Query 025056
Match_columns 258
No_of_seqs 232 out of 1000
Neff 6.7
Searched_HMMs 46136
Date Fri Mar 29 09:40:02 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/025056.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/025056hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4018 Uncharacterized conser 100.0 2.4E-44 5.3E-49 307.9 13.3 192 1-205 1-194 (215)
2 smart00591 RWD domain in RING 99.9 1.5E-21 3.2E-26 151.3 12.2 106 11-124 1-106 (107)
3 PF05773 RWD: RWD domain; Int 99.9 3.9E-21 8.5E-26 150.0 11.5 112 3-122 1-113 (113)
4 KOG4445 Uncharacterized conser 99.5 6.9E-14 1.5E-18 125.7 7.1 110 11-125 2-111 (368)
5 KOG1035 eIF-2alpha kinase GCN2 99.0 2.5E-11 5.4E-16 125.7 -0.7 116 4-130 6-121 (1351)
6 KOG1814 Predicted E3 ubiquitin 99.0 4E-09 8.7E-14 98.8 10.1 117 3-126 4-135 (445)
7 KOG1763 Uncharacterized conser 98.4 1.5E-07 3.3E-12 84.8 3.5 60 148-209 224-283 (343)
8 KOG0309 Conserved WD40 repeat- 96.3 0.058 1.3E-06 54.9 12.1 101 9-120 426-530 (1081)
9 COG5252 Uncharacterized conser 95.6 0.0074 1.6E-07 53.5 2.3 58 148-207 209-267 (299)
10 PTZ00390 ubiquitin-conjugating 93.9 0.57 1.2E-05 38.9 9.3 69 6-83 5-73 (152)
11 PLN00172 ubiquitin conjugating 92.7 1.1 2.5E-05 36.9 9.3 69 6-83 4-72 (147)
12 COG5078 Ubiquitin-protein liga 92.5 0.78 1.7E-05 38.4 8.0 109 5-124 7-117 (153)
13 KOG0416 Ubiquitin-protein liga 92.3 1.9 4.2E-05 36.6 10.1 82 38-129 30-114 (189)
14 cd00195 UBCc Ubiquitin-conjuga 92.3 1 2.3E-05 36.4 8.5 103 9-123 5-110 (141)
15 KOG0417 Ubiquitin-protein liga 91.7 0.55 1.2E-05 39.0 6.0 41 38-82 31-71 (148)
16 PF00179 UQ_con: Ubiquitin-con 91.4 1 2.2E-05 36.3 7.5 67 9-83 3-69 (140)
17 smart00212 UBCc Ubiquitin-conj 91.4 1.6 3.4E-05 35.5 8.5 104 9-124 4-111 (145)
18 KOG0420 Ubiquitin-protein liga 90.9 0.85 1.8E-05 38.8 6.5 64 38-107 60-126 (184)
19 KOG0419 Ubiquitin-protein liga 90.9 0.62 1.3E-05 38.0 5.4 26 58-83 50-75 (152)
20 KOG0418 Ubiquitin-protein liga 86.2 1.4 3E-05 38.1 4.7 50 56-105 50-102 (200)
21 KOG0421 Ubiquitin-protein liga 82.5 3.7 8E-05 34.0 5.6 47 57-103 74-122 (175)
22 PRK02220 4-oxalocrotonate taut 79.7 4.4 9.6E-05 27.6 4.6 35 75-109 1-35 (61)
23 PF08694 UFC1: Ubiquitin-fold 78.6 1.6 3.5E-05 36.1 2.2 28 58-85 74-101 (161)
24 KOG0425 Ubiquitin-protein liga 78.1 5.6 0.00012 33.4 5.3 30 56-85 50-79 (171)
25 PRK02289 4-oxalocrotonate taut 77.9 5.3 0.00011 27.5 4.5 35 75-109 1-35 (60)
26 KOG3299 Uncharacterized conser 77.8 2 4.2E-05 37.5 2.7 58 70-129 2-59 (206)
27 KOG0422 Ubiquitin-protein liga 77.8 5.2 0.00011 33.0 5.0 40 38-82 33-72 (153)
28 PRK00745 4-oxalocrotonate taut 77.7 5.7 0.00012 27.2 4.6 36 75-110 1-36 (62)
29 KOG0427 Ubiquitin conjugating 73.3 22 0.00047 29.1 7.4 66 8-83 20-85 (161)
30 PF12253 CAF1A: Chromatin asse 73.3 3.3 7E-05 30.7 2.5 36 187-222 23-59 (77)
31 PF05743 UEV: UEV domain; Int 72.2 9.3 0.0002 30.5 5.1 25 59-83 48-72 (121)
32 cd00491 4Oxalocrotonate_Tautom 70.9 10 0.00022 25.4 4.4 34 76-109 1-34 (58)
33 TIGR00013 taut 4-oxalocrotonat 69.9 11 0.00024 25.8 4.5 34 76-109 1-35 (63)
34 PF06113 BRE: Brain and reprod 69.1 8.6 0.00019 36.1 4.9 63 6-84 269-331 (333)
35 PRK01964 4-oxalocrotonate taut 68.9 11 0.00024 26.0 4.4 35 75-109 1-35 (64)
36 PF01361 Tautomerase: Tautomer 68.7 9.3 0.0002 26.0 3.9 34 76-109 1-34 (60)
37 KOG0896 Ubiquitin-conjugating 68.6 4.7 0.0001 33.0 2.7 24 60-83 57-80 (138)
38 PF14461 Prok-E2_B: Prokaryoti 67.9 7.7 0.00017 31.2 3.9 26 59-84 36-61 (133)
39 PF09026 CENP-B_dimeris: Centr 66.6 1.9 4.1E-05 33.3 0.0 6 238-243 55-60 (101)
40 PRK01271 4-oxalocrotonate taut 59.7 21 0.00045 26.2 4.5 34 75-108 1-35 (76)
41 PF14812 PBP1_TM: Transmembran 59.1 3.1 6.8E-05 31.1 0.0 14 222-235 35-48 (81)
42 KOG0424 Ubiquitin-protein liga 58.5 8.5 0.00018 31.9 2.4 25 58-82 55-79 (158)
43 PF15594 Imm30: Immunity prote 55.2 28 0.00061 27.6 5.0 46 12-77 6-51 (124)
44 KOG0428 Non-canonical ubiquiti 53.5 26 0.00056 31.6 4.8 21 63-83 61-81 (314)
45 PF05764 YL1: YL1 nuclear prot 49.6 13 0.00028 33.2 2.4 30 202-231 34-65 (240)
46 KOG0895 Ubiquitin-conjugating 48.3 16 0.00034 39.2 3.1 27 57-83 896-922 (1101)
47 KOG0894 Ubiquitin-protein liga 46.1 19 0.00042 31.8 2.8 25 61-85 54-78 (244)
48 PF10446 DUF2457: Protein of u 45.7 9.1 0.0002 37.2 0.8 13 148-160 21-33 (458)
49 KOG0426 Ubiquitin-protein liga 45.6 17 0.00037 29.7 2.2 22 61-82 54-75 (165)
50 COG1942 Uncharacterized protei 45.4 50 0.0011 23.8 4.5 34 75-108 1-35 (69)
51 PF14462 Prok-E2_E: Prokaryoti 44.8 21 0.00045 28.8 2.6 21 57-77 40-60 (122)
52 KOG1832 HIV-1 Vpr-binding prot 42.0 12 0.00027 39.6 1.2 8 194-201 1393-1400(1516)
53 PF09606 Med15: ARC105 or Med1 41.0 9 0.00019 40.1 0.0 57 63-123 718-775 (799)
54 KOG3357 Uncharacterized conser 39.1 22 0.00047 29.1 1.9 28 58-85 77-104 (167)
55 PF04871 Uso1_p115_C: Uso1 / p 30.6 27 0.00059 28.5 1.2 10 208-217 111-120 (136)
56 KOG3403 Translation initiation 29.9 32 0.00069 27.9 1.5 14 220-233 126-139 (145)
57 KOG0943 Predicted ubiquitin-pr 27.3 33 0.00071 37.9 1.4 20 192-211 1704-1723(3015)
58 KOG0897 Predicted ubiquitin-co 26.7 63 0.0014 25.8 2.6 24 60-83 12-35 (122)
59 PF06524 NOA36: NOA36 protein; 26.4 46 0.00099 30.5 2.0 17 106-122 91-107 (314)
60 PRK04217 hypothetical protein; 25.0 3E+02 0.0065 21.6 6.2 58 71-128 28-92 (110)
61 PF04889 Cwf_Cwc_15: Cwf15/Cwc 24.6 57 0.0012 29.3 2.3 15 228-242 141-155 (244)
62 PTZ00397 macrophage migration 23.1 1.1E+02 0.0025 23.5 3.6 38 75-112 1-38 (116)
63 smart00187 INB Integrin beta s 21.1 4.5E+02 0.0099 25.7 7.8 57 37-104 73-129 (423)
64 PF14552 Tautomerase_2: Tautom 20.2 2.3E+02 0.005 20.9 4.5 44 65-108 14-62 (82)
No 1
>KOG4018 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=100.00 E-value=2.4e-44 Score=307.87 Aligned_cols=192 Identities=45% Similarity=0.635 Sum_probs=162.8
Q ss_pred CCChHHHHHHHHHHHHHhcCCceeeccCCCCCCCCCCceEEEEecCCCCCCccCCCCCceEEEEEeeCCCCCCCCCceEE
Q 025056 1 MTDHVQEQEMEIEALEAILMDEFKEIHSGESGLNTSNQCFQVTLSPQDDEADESTMPPVELALIFSHTEKYPDEPPLLNV 80 (258)
Q Consensus 1 m~d~~EeQ~eElEALeSIY~de~~~i~~~~~~~~~~~~~f~I~l~~~~~~~~~~~~~~~~l~L~f~~p~~YP~~~P~i~l 80 (258)
|+.| |+|++|+|||+|||||+|..+... .++.|+|.|....+..++ +...+.|.|++|++||+++|.+.+
T Consensus 1 Ms~~-EeQe~E~EaLeSIY~de~~~i~~~------~~~~f~v~iq~e~~e~d~---~~~~~~l~~s~tEnYPDe~Pli~~ 70 (215)
T KOG4018|consen 1 MSQY-EEQEEELEALESIYPDEFKHINSE------DPPIFEVTIQYEEGENDE---PKGSFILVFSLTENYPDEAPLIEA 70 (215)
T ss_pred CCcH-HHHHHHHHHHHHhccchhhhhhcc------CCccceeeeecccccCCC---ccccEEEEEEccCCCCCCCcceec
Confidence 6666 999999999999999999655543 245599999887654322 223899999999999999999999
Q ss_pred ecCCCCCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHhhccccC--CCccchhhhhhcccCCCCCcccHHHH
Q 025056 81 KSLRGIQAGDLKILKEKLEQEASENLGMAMIYTLVTSAKEWLSERYSQDAGI--DNTGEEELEKDEVIVPHGEPVTVETF 158 (258)
Q Consensus 81 ~~~~gL~~~~~~~L~~~L~~~~eenlG~~mIF~lve~lkE~L~e~~~~~~~~--~e~~~~~~e~ee~~~~~gt~vT~E~F 158 (258)
..+.++....+..|+..|+..+++||||+|||+||+.+|+||.+++++.... .+.+.++++++++++|||||||.++|
T Consensus 71 ~~~~~~~~~~i~~i~~~l~~~aeenLGmaMiftLvss~ke~l~e~~~q~~~~e~~e~~~~~~ee~e~~kfhgt~VT~esf 150 (215)
T KOG4018|consen 71 FENENLEDAEIEGILEKLQQEAEENLGMAMIFTLVSSAKEELNEIVEQQKAAEQREQEAREAEEEERKKFHGTPVTLESF 150 (215)
T ss_pred cccccccHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccCCceehhhh
Confidence 9999999999999999999999999999999999999999999999887555 22345677888999999999999999
Q ss_pred HHHHHHHHHHHHHHHHhcCccccccCCCCCCCchhhhhhcCCccccc
Q 025056 159 LAWRERFEAELALERAKLMPESALTAPKEKKLTGRQWFESGRATAVS 205 (258)
Q Consensus 159 ~~Wk~~f~~e~~~~~~~~~~~~~~~~~~~~klTGRqlFe~~~~l~~~ 205 (258)
..||.+|+++++..+++.++. .+...+++||||+|++|+.+..+
T Consensus 151 l~Wk~~fe~el~~~~~k~~~~---~~~~~~k~tgRQ~f~~d~~~~~~ 194 (215)
T KOG4018|consen 151 LEWKLKFEEELLQIKAKVKKR---LQALAKKLTGRQLFETDHKGDRS 194 (215)
T ss_pred HHHHHhhhhhhhhhhhhhhhH---HHHHhhhHHHHHHHHhcccCChh
Confidence 999999999997776665432 35567899999999999998544
No 2
>smart00591 RWD domain in RING finger and WD repeat containing proteins and DEXDc-like helicases subfamily related to the UBCc domain.
Probab=99.87 E-value=1.5e-21 Score=151.33 Aligned_cols=106 Identities=39% Similarity=0.563 Sum_probs=91.0
Q ss_pred HHHHHHHhcCCceeeccCCCCCCCCCCceEEEEecCCCCCCccCCCCCceEEEEEeeCCCCCCCCCceEEecCCCCCHHH
Q 025056 11 EIEALEAILMDEFKEIHSGESGLNTSNQCFQVTLSPQDDEADESTMPPVELALIFSHTEKYPDEPPLLNVKSLRGIQAGD 90 (258)
Q Consensus 11 ElEALeSIY~de~~~i~~~~~~~~~~~~~f~I~l~~~~~~~~~~~~~~~~l~L~f~~p~~YP~~~P~i~l~~~~gL~~~~ 90 (258)
|++||+|||++++..++.+. ....|+|++.+..+. .....+++.|.|.+|++||..+|.|.+.+..||+...
T Consensus 1 EieaL~sIy~~~~~~~~~~~-----~~~~~~i~l~~~~~~---~~~~~~~~~l~~~~p~~YP~~~P~i~~~~~~~l~~~~ 72 (107)
T smart00591 1 ELEALESIYPEDFEVIDEDA-----RIPEITIKLSPSSDE---GEDQYVSLTLQVKLPENYPDEAPPISLLNSEGLSDEQ 72 (107)
T ss_pred ChHHHHhhccceeEEecCCC-----CccEEEEEEecCCCC---CCccceEEEEEEECCCCCCCCCCCeEEECCCCCCHHH
Confidence 79999999999998876531 113788888765431 1234688999999999999999999999888999999
Q ss_pred HHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHH
Q 025056 91 LKILKEKLEQEASENLGMAMIYTLVTSAKEWLSE 124 (258)
Q Consensus 91 ~~~L~~~L~~~~eenlG~~mIF~lve~lkE~L~e 124 (258)
+..|.+.|...++++.|++|||+|++++|+||.+
T Consensus 73 ~~~l~~~l~~~~~e~~g~~~if~~v~~~~e~l~~ 106 (107)
T smart00591 73 LAELLKKLEEIAEENLGEVMIFELVEKLQEFLSE 106 (107)
T ss_pred HHHHHHHHHHHHHHhCCCEEhhHHHHHHHHHHhc
Confidence 9999999999999999999999999999999975
No 3
>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=99.86 E-value=3.9e-21 Score=149.96 Aligned_cols=112 Identities=30% Similarity=0.451 Sum_probs=87.1
Q ss_pred ChHHHHHHHHHHHHHhcCCceeeccCCCCCCCCCCceEEEEecCCCCCCccCCCCCceEEEEEeeCCCCCCCCCceEEec
Q 025056 3 DHVQEQEMEIEALEAILMDEFKEIHSGESGLNTSNQCFQVTLSPQDDEADESTMPPVELALIFSHTEKYPDEPPLLNVKS 82 (258)
Q Consensus 3 d~~EeQ~eElEALeSIY~de~~~i~~~~~~~~~~~~~f~I~l~~~~~~~~~~~~~~~~l~L~f~~p~~YP~~~P~i~l~~ 82 (258)
+|.++|++||+||+|||++++..... ..+..|+|++.+.... ......+.+.|.|+||++||..+|.|.|.+
T Consensus 1 e~~e~~~~EieaL~sIy~~~~~~~~~------~~~~~~~~~l~~~~~~--~~~~~~~~~~l~~~~p~~YP~~~P~i~l~~ 72 (113)
T PF05773_consen 1 ECEEQQEEEIEALQSIYPDDFIEIES------KSPPSLEVKLDESSSS--FESSSFPSVTLHFTLPPGYPESPPKISLES 72 (113)
T ss_dssp HHHHHHHHHHHHHHHHSSSSESSSTS------SSSEEEEEEE--CEEC--CTTTTSEEEEEEEEE-SSTTSS--EEEEEE
T ss_pred CCHHHHHHHHHHHHHHcCCCcccccc------CCCCceeeeecccccc--cccccceeEEEEEeCCCcCCCcCCEEEEEc
Confidence 47899999999999999999832222 1356788888431111 112346899999999999999999999998
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHhc-CchHHHHHHHHHHHHH
Q 025056 83 LRGIQAGDLKILKEKLEQEASENL-GMAMIYTLVTSAKEWL 122 (258)
Q Consensus 83 ~~gL~~~~~~~L~~~L~~~~eenl-G~~mIF~lve~lkE~L 122 (258)
..++....+..|.+.|...++++. |++|||+|++|+|++|
T Consensus 73 ~~~~~~~~~~~l~~~l~~~~~~~~~G~~~i~~ii~~~qe~~ 113 (113)
T PF05773_consen 73 PKNSRNEQIEKLNKELEQIAEENRQGEPCIFQIIEWLQENL 113 (113)
T ss_dssp ESSSHCHHHHHHHHHHHHHHHHSTTTS-CHHHHHHHHHHHH
T ss_pred CCCCCHHHHHHHHHHHHHHHHHhCCCcCHHHHHHHHHHhhC
Confidence 877777899999999999999999 9999999999999986
No 4
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=99.47 E-value=6.9e-14 Score=125.65 Aligned_cols=110 Identities=25% Similarity=0.373 Sum_probs=84.8
Q ss_pred HHHHHHHhcCCceeeccCCCCCCCCCCceEEEEecCCCCCCccCCCCCceEEEEEeeCCCCCCCCCceEEecCCCCCHHH
Q 025056 11 EIEALEAILMDEFKEIHSGESGLNTSNQCFQVTLSPQDDEADESTMPPVELALIFSHTEKYPDEPPLLNVKSLRGIQAGD 90 (258)
Q Consensus 11 ElEALeSIY~de~~~i~~~~~~~~~~~~~f~I~l~~~~~~~~~~~~~~~~l~L~f~~p~~YP~~~P~i~l~~~~gL~~~~ 90 (258)
|.+.+++||+|++.+....+++ ......+++-|..+.++++ .-+.|+|.++.|++||.+.|.|+|..++||.+.+
T Consensus 2 e~~~~e~~~ld~i~~~~~~~s~---~~~~i~~t~hpit~eedes--qyvcvtl~m~vs~gYP~esPtvtl~nPRGl~d~~ 76 (368)
T KOG4445|consen 2 ESADGEIEALDSIWDGVHVESK---LEASIRYTKHPITSEEDES--QYVCVTLEMTVSEGYPAESPTVTLSNPRGLGDPE 76 (368)
T ss_pred cccchhhHhhhhHhhccCCCCC---Chhhheeeecccccccccc--eeEEEEEEEecCCCCCCcCCceEecCCCCCCcHH
Confidence 4555666666665443322221 1233445554544443343 3478999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHH
Q 025056 91 LKILKEKLEQEASENLGMAMIYTLVTSAKEWLSER 125 (258)
Q Consensus 91 ~~~L~~~L~~~~eenlG~~mIF~lve~lkE~L~e~ 125 (258)
+..|+..++.++++|+||||||.||+.++|+|.+.
T Consensus 77 ~~~i~~~~~~iikq~~g~pii~~lie~~~e~LT~n 111 (368)
T KOG4445|consen 77 FREIQRQIQEIIKQNSGMPIICQLIEHCSEFLTEN 111 (368)
T ss_pred HHHHHHHHHHHHHhcCCCchhHHHHHHHHHHcccC
Confidence 99999999999999999999999999999999876
No 5
>KOG1035 consensus eIF-2alpha kinase GCN2 [Translation, ribosomal structure and biogenesis]
Probab=99.04 E-value=2.5e-11 Score=125.67 Aligned_cols=116 Identities=26% Similarity=0.376 Sum_probs=98.7
Q ss_pred hHHHHHHHHHHHHHhcCCceeeccCCCCCCCCCCceEEEEecCCCCCCccCCCCCceEEEEEeeCCCCCCCCCceEEecC
Q 025056 4 HVQEQEMEIEALEAILMDEFKEIHSGESGLNTSNQCFQVTLSPQDDEADESTMPPVELALIFSHTEKYPDEPPLLNVKSL 83 (258)
Q Consensus 4 ~~EeQ~eElEALeSIY~de~~~i~~~~~~~~~~~~~f~I~l~~~~~~~~~~~~~~~~l~L~f~~p~~YP~~~P~i~l~~~ 83 (258)
|++.|.+|+|||.|||+++|+.+.... +|. .+.+-|.+... ....++.|+|.+++.||..+|.+.+...
T Consensus 6 ~~eiQ~~e~ea~k~i~~~d~e~l~~r~-~w~--~~i~l~~l~s~--------~~~~~~~lh~~~~~~yp~~kp~i~lk~~ 74 (1351)
T KOG1035|consen 6 NYEIQENELEALKAIYMDDFEELKARW-AWV--CHILLIALRSC--------SLKLSGRLHVKCKRKYPYSKPEIKLKDH 74 (1351)
T ss_pred HHHHHHHHHHhhcccccchHHHHHHHH-hhh--hhhhhhhhhhh--------hHHHhhHhhhhhccccCCCCcccccccc
Confidence 789999999999999999999887754 555 23333444322 1257889999999999999999999999
Q ss_pred CCCCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHhhccc
Q 025056 84 RGIQAGDLKILKEKLEQEASENLGMAMIYTLVTSAKEWLSERYSQDA 130 (258)
Q Consensus 84 ~gL~~~~~~~L~~~L~~~~eenlG~~mIF~lve~lkE~L~e~~~~~~ 130 (258)
.|+.+.+++.|...|...+....|++|||.|...+|++|.++...+.
T Consensus 75 ~~~~d~~i~~L~~~l~~~~~~~~G~~~i~eLa~~vqefl~~~~~~~~ 121 (1351)
T KOG1035|consen 75 QGVSDEDIELLSNELTALAKTLRGEVMIAELASIVQEFLKDHQDRPS 121 (1351)
T ss_pred ccchHHHHHHHHHHHHHhhccccccEEeeeHhhhhHHHHhccCCCCC
Confidence 99999999999999999999999999999999999999988765443
No 6
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.95 E-value=4e-09 Score=98.78 Aligned_cols=117 Identities=23% Similarity=0.256 Sum_probs=79.4
Q ss_pred ChHHHHHHHHHHHHHhcCCc-eeeccCCCCCCC----CCCceEEEEecCCCCCCcc---------CCCCCceEEEEEeeC
Q 025056 3 DHVQEQEMEIEALEAILMDE-FKEIHSGESGLN----TSNQCFQVTLSPQDDEADE---------STMPPVELALIFSHT 68 (258)
Q Consensus 3 d~~EeQ~eElEALeSIY~de-~~~i~~~~~~~~----~~~~~f~I~l~~~~~~~~~---------~~~~~~~l~L~f~~p 68 (258)
|+++.|++||+||+|||++. |...+....+.- ..+..|.|.+.+.....++ +..+.+.+.|.|.||
T Consensus 4 dn~~~qedEL~AL~siy~e~~~~~~~~~~~~~~~ir~ni~v~f~~~~~~~vnie~~s~~~~~f~~~~~~lPpivlkf~LP 83 (445)
T KOG1814|consen 4 DNRELQEDELEALESIYPENEFRKVSYWEDGEFEIRLNIEVNFEILYSPKVNIEGTSDSMDLFSLPLDHLPPIVLKFHLP 83 (445)
T ss_pred hHHHHHHHHHHHHHHhccccccccccccccccceeEeeeeccceeecccccccccccccccccccccccCCCeeeeeecC
Confidence 36999999999999999876 554433111100 0123444444443222111 123467899999999
Q ss_pred CCCCCC-CCceEEecCCCCCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHh
Q 025056 69 EKYPDE-PPLLNVKSLRGIQAGDLKILKEKLEQEASENLGMAMIYTLVTSAKEWLSERY 126 (258)
Q Consensus 69 ~~YP~~-~P~i~l~~~~gL~~~~~~~L~~~L~~~~eenlG~~mIF~lve~lkE~L~e~~ 126 (258)
+.||.. ||.+.|. +.||+..++..|... +..|....|.|.+++++-...++
T Consensus 84 ~~YPs~spP~f~l~-s~Wmn~~q~~~lc~~------el~~i~~~~q~m~~l~~~~~s~l 135 (445)
T KOG1814|consen 84 NDYPSVSPPKFELK-SYWMNPDQKSALCSK------ELRLIEELNQMMDFLKESTISIL 135 (445)
T ss_pred CccccCCCCceeee-hcccCHHHhhhccch------hhccceeHHHHHHHHHHHHHHHH
Confidence 999996 6666665 589999998888766 67788999999999998655553
No 7
>KOG1763 consensus Uncharacterized conserved protein, contains CCCH-type Zn-finger [General function prediction only]
Probab=98.42 E-value=1.5e-07 Score=84.84 Aligned_cols=60 Identities=30% Similarity=0.390 Sum_probs=43.6
Q ss_pred CCCCcccHHHHHHHHHHHHHHHHHHHHhcCccccccCCCCCCCchhhhhhcCCccccccCCC
Q 025056 148 PHGEPVTVETFLAWRERFEAELALERAKLMPESALTAPKEKKLTGRQWFESGRATAVSQKGA 209 (258)
Q Consensus 148 ~~gt~vT~E~F~~Wk~~f~~e~~~~~~~~~~~~~~~~~~~~klTGRqlFe~~~~l~~~~~~~ 209 (258)
+.-||||.++|.+|+.+..+|+.+..++..... +..++.. ||||+||++++.|+.+|++.
T Consensus 224 ~nlT~~T~e~F~~WKk~k~~er~~k~~~~~~~~-k~~gk~~-~sGRElF~~~~dl~~dd~~e 283 (343)
T KOG1763|consen 224 PNLTPLTEETFKAWKKRKIRERKEKLAAEKAER-KKVGKSN-MSGRELFESNADLVNDDDEE 283 (343)
T ss_pred CCCccccHHHHHHHHHhhHHHHHHHHHHHHHHh-hhhccCC-CchHHHHhhchhhccCchhh
Confidence 458999999999999999877766544432221 1122223 99999999999998887443
No 8
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=96.28 E-value=0.058 Score=54.92 Aligned_cols=101 Identities=15% Similarity=0.230 Sum_probs=70.4
Q ss_pred HHHHHHHHHhcCCc-eeeccCCCCCCCCCCceEEEEecCCCCCCccCCCCCceEEEEEeeCCCCCCC-CCceEEecCCCC
Q 025056 9 EMEIEALEAILMDE-FKEIHSGESGLNTSNQCFQVTLSPQDDEADESTMPPVELALIFSHTEKYPDE-PPLLNVKSLRGI 86 (258)
Q Consensus 9 ~eElEALeSIY~de-~~~i~~~~~~~~~~~~~f~I~l~~~~~~~~~~~~~~~~l~L~f~~p~~YP~~-~P~i~l~~~~gL 86 (258)
.+|+-++.-=|+.- |+.++. ..+.|+|.|...-...+ .-+.+.|.|.||..||.. +|.|.+..+..+
T Consensus 426 geE~S~Ig~k~~nV~fEkidv-------a~Rsctvsln~p~~~~d----~y~flrm~V~FP~nYPn~a~P~Fq~e~~s~~ 494 (1081)
T KOG0309|consen 426 GEEFSLIGVKIRNVNFEKIDV-------ADRSCTVSLNCPNHRVD----DYIFLRMLVKFPANYPNNAAPSFQFENPSTI 494 (1081)
T ss_pred HhHHhHhhccccccceEeecc-------ccceEEEEecCCCCccc----cceeEEEEEeccccCCCCCCCceEEecCccc
Confidence 34555555445443 444433 34788999876543322 236789999999999995 899999999999
Q ss_pred CHHHHHHHHHHHHHHHHHhc--CchHHHHHHHHHHH
Q 025056 87 QAGDLKILKEKLEQEASENL--GMAMIYTLVTSAKE 120 (258)
Q Consensus 87 ~~~~~~~L~~~L~~~~eenl--G~~mIF~lve~lkE 120 (258)
+....+.|.+.|..++.... |.-|+=-++..|--
T Consensus 495 t~~~~~~~l~~L~~i~~q~v~s~~yClepClr~l~g 530 (1081)
T KOG0309|consen 495 TSTMKAKLLKILKDIALQKVKSGQYCLEPCLRQLVG 530 (1081)
T ss_pred cHHHHHHHHHHHHHHHHHHhhcCchHHHHHHHHHhc
Confidence 99999999999999887764 65444444444444
No 9
>COG5252 Uncharacterized conserved protein, contains CCCH-type Zn-finger protein [General function prediction only]
Probab=95.60 E-value=0.0074 Score=53.51 Aligned_cols=58 Identities=19% Similarity=0.223 Sum_probs=36.5
Q ss_pred CCCCcccHHHHHHHHHHHHHHHHHHHHhcCccccccCCCCCCCchh-hhhhcCCccccccC
Q 025056 148 PHGEPVTVETFLAWRERFEAELALERAKLMPESALTAPKEKKLTGR-QWFESGRATAVSQK 207 (258)
Q Consensus 148 ~~gt~vT~E~F~~Wk~~f~~e~~~~~~~~~~~~~~~~~~~~klTGR-qlFe~~~~l~~~~~ 207 (258)
+.-||||.++|..|+....-.+..++.++. ++....+...+||+ ++|+.++.+|-+|-
T Consensus 209 ~~LTP~TeenFk~Wkd~~~~r~lkq~ee~~--s~Rk~~gr~~~~k~~e~FEt~~d~~~ddv 267 (299)
T COG5252 209 EKLTPLTEENFKEWKDGRRLRILKQKEEKE--SARKVKGRATGTKGVELFETRRDLFKDDV 267 (299)
T ss_pred CcCCcccHHHHHHhccchHHHHHHHHHHHH--hcccchhhhhhccchhhhhcccccccccc
Confidence 347999999999999766544333322221 11112233446666 99999999877763
No 10
>PTZ00390 ubiquitin-conjugating enzyme; Provisional
Probab=93.92 E-value=0.57 Score=38.94 Aligned_cols=69 Identities=19% Similarity=0.194 Sum_probs=44.4
Q ss_pred HHHHHHHHHHHHhcCCceeeccCCCCCCCCCCceEEEEecCCCCCCccCCCCCceEEEEEeeCCCCCCCCCceEEecC
Q 025056 6 QEQEMEIEALEAILMDEFKEIHSGESGLNTSNQCFQVTLSPQDDEADESTMPPVELALIFSHTEKYPDEPPLLNVKSL 83 (258)
Q Consensus 6 EeQ~eElEALeSIY~de~~~i~~~~~~~~~~~~~f~I~l~~~~~~~~~~~~~~~~l~L~f~~p~~YP~~~P~i~l~~~ 83 (258)
..-..|+..|+.--+..+.+.... ..-..+.+.|.+..+ .....-.+.|.|.+|++||..||.+.+...
T Consensus 5 kRl~~E~~~l~~~~~~~i~~~~~~-----~d~~~w~~~i~GP~~----tpY~gg~f~~~i~~p~~YP~~pP~v~F~t~ 73 (152)
T PTZ00390 5 KRIEKETQNLANDPPPGIKAEPDP-----GNYRHFKILMEGPDG----TPYEGGYYKLELFLPEQYPMEPPKVRFLTK 73 (152)
T ss_pred HHHHHHHHHHHhCCCCCeEEEECC-----CCccEEEEEEEcCCC----CCCcCcEEEEEEECccccCCCCCEEEEecC
Confidence 345677888886555555443221 122466777664322 123346789999999999999999998653
No 11
>PLN00172 ubiquitin conjugating enzyme; Provisional
Probab=92.73 E-value=1.1 Score=36.87 Aligned_cols=69 Identities=13% Similarity=0.082 Sum_probs=42.3
Q ss_pred HHHHHHHHHHHHhcCCceeeccCCCCCCCCCCceEEEEecCCCCCCccCCCCCceEEEEEeeCCCCCCCCCceEEecC
Q 025056 6 QEQEMEIEALEAILMDEFKEIHSGESGLNTSNQCFQVTLSPQDDEADESTMPPVELALIFSHTEKYPDEPPLLNVKSL 83 (258)
Q Consensus 6 EeQ~eElEALeSIY~de~~~i~~~~~~~~~~~~~f~I~l~~~~~~~~~~~~~~~~l~L~f~~p~~YP~~~P~i~l~~~ 83 (258)
..-..|+..|+.--+..+.+.... ..-..+.+.|.+..+. ......+.+.|.+|++||..||.+.+...
T Consensus 4 ~Rl~kE~~~l~~~~~~~~~~~~~~-----~nl~~w~~~i~GP~~t----pyegg~f~~~i~fp~~YP~~pP~v~f~t~ 72 (147)
T PLN00172 4 KRIQKEHKDLLKDPPSNCSAGPSD-----ENLFRWTASIIGPSDS----PYAGGVFFLSILFPPDYPFKPPKVQFTTK 72 (147)
T ss_pred HHHHHHHHHHHhCCCCCeEEEECC-----CChheEEEEEECCCCC----CCCCCEEEEEEECCcccCCCCCEEEEecC
Confidence 345567888875433333332111 1234667766543221 23345788999999999999999998653
No 12
>COG5078 Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.49 E-value=0.78 Score=38.38 Aligned_cols=109 Identities=15% Similarity=0.110 Sum_probs=59.8
Q ss_pred HHHHHHHHHHHHHhcCCceeeccCCCCCCCCCCceEEEEecCCCCCCccCCCCCceEEEEEeeCCCCCCCCCceEEecCC
Q 025056 5 VQEQEMEIEALEAILMDEFKEIHSGESGLNTSNQCFQVTLSPQDDEADESTMPPVELALIFSHTEKYPDEPPLLNVKSLR 84 (258)
Q Consensus 5 ~EeQ~eElEALeSIY~de~~~i~~~~~~~~~~~~~f~I~l~~~~~~~~~~~~~~~~l~L~f~~p~~YP~~~P~i~l~~~~ 84 (258)
......|++.|+.=-+..+.......+ .-..+.+.|....+ ..+....+.|.+.||.+||..||.|.+.+.-
T Consensus 7 ~~RL~kE~~~l~~~~~~~~~a~p~~d~----~l~~w~~~i~GP~d----tpYegg~f~~~l~fP~~YP~~PPkv~F~t~i 78 (153)
T COG5078 7 LKRLLKELKKLQKDPPPGISAGPVDDD----NLFHWEATITGPPD----TPYEGGIFKLTLEFPEDYPFKPPKVRFTTKI 78 (153)
T ss_pred HHHHHHHHHHHhcCCCCceEEEECCCC----cceeEEEEEECCCC----CCcCCCEEEEEEECCCCCCCCCCeeeeccCC
Confidence 445667788877555444433211100 11345555554332 2345678999999999999999999998753
Q ss_pred CCCHHH--HHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHH
Q 025056 85 GIQAGD--LKILKEKLEQEASENLGMAMIYTLVTSAKEWLSE 124 (258)
Q Consensus 85 gL~~~~--~~~L~~~L~~~~eenlG~~mIF~lve~lkE~L~e 124 (258)
+.+.-. =......|.+.|.=. -.|=+++-.|+-.|.+
T Consensus 79 ~HPNV~~~G~vCLdIL~~~WsP~---~~l~sILlsl~slL~~ 117 (153)
T COG5078 79 FHPNVDPSGNVCLDILKDRWSPV---YTLETILLSLQSLLLS 117 (153)
T ss_pred cCCCcCCCCCChhHHHhCCCCcc---ccHHHHHHHHHHHHcC
Confidence 322221 223344555444322 2244455555555544
No 13
>KOG0416 consensus Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.33 E-value=1.9 Score=36.59 Aligned_cols=82 Identities=17% Similarity=0.204 Sum_probs=58.2
Q ss_pred ceEEEEecCCCCCCccCCCCCceEEEEEeeCCCCCCCCCceEEecC---CCCCHHHHHHHHHHHHHHHHHhcCchHHHHH
Q 025056 38 QCFQVTLSPQDDEADESTMPPVELALIFSHTEKYPDEPPLLNVKSL---RGIQAGDLKILKEKLEQEASENLGMAMIYTL 114 (258)
Q Consensus 38 ~~f~I~l~~~~~~~~~~~~~~~~l~L~f~~p~~YP~~~P~i~l~~~---~gL~~~~~~~L~~~L~~~~eenlG~~mIF~l 114 (258)
..|.|.+....+. ....-.-+++|.+|..||-.+|.|-+... +++...--......|++.|. -+|+|
T Consensus 30 ~ef~V~f~GP~ds----~YegGvWkv~V~lPd~YP~KSPSIGFvnKIfHPNIDe~SGsVCLDViNQtWS------p~yDL 99 (189)
T KOG0416|consen 30 QEFYVKFHGPKDS----PYEGGVWKVRVELPDNYPFKSPSIGFVNKIFHPNIDEASGSVCLDVINQTWS------PLYDL 99 (189)
T ss_pred cEEEEEeeCCCCC----cccCceEEEEEECCCCCCCCCCcccceeeccCCCchhccCccHHHHHhhhhh------HHHHH
Confidence 5788887655432 23344567899999999999999987653 45554444556777777774 47888
Q ss_pred HHHHHHHHHHHhhcc
Q 025056 115 VTSAKEWLSERYSQD 129 (258)
Q Consensus 115 ve~lkE~L~e~~~~~ 129 (258)
+.-..-||-+.+.-+
T Consensus 100 ~NIfetfLPQLL~YP 114 (189)
T KOG0416|consen 100 VNIFETFLPQLLRYP 114 (189)
T ss_pred HHHHHHHhHHHhcCC
Confidence 888888888876543
No 14
>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=92.32 E-value=1 Score=36.39 Aligned_cols=103 Identities=16% Similarity=0.131 Sum_probs=54.7
Q ss_pred HHHHHHHHHhcCCceeeccCCCCCCCCCCceEEEEecCCCCCCccCCCCCceEEEEEeeCCCCCCCCCceEEecC---CC
Q 025056 9 EMEIEALEAILMDEFKEIHSGESGLNTSNQCFQVTLSPQDDEADESTMPPVELALIFSHTEKYPDEPPLLNVKSL---RG 85 (258)
Q Consensus 9 ~eElEALeSIY~de~~~i~~~~~~~~~~~~~f~I~l~~~~~~~~~~~~~~~~l~L~f~~p~~YP~~~P~i~l~~~---~g 85 (258)
..|+..|+.--+..+.+.... .....+.+.|.+..+. ......+.+.|.+|++||..||.+.+... .+
T Consensus 5 ~~E~~~l~~~~~~~~~v~~~~-----~~~~~w~~~i~g~~~t----~y~g~~~~~~~~~p~~yP~~pP~v~f~~~i~Hpn 75 (141)
T cd00195 5 QKELKDLKKDPPSGISAEPVE-----ENLLEWHGTIRGPPDT----PYEGGIFKLDIEFPEDYPFKPPKVRFVTKIYHPN 75 (141)
T ss_pred HHHHHHHHhCCCCCeEEEECC-----CChhEEEEEEecCCCC----CccCCEEEEEEECCCccCCCCCeEEEeCCcccCC
Confidence 456666665554445433221 1234566666544221 12335688999999999999999998643 22
Q ss_pred CCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHH
Q 025056 86 IQAGDLKILKEKLEQEASENLGMAMIYTLVTSAKEWLS 123 (258)
Q Consensus 86 L~~~~~~~L~~~L~~~~eenlG~~mIF~lve~lkE~L~ 123 (258)
+. ..-......|... ...... .|.+++..|+..|.
T Consensus 76 V~-~~G~icl~~l~~~-~W~p~~-~l~~il~~i~~~l~ 110 (141)
T cd00195 76 VD-ENGKICLSILKTH-GWSPAY-TLRTVLLSLQSLLN 110 (141)
T ss_pred CC-CCCCCchhhcCCC-CcCCcC-cHHHHHHHHHHHHh
Confidence 33 1111112222221 011222 27777777777765
No 15
>KOG0417 consensus Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.67 E-value=0.55 Score=38.98 Aligned_cols=41 Identities=20% Similarity=0.236 Sum_probs=31.9
Q ss_pred ceEEEEecCCCCCCccCCCCCceEEEEEeeCCCCCCCCCceEEec
Q 025056 38 QCFQVTLSPQDDEADESTMPPVELALIFSHTEKYPDEPPLLNVKS 82 (258)
Q Consensus 38 ~~f~I~l~~~~~~~~~~~~~~~~l~L~f~~p~~YP~~~P~i~l~~ 82 (258)
..|+.+|....++ ....-.+.|.|.+|+.||-.||.|.+..
T Consensus 31 ~~w~a~I~GP~~S----pYEgG~F~l~I~~p~~YP~~PPkV~F~T 71 (148)
T KOG0417|consen 31 FHWQATILGPPGS----PYEGGVFFLEIHFPEDYPFKPPKVRFLT 71 (148)
T ss_pred eeEEEEEECCCCC----CcCCCEEEEEEECCCCCCCCCCceEeec
Confidence 4578777655432 3455689999999999999999999875
No 16
>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=91.43 E-value=1 Score=36.32 Aligned_cols=67 Identities=15% Similarity=0.133 Sum_probs=39.8
Q ss_pred HHHHHHHHHhcCCceeeccCCCCCCCCCCceEEEEecCCCCCCccCCCCCceEEEEEeeCCCCCCCCCceEEecC
Q 025056 9 EMEIEALEAILMDEFKEIHSGESGLNTSNQCFQVTLSPQDDEADESTMPPVELALIFSHTEKYPDEPPLLNVKSL 83 (258)
Q Consensus 9 ~eElEALeSIY~de~~~i~~~~~~~~~~~~~f~I~l~~~~~~~~~~~~~~~~l~L~f~~p~~YP~~~P~i~l~~~ 83 (258)
..|+..|+.--+..+....... .....+.+.|.+..+ .......+.+.|.+|++||..||.|.+...
T Consensus 3 ~~E~~~l~~~~~~~~~~~~~~~----~~~~~w~~~i~gp~~----t~y~gg~f~~~i~~p~~YP~~pP~v~f~t~ 69 (140)
T PF00179_consen 3 QKELKELQKNPPPGISVQPSED----DNLFEWHVTIFGPPG----TPYEGGIFKFRISFPPDYPFSPPKVRFLTP 69 (140)
T ss_dssp HHHHHHHHHSHTTTEEEEEEST----TETTEEEEEEEBETT----STTTTSEEEEEEEETTTTTTS--EEEESSS
T ss_pred HHHHHHHhhCCCCCEEEEECCC----CChheEEEEEeccCc----cceecccccccccccccccccccccccccc
Confidence 4566667655555544322110 123566666654222 123456799999999999999999998863
No 17
>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=91.37 E-value=1.6 Score=35.53 Aligned_cols=104 Identities=15% Similarity=0.121 Sum_probs=55.1
Q ss_pred HHHHHHHHHhcCCceeeccCCCCCCCCCCceEEEEecCCCCCCccCCCCCceEEEEEeeCCCCCCCCCceEEecCC---C
Q 025056 9 EMEIEALEAILMDEFKEIHSGESGLNTSNQCFQVTLSPQDDEADESTMPPVELALIFSHTEKYPDEPPLLNVKSLR---G 85 (258)
Q Consensus 9 ~eElEALeSIY~de~~~i~~~~~~~~~~~~~f~I~l~~~~~~~~~~~~~~~~l~L~f~~p~~YP~~~P~i~l~~~~---g 85 (258)
..|+..|+.--+..+.+.... ......+.+.|....+ .......+.+.|.+|++||..||.+.+.... +
T Consensus 4 ~~E~~~~~~~~~~~~~v~~~~----~~~~~~w~~~i~gp~~----~~y~g~~f~~~l~~p~~yP~~pP~v~f~~~i~Hp~ 75 (145)
T smart00212 4 LKELKELLKDPPPGISAYPVD----EDNLLEWTGTIVGPPG----TPYEGGIFKLTIEFPPDYPFKPPKVKFITKIYHPN 75 (145)
T ss_pred HHHHHHHHhCCCCCeEEEECC----CCChheEEEEEEcCCC----CCcCCcEEEEEEECCcccCCCCCEEEEeCCceEee
Confidence 456666665555555433221 0123456666653221 1133457889999999999999999987542 2
Q ss_pred CCHHHHHHHHHHHH-HHHHHhcCchHHHHHHHHHHHHHHH
Q 025056 86 IQAGDLKILKEKLE-QEASENLGMAMIYTLVTSAKEWLSE 124 (258)
Q Consensus 86 L~~~~~~~L~~~L~-~~~eenlG~~mIF~lve~lkE~L~e 124 (258)
+.. .-......|. ..|. .+ -.|.+++..++..|.+
T Consensus 76 i~~-~G~icl~~l~~~~W~--p~-~~l~~il~~i~~~l~~ 111 (145)
T smart00212 76 VDS-SGEICLDILKQEKWS--PA-TTLETVLLSIQSLLSE 111 (145)
T ss_pred ECC-CCCEehhhcCCCCCC--CC-CcHHHHHHHHHHHHhC
Confidence 221 1111112222 1221 22 4466777777776644
No 18
>KOG0420 consensus Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.90 E-value=0.85 Score=38.75 Aligned_cols=64 Identities=20% Similarity=0.339 Sum_probs=42.7
Q ss_pred ceEEEEecCCCCCCccCCCCCceEEEEEeeCCCCCCCCCceEEecCC---CCCHHHHHHHHHHHHHHHHHhcC
Q 025056 38 QCFQVTLSPQDDEADESTMPPVELALIFSHTEKYPDEPPLLNVKSLR---GIQAGDLKILKEKLEQEASENLG 107 (258)
Q Consensus 38 ~~f~I~l~~~~~~~~~~~~~~~~l~L~f~~p~~YP~~~P~i~l~~~~---gL~~~~~~~L~~~L~~~~eenlG 107 (258)
.+|+++|.|+.+= +..-.+...|+.|+.||.+||.+.+...- +++. +=......|.+-|.=.++
T Consensus 60 ~~~elti~PdEGy-----Y~gGkf~F~~~v~~~Yp~~PPKVkCltkV~HPNId~-~GnVCLnILRedW~P~ln 126 (184)
T KOG0420|consen 60 LEFELTITPDEGY-----YQGGKFRFKFKVPNAYPHEPPKVKCLTKVYHPNIDL-DGNVCLNILREDWRPVLN 126 (184)
T ss_pred ceEEEEEccCcce-----ecCceEEEEEECCCCCCCCCCeeeeeeccccCCcCC-cchHHHHHHHhcCccccc
Confidence 3699999987542 33456888999999999999999876542 3322 223445566665654444
No 19
>KOG0419 consensus Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.85 E-value=0.62 Score=37.98 Aligned_cols=26 Identities=31% Similarity=0.548 Sum_probs=22.8
Q ss_pred CceEEEEEeeCCCCCCCCCceEEecC
Q 025056 58 PVELALIFSHTEKYPDEPPLLNVKSL 83 (258)
Q Consensus 58 ~~~l~L~f~~p~~YP~~~P~i~l~~~ 83 (258)
...+.|.++|++.||..||.+.+.+.
T Consensus 50 ~gtFkLtl~FteeYpnkPP~VrFvs~ 75 (152)
T KOG0419|consen 50 GGTFKLTLEFTEEYPNKPPTVRFVSK 75 (152)
T ss_pred CceEEEEEEcccccCCCCCeeEeeee
Confidence 45788999999999999999998764
No 20
>KOG0418 consensus Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=86.20 E-value=1.4 Score=38.06 Aligned_cols=50 Identities=16% Similarity=0.193 Sum_probs=39.2
Q ss_pred CCCceEEEEEeeCCCCCCCCCceEEecC---CCCCHHHHHHHHHHHHHHHHHh
Q 025056 56 MPPVELALIFSHTEKYPDEPPLLNVKSL---RGIQAGDLKILKEKLEQEASEN 105 (258)
Q Consensus 56 ~~~~~l~L~f~~p~~YP~~~P~i~l~~~---~gL~~~~~~~L~~~L~~~~een 105 (258)
+..-.+.|.+++|.+||..||.+.+... ++++...-......|..+|.-.
T Consensus 50 YEGG~FeldI~iPe~YPF~pPkv~F~TkIwHPnVSs~tGaICLDilkd~Wa~s 102 (200)
T KOG0418|consen 50 YEGGVFELDIKIPENYPFKPPKVKFITKIWHPNVSSQTGAICLDILKDQWAAS 102 (200)
T ss_pred CCCceEEEEEecCCCCCCCCCceeeeeeeecCCCCcccccchhhhhhcccchh
Confidence 4456799999999999999999987643 4677777777778888877544
No 21
>KOG0421 consensus Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=82.52 E-value=3.7 Score=33.99 Aligned_cols=47 Identities=23% Similarity=0.279 Sum_probs=33.9
Q ss_pred CCceEEEEEeeCCCCCCCCCceEEecCCCCCHHHH--HHHHHHHHHHHH
Q 025056 57 PPVELALIFSHTEKYPDEPPLLNVKSLRGIQAGDL--KILKEKLEQEAS 103 (258)
Q Consensus 57 ~~~~l~L~f~~p~~YP~~~P~i~l~~~~gL~~~~~--~~L~~~L~~~~e 103 (258)
......|...||.+||-.||.|.+..+.+-+..++ ......|...|.
T Consensus 74 egl~yklSl~Fp~~YPy~pP~vkFltpc~HPNVD~~GnIcLDILkdKWS 122 (175)
T KOG0421|consen 74 EGLKYKLSLSFPNNYPYKPPTVKFLTPCFHPNVDLSGNICLDILKDKWS 122 (175)
T ss_pred cCcEEEEEEecCCCCCCCCCeeEeeccccCCCccccccchHHHHHHHHH
Confidence 34678888899999999999999988765544322 334566666664
No 22
>PRK02220 4-oxalocrotonate tautomerase; Provisional
Probab=79.69 E-value=4.4 Score=27.62 Aligned_cols=35 Identities=26% Similarity=0.420 Sum_probs=31.2
Q ss_pred CCceEEecCCCCCHHHHHHHHHHHHHHHHHhcCch
Q 025056 75 PPLLNVKSLRGIQAGDLKILKEKLEQEASENLGMA 109 (258)
Q Consensus 75 ~P~i~l~~~~gL~~~~~~~L~~~L~~~~eenlG~~ 109 (258)
.|.+.|...+|.+.+++..|.+.|...+.+.+|.|
T Consensus 1 MP~i~i~~~~Grs~eqk~~l~~~it~~l~~~~~~p 35 (61)
T PRK02220 1 MPYVHIKLIEGRTEEQLKALVKDVTAAVSKNTGAP 35 (61)
T ss_pred CCEEEEEEcCCCCHHHHHHHHHHHHHHHHHHhCcC
Confidence 48899987889999999999999999999888865
No 23
>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=78.58 E-value=1.6 Score=36.08 Aligned_cols=28 Identities=29% Similarity=0.514 Sum_probs=17.1
Q ss_pred CceEEEEEeeCCCCCCCCCceEEecCCC
Q 025056 58 PVELALIFSHTEKYPDEPPLLNVKSLRG 85 (258)
Q Consensus 58 ~~~l~L~f~~p~~YP~~~P~i~l~~~~g 85 (258)
...+.|.|.+|.+||.++|.|.|-...|
T Consensus 74 kYEF~~eFdIP~tYP~t~pEi~lPeLdG 101 (161)
T PF08694_consen 74 KYEFDLEFDIPVTYPTTAPEIALPELDG 101 (161)
T ss_dssp EEEEEEEEE--TTTTTS----B-GGGTT
T ss_pred eEEEeeecCCCccCCCCCcceeccccCC
Confidence 3578899999999999999999876544
No 24
>KOG0425 consensus Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=78.05 E-value=5.6 Score=33.41 Aligned_cols=30 Identities=17% Similarity=0.169 Sum_probs=24.4
Q ss_pred CCCceEEEEEeeCCCCCCCCCceEEecCCC
Q 025056 56 MPPVELALIFSHTEKYPDEPPLLNVKSLRG 85 (258)
Q Consensus 56 ~~~~~l~L~f~~p~~YP~~~P~i~l~~~~g 85 (258)
...--+.-++.||.+||..||.+.+.+.-|
T Consensus 50 YeGG~FkA~m~FP~dYP~sPP~~rF~s~mw 79 (171)
T KOG0425|consen 50 YEGGFFKAHMKFPQDYPLSPPTFRFTSKMW 79 (171)
T ss_pred ccCceeEEEEeCcccCCCCCCceeeehhhc
Confidence 344568889999999999999999887433
No 25
>PRK02289 4-oxalocrotonate tautomerase; Provisional
Probab=77.91 E-value=5.3 Score=27.54 Aligned_cols=35 Identities=11% Similarity=0.186 Sum_probs=31.0
Q ss_pred CCceEEecCCCCCHHHHHHHHHHHHHHHHHhcCch
Q 025056 75 PPLLNVKSLRGIQAGDLKILKEKLEQEASENLGMA 109 (258)
Q Consensus 75 ~P~i~l~~~~gL~~~~~~~L~~~L~~~~eenlG~~ 109 (258)
.|.+.+.-.+|.+.+++..|.+.|.+.+.+.+|.|
T Consensus 1 MP~i~i~~~~Grs~EqK~~L~~~it~a~~~~~~~p 35 (60)
T PRK02289 1 MPFVRIDLFEGRSQEQKNALAREVTEVVSRIAKAP 35 (60)
T ss_pred CCEEEEEECCCCCHHHHHHHHHHHHHHHHHHhCcC
Confidence 48889888889999999999999999988888864
No 26
>KOG3299 consensus Uncharacterized conserved protein [Function unknown]
Probab=77.84 E-value=2 Score=37.52 Aligned_cols=58 Identities=19% Similarity=0.267 Sum_probs=41.3
Q ss_pred CCCCCCCceEEecCCCCCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHhhcc
Q 025056 70 KYPDEPPLLNVKSLRGIQAGDLKILKEKLEQEASENLGMAMIYTLVTSAKEWLSERYSQD 129 (258)
Q Consensus 70 ~YP~~~P~i~l~~~~gL~~~~~~~L~~~L~~~~eenlG~~mIF~lve~lkE~L~e~~~~~ 129 (258)
.||.++|.|.-....++.-.+..-|-..+ .+-.+.|..|+|.|+..++.+++....+.
T Consensus 2 ~yps~ap~i~e~~~v~~~~~~~~~l~~a~--~~~s~~~~~l~~~~~~~~~~~~~~~~~~l 59 (206)
T KOG3299|consen 2 DYPSSAPTIKELVGVEKELAKRKLLSNAL--VYISEIGDSLFLLWVEDPRDVLNKRASKL 59 (206)
T ss_pred CCCCCCCcHhHhhhHHHHHHHHHhhhhhh--HHHHhhhhhhhhhhhccHHHHHHHhHhhc
Confidence 69998666654433444444555555555 56677899999999999999999886654
No 27
>KOG0422 consensus Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=77.78 E-value=5.2 Score=32.98 Aligned_cols=40 Identities=20% Similarity=0.312 Sum_probs=31.4
Q ss_pred ceEEEEecCCCCCCccCCCCCceEEEEEeeCCCCCCCCCceEEec
Q 025056 38 QCFQVTLSPQDDEADESTMPPVELALIFSHTEKYPDEPPLLNVKS 82 (258)
Q Consensus 38 ~~f~I~l~~~~~~~~~~~~~~~~l~L~f~~p~~YP~~~P~i~l~~ 82 (258)
..|+..|-|... .+....+.|.+.||..||--||.|.+..
T Consensus 33 l~wt~llipd~p-----pY~kgaF~l~I~fp~eYPFKPP~i~f~t 72 (153)
T KOG0422|consen 33 LKWTGLLIPDKP-----PYNKGAFRLEIDFPVEYPFKPPKIKFKT 72 (153)
T ss_pred eeEEeEecCCCC-----CccCcceEEEeeCCCCCCCCCCeeeeee
Confidence 567777766532 3556779999999999999999998764
No 28
>PRK00745 4-oxalocrotonate tautomerase; Provisional
Probab=77.66 E-value=5.7 Score=27.15 Aligned_cols=36 Identities=19% Similarity=0.328 Sum_probs=31.5
Q ss_pred CCceEEecCCCCCHHHHHHHHHHHHHHHHHhcCchH
Q 025056 75 PPLLNVKSLRGIQAGDLKILKEKLEQEASENLGMAM 110 (258)
Q Consensus 75 ~P~i~l~~~~gL~~~~~~~L~~~L~~~~eenlG~~m 110 (258)
.|.+.|....|.+.++...|.+.|.....+.+|.|.
T Consensus 1 MP~i~I~~~~grs~eqk~~l~~~it~~l~~~~~~p~ 36 (62)
T PRK00745 1 MPTFHIELFEGRTVEQKRKLVEEITRVTVETLGCPP 36 (62)
T ss_pred CCEEEEEEcCCCCHHHHHHHHHHHHHHHHHHcCCCh
Confidence 488999888889999999999999999888888654
No 29
>KOG0427 consensus Ubiquitin conjugating enzyme [Posttranslational modification, protein turnover, chaperones]
Probab=73.34 E-value=22 Score=29.10 Aligned_cols=66 Identities=15% Similarity=0.162 Sum_probs=40.5
Q ss_pred HHHHHHHHHHhcCCceeeccCCCCCCCCCCceEEEEecCCCCCCccCCCCCceEEEEEeeCCCCCCCCCceEEecC
Q 025056 8 QEMEIEALEAILMDEFKEIHSGESGLNTSNQCFQVTLSPQDDEADESTMPPVELALIFSHTEKYPDEPPLLNVKSL 83 (258)
Q Consensus 8 Q~eElEALeSIY~de~~~i~~~~~~~~~~~~~f~I~l~~~~~~~~~~~~~~~~l~L~f~~p~~YP~~~P~i~l~~~ 83 (258)
.+-|+-.++.==|..|..--.. .-..+.|.+..-.+ .....-...|+|.||+.||-++|.+-+..+
T Consensus 20 LqKEl~e~q~~pP~G~~~~v~d------nlqqWii~v~Ga~G----TLYa~e~~qLq~~F~~~YP~esPqVmF~~~ 85 (161)
T KOG0427|consen 20 LQKELSEWQNNPPTGFKHRVTD------NLQQWIIEVTGAPG----TLYANETYQLQVEFPEHYPMESPQVMFVGP 85 (161)
T ss_pred HHHHHHHHhcCCCCcceeeccc------chheeEEEEecCCc----eeecCcEEEEEEecCCCCCCCCCeEEEecC
Confidence 3456777776666665432110 12456666543221 011223688999999999999998887754
No 30
>PF12253 CAF1A: Chromatin assembly factor 1 subunit A; InterPro: IPR022043 The CAF-1 or chromatin assembly factor-1 consists of three subunits, and this is the first, or A []. The A domain is uniquely required for the progression of S phase in mouse cells [], independent of its ability to promote histone deposition [] but dependent on its ability to interact with HP1 - heterochromatin protein 1-rich heterochromatin domains next to centromeres that are crucial for chromosome segregation during mitosis. This HP1-CAF-1 interaction module functions as a built-in replication control for heterochromatin, which, like a control barrier, has an impact on S-phase progression in addition to DNA-based checkpoints [].
Probab=73.26 E-value=3.3 Score=30.72 Aligned_cols=36 Identities=19% Similarity=0.133 Sum_probs=24.6
Q ss_pred CCCCchhhhhhcC-CccccccCCCccccCCCCCCCCC
Q 025056 187 EKKLTGRQWFESG-RATAVSQKGAVTVNEVSDDEDDE 222 (258)
Q Consensus 187 ~~klTGRqlFe~~-~~l~~~~~~~~~~~~~~~~~~~~ 222 (258)
...++||..|-++ ..|.-+=+....|.++..+++.+
T Consensus 23 s~~v~~r~P~~~d~~~lDYdyDSd~EWeE~e~GEdl~ 59 (77)
T PF12253_consen 23 SKIVTPRNPFAKDLPNLDYDYDSDDEWEEEEEGEDLD 59 (77)
T ss_pred ccccccCCcccccccccceecCCccccccCCCCcccc
Confidence 4678999999998 67766655666675544555443
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=72.21 E-value=9.3 Score=30.47 Aligned_cols=25 Identities=24% Similarity=0.551 Sum_probs=20.5
Q ss_pred ceEEEEEeeCCCCCCCCCceEEecC
Q 025056 59 VELALIFSHTEKYPDEPPLLNVKSL 83 (258)
Q Consensus 59 ~~l~L~f~~p~~YP~~~P~i~l~~~ 83 (258)
..+-+.+.+|..||..||.+.+...
T Consensus 48 y~iPi~Iwlp~~yP~~pP~v~v~pt 72 (121)
T PF05743_consen 48 YNIPICIWLPENYPYSPPIVYVRPT 72 (121)
T ss_dssp EEEEEEEEE-TTTTTSSSEEEE-GC
T ss_pred cceeEEEEEcccCCCCCCEEEEeCC
Confidence 5788899999999999999999754
No 32
>cd00491 4Oxalocrotonate_Tautomerase 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one dimer and the third from a neighboring monomer. Each monomer is a beta-alpha-beta fold with two small beta strands at the C-terminus that fold back on themselves. A pair of monomers form a dimer with two-fold symmetry, consisting of a 4-stranded beta sheet with two helices on one side and two additional small beta strands at each end. The dimers are assembled around a 3-fold axis of rotation to form a hexamer, with the short beta strands from each dimer contacting the neighboring dimers.
Probab=70.94 E-value=10 Score=25.37 Aligned_cols=34 Identities=26% Similarity=0.418 Sum_probs=29.2
Q ss_pred CceEEecCCCCCHHHHHHHHHHHHHHHHHhcCch
Q 025056 76 PLLNVKSLRGIQAGDLKILKEKLEQEASENLGMA 109 (258)
Q Consensus 76 P~i~l~~~~gL~~~~~~~L~~~L~~~~eenlG~~ 109 (258)
|.+.|.-..|.+.++...|.+.|.+.+.+.+|.+
T Consensus 1 P~i~i~~~~grt~eqk~~l~~~i~~~l~~~~g~~ 34 (58)
T cd00491 1 PFVQIYILEGRTDEQKRELIERVTEAVSEILGAP 34 (58)
T ss_pred CEEEEEEcCCCCHHHHHHHHHHHHHHHHHHhCcC
Confidence 7788887778889999999999999988888765
No 33
>TIGR00013 taut 4-oxalocrotonate tautomerase family enzyme. 4-oxalocrotonate tautomerase is a homohexamer in which each monomer is very small, at about 62 amino acids. Pro-1 of the mature protein serves as a general base. The enzyme functions in meta-cleavage pathways of aromatic hydrocarbon catabolism. Because several Arg residues located near the active site in the crystal structure of Pseudomonas putida are not conserved among all members of this family, because the literature describes a general role in the isomerization of beta,gamma-unsaturated enones to their alpha,beta-isomers, and because of the presence of fairly distantly related paralogs in Campylobacter jejuni, the family is regarded as not necessarily uniform in function.
Probab=69.88 E-value=11 Score=25.76 Aligned_cols=34 Identities=26% Similarity=0.427 Sum_probs=29.2
Q ss_pred CceEEecC-CCCCHHHHHHHHHHHHHHHHHhcCch
Q 025056 76 PLLNVKSL-RGIQAGDLKILKEKLEQEASENLGMA 109 (258)
Q Consensus 76 P~i~l~~~-~gL~~~~~~~L~~~L~~~~eenlG~~ 109 (258)
|.+.|.-. .|.+.++...|.+.|.+.+.+.+|.+
T Consensus 1 P~i~i~i~~~grt~eqK~~l~~~it~~l~~~lg~~ 35 (63)
T TIGR00013 1 PFVNIYILKEGRTDEQKRQLIEGVTEAMAETLGAN 35 (63)
T ss_pred CEEEEEECCCCCCHHHHHHHHHHHHHHHHHHhCCC
Confidence 67777766 78999999999999999998888865
No 34
>PF06113 BRE: Brain and reproductive organ-expressed protein (BRE); InterPro: IPR010358 This family consists of several eukaryotic brain and reproductive organ-expressed (BRE) proteins. BRE is a putative stress-modulating gene, found able to down-regulate TNF-alpha-induced-NF-kappaB activation upon over expression. A total of six isoforms are produced by alternative splicing predominantly at either end of the gene. Compared to normal cells, immortalised human cell lines uniformly express higher levels of BRE. Peripheral blood monocytes respond to LPS by down-regulating the expression of all the BRE isoforms. It is thought that the function of BRE and its isoforms is to regulate peroxisomal activities [].
Probab=69.09 E-value=8.6 Score=36.11 Aligned_cols=63 Identities=17% Similarity=0.197 Sum_probs=41.9
Q ss_pred HHHHHHHHHHHHhcCCceeeccCCCCCCCCCCceEEEEecCCCCCCccCCCCCceEEEEEeeCCCCCCCCCceEEecCC
Q 025056 6 QEQEMEIEALEAILMDEFKEIHSGESGLNTSNQCFQVTLSPQDDEADESTMPPVELALIFSHTEKYPDEPPLLNVKSLR 84 (258)
Q Consensus 6 EeQ~eElEALeSIY~de~~~i~~~~~~~~~~~~~f~I~l~~~~~~~~~~~~~~~~l~L~f~~p~~YP~~~P~i~l~~~~ 84 (258)
..+.+=|+||-+.|+......+.. .-+..++.+. .+ ...+.+||.+|..+|.+.|.+++.+..
T Consensus 269 ~~RrefI~al~~~fg~~vLE~D~~------~~~k~s~L~~--~~--------~F~flvHi~Lp~~FP~~qP~ltlqS~y 331 (333)
T PF06113_consen 269 KKRREFIEALLSHFGRPVLEYDAE------FFRKISFLLE--SG--------DFTFLVHISLPIQFPKDQPSLTLQSVY 331 (333)
T ss_pred HHHHHHHHHHHHhcCCcceeeccc------ccchhhHHhh--cC--------CeEEEEEEeccCCCCCcCCeEEEEeec
Confidence 345566899999999883332221 1112222222 11 357999999999999999999998753
No 35
>PRK01964 4-oxalocrotonate tautomerase; Provisional
Probab=68.89 E-value=11 Score=26.00 Aligned_cols=35 Identities=20% Similarity=0.374 Sum_probs=30.2
Q ss_pred CCceEEecCCCCCHHHHHHHHHHHHHHHHHhcCch
Q 025056 75 PPLLNVKSLRGIQAGDLKILKEKLEQEASENLGMA 109 (258)
Q Consensus 75 ~P~i~l~~~~gL~~~~~~~L~~~L~~~~eenlG~~ 109 (258)
.|.+.|.-..|.+.++...|.+.|.+.+.+.+|.|
T Consensus 1 MP~v~i~l~~grt~eqk~~l~~~it~~l~~~lg~p 35 (64)
T PRK01964 1 MPIVQIQLLEGRPEEKIKNLIREVTEAISATLDVP 35 (64)
T ss_pred CCEEEEEEeCCCCHHHHHHHHHHHHHHHHHHhCcC
Confidence 48888887778899999999999999988888865
No 36
>PF01361 Tautomerase: Tautomerase enzyme; InterPro: IPR004370 4-Oxalocrotonate tautomerase (4-OT) catalyzes the isomerisation of beta,gamma-unsaturated enones to their alpha,beta-isomers. The enzyme is part of a plasmid-encoded pathway, which enables bacteria harbouring the plasmid to use various aromatic hydrocarbons as their sole sources of carbon and energy. The enzyme is a barrel-shaped hexamer, which can be viewed as a trimer of dimers. The hexamer contains a hydrophobic core formed by three beta-sheets and surrounded by three pairs of alpha-helices. Each 4-OT monomer of 62 amino acids has a relatively simple beta-alpha-beta fold as described by the structure of the enzyme from Pseudomonas putida []. The monomer begins with a conserved proline at the start of a beta-strand, followed by an alpha-helix and a 310 helix preceding a second parallel beta-strand, and ends with a beta-hairpin near the C terminus. The dimer results from antiparallel interactions between the beta-sheets and alpha-helices of the two monomers, forming a four-stranded beta-sheet with antiparallel alpha-helices on one side, creating two active sites, one at each end of the beta-sheet. Three dimers further associate to form a hexamer by the interactions of the strands of the C-terminal beta-hairpin loops with the edges of the four-stranded beta-sheets of neighbouring dimers, creating a series of cross-links that stabilise the hexamer Pro-1 of the mature protein functions as the general base while Arg-39 and an ordered water molecule each provide a hydrogen bond to the C-2 oxygen of substrate. Arg-39 plays an additional role in the binding of the C-1 carboxylate group. Arg-11 participates both in substrate binding and in catalysis. It interacts with the C-6 carboxylate group, thereby holding the substrate in place and drawing electron density to the C-5 position. The hydrophobic nature of the active site, which lowers the pKa of Pro-1 and provides a favourable environment for catalysis, is largely maintained by Phe-50. Because several Arg residues located near the active site are not conserved among all members of this family and because of the presence of fairly distantly related paralogs in Campylobacter jejuni, the family is regarded as not necessarily uniform in function.; GO: 0016853 isomerase activity, 0006725 cellular aromatic compound metabolic process; PDB: 4OTA_H 4OTC_G 4OTB_J 2FM7_A 1BJP_B 1S0Y_K 3EJ9_E 3EJ7_K 3EJ3_I 3MB2_A ....
Probab=68.73 E-value=9.3 Score=25.98 Aligned_cols=34 Identities=26% Similarity=0.436 Sum_probs=27.3
Q ss_pred CceEEecCCCCCHHHHHHHHHHHHHHHHHhcCch
Q 025056 76 PLLNVKSLRGIQAGDLKILKEKLEQEASENLGMA 109 (258)
Q Consensus 76 P~i~l~~~~gL~~~~~~~L~~~L~~~~eenlG~~ 109 (258)
|.|.|....|.+..++..|.+.|...+.+.+|.+
T Consensus 1 P~I~i~~~~g~~~e~K~~l~~~it~~~~~~lg~~ 34 (60)
T PF01361_consen 1 PFITIKIPEGRTAEQKRELAEAITDAVVEVLGIP 34 (60)
T ss_dssp -EEEEEEESTS-HHHHHHHHHHHHHHHHHHHTS-
T ss_pred CEEEEEECCCCCHHHHHHHHHHHHHHHHHHhCcC
Confidence 7788888888899999999999999988888754
No 37
>KOG0896 consensus Ubiquitin-conjugating enzyme E2 [Posttranslational modification, protein turnover, chaperones]
Probab=68.60 E-value=4.7 Score=32.96 Aligned_cols=24 Identities=25% Similarity=0.438 Sum_probs=20.1
Q ss_pred eEEEEEeeCCCCCCCCCceEEecC
Q 025056 60 ELALIFSHTEKYPDEPPLLNVKSL 83 (258)
Q Consensus 60 ~l~L~f~~p~~YP~~~P~i~l~~~ 83 (258)
--.|+|.+-++||+.||.+.+.+.
T Consensus 57 iysLKI~Cgp~YPe~PP~vrf~tk 80 (138)
T KOG0896|consen 57 IYSLKIECGPKYPELPPTVRFGTK 80 (138)
T ss_pred eeeEEEecCCCCCCCCceeEEEEE
Confidence 456889999999999999996653
No 38
>PF14461 Prok-E2_B: Prokaryotic E2 family B
Probab=67.89 E-value=7.7 Score=31.23 Aligned_cols=26 Identities=15% Similarity=0.369 Sum_probs=22.9
Q ss_pred ceEEEEEeeCCCCCCCCCceEEecCC
Q 025056 59 VELALIFSHTEKYPDEPPLLNVKSLR 84 (258)
Q Consensus 59 ~~l~L~f~~p~~YP~~~P~i~l~~~~ 84 (258)
..+.|.+.+|+.||..||.|.+....
T Consensus 36 ~~~~l~l~~p~~FP~~pp~v~l~d~~ 61 (133)
T PF14461_consen 36 GPFPLRLVFPDDFPYLPPRVYLEDPK 61 (133)
T ss_pred eEEEEEEEECCcccCcCCEEEecCcc
Confidence 57889999999999999999998654
No 39
>PF09026 CENP-B_dimeris: Centromere protein B dimerisation domain; InterPro: IPR015115 Centromere protein B (CENP-B) interacts with centromeric heterochromatin in chromosomes and binds to a specific subset of alphoid satellite DNA, called the CENP-B box. CENP-B may organise arrays of centromere satellite DNA into a higher order structure, which then directs centromere formation and kinetochore assembly in mammalian chromosomes. The CENP-B dimerisation domain is composed of two alpha-helices, which are folded into an antiparallel configuration. Dimerisation of CENP-B is mediated by this domain, in which monomers dimerise to form a symmetrical, antiparallel, four-helix bundle structure with a large hydrophobic patch in which 23 residues of one monomer form van der Waals contacts with the other monomer. This CENP-B dimer configuration may be suitable for capturing two distant CENP-B boxes during centromeric heterochromatin formation []. ; GO: 0003677 DNA binding, 0003682 chromatin binding, 0006355 regulation of transcription, DNA-dependent, 0000775 chromosome, centromeric region, 0005634 nucleus; PDB: 1UFI_A.
Probab=66.64 E-value=1.9 Score=33.31 Aligned_cols=6 Identities=50% Similarity=1.093 Sum_probs=2.5
Q ss_pred HHHHHH
Q 025056 238 MLEHYL 243 (258)
Q Consensus 238 ~~~~~~ 243 (258)
|..+||
T Consensus 55 ~v~rYl 60 (101)
T PF09026_consen 55 MVKRYL 60 (101)
T ss_dssp HHHHHH
T ss_pred hHhhhh
Confidence 334444
No 40
>PRK01271 4-oxalocrotonate tautomerase; Provisional
Probab=59.72 E-value=21 Score=26.24 Aligned_cols=34 Identities=12% Similarity=0.228 Sum_probs=29.5
Q ss_pred CCceEEecCCC-CCHHHHHHHHHHHHHHHHHhcCc
Q 025056 75 PPLLNVKSLRG-IQAGDLKILKEKLEQEASENLGM 108 (258)
Q Consensus 75 ~P~i~l~~~~g-L~~~~~~~L~~~L~~~~eenlG~ 108 (258)
.|.|.|.-..| .+.++.+.|-+.|...+.+.+|.
T Consensus 1 MP~I~I~~~~g~~s~EqK~~La~~iT~a~~~~lg~ 35 (76)
T PRK01271 1 MPHIDIKCFPRELDEEQKAALAADITDVIIRHLNS 35 (76)
T ss_pred CCEEEEEECCCCCCHHHHHHHHHHHHHHHHHHhCc
Confidence 48888888776 89999999999999998888874
No 41
>PF14812 PBP1_TM: Transmembrane domain of transglycosylase PBP1 at N-terminal; PDB: 3FWL_A 3VMA_A.
Probab=59.06 E-value=3.1 Score=31.13 Aligned_cols=14 Identities=57% Similarity=0.857 Sum_probs=0.0
Q ss_pred CCCCCCCCCCCCCH
Q 025056 222 EDIDFDDDDFEDDE 235 (258)
Q Consensus 222 ~~~~~~~~~~~~~~ 235 (258)
+|.|+.|||++|||
T Consensus 35 ~ddd~~DDD~dDde 48 (81)
T PF14812_consen 35 YDDDYEDDDDDDDE 48 (81)
T ss_dssp --------------
T ss_pred cccccccccccchh
Confidence 33344444444433
No 42
>KOG0424 consensus Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=58.51 E-value=8.5 Score=31.92 Aligned_cols=25 Identities=24% Similarity=0.424 Sum_probs=21.3
Q ss_pred CceEEEEEeeCCCCCCCCCceEEec
Q 025056 58 PVELALIFSHTEKYPDEPPLLNVKS 82 (258)
Q Consensus 58 ~~~l~L~f~~p~~YP~~~P~i~l~~ 82 (258)
.-...|.+.||.+||..||.+.+..
T Consensus 55 Gg~y~l~v~F~~dyP~~PPkckF~~ 79 (158)
T KOG0424|consen 55 GGLYKLTVNFPDDYPSSPPKCKFKP 79 (158)
T ss_pred CceEEEEEeCCccCCCCCCccccCC
Confidence 3467889999999999999998864
No 43
>PF15594 Imm30: Immunity protein 30
Probab=55.17 E-value=28 Score=27.57 Aligned_cols=46 Identities=26% Similarity=0.414 Sum_probs=29.2
Q ss_pred HHHHHHhcCCceeeccCCCCCCCCCCceEEEEecCCCCCCccCCCCCceEEEEEeeCCCCCCCCCc
Q 025056 12 IEALEAILMDEFKEIHSGESGLNTSNQCFQVTLSPQDDEADESTMPPVELALIFSHTEKYPDEPPL 77 (258)
Q Consensus 12 lEALeSIY~de~~~i~~~~~~~~~~~~~f~I~l~~~~~~~~~~~~~~~~l~L~f~~p~~YP~~~P~ 77 (258)
=++|.+||+......+. ....|.+.-.+ +.|.|+| +...+|..+|.
T Consensus 6 ~~~i~~~fg~~P~f~d~---------ei~~v~l~r~~----------~~l~i~~-~~~~~p~~~P~ 51 (124)
T PF15594_consen 6 PEKIISIFGEWPSFHDA---------EIFSVLLDRDG----------PRLSIHF-DTKEFPDNPPK 51 (124)
T ss_pred HHHHHHHhCCCCCccee---------EEEEEEEEcCC----------CEEEEEE-EECCCCCCCCc
Confidence 36899999876443322 34556665322 3677777 56688887765
No 44
>KOG0428 consensus Non-canonical ubiquitin conjugating enzyme 1 [Posttranslational modification, protein turnover, chaperones]
Probab=53.52 E-value=26 Score=31.63 Aligned_cols=21 Identities=19% Similarity=0.279 Sum_probs=17.7
Q ss_pred EEEeeCCCCCCCCCceEEecC
Q 025056 63 LIFSHTEKYPDEPPLLNVKSL 83 (258)
Q Consensus 63 L~f~~p~~YP~~~P~i~l~~~ 83 (258)
=+|.+|++||-.||.|-+..+
T Consensus 61 GRI~lPadYPmKPPs~iLLTp 81 (314)
T KOG0428|consen 61 GRIVLPADYPMKPPSIILLTP 81 (314)
T ss_pred eeEecCCCCCCCCCeEEEEcC
Confidence 367899999999999987654
No 45
>PF05764 YL1: YL1 nuclear protein; InterPro: IPR008895 The proteins in this family are designated YL1 []. They have been shown to be DNA-binding and may be transcription factors [].; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=49.61 E-value=13 Score=33.15 Aligned_cols=30 Identities=27% Similarity=0.424 Sum_probs=14.5
Q ss_pred cccccCCCccccCCCCCCCCC--CCCCCCCCC
Q 025056 202 TAVSQKGAVTVNEVSDDEDDE--DIDFDDDDF 231 (258)
Q Consensus 202 l~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~ 231 (258)
||-.+.+...-+.++..+++. |.|||+++.
T Consensus 34 ~f~Eee~D~ef~~~~~eed~~~~Dsdf~~se~ 65 (240)
T PF05764_consen 34 LFQEEEDDEEFESEEEEEDEEEDDSDFDDSED 65 (240)
T ss_pred cccccCCCccccCCCccccccccccccCcccc
Confidence 455555555444333333333 666665543
No 46
>KOG0895 consensus Ubiquitin-conjugating enzyme [Posttranslational modification, protein turnover, chaperones]
Probab=48.27 E-value=16 Score=39.22 Aligned_cols=27 Identities=26% Similarity=0.444 Sum_probs=22.9
Q ss_pred CCceEEEEEeeCCCCCCCCCceEEecC
Q 025056 57 PPVELALIFSHTEKYPDEPPLLNVKSL 83 (258)
Q Consensus 57 ~~~~l~L~f~~p~~YP~~~P~i~l~~~ 83 (258)
...-+.+.|.||++||.+||.+...+.
T Consensus 896 ~~~~f~fd~~~~~~yp~~pp~~~~~s~ 922 (1101)
T KOG0895|consen 896 QDGLFFFDFQFPQDYPSSPPLVHYHSG 922 (1101)
T ss_pred ccceEEEEeecCCCCCCCCCceEeecC
Confidence 345678899999999999999998764
No 47
>KOG0894 consensus Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=46.12 E-value=19 Score=31.82 Aligned_cols=25 Identities=20% Similarity=0.382 Sum_probs=19.5
Q ss_pred EEEEEeeCCCCCCCCCceEEecCCC
Q 025056 61 LALIFSHTEKYPDEPPLLNVKSLRG 85 (258)
Q Consensus 61 l~L~f~~p~~YP~~~P~i~l~~~~g 85 (258)
-.=.+.||+.||-.||.|....+.|
T Consensus 54 YhGkl~FP~eyP~KPPaI~MiTPNG 78 (244)
T KOG0894|consen 54 YHGKLIFPPEYPFKPPAITMITPNG 78 (244)
T ss_pred eeeEEeCCCCCCCCCCeeEEECCCC
Confidence 3346689999999999999776543
No 48
>PF10446 DUF2457: Protein of unknown function (DUF2457); InterPro: IPR018853 This entry represents a family of uncharacterised proteins.
Probab=45.73 E-value=9.1 Score=37.22 Aligned_cols=13 Identities=15% Similarity=0.143 Sum_probs=7.7
Q ss_pred CCCCcccHHHHHH
Q 025056 148 PHGEPVTVETFLA 160 (258)
Q Consensus 148 ~~gt~vT~E~F~~ 160 (258)
.+++.+|+.-.+.
T Consensus 21 ~~~~KlTi~Dtlk 33 (458)
T PF10446_consen 21 DYKRKLTINDTLK 33 (458)
T ss_pred cccccccHHHHHH
Confidence 3566677765543
No 49
>KOG0426 consensus Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=45.59 E-value=17 Score=29.73 Aligned_cols=22 Identities=23% Similarity=0.436 Sum_probs=18.2
Q ss_pred EEEEEeeCCCCCCCCCceEEec
Q 025056 61 LALIFSHTEKYPDEPPLLNVKS 82 (258)
Q Consensus 61 l~L~f~~p~~YP~~~P~i~l~~ 82 (258)
+--++.||.+||-.||.+.+.+
T Consensus 54 fpA~l~FP~DYPLsPPkm~Ftc 75 (165)
T KOG0426|consen 54 FPARLSFPLDYPLSPPKMRFTC 75 (165)
T ss_pred cceeeecCCCCCCCCCceeeec
Confidence 4456789999999999998876
No 50
>COG1942 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]
Probab=45.41 E-value=50 Score=23.83 Aligned_cols=34 Identities=24% Similarity=0.430 Sum_probs=28.1
Q ss_pred CCceEEecCCC-CCHHHHHHHHHHHHHHHHHhcCc
Q 025056 75 PPLLNVKSLRG-IQAGDLKILKEKLEQEASENLGM 108 (258)
Q Consensus 75 ~P~i~l~~~~g-L~~~~~~~L~~~L~~~~eenlG~ 108 (258)
.|.+.|...+| ++..+...|-+.|.+...+.+|.
T Consensus 1 MP~v~Ik~~~g~~~~~~K~~la~~vT~~~~~~lg~ 35 (69)
T COG1942 1 MPFVNIKLFEGRLDEEQKAELAAEVTEVTVETLGK 35 (69)
T ss_pred CCEEEEEecCCCCCHHHHHHHHHHHHHHHHHHhCC
Confidence 48888888865 77778999999999988888874
No 51
>PF14462 Prok-E2_E: Prokaryotic E2 family E
Probab=44.77 E-value=21 Score=28.81 Aligned_cols=21 Identities=24% Similarity=0.368 Sum_probs=17.1
Q ss_pred CCceEEEEEeeCCCCCCCCCc
Q 025056 57 PPVELALIFSHTEKYPDEPPL 77 (258)
Q Consensus 57 ~~~~l~L~f~~p~~YP~~~P~ 77 (258)
....+.|-|.+|++||.++|.
T Consensus 40 ~~~~~dili~iP~gYP~~~~D 60 (122)
T PF14462_consen 40 NHNEVDILILIPPGYPDAPLD 60 (122)
T ss_pred CccceEEEEECCCCCCCCCCC
Confidence 345788999999999998653
No 52
>KOG1832 consensus HIV-1 Vpr-binding protein [Cell cycle control, cell division, chromosome partitioning]
Probab=42.02 E-value=12 Score=39.62 Aligned_cols=8 Identities=38% Similarity=0.754 Sum_probs=3.6
Q ss_pred hhhhcCCc
Q 025056 194 QWFESGRA 201 (258)
Q Consensus 194 qlFe~~~~ 201 (258)
.|+|-|+.
T Consensus 1393 r~yEIGR~ 1400 (1516)
T KOG1832|consen 1393 RMYEIGRR 1400 (1516)
T ss_pred hhhhhccc
Confidence 34444444
No 53
>PF09606 Med15: ARC105 or Med15 subunit of Mediator complex non-fungal; InterPro: IPR019087 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. The proteins in this entry represent subunit Med15 of the Mediator complex. They contain a single copy of the approximately 70 residue ARC105 domain. The ARC105 domain of the ARC-Mediator co-activator is a three-helix bundle with marked similarity to the KIX domain. The sterol regulatory element binding protein (SREBP) family of transcription activators use the ARC105 subunit to activate target genes in the regulation of cholesterol and fatty acid homeostasis. In addition, ARC105 is a critical transducer of gene activation signals that control early metazoan development []. ; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex; PDB: 2GUT_A.
Probab=41.03 E-value=9 Score=40.10 Aligned_cols=57 Identities=14% Similarity=0.193 Sum_probs=0.0
Q ss_pred EEEeeCCCCCCCCCceEEecCC-CCCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHH
Q 025056 63 LIFSHTEKYPDEPPLLNVKSLR-GIQAGDLKILKEKLEQEASENLGMAMIYTLVTSAKEWLS 123 (258)
Q Consensus 63 L~f~~p~~YP~~~P~i~l~~~~-gL~~~~~~~L~~~L~~~~eenlG~~mIF~lve~lkE~L~ 123 (258)
|.++.|.+||..+|.+.+.... .++. .+..|...|.. ..+-+|=.|+|...|--|-.
T Consensus 718 l~l~vP~~YP~~sp~~~~~~~~y~~~~-Fl~~v~~~~~~---Rl~~lP~~~svt~lL~tWe~ 775 (799)
T PF09606_consen 718 LRLTVPADYPRQSPQCSVDRDEYDATP-FLQDVQNALTS---RLAKLPDKHSVTQLLNTWEM 775 (799)
T ss_dssp --------------------------------------------------------------
T ss_pred eeEeCCCCCCccCCcCcccHHHhccCh-HHHHHHHHHHH---HHHhCCCceeHHHHHHHHHH
Confidence 5667899999999998874321 1111 22223333322 23345667777666666643
No 54
>KOG3357 consensus Uncharacterized conserved protein [Function unknown]
Probab=39.08 E-value=22 Score=29.06 Aligned_cols=28 Identities=25% Similarity=0.478 Sum_probs=22.8
Q ss_pred CceEEEEEeeCCCCCCCCCceEEecCCC
Q 025056 58 PVELALIFSHTEKYPDEPPLLNVKSLRG 85 (258)
Q Consensus 58 ~~~l~L~f~~p~~YP~~~P~i~l~~~~g 85 (258)
...+.+.|.+|-+||.++|.|.+-...|
T Consensus 77 kyefdvefdipityp~tapeialpeldg 104 (167)
T KOG3357|consen 77 KYEFDVEFDIPITYPTTAPEIALPELDG 104 (167)
T ss_pred hheeeeeeccccccCCCCccccccccCc
Confidence 3568889999999999999998865444
No 55
>PF04871 Uso1_p115_C: Uso1 / p115 like vesicle tethering protein, C terminal region; InterPro: IPR006955 This domain identifies a group of proteins, which are described as: General vesicular transport factor, Transcytosis associate protein (TAP) and Vesicle docking protein. This myosin-shaped molecule consists of an N-terminal globular head region, a coiled-coil tail which mediates dimerisation, and a short C-terminal acidic region []. p115 tethers COP1 vesicles to the Golgi by binding the coiled coil proteins giantin (on the vesicles) and GM130 (on the Golgi), via its C-terminal acidic region. It is required for intercisternal transport in the Golgi stack. This domain is found in the acidic C-terminal region, which binds to the golgins giantin and GM130. p115 is thought to juxtapose two membranes by binding giantin with one acidic region, and GM130 with another [].; GO: 0008565 protein transporter activity, 0006886 intracellular protein transport, 0005737 cytoplasm, 0016020 membrane
Probab=30.57 E-value=27 Score=28.47 Aligned_cols=10 Identities=10% Similarity=0.258 Sum_probs=4.6
Q ss_pred CCccccCCCC
Q 025056 208 GAVTVNEVSD 217 (258)
Q Consensus 208 ~~~~~~~~~~ 217 (258)
|..|..++.+
T Consensus 111 G~eVSddE~~ 120 (136)
T PF04871_consen 111 GEEVSDDEDS 120 (136)
T ss_pred CCCccCCccc
Confidence 5555444433
No 56
>KOG3403 consensus Translation initiation factor 1A (eIF-1A) [Translation, ribosomal structure and biogenesis]
Probab=29.87 E-value=32 Score=27.87 Aligned_cols=14 Identities=64% Similarity=1.040 Sum_probs=8.2
Q ss_pred CCCCCCCCCCCCCC
Q 025056 220 DDEDIDFDDDDFED 233 (258)
Q Consensus 220 ~~~~~~~~~~~~~~ 233 (258)
+++|++|++..+++
T Consensus 126 ~d~~~~~~~~~~~~ 139 (145)
T KOG3403|consen 126 DDDDIDFDDIEDDD 139 (145)
T ss_pred Cccccccccccccc
Confidence 55677776654433
No 57
>KOG0943 consensus Predicted ubiquitin-protein ligase/hyperplastic discs protein, HECT superfamily [Posttranslational modification, protein turnover, chaperones]
Probab=27.28 E-value=33 Score=37.95 Aligned_cols=20 Identities=5% Similarity=0.129 Sum_probs=11.1
Q ss_pred hhhhhhcCCccccccCCCcc
Q 025056 192 GRQWFESGRATAVSQKGAVT 211 (258)
Q Consensus 192 GRqlFe~~~~l~~~~~~~~~ 211 (258)
-|.|..-+.+-+++.++...
T Consensus 1704 rrrllsgnttndtnaDnEEr 1723 (3015)
T KOG0943|consen 1704 RRRLLSGNTTNDTNADNEER 1723 (3015)
T ss_pred hhhhccCCccCccccchhhh
Confidence 45566666666666554433
No 58
>KOG0897 consensus Predicted ubiquitin-conjugating enzyme [Posttranslational modification, protein turnover, chaperones]
Probab=26.70 E-value=63 Score=25.82 Aligned_cols=24 Identities=21% Similarity=0.380 Sum_probs=20.7
Q ss_pred eEEEEEeeCCCCCCCCCceEEecC
Q 025056 60 ELALIFSHTEKYPDEPPLLNVKSL 83 (258)
Q Consensus 60 ~l~L~f~~p~~YP~~~P~i~l~~~ 83 (258)
.+.|.+.++.+||..||...+..+
T Consensus 12 ~ill~~~f~~~fp~~ppf~rvv~p 35 (122)
T KOG0897|consen 12 NILLLDIFDDNFPFMPPFPRVVKP 35 (122)
T ss_pred eeEeeeecccCCCCCCCcceeeee
Confidence 577889999999999999888764
No 59
>PF06524 NOA36: NOA36 protein; InterPro: IPR010531 This family consists of several NOA36 proteins which contain 29 highly conserved cysteine residues. The function of this protein is unknown.; GO: 0008270 zinc ion binding, 0005634 nucleus
Probab=26.45 E-value=46 Score=30.45 Aligned_cols=17 Identities=18% Similarity=0.595 Sum_probs=11.0
Q ss_pred cCchHHHHHHHHHHHHH
Q 025056 106 LGMAMIYTLVTSAKEWL 122 (258)
Q Consensus 106 lG~~mIF~lve~lkE~L 122 (258)
.|+.||=.|..+..-|+
T Consensus 91 tGl~mvGaiCDfCEawv 107 (314)
T PF06524_consen 91 TGLGMVGAICDFCEAWV 107 (314)
T ss_pred cccchhhhhhccchhhe
Confidence 36666666666666665
No 60
>PRK04217 hypothetical protein; Provisional
Probab=25.03 E-value=3e+02 Score=21.62 Aligned_cols=58 Identities=17% Similarity=0.257 Sum_probs=34.1
Q ss_pred CCCCCCceEEecCCCCCHHHHHHHHHH------HHHHHHHh-cCchHHHHHHHHHHHHHHHHhhc
Q 025056 71 YPDEPPLLNVKSLRGIQAGDLKILKEK------LEQEASEN-LGMAMIYTLVTSAKEWLSERYSQ 128 (258)
Q Consensus 71 YP~~~P~i~l~~~~gL~~~~~~~L~~~------L~~~~een-lG~~mIF~lve~lkE~L~e~~~~ 128 (258)
||.-+|...=..+..|+..+...+... +.++|+.. +...-|+..+..++..|.+.+..
T Consensus 28 ~~~~~~~~~~~p~~~Lt~eereai~l~~~eGlS~~EIAk~LGIS~sTV~r~L~RArkkLre~L~~ 92 (110)
T PRK04217 28 YPAIPPVGPPKPPIFMTYEEFEALRLVDYEGLTQEEAGKRMGVSRGTVWRALTSARKKVAQMLVE 92 (110)
T ss_pred eCCCCCccCCCCcccCCHHHHHHHHHHHHcCCCHHHHHHHHCcCHHHHHHHHHHHHHHHHHHHHh
Confidence 566555444344566787776554332 23333332 34455888888888888777654
No 61
>PF04889 Cwf_Cwc_15: Cwf15/Cwc15 cell cycle control protein; InterPro: IPR006973 This family represents Cwf15/Cwc15 (from Schizosaccharomyces pombe and Saccharomyces cerevisiae respectively) and their homologues. The function of these proteins is unknown, but they form part of the spliceosome and are thus thought to be involved in mRNA splicing [].; GO: 0000398 nuclear mRNA splicing, via spliceosome, 0005681 spliceosomal complex
Probab=24.60 E-value=57 Score=29.30 Aligned_cols=15 Identities=47% Similarity=0.665 Sum_probs=7.7
Q ss_pred CCCCCCCHHHHHHHH
Q 025056 228 DDDFEDDEVDMLEHY 242 (258)
Q Consensus 228 ~~~~~~~~~~~~~~~ 242 (258)
++|.+||++.||..+
T Consensus 141 ~~ddeDd~~~Ll~EL 155 (244)
T PF04889_consen 141 DDDDEDDTAALLREL 155 (244)
T ss_pred ccccchHHHHHHHHH
Confidence 334455555666554
No 62
>PTZ00397 macrophage migration inhibition factor-like protein; Provisional
Probab=23.08 E-value=1.1e+02 Score=23.53 Aligned_cols=38 Identities=16% Similarity=0.224 Sum_probs=30.0
Q ss_pred CCceEEecCCCCCHHHHHHHHHHHHHHHHHhcCchHHH
Q 025056 75 PPLLNVKSLRGIQAGDLKILKEKLEQEASENLGMAMIY 112 (258)
Q Consensus 75 ~P~i~l~~~~gL~~~~~~~L~~~L~~~~eenlG~~mIF 112 (258)
.|.|.|....+++..+...|.+.+.+.+.+.+|-|==|
T Consensus 1 MP~~~i~tn~~~~~~~~~~~~~~~~~~l~~~lgkPe~~ 38 (116)
T PTZ00397 1 MPCCQVSTNVNATDDQADAALSDIENAIADVLGKPLSY 38 (116)
T ss_pred CCeEEEEecCCCccccHHHHHHHHHHHHHHHhCCChHH
Confidence 48888887777888888899999998888888865433
No 63
>smart00187 INB Integrin beta subunits (N-terminal portion of extracellular region). Portion of beta integrins that lies N-terminal to their EGF-like repeats. Integrins are cell adhesion molecules that mediate cell-extracellular matrix and cell-cell interactions. They contain both alpha and beta subunits. Beta integrins are proposed to have a von Willebrand factor type-A "insert" or "I" -like domain (although this remains to be confirmed).
Probab=21.05 E-value=4.5e+02 Score=25.66 Aligned_cols=57 Identities=28% Similarity=0.377 Sum_probs=37.8
Q ss_pred CceEEEEecCCCCCCccCCCCCceEEEEEeeCCCCCCCCCceEEecCCCCCHHHHHHHHHHHHHHHHH
Q 025056 37 NQCFQVTLSPQDDEADESTMPPVELALIFSHTEKYPDEPPLLNVKSLRGIQAGDLKILKEKLEQEASE 104 (258)
Q Consensus 37 ~~~f~I~l~~~~~~~~~~~~~~~~l~L~f~~p~~YP~~~P~i~l~~~~gL~~~~~~~L~~~L~~~~ee 104 (258)
|..+.++|.|.. +..+.|.|.-+.+||=. ++.|-...+--..++..|+......+++
T Consensus 73 PQ~v~l~LRpG~---------~~~f~~~~~~a~~yPvD--LYyLMDlS~SM~ddl~~lk~lg~~L~~~ 129 (423)
T smart00187 73 PQRVRLKLRPGE---------PQNFTLTVRQAEDYPVD--LYYLMDLSYSMKDDLDNLKSLGDDLARE 129 (423)
T ss_pred cceEEEEeccCC---------cEEEEEEEEecccCccc--eEEEEeCCccHHHHHHHHHHHHHHHHHH
Confidence 567788887753 47899999989999953 3455554554456666666655554443
No 64
>PF14552 Tautomerase_2: Tautomerase enzyme; PDB: 2AAG_C 2AAL_A 2AAJ_A 1MWW_C.
Probab=20.25 E-value=2.3e+02 Score=20.88 Aligned_cols=44 Identities=23% Similarity=0.325 Sum_probs=25.6
Q ss_pred EeeCCCCCCC--CC---ceEEecCCCCCHHHHHHHHHHHHHHHHHhcCc
Q 025056 65 FSHTEKYPDE--PP---LLNVKSLRGIQAGDLKILKEKLEQEASENLGM 108 (258)
Q Consensus 65 f~~p~~YP~~--~P---~i~l~~~~gL~~~~~~~L~~~L~~~~eenlG~ 108 (258)
|.+|+.|... .+ .|.|....|=+.+++..|-+.|.+...+++|.
T Consensus 14 ~~~~~~ylg~~Rs~~~v~I~It~~~gRs~e~K~~ly~~l~~~L~~~~gi 62 (82)
T PF14552_consen 14 FIYDPTYLGIDRSDDFVIIQITSGAGRSTEQKKALYRALAERLAEKLGI 62 (82)
T ss_dssp EEE-TTTS--TS-TT-EEEEEEECS---HHHHHHHHHHHHHHHHHHH--
T ss_pred EEECCccCCCCCCCCEEEEEEEECCCCCHHHHHHHHHHHHHHHHHHcCC
Confidence 5677777542 22 34455556778889999999888887777763
Done!