEEEecCCcC--CCCCCEEEEEeeeeECCCCCEEEEEEEEEch
Confidence 5778999998876531 112466898888876 3579999999764
No 66
>PF07202 Tcp10_C: T-complex protein 10 C-terminus; InterPro: IPR009852 Proteins in this entry include T-complex 10, involved in spermatogenesis in mice, and centromere protein J, which not only inhibits microtubule nucleation from the centrosome, but also depolymerises taxol-stabilised microtubules [, ]. These proteins share an approximately 180 residue C-terminal region which contains unsual G repreats [].
Probab=23.89 E-value=1e+02 Score=31.47 Aligned_cols=30 Identities=23% Similarity=0.317 Sum_probs=23.4
Q ss_pred EEeeecCCcEEEEEcCCCeeEeecceeeee
Q 004854 444 IVTGFKDGAVEVRWATGFTTKVGPNEIYGV 473 (727)
Q Consensus 444 ~V~~~~dG~v~V~W~dg~~s~v~p~~l~~v 473 (727)
+|..|++|.+|+.++||++..+.|...++.
T Consensus 67 ev~~FpngQ~E~h~pDG~keI~fPDGt~k~ 96 (179)
T PF07202_consen 67 EVYEFPNGQIEKHYPDGSKEIVFPDGTIKY 96 (179)
T ss_pred EEEEeCCCceEEEcCCCCEEEEeCCCcEEE
Confidence 466778888888888888888888777766
No 67
>PF02559 CarD_CdnL_TRCF: CarD-like/TRCF domain; InterPro: IPR003711 The bacterium Myxococcus xanthus responds to blue light by producing carotenoids. It also responds to starvation conditions by developing fruiting bodies, where the cells differentiate into myxospores. Each response entails the transcriptional activation of a separate set of genes. A single gene, carD, is required for the activation of both light- and starvation-inducible genes []. The predicted protein contains four repeats of a DNA-binding domain present in mammalian high mobility group I(Y) proteins and other nuclear proteins from animals and plants. Other peptide stretches on CarD also resemble functional domains typical of eukaryotic transcription factors, including a very acidic region and a leucine zipper. High mobility group yI(Y) proteins are known to bind the minor groove of A+T-rich DNA [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 3MLQ_H 2EYQ_A.
Probab=22.81 E-value=2.2e+02 Score=25.37 Aligned_cols=23 Identities=26% Similarity=0.534 Sum_probs=16.2
Q ss_pred CcCCCCEEEeC-CeeeEEEEEEee
Q 004854 107 SISVGDFVVLG-AWLGRVDKVIDS 129 (727)
Q Consensus 107 ~f~~GDyVv~g-~WlG~V~~V~~~ 129 (727)
.|.+||||||+ .=||+|.++...
T Consensus 1 mf~~GD~VVh~~~Gv~~i~~i~~~ 24 (98)
T PF02559_consen 1 MFKIGDYVVHPNHGVGRIEGIEEI 24 (98)
T ss_dssp T--TTSEEEETTTEEEEEEEEEEE
T ss_pred CCCCCCEEEECCCceEEEEEEEEE
Confidence 47899999986 458888877543
No 68
>cd04370 BAH BAH, or Bromo Adjacent Homology domain (also called ELM1 and BAM for Bromo Adjacent Motif). BAH domains have first been described as domains found in the polybromo protein and Yeast Rsc1/Rsc2 (Remodeling of the Structure of Chromatin). They also occur in mammalian DNA methyltransferases and the MTA1 subunits of histone deacetylase complexes. A BAH domain is also found in Yeast Sir3p and in the origin receptor complex protein 1 (Orc1p), where it was found to interact with the N-terminal lobe of the silence information regulator 1 protein (Sir1p), confirming the initial hypothesis that BAH plays a role in protein-protein interactions.
Probab=22.33 E-value=1.3e+02 Score=27.06 Aligned_cols=39 Identities=26% Similarity=0.474 Sum_probs=24.5
Q ss_pred ccccCcEEEEeccCCccccccccccCCCCCCcCCCCCCCCCCCeeEEEeeec---CC--cEEEEEc
Q 004854 398 SYCYGDVVFKLVQNQFGMCKDAALEGTISDWEQNDCPDTHYSSCIGIVTGFK---DG--AVEVRWA 458 (727)
Q Consensus 398 ~~~~GD~V~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~vG~V~~~~---dG--~v~V~W~ 458 (727)
.|+.||.|+....... .....|+|+|..+- +| .+.|+|-
T Consensus 3 ~y~vgd~V~v~~~~~~----------------------~~~~~~i~~I~~i~~~~~~~~~~~v~wf 46 (123)
T cd04370 3 TYEVGDSVYVEPDDSI----------------------KSDPPYIARIEELWEDTNGSKQVKVRWF 46 (123)
T ss_pred EEecCCEEEEecCCcC----------------------CCCCCEEEEEeeeeECCCCCEEEEEEEE
Confidence 4788999986554210 01357999998873 23 5566663
No 69
>cd04714 BAH_BAHCC1 BAH, or Bromo Adjacent Homology domain, as present in mammalian BAHCC1 and similar proteins. BAHCC1 stands for BAH domain and coiled-coil containing 1. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=21.79 E-value=1.4e+02 Score=28.01 Aligned_cols=36 Identities=19% Similarity=0.389 Sum_probs=23.6
Q ss_pred cccCcEEEEeccCCccccccccccCCCCCCcCCCCCCCCCCCeeEEEeee-c--CC--cEEEEEc
Q 004854 399 YCYGDVVFKLVQNQFGMCKDAALEGTISDWEQNDCPDTHYSSCIGIVTGF-K--DG--AVEVRWA 458 (727)
Q Consensus 399 ~~~GD~V~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~vG~V~~~-~--dG--~v~V~W~ 458 (727)
|+.||.|+..++.. ....|||+|..+ . +| .+.|.|-
T Consensus 4 ~~vGD~V~v~~~~~------------------------~~~pyIgrI~~i~e~~~g~~~~~v~Wf 44 (121)
T cd04714 4 IRVGDCVLFKSPGR------------------------PSLPYVARIESLWEDPEGNMVVRVKWY 44 (121)
T ss_pred EEcCCEEEEeCCCC------------------------CCCCEEEEEEEEEEcCCCCEEEEEEEE
Confidence 67899998665421 125799999886 2 34 4566663
No 70
>CHL00010 infA translation initiation factor 1
Probab=21.64 E-value=1.9e+02 Score=25.32 Aligned_cols=48 Identities=19% Similarity=-0.004 Sum_probs=30.9
Q ss_pred CeEEEEEEe--EEEEEEecCCeeeeCCCccccccC-CCcCCCCEEEeCCee
Q 004854 73 QMGRVININ--MLVDLEGIPGYIIKDVNSKNILKI-RSISVGDFVVLGAWL 120 (727)
Q Consensus 73 Q~G~V~~V~--~~vdL~~~~g~vi~~V~s~~L~~i-~~f~~GDyVv~g~Wl 120 (727)
..|+|+.+- ....++..+|+++.-.....|++- -...+||+|.+..|.
T Consensus 9 ~~G~Vik~lg~~~y~V~~~~g~~~~c~~rGklr~~~i~~~vGD~V~ve~~~ 59 (78)
T CHL00010 9 MEGLVTESLPNGMFRVRLDNGCQVLGYISGKIRRNSIRILPGDRVKVELSP 59 (78)
T ss_pred EEEEEEEEcCCCEEEEEeCCCCEEEEEeccceecCCcccCCCCEEEEEEcc
Confidence 357777653 445555456666665566666643 235789999998777
No 71
>PF00467 KOW: KOW motif; InterPro: IPR005824 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. The KOW (Kyprides, Ouzounis, Woese) motif is found in a variety of ribosomal proteins and the bacterial transcription antitermination proteins NusG []. ; PDB: 3BBO_W 2HGJ_X 2HGQ_X 2HGU_X 1NPP_B 1M1G_D 1NPR_A 2XHC_A 2KVQ_G 2JVV_A ....
Probab=21.56 E-value=1.3e+02 Score=21.68 Aligned_cols=23 Identities=30% Similarity=0.836 Sum_probs=17.9
Q ss_pred CCCeeeecCCC-CCCeEEEEEEeE
Q 004854 60 HGDIVRSVTDP-SGQMGRVININM 82 (727)
Q Consensus 60 ~GDvVr~~~d~-~gQ~G~V~~V~~ 82 (727)
+||.|+=.+.+ .|+.|.|+.++-
T Consensus 1 ~Gd~V~V~~G~~~G~~G~I~~i~~ 24 (32)
T PF00467_consen 1 VGDTVKVISGPFKGKIGKIVEIDR 24 (32)
T ss_dssp TTSEEEESSSTTTTEEEEEEEEET
T ss_pred CCCEEEEeEcCCCCceEEEEEEEC
Confidence 58999866554 689999998864
No 72
>cd03459 3,4-PCD Protocatechuate 3,4-dioxygenase (3,4-PCD) catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and beta-subunit and an Fe3+ ion bound in the beta-subunit at the alpha-beta-subunit interface. 3,4-PCD is a member of the aromatic dioxygenases which are non-heme iron intradiol-cleaving enzymes that break the C1-C2 bond and utilize Fe3+.
Probab=20.78 E-value=1e+02 Score=30.57 Aligned_cols=25 Identities=28% Similarity=0.486 Sum_probs=22.1
Q ss_pred CCcEEEEEEECCCCCC-----CCCCeeEeC
Q 004854 703 HDGLFFFDIFLPPEYP-----HEPPVSFRI 727 (727)
Q Consensus 703 egG~F~f~I~fP~~YP-----~~PP~V~Fl 727 (727)
+.|.|.|.-.+|--|| ..||.|+|.
T Consensus 71 ~~G~~~f~Ti~Pg~Y~~p~~~~R~~HIH~~ 100 (158)
T cd03459 71 ADGRYRFRTIKPGAYPWRNGAWRAPHIHVS 100 (158)
T ss_pred CCCcEEEEEECCCCcCCCCCCCcCCEEEEE
Confidence 3589999999999999 899999983
No 73
>cd04720 BAH_Orc1p_Yeast BAH, or Bromo Adjacent Homology domain, as present in Orc1p, which again is part of the Saccharomyces cerevisiae Sir1-origin recognition complex, and as present in Sir3p. The Orc1p BAH doman functions in epigenetic silencing. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=20.78 E-value=1.5e+02 Score=29.93 Aligned_cols=44 Identities=11% Similarity=0.098 Sum_probs=34.9
Q ss_pred CCcccCCCcEEEecCCCCCCCCCCCCceEEEEeecCCCC----EEEEEceecC
Q 004854 327 NSHEFWPDQFVLEKGISDDPHIPSGQRWGVVQGVDAKER----TVTVQWRAKA 375 (727)
Q Consensus 327 d~~Ef~PGd~V~~k~~~~~~~~~~~~~~GVVqsvd~~eR----ta~V~W~~~~ 375 (727)
|+.+|=+||-|+-|.... .+.-+|+|+.+-.... -+.|+||-.+
T Consensus 49 d~~~~~vGD~Vlik~~~~-----~~~~V~iI~ei~~~~~~~~v~i~v~Wy~r~ 96 (179)
T cd04720 49 DGLELSVGDTILVKDDVA-----NSPSVYLIHEIRLNTLNNEVELWVMWFLRW 96 (179)
T ss_pred CCeEEeCCCEEEEeCCCC-----CCCEEEEEEEEEeCCCCCEEEEEEEEcCCH
Confidence 788999999999997643 2466999999976653 6899999654
No 74
>PF09926 DUF2158: Uncharacterized small protein (DUF2158); InterPro: IPR019226 This entry represents a family of predominantly prokaryotic proteins with no known function.
Probab=20.53 E-value=1.7e+02 Score=24.01 Aligned_cols=36 Identities=22% Similarity=0.136 Sum_probs=26.3
Q ss_pred cCCCcEEEecCCCCCCCCCCCCceEEEEe----ecCCCCEEEEEceecC
Q 004854 331 FWPDQFVLEKGISDDPHIPSGQRWGVVQG----VDAKERTVTVQWRAKA 375 (727)
Q Consensus 331 f~PGd~V~~k~~~~~~~~~~~~~~GVVqs----vd~~eRta~V~W~~~~ 375 (727)
|=|||.|..|+..+ +. +|.. ..+....+.-+||...
T Consensus 1 f~~GDvV~LKSGGp-------~M--TV~~v~~~~~~~~~~v~C~WFd~~ 40 (53)
T PF09926_consen 1 FKIGDVVQLKSGGP-------RM--TVTEVGPNAGASGGWVECQWFDGH 40 (53)
T ss_pred CCCCCEEEEccCCC-------Ce--EEEEccccccCCCCeEEEEeCCCC
Confidence 55899999997753 22 2333 3677899999999864
No 75
>PF07593 UnbV_ASPIC: ASPIC and UnbV; InterPro: IPR011519 This conserved sequence is found associated with IPR001440 from INTERPRO in several paralogous proteins in Rhodopirellula baltica. It is also found associated with IPR000413 from INTERPRO in several eukaryotic integrin-like proteins (e.g. human ASPIC Q9NQ78 from SWISSPROT) and in several other bacterial proteins (e.g. Q84HN1 from SWISSPROT) [].
Probab=20.41 E-value=73 Score=27.04 Aligned_cols=14 Identities=43% Similarity=0.854 Sum_probs=12.2
Q ss_pred cEEEEEcCCCeeEe
Q 004854 452 AVEVRWATGFTTKV 465 (727)
Q Consensus 452 ~v~V~W~dg~~s~v 465 (727)
.|+|+|+||....+
T Consensus 46 ~v~V~WP~G~~~~~ 59 (71)
T PF07593_consen 46 SVEVRWPDGKVQTL 59 (71)
T ss_pred EEEEECCCCCEEEE
Confidence 68999999988866
No 76
>cd04721 BAH_plant_1 BAH, or Bromo Adjacent Homology domain, plant-specific sub-family with unknown function. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=20.39 E-value=1.6e+02 Score=28.31 Aligned_cols=37 Identities=22% Similarity=0.435 Sum_probs=25.6
Q ss_pred CccccCcEEEEeccCCccccccccccCCCCCCcCCCCCCCCCCCeeEEEeeec---CC--cEEEEEcC
Q 004854 397 YSYCYGDVVFKLVQNQFGMCKDAALEGTISDWEQNDCPDTHYSSCIGIVTGFK---DG--AVEVRWAT 459 (727)
Q Consensus 397 ~~~~~GD~V~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~vG~V~~~~---dG--~v~V~W~d 459 (727)
..++.||.|+..++. ...|||+|..+- +| .+.|+|--
T Consensus 6 ~~i~vGD~V~v~~~~--------------------------~~~~va~Ie~i~ed~~g~~~v~v~WF~ 47 (130)
T cd04721 6 VTISVHDFVYVLSEE--------------------------EDRYVAYIEDLYEDKKGSKMVKVRWFH 47 (130)
T ss_pred EEEECCCEEEEeCCC--------------------------CCcEEEEEEEEEEcCCCCEEEEEEEec
Confidence 457899999966542 135999999873 34 67777754
No 77
>PRK05609 nusG transcription antitermination protein NusG; Validated
Probab=20.26 E-value=1.7e+02 Score=29.04 Aligned_cols=49 Identities=18% Similarity=0.258 Sum_probs=35.2
Q ss_pred ccccCCCeeeecCCC-CCCeEEEEEEe-----EEEEEEecCCeeeeCCCcccccc
Q 004854 56 RGFTHGDIVRSVTDP-SGQMGRVININ-----MLVDLEGIPGYIIKDVNSKNILK 104 (727)
Q Consensus 56 R~~~~GDvVr~~~d~-~gQ~G~V~~V~-----~~vdL~~~~g~vi~~V~s~~L~~ 104 (727)
..|.+||.|+=.++| .|+.|+|..++ +.+.|...+..+.-.++.+.|.+
T Consensus 125 ~~~~~Gd~VrI~~GPf~G~~g~v~~i~~~~~r~~v~l~~~G~~~~v~l~~~~l~~ 179 (181)
T PRK05609 125 VDFEVGEMVRVIDGPFADFNGTVEEVDYEKSKLKVLVSIFGRETPVELEFSQVEK 179 (181)
T ss_pred cCCCCCCEEEEeccCCCCCEEEEEEEeCCCCEEEEEEEECCCceEEEEchHHEEE
Confidence 568899999987766 88999999997 34444555666555666666544
No 78
>PRK05585 yajC preprotein translocase subunit YajC; Validated
Probab=20.03 E-value=1.9e+02 Score=26.87 Aligned_cols=34 Identities=24% Similarity=0.315 Sum_probs=26.5
Q ss_pred ccccCCCeeeecCCCCCCeEEEEEEeE-EEEEEecCCe
Q 004854 56 RGFTHGDIVRSVTDPSGQMGRVININM-LVDLEGIPGY 92 (727)
Q Consensus 56 R~~~~GDvVr~~~d~~gQ~G~V~~V~~-~vdL~~~~g~ 92 (727)
.+|.+||-|...+ |..|+|++++- ++.|+...|-
T Consensus 51 ~~Lk~Gd~VvT~g---Gi~G~Vv~i~~~~v~lei~~g~ 85 (106)
T PRK05585 51 SSLAKGDEVVTNG---GIIGKVTKVSEDFVIIELNDDT 85 (106)
T ss_pred HhcCCCCEEEECC---CeEEEEEEEeCCEEEEEECCCe
Confidence 5789999998874 56999999974 6777765553
Done!