Query psy10054
Match_columns 910
No_of_seqs 346 out of 627
Neff 4.3
Searched_HMMs 46136
Date Fri Aug 16 16:43:43 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy10054.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/10054hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF12230 PRP21_like_P: Pre-mRN 100.0 2.4E-48 5.2E-53 402.9 5.2 209 200-501 1-229 (229)
2 PF12230 PRP21_like_P: Pre-mRN 100.0 8.1E-30 1.8E-34 264.8 -0.1 152 644-827 73-225 (229)
3 PF01805 Surp: Surp module; I 99.7 4E-17 8.7E-22 136.0 5.6 54 30-83 1-55 (55)
4 smart00648 SWAP Suppressor-of- 99.7 1.2E-16 2.7E-21 132.5 5.9 52 32-83 2-53 (54)
5 smart00648 SWAP Suppressor-of- 99.6 2.7E-15 5.8E-20 124.5 5.7 54 142-195 1-54 (54)
6 PF01805 Surp: Surp module; I 99.5 7.9E-15 1.7E-19 122.2 6.2 54 141-194 1-55 (55)
7 KOG0007|consensus 99.5 2.9E-14 6.4E-19 157.2 5.9 132 446-622 45-179 (341)
8 KOG1847|consensus 99.2 4E-11 8.6E-16 137.6 8.4 78 10-87 167-245 (878)
9 KOG0151|consensus 98.5 7.2E-08 1.6E-12 112.7 5.8 66 23-88 312-379 (877)
10 KOG0007|consensus 98.4 3.2E-07 6.9E-12 101.9 4.9 148 734-881 3-168 (341)
11 KOG1847|consensus 97.9 4.7E-06 1E-10 97.0 2.3 52 138-189 185-236 (878)
12 cd01800 SF3a120_C Ubiquitin-li 97.0 0.00044 9.6E-09 61.1 2.4 36 839-874 41-76 (76)
13 cd01806 Nedd8 Nebb8-like ubiq 95.3 0.011 2.3E-07 51.2 2.1 32 840-871 45-76 (76)
14 cd01802 AN1_N ubiquitin-like d 95.0 0.014 3E-07 55.2 2.2 33 839-871 71-103 (103)
15 PTZ00044 ubiquitin; Provisiona 93.5 0.047 1E-06 47.7 2.2 33 839-871 44-76 (76)
16 KOG0151|consensus 92.2 0.12 2.6E-06 62.3 3.9 52 141-192 320-372 (877)
17 cd01803 Ubiquitin Ubiquitin. U 92.1 0.097 2.1E-06 45.2 2.2 32 840-871 45-76 (76)
18 cd01797 NIRF_N amino-terminal 90.5 0.15 3.2E-06 45.9 1.7 29 839-867 46-74 (78)
19 PF00240 ubiquitin: Ubiquitin 86.3 0.47 1E-05 40.5 2.1 31 839-869 39-69 (69)
20 cd01793 Fubi Fubi ubiquitin-li 84.0 0.72 1.6E-05 40.5 2.2 33 839-871 42-74 (74)
21 smart00734 ZnF_Rad18 Rad18-lik 79.8 1.3 2.7E-05 32.6 1.8 23 769-791 1-23 (26)
22 cd01792 ISG15_repeat1 ISG15 ub 79.7 0.98 2.1E-05 40.4 1.5 29 839-867 48-76 (80)
23 PF09866 DUF2093: Uncharacteri 77.4 1.3 2.8E-05 36.3 1.4 19 767-785 5-23 (42)
24 cd01805 RAD23_N Ubiquitin-like 75.3 1.9 4.1E-05 37.7 1.9 30 840-869 47-76 (77)
25 cd01810 ISG15_repeat2 ISG15 ub 74.1 2.2 4.8E-05 37.4 2.1 33 839-871 42-74 (74)
26 cd01763 Sumo Small ubiquitin-r 73.1 2.4 5.3E-05 38.7 2.2 33 839-871 55-87 (87)
27 PF13913 zf-C2HC_2: zinc-finge 71.5 2.7 5.9E-05 30.5 1.7 22 769-790 2-23 (25)
28 cd01809 Scythe_N Ubiquitin-lik 70.5 2.6 5.7E-05 36.0 1.7 28 839-866 44-71 (72)
29 cd01798 parkin_N amino-termina 61.6 5 0.00011 34.7 1.7 28 839-866 42-69 (70)
30 cd01815 BMSC_UbP_N Ubiquitin-l 59.8 4.6 0.0001 36.8 1.2 29 839-867 47-75 (75)
31 PF08209 Sgf11: Sgf11 (transcr 52.7 11 0.00024 29.5 2.1 22 767-788 2-23 (33)
32 cd01804 midnolin_N Ubiquitin-l 52.5 8.1 0.00018 34.6 1.5 31 840-871 46-76 (78)
33 KOG1924|consensus 49.9 61 0.0013 40.9 8.6 15 832-846 695-709 (1102)
34 cd01807 GDX_N ubiquitin-like d 48.4 11 0.00024 33.0 1.7 29 839-867 44-72 (74)
35 cd01808 hPLIC_N Ubiquitin-like 48.1 11 0.00025 32.7 1.7 29 839-867 43-71 (71)
36 TIGR00599 rad18 DNA repair pro 48.0 13 0.00028 43.5 2.6 30 766-795 178-207 (397)
37 KOG0003|consensus 47.5 4.6 0.0001 39.3 -0.9 33 839-871 44-76 (128)
38 cd01791 Ubl5 UBL5 ubiquitin-li 42.7 12 0.00026 33.5 1.0 26 840-865 46-71 (73)
39 KOG0001|consensus 40.2 22 0.00047 29.0 2.1 33 838-870 42-74 (75)
40 cd01769 UBL Ubiquitin-like dom 39.5 16 0.00036 30.3 1.4 28 839-866 41-68 (69)
41 cd01794 DC_UbP_C dendritic cel 39.1 19 0.0004 31.9 1.7 28 839-866 42-69 (70)
42 COG3908 Uncharacterized protei 39.1 17 0.00038 32.9 1.5 19 767-785 28-46 (77)
43 KOG0004|consensus 35.4 30 0.00064 35.8 2.6 42 836-877 41-82 (156)
44 cd01789 Alp11_N Ubiquitin-like 34.8 26 0.00056 32.0 2.0 21 845-865 59-79 (84)
45 smart00250 PLEC Plectin repeat 33.9 33 0.00073 26.9 2.2 27 767-796 10-36 (38)
46 KOG0965|consensus 33.6 10 0.00022 47.1 -1.1 58 27-84 529-587 (988)
47 PF05605 zf-Di19: Drought indu 33.2 30 0.00064 29.0 1.9 22 769-790 2-23 (54)
48 PF14205 Cys_rich_KTR: Cystein 32.3 25 0.00054 30.6 1.3 12 767-778 2-13 (55)
49 PF00681 Plectin: Plectin repe 29.7 33 0.00072 27.9 1.6 28 769-799 12-39 (45)
50 PF06936 Selenoprotein_S: Sele 28.6 1E+02 0.0023 32.8 5.4 26 137-162 17-43 (190)
51 cd01799 Hoil1_N Ubiquitin-like 27.3 32 0.0007 30.9 1.2 21 846-866 53-74 (75)
52 PF05605 zf-Di19: Drought indu 27.1 40 0.00087 28.2 1.7 22 768-790 30-51 (54)
53 TIGR00601 rad23 UV excision re 26.8 33 0.00071 39.9 1.5 30 839-868 47-76 (378)
54 PF09889 DUF2116: Uncharacteri 25.4 34 0.00073 30.1 1.0 13 771-783 5-17 (59)
55 cd01814 NTGP5 Ubiquitin-like N 24.7 48 0.001 32.7 1.9 37 839-875 56-98 (113)
56 PF09237 GAGA: GAGA factor; I 22.8 90 0.0019 27.2 2.9 26 766-791 21-47 (54)
57 KOG0010|consensus 20.4 54 0.0012 39.3 1.6 49 837-885 56-106 (493)
No 1
>PF12230 PRP21_like_P: Pre-mRNA splicing factor PRP21 like protein; InterPro: IPR022030 This domain family is found in eukaryotes, and is typically between 212 and 238 amino acids in length. The family is found in association with PF01805 from PFAM. There are two completely conserved residues (W and H) that may be functionally important. PRP21 is required for assembly of the prespliceosome and it interacts with U2 snRNP and/or pre-mRNA in the prespliceosome. This family also contains proteins similar to PRP21, such as the mammalian SF3a. SF3a also interacts with U2 snRNP from the prespliceosome, converting it to its active form. ; PDB: 4DGW_B.
Probab=100.00 E-value=2.4e-48 Score=402.91 Aligned_cols=209 Identities=44% Similarity=0.766 Sum_probs=46.6
Q ss_pred ChhHHHHhhhh-cccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHhhccCcceEEEEEEEcCCCCCCCCCCCCC
Q psy10054 200 PKDMMFRLKDE-SSSMAAILDEVKYRADYIRYQEAQRKQEEARVEKDRVAYAQIDWHDFVVVETVDYMPGEPGNFPPPTT 278 (910)
Q Consensus 200 ~k~li~kLk~~-~~~k~~ILer~~~RaEw~k~qe~~kkKeeee~E~Eri~fA~IDWhDFvVVETIdF~ddE~~eLPpP~t 278 (910)
+++++++|+++ ..+++.||+||++|++|.+|++.++++++++.++||++||+|||||||||+||+|+++|..+||||+|
T Consensus 1 ~k~~~~~L~~~~~~~k~~iL~r~~~Raew~k~~~~~k~k~e~~~e~eri~fa~IDWhDFvVVeTIdF~~~d~~~LP~P~~ 80 (229)
T PF12230_consen 1 PKNILEKLKKDSSDNKQEILERCKQRAEWEKYQEEEKKKEEEEEEKERIAFASIDWHDFVVVETIDFDEDDVAELPPPLT 80 (229)
T ss_dssp ---------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTS-TT------B----------------
T ss_pred CccccccccccccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchhccccCCcceEEEEEEEeCchhhhhCCCCCC
Confidence 46789999999 78999999999999999999999999999999999999999999999999999999877899999999
Q ss_pred hhHHHHHhHHHHHhhcCcccchhhHHHHhhhcCCCCCCccccCCCcchhhhhhhhhccccccCCCCcccccccccccccC
Q psy10054 279 PDEVGARVLMQERMDNGEEDLEEDEEMEEEYGQRRPEDDDMQIGSDEENDYYNARMRGRNANRGRGRMQEEINEDDMQEG 358 (910)
Q Consensus 279 l~eL~~rsL~q~r~~~~~~~~~~~e~~e~~~~~~~~e~~em~~~~deee~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 358 (910)
|++|++|+|++++++....... . .......|....+.++
T Consensus 81 ~~~l~~~~l~~~~~~~~~~~~~--------~--~~~~~~~~~~~~~~~~------------------------------- 119 (229)
T PF12230_consen 81 FEELGARSLEQKRMEIMEEEEA--------E--EEEQEEEEEEEEDEEE------------------------------- 119 (229)
T ss_dssp -TTTSS--------------------------------------------------------------------------
T ss_pred HHHHHHhcccccchhhcCcccc--------c--ccccccccccCCcccc-------------------------------
Confidence 9999999999988665322100 0 0000000000000000
Q ss_pred CCccccccchhHHHhhhhhcccccccccccccCCcccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCceEE
Q psy10054 359 TTSEEESDNENEEARKSKEAKDNTQVQDMEEDSSSEEEQEDIPPPPPPPSLKKVEPAPPLPSQPSIQPPPLPPAPDKVVV 438 (910)
Q Consensus 359 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~m~~~~~~eee~~~i~~~~~~~~~~~~~~~p~~~~q~~~~~~~~~~~~~~~~I 438 (910)
.++++...... .. ... + ++.+++.++|+|
T Consensus 120 --------------------------~~~ee~~~~~~---------------------~~-~~~--~-~~~~~~~~~~ki 148 (229)
T PF12230_consen 120 --------------------------EDMEESSEPSE---------------------PK-ERQ--M-KPPPAGESRMKI 148 (229)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred --------------------------cccccccccCC---------------------cc-ccC--C-CCCCCCCCCcee
Confidence 00000000000 00 000 0 112345568999
Q ss_pred ccCCCCCC-------------------CccChhHHHHhhhhhcCCchhHHHHHHHHHHhhhhccccCCchhHHHHHHHHH
Q psy10054 439 KKGYDPKQ-------------------EKIPASKVQEHMRIGLLDPRWVEQRDKHLNEKINQETVYAPGQAIEASLKQLA 499 (910)
Q Consensus 439 r~dY~Pk~-------------------q~IP~~Em~EHMRIeLLDPkWKEQKdk~~~ek~~qEs~~A~g~dIa~NLk~LA 499 (910)
++||+|++ |+||+++|+|||||+||||||||||+++++++ ..+++|++|+||++|||+||
T Consensus 149 ~kdY~p~~~~~~~~~~~~~~~~cPitGe~IP~~e~~eHmRi~LlDP~wkEqr~~~~~k~-~~~~t~~~~~dI~~NLk~lA 227 (229)
T PF12230_consen 149 RKDYDPKAKKKKASKPKEKMIICPITGEMIPADEMDEHMRIELLDPRWKEQRDRYEAKR-KQEETNAPGDDIAENLKRLA 227 (229)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred cCccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-cccccccccccccccccccc
Confidence 99999984 99999999999999999999999999998644 45559999999999999999
Q ss_pred Hh
Q psy10054 500 ER 501 (910)
Q Consensus 500 ~~ 501 (910)
++
T Consensus 228 ~k 229 (229)
T PF12230_consen 228 SK 229 (229)
T ss_dssp --
T ss_pred CC
Confidence 85
No 2
>PF12230 PRP21_like_P: Pre-mRNA splicing factor PRP21 like protein; InterPro: IPR022030 This domain family is found in eukaryotes, and is typically between 212 and 238 amino acids in length. The family is found in association with PF01805 from PFAM. There are two completely conserved residues (W and H) that may be functionally important. PRP21 is required for assembly of the prespliceosome and it interacts with U2 snRNP and/or pre-mRNA in the prespliceosome. This family also contains proteins similar to PRP21, such as the mammalian SF3a. SF3a also interacts with U2 snRNP from the prespliceosome, converting it to its active form. ; PDB: 4DGW_B.
Probab=99.95 E-value=8.1e-30 Score=264.81 Aligned_cols=152 Identities=43% Similarity=0.694 Sum_probs=5.0
Q ss_pred CCCCCCCChhhhhhhhHHHHHhhhcccchhhhHHHHhhhcCCCCCCccccc-cccccCCchhhccCCCCCCCCCCCCCCC
Q psy10054 644 GNFPPPTTPDEVGARVLMQERMDNGEEDLEEDEEMEEEYGQRRPEDDDMQI-DMEEDSSSEEEQEDIPPPPPPPSLKKVE 722 (910)
Q Consensus 644 g~lPPP~Tp~evgar~L~QeR~e~~~e~~e~~~e~e~~~~~~~~~~~~~q~-dmde~~~~~ee~~~~~~p~~~~~~~~~~ 722 (910)
++||||+|+++|++|+|.|+|++.+.+.....+...... ...+++++ +++++.....
T Consensus 73 ~~LP~P~~~~~l~~~~l~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~ee~~~~~~------------------ 130 (229)
T PF12230_consen 73 AELPPPLTFEELGARSLEQKRMEIMEEEEAEEEEQEEEE----EEEEDEEEEDMEESSEPSE------------------ 130 (229)
T ss_dssp ---------TTTSS------------------------------------------------------------------
T ss_pred hhCCCCCCHHHHHHhcccccchhhcCccccccccccccc----ccCCcccccccccccccCC------------------
Confidence 599999999999999999999987553221111000000 00011111 1111100000
Q ss_pred CCCCCCCCCCCCCCCCCCCCCceeEecCCCCCCCCCCCCCCCCCCceeecCCCCCccChhhHHHHhHhhcCCchhHHHHH
Q psy10054 723 PAPPLPSQPSIQPPPLPPAPDKVVVKKGYDPKQARPPVVKPSPTDEFLISPITGEKIPASKVQEHMRIGLLDPRWVEQRD 802 (910)
Q Consensus 723 ~~p~~~~~~~~~~~plpp~~~~v~IrkdY~Pk~~~~~~~~~~~~~~~~~~PitGe~Ip~~e~~eHmRi~LLDP~wkEqr~ 802 (910)
+... ..++.++..++|+||+||+|++.+... ..++..|++||||||+||+++|+|||||+||||+|||||+
T Consensus 131 -----~~~~--~~~~~~~~~~~~ki~kdY~p~~~~~~~--~~~~~~~~~cPitGe~IP~~e~~eHmRi~LlDP~wkEqr~ 201 (229)
T PF12230_consen 131 -----PKER--QMKPPPAGESRMKIRKDYDPKAKKKKA--SKPKEKMIICPITGEMIPADEMDEHMRIELLDPRWKEQRD 201 (229)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred -----cccc--CCCCCCCCCCCceecCccccccccccc--cccccccccccccccccccccccccccccccccccccccc
Confidence 0000 112223456789999999999875322 2356789999999999999999999999999999999999
Q ss_pred HHHHHhhhhccccCCccCCChhhHH
Q psy10054 803 KHLNEKINQETVYAPEFLLDPRWVE 827 (910)
Q Consensus 803 ~~~~ek~~~e~~~A~~~~i~~~~~~ 827 (910)
+++++++ ++++|++|.+|.+||..
T Consensus 202 ~~~~k~~-~~~t~~~~~dI~~NLk~ 225 (229)
T PF12230_consen 202 RYEAKRK-QEETNAPGDDIAENLKR 225 (229)
T ss_dssp -------------------------
T ss_pred ccccccc-ccccccccccccccccc
Confidence 9996665 45599999999999853
No 3
>PF01805 Surp: Surp module; InterPro: IPR000061 SWAP is derived from the Suppressor-of-White-APricot splicing regulator from Drosophila melanogaster. The domain is found in regulators responsible for pervasive, nonsex-specific alternative pre-mRNA splicing characteristics and has been found in splicing regulatory proteins []. These ancient, conserved SWAP proteins share a colinearly arrayed series of novel sequence motifs [].; GO: 0003723 RNA binding, 0006396 RNA processing; PDB: 2E5Z_A 2DT7_B 2DT6_A 1UG0_A 1X4P_A 2E60_A 1X4O_A 4DGW_B.
Probab=99.68 E-value=4e-17 Score=135.97 Aligned_cols=54 Identities=56% Similarity=1.105 Sum_probs=51.6
Q ss_pred HHHHHHHHHHHHHhccHHHHHHHHHhccCCCCccccCCC-CCCChHHHHHHHHHh
Q psy10054 30 VRNIVDKTANFVARNGPEFESRIRQNEIGNPKFNFLSPG-DPYHAYYQHRVKDIR 83 (910)
Q Consensus 30 IR~IIdKTA~fVAKnG~eFE~rIr~~e~~NpkFsFL~p~-dPYH~YYq~kL~e~r 83 (910)
++.||++||.|||+||.+||..|++++.+||+|+||+++ ||||.||+|+|.+|+
T Consensus 1 ~~~~I~~tA~~Va~~G~~fE~~l~~~~~~np~F~FL~~~~~~~~~yY~~~l~~y~ 55 (55)
T PF01805_consen 1 LREIIDKTAEFVAKNGPEFEEKLRERERNNPQFNFLFPSDSPYHAYYRWKLAEYK 55 (55)
T ss_dssp HHHHHHHHHHHHHHCSHHHHHHHHHHTTTSGGGGGGSTTSSTHHHHHHHHHHHHH
T ss_pred ChHHHHHHHHHHHhcCHHHHHHHHHhcCCCCCCcCcCCCCCCCchHHHHHHHHhC
Confidence 478999999999999999999999999999999999986 999999999999985
No 4
>smart00648 SWAP Suppressor-of-White-APricot splicing regulator. domain present in regulators which are responsible for pre-mRNA splicing processes
Probab=99.65 E-value=1.2e-16 Score=132.48 Aligned_cols=52 Identities=58% Similarity=1.147 Sum_probs=50.6
Q ss_pred HHHHHHHHHHHhccHHHHHHHHHhccCCCCccccCCCCCCChHHHHHHHHHh
Q psy10054 32 NIVDKTANFVARNGPEFESRIRQNEIGNPKFNFLSPGDPYHAYYQHRVKDIR 83 (910)
Q Consensus 32 ~IIdKTA~fVAKnG~eFE~rIr~~e~~NpkFsFL~p~dPYH~YYq~kL~e~r 83 (910)
.||++||.||++||.+||.+|++++.+||+|+||+++||||.||+|+|.+|+
T Consensus 2 ~iI~~tA~~Va~~G~~fe~~l~~~~~~n~~F~FL~~~~~~h~yy~~~l~~~~ 53 (54)
T smart00648 2 DIIDKTAQFVARNGPEFEAKLMERERNNPQFDFLKPNDPYHAYYRKKLAEYR 53 (54)
T ss_pred cHHHHHHHHHHHhhHHHHHHHHHhcCCCCCCccCCCCCCCcHHHHHHHHHHh
Confidence 6899999999999999999999999999999999999999999999999986
No 5
>smart00648 SWAP Suppressor-of-White-APricot splicing regulator. domain present in regulators which are responsible for pre-mRNA splicing processes
Probab=99.57 E-value=2.7e-15 Score=124.52 Aligned_cols=54 Identities=50% Similarity=0.847 Sum_probs=51.8
Q ss_pred HHHHHHHHHHHHHcChHHHHHHHHhhccCCCCcccCCCCCccHHHHHHHHHHHh
Q psy10054 142 LDIVKLTAQFVARNGRGFLTSLMQKEQRNYQFDFLRPQHSLFQYFTKLLEQYTK 195 (910)
Q Consensus 142 LdIIKlTAqFVArnG~~Fl~~L~~Re~~NpqFdFLkP~Hslf~yF~~lVeqYsk 195 (910)
++||++||+|||+||..|+..|++++.+||+|+||+++|++|.||+++|.+|+.
T Consensus 1 ~~iI~~tA~~Va~~G~~fe~~l~~~~~~n~~F~FL~~~~~~h~yy~~~l~~~~~ 54 (54)
T smart00648 1 LDIIDKTAQFVARNGPEFEAKLMERERNNPQFDFLKPNDPYHAYYRKKLAEYRQ 54 (54)
T ss_pred CcHHHHHHHHHHHhhHHHHHHHHHhcCCCCCCccCCCCCCCcHHHHHHHHHHhC
Confidence 369999999999999999999999999999999999999999999999999973
No 6
>PF01805 Surp: Surp module; InterPro: IPR000061 SWAP is derived from the Suppressor-of-White-APricot splicing regulator from Drosophila melanogaster. The domain is found in regulators responsible for pervasive, nonsex-specific alternative pre-mRNA splicing characteristics and has been found in splicing regulatory proteins []. These ancient, conserved SWAP proteins share a colinearly arrayed series of novel sequence motifs [].; GO: 0003723 RNA binding, 0006396 RNA processing; PDB: 2E5Z_A 2DT7_B 2DT6_A 1UG0_A 1X4P_A 2E60_A 1X4O_A 4DGW_B.
Probab=99.54 E-value=7.9e-15 Score=122.24 Aligned_cols=54 Identities=37% Similarity=0.605 Sum_probs=52.0
Q ss_pred hHHHHHHHHHHHHHcChHHHHHHHHhhccCCCCcccCCC-CCccHHHHHHHHHHH
Q psy10054 141 DLDIVKLTAQFVARNGRGFLTSLMQKEQRNYQFDFLRPQ-HSLFQYFTKLLEQYT 194 (910)
Q Consensus 141 DLdIIKlTAqFVArnG~~Fl~~L~~Re~~NpqFdFLkP~-Hslf~yF~~lVeqYs 194 (910)
+++||++||+|||+||..|+..|++|+.+||+|+||+|+ |++|.||+++|.+|+
T Consensus 1 ~~~~I~~tA~~Va~~G~~fE~~l~~~~~~np~F~FL~~~~~~~~~yY~~~l~~y~ 55 (55)
T PF01805_consen 1 LREIIDKTAEFVAKNGPEFEEKLRERERNNPQFNFLFPSDSPYHAYYRWKLAEYK 55 (55)
T ss_dssp HHHHHHHHHHHHHHCSHHHHHHHHHHTTTSGGGGGGSTTSSTHHHHHHHHHHHHH
T ss_pred ChHHHHHHHHHHHhcCHHHHHHHHHhcCCCCCCcCcCCCCCCCchHHHHHHHHhC
Confidence 478999999999999999999999999999999999987 999999999999996
No 7
>KOG0007|consensus
Probab=99.48 E-value=2.9e-14 Score=157.16 Aligned_cols=132 Identities=36% Similarity=0.478 Sum_probs=118.0
Q ss_pred CCccChhHHHHhhhhhcCCchhHHHHHHHHHHhhhhccccCCchhHHHHHHHHHHhcCCCCCCCcccccccccccccccc
Q psy10054 446 QEKIPASKVQEHMRIGLLDPRWVEQRDKHLNEKINQETVYAPGQAIEASLKQLAERRTDIFGVGDEETAIGKKIGEEDTR 525 (910)
Q Consensus 446 ~q~IP~~Em~EHMRIeLLDPkWKEQKdk~~~ek~~qEs~~A~g~dIa~NLk~LA~~R~DIFG~~dEE~~~~~~~~~~~~~ 525 (910)
++.|+...|.+||||-|+||.|+|||.+++..++.-+..++.+.+|++||..++..|+|||+++.+
T Consensus 45 g~~~~~~~~~~~~ri~~~~~~~~eq~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~l~~~~~~~t~~-------------- 110 (341)
T KOG0007|consen 45 GELVPALPLSEHMRIPLVDPLWKEQRDRQFTQKQSPDYVLAFDTDISSNLMPLAELPPDIFTATHV-------------- 110 (341)
T ss_pred ccccCcchhhhcccccccChhhhhhhhchhhcccccccccccCcccccccccccccCCCccCcCcC--------------
Confidence 499999999999999999999999999998766656899999999999999999999999999766
Q ss_pred cCCCCCchhHHHHHHHHHHhhhccccCCCcchhhcccccCcccccc--CCcceecCCCCChHHHHHHHHhcCCHHHHHHH
Q psy10054 526 KDDKLFPGQAIEASLKQLAERRTDIFGVGDEETAIGKKIGEEDTRK--DDKATWDGHTSSVEAATRAARANITLEDQIHQ 603 (910)
Q Consensus 526 ~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~e~~~gkk~~Eee~~k--~~k~~wDGh~~s~~~~~~~~~~~~~~eeqi~~ 603 (910)
++.+++++++++.++ ....+||||+++...++..++.++++.++|..
T Consensus 111 -------------------------------~~~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~i~~ 159 (341)
T KOG0007|consen 111 -------------------------------PSYAQQKLPEPEERKLPPNQSKWDDHNGSFLRATPAALILISLLERIKE 159 (341)
T ss_pred -------------------------------cccchhccCchhhhccCCcccccCCCChhhhhcchhhhhcchhhhhhhh
Confidence 456777877777666 78899999999999999999999999999999
Q ss_pred HHHhhCCCC-chhhhcCCCC
Q psy10054 604 IHKVKGLLP-DEEKEKIGPK 622 (910)
Q Consensus 604 ih~~~gl~~-~~~~~~iGp~ 622 (910)
+|...+... ++..++++..
T Consensus 160 ~~~~~~~~~~~~~~~~~~~~ 179 (341)
T KOG0007|consen 160 YPKQLHDVAQDPFAEKIAQP 179 (341)
T ss_pred ccccccccccCccccccCCC
Confidence 999988776 5667888875
No 8
>KOG1847|consensus
Probab=99.18 E-value=4e-11 Score=137.61 Aligned_cols=78 Identities=26% Similarity=0.410 Sum_probs=67.1
Q ss_pred CCCCCCccCCcccccCCChh-HHHHHHHHHHHHHhccHHHHHHHHHhccCCCCccccCCCCCCChHHHHHHHHHhcCCC
Q psy10054 10 PGKDETVSQAVVGIIYPPPE-VRNIVDKTANFVARNGPEFESRIRQNEIGNPKFNFLSPGDPYHAYYQHRVKDIREGKV 87 (910)
Q Consensus 10 p~~~~~~~k~~~gII~PPpe-IR~IIdKTA~fVAKnG~eFE~rIr~~e~~NpkFsFL~p~dPYH~YYq~kL~e~r~g~~ 87 (910)
|-+++...+.+.++-+||.+ +-.||++||.||.+||.+||-.|+.++.+|++|.||.++|-.|+||++.-.-++.+..
T Consensus 167 pF~pP~gv~~p~~~eLPpt~KlH~IIerTaSFV~~~G~Q~EIvlkaKQ~~N~qFgFL~fDH~LnpyykflQkll~ek~y 245 (878)
T KOG1847|consen 167 PFHPPFGVPDPLRQELPPTEKLHQIIERTASFVSKHGGQSEIVLKAKQGDNPQFGFLMFDHHLNPYYKFLQKLLTEKSY 245 (878)
T ss_pred CCCCCCCCCCcccccCCchHHHHHHHHHHHHHHhhcCcceEEEeeeccCCCcccceeccccccCHHHHHHHHHHhcccc
Confidence 44556667778899999874 8899999999999999999999999999999999999999999999987555555443
No 9
>KOG0151|consensus
Probab=98.54 E-value=7.2e-08 Score=112.73 Aligned_cols=66 Identities=38% Similarity=0.756 Sum_probs=59.6
Q ss_pred ccCCCh-hHHHHHHHHHHHHHhccHHHHHHHHHhccCCCCccccC-CCCCCChHHHHHHHHHhcCCCC
Q psy10054 23 IIYPPP-EVRNIVDKTANFVARNGPEFESRIRQNEIGNPKFNFLS-PGDPYHAYYQHRVKDIREGKVK 88 (910)
Q Consensus 23 II~PPp-eIR~IIdKTA~fVAKnG~eFE~rIr~~e~~NpkFsFL~-p~dPYH~YYq~kL~e~r~g~~~ 88 (910)
|++|+. -|..+|+.+|.||.+.|+.||+.|+.++.+||.|+||+ .+.+-|.||.|||..+.+|.+.
T Consensus 312 Vvip~d~~L~~vidrM~~fV~~egp~fea~im~re~~nplF~flfen~s~~htyyrwklySilQgdT~ 379 (877)
T KOG0151|consen 312 VVIPTDRHLLMVIDRMAEFVVREGPMFEAMIMERERGNPLFSFLFENGSPAHTYYRWKLYSILQGDTP 379 (877)
T ss_pred EecCchHHHHHHHHHHHHHHhccCccHHHHHHHhhccChhHHHHHhcCchHHHHHHHHHHHHHcCCCH
Confidence 366654 58899999999999999999999999999999999998 4799999999999999988654
No 10
>KOG0007|consensus
Probab=98.36 E-value=3.2e-07 Score=101.93 Aligned_cols=148 Identities=28% Similarity=0.399 Sum_probs=108.6
Q ss_pred CCCCCCCCCCceeEecCCCCCCCCCCCCCCCCCCceeecCCCCCccChhhHHHHhHhhcCCchhHHHHHHHHHHhhhhcc
Q psy10054 734 QPPPLPPAPDKVVVKKGYDPKQARPPVVKPSPTDEFLISPITGEKIPASKVQEHMRIGLLDPRWVEQRDKHLNEKINQET 813 (910)
Q Consensus 734 ~~~plpp~~~~v~IrkdY~Pk~~~~~~~~~~~~~~~~~~PitGe~Ip~~e~~eHmRi~LLDP~wkEqr~~~~~ek~~~e~ 813 (910)
..++.++.-++++++++|++|+......+....+.+.+++++|+.|+...+++||||.|+||.|+|||++.+..++-.+.
T Consensus 3 ~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~ri~~~~~~~~eq~~~~~~~~~~~~~ 82 (341)
T KOG0007|consen 3 AAPPGPAEVDDIKLVKGYDPKADVPEFEALQDDTRFNFSPKEGELVPALPLSEHMRIPLVDPLWKEQRDRQFTQKQSPDY 82 (341)
T ss_pred CcCCCCcccchheeeeccccccccccccccCcccceeeccccccccCcchhhhcccccccChhhhhhhhchhhccccccc
Confidence 34555667789999999999987654433345578999999999999999999999999999999999999988877799
Q ss_pred ccCCccCCChhhHHhh-----------hhhhhHhhhhcccee-------eecCCceeeeecCCCceEEEeeecccCcccC
Q psy10054 814 VYAPEFLLDPRWVEQR-----------DKHLNEKINQETGLF-------FKDSNSLAYYNITPGTKVHLQLKERGGRKKS 875 (910)
Q Consensus 814 ~~A~~~~i~~~~~~~~-----------~~~~~~~~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 875 (910)
+++.+.+|.+++...= ..-.+....++.|.+ +-|..++-+++...-+.+++.+.||=+.-..
T Consensus 83 ~~~~~~~i~~~~~~~~~l~~~~~~~t~~~~~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~i~~~~~ 162 (341)
T KOG0007|consen 83 VLAFDTDISSNLMPLAELPPDIFTATHVPSYAQQKLPEPEERKLPPNQSKWDDHNGSFLRATPAALILISLLERIKEYPK 162 (341)
T ss_pred ccccCcccccccccccccCCCccCcCcCcccchhccCchhhhccCCcccccCCCChhhhhcchhhhhcchhhhhhhhccc
Confidence 9999999999986531 223334444444443 3345555566666666667777776555444
Q ss_pred CCCCcc
Q psy10054 876 LQPDFS 881 (910)
Q Consensus 876 ~~~~~~ 881 (910)
--+++-
T Consensus 163 ~~~~~~ 168 (341)
T KOG0007|consen 163 QLHDVA 168 (341)
T ss_pred cccccc
Confidence 444443
No 11
>KOG1847|consensus
Probab=97.90 E-value=4.7e-06 Score=97.02 Aligned_cols=52 Identities=33% Similarity=0.395 Sum_probs=48.6
Q ss_pred ChhhHHHHHHHHHHHHHcChHHHHHHHHhhccCCCCcccCCCCCccHHHHHH
Q psy10054 138 SALDLDIVKLTAQFVARNGRGFLTSLMQKEQRNYQFDFLRPQHSLFQYFTKL 189 (910)
Q Consensus 138 sa~DLdIIKlTAqFVArnG~~Fl~~L~~Re~~NpqFdFLkP~Hslf~yF~~l 189 (910)
|.+=..||..||-||.++|.+|+-.|+.+.++|+||+||.++|-||.||..|
T Consensus 185 t~KlH~IIerTaSFV~~~G~Q~EIvlkaKQ~~N~qFgFL~fDH~Lnpyykfl 236 (878)
T KOG1847|consen 185 TEKLHQIIERTASFVSKHGGQSEIVLKAKQGDNPQFGFLMFDHHLNPYYKFL 236 (878)
T ss_pred hHHHHHHHHHHHHHHhhcCcceEEEeeeccCCCcccceeccccccCHHHHHH
Confidence 4556689999999999999999999999999999999999999999999977
No 12
>cd01800 SF3a120_C Ubiquitin-like domain of Mammalian splicing factor SF3a_120. SF3a120_C Mammalian splicing factor SF3a consists of three subunits of 60, 66, and 120 kDa and functions early during pre-mRNA splicing by converting the U2 snRNP to its active form. The 120kDa subunit (SF3a120) has a carboxy-terminal ubiquitin-like domain and two SWAP (suppressor-of-white-apricot) domains, referred to collectively as the SURP module, at its amino-terminus.
Probab=96.97 E-value=0.00044 Score=61.08 Aligned_cols=36 Identities=75% Similarity=1.150 Sum_probs=34.1
Q ss_pred hccceeeecCCceeeeecCCCceEEEeeecccCccc
Q psy10054 839 QETGLFFKDSNSLAYYNITPGTKVHLQLKERGGRKK 874 (910)
Q Consensus 839 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 874 (910)
.|.|..++|..+|++||+.+|.+|.|.++.||||||
T Consensus 41 ~~~G~~L~d~~tL~~~~i~~g~~l~v~~~~~gg~~~ 76 (76)
T cd01800 41 QYEGIFIKDSNSLAYYNLANGTIIHLQLKERGGRKK 76 (76)
T ss_pred EECCEEcCCCCcHHHcCCCCCCEEEEEEecCCCcCC
Confidence 477889999999999999999999999999999997
No 13
>cd01806 Nedd8 Nebb8-like ubiquitin protein. Nedd8 (also known as Rub1) has a single conserved ubiquitin-like domain that is part of a protein modification pathway similar to that of ubiquitin. Nedd8 modifies a family of molecular scaffold proteins called cullins that are responsible for assembling the ROC1/Rbx1 RING-based E3 ubiquitin ligases, of which several play a direct role in tumorigenesis.
Probab=95.26 E-value=0.011 Score=51.16 Aligned_cols=32 Identities=34% Similarity=0.564 Sum_probs=30.7
Q ss_pred ccceeeecCCceeeeecCCCceEEEeeecccC
Q psy10054 840 ETGLFFKDSNSLAYYNITPGTKVHLQLKERGG 871 (910)
Q Consensus 840 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 871 (910)
|.|-.+.|+.+|++||+.+|.+|+|.++.|||
T Consensus 45 ~~g~~L~d~~tl~~~~i~~g~~i~l~~~~~gg 76 (76)
T cd01806 45 YSGKQMNDDKTAADYKLEGGSVLHLVLALRGG 76 (76)
T ss_pred ECCeEccCCCCHHHcCCCCCCEEEEEEEccCC
Confidence 77889999999999999999999999999998
No 14
>cd01802 AN1_N ubiquitin-like domain of AN1. AN1 (also known as ANUBL1 and RSD-7) is ubiquitin-like protein with a testis-specific expression in rats that has an N-terminal ubiquitin-like domain and a C-terminal zinc-binding domain. Unlike ubiquitin polyproteins and most ubiquitin fusion proteins, the N-terminal ubiquitin-like domain of An1 does not undergo proteolytic processing. The function of AN1 is unknown.
Probab=94.99 E-value=0.014 Score=55.21 Aligned_cols=33 Identities=33% Similarity=0.491 Sum_probs=31.9
Q ss_pred hccceeeecCCceeeeecCCCceEEEeeecccC
Q psy10054 839 QETGLFFKDSNSLAYYNITPGTKVHLQLKERGG 871 (910)
Q Consensus 839 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 871 (910)
.|.|..++|+.+|++||+..|.+|+|.+..|||
T Consensus 71 i~~Gk~L~D~~tL~dy~I~~~stL~l~~~l~GG 103 (103)
T cd01802 71 IWNNMELEDEYCLNDYNISEGCTLKLVLAMRGG 103 (103)
T ss_pred EECCEECCCCCcHHHcCCCCCCEEEEEEecCCC
Confidence 489999999999999999999999999999998
No 15
>PTZ00044 ubiquitin; Provisional
Probab=93.54 E-value=0.047 Score=47.66 Aligned_cols=33 Identities=33% Similarity=0.643 Sum_probs=31.2
Q ss_pred hccceeeecCCceeeeecCCCceEEEeeecccC
Q psy10054 839 QETGLFFKDSNSLAYYNITPGTKVHLQLKERGG 871 (910)
Q Consensus 839 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 871 (910)
.|.|-.+.|..+|++||+.+|.+|+|.++-|||
T Consensus 44 ~~~g~~L~d~~~l~~~~i~~~~~i~l~~~~~gg 76 (76)
T PTZ00044 44 IYSGKQMSDDLKLSDYKVVPGSTIHMVLQLRGG 76 (76)
T ss_pred EECCEEccCCCcHHHcCCCCCCEEEEEEEccCC
Confidence 378999999999999999999999999999998
No 16
>KOG0151|consensus
Probab=92.23 E-value=0.12 Score=62.32 Aligned_cols=52 Identities=29% Similarity=0.400 Sum_probs=46.1
Q ss_pred hHHHHHHHHHHHHHcChHHHHHHHHhhccCCCCcccC-CCCCccHHHHHHHHH
Q psy10054 141 DLDIVKLTAQFVARNGRGFLTSLMQKEQRNYQFDFLR-PQHSLFQYFTKLLEQ 192 (910)
Q Consensus 141 DLdIIKlTAqFVArnG~~Fl~~L~~Re~~NpqFdFLk-P~Hslf~yF~~lVeq 192 (910)
=+.||.+.|.||.+.|..|.+.++.|+..||.|.||- -+.+.|.||.|.+-+
T Consensus 320 L~~vidrM~~fV~~egp~fea~im~re~~nplF~flfen~s~~htyyrwklyS 372 (877)
T KOG0151|consen 320 LLMVIDRMAEFVVREGPMFEAMIMERERGNPLFSFLFENGSPAHTYYRWKLYS 372 (877)
T ss_pred HHHHHHHHHHHHhccCccHHHHHHHhhccChhHHHHHhcCchHHHHHHHHHHH
Confidence 3578999999999999999999999999999999997 467789999887643
No 17
>cd01803 Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40e and Ubq/RPS27a fusions as well as homopolymeric multiubiquitin protein chains)
Probab=92.08 E-value=0.097 Score=45.23 Aligned_cols=32 Identities=38% Similarity=0.614 Sum_probs=30.5
Q ss_pred ccceeeecCCceeeeecCCCceEEEeeecccC
Q psy10054 840 ETGLFFKDSNSLAYYNITPGTKVHLQLKERGG 871 (910)
Q Consensus 840 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 871 (910)
|.|-.+.|+.+|+.|++.+|.+|+|.++-|||
T Consensus 45 ~~g~~L~d~~~L~~~~i~~~~~i~l~~~~~gg 76 (76)
T cd01803 45 FAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG 76 (76)
T ss_pred ECCEECCCCCcHHHcCCCCCCEEEEEEEccCC
Confidence 67888999999999999999999999999998
No 18
>cd01797 NIRF_N amino-terminal ubiquitin-like domain of Np95 and NIRF. NIRF_N This CD represents the amino-terminal ubiquitin-like domain of a family of nuclear proteins that includes Np95 and NIRF (Np95/ICBP90-like RING finger) protein. Both Np95 and NIRF have a domain architecture consisting of a ubiquitin-like domain, a PHD finger, a YDG/SRA domain, Rb-binding motifs and a RING finger domain. Both Np95 and NIRF are ubiquitin ligases that ubiquitinate PCNP (PEST-containing nuclear proteins). While Np95 is capable of binding histones, NIRF is involved in cell cycle regulation.
Probab=90.49 E-value=0.15 Score=45.88 Aligned_cols=29 Identities=21% Similarity=0.308 Sum_probs=27.5
Q ss_pred hccceeeecCCceeeeecCCCceEEEeee
Q psy10054 839 QETGLFFKDSNSLAYYNITPGTKVHLQLK 867 (910)
Q Consensus 839 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 867 (910)
.|.|-.++|+.+|++||+.+|.+|.|.++
T Consensus 46 i~~Gk~L~D~~tL~~y~i~~~~~i~l~~~ 74 (78)
T cd01797 46 FYRGKQMEDGHTLFDYNVGLNDIIQLLVR 74 (78)
T ss_pred EeCCEECCCCCCHHHcCCCCCCEEEEEEe
Confidence 58999999999999999999999999886
No 19
>PF00240 ubiquitin: Ubiquitin family; InterPro: IPR000626 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, IPR000608 from INTERPRO), and a ubiquitin ligase (E3, IPR000569 from INTERPRO, IPR003613 from INTERPRO), which work sequentially in a cascade. There are many different E3 ligases, which are responsible for the type of ubiquitin chain formed, the specificity of the target protein, and the regulation of the ubiquitinylation process []. Ubiquitinylation is an important regulatory tool that controls the concentration of key signalling proteins, such as those involved in cell cycle control, as well as removing misfolded, damaged or mutant proteins that could be harmful to the cell. Several ubiquitin-like molecules have been discovered, such as Ufm1 (IPR005375 from INTERPRO), SUMO1 (IPR003653 from INTERPRO), NEDD8, Rad23 (IPR004806 from INTERPRO), Elongin B and Parkin (IPR003977 from INTERPRO), the latter being involved in Parkinson's disease []. Ubiquitin is a protein of 76 amino acid residues, found in all eukaryotic cells and whose sequence is extremely well conserved from protozoan to vertebrates. Ubiquitin acts through its post-translational attachment (ubiquitinylation) to other proteins, where these modifications alter the function, location or trafficking of the protein, or targets it for destruction by the 26S proteasome []. The terminal glycine in the C-terminal 4-residue tail of ubiquitin can form an isopeptide bond with a lysine residue in the target protein, or with a lysine in another ubiquitin molecule to form a ubiquitin chain that attaches itself to a target protein. Ubiquitin has seven lysine residues, any one of which can be used to link ubiquitin molecules together, resulting in different structures that alter the target protein in different ways. It appears that Lys(11)-, Lys(29) and Lys(48)-linked poly-ubiquitin chains target the protein to the proteasome for degradation, while mono-ubiquitinylated and Lys(6)- or Lys(63)-linked poly-ubiquitin chains signal reversible modifications in protein activity, location or trafficking []. For example, Lys(63)-linked poly-ubiquitinylation is known to be involved in DNA damage tolerance, inflammatory response, protein trafficking and signal transduction through kinase activation []. In addition, the length of the ubiquitin chain alters the fate of the target protein. Regulatory proteins such as transcription factors and histones are frequent targets of ubquitinylation [].; GO: 0005515 protein binding; PDB: 2DZI_A 2XEW_E 3NOB_E 2KWU_B 2Y5B_F 3PHD_G 2KWV_B 2KOX_A 2XK5_B 3NHE_B ....
Probab=86.29 E-value=0.47 Score=40.47 Aligned_cols=31 Identities=32% Similarity=0.543 Sum_probs=29.1
Q ss_pred hccceeeecCCceeeeecCCCceEEEeeecc
Q psy10054 839 QETGLFFKDSNSLAYYNITPGTKVHLQLKER 869 (910)
Q Consensus 839 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 869 (910)
.|.|-.++|+.+|..|++.+|++|.|.+|.|
T Consensus 39 ~~~G~~L~d~~tL~~~~i~~~~~I~l~~k~~ 69 (69)
T PF00240_consen 39 IYNGKELDDDKTLSDYGIKDGSTIHLVIKPR 69 (69)
T ss_dssp EETTEEESTTSBTGGGTTSTTEEEEEEESSE
T ss_pred eeeeecccCcCcHHHcCCCCCCEEEEEEecC
Confidence 4889999999999999999999999999876
No 20
>cd01793 Fubi Fubi ubiquitin-like protein. Fubi is a ubiquitin-like protein encoded by the fau gene which has an N-terminal ubiquitin-like domain (also referred to as FUBI) fused to the ribosomal protein S30. Fubi is thought to be a tumor suppressor protein and the FUBI domain may act as a substitute or an inhibitor of ubiquitin or one of ubiquitin's close relatives UCRP, FAT10, and Nedd8.
Probab=84.02 E-value=0.72 Score=40.52 Aligned_cols=33 Identities=15% Similarity=0.215 Sum_probs=31.0
Q ss_pred hccceeeecCCceeeeecCCCceEEEeeecccC
Q psy10054 839 QETGLFFKDSNSLAYYNITPGTKVHLQLKERGG 871 (910)
Q Consensus 839 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 871 (910)
.|.|-=++|..+|+.||+.+|++|+|.+.-+||
T Consensus 42 i~~Gk~L~D~~tL~~~~i~~~~tl~l~~~l~GG 74 (74)
T cd01793 42 LLAGVPLEDDATLGQCGVEELCTLEVAGRLLGG 74 (74)
T ss_pred EECCeECCCCCCHHHcCCCCCCEEEEEEecCCC
Confidence 478888999999999999999999999999998
No 21
>smart00734 ZnF_Rad18 Rad18-like CCHC zinc finger. Yeast Rad18p functions with Rad5p in error-free post-replicative DNA repair. This zinc finger is likely to bind nucleic-acids.
Probab=79.84 E-value=1.3 Score=32.62 Aligned_cols=23 Identities=13% Similarity=0.390 Sum_probs=20.0
Q ss_pred eeecCCCCCccChhhHHHHhHhh
Q psy10054 769 FLISPITGEKIPASKVQEHMRIG 791 (910)
Q Consensus 769 ~~~~PitGe~Ip~~e~~eHmRi~ 791 (910)
+..||||++.|+...+..|+..-
T Consensus 1 ~v~CPiC~~~v~~~~in~HLD~C 23 (26)
T smart00734 1 LVQCPVCFREVPENLINSHLDSC 23 (26)
T ss_pred CCcCCCCcCcccHHHHHHHHHHh
Confidence 35799999999999999998744
No 22
>cd01792 ISG15_repeat1 ISG15 ubiquitin-like protein, first repeat of 2. ISG15 is a ubiquitin-like protein containing two ubiquitin homology domains that becomes conjugated to a variety of proteins when cells are treated with type I interferon or lipopolysaccharide. Although ISG15 has properties similar to those of other ubiquitin-like molecules, it is a unique member of the ubiquitin-like superfamily, whose expression and conjugation to target proteins are tightly regulated by specific signaling pathways, indicating it may have specialized functions in the immune system.
Probab=79.74 E-value=0.98 Score=40.38 Aligned_cols=29 Identities=21% Similarity=0.362 Sum_probs=26.9
Q ss_pred hccceeeecCCceeeeecCCCceEEEeee
Q psy10054 839 QETGLFFKDSNSLAYYNITPGTKVHLQLK 867 (910)
Q Consensus 839 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 867 (910)
.|.|-.++|+.+|+.||+.+|.+|.|.++
T Consensus 48 ~~~G~~L~D~~tL~~~gi~~gs~l~l~~~ 76 (80)
T cd01792 48 LDSREVLQDGVPLVSQGLGPGSTVLLVVQ 76 (80)
T ss_pred ccCCCCCCCCCCHHHcCCCCCCEEEEEEE
Confidence 47889999999999999999999999886
No 23
>PF09866 DUF2093: Uncharacterized protein conserved in bacteria (DUF2093); InterPro: IPR018661 This family of various hypothetical prokaryotic proteins has no known function.
Probab=77.44 E-value=1.3 Score=36.28 Aligned_cols=19 Identities=26% Similarity=0.628 Sum_probs=17.0
Q ss_pred CceeecCCCCCccChhhHH
Q psy10054 767 DEFLISPITGEKIPASKVQ 785 (910)
Q Consensus 767 ~~~~~~PitGe~Ip~~e~~ 785 (910)
..+.+|-+||++||+++|.
T Consensus 5 G~~V~CAVTg~~IpLd~Lr 23 (42)
T PF09866_consen 5 GSFVRCAVTGQPIPLDELR 23 (42)
T ss_pred CCEEEEEeeCCcccHHHhc
Confidence 4699999999999999974
No 24
>cd01805 RAD23_N Ubiquitin-like domain of RAD23. RAD23 belongs to a family of adaptor molecules having affinity for both the proteasome and ubiquitinylated proteins and thought to shuttle these ubiquitinylated proteins to the proteasome for destruction. RAD23 interacts with ubiquitin through its C-terminal ubiquitin-associated domains (UBA) and with the proteasome through its N-terminal ubiquitin-like domain (UBL).
Probab=75.30 E-value=1.9 Score=37.66 Aligned_cols=30 Identities=23% Similarity=0.336 Sum_probs=27.9
Q ss_pred ccceeeecCCceeeeecCCCceEEEeeecc
Q psy10054 840 ETGLFFKDSNSLAYYNITPGTKVHLQLKER 869 (910)
Q Consensus 840 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 869 (910)
|.|-.++|+.+|+-||+.+|.+|.|.++.+
T Consensus 47 ~~G~~L~d~~~L~~~~i~~~~~i~~~~~~~ 76 (77)
T cd01805 47 YSGKILKDDTTLEEYKIDEKDFVVVMVSKP 76 (77)
T ss_pred ECCEEccCCCCHHHcCCCCCCEEEEEEecC
Confidence 789999999999999999999999998865
No 25
>cd01810 ISG15_repeat2 ISG15 ubiquitin-like protein, second repeat of 2. ISG15 is a ubiquitin-like protein containing two ubiquitin homology domains and becomes conjugated to a variety of proteins when cells are treated with type I interferon or lipopolysaccharide. Although ISG15 has properties similar to those of other ubiquitin-like molecules, it is a unique member of the ubiquitin-like superfamily, whose expression and conjugation to target proteins are tightly regulated by specific signaling pathways, indicating it may have specialized functions in the immune system.
Probab=74.10 E-value=2.2 Score=37.44 Aligned_cols=33 Identities=33% Similarity=0.621 Sum_probs=30.8
Q ss_pred hccceeeecCCceeeeecCCCceEEEeeecccC
Q psy10054 839 QETGLFFKDSNSLAYYNITPGTKVHLQLKERGG 871 (910)
Q Consensus 839 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 871 (910)
.|.|-=++|..+|+-||+.+|.+|.|.+.-+||
T Consensus 42 ~~~G~~L~D~~tL~~~~i~~~~tl~l~~~l~gg 74 (74)
T cd01810 42 SFEGRPMEDEHPLGEYGLKPGCTVFMNLRLRGG 74 (74)
T ss_pred EECCEECCCCCCHHHcCCCCCCEEEEEEEccCC
Confidence 378888999999999999999999999999998
No 26
>cd01763 Sumo Small ubiquitin-related modifier (SUMO). Small ubiquitin-related modifier (SUMO) proteins are conjugated to numerous intracellular targets and serve to modulate protein interaction, localization, activity or stability. SUMO (also known as "Smt3" and "sentrin" in other organisms) is linked to several different pathways, including nucleocytoplasmic transport. Attachment of SUMO to targets proteins is stimulated by PIAS (Protein inhibitor of activated STATs) proteins which serve as E3-like ligases.
Probab=73.05 E-value=2.4 Score=38.66 Aligned_cols=33 Identities=18% Similarity=0.370 Sum_probs=31.4
Q ss_pred hccceeeecCCceeeeecCCCceEEEeeecccC
Q psy10054 839 QETGLFFKDSNSLAYYNITPGTKVHLQLKERGG 871 (910)
Q Consensus 839 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 871 (910)
.|.|--+.|+.|++.|+|..|.+|.+.++-|||
T Consensus 55 ~f~G~~L~~~~T~~~l~m~d~d~I~v~l~l~GG 87 (87)
T cd01763 55 LFDGQRIRDNQTPDDLGMEDGDEIEVMLEQTGG 87 (87)
T ss_pred EECCeECCCCCCHHHcCCCCCCEEEEEEecccC
Confidence 578999999999999999999999999999998
No 27
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=71.50 E-value=2.7 Score=30.49 Aligned_cols=22 Identities=27% Similarity=0.631 Sum_probs=20.2
Q ss_pred eeecCCCCCccChhhHHHHhHh
Q psy10054 769 FLISPITGEKIPASKVQEHMRI 790 (910)
Q Consensus 769 ~~~~PitGe~Ip~~e~~eHmRi 790 (910)
+..||+||.+...+-+..|+++
T Consensus 2 l~~C~~CgR~F~~~~l~~H~~~ 23 (25)
T PF13913_consen 2 LVPCPICGRKFNPDRLEKHEKI 23 (25)
T ss_pred CCcCCCCCCEECHHHHHHHHHh
Confidence 6789999999999999999875
No 28
>cd01809 Scythe_N Ubiquitin-like domain of Scythe protein. Scythe protein (also known as Bat3) is an apoptotic regulator that is highly conserved in eukaryotes and contains a ubiquitin-like domain near its N-terminus. Scythe binds reaper, a potent apoptotic inducer, and Scythe/Reaper are thought to signal apoptosis, in part through regulating the folding and activity of apoptotic signaling molecules.
Probab=70.51 E-value=2.6 Score=35.97 Aligned_cols=28 Identities=29% Similarity=0.517 Sum_probs=25.1
Q ss_pred hccceeeecCCceeeeecCCCceEEEee
Q psy10054 839 QETGLFFKDSNSLAYYNITPGTKVHLQL 866 (910)
Q Consensus 839 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 866 (910)
.|.|-.++|+.+|+.||+.+|.+|+|.+
T Consensus 44 ~~~g~~L~d~~~L~~~~i~~~~~l~l~~ 71 (72)
T cd01809 44 IYSGRVLKDDETLSEYKVEDGHTIHLVK 71 (72)
T ss_pred EECCEECCCcCcHHHCCCCCCCEEEEEe
Confidence 3578889999999999999999999875
No 29
>cd01798 parkin_N amino-terminal ubiquitin-like of parkin protein. parkin_N parkin protein is a RING-type E3 ubiquitin ligase with an amino-terminal ubiquitin-like (Ubl) domain and an RBR signature consisting of two RING finger domains separated by an IBR/DRIL domain. Naturally occurring mutations in parkin are thought to cause the disease AR_JP (autosomal-recessive juvenile parkinsonism). Parkin binds the Rpn10 subunit of 26S proteasomes through its Ubl domain.
Probab=61.59 E-value=5 Score=34.71 Aligned_cols=28 Identities=7% Similarity=0.124 Sum_probs=26.0
Q ss_pred hccceeeecCCceeeeecCCCceEEEee
Q psy10054 839 QETGLFFKDSNSLAYYNITPGTKVHLQL 866 (910)
Q Consensus 839 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 866 (910)
.|.|-.+.|..+|+-|++.+|.+|+|..
T Consensus 42 i~~G~~L~d~~~l~~~~i~~~stl~l~~ 69 (70)
T cd01798 42 IFAGKELRNTTTIQECDLGQQSILHAVR 69 (70)
T ss_pred EECCeECCCCCcHHHcCCCCCCEEEEEe
Confidence 5899999999999999999999999864
No 30
>cd01815 BMSC_UbP_N Ubiquitin-like domain of BMSC-UbP. BMSC_UbP (bone marrow stromal cell-derived ubiquitin-like protein) has an N-terminal ubiquitin-like (UBQ) domain and a C-terminal ubiquitin-associated (UBA) domain, a domain architecture similar to those of the UBIN, Chap1, and ubiquilin proteins. This CD represents the N-terminal ubiquitin-like domain.
Probab=59.83 E-value=4.6 Score=36.82 Aligned_cols=29 Identities=31% Similarity=0.605 Sum_probs=25.6
Q ss_pred hccceeeecCCceeeeecCCCceEEEeee
Q psy10054 839 QETGLFFKDSNSLAYYNITPGTKVHLQLK 867 (910)
Q Consensus 839 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 867 (910)
.|.|-=++|+.||+.||+..|.+|+|..|
T Consensus 47 Iy~GKiL~D~~TL~dygI~~gstlhLv~~ 75 (75)
T cd01815 47 IHCGRKLKDDQTLDFYGIQSGSTIHILRK 75 (75)
T ss_pred EeCCcCCCCCCcHHHcCCCCCCEEEEEeC
Confidence 47777799999999999999999999754
No 31
>PF08209 Sgf11: Sgf11 (transcriptional regulation protein); InterPro: IPR013246 The Sgf11 family is a SAGA complex subunit in Saccharomyces cerevisiae (Baker's yeast). The SAGA complex is a multisubunit protein complex involved in transcriptional regulation. SAGA combines proteins involved in interactions with DNA-bound activators and TATA-binding protein (TBP), as well as enzymes for histone acetylation and deubiquitylation [].; PDB: 3M99_B 2LO2_A 3MHH_C 3MHS_C.
Probab=52.67 E-value=11 Score=29.50 Aligned_cols=22 Identities=23% Similarity=0.514 Sum_probs=18.7
Q ss_pred CceeecCCCCCccChhhHHHHh
Q psy10054 767 DEFLISPITGEKIPASKVQEHM 788 (910)
Q Consensus 767 ~~~~~~PitGe~Ip~~e~~eHm 788 (910)
..+..||+||-.|.++.+.-|+
T Consensus 2 ~~~~~C~nC~R~v~a~RfA~HL 23 (33)
T PF08209_consen 2 SPYVECPNCGRPVAASRFAPHL 23 (33)
T ss_dssp S-EEE-TTTSSEEEGGGHHHHH
T ss_pred CCeEECCCCcCCcchhhhHHHH
Confidence 3589999999999999999997
No 32
>cd01804 midnolin_N Ubiquitin-like domain of midnolin. midnolin_N Midnolin (midbrain nucleolar protein) is expressed in the nucleolus and is thought to regulate genes involved in neurogenesis. Midnolin contains an amino-terminal ubiquitin-like domain.
Probab=52.52 E-value=8.1 Score=34.56 Aligned_cols=31 Identities=16% Similarity=0.207 Sum_probs=28.0
Q ss_pred ccceeeecCCceeeeecCCCceEEEeeecccC
Q psy10054 840 ETGLFFKDSNSLAYYNITPGTKVHLQLKERGG 871 (910)
Q Consensus 840 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 871 (910)
|.|-=++|+ +|+-||+.+|++|.|-+--+||
T Consensus 46 ~~Gk~L~d~-~L~~~gi~~~~~i~l~~~~~~~ 76 (78)
T cd01804 46 HRETRLSSG-KLQDLGLGDGSKLTLVPTVEAG 76 (78)
T ss_pred ECCcCCCCC-cHHHcCCCCCCEEEEEeecccc
Confidence 667678898 9999999999999999999988
No 33
>KOG1924|consensus
Probab=49.85 E-value=61 Score=40.94 Aligned_cols=15 Identities=27% Similarity=0.443 Sum_probs=11.4
Q ss_pred hhhHhhhhccceeee
Q psy10054 832 HLNEKINQETGLFFK 846 (910)
Q Consensus 832 ~~~~~~~~~~~~~~~ 846 (910)
.|..||-|--|||+-
T Consensus 695 ilDsKtaQnLsIflg 709 (1102)
T KOG1924|consen 695 ILDSKTAQNLSIFLG 709 (1102)
T ss_pred ecchHHHHHHHHHHh
Confidence 467788888888875
No 34
>cd01807 GDX_N ubiquitin-like domain of GDX. GDX contains an N-terminal ubiquitin-like domain as well as an uncharacterized c-terminal domain. The function of GDX is unknown.
Probab=48.42 E-value=11 Score=33.02 Aligned_cols=29 Identities=28% Similarity=0.460 Sum_probs=26.4
Q ss_pred hccceeeecCCceeeeecCCCceEEEeee
Q psy10054 839 QETGLFFKDSNSLAYYNITPGTKVHLQLK 867 (910)
Q Consensus 839 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 867 (910)
.|.|-=+.|..+|+-||+.+|.+|+|-+.
T Consensus 44 ~~~G~~L~d~~~L~~~~i~~~~~l~l~~~ 72 (74)
T cd01807 44 LFKGKALADDKRLSDYSIGPNAKLNLVVR 72 (74)
T ss_pred EECCEECCCCCCHHHCCCCCCCEEEEEEc
Confidence 48888899999999999999999999764
No 35
>cd01808 hPLIC_N Ubiquitin-like domain of hPLIC-1 and hPLIC2. hPLIC-1 and hPLIC-2 (human homologs of the yeast ubiquitin-like Dsk2 protein) are type2 UBL's (ubiquitin-like) proteins that are thought to serve as adaptors that link the ubiquitination machinery to the proteasome. The hPLIC's have an N-terminal UBL domain that binds the S5a subunit of the proteasome and a C-terminal UBA (ubiquitin-associated) domain that binds a ubiquitylated protein.
Probab=48.14 E-value=11 Score=32.69 Aligned_cols=29 Identities=38% Similarity=0.536 Sum_probs=26.1
Q ss_pred hccceeeecCCceeeeecCCCceEEEeee
Q psy10054 839 QETGLFFKDSNSLAYYNITPGTKVHLQLK 867 (910)
Q Consensus 839 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 867 (910)
.|.|-=+.|+.+|+-||+.+|.+|.|.++
T Consensus 43 i~~Gk~L~d~~tL~~~~i~~~stl~l~~~ 71 (71)
T cd01808 43 IFAGKILKDTDTLTQHNIKDGLTVHLVIK 71 (71)
T ss_pred EECCeEcCCCCcHHHcCCCCCCEEEEEEC
Confidence 57888899999999999999999999774
No 36
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=47.99 E-value=13 Score=43.46 Aligned_cols=30 Identities=20% Similarity=0.480 Sum_probs=27.3
Q ss_pred CCceeecCCCCCccChhhHHHHhHhhcCCc
Q psy10054 766 TDEFLISPITGEKIPASKVQEHMRIGLLDP 795 (910)
Q Consensus 766 ~~~~~~~PitGe~Ip~~e~~eHmRi~LLDP 795 (910)
.+.++-||||+.+|+.+.+..|+.-+-|.+
T Consensus 178 ~d~~v~CPiC~~~~~~~~i~~Hld~~Cl~~ 207 (397)
T TIGR00599 178 NEGLVQCPICQQRMPEKAVERHLDSECLGS 207 (397)
T ss_pred CCCcccCCCcccccCHHHHHHHHhccCCCC
Confidence 467999999999999999999999878876
No 37
>KOG0003|consensus
Probab=47.49 E-value=4.6 Score=39.31 Aligned_cols=33 Identities=39% Similarity=0.589 Sum_probs=30.7
Q ss_pred hccceeeecCCceeeeecCCCceEEEeeecccC
Q psy10054 839 QETGLFFKDSNSLAYYNITPGTKVHLQLKERGG 871 (910)
Q Consensus 839 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 871 (910)
|+.|--+-|+.|||=|||-.-.|++|-+|=|||
T Consensus 44 ~~~~k~LED~~Tla~Y~i~~~~Tl~~~~rL~GG 76 (128)
T KOG0003|consen 44 IFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (128)
T ss_pred HhcccccccCCcccccCccchhhhhhhHHHhcC
Confidence 566777889999999999999999999999999
No 38
>cd01791 Ubl5 UBL5 ubiquitin-like modifier. UBL5 (also known as HUB1) is a ubiquitin-like modifier that is both widely expressed and highly phylogenetically conserved. At the C-terminal end of the ubiquitin-like fold of UBL5 is a di-tyrosine motif followed by a single variable residue instead of the characteristic di-glycine found in all other ubiquitin-like modifiers. ULB5 interacts with a cyclin-like kinase called CLK4 but not with other cyclin-like kinase family members.
Probab=42.71 E-value=12 Score=33.50 Aligned_cols=26 Identities=35% Similarity=0.414 Sum_probs=23.3
Q ss_pred ccceeeecCCceeeeecCCCceEEEe
Q psy10054 840 ETGLFFKDSNSLAYYNITPGTKVHLQ 865 (910)
Q Consensus 840 ~~~~~~~~~~~~~~~~~~~~~~~~~~ 865 (910)
|.|--++|+.||+-|++..|.+|+|-
T Consensus 46 ~~Gk~L~D~~tL~~ygi~~~stv~l~ 71 (73)
T cd01791 46 KWYTIFKDHISLGDYEIHDGMNLELY 71 (73)
T ss_pred eCCcCCCCCCCHHHcCCCCCCEEEEE
Confidence 55777999999999999999999985
No 39
>KOG0001|consensus
Probab=40.15 E-value=22 Score=29.01 Aligned_cols=33 Identities=39% Similarity=0.513 Sum_probs=27.4
Q ss_pred hhccceeeecCCceeeeecCCCceEEEeeeccc
Q psy10054 838 NQETGLFFKDSNSLAYYNITPGTKVHLQLKERG 870 (910)
Q Consensus 838 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 870 (910)
..+.|--+.|+++|+.||+..+.++.|....++
T Consensus 42 ~~~~~~~l~d~~~l~~~~i~~~~~~~l~~~~~~ 74 (75)
T KOG0001|consen 42 LIFGGKPLEDGRTLADYNIQEGSTLHLVLSLRG 74 (75)
T ss_pred EEECCEECcCCCcHHHhCCCCCCEEEEEEecCC
Confidence 345556677999999999999999999988774
No 40
>cd01769 UBL Ubiquitin-like domain of UBL. UBLs function by remodeling the surface of their target proteins, changing their target's half-life, enzymatic activity, protein-protein interactions, subcellular localization or other properties. At least 10 different ubiquitin-like modifications exist in mammals, and attachment of different ubls to a target leads to different biological consequences. Ubl-conjugation cascades are initiated by activating enzymes, which also coordinate the ubls with their downstream pathways.
Probab=39.53 E-value=16 Score=30.29 Aligned_cols=28 Identities=36% Similarity=0.602 Sum_probs=24.4
Q ss_pred hccceeeecCCceeeeecCCCceEEEee
Q psy10054 839 QETGLFFKDSNSLAYYNITPGTKVHLQL 866 (910)
Q Consensus 839 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 866 (910)
.|.|-+++|+.+|+.|++.+|.+|++..
T Consensus 41 ~~~g~~l~d~~~l~~~~v~~~~~i~v~~ 68 (69)
T cd01769 41 IYAGKILKDDKTLSDYGIQDGSTLHLVL 68 (69)
T ss_pred EECCcCCCCcCCHHHCCCCCCCEEEEEE
Confidence 4667789999999999999999998854
No 41
>cd01794 DC_UbP_C dendritic cell derived ubiquitin-like protein. DC_UbP (dendritic cell derived ubiquitin-like protein) is a ubiquitin-like protein from human dendritic cells that is expressed in the mitochondrion. The ubiquitin-like domain of this protein is found at the C-terminus and lacks the canonical gly-gly motif of ubiquitin required for ubiquitinization. DC_UbP is expressed in tumor cells but not in normal human adult tissue suggesting a role for DC_UbP in tumorogenesis.
Probab=39.12 E-value=19 Score=31.85 Aligned_cols=28 Identities=18% Similarity=0.179 Sum_probs=25.7
Q ss_pred hccceeeecCCceeeeecCCCceEEEee
Q psy10054 839 QETGLFFKDSNSLAYYNITPGTKVHLQL 866 (910)
Q Consensus 839 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 866 (910)
.|.|-=++|..+|+-||+..|.+|+|-+
T Consensus 42 i~~G~~L~D~~~l~~~~i~~~~tv~~~~ 69 (70)
T cd01794 42 FFSGKLLTDKTRLQETKIQKDYVVQVIV 69 (70)
T ss_pred EECCeECCCCCCHHHcCCCCCCEEEEEe
Confidence 4888889999999999999999999975
No 42
>COG3908 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=39.10 E-value=17 Score=32.88 Aligned_cols=19 Identities=26% Similarity=0.711 Sum_probs=17.0
Q ss_pred CceeecCCCCCccChhhHH
Q psy10054 767 DEFLISPITGEKIPASKVQ 785 (910)
Q Consensus 767 ~~~~~~PitGe~Ip~~e~~ 785 (910)
..+.+|-+||.+||+|+|.
T Consensus 28 GsfV~CAVtgk~IPldeLr 46 (77)
T COG3908 28 GSFVLCAVTGKPIPLDELR 46 (77)
T ss_pred CcEEEEEecCCcccHHHhh
Confidence 4599999999999999974
No 43
>KOG0004|consensus
Probab=35.37 E-value=30 Score=35.78 Aligned_cols=42 Identities=33% Similarity=0.462 Sum_probs=35.5
Q ss_pred hhhhccceeeecCCceeeeecCCCceEEEeeecccCcccCCC
Q psy10054 836 KINQETGLFFKDSNSLAYYNITPGTKVHLQLKERGGRKKSLQ 877 (910)
Q Consensus 836 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 877 (910)
..-.+.|.=+-|..+|.=||+..-++++|.|.=|||+|+--+
T Consensus 41 qrlifag~qLedgrtlSDY~Iqkestl~l~l~l~Gg~kkrkk 82 (156)
T KOG0004|consen 41 QRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGAKKRKK 82 (156)
T ss_pred hhhhhhhcccccCCccccccccccceEEEEEEecCCcccccc
Confidence 344566777788899999999999999999999999887544
No 44
>cd01789 Alp11_N Ubiquitin-like domain of Alp11 tubulin-folding cofactor B. Alp11, also known as tubulin-folding cofactor B, is one of at least three proteins required for the proper folding of tubulins prior to their incorporation into microtubules. These cofactors are necessary for the biogenesis of microtubules and for cell viability. Alp11 has three domains including an N-terminal ubiquitin-like domain (represented by this CD) which executes the essential function, a central coiled-coil domain necessary for maintenance of cellular alpha-tubulin levels, and a C-terminal CLIP-170 domain is required for efficient binding to alpha-tubulin.
Probab=34.84 E-value=26 Score=31.97 Aligned_cols=21 Identities=24% Similarity=0.453 Sum_probs=18.8
Q ss_pred eecCCceeeeecCCCceEEEe
Q psy10054 845 FKDSNSLAYYNITPGTKVHLQ 865 (910)
Q Consensus 845 ~~~~~~~~~~~~~~~~~~~~~ 865 (910)
-+|..+|+||++.+|.+|++.
T Consensus 59 ~~d~~~L~~y~~~dg~~IhVv 79 (84)
T cd01789 59 DDDDALLGSYPVDDGCRIHVI 79 (84)
T ss_pred CCCccEeeeccCCCCCEEEEE
Confidence 489999999999999999873
No 45
>smart00250 PLEC Plectin repeat.
Probab=33.88 E-value=33 Score=26.88 Aligned_cols=27 Identities=37% Similarity=0.647 Sum_probs=21.9
Q ss_pred CceeecCCCCCccChhhHHHHhHhhcCCch
Q psy10054 767 DEFLISPITGEKIPASKVQEHMRIGLLDPR 796 (910)
Q Consensus 767 ~~~~~~PitGe~Ip~~e~~eHmRi~LLDP~ 796 (910)
..-.++|.||+++++.+. ++-+|+|+.
T Consensus 10 ~~Giidp~t~~~lsv~eA---~~~glid~~ 36 (38)
T smart00250 10 IGGIIDPETGQKLSVEEA---LRRGLIDPE 36 (38)
T ss_pred eeEEEcCCCCCCcCHHHH---HHcCCCCcc
Confidence 458999999999998765 455898874
No 46
>KOG0965|consensus
Probab=33.64 E-value=10 Score=47.05 Aligned_cols=58 Identities=16% Similarity=0.181 Sum_probs=51.1
Q ss_pred ChhHHHHHHHHHHHHHhccHHHHHHHHHhccCCCCccccCC-CCCCChHHHHHHHHHhc
Q psy10054 27 PPEVRNIVDKTANFVARNGPEFESRIRQNEIGNPKFNFLSP-GDPYHAYYQHRVKDIRE 84 (910)
Q Consensus 27 PpeIR~IIdKTA~fVAKnG~eFE~rIr~~e~~NpkFsFL~p-~dPYH~YYq~kL~e~r~ 84 (910)
-++.|-+|++.+.|++-.|.+++-+.+.--+.||.|.||.. +.-.+.||+.++.+++.
T Consensus 529 ~a~~rvv~~i~~~~~~~~~~~L~~~~~tl~k~~pa~~Flsd~ns~e~~yyk~k~aeI~~ 587 (988)
T KOG0965|consen 529 RADHRVVGTIDQLVKRVIEGSLSPKERTLLKEDPAYWFLSDENSLEYKYYKLKLAEIQR 587 (988)
T ss_pred CCCceeeeehhhhHHhhccccccHHHHHHhhhchhhhhhcchhhhHHHHhccccHHHHH
Confidence 35677899999999999999999999998899999999985 56689999999999873
No 47
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=33.16 E-value=30 Score=29.01 Aligned_cols=22 Identities=23% Similarity=0.321 Sum_probs=17.5
Q ss_pred eeecCCCCCccChhhHHHHhHh
Q psy10054 769 FLISPITGEKIPASKVQEHMRI 790 (910)
Q Consensus 769 ~~~~PitGe~Ip~~e~~eHmRi 790 (910)
...||+||+...+..|.+|+..
T Consensus 2 ~f~CP~C~~~~~~~~L~~H~~~ 23 (54)
T PF05605_consen 2 SFTCPYCGKGFSESSLVEHCED 23 (54)
T ss_pred CcCCCCCCCccCHHHHHHHHHh
Confidence 4578899988888888888654
No 48
>PF14205 Cys_rich_KTR: Cysteine-rich KTR
Probab=32.32 E-value=25 Score=30.63 Aligned_cols=12 Identities=42% Similarity=0.977 Sum_probs=9.9
Q ss_pred CceeecCCCCCc
Q psy10054 767 DEFLISPITGEK 778 (910)
Q Consensus 767 ~~~~~~PitGe~ 778 (910)
..|++||+||-+
T Consensus 2 ~~Wi~CP~CgnK 13 (55)
T PF14205_consen 2 SEWILCPICGNK 13 (55)
T ss_pred CeEEECCCCCCc
Confidence 569999999943
No 49
>PF00681 Plectin: Plectin repeat; InterPro: IPR001101 Plectin may have a role in cross-linking intermediate filaments, in inter-linking intermediate filaments with microtubules and microfilaments and in anchoring intermediate filaments to the plasma and nuclear membranes. Plectin is recruited into hemidesmosomes, multiprotein complexes that facilitate adhesion of epithelia to the basement membrane, thereby providing linkage between the intracellular keratin filaments to the laminins of the extracellular matrix. Plectin binds to hemidesmosomes through association of its actin-binding domain with the first pair of fibronectin type III repeats and a small part of the connecting segment of the integrin-beta4 subunit, the latter (integrin-alpha6,beta4) acting as a receptor for the extracellular matrix component laminin-5. The plectin repeat is also seen in the cell adhesion junction plaque proteins, desmoplakin, envoplakin, and bullous pemphigoid antigen. The domains in plakins show considerable sequence homology. The N terminus consists of a plakin domain containing a number of subdomains with high alpha-helical content, while the central coiled-coil domain is composed of heptad repeats involved in the dimerisation of plakin, and the C terminus contains one or more homologous repeat sequences referred to plectin repeats []. This entry represents the plectin repeats found in the C terminus of plakin proteins.; GO: 0005856 cytoskeleton; PDB: 1LM7_A 1LM5_A.
Probab=29.69 E-value=33 Score=27.94 Aligned_cols=28 Identities=29% Similarity=0.526 Sum_probs=23.0
Q ss_pred eeecCCCCCccChhhHHHHhHhhcCCchhHH
Q psy10054 769 FLISPITGEKIPASKVQEHMRIGLLDPRWVE 799 (910)
Q Consensus 769 ~~~~PitGe~Ip~~e~~eHmRi~LLDP~wkE 799 (910)
-.|.|-||+++++++--.+ +|+|+....
T Consensus 12 Giidp~tg~~lsv~~A~~~---glId~~~~~ 39 (45)
T PF00681_consen 12 GIIDPETGERLSVEEAIQR---GLIDSDTAQ 39 (45)
T ss_dssp SEEETTTTEEEEHHHHHHT---TSS-HHHHH
T ss_pred eEEeCCCCeEEcHHHHHHC---CCcCHHHHH
Confidence 5789999999999988777 999987643
No 50
>PF06936 Selenoprotein_S: Selenoprotein S (SelS); InterPro: IPR009703 This family consists of several mammalian selenoprotein S (SelS) sequences. SelS is a plasma membrane protein and is present in a variety of tissues and cell types. These proteins are involved in the degradation process of misfolded endoplasmic reticulum (ER) luminal proteins which participate in the transfer of misfolded proteins from the ER to the cytosol, where they are destroyed by the proteasome in a ubiquitin-dependent manner []. They probably serve as a linker between DER1, which mediates the retro-translocation of misfolded proteins into the cytosol, and the ATPase complex VCP, which mediates the translocation and ubiquitination.; GO: 0008430 selenium binding, 0006886 intracellular protein transport, 0030176 integral to endoplasmic reticulum membrane; PDB: 2Q2F_A.
Probab=28.61 E-value=1e+02 Score=32.78 Aligned_cols=26 Identities=23% Similarity=0.327 Sum_probs=0.0
Q ss_pred CChhhHHHHHHHHH-HHHHcChHHHHH
Q psy10054 137 ISALDLDIVKLTAQ-FVARNGRGFLTS 162 (910)
Q Consensus 137 Isa~DLdIIKlTAq-FVArnG~~Fl~~ 162 (910)
+-..+|..+..|.. |++.||...+-.
T Consensus 17 ~~~~~~~~l~~tv~~~L~~yGWyil~~ 43 (190)
T PF06936_consen 17 LENEDLSFLQSTVGSFLSSYGWYILFG 43 (190)
T ss_dssp ---------------------------
T ss_pred CcchhHHHHHHHHHHHHHHhCHHHHHH
Confidence 33345556655555 999999975533
No 51
>cd01799 Hoil1_N Ubiquitin-like domain of HOIL1. HOIL1_N HOIL-1 (heme-oxidized IRP2 ubiquitin ligase-1) is an E3 ubiquitin-protein ligase that recognizes heme-oxidized IRP2 (iron regulatory protein2) and is thought to affect the turnover of oxidatively damaged proteins. Hoil-1 has an amino-terminal ubiquitin-like domain as well as an RBR signature consisting of two RING finger domains separated by an IBR/DRIL domain.
Probab=27.30 E-value=32 Score=30.91 Aligned_cols=21 Identities=24% Similarity=0.363 Sum_probs=19.1
Q ss_pred ecCCceeeeecC-CCceEEEee
Q psy10054 846 KDSNSLAYYNIT-PGTKVHLQL 866 (910)
Q Consensus 846 ~~~~~~~~~~~~-~~~~~~~~~ 866 (910)
+|..+|++|++. +|.+|+|.|
T Consensus 53 dD~~tL~~ygi~~~g~~~~l~~ 74 (75)
T cd01799 53 RDQETLYSHGIRTNGDSAFLYI 74 (75)
T ss_pred CCcCCHHHcCCCCCCCEEEEEe
Confidence 588999999999 999999976
No 52
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=27.09 E-value=40 Score=28.24 Aligned_cols=22 Identities=14% Similarity=0.437 Sum_probs=18.5
Q ss_pred ceeecCCCCCccChhhHHHHhHh
Q psy10054 768 EFLISPITGEKIPASKVQEHMRI 790 (910)
Q Consensus 768 ~~~~~PitGe~Ip~~e~~eHmRi 790 (910)
+..+||||...+.. .|..||++
T Consensus 30 ~~v~CPiC~~~~~~-~l~~Hl~~ 51 (54)
T PF05605_consen 30 KNVVCPICSSRVTD-NLIRHLNS 51 (54)
T ss_pred CCccCCCchhhhhh-HHHHHHHH
Confidence 36899999999874 89999975
No 53
>TIGR00601 rad23 UV excision repair protein Rad23. All proteins in this family for which functions are known are components of a multiprotein complex used for targeting nucleotide excision repair to specific parts of the genome. In humans, Rad23 complexes with the XPC protein. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=26.78 E-value=33 Score=39.86 Aligned_cols=30 Identities=17% Similarity=0.264 Sum_probs=27.4
Q ss_pred hccceeeecCCceeeeecCCCceEEEeeec
Q psy10054 839 QETGLFFKDSNSLAYYNITPGTKVHLQLKE 868 (910)
Q Consensus 839 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 868 (910)
.|.|-.++|+.+|..||+..|.+|.|.++.
T Consensus 47 Iy~GkiL~Dd~tL~dy~I~e~~~Ivvmv~k 76 (378)
T TIGR00601 47 IYSGKILSDDKTVREYKIKEKDFVVVMVSK 76 (378)
T ss_pred EECCEECCCCCcHHHcCCCCCCEEEEEecc
Confidence 588999999999999999999999998764
No 54
>PF09889 DUF2116: Uncharacterized protein containing a Zn-ribbon (DUF2116); InterPro: IPR019216 This entry contains various hypothetical prokaryotic proteins whose functions are unknown. They contain a conserved zinc ribbon motif in the N-terminal part and a predicted transmembrane segment in the C-terminal part.
Probab=25.37 E-value=34 Score=30.12 Aligned_cols=13 Identities=31% Similarity=0.741 Sum_probs=11.5
Q ss_pred ecCCCCCccChhh
Q psy10054 771 ISPITGEKIPASK 783 (910)
Q Consensus 771 ~~PitGe~Ip~~e 783 (910)
-||+||..||.++
T Consensus 5 HC~~CG~~Ip~~~ 17 (59)
T PF09889_consen 5 HCPVCGKPIPPDE 17 (59)
T ss_pred cCCcCCCcCCcch
Confidence 4999999999875
No 55
>cd01814 NTGP5 Ubiquitin-like NTGP5 and ATGP4. NTGP5 and ATGP4 are plant-specific isoprenylated GTP-binding proteins with a single fold that resembles ubiquitin. The function of these proteins is unknown.
Probab=24.74 E-value=48 Score=32.73 Aligned_cols=37 Identities=14% Similarity=0.181 Sum_probs=31.5
Q ss_pred hccceeeecCCceeeee------cCCCceEEEeeecccCcccC
Q psy10054 839 QETGLFFKDSNSLAYYN------ITPGTKVHLQLKERGGRKKS 875 (910)
Q Consensus 839 ~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~ 875 (910)
+|.|=+++|+.||+-|| ...++|++|.|..-.-.+++
T Consensus 56 IysGKiLeD~~TL~d~~~p~g~~~~~~~TmHvvlr~~~~~~~~ 98 (113)
T cd01814 56 ISAGKILENSKTVGECRSPVGDIAGGVITMHVVVQPPLADKKT 98 (113)
T ss_pred EeCCeecCCCCcHHHhCCcccccCCCceEEEEEecCCCCCccc
Confidence 68899999999999999 66779999998877666664
No 56
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=22.76 E-value=90 Score=27.17 Aligned_cols=26 Identities=27% Similarity=0.491 Sum_probs=16.7
Q ss_pred CCceeecCCCCCccChh-hHHHHhHhh
Q psy10054 766 TDEFLISPITGEKIPAS-KVQEHMRIG 791 (910)
Q Consensus 766 ~~~~~~~PitGe~Ip~~-e~~eHmRi~ 791 (910)
...-.+||+||-.|+.+ .|..||.|-
T Consensus 21 S~~PatCP~C~a~~~~srnLrRHle~~ 47 (54)
T PF09237_consen 21 SEQPATCPICGAVIRQSRNLRRHLEIR 47 (54)
T ss_dssp TS--EE-TTT--EESSHHHHHHHHHHH
T ss_pred cCCCCCCCcchhhccchhhHHHHHHHH
Confidence 45678999999999865 588998763
No 57
>KOG0010|consensus
Probab=20.42 E-value=54 Score=39.30 Aligned_cols=49 Identities=27% Similarity=0.434 Sum_probs=38.0
Q ss_pred hhhccceeeecCCceeeeecCCCceEEEeeecccCc--ccCCCCCccCCCC
Q psy10054 837 INQETGLFFKDSNSLAYYNITPGTKVHLQLKERGGR--KKSLQPDFSQGLP 885 (910)
Q Consensus 837 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~ 885 (910)
.-+|-|--+||.-||..|.+..|-||+|.+|---+- --+.-|.++..+|
T Consensus 56 vLIfaGrILKD~dTL~~~gI~Dg~TvHLVik~~~~~~~~~t~ap~~t~~~P 106 (493)
T KOG0010|consen 56 VLIYAGRILKDDDTLKQYGIQDGHTVHLVIKSQPRPTGTATSAPSSTASTP 106 (493)
T ss_pred eeeecCccccChhhHHHcCCCCCcEEEEEeccCCCCCCccccccccccCCC
Confidence 347899999999999999999999999998853211 2235567777777
Done!