Query 031615
Match_columns 156
No_of_seqs 105 out of 157
Neff 4.3
Searched_HMMs 46136
Date Fri Mar 29 02:59:22 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/031615.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/031615hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF06487 SAP18: Sin3 associate 100.0 8.3E-61 1.8E-65 365.6 11.8 118 35-155 2-120 (120)
2 KOG3391 Transcriptional co-rep 100.0 1.1E-54 2.3E-59 339.8 10.6 119 35-156 16-136 (151)
3 PF11976 Rad60-SLD: Ubiquitin- 90.4 0.51 1.1E-05 31.4 4.0 61 72-155 12-72 (72)
4 PF00240 ubiquitin: Ubiquitin 87.1 2.2 4.9E-05 27.9 5.3 60 72-155 7-66 (69)
5 cd01763 Sumo Small ubiquitin-r 79.3 9.9 0.00021 26.8 6.3 60 72-155 23-82 (87)
6 cd01805 RAD23_N Ubiquitin-like 73.4 15 0.00033 24.5 5.7 61 72-155 12-73 (77)
7 PF13881 Rad60-SLD_2: Ubiquiti 68.3 13 0.00029 28.0 4.9 52 80-150 23-76 (111)
8 cd01803 Ubiquitin Ubiquitin. U 63.4 23 0.00049 23.2 4.9 58 72-155 12-71 (76)
9 cd01808 hPLIC_N Ubiquitin-like 62.1 24 0.00051 23.5 4.8 57 75-155 14-70 (71)
10 PLN03132 NADH dehydrogenase (u 59.0 8.4 0.00018 35.9 2.8 34 58-95 50-83 (461)
11 cd01792 ISG15_repeat1 ISG15 ub 56.2 38 0.00083 23.2 5.1 61 73-155 15-75 (80)
12 PF08845 SymE_toxin: Toxin Sym 53.2 8.1 0.00018 26.1 1.3 19 137-155 30-48 (57)
13 PF12078 DUF3557: Domain of un 47.7 47 0.001 24.8 4.8 40 68-108 113-152 (154)
14 PF11543 UN_NPL4: Nuclear pore 43.7 32 0.0007 24.3 3.2 74 44-153 4-77 (80)
15 cd01770 p47_UBX p47-like ubiqu 42.9 41 0.0009 23.5 3.7 49 79-147 23-71 (79)
16 PF08825 E2_bind: E2 binding d 38.1 26 0.00056 25.3 2.0 17 137-154 53-69 (84)
17 cd01807 GDX_N ubiquitin-like d 38.0 96 0.0021 20.7 4.7 60 72-155 12-71 (74)
18 PLN02560 enoyl-CoA reductase 37.5 78 0.0017 27.8 5.3 60 78-153 21-80 (308)
19 cd01767 UBX UBX (ubiquitin reg 37.1 96 0.0021 20.9 4.7 49 79-147 21-69 (77)
20 cd01806 Nedd8 Nebb8-like ubiq 36.9 27 0.00059 22.9 1.9 53 79-155 19-71 (76)
21 cd01797 NIRF_N amino-terminal 36.6 27 0.00058 24.2 1.9 53 79-155 21-73 (78)
22 cd01772 SAKS1_UBX SAKS1-like U 36.1 95 0.0021 21.4 4.6 55 79-153 23-77 (79)
23 TIGR00601 rad23 UV excision re 36.0 1.1E+02 0.0023 27.8 6.0 57 76-155 16-74 (378)
24 PF00789 UBX: UBX domain; Int 35.9 1.2E+02 0.0025 20.5 5.0 62 73-153 19-80 (82)
25 PRK13605 endoribonuclease SymE 34.9 23 0.00051 27.4 1.4 19 138-156 45-63 (113)
26 cd05992 PB1 The PB1 domain is 33.7 93 0.002 20.6 4.1 33 79-116 19-51 (81)
27 cd01810 ISG15_repeat2 ISG15 ub 33.0 34 0.00075 22.9 1.9 21 135-155 49-69 (74)
28 cd01798 parkin_N amino-termina 32.9 1.3E+02 0.0029 19.7 4.8 59 72-154 10-68 (70)
29 PF01157 Ribosomal_L21e: Ribos 31.8 25 0.00055 26.4 1.1 13 143-155 31-43 (99)
30 cd01815 BMSC_UbP_N Ubiquitin-l 31.7 48 0.001 23.6 2.5 55 78-154 18-73 (75)
31 cd01800 SF3a120_C Ubiquitin-li 30.2 39 0.00085 22.9 1.8 53 79-155 16-68 (76)
32 cd01814 NTGP5 Ubiquitin-like N 29.8 40 0.00087 26.0 2.0 58 79-153 24-81 (113)
33 cd01799 Hoil1_N Ubiquitin-like 29.6 43 0.00094 23.2 2.0 61 72-156 14-75 (75)
34 cd01804 midnolin_N Ubiquitin-l 28.9 95 0.0021 21.2 3.6 52 79-155 20-71 (78)
35 cd01791 Ubl5 UBL5 ubiquitin-li 27.6 1E+02 0.0023 21.1 3.6 51 79-153 20-70 (73)
36 cd04910 ACT_AK-Ectoine_1 ACT d 26.9 63 0.0014 22.6 2.4 30 69-98 38-68 (71)
37 KOG3141 Mitochondrial/chloropl 26.6 54 0.0012 29.3 2.4 18 137-154 155-172 (310)
38 KOG0476 Cl- channel CLC-2 and 25.8 41 0.00089 33.9 1.7 53 34-93 563-617 (931)
39 PRK04306 50S ribosomal protein 25.2 47 0.001 24.9 1.6 12 144-155 34-45 (98)
40 smart00166 UBX Domain present 24.6 2.3E+02 0.005 19.2 5.3 62 73-153 17-78 (80)
41 PF08817 YukD: WXG100 protein 24.1 51 0.0011 22.6 1.5 57 79-153 21-78 (79)
42 PF10490 CENP-F_C_Rb_bdg: Rb-b 24.1 43 0.00093 22.4 1.1 14 36-49 27-40 (49)
43 cd01793 Fubi Fubi ubiquitin-li 23.4 66 0.0014 21.5 1.9 55 77-155 15-69 (74)
44 KOG1924 RhoA GTPase effector D 23.3 67 0.0014 32.8 2.6 13 136-148 697-709 (1102)
45 PF07405 DUF1506: Protein of u 22.9 31 0.00067 27.1 0.2 17 138-154 83-99 (127)
46 cd01801 Tsc13_N Ubiquitin-like 22.8 2.5E+02 0.0054 18.9 4.9 55 78-153 20-74 (77)
47 cd01802 AN1_N ubiquitin-like d 22.6 65 0.0014 23.7 1.9 60 72-155 39-98 (103)
48 cd01764 Urm1 Urm1-like ubuitin 22.4 1.2E+02 0.0026 21.9 3.3 25 74-98 22-46 (94)
49 PF12327 FtsZ_C: FtsZ family, 22.1 2E+02 0.0044 20.6 4.4 38 73-111 41-78 (95)
50 cd01796 DDI1_N DNA damage indu 21.4 72 0.0016 21.4 1.8 53 78-153 17-69 (71)
51 PTZ00044 ubiquitin; Provisiona 21.3 77 0.0017 20.9 1.9 53 79-155 19-71 (76)
52 cd05693 S1_Rrp5_repeat_hs1_sc1 21.2 58 0.0013 23.6 1.4 14 143-156 65-78 (100)
53 PF08620 RPAP1_C: RPAP1-like, 21.0 50 0.0011 23.5 1.0 19 80-98 38-56 (73)
54 PF04967 HTH_10: HTH DNA bindi 20.8 75 0.0016 21.1 1.7 16 76-91 18-34 (53)
55 PF06277 EutA: Ethanolamine ut 20.1 56 0.0012 30.8 1.4 18 136-153 436-453 (473)
56 cd01788 ElonginB Ubiquitin-lik 20.0 71 0.0015 25.0 1.7 12 134-145 51-62 (119)
No 1
>PF06487 SAP18: Sin3 associated polypeptide p18 (SAP18); InterPro: IPR010516 This family consists of several eukaryotic Sin3 associated polypeptide p18 (SAP18) sequences. SAP18 is known to be a component of the Sin3-containing complex, which is responsible for the repression of transcription via the modification of histone polypeptides []. SAP18 is also present in the ASAP complex which is thought to be involved in the regulation of splicing during the execution of programmed cell death [].; PDB: 2HDE_A 4A90_A 4A6Q_A 4A8X_C.
Probab=100.00 E-value=8.3e-61 Score=365.55 Aligned_cols=118 Identities=58% Similarity=1.027 Sum_probs=96.3
Q ss_pred CCCCccCCCCcEEEEEeccCCCCCCcccccCCCCCCCceeeeecCCCCHHHHHHHHHhhCccccCCCceEEEEEEeeCCC
Q 031615 35 EPVDREKTCPLLLRVFTKIGGHHSREDFAVRGKEPKDEVQIYTWKDATLRELTDLVKEVAPAARRRDARLSFAFVYPDKN 114 (156)
Q Consensus 35 ~~iDRektcPFLLRvF~~~g~hh~~~dF~~~g~lP~~ElQIYTW~DaTLrEL~~Llk~~~p~ar~~gtrlsFr~VYpD~~ 114 (156)
++|||||||||||||||++|+||+++||+. |++|.||||||||+|||||||++|||+++|++|++||+|+|++||||.+
T Consensus 2 ~~idRektcPfLLRvF~~~g~~h~~~dF~~-~~~P~~elqIYtW~d~TLrEL~~Lik~~~~~~r~~~tr~~F~~VypD~~ 80 (120)
T PF06487_consen 2 KPIDREKTCPFLLRVFYRNGRHHRLDDFSR-GSLPRNELQIYTWMDATLRELADLIKDVNPPARRRGTRLSFRLVYPDTR 80 (120)
T ss_dssp ----CCCS--EEEEEEESSSS---GGGCGC-CS-TTTEEEEEE-TT-BHHHHHHHHHHH-HHHHSTT-EEEEEEEEECTT
T ss_pred CCcccCCCCCeEEEEEEecCCCCCHHHccC-CCCCcCeeEEEEcccCCHHHHHHHHHHhCcccCCCCCEEEEEEEeecCC
Confidence 579999999999999999999999999996 9999999999999999999999999999999999999999999999965
Q ss_pred -CCceeeecceEeecCCCCCCCccccccccCcccCcEEEEEe
Q 031615 115 -GRFMVREVGKTFSYEGRRQLDDGKMLAELGFEIGDYLDVAI 155 (156)
Q Consensus 115 -gr~~~kdlGsv~~g~~~~~~dd~kTL~d~rF~iGDyidvAI 155 (156)
|+|.+||||+|++|.++ .||+|||++++|+|||||||||
T Consensus 81 ~~r~~~kdlGsv~~g~~~--~d~~kTL~~~~F~iGDyidvaI 120 (120)
T PF06487_consen 81 SGRYVSKDLGSVVSGRKG--PDDNKTLADLRFVIGDYIDVAI 120 (120)
T ss_dssp TTCEEEEEEEEEETTB----TTTTSBCGGGT--TT-EEEEEE
T ss_pred CCceeeecCCeEECCCCC--CCcccCHhhCCcccCCEEEEeC
Confidence 99999999999999988 5899999999999999999998
No 2
>KOG3391 consensus Transcriptional co-repressor component [Transcription]
Probab=100.00 E-value=1.1e-54 Score=339.84 Aligned_cols=119 Identities=60% Similarity=0.981 Sum_probs=114.9
Q ss_pred CCCCccCCCCcEEEEEec-cCCCCCCcccccCCCCCCCceeeeecCCCCHHHHHHHHHhhCccccCCCceEEEEEEeeCC
Q 031615 35 EPVDREKTCPLLLRVFTK-IGGHHSREDFAVRGKEPKDEVQIYTWKDATLRELTDLVKEVAPAARRRDARLSFAFVYPDK 113 (156)
Q Consensus 35 ~~iDRektcPFLLRvF~~-~g~hh~~~dF~~~g~lP~~ElQIYTW~DaTLrEL~~Llk~~~p~ar~~gtrlsFr~VYpD~ 113 (156)
++||||||||||||||++ +|+||.+|||+. |++|++||||||||||||+||+.||||++|++|++||.|+|++||+|.
T Consensus 16 ~piDrektCPlLlrVf~~~~g~hH~~def~~-g~vPs~elQiYtW~datL~ELtsLvkevnpeaR~kgt~f~fa~Vf~d~ 94 (151)
T KOG3391|consen 16 KPIDREKTCPLLLRVFTQFNGRHHVMDEFED-GNVPSSELQIYTWMDATLRELTSLVKEVNPEARKKGTSFDFAVVFPDK 94 (151)
T ss_pred CcccccccCcceeeeeeecCCCCcchhhhhc-CCCCchheeEeehhhhhHHHHHHHHHHcCHHHhccCceEEEEEEeccC
Confidence 689999999999999999 999999999995 999999999999999999999999999999999999999999999998
Q ss_pred C-CCceeeecceEeecCCCCCCCccccccccCcccCcEEEEEeC
Q 031615 114 N-GRFMVREVGKTFSYEGRRQLDDGKMLAELGFEIGDYLDVAIL 156 (156)
Q Consensus 114 ~-gr~~~kdlGsv~~g~~~~~~dd~kTL~d~rF~iGDyidvAI~ 156 (156)
+ .+|.+||||++++|+++ .||+|||++++|+|||||||||.
T Consensus 95 ~~~~y~~RevG~t~~g~Kg--~ddnktL~~~kf~iGD~lDVaI~ 136 (151)
T KOG3391|consen 95 KSPRYIVREVGTTCLGRKG--IDDNKTLQQTKFEIGDYLDVAIT 136 (151)
T ss_pred CCCCceeeeecccccCccc--CCccchhhhCCccccceEEEEec
Confidence 6 59999999999999998 69999999999999999999994
No 3
>PF11976 Rad60-SLD: Ubiquitin-2 like Rad60 SUMO-like; InterPro: IPR022617 This entry includes small ubiquitin-related modifier (SUMO) proteins. SUMOs are small proteins that are covalently attached to lysines as post-translational modifications and are used to control multiple cellular process including signal transduction, nuclear transport and DNA replication and repair []. Unlike ubiquitin, they are not involved in protein degradation. This entry also contains the C-terminal Rad60 DNA repair protein SUMO-like domain.; PDB: 3RD2_A 2JXX_A 3RCZ_A 3GOE_A 3A4S_D 3A4R_B 2IO1_D 1U4A_A 2K1F_A 1WZ0_A ....
Probab=90.41 E-value=0.51 Score=31.43 Aligned_cols=61 Identities=30% Similarity=0.399 Sum_probs=39.8
Q ss_pred ceeeeecCCCCHHHHHHHHHhhCccccCCCceEEEEEEeeCCCCCceeeecceEeecCCCCCCCccccccccCcccCcEE
Q 031615 72 EVQIYTWKDATLRELTDLVKEVAPAARRRDARLSFAFVYPDKNGRFMVREVGKTFSYEGRRQLDDGKMLAELGFEIGDYL 151 (156)
Q Consensus 72 ElQIYTW~DaTLrEL~~Llk~~~p~ar~~gtrlsFr~VYpD~~gr~~~kdlGsv~~g~~~~~~dd~kTL~d~rF~iGDyi 151 (156)
++++...++.|+++|.....+..--......+|.|. |... ++++|+++++..-||.|
T Consensus 12 ~~~~~v~~~~~~~~l~~~~~~~~~i~~~~~~~l~fd---------------G~~L--------~~~~T~~~~~ied~d~I 68 (72)
T PF11976_consen 12 EIKFKVKPTTTVSKLIEKYCEKKGIPPEESIRLIFD---------------GKRL--------DPNDTPEDLGIEDGDTI 68 (72)
T ss_dssp EEEEEEETTSCCHHHHHHHHHHHTTTT-TTEEEEET---------------TEEE---------TTSCHHHHT-STTEEE
T ss_pred EEEEEECCCCcHHHHHHHHHHhhCCCccceEEEEEC---------------CEEc--------CCCCCHHHCCCCCCCEE
Confidence 678888899999999988776432111122222221 3222 46689999999999999
Q ss_pred EEEe
Q 031615 152 DVAI 155 (156)
Q Consensus 152 dvAI 155 (156)
+|.|
T Consensus 69 dv~I 72 (72)
T PF11976_consen 69 DVII 72 (72)
T ss_dssp EEE-
T ss_pred EEEC
Confidence 9986
No 4
>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=87.07 E-value=2.2 Score=27.89 Aligned_cols=60 Identities=25% Similarity=0.396 Sum_probs=42.5
Q ss_pred ceeeeecCCCCHHHHHHHHHhhCccccCCCceEEEEEEeeCCCCCceeeecceEeecCCCCCCCccccccccCcccCcEE
Q 031615 72 EVQIYTWKDATLRELTDLVKEVAPAARRRDARLSFAFVYPDKNGRFMVREVGKTFSYEGRRQLDDGKMLAELGFEIGDYL 151 (156)
Q Consensus 72 ElQIYTW~DaTLrEL~~Llk~~~p~ar~~gtrlsFr~VYpD~~gr~~~kdlGsv~~g~~~~~~dd~kTL~d~rF~iGDyi 151 (156)
.+.|-...+.|+.||=..|.+...- ... ..+++|- |.+ .+|++||.++++.-|+.|
T Consensus 7 ~~~~~v~~~~tV~~lK~~i~~~~~~-~~~----~~~L~~~-----------G~~--------L~d~~tL~~~~i~~~~~I 62 (69)
T PF00240_consen 7 TFTLEVDPDDTVADLKQKIAEETGI-PPE----QQRLIYN-----------GKE--------LDDDKTLSDYGIKDGSTI 62 (69)
T ss_dssp EEEEEEETTSBHHHHHHHHHHHHTS-TGG----GEEEEET-----------TEE--------ESTTSBTGGGTTSTTEEE
T ss_pred EEEEEECCCCCHHHhhhhccccccc-ccc----cceeeee-----------eec--------ccCcCcHHHcCCCCCCEE
Confidence 5788888999999999999986431 111 1223332 222 357899999999999999
Q ss_pred EEEe
Q 031615 152 DVAI 155 (156)
Q Consensus 152 dvAI 155 (156)
.+.+
T Consensus 63 ~l~~ 66 (69)
T PF00240_consen 63 HLVI 66 (69)
T ss_dssp EEEE
T ss_pred EEEE
Confidence 8865
No 5
>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=79.29 E-value=9.9 Score=26.75 Aligned_cols=60 Identities=23% Similarity=0.398 Sum_probs=39.9
Q ss_pred ceeeeecCCCCHHHHHHHHHhhCccccCCCceEEEEEEeeCCCCCceeeecceEeecCCCCCCCccccccccCcccCcEE
Q 031615 72 EVQIYTWKDATLRELTDLVKEVAPAARRRDARLSFAFVYPDKNGRFMVREVGKTFSYEGRRQLDDGKMLAELGFEIGDYL 151 (156)
Q Consensus 72 ElQIYTW~DaTLrEL~~Llk~~~p~ar~~gtrlsFr~VYpD~~gr~~~kdlGsv~~g~~~~~~dd~kTL~d~rF~iGDyi 151 (156)
++.+=.=++.||+.|...+.+..--. .. .++|+|- |.- -+++.|+.+++.+-||.|
T Consensus 23 ~~~~~v~~~~~l~~l~~~y~~~~gi~-~~----~~rf~f~-----------G~~--------L~~~~T~~~l~m~d~d~I 78 (87)
T cd01763 23 EVFFKIKRSTPLKKLMEAYCQRQGLS-MN----SVRFLFD-----------GQR--------IRDNQTPDDLGMEDGDEI 78 (87)
T ss_pred EEEEEEcCCCHHHHHHHHHHHHhCCC-cc----ceEEEEC-----------CeE--------CCCCCCHHHcCCCCCCEE
Confidence 34444457899999998888753211 12 3444432 211 356789999999999999
Q ss_pred EEEe
Q 031615 152 DVAI 155 (156)
Q Consensus 152 dvAI 155 (156)
+|.+
T Consensus 79 ~v~l 82 (87)
T cd01763 79 EVML 82 (87)
T ss_pred EEEE
Confidence 9975
No 6
>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=73.37 E-value=15 Score=24.45 Aligned_cols=61 Identities=25% Similarity=0.351 Sum_probs=39.7
Q ss_pred ceeeeecCCCCHHHHHHHHHhhCccc-cCCCceEEEEEEeeCCCCCceeeecceEeecCCCCCCCccccccccCcccCcE
Q 031615 72 EVQIYTWKDATLRELTDLVKEVAPAA-RRRDARLSFAFVYPDKNGRFMVREVGKTFSYEGRRQLDDGKMLAELGFEIGDY 150 (156)
Q Consensus 72 ElQIYTW~DaTLrEL~~Llk~~~p~a-r~~gtrlsFr~VYpD~~gr~~~kdlGsv~~g~~~~~~dd~kTL~d~rF~iGDy 150 (156)
.+.+....+.|..||=..|.+..--. ... ..+++|. |.+ -+|++||++++..-||.
T Consensus 12 ~~~l~v~~~~TV~~lK~~i~~~~~i~~~~~----~q~L~~~-----------G~~--------L~d~~~L~~~~i~~~~~ 68 (77)
T cd01805 12 TFPIEVDPDDTVAELKEKIEEEKGCDYPPE----QQKLIYS-----------GKI--------LKDDTTLEEYKIDEKDF 68 (77)
T ss_pred EEEEEECCCCcHHHHHHHHHHhhCCCCChh----HeEEEEC-----------CEE--------ccCCCCHHHcCCCCCCE
Confidence 45566778899999999998753100 000 1233331 221 35669999999999999
Q ss_pred EEEEe
Q 031615 151 LDVAI 155 (156)
Q Consensus 151 idvAI 155 (156)
|.|.|
T Consensus 69 i~~~~ 73 (77)
T cd01805 69 VVVMV 73 (77)
T ss_pred EEEEE
Confidence 98865
No 7
>PF13881 Rad60-SLD_2: Ubiquitin-2 like Rad60 SUMO-like; PDB: 1SE9_A 1WGH_A 2GOW_A.
Probab=68.27 E-value=13 Score=27.96 Aligned_cols=52 Identities=21% Similarity=0.417 Sum_probs=33.8
Q ss_pred CCCHHHHHHHHHhhCcccc--CCCceEEEEEEeeCCCCCceeeecceEeecCCCCCCCccccccccCcccCcE
Q 031615 80 DATLRELTDLVKEVAPAAR--RRDARLSFAFVYPDKNGRFMVREVGKTFSYEGRRQLDDGKMLAELGFEIGDY 150 (156)
Q Consensus 80 DaTLrEL~~Llk~~~p~ar--~~gtrlsFr~VYpD~~gr~~~kdlGsv~~g~~~~~~dd~kTL~d~rF~iGDy 150 (156)
+.|..+|-.+|.+.-|+.- .+-+-=..++||- |.+ .+|++||.+++|..|+-
T Consensus 23 ~~TV~~lKe~i~~~WP~d~~~~p~s~~~lRLI~~-----------Gri--------L~d~~tL~~~~~~~~~~ 76 (111)
T PF13881_consen 23 STTVADLKERIWAEWPEDWEERPKSPSDLRLIYA-----------GRI--------LEDNKTLSDCRLPSGET 76 (111)
T ss_dssp TSBHHHHHHHHHHSSSTTSSSTT-SGGGEEEEET-----------TEE--------E-SSSBTGGGT--TTSE
T ss_pred cChHHHHHHHHHHHCccccccCCCChhhEEEEeC-----------Cee--------cCCcCcHHHhCCCCCCC
Confidence 6789999999998777532 2333334566665 332 25889999999999996
No 8
>cd01803 Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40e and Ubq/RPS27a fusions as well as homopolymeric multiubiquitin protein chains)
Probab=63.42 E-value=23 Score=23.23 Aligned_cols=58 Identities=16% Similarity=0.408 Sum_probs=39.8
Q ss_pred ceeeeecCCCCHHHHHHHHHhhC--ccccCCCceEEEEEEeeCCCCCceeeecceEeecCCCCCCCccccccccCcccCc
Q 031615 72 EVQIYTWKDATLRELTDLVKEVA--PAARRRDARLSFAFVYPDKNGRFMVREVGKTFSYEGRRQLDDGKMLAELGFEIGD 149 (156)
Q Consensus 72 ElQIYTW~DaTLrEL~~Llk~~~--p~ar~~gtrlsFr~VYpD~~gr~~~kdlGsv~~g~~~~~~dd~kTL~d~rF~iGD 149 (156)
.+.+....+.|+.||-..|.+.. |.. ..+++|. |.. .+|++||.+++.+-|+
T Consensus 12 ~~~~~v~~~~tV~~lK~~i~~~~g~~~~-------~q~L~~~-----------g~~--------L~d~~~L~~~~i~~~~ 65 (76)
T cd01803 12 TITLEVEPSDTIENVKAKIQDKEGIPPD-------QQRLIFA-----------GKQ--------LEDGRTLSDYNIQKES 65 (76)
T ss_pred EEEEEECCcCcHHHHHHHHHHHhCCCHH-------HeEEEEC-----------CEE--------CCCCCcHHHcCCCCCC
Confidence 45567778899999999998753 111 1233331 111 2567999999999999
Q ss_pred EEEEEe
Q 031615 150 YLDVAI 155 (156)
Q Consensus 150 yidvAI 155 (156)
-|.+.+
T Consensus 66 ~i~l~~ 71 (76)
T cd01803 66 TLHLVL 71 (76)
T ss_pred EEEEEE
Confidence 998875
No 9
>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=62.08 E-value=24 Score=23.49 Aligned_cols=57 Identities=21% Similarity=0.356 Sum_probs=38.0
Q ss_pred eeecCCCCHHHHHHHHHhhCccccCCCceEEEEEEeeCCCCCceeeecceEeecCCCCCCCccccccccCcccCcEEEEE
Q 031615 75 IYTWKDATLRELTDLVKEVAPAARRRDARLSFAFVYPDKNGRFMVREVGKTFSYEGRRQLDDGKMLAELGFEIGDYLDVA 154 (156)
Q Consensus 75 IYTW~DaTLrEL~~Llk~~~p~ar~~gtrlsFr~VYpD~~gr~~~kdlGsv~~g~~~~~~dd~kTL~d~rF~iGDyidvA 154 (156)
|-...++|..||=..|.+... . .+-.++++|. |.+ .+|++||.+++..-|+.|.+.
T Consensus 14 l~v~~~~TV~~lK~~I~~~~~-i----~~~~~~Li~~-----------Gk~--------L~d~~tL~~~~i~~~stl~l~ 69 (71)
T cd01808 14 IEIAEDASVKDFKEAVSKKFK-A----NQEQLVLIFA-----------GKI--------LKDTDTLTQHNIKDGLTVHLV 69 (71)
T ss_pred EEECCCChHHHHHHHHHHHhC-C----CHHHEEEEEC-----------CeE--------cCCCCcHHHcCCCCCCEEEEE
Confidence 344678899999999887642 1 1223344442 211 246689999999999998876
Q ss_pred e
Q 031615 155 I 155 (156)
Q Consensus 155 I 155 (156)
+
T Consensus 70 ~ 70 (71)
T cd01808 70 I 70 (71)
T ss_pred E
Confidence 4
No 10
>PLN03132 NADH dehydrogenase (ubiquinone) flavoprotein 1; Provisional
Probab=58.95 E-value=8.4 Score=35.89 Aligned_cols=34 Identities=9% Similarity=-0.129 Sum_probs=22.5
Q ss_pred CCcccccCCCCCCCceeeeecCCCCHHHHHHHHHhhCc
Q 031615 58 SREDFAVRGKEPKDEVQIYTWKDATLRELTDLVKEVAP 95 (156)
Q Consensus 58 ~~~dF~~~g~lP~~ElQIYTW~DaTLrEL~~Llk~~~p 95 (156)
++++|-.+|- .-.+=.|...+-.||.+.|+++--
T Consensus 50 ~l~~y~~~gg----y~~l~~~~~~~p~~ii~~V~~sGL 83 (461)
T PLN03132 50 FLKGAMKRGD----WHRTKDLVLKGPDWIVNEMKKSGL 83 (461)
T ss_pred CHHHHHHcCC----HHHHHHHHhCCHHHHHHHHHHhCC
Confidence 5788875542 113334556788999999999753
No 11
>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=56.19 E-value=38 Score=23.17 Aligned_cols=61 Identities=18% Similarity=0.203 Sum_probs=38.3
Q ss_pred eeeeecCCCCHHHHHHHHHhhCccccCCCceEEEEEEeeCCCCCceeeecceEeecCCCCCCCccccccccCcccCcEEE
Q 031615 73 VQIYTWKDATLRELTDLVKEVAPAARRRDARLSFAFVYPDKNGRFMVREVGKTFSYEGRRQLDDGKMLAELGFEIGDYLD 152 (156)
Q Consensus 73 lQIYTW~DaTLrEL~~Llk~~~p~ar~~gtrlsFr~VYpD~~gr~~~kdlGsv~~g~~~~~~dd~kTL~d~rF~iGDyid 152 (156)
+-+-...++|..||=..|.+..- . ...+..+..+|- |+ ..+|++||.+++..-|+.|.
T Consensus 15 ~~~~v~~~~TV~~lK~~I~~~~~-i--~~~~qrL~~~~~----------------G~---~L~D~~tL~~~gi~~gs~l~ 72 (80)
T cd01792 15 FLVSLRDSMTVSELKQQIAQKIG-V--PAFQQRLAHLDS----------------RE---VLQDGVPLVSQGLGPGSTVL 72 (80)
T ss_pred EEEEcCCCCcHHHHHHHHHHHhC-C--CHHHEEEEeccC----------------CC---CCCCCCCHHHcCCCCCCEEE
Confidence 33444578899999999987531 1 112222222221 11 13567899999999999998
Q ss_pred EEe
Q 031615 153 VAI 155 (156)
Q Consensus 153 vAI 155 (156)
+.+
T Consensus 73 l~~ 75 (80)
T cd01792 73 LVV 75 (80)
T ss_pred EEE
Confidence 765
No 12
>PF08845 SymE_toxin: Toxin SymE, type I toxin-antitoxin system; InterPro: IPR014944 This entry represents a SOS-induced gene whose product shows homology to the antitoxin MazE (SymE), the coding region contains a cis-encoded antisense RNA. The small antisense RNA and the gene have the all the hallmarks of a toxin-antitoxin module. The synthesis of the SymE is tightly repressed at multiple levels; at the transcriptional level by the LexA repressor, at the level of mRNA stability and translation by the SymR RNA and at the level of protein stability by the Lon protease. SymE co-purifies with ribosomes and overproduction of the protein leads to cell growth inhibition, decreased protein synthesis and increased RNA degradation. These properties are shared with several RNA endonuclease toxins of toxin-antitoxin modules. It seems probable that the SymE protein represents an evolutionary derivative of a toxin containing the AbrB fold, whose representatives are typically antitoxins. The SymE promoted cleavage of RNA cleavage may be important for the recycling of RNAs damaged under SOS-inducing conditions []. ; GO: 0003723 RNA binding, 0016788 hydrolase activity, acting on ester bonds, 0016070 RNA metabolic process, 0005737 cytoplasm
Probab=53.17 E-value=8.1 Score=26.12 Aligned_cols=19 Identities=53% Similarity=0.861 Sum_probs=17.0
Q ss_pred cccccccCcccCcEEEEEe
Q 031615 137 GKMLAELGFEIGDYLDVAI 155 (156)
Q Consensus 137 ~kTL~d~rF~iGDyidvAI 155 (156)
.+-|.+++|.+||-|.|.+
T Consensus 30 G~WL~~aGF~~G~~v~V~v 48 (57)
T PF08845_consen 30 GKWLEEAGFTIGDPVKVRV 48 (57)
T ss_pred hhhhHHhCCCCCCEEEEEE
Confidence 3789999999999999876
No 13
>PF12078 DUF3557: Domain of unknown function (DUF3557); InterPro: IPR021942 This presumed domain is functionally uncharacterised. This domain is found in eukaryotes. This domain is about 150 amino acids in length.
Probab=47.71 E-value=47 Score=24.75 Aligned_cols=40 Identities=13% Similarity=0.188 Sum_probs=31.8
Q ss_pred CCCCceeeeecCCCCHHHHHHHHHhhCccccCCCceEEEEE
Q 031615 68 EPKDEVQIYTWKDATLRELTDLVKEVAPAARRRDARLSFAF 108 (156)
Q Consensus 68 lP~~ElQIYTW~DaTLrEL~~Llk~~~p~ar~~gtrlsFr~ 108 (156)
++..++.+- ...-+..|+..+|+.=.-.-|..||+|+|.+
T Consensus 113 l~n~~v~~~-~~~~~~~~~~~li~~W~~~~r~IGt~~sf~~ 152 (154)
T PF12078_consen 113 LRNKRVHLK-NDEFSWDDFLRLIENWIENGRPIGTCFSFGI 152 (154)
T ss_pred CCCCEEEEE-ecCCCHHHHHHHHHHHHhcCCCCcEEEEEEE
Confidence 443356655 5778889999999998788899999999974
No 14
>PF11543 UN_NPL4: Nuclear pore localisation protein NPL4; InterPro: IPR024682 Npl4, along with Ufd1, forms the heterodimer adaptor complex UN, which is involved in the recruitment of p97, an AAA ATPase, for tasks involving the ubiquitin pathway. Npl4 has a N-terminal ubiquitin-like domain which has within its structure a beta-grasp fold with a helical insert []. This entry represents the ubiquitin-like domain.; PDB: 2PJH_A 1WF9_A.
Probab=43.70 E-value=32 Score=24.30 Aligned_cols=74 Identities=28% Similarity=0.430 Sum_probs=36.9
Q ss_pred CcEEEEEeccCCCCCCcccccCCCCCCCceeeeecCCCCHHHHHHHHHhhCccccCCCceEEEEEEeeCCCCCceeeecc
Q 031615 44 PLLLRVFTKIGGHHSREDFAVRGKEPKDEVQIYTWKDATLRELTDLVKEVAPAARRRDARLSFAFVYPDKNGRFMVREVG 123 (156)
Q Consensus 44 PFLLRvF~~~g~hh~~~dF~~~g~lP~~ElQIYTW~DaTLrEL~~Llk~~~p~ar~~gtrlsFr~VYpD~~gr~~~kdlG 123 (156)
-.+|||..+.|-+ |+ ++ =.++|+.+|-..|.+.+.-... +|. +|-|..+. .++
T Consensus 4 ~milRvrS~dG~~-Ri--------------e~--~~~~t~~~L~~kI~~~l~~~~~-----~~~-L~~~~~~~---~~l- 56 (80)
T PF11543_consen 4 SMILRVRSKDGMK-RI--------------EV--SPSSTLSDLKEKISEQLSIPDS-----SQS-LSKDRNNK---EEL- 56 (80)
T ss_dssp --EEEEE-SSEEE-EE--------------EE---TTSBHHHHHHHHHHHS---TT-----T----BSSGGGG---GCS-
T ss_pred cEEEEEECCCCCE-EE--------------Ec--CCcccHHHHHHHHHHHcCCCCc-----ceE-EEecCCCC---ccc-
Confidence 3688998887654 11 11 1578999999999998754322 232 34443211 111
Q ss_pred eEeecCCCCCCCccccccccCcccCcEEEE
Q 031615 124 KTFSYEGRRQLDDGKMLAELGFEIGDYLDV 153 (156)
Q Consensus 124 sv~~g~~~~~~dd~kTL~d~rF~iGDyidv 153 (156)
..++++||+++++.=||.|-+
T Consensus 57 ---------~s~~~~tl~~lglkHGdmlyL 77 (80)
T PF11543_consen 57 ---------KSSDSKTLSSLGLKHGDMLYL 77 (80)
T ss_dssp ---------SS-TT-CCCCT---TT-EEE-
T ss_pred ---------ccCCcCCHHHcCCCCccEEEE
Confidence 024579999999999998855
No 15
>cd01770 p47_UBX p47-like ubiquitin domain. p47_UBX p47 is an adaptor molecule of the cytosolic AAA ATPase p97. The principal role of the p97-p47 complex is to regulate membrane fusion events. Mono-ubiquitin recognition by p47 is crucial for p97-p47-mediated Golgi membrane fusion events. p47 has carboxy-terminal SEP and UBX domains. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.
Probab=42.95 E-value=41 Score=23.53 Aligned_cols=49 Identities=16% Similarity=0.339 Sum_probs=31.7
Q ss_pred CCCCHHHHHHHHHhhCccccCCCceEEEEEEeeCCCCCceeeecceEeecCCCCCCCccccccccCccc
Q 031615 79 KDATLRELTDLVKEVAPAARRRDARLSFAFVYPDKNGRFMVREVGKTFSYEGRRQLDDGKMLAELGFEI 147 (156)
Q Consensus 79 ~DaTLrEL~~Llk~~~p~ar~~gtrlsFr~VYpD~~gr~~~kdlGsv~~g~~~~~~dd~kTL~d~rF~i 147 (156)
.+.|+++|-.-|+...++.. +..|....-|| .|+| .|+++||.|+++.-
T Consensus 23 ~~~tv~~l~~~v~~~~~~~~--~~~f~L~t~fP-------~k~l-----------~~~~~Tl~eagL~~ 71 (79)
T cd01770 23 SSHRVSDVRDFIVNARPEFA--ARPFTLMTAFP-------VKEL-----------SDESLTLKEANLLN 71 (79)
T ss_pred CCCcHHHHHHHHHHhCCCCC--CCCEEEecCCC-------Cccc-----------CCCCCcHHHCCCcC
Confidence 56799999999998655432 34455544466 2233 13478999999773
No 16
>PF08825 E2_bind: E2 binding domain; InterPro: IPR014929 E1 and E2 enzymes play a central role in ubiquitin and ubiquitin-like protein transfer cascades. This is an E2 binding domain that is found on NEDD8 activating E1 enzyme. The protein resembles ubiquitin, and recruits the catalytic core of the E2 enzyme Ubc12 in a similar manner to that in which ubiquitin interacts with ubiquitin binding domains []. ; GO: 0005524 ATP binding, 0016881 acid-amino acid ligase activity, 0045116 protein neddylation; PDB: 3GZN_D 3DBL_F 1R4N_H 1R4M_D 2NVU_B 1TT5_D 3DBR_D 3DBH_H 1YOV_B 3FN1_A ....
Probab=38.14 E-value=26 Score=25.28 Aligned_cols=17 Identities=35% Similarity=0.495 Sum_probs=14.9
Q ss_pred cccccccCcccCcEEEEE
Q 031615 137 GKMLAELGFEIGDYLDVA 154 (156)
Q Consensus 137 ~kTL~d~rF~iGDyidvA 154 (156)
+|+|.|+ ...||-|-|+
T Consensus 53 ~k~l~eL-~~~g~ei~Vt 69 (84)
T PF08825_consen 53 SKKLKEL-LSDGEEITVT 69 (84)
T ss_dssp SSBTTTT-HHSSEEEEEE
T ss_pred hhhHHHH-hcCCCEEEEE
Confidence 5999999 9999998875
No 17
>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=37.95 E-value=96 Score=20.66 Aligned_cols=60 Identities=17% Similarity=0.260 Sum_probs=38.3
Q ss_pred ceeeeecCCCCHHHHHHHHHhhCccccCCCceEEEEEEeeCCCCCceeeecceEeecCCCCCCCccccccccCcccCcEE
Q 031615 72 EVQIYTWKDATLRELTDLVKEVAPAARRRDARLSFAFVYPDKNGRFMVREVGKTFSYEGRRQLDDGKMLAELGFEIGDYL 151 (156)
Q Consensus 72 ElQIYTW~DaTLrEL~~Llk~~~p~ar~~gtrlsFr~VYpD~~gr~~~kdlGsv~~g~~~~~~dd~kTL~d~rF~iGDyi 151 (156)
.+.+=...+.|..||-..|.+.. ..... ..+++|- |+. .+|++||.+++.+.|+.|
T Consensus 12 ~~~l~v~~~~tV~~lK~~i~~~~-gi~~~----~q~L~~~----------------G~~---L~d~~~L~~~~i~~~~~l 67 (74)
T cd01807 12 ECSLQVSEKESVSTLKKLVSEHL-NVPEE----QQRLLFK----------------GKA---LADDKRLSDYSIGPNAKL 67 (74)
T ss_pred EEEEEECCCCcHHHHHHHHHHHH-CCCHH----HeEEEEC----------------CEE---CCCCCCHHHCCCCCCCEE
Confidence 34455568899999999998742 11011 1333332 221 356799999999999998
Q ss_pred EEEe
Q 031615 152 DVAI 155 (156)
Q Consensus 152 dvAI 155 (156)
.+.+
T Consensus 68 ~l~~ 71 (74)
T cd01807 68 NLVV 71 (74)
T ss_pred EEEE
Confidence 7754
No 18
>PLN02560 enoyl-CoA reductase
Probab=37.47 E-value=78 Score=27.78 Aligned_cols=60 Identities=22% Similarity=0.244 Sum_probs=33.6
Q ss_pred cCCCCHHHHHHHHHhhCccccCCCceEEEEEEeeCCCCCceeeecceEeecCCCCCCCccccccccCcccCcEEEE
Q 031615 78 WKDATLRELTDLVKEVAPAARRRDARLSFAFVYPDKNGRFMVREVGKTFSYEGRRQLDDGKMLAELGFEIGDYLDV 153 (156)
Q Consensus 78 W~DaTLrEL~~Llk~~~p~ar~~gtrlsFr~VYpD~~gr~~~kdlGsv~~g~~~~~~dd~kTL~d~rF~iGDyidv 153 (156)
=.|+|+.||-..|.+.+.-... .| -|++|.+..|.-. |. ..+|++||+|.+...|+-|-+
T Consensus 21 ~~~aTV~dLK~~Isk~~~~~~~--~R--qRL~~~~~~gk~~----g~--------~L~d~ktL~d~gv~~gstLy~ 80 (308)
T PLN02560 21 PDSATVADLKKAIHKRKKKYYP--SR--QRLTLPLPPGKTR----PT--------VLDDSKSLKDYGLGDGGTVVF 80 (308)
T ss_pred CCCCcHHHHHHHHHHHcCCCCh--hh--eEEEEecCCCCcC----cc--------ccCCCCCHHhcCCCCCceEEE
Confidence 4679999999999886432100 11 1444543322100 10 024567888888877775543
No 19
>cd01767 UBX UBX (ubiquitin regulatory X) domain. The UBX (ubiquitin regulatory X) domain has a beta-grasp fold that is structurally quite similar to ubiquitin although UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins. Most UBX-containing proteins including p47, FAF1, and SAKS1 (Y33K) also contain a UBA (ubiquitin-associated) domain and are thought to serve as adaptor molecules that shuttle proteins to the proteasome for degradation.
Probab=37.06 E-value=96 Score=20.93 Aligned_cols=49 Identities=22% Similarity=0.381 Sum_probs=31.3
Q ss_pred CCCCHHHHHHHHHhhCccccCCCceEEEEEEeeCCCCCceeeecceEeecCCCCCCCccccccccCccc
Q 031615 79 KDATLRELTDLVKEVAPAARRRDARLSFAFVYPDKNGRFMVREVGKTFSYEGRRQLDDGKMLAELGFEI 147 (156)
Q Consensus 79 ~DaTLrEL~~Llk~~~p~ar~~gtrlsFr~VYpD~~gr~~~kdlGsv~~g~~~~~~dd~kTL~d~rF~i 147 (156)
.+.||++|-+-|...... ...|.+..-||- |.+ . +.|.++||.|+++..
T Consensus 21 ~~~tl~~l~~fv~~~~~~----~~~f~L~t~~Pr-------~~~--------~-~~~~~~TL~e~gL~~ 69 (77)
T cd01767 21 STHKLSDVRDFVESNGPP----AEPFTLMTSFPR-------RVL--------T-DLDYELTLQEAGLVN 69 (77)
T ss_pred CCCCHHHHHHHHHHcCCC----CCCEEEEeCCCC-------ccC--------C-CCCccCcHHHcCCcc
Confidence 578999999999875433 344555554551 111 0 124689999999984
No 20
>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=36.90 E-value=27 Score=22.85 Aligned_cols=53 Identities=21% Similarity=0.395 Sum_probs=34.6
Q ss_pred CCCCHHHHHHHHHhhCccccCCCceEEEEEEeeCCCCCceeeecceEeecCCCCCCCccccccccCcccCcEEEEEe
Q 031615 79 KDATLRELTDLVKEVAPAARRRDARLSFAFVYPDKNGRFMVREVGKTFSYEGRRQLDDGKMLAELGFEIGDYLDVAI 155 (156)
Q Consensus 79 ~DaTLrEL~~Llk~~~p~ar~~gtrlsFr~VYpD~~gr~~~kdlGsv~~g~~~~~~dd~kTL~d~rF~iGDyidvAI 155 (156)
.+.|+.||-..|.+.. ..... ..+++|- |.+ .+|++||.+++.+-|+.|.+.+
T Consensus 19 ~~~tv~~lK~~i~~~~-g~~~~----~qrL~~~-----------g~~--------L~d~~tl~~~~i~~g~~i~l~~ 71 (76)
T cd01806 19 PTDKVERIKERVEEKE-GIPPQ----QQRLIYS-----------GKQ--------MNDDKTAADYKLEGGSVLHLVL 71 (76)
T ss_pred CCCCHHHHHHHHhHhh-CCChh----hEEEEEC-----------CeE--------ccCCCCHHHcCCCCCCEEEEEE
Confidence 5789999998887642 11111 2344442 111 2466999999999999998864
No 21
>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=36.62 E-value=27 Score=24.24 Aligned_cols=53 Identities=19% Similarity=0.404 Sum_probs=35.2
Q ss_pred CCCCHHHHHHHHHhhCccccCCCceEEEEEEeeCCCCCceeeecceEeecCCCCCCCccccccccCcccCcEEEEEe
Q 031615 79 KDATLRELTDLVKEVAPAARRRDARLSFAFVYPDKNGRFMVREVGKTFSYEGRRQLDDGKMLAELGFEIGDYLDVAI 155 (156)
Q Consensus 79 ~DaTLrEL~~Llk~~~p~ar~~gtrlsFr~VYpD~~gr~~~kdlGsv~~g~~~~~~dd~kTL~d~rF~iGDyidvAI 155 (156)
.+.|..||=..|.+..- . .-=..+++|- |.+ .+|+.||.+++++-|+.|.+.+
T Consensus 21 ~~~TV~~lK~~i~~~~g-i----~~~~QrLi~~-----------Gk~--------L~D~~tL~~y~i~~~~~i~l~~ 73 (78)
T cd01797 21 RLTKVEELREKIQELFN-V----EPECQRLFYR-----------GKQ--------MEDGHTLFDYNVGLNDIIQLLV 73 (78)
T ss_pred CcCcHHHHHHHHHHHhC-C----CHHHeEEEeC-----------CEE--------CCCCCCHHHcCCCCCCEEEEEE
Confidence 46789999888877421 1 1112344442 111 3678999999999999999865
No 22
>cd01772 SAKS1_UBX SAKS1-like UBX domain. SAKS1 (SAPK-substrate-1), also known as Y33K, is a widely expressed protein containing N-terminal UBA (ubiquitin-associated) and C-terminal UBX (ubiqiutin-like) domains that was identified as a substrate of stress-activated protein kinases (SAPKs). SAKS1 is related evolutionarily to two other UBA/UBX-containing proteins, p47 and Faf1. The UBA and UBX domains of SAKS1 bind ubiquitin tetramers and valosin-containing protein (VCP), respectively suggesting a role for SAKS1 as an adaptor that directs VCP to polyubiquitinated proteins facilitating its destruction by the proteasome. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.
Probab=36.12 E-value=95 Score=21.44 Aligned_cols=55 Identities=20% Similarity=0.184 Sum_probs=34.3
Q ss_pred CCCCHHHHHHHHHhhCccccCCCceEEEEEEeeCCCCCceeeecceEeecCCCCCCCccccccccCcccCcEEEE
Q 031615 79 KDATLRELTDLVKEVAPAARRRDARLSFAFVYPDKNGRFMVREVGKTFSYEGRRQLDDGKMLAELGFEIGDYLDV 153 (156)
Q Consensus 79 ~DaTLrEL~~Llk~~~p~ar~~gtrlsFr~VYpD~~gr~~~kdlGsv~~g~~~~~~dd~kTL~d~rF~iGDyidv 153 (156)
.+.||.||-.-|...... +..|.+..-|| .|.+ . .+|.++||.|+++.+-..|-|
T Consensus 23 ~~~tl~~v~~fV~~~~~~----~~~f~L~t~fP-------rk~~--------~-~~d~~~TL~elgL~Psa~L~v 77 (79)
T cd01772 23 AREQLAAVRLFVELNTGN----GGPFTLMTPFP-------RKVF--------T-EDDMEKPLQELGLVPSAVLIV 77 (79)
T ss_pred CCChHHHHHHHHHHcCCC----CCCEEEEeCCC-------CeEC--------C-cccccCCHHHCCCCCceEEEE
Confidence 478999999999864322 23355554455 2222 1 124479999999987665543
No 23
>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=35.97 E-value=1.1e+02 Score=27.78 Aligned_cols=57 Identities=25% Similarity=0.332 Sum_probs=36.4
Q ss_pred eecCCCCHHHHHHHHHhhCc--cccCCCceEEEEEEeeCCCCCceeeecceEeecCCCCCCCccccccccCcccCcEEEE
Q 031615 76 YTWKDATLRELTDLVKEVAP--AARRRDARLSFAFVYPDKNGRFMVREVGKTFSYEGRRQLDDGKMLAELGFEIGDYLDV 153 (156)
Q Consensus 76 YTW~DaTLrEL~~Llk~~~p--~ar~~gtrlsFr~VYpD~~gr~~~kdlGsv~~g~~~~~~dd~kTL~d~rF~iGDyidv 153 (156)
=.-.+.|+.+|=..|.+..- .... =..+|||- |.+ .+|++||.+++..-||+|.|
T Consensus 16 eV~~~~TV~dLK~kI~~~~g~~~ip~----~~QkLIy~-----------Gki--------L~Dd~tL~dy~I~e~~~Ivv 72 (378)
T TIGR00601 16 DMEPDETVKELKEKIEAEQGKDAYPV----AQQKLIYS-----------GKI--------LSDDKTVREYKIKEKDFVVV 72 (378)
T ss_pred EeCCcChHHHHHHHHHHhhCCCCCCh----hHeEEEEC-----------CEE--------CCCCCcHHHcCCCCCCEEEE
Confidence 33467899999888877421 0100 11344443 332 24668999999999999987
Q ss_pred Ee
Q 031615 154 AI 155 (156)
Q Consensus 154 AI 155 (156)
-+
T Consensus 73 mv 74 (378)
T TIGR00601 73 MV 74 (378)
T ss_pred Ee
Confidence 65
No 24
>PF00789 UBX: UBX domain; InterPro: IPR001012 The UBX domain is found in ubiquitin-regulatory proteins, which are members of the ubiquitination pathway, as well as a number of other proteins including FAF-1 (FAS-associated factor 1), the human Rep-8 reproduction protein and several hypothetical proteins from yeast. The function of the UBX domain is not known although the fragment of avian FAF-1 containing the UBX domain causes apoptosis of transfected cells.; GO: 0005515 protein binding; PDB: 3QX1_A 1H8C_A 3QCA_B 3QQ8_B 3QC8_B 3R3M_A 3QWZ_B 1S3S_H 1JRU_A 1I42_A ....
Probab=35.94 E-value=1.2e+02 Score=20.47 Aligned_cols=62 Identities=27% Similarity=0.309 Sum_probs=38.2
Q ss_pred eeeeecCCCCHHHHHHHHHhhCccccCCCceEEEEEEeeCCCCCceeeecceEeecCCCCCCCccccccccCcccCcEEE
Q 031615 73 VQIYTWKDATLRELTDLVKEVAPAARRRDARLSFAFVYPDKNGRFMVREVGKTFSYEGRRQLDDGKMLAELGFEIGDYLD 152 (156)
Q Consensus 73 lQIYTW~DaTLrEL~~Llk~~~p~ar~~gtrlsFr~VYpD~~gr~~~kdlGsv~~g~~~~~~dd~kTL~d~rF~iGDyid 152 (156)
++-.==.+.||++|-+.|......... ..|.+..-|| .+.| ..++++||.|++...+--|-
T Consensus 19 l~~~F~~~~tl~~l~~~v~~~~~~~~~--~~f~L~~~~P-------r~~l----------~~~~~~tl~e~~l~p~~~l~ 79 (82)
T PF00789_consen 19 LQRRFPKSDTLQDLYDFVESQLFSPEE--SDFELITAFP-------RREL----------TDEDSKTLEEAGLLPSATLI 79 (82)
T ss_dssp EEEEEETTSBHHHHHHHHHHHHHCTTT--SSEEEEESSS-------TEEC----------CSTTTSBTCCCTTSSCEEEE
T ss_pred EEEEECCcchHHHHHHHHHHhcCCCCC--ccEEEEeCCC-------CcCC----------CccccccHHHhcCCCCeEEE
Confidence 444444789999999999876443321 1355444455 1222 12236999999988877665
Q ss_pred E
Q 031615 153 V 153 (156)
Q Consensus 153 v 153 (156)
|
T Consensus 80 v 80 (82)
T PF00789_consen 80 V 80 (82)
T ss_dssp E
T ss_pred E
Confidence 5
No 25
>PRK13605 endoribonuclease SymE; Provisional
Probab=34.93 E-value=23 Score=27.37 Aligned_cols=19 Identities=32% Similarity=0.630 Sum_probs=16.8
Q ss_pred ccccccCcccCcEEEEEeC
Q 031615 138 KMLAELGFEIGDYLDVAIL 156 (156)
Q Consensus 138 kTL~d~rF~iGDyidvAI~ 156 (156)
+=|.+++|.+|+-|.|.|.
T Consensus 45 ~WLeeAGF~tG~~V~V~V~ 63 (113)
T PRK13605 45 QWLEAAGFATGTAVDVRVM 63 (113)
T ss_pred hhHHhhCCCCCCeEEEEEe
Confidence 6799999999999999863
No 26
>cd05992 PB1 The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as a noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi, animals, and plants.
Probab=33.72 E-value=93 Score=20.62 Aligned_cols=33 Identities=24% Similarity=0.511 Sum_probs=27.5
Q ss_pred CCCCHHHHHHHHHhhCccccCCCceEEEEEEeeCCCCC
Q 031615 79 KDATLRELTDLVKEVAPAARRRDARLSFAFVYPDKNGR 116 (156)
Q Consensus 79 ~DaTLrEL~~Llk~~~p~ar~~gtrlsFr~VYpD~~gr 116 (156)
.++|+.||...|.+.++... ..|.+-|.|..|-
T Consensus 19 ~~~s~~~L~~~i~~~~~~~~-----~~~~l~y~D~e~d 51 (81)
T cd05992 19 RSISFEDLRSKIAEKFGLDA-----VSFKLKYPDEDGD 51 (81)
T ss_pred CCCCHHHHHHHHHHHhCCCC-----CcEEEEeeCCCCC
Confidence 68999999999999887543 6788889998774
No 27
>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=32.98 E-value=34 Score=22.94 Aligned_cols=21 Identities=24% Similarity=0.366 Sum_probs=18.2
Q ss_pred CccccccccCcccCcEEEEEe
Q 031615 135 DDGKMLAELGFEIGDYLDVAI 155 (156)
Q Consensus 135 dd~kTL~d~rF~iGDyidvAI 155 (156)
+|++||.+++++-|+.|.+.+
T Consensus 49 ~D~~tL~~~~i~~~~tl~l~~ 69 (74)
T cd01810 49 EDEHPLGEYGLKPGCTVFMNL 69 (74)
T ss_pred CCCCCHHHcCCCCCCEEEEEE
Confidence 466999999999999998764
No 28
>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=32.95 E-value=1.3e+02 Score=19.65 Aligned_cols=59 Identities=10% Similarity=0.186 Sum_probs=39.1
Q ss_pred ceeeeecCCCCHHHHHHHHHhhCccccCCCceEEEEEEeeCCCCCceeeecceEeecCCCCCCCccccccccCcccCcEE
Q 031615 72 EVQIYTWKDATLRELTDLVKEVAPAARRRDARLSFAFVYPDKNGRFMVREVGKTFSYEGRRQLDDGKMLAELGFEIGDYL 151 (156)
Q Consensus 72 ElQIYTW~DaTLrEL~~Llk~~~p~ar~~gtrlsFr~VYpD~~gr~~~kdlGsv~~g~~~~~~dd~kTL~d~rF~iGDyi 151 (156)
.+.+-.+.+.|..+|=.+|.+..- . ... ..+++|- |+. .+|+.||.+++..-|..|
T Consensus 10 ~~~~~v~~~~tV~~lK~~i~~~~g-i--~~~--~q~Li~~----------------G~~---L~d~~~l~~~~i~~~stl 65 (70)
T cd01798 10 TFPVEVDPDTDIKQLKEVVAKRQG-V--PPD--QLRVIFA----------------GKE---LRNTTTIQECDLGQQSIL 65 (70)
T ss_pred EEEEEECCCChHHHHHHHHHHHHC-C--CHH--HeEEEEC----------------CeE---CCCCCcHHHcCCCCCCEE
Confidence 566777889999999999987521 0 001 1233332 221 356799999999999988
Q ss_pred EEE
Q 031615 152 DVA 154 (156)
Q Consensus 152 dvA 154 (156)
.+.
T Consensus 66 ~l~ 68 (70)
T cd01798 66 HAV 68 (70)
T ss_pred EEE
Confidence 765
No 29
>PF01157 Ribosomal_L21e: Ribosomal protein L21e; InterPro: IPR001147 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. L21E family contains proteins from a number of eukaryotic and archaebacterial organisms which include; mammalian L2, Entamoeba histolytica L21, Caenorhabditis elegans L21 (C14B9.7), Saccharomyces cerevisiae (Baker's yeast) L21E (URP1) and Haloarcula marismortui HL31.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3IZR_U 1S1I_Q 3O58_T 3IZS_U 3O5H_T 1Q82_R 1KQS_P 3CCJ_Q 3CCQ_Q 1VQ5_Q ....
Probab=31.84 E-value=25 Score=26.35 Aligned_cols=13 Identities=31% Similarity=0.754 Sum_probs=5.8
Q ss_pred cCcccCcEEEEEe
Q 031615 143 LGFEIGDYLDVAI 155 (156)
Q Consensus 143 ~rF~iGDyidvAI 155 (156)
..|.+|||+||-|
T Consensus 31 ~~yk~GD~V~I~i 43 (99)
T PF01157_consen 31 QEYKVGDKVDIKI 43 (99)
T ss_dssp ----TT-EEEE--
T ss_pred HHccCCCEEEEEe
Confidence 3699999999865
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=31.73 E-value=48 Score=23.59 Aligned_cols=55 Identities=16% Similarity=0.253 Sum_probs=36.3
Q ss_pred cCCCCHHHHHHHHHhhCccc-cCCCceEEEEEEeeCCCCCceeeecceEeecCCCCCCCccccccccCcccCcEEEEE
Q 031615 78 WKDATLRELTDLVKEVAPAA-RRRDARLSFAFVYPDKNGRFMVREVGKTFSYEGRRQLDDGKMLAELGFEIGDYLDVA 154 (156)
Q Consensus 78 W~DaTLrEL~~Llk~~~p~a-r~~gtrlsFr~VYpD~~gr~~~kdlGsv~~g~~~~~~dd~kTL~d~rF~iGDyidvA 154 (156)
--+.|..||=..|.+..++. ... =.+++||- |.+ .+|++||.+++.+-|+.|-+-
T Consensus 18 ~~~~TV~~LK~kI~~~~~egi~~~---dqQrLIy~-----------GKi--------L~D~~TL~dygI~~gstlhLv 73 (75)
T cd01815 18 PGGYQVSTLKQLIAAQLPDSLPDP---ELIDLIHC-----------GRK--------LKDDQTLDFYGIQSGSTIHIL 73 (75)
T ss_pred CccCcHHHHHHHHHHhhccCCCCh---HHeEEEeC-----------CcC--------CCCCCcHHHcCCCCCCEEEEE
Confidence 35789999999998864211 000 12345544 222 357799999999999998764
No 31
>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=30.22 E-value=39 Score=22.88 Aligned_cols=53 Identities=15% Similarity=0.191 Sum_probs=33.6
Q ss_pred CCCCHHHHHHHHHhhCccccCCCceEEEEEEeeCCCCCceeeecceEeecCCCCCCCccccccccCcccCcEEEEEe
Q 031615 79 KDATLRELTDLVKEVAPAARRRDARLSFAFVYPDKNGRFMVREVGKTFSYEGRRQLDDGKMLAELGFEIGDYLDVAI 155 (156)
Q Consensus 79 ~DaTLrEL~~Llk~~~p~ar~~gtrlsFr~VYpD~~gr~~~kdlGsv~~g~~~~~~dd~kTL~d~rF~iGDyidvAI 155 (156)
.+.|+.+|=..|.+..- .... ..+++|- |.+ .+|++||.+++..-|+.|.+.+
T Consensus 16 ~~~TV~~lK~~i~~~~g-ip~~----~q~L~~~-----------G~~--------L~d~~tL~~~~i~~g~~l~v~~ 68 (76)
T cd01800 16 LSDPVSVLKVKIHEETG-MPAG----KQKLQYE-----------GIF--------IKDSNSLAYYNLANGTIIHLQL 68 (76)
T ss_pred CCCcHHHHHHHHHHHHC-CCHH----HEEEEEC-----------CEE--------cCCCCcHHHcCCCCCCEEEEEE
Confidence 57788888888866321 1111 1233442 111 3566999999999999998764
No 32
>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=29.76 E-value=40 Score=26.02 Aligned_cols=58 Identities=21% Similarity=0.137 Sum_probs=36.2
Q ss_pred CCCCHHHHHHHHHhhCccccCCCceEEEEEEeeCCCCCceeeecceEeecCCCCCCCccccccccCcccCcEEEE
Q 031615 79 KDATLRELTDLVKEVAPAARRRDARLSFAFVYPDKNGRFMVREVGKTFSYEGRRQLDDGKMLAELGFEIGDYLDV 153 (156)
Q Consensus 79 ~DaTLrEL~~Llk~~~p~ar~~gtrlsFr~VYpD~~gr~~~kdlGsv~~g~~~~~~dd~kTL~d~rF~iGDyidv 153 (156)
.+.|..+|-..|.+..|..+ .+. -|...++=-+++|+- .+|++||.+++--.||.+..
T Consensus 24 ~sdTV~~lKekI~~~~p~~k-e~~-------------P~~~~~qKLIysGKi---LeD~~TL~d~~~p~g~~~~~ 81 (113)
T cd01814 24 AATTVDFLKERVVSQWPKDK-EVG-------------PKTVNEVKLISAGKI---LENSKTVGECRSPVGDIAGG 81 (113)
T ss_pred hhhHHHHHHHHHHHhccccc-ccC-------------CCCHHHeEEEeCCee---cCCCCcHHHhCCcccccCCC
Confidence 68899999999988766521 110 011222223344432 35779999999888888764
No 33
>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=29.64 E-value=43 Score=23.16 Aligned_cols=61 Identities=21% Similarity=0.080 Sum_probs=39.6
Q ss_pred ceeeeecCCCCHHHHHHHHHhhCccccCCCceEEEEEEeeCCCCCceeeecceEeecCCCCCCCccccccccCcc-cCcE
Q 031615 72 EVQIYTWKDATLRELTDLVKEVAPAARRRDARLSFAFVYPDKNGRFMVREVGKTFSYEGRRQLDDGKMLAELGFE-IGDY 150 (156)
Q Consensus 72 ElQIYTW~DaTLrEL~~Llk~~~p~ar~~gtrlsFr~VYpD~~gr~~~kdlGsv~~g~~~~~~dd~kTL~d~rF~-iGDy 150 (156)
.+.|....+.|+.+|=..|.+.. ......=|+ |- |+. . .||.+||.+++.+ -||.
T Consensus 14 t~~l~v~~~~TV~~lK~kI~~~~-gip~~~QrL-----~~----------------G~~-L-~dD~~tL~~ygi~~~g~~ 69 (75)
T cd01799 14 TIWLTVRPDMTVAQLKDKVFLDY-GFPPAVQRW-----VI----------------GQR-L-ARDQETLYSHGIRTNGDS 69 (75)
T ss_pred eEEEEECCCCcHHHHHHHHHHHH-CcCHHHEEE-----Ec----------------CCe-e-CCCcCCHHHcCCCCCCCE
Confidence 46677788999999988887541 111111122 21 111 1 3677999999999 8899
Q ss_pred EEEEeC
Q 031615 151 LDVAIL 156 (156)
Q Consensus 151 idvAI~ 156 (156)
+-+-|+
T Consensus 70 ~~l~~~ 75 (75)
T cd01799 70 AFLYIL 75 (75)
T ss_pred EEEEeC
Confidence 988775
No 34
>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=28.87 E-value=95 Score=21.23 Aligned_cols=52 Identities=21% Similarity=0.308 Sum_probs=32.8
Q ss_pred CCCCHHHHHHHHHhhCccccCCCceEEEEEEeeCCCCCceeeecceEeecCCCCCCCccccccccCcccCcEEEEEe
Q 031615 79 KDATLRELTDLVKEVAPAARRRDARLSFAFVYPDKNGRFMVREVGKTFSYEGRRQLDDGKMLAELGFEIGDYLDVAI 155 (156)
Q Consensus 79 ~DaTLrEL~~Llk~~~p~ar~~gtrlsFr~VYpD~~gr~~~kdlGsv~~g~~~~~~dd~kTL~d~rF~iGDyidvAI 155 (156)
.++|..||=..|.+.. ... .-..+++|. |.+ -+|+ ||.++++.-|+.|.+.+
T Consensus 20 ~~~TV~~LK~~I~~~~-~~~----~~~qrL~~~-----------Gk~--------L~d~-~L~~~gi~~~~~i~l~~ 71 (78)
T cd01804 20 PDETVEGLKKRISQRL-KVP----KERLALLHR-----------ETR--------LSSG-KLQDLGLGDGSKLTLVP 71 (78)
T ss_pred CcCHHHHHHHHHHHHh-CCC----hHHEEEEEC-----------CcC--------CCCC-cHHHcCCCCCCEEEEEe
Confidence 5789999999887653 111 112233333 111 2345 89999999999988753
No 35
>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=27.61 E-value=1e+02 Score=21.11 Aligned_cols=51 Identities=18% Similarity=0.209 Sum_probs=32.5
Q ss_pred CCCCHHHHHHHHHhhCccccCCCceEEEEEEeeCCCCCceeeecceEeecCCCCCCCccccccccCcccCcEEEE
Q 031615 79 KDATLRELTDLVKEVAPAARRRDARLSFAFVYPDKNGRFMVREVGKTFSYEGRRQLDDGKMLAELGFEIGDYLDV 153 (156)
Q Consensus 79 ~DaTLrEL~~Llk~~~p~ar~~gtrlsFr~VYpD~~gr~~~kdlGsv~~g~~~~~~dd~kTL~d~rF~iGDyidv 153 (156)
.++|..||=..|.+... ..... -+++|. |.+ .+|++||.+++..-|.-|.+
T Consensus 20 ~~~TV~~LK~~I~~~~~-~~~~~----qrLi~~-----------Gk~--------L~D~~tL~~ygi~~~stv~l 70 (73)
T cd01791 20 PDDTIGDLKKLIAAQTG-TRPEK----IVLKKW-----------YTI--------FKDHISLGDYEIHDGMNLEL 70 (73)
T ss_pred CCCcHHHHHHHHHHHhC-CChHH----EEEEeC-----------CcC--------CCCCCCHHHcCCCCCCEEEE
Confidence 68999999999987531 11111 133443 211 35668999999998887654
No 36
>cd04910 ACT_AK-Ectoine_1 ACT domains located C-terminal to the catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway. This CD includes the first of two ACT domains located C-terminal to the catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway found in Methylomicrobium alcaliphilum, Vibrio cholerae, and various other halotolerant or halophilic bacteria. Bacteria exposed to hyperosmotic stress accumulate organic solutes called 'compatible solutes' of which ectoine, a heterocyclic amino acid, is one. Apart from its osmotic function, ectoine also exhibits a protective effect on proteins, nucleic acids and membranes against a variety of stress factors. de novo synthesis of ectoine starts with the phosphorylation of L-aspartate and shares its first two enzymatic steps with the biosynthesis of amino acids of the aspartate family: aspartokinase
Probab=26.95 E-value=63 Score=22.63 Aligned_cols=30 Identities=20% Similarity=0.292 Sum_probs=26.5
Q ss_pred CCCceeeeecCCC-CHHHHHHHHHhhCcccc
Q 031615 69 PKDEVQIYTWKDA-TLRELTDLVKEVAPAAR 98 (156)
Q Consensus 69 P~~ElQIYTW~Da-TLrEL~~Llk~~~p~ar 98 (156)
..|++-+|-|-+. +++.+...|++.+|++.
T Consensus 38 nANtit~yl~~~~k~~~r~~~~Le~~~p~a~ 68 (71)
T cd04910 38 NANTITHYLAGSLKTIKRLTEDLENRFPNAE 68 (71)
T ss_pred CCCeEEEEEEcCHHHHHHHHHHHHHhCccCc
Confidence 4789999999996 99999999999998753
No 37
>KOG3141 consensus Mitochondrial/chloroplast ribosomal protein L3 [Translation, ribosomal structure and biogenesis]
Probab=26.60 E-value=54 Score=29.34 Aligned_cols=18 Identities=39% Similarity=0.626 Sum_probs=15.8
Q ss_pred cccccccCcccCcEEEEE
Q 031615 137 GKMLAELGFEIGDYLDVA 154 (156)
Q Consensus 137 ~kTL~d~rF~iGDyidvA 154 (156)
...|..-.|.+|||+||+
T Consensus 155 Gt~l~~~hFk~GqyVDV~ 172 (310)
T KOG3141|consen 155 GTPLFARHFKPGQYVDVT 172 (310)
T ss_pred CcccchhhcCCCceEEEE
Confidence 477888899999999996
No 38
>KOG0476 consensus Cl- channel CLC-2 and related proteins (CLC superfamily) [Inorganic ion transport and metabolism]
Probab=25.76 E-value=41 Score=33.93 Aligned_cols=53 Identities=26% Similarity=0.350 Sum_probs=44.3
Q ss_pred CCCCCccCCCCcEEEEEeccCCCCC--CcccccCCCCCCCceeeeecCCCCHHHHHHHHHhh
Q 031615 34 FEPVDREKTCPLLLRVFTKIGGHHS--REDFAVRGKEPKDEVQIYTWKDATLRELTDLVKEV 93 (156)
Q Consensus 34 ~~~iDRektcPFLLRvF~~~g~hh~--~~dF~~~g~lP~~ElQIYTW~DaTLrEL~~Llk~~ 93 (156)
-+.|=|-|.-|||=.+=.++...|+ +|+|-.+. + .|.|+|+|.+||-..|+..
T Consensus 563 YDSII~IKklPYLPDlpps~~~~h~v~VE~iMV~d-v------~yI~k~~Ty~elre~l~~~ 617 (931)
T KOG0476|consen 563 YDSIIRIKKLPYLPDLPPSRSSVHTVKVEHIMVTD-V------KYITKDTTYRELREALQTT 617 (931)
T ss_pred hhheeeeccCCcCCCCCCcccceeEEEeeeecccc-c------eeeeccCcHHHHHHHHHhC
Confidence 4567789999999999999888887 58998642 2 4999999999999988875
No 39
>PRK04306 50S ribosomal protein L21e; Reviewed
Probab=25.25 E-value=47 Score=24.93 Aligned_cols=12 Identities=42% Similarity=0.714 Sum_probs=10.3
Q ss_pred CcccCcEEEEEe
Q 031615 144 GFEIGDYLDVAI 155 (156)
Q Consensus 144 rF~iGDyidvAI 155 (156)
.|.+||++|+-|
T Consensus 34 ~y~~Gd~V~I~~ 45 (98)
T PRK04306 34 EFEEGDKVHIVI 45 (98)
T ss_pred hccCCCEEEEEe
Confidence 499999999865
No 40
>smart00166 UBX Domain present in ubiquitin-regulatory proteins. Present in FAF1 and Shp1p.
Probab=24.57 E-value=2.3e+02 Score=19.20 Aligned_cols=62 Identities=19% Similarity=0.188 Sum_probs=35.2
Q ss_pred eeeeecCCCCHHHHHHHHHhhCccccCCCceEEEEEEeeCCCCCceeeecceEeecCCCCCCCccccccccCcccCcEEE
Q 031615 73 VQIYTWKDATLRELTDLVKEVAPAARRRDARLSFAFVYPDKNGRFMVREVGKTFSYEGRRQLDDGKMLAELGFEIGDYLD 152 (156)
Q Consensus 73 lQIYTW~DaTLrEL~~Llk~~~p~ar~~gtrlsFr~VYpD~~gr~~~kdlGsv~~g~~~~~~dd~kTL~d~rF~iGDyid 152 (156)
++..==.+.||++|-.-|..... ..+..|.+..-|| .|.+ . ..|.++||.|+++.+..-|-
T Consensus 17 i~~~F~~~~tl~~v~~~v~~~~~---~~~~~f~L~t~~P-------rk~l--------~-~~d~~~tL~e~gL~p~~~l~ 77 (80)
T smart00166 17 LVRRFPSSDTLRTVYEFVSAALT---DGNDPFTLNSPFP-------RRTF--------T-KDDYSKTLLELALLPSSTLV 77 (80)
T ss_pred EEEEeCCCCcHHHHHHHHHHccc---CCCCCEEEEeCCC-------CcCC--------c-cccccCCHHHCCCCCceEEE
Confidence 44444468899999999844321 1122344444444 1111 1 02337999999988776654
Q ss_pred E
Q 031615 153 V 153 (156)
Q Consensus 153 v 153 (156)
|
T Consensus 78 v 78 (80)
T smart00166 78 L 78 (80)
T ss_pred E
Confidence 4
No 41
>PF08817 YukD: WXG100 protein secretion system (Wss), protein YukD; InterPro: IPR014921 YukD is a bacterial protein that adopts a ubiquitin-like fold []. Ubiquitin covalently binds to protein and flags them for protein degradation, however conjugation assays have indicated that YukD lacks the capacity for covalent bond formation with other proteins []. ; PDB: 2BPS_B.
Probab=24.14 E-value=51 Score=22.59 Aligned_cols=57 Identities=25% Similarity=0.323 Sum_probs=28.6
Q ss_pred CCCCHHHHHHHHHhhCcccc-CCCceEEEEEEeeCCCCCceeeecceEeecCCCCCCCccccccccCcccCcEEEE
Q 031615 79 KDATLRELTDLVKEVAPAAR-RRDARLSFAFVYPDKNGRFMVREVGKTFSYEGRRQLDDGKMLAELGFEIGDYLDV 153 (156)
Q Consensus 79 ~DaTLrEL~~Llk~~~p~ar-~~gtrlsFr~VYpD~~gr~~~kdlGsv~~g~~~~~~dd~kTL~d~rF~iGDyidv 153 (156)
-+.|++||...|-+..-..- .....+.|++. +.-|.. -++++||++++..-||.|.+
T Consensus 21 ~~vpv~~li~~l~~~~~~~~~~~~~~~~~~L~----------~~~g~~--------L~~~~tL~~~gV~dGd~L~L 78 (79)
T PF08817_consen 21 ADVPVAELIPELVELLGLPGDDPPGHGQWVLA----------RAGGRP--------LDPDQTLADAGVRDGDVLVL 78 (79)
T ss_dssp TTSBTTHHHHHHHHHS---S---TT-E-EEEG-----------GGTEE--------EETTSBCGGGT--TT-EEEE
T ss_pred CCCcHHHHHHHHHHHhCCccCCCCCcceEEEE----------ecCCcc--------cCCcCcHhHcCCCCCCEEEe
Confidence 35677888888877654211 11111222220 112222 35779999999999999864
No 42
>PF10490 CENP-F_C_Rb_bdg: Rb-binding domain of kinetochore protein Cenp-F/LEK1; InterPro: IPR018302 This entry represents the Rb protein-binding domain from the centromere protein Cenp-F. Cenp-F is a centromeric kinetochore, microtubule-binding protein consisting of two 1,600-amino acid-long coils, that is involved in chromosome segregation during mitosis and is essential for the full functioning of the mitotic checkpoint pathway [, ]. Cenp-F interacts with retinoblastoma protein (RB), CENP-E and BUBR1. This domain is at the very C terminus of the C-terminal coiled-coil region, and binds to the Rb family of tumour suppressors [].
Probab=24.13 E-value=43 Score=22.40 Aligned_cols=14 Identities=36% Similarity=0.562 Sum_probs=11.0
Q ss_pred CCCccCCCCcEEEE
Q 031615 36 PVDREKTCPLLLRV 49 (156)
Q Consensus 36 ~iDRektcPFLLRv 49 (156)
.|--.|+|||+||=
T Consensus 27 DIPtgk~sPyilRR 40 (49)
T PF10490_consen 27 DIPTGKTSPYILRR 40 (49)
T ss_pred cCCCCCCCceEEEe
Confidence 35567899999984
No 43
>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=23.42 E-value=66 Score=21.53 Aligned_cols=55 Identities=20% Similarity=0.150 Sum_probs=34.5
Q ss_pred ecCCCCHHHHHHHHHhhCccccCCCceEEEEEEeeCCCCCceeeecceEeecCCCCCCCccccccccCcccCcEEEEEe
Q 031615 77 TWKDATLRELTDLVKEVAPAARRRDARLSFAFVYPDKNGRFMVREVGKTFSYEGRRQLDDGKMLAELGFEIGDYLDVAI 155 (156)
Q Consensus 77 TW~DaTLrEL~~Llk~~~p~ar~~gtrlsFr~VYpD~~gr~~~kdlGsv~~g~~~~~~dd~kTL~d~rF~iGDyidvAI 155 (156)
...+.|..||-..|.+..- ..... .+++| .|+. .+|++||.+++.+-|+-|.+.+
T Consensus 15 v~~~~tV~~lK~~i~~~~g-ip~~~----q~Li~----------------~Gk~---L~D~~tL~~~~i~~~~tl~l~~ 69 (74)
T cd01793 15 VTGQETVSDIKAHVAGLEG-IDVED----QVLLL----------------AGVP---LEDDATLGQCGVEELCTLEVAG 69 (74)
T ss_pred ECCcCcHHHHHHHHHhhhC-CCHHH----EEEEE----------------CCeE---CCCCCCHHHcCCCCCCEEEEEE
Confidence 3467899999888876411 11111 23333 2221 3577999999999999988754
No 44
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=23.33 E-value=67 Score=32.78 Aligned_cols=13 Identities=31% Similarity=0.465 Sum_probs=7.9
Q ss_pred ccccccccCcccC
Q 031615 136 DGKMLAELGFEIG 148 (156)
Q Consensus 136 d~kTL~d~rF~iG 148 (156)
|+||++.+.+--|
T Consensus 697 DsKtaQnLsIflg 709 (1102)
T KOG1924|consen 697 DSKTAQNLSIFLG 709 (1102)
T ss_pred chHHHHHHHHHHh
Confidence 5577776655545
No 45
>PF07405 DUF1506: Protein of unknown function (DUF1506); InterPro: IPR010875 This entry represents proteins found primarily in Borrelia species. Their function is unknown.
Probab=22.90 E-value=31 Score=27.13 Aligned_cols=17 Identities=24% Similarity=0.493 Sum_probs=15.1
Q ss_pred ccccccCcccCcEEEEE
Q 031615 138 KMLAELGFEIGDYLDVA 154 (156)
Q Consensus 138 kTL~d~rF~iGDyidvA 154 (156)
-|+++++|+.||-|+++
T Consensus 83 YT~~~l~fE~~DrIsi~ 99 (127)
T PF07405_consen 83 YTYQNLNFELKDRISIS 99 (127)
T ss_pred eehhhccchhhceeehh
Confidence 59999999999999864
No 46
>cd01801 Tsc13_N Ubiquitin-like domain of Tsc13. Tsc13_N N-terminal domain of Tsc13. Tsc13 is an enoyl reductase involved in elongation of long chain fatty acids that localizes to the endoplasmic reticulum and is highly enriched in a novel structure marking nuclear-vacuolar junctions.
Probab=22.77 E-value=2.5e+02 Score=18.93 Aligned_cols=55 Identities=31% Similarity=0.455 Sum_probs=31.2
Q ss_pred cCCCCHHHHHHHHHhhCccccCCCceEEEEEEeeCCCCCceeeecceEeecCCCCCCCccccccccCcccCcEEEE
Q 031615 78 WKDATLRELTDLVKEVAPAARRRDARLSFAFVYPDKNGRFMVREVGKTFSYEGRRQLDDGKMLAELGFEIGDYLDV 153 (156)
Q Consensus 78 W~DaTLrEL~~Llk~~~p~ar~~gtrlsFr~VYpD~~gr~~~kdlGsv~~g~~~~~~dd~kTL~d~rF~iGDyidv 153 (156)
=.++|+.||-..|.+.+... .-.|..+++.| +|+ + -.|++||.+.+...|+-|-+
T Consensus 20 ~~~aTV~dlk~~i~~~~~~~--~~~Rqrl~~~~---~g~--------~--------L~d~~tL~~~gv~~g~~lyv 74 (77)
T cd01801 20 SGDATIADLKKLIAKSSPQL--TVNRQSLRLEP---KGK--------S--------LKDDDTLVDLGVGAGATLYV 74 (77)
T ss_pred CCCccHHHHHHHHHHHcCCC--CcceeEEEeCC---CCc--------c--------cCCcccHhhcCCCCCCEEEE
Confidence 35789999999998764321 01122222111 111 1 23557899998888875543
No 47
>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=22.58 E-value=65 Score=23.67 Aligned_cols=60 Identities=10% Similarity=0.125 Sum_probs=39.5
Q ss_pred ceeeeecCCCCHHHHHHHHHhhCccccCCCceEEEEEEeeCCCCCceeeecceEeecCCCCCCCccccccccCcccCcEE
Q 031615 72 EVQIYTWKDATLRELTDLVKEVAPAARRRDARLSFAFVYPDKNGRFMVREVGKTFSYEGRRQLDDGKMLAELGFEIGDYL 151 (156)
Q Consensus 72 ElQIYTW~DaTLrEL~~Llk~~~p~ar~~gtrlsFr~VYpD~~gr~~~kdlGsv~~g~~~~~~dd~kTL~d~rF~iGDyi 151 (156)
.+.|..=.+.|..||=..|.+..- . .--.+++||- |.+ .+|++||++++..-|+-|
T Consensus 39 ~~~leV~~~~TV~~lK~kI~~~~g-i----p~~~QrLi~~-----------Gk~--------L~D~~tL~dy~I~~~stL 94 (103)
T cd01802 39 CFELRVSPFETVISVKAKIQRLEG-I----PVAQQHLIWN-----------NME--------LEDEYCLNDYNISEGCTL 94 (103)
T ss_pred EEEEEeCCCCcHHHHHHHHHHHhC-C----ChHHEEEEEC-----------CEE--------CCCCCcHHHcCCCCCCEE
Confidence 455566678999999998876421 1 1112334432 111 357799999999999999
Q ss_pred EEEe
Q 031615 152 DVAI 155 (156)
Q Consensus 152 dvAI 155 (156)
.+++
T Consensus 95 ~l~~ 98 (103)
T cd01802 95 KLVL 98 (103)
T ss_pred EEEE
Confidence 8875
No 48
>cd01764 Urm1 Urm1-like ubuitin domain. Urm1 (Ubiquitin-Related Modifier1) The Urm1 fold, like those of two closely related proteins MoaD (molybdopterin synthase) and ThiS (sulfur carrier protein), is similar to that of ubiquitin although there is little or no sequence similarity. The C-terminal glycines of Urm1 are conjugated to an E1-like protein Uba4 as part of a novel conjugation system in yeast. The Urm1 fold is found only in eukaryotes.
Probab=22.43 E-value=1.2e+02 Score=21.88 Aligned_cols=25 Identities=24% Similarity=0.153 Sum_probs=19.0
Q ss_pred eeeecCCCCHHHHHHHHHhhCcccc
Q 031615 74 QIYTWKDATLRELTDLVKEVAPAAR 98 (156)
Q Consensus 74 QIYTW~DaTLrEL~~Llk~~~p~ar 98 (156)
++=.|..+|++||...|++.++..+
T Consensus 22 ~~~~~~~~tV~dll~~L~~~~~~~~ 46 (94)
T cd01764 22 VLDGEKPVTVGDLLDYVASNLLEER 46 (94)
T ss_pred eccCCCCCcHHHHHHHHHHhCchhh
Confidence 3434467999999999999887543
No 49
>PF12327 FtsZ_C: FtsZ family, C-terminal domain; InterPro: IPR024757 The FtsZ family of proteins are involved in polymer formation. FtsZ is the polymer-forming protein of bacterial cell division. It is part of a ring in the middle of the dividing cell that is required for constriction of cell membrane and cell envelope to yield two daughter cells. FtsZ is a GTPase, like tubulin []. FtsZ can polymerise into tubes, sheets, and rings in vitro and is ubiquitous in eubacteria and archaea []. This entry represents a domain of FtsZ. In most FtsZ proteins is found in the C terminus, except in some alphaproteobacteria proteins where there is an extension C-terminal domain TIGR03483 from TIGRFAMs.; PDB: 2RHO_B 2RHJ_A 2VXY_A 2RHL_B 2RHH_A 2VAM_A 1W5F_B 2R75_1 2R6R_1 1RQ7_A ....
Probab=22.12 E-value=2e+02 Score=20.63 Aligned_cols=38 Identities=21% Similarity=0.242 Sum_probs=25.9
Q ss_pred eeeeecCCCCHHHHHHHHHhhCccccCCCceEEEEEEee
Q 031615 73 VQIYTWKDATLRELTDLVKEVAPAARRRDARLSFAFVYP 111 (156)
Q Consensus 73 lQIYTW~DaTLrEL~~Llk~~~p~ar~~gtrlsFr~VYp 111 (156)
++|+.++|.||.|+...+....... ..++...|-.++-
T Consensus 41 vni~~~~d~~l~ev~~~~~~i~~~~-~~~a~ii~G~~id 78 (95)
T PF12327_consen 41 VNITGGPDLSLSEVNEAMEIIREKA-DPDANIIWGASID 78 (95)
T ss_dssp EEEEE-TTS-HHHHHHHHHHHHHHS-STTSEEEEEEEE-
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHHh-hcCceEEEEEEEC
Confidence 7899999999999988776653333 3677777776553
No 50
>cd01796 DDI1_N DNA damage inducible protein 1 ubiquitin-like domain. DDI1_N DDI1 (DNA damage inducible protein 1) has an amino-terminal ubiquitin-like domain, an retroviral protease-like (RVP-like) domain, and a UBA (ubiquitin-associated) domain. This CD represents the amino-terminal ubiquitin-like domain of DDI1.
Probab=21.45 E-value=72 Score=21.38 Aligned_cols=53 Identities=21% Similarity=0.369 Sum_probs=32.8
Q ss_pred cCCCCHHHHHHHHHhhCccccCCCceEEEEEEeeCCCCCceeeecceEeecCCCCCCCccccccccCcccCcEEEE
Q 031615 78 WKDATLRELTDLVKEVAPAARRRDARLSFAFVYPDKNGRFMVREVGKTFSYEGRRQLDDGKMLAELGFEIGDYLDV 153 (156)
Q Consensus 78 W~DaTLrEL~~Llk~~~p~ar~~gtrlsFr~VYpD~~gr~~~kdlGsv~~g~~~~~~dd~kTL~d~rF~iGDyidv 153 (156)
=.+.|..||=..|.+..- .... ..+++|- |... .|+.+||.+++++-||.|-+
T Consensus 17 ~~~~TV~~lK~~I~~~~g-ip~~----~q~Li~~-----------Gk~L-------~D~~~~L~~~gi~~~~~l~l 69 (71)
T cd01796 17 DPDLELENFKALCEAESG-IPAS----QQQLIYN-----------GREL-------VDNKRLLALYGVKDGDLVVL 69 (71)
T ss_pred CCcCCHHHHHHHHHHHhC-CCHH----HeEEEEC-----------CeEc-------cCCcccHHHcCCCCCCEEEE
Confidence 367899999988876421 1111 1233332 1111 35568999999999999865
No 51
>PTZ00044 ubiquitin; Provisional
Probab=21.30 E-value=77 Score=20.95 Aligned_cols=53 Identities=17% Similarity=0.352 Sum_probs=34.3
Q ss_pred CCCCHHHHHHHHHhhCccccCCCceEEEEEEeeCCCCCceeeecceEeecCCCCCCCccccccccCcccCcEEEEEe
Q 031615 79 KDATLRELTDLVKEVAPAARRRDARLSFAFVYPDKNGRFMVREVGKTFSYEGRRQLDDGKMLAELGFEIGDYLDVAI 155 (156)
Q Consensus 79 ~DaTLrEL~~Llk~~~p~ar~~gtrlsFr~VYpD~~gr~~~kdlGsv~~g~~~~~~dd~kTL~d~rF~iGDyidvAI 155 (156)
.+.|+.||-..|.+..- .... ..+++|- |.. .+|++||.+++.+-|+.|.+.+
T Consensus 19 ~~~tv~~lK~~i~~~~g-i~~~----~q~L~~~-----------g~~--------L~d~~~l~~~~i~~~~~i~l~~ 71 (76)
T PTZ00044 19 PDNTVQQVKMALQEKEG-IDVK----QIRLIYS-----------GKQ--------MSDDLKLSDYKVVPGSTIHMVL 71 (76)
T ss_pred CCCcHHHHHHHHHHHHC-CCHH----HeEEEEC-----------CEE--------ccCCCcHHHcCCCCCCEEEEEE
Confidence 56788999888887431 1111 1334332 111 2577999999999999988865
No 52
>cd05693 S1_Rrp5_repeat_hs1_sc1 S1_Rrp5_repeat_hs1_sc1: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes H. sapiens S1 repeat 1 (hs1) and S. cerevisiae S1 repeat 1 (sc1). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=21.24 E-value=58 Score=23.63 Aligned_cols=14 Identities=14% Similarity=0.368 Sum_probs=12.1
Q ss_pred cCcccCcEEEEEeC
Q 031615 143 LGFEIGDYLDVAIL 156 (156)
Q Consensus 143 ~rF~iGDyidvAI~ 156 (156)
-.|.+||.|.|.|+
T Consensus 65 ~~f~vGd~V~~kVi 78 (100)
T cd05693 65 DLFSVGQLVRCKVV 78 (100)
T ss_pred HhccCCCEEEEEEE
Confidence 36999999999985
No 53
>PF08620 RPAP1_C: RPAP1-like, C-terminal; InterPro: IPR013929 Inhibition of RNA polymerase II-associated protein 1 (RPAP1) synthesis in Saccharomyces cerevisiae (Baker's yeast) results in changes in global gene expression that are similar to those caused by the loss of the RNAPII subunit Rpb11 []. This entry represents the C-terminal region that contains the motif GLHHH. This region is conserved from yeast to humans.
Probab=21.05 E-value=50 Score=23.45 Aligned_cols=19 Identities=32% Similarity=0.504 Sum_probs=16.1
Q ss_pred CCCHHHHHHHHHhhCcccc
Q 031615 80 DATLRELTDLVKEVAPAAR 98 (156)
Q Consensus 80 DaTLrEL~~Llk~~~p~ar 98 (156)
--||.||..|.+..+|.-|
T Consensus 38 GYTi~El~~L~RSsv~~QR 56 (73)
T PF08620_consen 38 GYTIQELFHLSRSSVPSQR 56 (73)
T ss_pred CcCHHHHHHHHhcCcHHHH
Confidence 3589999999999998754
No 54
>PF04967 HTH_10: HTH DNA binding domain; InterPro: IPR007050 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. This entry represents the HTH DNA binding domain found in Halobacterium salinarium (Halobacterium halobium) and described as a putative bacterio-opsin activator.
Probab=20.76 E-value=75 Score=21.10 Aligned_cols=16 Identities=25% Similarity=0.345 Sum_probs=12.4
Q ss_pred eecC-CCCHHHHHHHHH
Q 031615 76 YTWK-DATLRELTDLVK 91 (156)
Q Consensus 76 YTW~-DaTLrEL~~Llk 91 (156)
|.|+ ++||.||+..+-
T Consensus 18 fd~PR~~tl~elA~~lg 34 (53)
T PF04967_consen 18 FDVPRRITLEELAEELG 34 (53)
T ss_pred CCCCCcCCHHHHHHHhC
Confidence 5554 899999998763
No 55
>PF06277 EutA: Ethanolamine utilisation protein EutA; InterPro: IPR009377 Proteins in this entry are EutA ethanolamine utilization proteins, reactivating factors for ethanolamine ammonia lyase, encoded by the ethanolamine utilization eut operon. The holoenzyme of adenosylcobalamin-dependent ethanolamine ammonia-lyase (EutBC, IPR0092462 from INTERPRO, IPR010628 from INTERPRO), which is part of the ethanolamine utilization pathway [, , ], undergoes suicidal inactivation during catalysis as well as inactivation in the absence of substrate. The inactivation involves the irreversible cleavage of the Co-C bond of the coenzyme. The inactivated holoenzyme undergoes rapid and continuous reactivation in the presence of ATP, Mg2+, and free adenosylcobalamin in permeabilised cells (in situ), homogenate, and cell extracts of Escherichia coli. The EutA protein is essential for reactivation. It was demonstrated with purified recombinant EutA that both the suicidally inactivated and O2-inactivated holoethanolamine ammonia lyase underwent rapid reactivation in vitro by EutA in the presence of adenosylcobalamin, ATP, and Mg2+ []. The inactive enzyme-cyanocobalamin complex was also activated in situ and in vitro by EutA under the same conditions. Thus EutA is believed to be the only component of the reactivating factor for ethanolamine ammonia lyase. Reactivation and activation occur through the exchange of modified coenzyme for free intact adenosylcobalamin []. Bacteria that harbor the ethanolamine utilization pathway can use ethanolamine as a source of carbon and nitrogen. For more information on the ethanolamine utilization pathway, please see IPR009194 from INTERPRO, IPR012408 from INTERPRO.
Probab=20.13 E-value=56 Score=30.76 Aligned_cols=18 Identities=28% Similarity=0.527 Sum_probs=16.0
Q ss_pred ccccccccCcccCcEEEE
Q 031615 136 DGKMLAELGFEIGDYLDV 153 (156)
Q Consensus 136 d~kTL~d~rF~iGDyidv 153 (156)
+-..+++++..-|||||+
T Consensus 436 ~licID~I~v~~GDYIDI 453 (473)
T PF06277_consen 436 PLICIDQIKVENGDYIDI 453 (473)
T ss_pred CEEEEeeEEcCCCCeEec
Confidence 457899999999999997
No 56
>cd01788 ElonginB Ubiquitin-like domain of Elongin B. Elongin B is part of an E3 ubiquitin ligase complex called VEC that activates ubiquitylation by the E2 ubiquitin-conjugating enzyme Ubc5. VEC is composed of von Hippel-Lindau tumor suppressor protein (pVHL), elongin C, cullin 2, NEDD8, and Rbx1. ElonginB binds elonginC to form the elonginBC complex which is a positive regulator of RNA polymerase II elongation factor Elongin A. The BC complex then binds VHL (von Hippel-Lindau) tumour suppressor protein to form a VCB ternary complex. Elongin B has a ubiquitin-llike domain.
Probab=20.02 E-value=71 Score=24.99 Aligned_cols=12 Identities=67% Similarity=1.162 Sum_probs=10.8
Q ss_pred CCccccccccCc
Q 031615 134 LDDGKMLAELGF 145 (156)
Q Consensus 134 ~dd~kTL~d~rF 145 (156)
.||+|||.|++|
T Consensus 51 LeD~kTL~d~g~ 62 (119)
T cd01788 51 LDDGKTLGDCGF 62 (119)
T ss_pred ecccccHHHcCc
Confidence 478999999999
Done!