Query psy17866
Match_columns 127
No_of_seqs 37 out of 39
Neff 2.3
Searched_HMMs 46136
Date Sat Aug 17 01:00:56 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy17866.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/17866hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF14954 LIX1: Limb expression 100.0 3.2E-77 7E-82 486.3 12.7 120 1-120 20-252 (252)
2 cd00048 DSRM Double-stranded R 76.8 5.1 0.00011 23.7 3.6 38 3-48 1-42 (68)
3 PF15290 Syntaphilin: Golgi-lo 63.2 9.6 0.00021 33.2 3.6 19 59-77 90-111 (305)
4 cd04760 BAH_Dnmt1_I BAH, or Br 61.0 9.8 0.00021 28.7 2.9 27 19-45 1-27 (124)
5 PF00035 dsrm: Double-stranded 60.7 17 0.00037 21.9 3.5 38 5-47 2-40 (67)
6 COG3680 Uncharacterized protei 54.7 18 0.00038 31.0 3.7 55 40-104 17-75 (259)
7 smart00358 DSRM Double-strande 53.6 45 0.00098 19.7 4.8 35 5-48 2-40 (67)
8 PF10127 Nuc-transf: Predicted 47.5 32 0.00069 26.8 3.9 47 59-105 151-206 (247)
9 cd04714 BAH_BAHCC1 BAH, or Bro 41.1 37 0.00081 24.3 3.2 26 20-45 2-27 (121)
10 PF04046 PSP: PSP; InterPro: 40.7 14 0.00031 24.2 0.9 12 79-90 2-13 (48)
11 cd04712 BAH_DCM_I BAH, or Brom 39.6 35 0.00076 25.1 2.9 30 18-47 2-41 (130)
12 smart00581 PSP proline-rich do 39.1 15 0.00033 24.6 0.9 13 78-90 5-17 (54)
13 PF13060 DUF3921: Protein of u 38.9 55 0.0012 22.4 3.6 29 68-96 16-44 (58)
14 PF01796 DUF35: DUF35 OB-fold 36.3 50 0.0011 21.2 3.0 22 28-49 15-39 (68)
15 TIGR02858 spore_III_AA stage I 35.0 19 0.00041 29.4 1.0 10 41-50 53-62 (270)
16 COG0049 RpsG Ribosomal protein 34.1 1E+02 0.0022 24.3 4.9 62 54-118 83-146 (148)
17 PF08381 BRX: Transcription fa 32.4 35 0.00077 23.2 1.8 12 39-50 14-25 (59)
18 PF15189 DUF4582: Domain of un 32.4 75 0.0016 25.4 3.9 36 82-118 107-142 (172)
19 COG2320 GrpB Uncharacterized c 32.3 1.5E+02 0.0032 24.2 5.6 72 33-120 110-182 (185)
20 cd05718 Ig1_PVR_like First imm 30.4 61 0.0013 20.6 2.6 28 23-50 60-88 (98)
21 PF09726 Macoilin: Transmembra 29.7 49 0.0011 31.0 2.8 41 79-119 554-598 (697)
22 KOG1351|consensus 29.4 53 0.0011 29.9 2.9 56 22-77 29-110 (489)
23 PF00984 UDPG_MGDP_dh: UDP-glu 28.9 52 0.0011 23.1 2.2 21 48-78 61-81 (96)
24 PF10771 DUF2582: Protein of u 28.8 29 0.00063 23.5 0.9 17 61-77 35-51 (65)
25 PHA03103 double-strand RNA-bin 28.7 97 0.0021 24.9 4.0 44 2-51 109-152 (183)
26 COG4458 SrfC Uncharacterized p 27.3 50 0.0011 32.2 2.5 39 65-103 16-54 (821)
27 PF10139 Virul_Fac: Putative b 27.0 44 0.00096 32.3 2.1 34 68-101 1-34 (854)
28 PF08537 NBP1: Fungal Nap bind 26.7 61 0.0013 28.4 2.7 38 83-123 188-225 (323)
29 cd04370 BAH BAH, or Bromo Adja 26.6 91 0.002 20.4 3.0 50 21-80 3-54 (123)
30 PF14795 Leucyl-specific: Leuc 26.4 6 0.00013 27.1 -2.7 27 80-106 20-46 (56)
31 PF12185 IR1-M: Nup358/RanBP2 26.2 12 0.00027 26.1 -1.3 26 26-51 2-38 (64)
32 PF06364 DUF1068: Protein of u 25.6 64 0.0014 26.3 2.5 68 10-95 28-103 (176)
33 COG5182 CUS1 Splicing factor 3 25.4 36 0.00077 30.9 1.1 39 43-90 252-291 (429)
34 PF09486 HrpB7: Bacterial type 23.6 86 0.0019 24.5 2.8 7 47-53 64-70 (158)
35 smart00439 BAH Bromo adjacent 23.4 1.4E+02 0.0029 19.8 3.4 24 22-45 2-25 (120)
36 cd07624 BAR_SNX7_30 The Bin/Am 23.3 1.3E+02 0.0029 23.1 3.8 43 68-113 128-172 (200)
37 cd00885 cinA Competence-damage 23.2 1E+02 0.0022 23.3 3.1 27 4-30 94-127 (170)
38 PF06627 DUF1153: Protein of u 23.1 44 0.00095 24.6 1.0 11 43-53 11-21 (90)
39 PF04665 Pox_A32: Poxvirus A32 22.6 1.2E+02 0.0026 24.9 3.5 37 9-45 176-213 (241)
40 PF11367 DUF3168: Protein of u 22.5 63 0.0014 21.3 1.6 15 29-43 19-34 (121)
41 PF08114 PMP1_2: ATPase proteo 22.4 35 0.00076 22.3 0.4 8 43-50 3-10 (43)
42 PF11202 PRTase_1: Phosphoribo 21.6 1.1E+02 0.0023 26.3 3.2 31 66-96 132-173 (257)
43 PRK03670 competence damage-ind 21.4 1.6E+02 0.0034 24.0 4.0 64 4-74 96-178 (252)
44 COG4582 Uncharacterized protei 21.4 37 0.0008 28.9 0.4 24 44-74 122-157 (244)
45 cd01817 RGS12_RBD Ubiquitin do 21.3 52 0.0011 23.1 1.1 11 42-52 2-12 (73)
46 TIGR00636 PduO_Nterm ATP:cob(I 21.0 44 0.00095 26.1 0.7 17 36-53 95-111 (171)
47 COG1365 Predicted ATPase (PP-l 21.0 67 0.0014 27.5 1.9 29 82-111 31-59 (255)
48 PF12536 DUF3734: Patatin phos 20.7 97 0.0021 22.1 2.4 42 36-77 50-105 (108)
49 PF11221 Med21: Subunit 21 of 20.7 70 0.0015 23.7 1.7 43 59-101 66-128 (144)
50 TIGR02742 TrbC_Ftype type-F co 20.7 1.6E+02 0.0034 22.1 3.6 38 43-81 75-120 (130)
51 PF01426 BAH: BAH domain; Int 20.6 89 0.0019 20.7 2.1 23 23-45 4-26 (119)
52 KOG0257|consensus 20.6 53 0.0011 29.7 1.2 20 103-122 309-328 (420)
53 PF14218 COP23: Circadian osci 20.3 1.1E+02 0.0025 22.4 2.8 30 25-54 56-85 (132)
54 cd04318 EcAsnRS_like_N EcAsnRS 20.0 67 0.0014 20.7 1.3 18 41-58 17-34 (82)
No 1
>PF14954 LIX1: Limb expression 1
Probab=100.00 E-value=3.2e-77 Score=486.34 Aligned_cols=120 Identities=78% Similarity=1.191 Sum_probs=117.3
Q ss_pred ChhHHHHHHHHHHHHhhhccccCCCceEEEeecCCCCCCeEEEEecCCCCcCCCcccc----------------------
Q psy17866 1 MVNVVEALQEFWQMKQTRGAELKNGALVIYESVPSASPPYVCYVTLPGGSCFGSFQTL---------------------- 58 (127)
Q Consensus 1 ~vNVVeaLqeFWq~Kq~rga~~~~~~lV~YEsvps~~pPyVcyVTLPGGSCFG~fq~C---------------------- 58 (127)
.||||+||||||||||+||+++++|++|+|||+|||+|||||||||||||||||||+|
T Consensus 20 ~vnvV~~LqeFWq~Kq~r~a~~~~~~lv~YEs~ps~~ppyVcyVTLPGGSCFGnfq~C~tkAEARR~AAKiALmNSvfNE 99 (252)
T PF14954_consen 20 DVNVVEALQEFWQMKQSRGADLKSEALVVYESVPSPSPPYVCYVTLPGGSCFGNFQNCPTKAEARRSAAKIALMNSVFNE 99 (252)
T ss_pred cchHHHHHHHHHHHHHhccccCCCCCeeeeeccCCCCCCeEEEEeCCCCCccCccccCCcHHHHHhhhHHHHHHHHHHhc
Confidence 3899999999999999999999999999999999999999999999999999999999
Q ss_pred ----------------------------------------------------ch--------------------------
Q psy17866 59 ----------------------------------------------------EV-------------------------- 60 (127)
Q Consensus 59 ----------------------------------------------------EF-------------------------- 60 (127)
||
T Consensus 100 hPsRrIt~eFi~ksv~eA~~s~~~~~~~~~~p~t~igaf~~mLesn~GrtMLEFQElMTVFQLLHWNGSLKAmRer~CSR 179 (252)
T PF14954_consen 100 HPSRRITDEFIEKSVQEAVASFSGKLEDADDPSTSIGAFRFMLESNKGRTMLEFQELMTVFQLLHWNGSLKAMRERQCSR 179 (252)
T ss_pred CCcccccHHHHHHHHHHHHHhcCCCcccccCCcchHHHHHHHHHhcCCchHHHHHHHHHHHHHHHhcchHHHHHHccccH
Confidence 33
Q ss_pred -------------hhhhhhhHhhHHHhhhcCCcchHHHHHHHHHHHHHHHhcccccccchhhHHHHHHHHhhh
Q psy17866 61 -------------EVSRSQMALDWIAREQENPGALGRELDQAERELETARLAGRELRFPKEKKDILMLAHTQI 120 (127)
Q Consensus 61 -------------d~mRsqMALDWi~rE~~~pG~i~~EL~~a~rELe~aR~aGrELRF~KEKkdIL~LA~~q~ 120 (127)
||||||||||||+|||++||+|++||++|++||++||++||||||||||||||+||++|+
T Consensus 180 QeViahYs~r~LD~~mRsqMALDWi~rE~~~pG~i~~EL~~A~~ELe~aR~aGrELRF~KEKkdIL~LA~sq~ 252 (252)
T PF14954_consen 180 QEVIAHYSQRSLDDDMRSQMALDWIAREQESPGIISQELQVAERELEEARLAGRELRFYKEKKDILSLALSQL 252 (252)
T ss_pred HHHHHHHHhcchhHHHHHHHHHHHHHhhccCCcHHHHHHHHHHHHHHHHHHhccccccchhHHHHHHHHhhcC
Confidence 999999999999999999999999999999999999999999999999999999999996
No 2
>cd00048 DSRM Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III, RNases H1, and dsRNA dependent adenosine deaminases.
Probab=76.76 E-value=5.1 Score=23.69 Aligned_cols=38 Identities=34% Similarity=0.408 Sum_probs=26.0
Q ss_pred hHHHHHHHHHHHHhhhccccCCCceEEEeecCCC----CCCeEEEEecCC
Q psy17866 3 NVVEALQEFWQMKQTRGAELKNGALVIYESVPSA----SPPYVCYVTLPG 48 (127)
Q Consensus 3 NVVeaLqeFWq~Kq~rga~~~~~~lV~YEsvps~----~pPyVcyVTLPG 48 (127)
|-+..|+|+=|.. +...+.|+.+... .+.|+|-|++.|
T Consensus 1 ~p~~~L~e~~~~~--------~~~~~~y~~~~~~g~~~~~~f~~~v~i~~ 42 (68)
T cd00048 1 NPKSLLQELAQKR--------GKPLPEYELVEEEGPDHAPRFTVEVTVGG 42 (68)
T ss_pred ChHHHHHHHHHHc--------CCCCCeEEEeeeeCCCCCCeEEEEEEECC
Confidence 4577888887642 3445677765433 367999999976
No 3
>PF15290 Syntaphilin: Golgi-localised syntaxin-1-binding clamp
Probab=63.22 E-value=9.6 Score=33.20 Aligned_cols=19 Identities=42% Similarity=0.718 Sum_probs=15.2
Q ss_pred chhhhhhhhHh---hHHHhhhc
Q psy17866 59 EVEVSRSQMAL---DWIAREQE 77 (127)
Q Consensus 59 EFd~mRsqMAL---DWi~rE~~ 77 (127)
|.+++|+|++- |||..|=+
T Consensus 90 EI~eLksQL~RMrEDWIEEECH 111 (305)
T PF15290_consen 90 EIDELKSQLARMREDWIEEECH 111 (305)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 44999998776 99988754
No 4
>cd04760 BAH_Dnmt1_I BAH, or Bromo Adjacent Homology domain, first copy present in DNA (Cytosine-5)-methyltransferases from Bilateria, Dnmt1 and similar proteins. DNA methylation, or the covalent addition of a methyl group to cytosine within the context of the CpG dinucleotide, has profound effects on the genome. These effects include transcriptional repression via inhibition of transcription factor binding, the recruitment of methyl-binding proteins and their associated chromatin remodeling factors, X chromosome inactivation, imprinting, and the suppression of parasitic DNA sequences. DNA methylation is also essential for proper embryonic development and is an important player in both DNA repair and genome stability. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=60.96 E-value=9.8 Score=28.66 Aligned_cols=27 Identities=33% Similarity=0.498 Sum_probs=22.2
Q ss_pred ccccCCCceEEEeecCCCCCCeEEEEe
Q psy17866 19 GAELKNGALVIYESVPSASPPYVCYVT 45 (127)
Q Consensus 19 ga~~~~~~lV~YEsvps~~pPyVcyVT 45 (127)
|..+..|..|.-++-.+..||||++|+
T Consensus 1 g~~i~vGD~V~v~~~~~~~p~~I~rV~ 27 (124)
T cd04760 1 GEELEAGDCVSVKPDDPTKPLYIARVT 27 (124)
T ss_pred CCEEecCCEEEEecCCCCCCcEEEEEh
Confidence 345667888888888889999999997
No 5
>PF00035 dsrm: Double-stranded RNA binding motif; InterPro: IPR001159 The DsRBD domain is found in a variety of RNA-binding proteins with different structures and exhibiting a diversity of functions []. It is involved in localisation of at least five different mRNAs in the early Drosophila embryo and by interferon-induced protein kinase in humans, which is part of the cellular response to dsRNA.; GO: 0003725 double-stranded RNA binding, 0005622 intracellular; PDB: 1EKZ_A 1STU_A 1QU6_A 2L2M_A 3ADJ_A 1WHN_A 3LLH_B 2B7V_A 2L3J_A 1UHZ_A ....
Probab=60.71 E-value=17 Score=21.86 Aligned_cols=38 Identities=26% Similarity=0.398 Sum_probs=20.1
Q ss_pred HHHHHHHHHHHhhhccccCCCceEEEeecCCCC-CCeEEEEecC
Q psy17866 5 VEALQEFWQMKQTRGAELKNGALVIYESVPSAS-PPYVCYVTLP 47 (127)
Q Consensus 5 VeaLqeFWq~Kq~rga~~~~~~lV~YEsvps~~-pPyVcyVTLP 47 (127)
+..|+| |-++.. +...-..+-+..|+.+ |-|.|-|++.
T Consensus 2 ~~~L~e-~~~~~~----~~~~~~~~~~~~~~~~~~~f~~~~~i~ 40 (67)
T PF00035_consen 2 KSRLNE-YCQKNK----FPPPYYYIEEEGPSHHRPRFICTVYID 40 (67)
T ss_dssp HHHHHH-HHHHCT----SSEEEEEEEEESSSSSSEEEEEEEEET
T ss_pred HHHHHH-HHHHcC----CCCCEEEEEEeCCCCCCceEEEEEEEC
Confidence 567899 544433 2222222224444444 5688888883
No 6
>COG3680 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=54.69 E-value=18 Score=30.98 Aligned_cols=55 Identities=20% Similarity=0.234 Sum_probs=42.6
Q ss_pred eE-EEEecCCCCcCCCcccc---chhhhhhhhHhhHHHhhhcCCcchHHHHHHHHHHHHHHHhcccccc
Q psy17866 40 YV-CYVTLPGGSCFGSFQTL---EVEVSRSQMALDWIAREQENPGALGRELDQAERELETARLAGRELR 104 (127)
Q Consensus 40 yV-cyVTLPGGSCFG~fq~C---EFd~mRsqMALDWi~rE~~~pG~i~~EL~~a~rELe~aR~aGrELR 104 (127)
|| ||+.+--|+-|=-=+-| -|++||-. .+++++.-+|++-|+ .|.++|++|++.+
T Consensus 17 YVY~l~Dpr~~~ifYVGKG~GnRVf~H~~~~------sa~~d~~~~~srKlk----~i~e~r~agl~ii 75 (259)
T COG3680 17 YVYCLTDPRKDKIFYVGKGCGNRVFEHEWVA------SASQDSGEIISRKLK----AISECRKAGLYII 75 (259)
T ss_pred EEEEEecCCCCcEEEEecCCccchHHhhhhh------hcccccchHHHHHHH----HHHHHHHcCCeee
Confidence 55 99999999988777777 66766432 467788888888876 4678899999988
No 7
>smart00358 DSRM Double-stranded RNA binding motif.
Probab=53.60 E-value=45 Score=19.71 Aligned_cols=35 Identities=34% Similarity=0.453 Sum_probs=22.2
Q ss_pred HHHHHHHHHHHhhhccccCCCceEEEeec----CCCCCCeEEEEecCC
Q psy17866 5 VEALQEFWQMKQTRGAELKNGALVIYESV----PSASPPYVCYVTLPG 48 (127)
Q Consensus 5 VeaLqeFWq~Kq~rga~~~~~~lV~YEsv----ps~~pPyVcyVTLPG 48 (127)
+..|+||=|... + .+.|+.. |...|.|.|-|++.|
T Consensus 2 ~~~L~e~~~~~~-----~----~~~y~~~~~~g~~~~~~f~~~v~i~~ 40 (67)
T smart00358 2 KSLLQELAQKRG-----L----PPEYELVKEEGPDHAPRFTVTVKVGG 40 (67)
T ss_pred chHHHHHHHHCC-----C----CCEEEEEeeeCCCCCCcEEEEEEECC
Confidence 356888776532 1 2455544 444568999999966
No 8
>PF10127 Nuc-transf: Predicted nucleotidyltransferase; InterPro: IPR018775 Proteins in this entry are predicted to catalyse the transfer of nucleotide residues from nucleoside diphosphates or triphosphates into dimer or polymer forms.
Probab=47.52 E-value=32 Score=26.80 Aligned_cols=47 Identities=23% Similarity=0.223 Sum_probs=34.8
Q ss_pred chhhhhhhhHhhHHHhhhcCCcch---------HHHHHHHHHHHHHHHhccccccc
Q psy17866 59 EVEVSRSQMALDWIAREQENPGAL---------GRELDQAERELETARLAGRELRF 105 (127)
Q Consensus 59 EFd~mRsqMALDWi~rE~~~pG~i---------~~EL~~a~rELe~aR~aGrELRF 105 (127)
-|--+|.-||..||.+..+.|-+. ..++...-.+|-+.+..|.|.--
T Consensus 151 ~~y~lR~lla~~~i~~~~~~pPm~f~~l~~~~~~~~~~~~i~~Ll~~K~~~~e~~~ 206 (247)
T PF10127_consen 151 YFYALRLLLAARWILETGEIPPMEFEELLEELNDDDLREEIDELLEIKKGGDEKEE 206 (247)
T ss_pred HHHHHHHHHHHHHHHhcCCCCCccHHHHHHhccchhHHHHHHHHHHHHcCCCchhh
Confidence 347899999999999999876665 33445555678888888887543
No 9
>cd04714 BAH_BAHCC1 BAH, or Bromo Adjacent Homology domain, as present in mammalian BAHCC1 and similar proteins. BAHCC1 stands for BAH domain and coiled-coil containing 1. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=41.05 E-value=37 Score=24.30 Aligned_cols=26 Identities=27% Similarity=0.478 Sum_probs=20.9
Q ss_pred cccCCCceEEEeecCCCCCCeEEEEe
Q psy17866 20 AELKNGALVIYESVPSASPPYVCYVT 45 (127)
Q Consensus 20 a~~~~~~lV~YEsvps~~pPyVcyVT 45 (127)
..++-|-.|.-.+-++++||||+-|.
T Consensus 2 ~~~~vGD~V~v~~~~~~~~pyIgrI~ 27 (121)
T cd04714 2 EIIRVGDCVLFKSPGRPSLPYVARIE 27 (121)
T ss_pred CEEEcCCEEEEeCCCCCCCCEEEEEE
Confidence 34667888888888888999998874
No 10
>PF04046 PSP: PSP; InterPro: IPR006568 PSP is a proline-rich domain of unknown function found in spliceosome associated proteins.
Probab=40.73 E-value=14 Score=24.17 Aligned_cols=12 Identities=50% Similarity=0.736 Sum_probs=10.7
Q ss_pred CcchHHHHHHHH
Q psy17866 79 PGALGRELDQAE 90 (127)
Q Consensus 79 pG~i~~EL~~a~ 90 (127)
||.||+||+.|.
T Consensus 2 PG~lS~~LR~AL 13 (48)
T PF04046_consen 2 PGKLSDELREAL 13 (48)
T ss_pred CcccCHHHHHHc
Confidence 899999999875
No 11
>cd04712 BAH_DCM_I BAH, or Bromo Adjacent Homology domain, as present in DNA (Cytosine-5)-methyltransferases (DCM) 1. DNA methylation, or the covalent addition of a methyl group to cytosine within the context of the CpG dinucleotide, has profound effects on the genome. These effects include transcriptional repression via inhibition of transcription factor binding, the recruitment of methyl-binding proteins and their associated chromatin remodeling factors, X chromosome inactivation, imprinting, and the suppression of parasitic DNA sequences. DNA methylation is also essential for proper embryonic development and is an important player in both DNA repair and genome stability. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=39.58 E-value=35 Score=25.15 Aligned_cols=30 Identities=23% Similarity=0.306 Sum_probs=21.7
Q ss_pred hccccCCCceEEEeecCCC----------CCCeEEEEecC
Q psy17866 18 RGAELKNGALVIYESVPSA----------SPPYVCYVTLP 47 (127)
Q Consensus 18 rga~~~~~~lV~YEsvps~----------~pPyVcyVTLP 47 (127)
.|..++.|..|.-+.--++ -|||||+|+--
T Consensus 2 ~~~~i~vGD~V~v~~d~~~~~~~~~~~~~~~~~i~~V~~~ 41 (130)
T cd04712 2 HGLTIRVGDVVSVERDDADSTTKWNDDHRWLPLVQFVEYM 41 (130)
T ss_pred CCCEEeCCCEEEEcCCCCCccccccccccccceEEEEEEe
Confidence 3566778887777765544 39999999763
No 12
>smart00581 PSP proline-rich domain in spliceosome associated proteins.
Probab=39.07 E-value=15 Score=24.63 Aligned_cols=13 Identities=38% Similarity=0.664 Sum_probs=11.5
Q ss_pred CCcchHHHHHHHH
Q psy17866 78 NPGALGRELDQAE 90 (127)
Q Consensus 78 ~pG~i~~EL~~a~ 90 (127)
.||.||+||+.|.
T Consensus 5 kPG~lS~~LR~AL 17 (54)
T smart00581 5 KPGRISDELREAL 17 (54)
T ss_pred cCCcCCHHHHHHc
Confidence 5999999999885
No 13
>PF13060 DUF3921: Protein of unknown function (DUF3921)
Probab=38.94 E-value=55 Score=22.43 Aligned_cols=29 Identities=24% Similarity=0.414 Sum_probs=25.4
Q ss_pred HhhHHHhhhcCCcchHHHHHHHHHHHHHH
Q psy17866 68 ALDWIAREQENPGALGRELDQAERELETA 96 (127)
Q Consensus 68 ALDWi~rE~~~pG~i~~EL~~a~rELe~a 96 (127)
..|=+.+|-+..|++..|++.|+.|--.|
T Consensus 16 tydelgkei~~~g~~~d~i~kaqeeylsa 44 (58)
T PF13060_consen 16 TYDELGKEIDLQGVIADEIQKAQEEYLSA 44 (58)
T ss_pred hHHHHhHHhhhcchHHHHHHHHHHHHHHH
Confidence 45889999999999999999999887655
No 14
>PF01796 DUF35: DUF35 OB-fold domain; InterPro: IPR002878 This domain has no known function and is found in conserved hypothetical archaeal and bacterial proteins. The domain is approximately 70 amino acids long. The domain is duplicated in O53566 from SWISSPROT. The structure of a DUF35 representative reveals two long N-terminal helices followed by a rubredoxin-like zinc ribbon domain and a C-terminal OB fold domain represented in this entry. OB-folds are frequently found to bind nucleic acids suggesting this domain might bind to DNA or RNA.
Probab=36.33 E-value=50 Score=21.17 Aligned_cols=22 Identities=41% Similarity=0.721 Sum_probs=14.8
Q ss_pred EEEeecCCCCC--CeE-EEEecCCC
Q psy17866 28 VIYESVPSASP--PYV-CYVTLPGG 49 (127)
Q Consensus 28 V~YEsvps~~p--PyV-cyVTLPGG 49 (127)
++|...|..-+ ||+ ++|.|..|
T Consensus 15 ~v~~~~~~~~~~~Py~v~~V~ldeg 39 (68)
T PF01796_consen 15 VVHRPPPPGFPEVPYVVAIVELDEG 39 (68)
T ss_pred EEecCCCCcccCCCEEEEEEEeCCC
Confidence 45665555443 887 99999844
No 15
>TIGR02858 spore_III_AA stage III sporulation protein AA. Members of this protein are the stage III sporulation protein AA, encoded by one of several genes in the spoIIIA locus. It seems that this protein is found in a species if and only if that species is capable of endospore formation.
Probab=34.95 E-value=19 Score=29.39 Aligned_cols=10 Identities=40% Similarity=0.840 Sum_probs=9.1
Q ss_pred EEEEecCCCC
Q psy17866 41 VCYVTLPGGS 50 (127)
Q Consensus 41 VcyVTLPGGS 50 (127)
..|+|||||.
T Consensus 53 ~~~~tlpgG~ 62 (270)
T TIGR02858 53 QGYITIEGGH 62 (270)
T ss_pred cceEEcCCCc
Confidence 6899999997
No 16
>COG0049 RpsG Ribosomal protein S7 [Translation, ribosomal structure and biogenesis]
Probab=34.05 E-value=1e+02 Score=24.31 Aligned_cols=62 Identities=24% Similarity=0.305 Sum_probs=46.0
Q ss_pred Ccccc-ch-hhhhhhhHhhHHHhhhcCCcchHHHHHHHHHHHHHHHhcccccccchhhHHHHHHHHh
Q psy17866 54 SFQTL-EV-EVSRSQMALDWIAREQENPGALGRELDQAERELETARLAGRELRFPKEKKDILMLAHT 118 (127)
Q Consensus 54 ~fq~C-EF-d~mRsqMALDWi~rE~~~pG~i~~EL~~a~rELe~aR~aGrELRF~KEKkdIL~LA~~ 118 (127)
+||.= |. ..-|...||.||...-...+--+-+..+|..=++.|...| -=.|.|.|+=-+|.+
T Consensus 83 ~yqvpVeV~p~RR~~lAlrwi~~~Ar~r~~ktm~erLA~Eli~Aan~~g---~AikKked~hRmAeA 146 (148)
T COG0049 83 TYQVPVEVRPRRRVALALRWIVEGARKRNEKTMAERLANELIDAANNTG---AAIKKKEDTHRMAEA 146 (148)
T ss_pred eeEecCccCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCc---chhhhHHHHHHHHHh
Confidence 45543 33 5667789999998887777888888889987778888888 446777787766643
No 17
>PF08381 BRX: Transcription factor regulating root and shoot growth via Pin3; InterPro: IPR013591 This is a short domain, approximately 35 residues in length that is found near the C terminus in a number of plant proteins, being repeated in some members. It is found in Brevis radix-like proteins. These may act as a regulator of cell proliferation and elongation in the root []. It is also found in proteins annotated as involved in disease resistance and in the regulation of chromosome condensation, which also contain other domains with varied functions, such as TIR (IPR000157 from INTERPRO) and FYVE (IPR000306 from INTERPRO) respectively.
Probab=32.41 E-value=35 Score=23.22 Aligned_cols=12 Identities=42% Similarity=0.894 Sum_probs=10.2
Q ss_pred CeEEEEecCCCC
Q psy17866 39 PYVCYVTLPGGS 50 (127)
Q Consensus 39 PyVcyVTLPGGS 50 (127)
.||-+++||||.
T Consensus 14 VyiTl~~~p~G~ 25 (59)
T PF08381_consen 14 VYITLVSLPDGG 25 (59)
T ss_pred eEEEEEECCCCC
Confidence 588999999984
No 18
>PF15189 DUF4582: Domain of unknown function (DUF4582)
Probab=32.39 E-value=75 Score=25.43 Aligned_cols=36 Identities=25% Similarity=0.329 Sum_probs=25.2
Q ss_pred hHHHHHHHHHHHHHHHhcccccccchhhHHHHHHHHh
Q psy17866 82 LGRELDQAERELETARLAGRELRFPKEKKDILMLAHT 118 (127)
Q Consensus 82 i~~EL~~a~rELe~aR~aGrELRF~KEKkdIL~LA~~ 118 (127)
..|.....|.-...-|..|.-.||+.+ +|||.||.+
T Consensus 107 ~vQa~R~~E~~n~~~~~r~~~~r~~~d-~DilaLa~a 142 (172)
T PF15189_consen 107 EVQARRKDEIQNASNRQRGGAPRYQED-RDILALAAA 142 (172)
T ss_pred HHHHHHHHHHHHHHhhcccCCCcccch-hHHHHHHHH
Confidence 345555566555566778888888777 789998853
No 19
>COG2320 GrpB Uncharacterized conserved protein [Function unknown]
Probab=32.26 E-value=1.5e+02 Score=24.20 Aligned_cols=72 Identities=22% Similarity=0.316 Sum_probs=47.5
Q ss_pred cCCCCCCeEEEEecCCCCcCCCccccchhhhhhhhHh-hHHHhhhcCCcchHHHHHHHHHHHHHHHhcccccccchhhHH
Q psy17866 33 VPSASPPYVCYVTLPGGSCFGSFQTLEVEVSRSQMAL-DWIAREQENPGALGRELDQAERELETARLAGRELRFPKEKKD 111 (127)
Q Consensus 33 vps~~pPyVcyVTLPGGSCFG~fq~CEFd~mRsqMAL-DWi~rE~~~pG~i~~EL~~a~rELe~aR~aGrELRF~KEKkd 111 (127)
-+|+++|+.-+|---|++|+ .-+.++ ||+.+ +|++ .++...-.++|. |+..+.-+++--+|-.
T Consensus 110 ~~~~~~p~~~hv~~~G~~~~-----------~~~l~FrD~Lra---~P~~-~~~Y~~lKr~la-a~~~~e~~~Y~~~K~~ 173 (185)
T COG2320 110 HASAREPTHVHVVTRGSPEI-----------EFALLFRDWLRA---NPEI-REAYAELKRELA-AQEDDEILRYTAAKSA 173 (185)
T ss_pred cccCCCCeeEEEEeCCChHH-----------HHHHHHHHHHHh---CHHH-HHHHHHHHHHHH-HhchHHHHHHHhhhcH
Confidence 36778899999988888875 334555 99988 4654 556666666552 3334444477777877
Q ss_pred HHHHHHhhh
Q psy17866 112 ILMLAHTQI 120 (127)
Q Consensus 112 IL~LA~~q~ 120 (127)
++.-++.++
T Consensus 174 ~i~~~l~~a 182 (185)
T COG2320 174 FIERILARA 182 (185)
T ss_pred HHHHHHHHh
Confidence 776666554
No 20
>cd05718 Ig1_PVR_like First immunoglobulin (Ig) domain of poliovirus receptor (PVR, also known as CD155) and similar proteins. Ig1_PVR_like: domain similar to the first immunoglobulin (Ig) domain of poliovirus receptor (PVR, also known as CD155). Poliovirus (PV) binds to its cellular receptor (PVR/CD155) to initiate infection. CD155 is a membrane-anchored, single-span glycoprotein; its extracellular region has three Ig-like domains. There are four different isotypes of CD155 (referred to as alpha, beta, gamma, and delta), that result from alternate splicing of the CD155 mRNA, and have identical extracellular domains. CD155-beta and - gamma, are secreted, CD155-alpha and delta are membrane-bound and function as PV receptors. The virus recognition site is contained in the amino-terminal domain, D1. Having the virus attachment site on the receptor distal from the plasma membrane, may be important for successful initiation of infection of cells by the virus. CD155 binds in the poliovirus "c
Probab=30.36 E-value=61 Score=20.59 Aligned_cols=28 Identities=18% Similarity=0.441 Sum_probs=22.8
Q ss_pred CCCceEEEeecCCCCCCeEEEEe-cCCCC
Q psy17866 23 KNGALVIYESVPSASPPYVCYVT-LPGGS 50 (127)
Q Consensus 23 ~~~~lV~YEsvps~~pPyVcyVT-LPGGS 50 (127)
.+.+|.|-..-++-+--|.|-|. .|+|+
T Consensus 60 ~~~sL~I~~v~~~D~G~Y~C~v~~~~~g~ 88 (98)
T cd05718 60 EDATISISNLRLEDEGNYICEFATFPQGN 88 (98)
T ss_pred CceEEEEccCCcccCEEEEEEEEeCCCCc
Confidence 45688888888999999999875 68775
No 21
>PF09726 Macoilin: Transmembrane protein; InterPro: IPR019130 This entry represents the multi-pass transmembrane protein Macoilin, which is highly conserved in eukaryotes. ; GO: 0016021 integral to membrane
Probab=29.65 E-value=49 Score=31.01 Aligned_cols=41 Identities=34% Similarity=0.359 Sum_probs=33.9
Q ss_pred CcchHHHHHHHHHHHHHHHhcccccccc-hhh---HHHHHHHHhh
Q psy17866 79 PGALGRELDQAERELETARLAGRELRFP-KEK---KDILMLAHTQ 119 (127)
Q Consensus 79 pG~i~~EL~~a~rELe~aR~aGrELRF~-KEK---kdIL~LA~~q 119 (127)
-..+..||+..+.++..+....++||=| ||. .|+|+-||+-
T Consensus 554 ~~~lr~elk~kee~~~~~e~~~~~lr~~~~e~~~~~e~L~~aL~a 598 (697)
T PF09726_consen 554 LKKLRRELKQKEEQIRELESELQELRKYEKESEKDTEVLMSALSA 598 (697)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHH
Confidence 3567889999999999999999999999 773 6788888764
No 22
>KOG1351|consensus
Probab=29.39 E-value=53 Score=29.92 Aligned_cols=56 Identities=30% Similarity=0.358 Sum_probs=40.3
Q ss_pred cCCCceEEEeecCCCCCCeEEEEecCCCCcCC------------------------Cccccch--hhhhhhhHhhHHHhh
Q psy17866 22 LKNGALVIYESVPSASPPYVCYVTLPGGSCFG------------------------SFQTLEV--EVSRSQMALDWIARE 75 (127)
Q Consensus 22 ~~~~~lV~YEsvps~~pPyVcyVTLPGGSCFG------------------------~fq~CEF--d~mRsqMALDWi~rE 75 (127)
.-||.|||-+-|--|.---+.-+|||.||--. .+..||| |-||.-++.|-+.|-
T Consensus 29 gvngplvild~vkfp~y~eiv~ltlpdgt~r~gqvlev~g~kavvqvfegtsgid~k~t~~eftg~~lr~pvsedmlgri 108 (489)
T KOG1351|consen 29 GVNGPLVILDKVKFPKYAEIVNLTLPDGSVRSGQVLEVSGEKAVVQVFEGTSGIDAKKTTVEFTGEILRTPVSEDMLGRI 108 (489)
T ss_pred ccCCceEEEecccccchhhheEEecCCCCeecceEEEecCCeeEEEEeccccccccccceEEEecccccccccHHHhhhh
Confidence 34677888777765554445678999998521 2345688 899999999999885
Q ss_pred hc
Q psy17866 76 QE 77 (127)
Q Consensus 76 ~~ 77 (127)
-.
T Consensus 109 fn 110 (489)
T KOG1351|consen 109 FN 110 (489)
T ss_pred hc
Confidence 43
No 23
>PF00984 UDPG_MGDP_dh: UDP-glucose/GDP-mannose dehydrogenase family, central domain; InterPro: IPR014026 The UDP-glucose/GDP-mannose dehydrogenases are a small group of enzymes which possesses the ability to catalyse the NAD-dependent 2-fold oxidation of an alcohol to an acid without the release of an aldehyde intermediate [, ]. The enzymes have a wide range of functions. In plants UDP-glucose dehydrogenase, 1.1.1.22 from EC, is an important enzyme in the synthesis of hemicellulose and pectin [], which are the components of newly formed cell walls; while in zebrafish UDP-glucose dehydrogenase is required for cardiac valve formation []. In Xanthomonas campestris, a plant pathogen, UDP-glucose dehydrogenase is required for virulence []. GDP-mannose dehydrogenase, 1.1.1.132 from EC, catalyses the formation of GDP-mannuronic acid, which is the monomeric unit from which the exopolysaccharide alginate is formed. Alginate is secreted by a number of bacteria, which include Pseudomonas aeruginosa and Azotobacter vinelandii. In P. aeruginosa, alginate is believed to play an important role in the bacteria's resistance to antibiotics and the host immune response [], while in A. vinelandii it is essential for the encystment process []. This entry represents an alpha helical region that serves as the dimerisation interface for these enzymes [, ].; GO: 0016616 oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor, 0051287 NAD binding, 0055114 oxidation-reduction process; PDB: 2O3J_A 3OJO_A 3OJL_A 3PLR_A 3PJG_A 3PID_A 3PLN_A 3PHL_A 3TDK_B 2Q3E_A ....
Probab=28.86 E-value=52 Score=23.06 Aligned_cols=21 Identities=38% Similarity=0.706 Sum_probs=15.6
Q ss_pred CCCcCCCccccchhhhhhhhHhhHHHhhhcC
Q psy17866 48 GGSCFGSFQTLEVEVSRSQMALDWIAREQEN 78 (127)
Q Consensus 48 GGSCFG~fq~CEFd~mRsqMALDWi~rE~~~ 78 (127)
||+||. +.-.+|-|.+++...
T Consensus 61 GG~Clp----------kD~~~L~~~~~~~g~ 81 (96)
T PF00984_consen 61 GGSCLP----------KDPYALIYLAKELGY 81 (96)
T ss_dssp -SSCHH----------HHHHHHHHHHHHTTS
T ss_pred CCcchh----------hhHHHHHHHHHHcCC
Confidence 899986 566788899887754
No 24
>PF10771 DUF2582: Protein of unknown function (DUF2582); InterPro: IPR019707 This entry represents conserved proteins found in bacteria and archaea. The function is not known. ; PDB: 2L02_B 2L01_A.
Probab=28.82 E-value=29 Score=23.55 Aligned_cols=17 Identities=29% Similarity=0.644 Sum_probs=13.3
Q ss_pred hhhhhhhHhhHHHhhhc
Q psy17866 61 EVSRSQMALDWIAREQE 77 (127)
Q Consensus 61 d~mRsqMALDWi~rE~~ 77 (127)
++.=-.||+-|++||..
T Consensus 35 ~~~~~~~AiGWLarE~K 51 (65)
T PF10771_consen 35 SDKEVYLAIGWLARENK 51 (65)
T ss_dssp SCHHHHHHHHHHHCTTS
T ss_pred CHHHHHHHHHHHhccCc
Confidence 45556899999999863
No 25
>PHA03103 double-strand RNA-binding protein; Provisional
Probab=28.68 E-value=97 Score=24.90 Aligned_cols=44 Identities=27% Similarity=0.410 Sum_probs=31.5
Q ss_pred hhHHHHHHHHHHHHhhhccccCCCceEEEeecCCCCCCeEEEEecCCCCc
Q psy17866 2 VNVVEALQEFWQMKQTRGAELKNGALVIYESVPSASPPYVCYVTLPGGSC 51 (127)
Q Consensus 2 vNVVeaLqeFWq~Kq~rga~~~~~~lV~YEsvps~~pPyVcyVTLPGGSC 51 (127)
.|-+..||||=|... ++ . -.++=++-|+..|-|.+-|++.|..+
T Consensus 109 kNpKS~LQE~~Qk~~-~~--~---y~~i~~~Gp~H~p~F~v~V~I~g~~~ 152 (183)
T PHA03103 109 KNPCTVINEYCQITS-RD--W---SINITSSGPSHSPTFTASVIISGIKF 152 (183)
T ss_pred CChhHHHHHHHHHhC-CC--e---EEEEEeeCCCCCceEEEEEEECCEEE
Confidence 467789999877533 22 1 33455678888899999999998554
No 26
>COG4458 SrfC Uncharacterized protein conserved in bacteria, putative virulence factor [Function unknown]
Probab=27.35 E-value=50 Score=32.17 Aligned_cols=39 Identities=36% Similarity=0.561 Sum_probs=33.0
Q ss_pred hhhHhhHHHhhhcCCcchHHHHHHHHHHHHHHHhccccc
Q psy17866 65 SQMALDWIAREQENPGALGRELDQAERELETARLAGREL 103 (127)
Q Consensus 65 sqMALDWi~rE~~~pG~i~~EL~~a~rELe~aR~aGrEL 103 (127)
+|-|+|||..-+...-.+..|-..++.+|..+|.+.+.|
T Consensus 16 ~q~aIdWv~~tr~navRlddeadsl~~~Lrr~rn~a~~l 54 (821)
T COG4458 16 AQDAIDWVGNTRANAVRLDDEADSLEQHLRRSRNAARKL 54 (821)
T ss_pred HHHHHHHHhhhhhhhhhcccHHHHHHHHHHHHHHHhhHH
Confidence 488999999888888889999999999999888776544
No 27
>PF10139 Virul_Fac: Putative bacterial virulence factor; InterPro: IPR017030 This group represents a virulence effector protein, SrfC type.
Probab=27.05 E-value=44 Score=32.27 Aligned_cols=34 Identities=32% Similarity=0.497 Sum_probs=28.0
Q ss_pred HhhHHHhhhcCCcchHHHHHHHHHHHHHHHhccc
Q psy17866 68 ALDWIAREQENPGALGRELDQAERELETARLAGR 101 (127)
Q Consensus 68 ALDWi~rE~~~pG~i~~EL~~a~rELe~aR~aGr 101 (127)
|+|||...++..-.+..|-..-...|..+|..-+
T Consensus 1 Ai~Wv~~~R~~a~rl~~ead~L~~~Lrr~r~~a~ 34 (854)
T PF10139_consen 1 AIDWVEDTRQNAPRLDNEADALILRLRRARNKAR 34 (854)
T ss_pred ChhhHHHHHhcchhhhhhHHHHHHHHHHHHHHHH
Confidence 7999999988888999888887778877776544
No 28
>PF08537 NBP1: Fungal Nap binding protein NBP1; InterPro: IPR013743 NBP1 is a nuclear protein which has been shown in Saccharomyces cerevisiae (Bakers yeast) to be essential for the G2/M transition of the cell cycle.
Probab=26.67 E-value=61 Score=28.41 Aligned_cols=38 Identities=29% Similarity=0.445 Sum_probs=27.8
Q ss_pred HHHHHHHHHHHHHHHhcccccccchhhHHHHHHHHhhhcCC
Q psy17866 83 GRELDQAERELETARLAGRELRFPKEKKDILMLAHTQINGG 123 (127)
Q Consensus 83 ~~EL~~a~rELe~aR~aGrELRF~KEKkdIL~LA~~q~~~~ 123 (127)
-++|..++.||+.. -+.|+|-+||..+|.-.|.-+..+
T Consensus 188 ~~~l~~~~~eL~~~---~k~L~faqekn~LlqslLddaniD 225 (323)
T PF08537_consen 188 EERLNDLEKELEIT---KKDLKFAQEKNALLQSLLDDANID 225 (323)
T ss_pred HHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHhhhccc
Confidence 45666777777764 467999999999998766555444
No 29
>cd04370 BAH BAH, or Bromo Adjacent Homology domain (also called ELM1 and BAM for Bromo Adjacent Motif). BAH domains have first been described as domains found in the polybromo protein and Yeast Rsc1/Rsc2 (Remodeling of the Structure of Chromatin). They also occur in mammalian DNA methyltransferases and the MTA1 subunits of histone deacetylase complexes. A BAH domain is also found in Yeast Sir3p and in the origin receptor complex protein 1 (Orc1p), where it was found to interact with the N-terminal lobe of the silence information regulator 1 protein (Sir1p), confirming the initial hypothesis that BAH plays a role in protein-protein interactions.
Probab=26.63 E-value=91 Score=20.40 Aligned_cols=50 Identities=24% Similarity=0.458 Sum_probs=27.1
Q ss_pred ccCCCceEEEeecCC--CCCCeEEEEecCCCCcCCCccccchhhhhhhhHhhHHHhhhcCCc
Q psy17866 21 ELKNGALVIYESVPS--ASPPYVCYVTLPGGSCFGSFQTLEVEVSRSQMALDWIAREQENPG 80 (127)
Q Consensus 21 ~~~~~~lV~YEsvps--~~pPyVcyVTLPGGSCFG~fq~CEFd~mRsqMALDWi~rE~~~pG 80 (127)
.++.|..|.-.+-.. +.|||||.|.= .+-+ .+-...+-+-|.-|-.+.+.
T Consensus 3 ~y~vgd~V~v~~~~~~~~~~~~i~~I~~----i~~~------~~~~~~~~v~wf~rp~e~~~ 54 (123)
T cd04370 3 TYEVGDSVYVEPDDSIKSDPPYIARIEE----LWED------TNGSKQVKVRWFYRPEETPK 54 (123)
T ss_pred EEecCCEEEEecCCcCCCCCCEEEEEee----eeEC------CCCCEEEEEEEEEchhHhcc
Confidence 345566565555443 58999998841 0000 01122455677777776654
No 30
>PF14795 Leucyl-specific: Leucine-tRNA synthetase-specific domain; PDB: 1OBC_A 2BTE_A 2V0G_A 2BYT_A 1OBH_A 1H3N_A 2V0C_A.
Probab=26.39 E-value=6 Score=27.08 Aligned_cols=27 Identities=33% Similarity=0.407 Sum_probs=17.3
Q ss_pred cchHHHHHHHHHHHHHHHhcccccccc
Q psy17866 80 GALGRELDQAERELETARLAGRELRFP 106 (127)
Q Consensus 80 G~i~~EL~~a~rELe~aR~aGrELRF~ 106 (127)
-.+.-||...+.-|+++|+.|-|||-.
T Consensus 20 ~R~rLel~~~~Ls~ee~~KmGAELR~h 46 (56)
T PF14795_consen 20 TRIRLELEEGELSLEEVKKMGAELRPH 46 (56)
T ss_dssp HHHHHT-S-SEEEHHHHHHTT-EEEE-
T ss_pred hhheeecccccccHHHHHhhchhcccC
Confidence 345556666666689999999999953
No 31
>PF12185 IR1-M: Nup358/RanBP2 E3 ligase domain; InterPro: IPR022011 This domain family is found in eukaryotes, and is approximately 60 amino acids in length. The family is found in association with PF00638 from PFAM, PF00641 from PFAM, PF00160 from PFAM. There are two conserved sequence motifs: TFFC and EDF. Nup358/RanBP2 is a nucleoporin involved in ubiquitination of many different protein targets from various cellular pathways. It complexes with Ubc9, SUMO-1 and RanGAP1 to perform this function. This is the ligase domain which binds to Ubc9. ; PDB: 3UIO_D 3UIP_D 3UIN_D 1Z5S_D.
Probab=26.22 E-value=12 Score=26.07 Aligned_cols=26 Identities=27% Similarity=0.735 Sum_probs=16.3
Q ss_pred ceEEEeecCCC-----------CCCeEEEEecCCCCc
Q psy17866 26 ALVIYESVPSA-----------SPPYVCYVTLPGGSC 51 (127)
Q Consensus 26 ~lV~YEsvps~-----------~pPyVcyVTLPGGSC 51 (127)
-.||||--|.+ .|-|.||+.-||-+|
T Consensus 2 v~iV~Ek~PT~Eq~a~A~~L~LPpTFfcy~~~pd~~~ 38 (64)
T PF12185_consen 2 VQIVYEKKPTPEQKALAKKLQLPPTFFCYKNKPDTDE 38 (64)
T ss_dssp EEEEEE----HHHHHHHHHTT--TTGGGGGGSSS-SS
T ss_pred eEEEEecCCCHHHHHHHHhcCCCCcEEEeecCCCCCC
Confidence 46899999986 366889999999555
No 32
>PF06364 DUF1068: Protein of unknown function (DUF1068); InterPro: IPR010471 This family consists of several hypothetical plant proteins from Arabidopsis thaliana and Oryza sativa. The function of this family is unknown.
Probab=25.63 E-value=64 Score=26.35 Aligned_cols=68 Identities=22% Similarity=0.372 Sum_probs=40.5
Q ss_pred HHHHHHhhhccccCCCceEEEeecCCCCCCeEE------EEecCCCCcCCCcccc--chhhhhhhhHhhHHHhhhcCCcc
Q psy17866 10 EFWQMKQTRGAELKNGALVIYESVPSASPPYVC------YVTLPGGSCFGSFQTL--EVEVSRSQMALDWIAREQENPGA 81 (127)
Q Consensus 10 eFWq~Kq~rga~~~~~~lV~YEsvps~~pPyVc------yVTLPGGSCFG~fq~C--EFd~mRsqMALDWi~rE~~~pG~ 81 (127)
=||.-+..-+.. ..++=||.+| .+++|-|==..||..| -+-+|+.-|-=+. -.+
T Consensus 28 LYWh~~~~~~~~-----------s~~sCppC~CDCs~~~ll~ip~gl~N~S~~DC~k~dPe~~eEmeK~~-------~~L 89 (176)
T PF06364_consen 28 LYWHLSEGLAAV-----------SSSSCPPCDCDCSSQPLLSIPPGLSNLSFTDCGKHDPEVSEEMEKNF-------VDL 89 (176)
T ss_pred HHHHHHHhhhcc-----------cCCCCCCCCCCCCCHHHHHhcccccccchHhhccCChhhhHHHHhhH-------HHH
Confidence 488887655431 2445678887 4788988777899999 2334444442211 245
Q ss_pred hHHHHHHHHHHHHH
Q psy17866 82 LGRELDQAERELET 95 (127)
Q Consensus 82 i~~EL~~a~rELe~ 95 (127)
|+.||..-+.+-++
T Consensus 90 L~EELkLqe~~A~e 103 (176)
T PF06364_consen 90 LSEELKLQEAVANE 103 (176)
T ss_pred HHHHHHHHHHHHHH
Confidence 66777665554433
No 33
>COG5182 CUS1 Splicing factor 3b, subunit 2 [RNA processing and modification]
Probab=25.41 E-value=36 Score=30.88 Aligned_cols=39 Identities=28% Similarity=0.269 Sum_probs=24.1
Q ss_pred EEecCCCCcCCCccccchhhhhhhhHhhHH-HhhhcCCcchHHHHHHHH
Q psy17866 43 YVTLPGGSCFGSFQTLEVEVSRSQMALDWI-AREQENPGALGRELDQAE 90 (127)
Q Consensus 43 yVTLPGGSCFG~fq~CEFd~mRsqMALDWi-~rE~~~pG~i~~EL~~a~ 90 (127)
|=+=|=-||||-|- | .-| .|- +-.+--||.||+||..|.
T Consensus 252 ~g~kP~L~~fGe~y---~-e~~-----n~~~~vk~krPG~IS~eLreal 291 (429)
T COG5182 252 LGPKPYLSKFGEFY---E-EVD-----NDYRFVKKKRPGAISAELREAL 291 (429)
T ss_pred cCCCccccccccee---e-ccc-----hHHHHHhccCCcchHHHHHHHh
Confidence 33456668999753 2 122 343 334456999999997664
No 34
>PF09486 HrpB7: Bacterial type III secretion protein (HrpB7); InterPro: IPR013392 This entry represents proteins encoded by genes which are found in type III secretion operons in a narrow range of species including Xanthomonas, Burkholderia and Ralstonia.
Probab=23.61 E-value=86 Score=24.54 Aligned_cols=7 Identities=43% Similarity=0.890 Sum_probs=5.5
Q ss_pred CCCCcCC
Q psy17866 47 PGGSCFG 53 (127)
Q Consensus 47 PGGSCFG 53 (127)
-||+||+
T Consensus 64 ~gg~~f~ 70 (158)
T PF09486_consen 64 TGGAPFS 70 (158)
T ss_pred cCCCCcc
Confidence 4788887
No 35
>smart00439 BAH Bromo adjacent homology domain.
Probab=23.43 E-value=1.4e+02 Score=19.77 Aligned_cols=24 Identities=21% Similarity=0.455 Sum_probs=17.8
Q ss_pred cCCCceEEEeecCCCCCCeEEEEe
Q psy17866 22 LKNGALVIYESVPSASPPYVCYVT 45 (127)
Q Consensus 22 ~~~~~lV~YEsvps~~pPyVcyVT 45 (127)
++.|..|...+-.+..||||+.|.
T Consensus 2 ~~vgd~V~v~~~~~~~~~~i~~I~ 25 (120)
T smart00439 2 IRVGDFVLVEPDDADEPYYIGRIE 25 (120)
T ss_pred cccCCEEEEeCCCCCCCCEEEEEE
Confidence 345677777777777899998764
No 36
>cd07624 BAR_SNX7_30 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexins 7 and 30. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. This subfamily consists of SNX7, SNX30, and similar proteins. The specific functions of SNX7 and SNX30 have not been elucidated. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=23.27 E-value=1.3e+02 Score=23.05 Aligned_cols=43 Identities=21% Similarity=0.371 Sum_probs=28.8
Q ss_pred HhhHHHhhhcCCcchHHHHHHHHHHHHHHHhcc-ccc-ccchhhHHHH
Q psy17866 68 ALDWIAREQENPGALGRELDQAERELETARLAG-REL-RFPKEKKDIL 113 (127)
Q Consensus 68 ALDWi~rE~~~pG~i~~EL~~a~rELe~aR~aG-rEL-RF~KEKkdIL 113 (127)
+.|-+.+-... +-+|+..|+.+++.++..= +|+ ||.++|+.=+
T Consensus 128 ~~e~L~~k~~~---l~~ev~~a~~~~e~~~~~~~~E~~rF~~~K~~d~ 172 (200)
T cd07624 128 SVEELNKKRLE---LLKEVEKLQDKLECANADLKADLERWKQNKRQDL 172 (200)
T ss_pred HHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444433 7888888999998887754 333 8999986543
No 37
>cd00885 cinA Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, where the domain is presumed to bind molybdopterin.
Probab=23.23 E-value=1e+02 Score=23.32 Aligned_cols=27 Identities=19% Similarity=0.297 Sum_probs=19.5
Q ss_pred HHHHHHHHHHHHh-------hhccccCCCceEEE
Q psy17866 4 VVEALQEFWQMKQ-------TRGAELKNGALVIY 30 (127)
Q Consensus 4 VVeaLqeFWq~Kq-------~rga~~~~~~lV~Y 30 (127)
+++.|++|+..+. .|.+.++.|+.++.
T Consensus 94 ~~~~i~~~~~~~~~~~~~~~~r~a~~p~ga~~i~ 127 (170)
T cd00885 94 ALERIEARFARRGREMTEANLKQAMLPEGATLLP 127 (170)
T ss_pred HHHHHHHHHHhcCCccChhhhheecCCCCCEECc
Confidence 4566888886543 45788899998875
No 38
>PF06627 DUF1153: Protein of unknown function (DUF1153); InterPro: IPR009534 This family consists of several short, hypothetical bacterial proteins of unknown function.; PDB: 2OA4_A 2JRT_A.
Probab=23.14 E-value=44 Score=24.64 Aligned_cols=11 Identities=55% Similarity=0.715 Sum_probs=7.4
Q ss_pred EEecCCCCcCC
Q psy17866 43 YVTLPGGSCFG 53 (127)
Q Consensus 43 yVTLPGGSCFG 53 (127)
|||||.||-+.
T Consensus 11 ~V~~PdG~~~t 21 (90)
T PF06627_consen 11 YVTGPDGSPLT 21 (90)
T ss_dssp EEE-TTS-EEE
T ss_pred eEECCCCCccc
Confidence 89999999764
No 39
>PF04665 Pox_A32: Poxvirus A32 protein; InterPro: IPR006758 This entry contains uncharacterised proteins belonging to the B354L family which include the pox virus A32 protein. This is thought to be an ATPase involved in viral DNA packaging [].
Probab=22.57 E-value=1.2e+02 Score=24.91 Aligned_cols=37 Identities=32% Similarity=0.533 Sum_probs=28.2
Q ss_pred HHHHHHHhh-hccccCCCceEEEeecCCCCCCeEEEEe
Q psy17866 9 QEFWQMKQT-RGAELKNGALVIYESVPSASPPYVCYVT 45 (127)
Q Consensus 9 qeFWq~Kq~-rga~~~~~~lV~YEsvps~~pPyVcyVT 45 (127)
.+||..-.. +.+.-+-+.+|+..||+|.++-.+||-|
T Consensus 176 ~~~~~~~~~~~~~~~~~~~~Ii~dsv~s~~~~~~~~~~ 213 (241)
T PF04665_consen 176 EEFLDFYKVMRSCTKKYGVLIIEDSVFSNGEQRICYDS 213 (241)
T ss_pred HHHHHHHHHHHhhhcCceEEEEECccccCCceEEEeec
Confidence 456665433 4445667889999999999999999976
No 40
>PF11367 DUF3168: Protein of unknown function (DUF3168); InterPro: IPR021508 This family of proteins has no known function. ; PDB: 2LFP_A.
Probab=22.48 E-value=63 Score=21.26 Aligned_cols=15 Identities=40% Similarity=0.848 Sum_probs=9.4
Q ss_pred EEeecC-CCCCCeEEE
Q psy17866 29 IYESVP-SASPPYVCY 43 (127)
Q Consensus 29 ~YEsvp-s~~pPyVcy 43 (127)
+|+.+| ....|||.|
T Consensus 19 iyd~~P~~~~~Pyi~~ 34 (121)
T PF11367_consen 19 IYDYAPDGAPYPYIVI 34 (121)
T ss_dssp EESS--TTS-SSEEEE
T ss_pred ccccCCCCCCCeEEEE
Confidence 999999 456788865
No 41
>PF08114 PMP1_2: ATPase proteolipid family; InterPro: IPR012589 This family consists of small proteolipids associated with the plasma membrane H+ ATPase. Two proteolipids (PMP1 and PMP2) are associated with the ATPase and both genes are similarly expressed in the wild-type strain of yeast. No modification of the level of transcription of one PMP gene is detected in a strain deleted of the other. Though both proteolipids show similarity with other small proteolipids associated with other cation -transporting ATPases, their functions remain unclear [].
Probab=22.38 E-value=35 Score=22.33 Aligned_cols=8 Identities=63% Similarity=1.045 Sum_probs=5.9
Q ss_pred EEecCCCC
Q psy17866 43 YVTLPGGS 50 (127)
Q Consensus 43 yVTLPGGS 50 (127)
|-|||||-
T Consensus 3 ~s~lp~GV 10 (43)
T PF08114_consen 3 MSTLPGGV 10 (43)
T ss_pred cccCCCCe
Confidence 66888884
No 42
>PF11202 PRTase_1: Phosphoribosyl transferase (PRTase); InterPro: IPR011215 This is a family of uncharacterised bacterial proteins.
Probab=21.64 E-value=1.1e+02 Score=26.25 Aligned_cols=31 Identities=29% Similarity=0.414 Sum_probs=24.9
Q ss_pred hhHhhHHHhhhcC-----------CcchHHHHHHHHHHHHHH
Q psy17866 66 QMALDWIAREQEN-----------PGALGRELDQAERELETA 96 (127)
Q Consensus 66 qMALDWi~rE~~~-----------pG~i~~EL~~a~rELe~a 96 (127)
.-||+||...|.. -|.|.+||+.|-++....
T Consensus 132 ~~AL~~I~~~H~~~~ivFVDGWTGKGaI~~eL~~al~~~~~~ 173 (257)
T PF11202_consen 132 ENALRYILARHPPESIVFVDGWTGKGAITRELKKALAAFNAR 173 (257)
T ss_pred HHHHHHHHHhCCCcceEEEecCccccHHHHHHHHHHHHHHhh
Confidence 5799999887764 488999999998777543
No 43
>PRK03670 competence damage-inducible protein A; Provisional
Probab=21.41 E-value=1.6e+02 Score=24.01 Aligned_cols=64 Identities=22% Similarity=0.300 Sum_probs=36.9
Q ss_pred HHHHHHHHHHHHh--------------hhccccCCCceEEEeecCCCCCCeEE-----EEecCCCCcCCCccccchhhhh
Q psy17866 4 VVEALQEFWQMKQ--------------TRGAELKNGALVIYESVPSASPPYVC-----YVTLPGGSCFGSFQTLEVEVSR 64 (127)
Q Consensus 4 VVeaLqeFWq~Kq--------------~rga~~~~~~lV~YEsvps~~pPyVc-----yVTLPGGSCFG~fq~CEFd~mR 64 (127)
+.+.|.+|+..+. .|=|.+|.||.++.-.+-...--++. ++.|||=- =||..|=
T Consensus 96 ~~~~i~~~~~~~~~~~~~~~~~~~~~~~kmA~~P~ga~~l~N~~g~ApG~~~~~~~~~v~~lPGvP-------~e~~~M~ 168 (252)
T PRK03670 96 CLERIKEFYEELYKKGLIDDPTLNEARKKMAYLPEGAEPLENTEGAAPGAYIEHKGTKIFVLPGMP-------REMKAML 168 (252)
T ss_pred HHHHHHHHHHHhcccccccccccChHHHheeCCCCCCEECCCCCCcCceEEEEECCeEEEEeCCCh-------HHHHHHH
Confidence 4677888886431 23378999999988655332111332 34445411 1666666
Q ss_pred hhhHhhHHHh
Q psy17866 65 SQMALDWIAR 74 (127)
Q Consensus 65 sqMALDWi~r 74 (127)
.+..++++.+
T Consensus 169 ~~~v~p~l~~ 178 (252)
T PRK03670 169 EKEVLPRLGE 178 (252)
T ss_pred HHHHHHhhcc
Confidence 6666777744
No 44
>COG4582 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=21.38 E-value=37 Score=28.86 Aligned_cols=24 Identities=33% Similarity=0.807 Sum_probs=15.3
Q ss_pred EecCCCCcCCCccccch------------hhhhhhhHhhHHHh
Q psy17866 44 VTLPGGSCFGSFQTLEV------------EVSRSQMALDWIAR 74 (127)
Q Consensus 44 VTLPGGSCFG~fq~CEF------------d~mRsqMALDWi~r 74 (127)
..+|||+| +| .+-|.+=+-.|++-
T Consensus 122 ~~iPGG~C-------~FDLPalh~WlH~p~e~r~adi~kw~~s 157 (244)
T COG4582 122 LSIPGGCC-------SFDLPTLHIWLHLPQEQRDADIEKWIAS 157 (244)
T ss_pred ccCCCccc-------ccCcHHHHHHHhCcHHHHHHHHHHHHhh
Confidence 46899976 45 34455556677764
No 45
>cd01817 RGS12_RBD Ubiquitin domain of RGS12 and RGS14. RGS12 (regulator of G signalling 12), and RGS14, are members of a family of GTPase-activating proteins (GAP's) specific for the G-alpha subunit, which act as key inhibitors of G-protein-mediated cell responses in eukaryotes. Their domain architecture includes tandem RBD domains as well as PDZ , PTB, and RGS, and GoLoco domains.
Probab=21.29 E-value=52 Score=23.14 Aligned_cols=11 Identities=55% Similarity=0.917 Sum_probs=9.1
Q ss_pred EEEecCCCCcC
Q psy17866 42 CYVTLPGGSCF 52 (127)
Q Consensus 42 cyVTLPGGSCF 52 (127)
|-|.||.||+-
T Consensus 2 crV~LPdg~~T 12 (73)
T cd01817 2 CRVILPDGSTT 12 (73)
T ss_pred cEEECCCCCeE
Confidence 88999999863
No 46
>TIGR00636 PduO_Nterm ATP:cob(I)alamin adenosyltransferase. This model represents as ATP:cob(I)alamin adenosyltransferase family corresponding to the N-terminal half of Salmonella PduO, a 1,2-propanediol utilization protein that probably is bifunctional. PduO represents one of at least three families of ATP:corrinoid adenosyltransferase: others are CobA (which partially complements PduO) and EutT. It was not clear originally whether ATP:cob(I)alamin adenosyltransferase activity resides in the N-terminal region of PduO, modeled here, but this has now become clear from the characterization of MeaD from Methylobacterium extorquens.
Probab=21.02 E-value=44 Score=26.13 Aligned_cols=17 Identities=41% Similarity=0.780 Sum_probs=11.9
Q ss_pred CCCCeEEEEecCCCCcCC
Q psy17866 36 ASPPYVCYVTLPGGSCFG 53 (127)
Q Consensus 36 ~~pPyVcyVTLPGGSCFG 53 (127)
.-||.-.|| |||||=-.
T Consensus 95 ~l~~l~~Fi-LPggs~~~ 111 (171)
T TIGR00636 95 ELPPLKLFV-LPGGTPAA 111 (171)
T ss_pred hCCCCCcee-eCCCCHHH
Confidence 347777776 89998543
No 47
>COG1365 Predicted ATPase (PP-loop superfamily) [General function prediction only]
Probab=21.00 E-value=67 Score=27.54 Aligned_cols=29 Identities=34% Similarity=0.391 Sum_probs=25.7
Q ss_pred hHHHHHHHHHHHHHHHhcccccccchhhHH
Q psy17866 82 LGRELDQAERELETARLAGRELRFPKEKKD 111 (127)
Q Consensus 82 i~~EL~~a~rELe~aR~aGrELRF~KEKkd 111 (127)
...|+-.+.+|+..+|+.|. ++|+++|-|
T Consensus 31 ~~~e~~~rl~e~l~~RL~g~-~ef~r~~id 59 (255)
T COG1365 31 GEKEVYERLRELLKKRLEGE-KEFERIKID 59 (255)
T ss_pred ccHHHHHHHHHHHHHHhcCc-hhcccCCCC
Confidence 45688889999999999998 899999987
No 48
>PF12536 DUF3734: Patatin phospholipase ; InterPro: IPR021095 This entry represents bacterial proteins of approximately 110 amino acids in length. These proteins are found in association with PF01734 from PFAM. There are two completely conserved residues (F and G) that may be functionally important. The proteins in this family are frequently annotated as patatin family phospholipases however there is little accompanying literature to confirm this.
Probab=20.74 E-value=97 Score=22.11 Aligned_cols=42 Identities=19% Similarity=0.266 Sum_probs=31.0
Q ss_pred CCCCeEEEEecCCCCcCCCccccch-------------hhhhhhhHh-hHHHhhhc
Q psy17866 36 ASPPYVCYVTLPGGSCFGSFQTLEV-------------EVSRSQMAL-DWIAREQE 77 (127)
Q Consensus 36 ~~pPyVcyVTLPGGSCFG~fq~CEF-------------d~mRsqMAL-DWi~rE~~ 77 (127)
...--|..+.-++.++-|+.+..|| +|++..++= +|..+...
T Consensus 50 ~~~~~IvhLiy~~~~~e~~sKDyeFSr~si~ehw~~G~~D~~~~L~~~~w~~~~~~ 105 (108)
T PF12536_consen 50 GKRVNIVHLIYRRKPYEGHSKDYEFSRSSIREHWEAGYEDARRTLAHPPWLARPDP 105 (108)
T ss_pred CCceEEEEeecCCCCccccccCccCCHHHHHHHHHhHHHHHHHHHhCCccCCCCCC
Confidence 3344567888899999999999999 666665553 68776554
No 49
>PF11221 Med21: Subunit 21 of Mediator complex; InterPro: IPR021384 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. Med21 has been known as Srb7 in yeasts, hSrb7 in humans and Trap 19 in Drosophila. The heterodimer of the two subunits Med7 and Med21 appears to act as a hinge between the middle and the tail regions of Mediator []. ; PDB: 1YKE_B 1YKH_B.
Probab=20.69 E-value=70 Score=23.68 Aligned_cols=43 Identities=30% Similarity=0.381 Sum_probs=25.9
Q ss_pred chhhhhhhhHhhHHHhhhcC-------Ccch-------------HHHHHHHHHHHHHHHhccc
Q psy17866 59 EVEVSRSQMALDWIAREQEN-------PGAL-------------GRELDQAERELETARLAGR 101 (127)
Q Consensus 59 EFd~mRsqMALDWi~rE~~~-------pG~i-------------~~EL~~a~rELe~aR~aGr 101 (127)
+|++--..||-|=|.+.+.. ||+- ..|++.++.||.++...+.
T Consensus 66 ~~~~~~~elA~dIi~kakqIe~LIdsLPg~~~see~Q~~~i~~L~~E~~~~~~el~~~v~e~e 128 (144)
T PF11221_consen 66 EFEENIKELATDIIRKAKQIEYLIDSLPGIEVSEEEQLKRIKELEEENEEAEEELQEAVKEAE 128 (144)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHSTTSSS-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56666667777777776643 7743 3455555556665554443
No 50
>TIGR02742 TrbC_Ftype type-F conjugative transfer system pilin assembly protein TrbC. This protein is an essential component of the F-type conjugative pilus assembly system for the transfer of plasmid DNA. The N-terminal portion of these proteins are heterogeneous and are not covered by this model.
Probab=20.68 E-value=1.6e+02 Score=22.12 Aligned_cols=38 Identities=21% Similarity=0.380 Sum_probs=28.3
Q ss_pred EEecCCC-CcCCCcccc---ch----hhhhhhhHhhHHHhhhcCCcc
Q psy17866 43 YVTLPGG-SCFGSFQTL---EV----EVSRSQMALDWIAREQENPGA 81 (127)
Q Consensus 43 yVTLPGG-SCFG~fq~C---EF----d~mRsqMALDWi~rE~~~pG~ 81 (127)
+|-..++ +|-+ .+|| .| -++.=+-||+.++|+-+.++.
T Consensus 75 ~V~~~~~~~c~~-~~~~~~~~~d~v~Gdvsl~~ALe~ia~~g~~~~~ 120 (130)
T TIGR02742 75 FVVVKDGLACLP-EQPCPESDYDVVYGNVSLKGALEKMAQDGDSPQI 120 (130)
T ss_pred EEEECCCCcccc-cCCCCCCCeeEEEecccHHHHHHHHHHhCCCcHH
Confidence 6777777 7988 4677 34 456667899999998888874
No 51
>PF01426 BAH: BAH domain; InterPro: IPR001025 The BAH (bromo-adjacent homology) family contains proteins such as eukaryotic DNA (cytosine-5) methyltransferases IPR001525 from INTERPRO, the origin recognition complex 1 (Orc1) proteins, as well as several proteins involved in transcriptional regulation. The BAH domain appears to act as a protein-protein interaction module specialised in gene silencing, as suggested for example by its interaction within yeast Orc1p with the silent information regulator Sir1p. The BAH module might therefore play an important role by linking DNA methylation, replication and transcriptional regulation [].; GO: 0003677 DNA binding; PDB: 4DA4_A 3PT6_B 3AV6_A 3AV5_A 3AV4_A 3PT9_A 3SWR_A 3PTA_A 1M4Z_A 1ZBX_A ....
Probab=20.64 E-value=89 Score=20.72 Aligned_cols=23 Identities=30% Similarity=0.550 Sum_probs=17.1
Q ss_pred CCCceEEEeecCCCCCCeEEEEe
Q psy17866 23 KNGALVIYESVPSASPPYVCYVT 45 (127)
Q Consensus 23 ~~~~lV~YEsvps~~pPyVcyVT 45 (127)
+-|..|.-++-..+.||||+.|.
T Consensus 4 ~vGD~V~v~~~~~~~~~~v~~I~ 26 (119)
T PF01426_consen 4 KVGDFVYVKPDDPPEPPYVARIE 26 (119)
T ss_dssp ETTSEEEEECTSTTSEEEEEEEE
T ss_pred eCCCEEEEeCCCCCCCCEEEEEE
Confidence 45666666666678999999884
No 52
>KOG0257|consensus
Probab=20.59 E-value=53 Score=29.75 Aligned_cols=20 Identities=35% Similarity=0.351 Sum_probs=17.0
Q ss_pred cccchhhHHHHHHHHhhhcC
Q psy17866 103 LRFPKEKKDILMLAHTQING 122 (127)
Q Consensus 103 LRF~KEKkdIL~LA~~q~~~ 122 (127)
.++||||+|||.-++.+++-
T Consensus 309 ~~~y~~krdil~k~L~~lg~ 328 (420)
T KOG0257|consen 309 VKEYKEKRDILAKALEELGL 328 (420)
T ss_pred HHHHHHHHHHHHHHHHhcCC
Confidence 36899999999999998843
No 53
>PF14218 COP23: Circadian oscillating protein COP23
Probab=20.29 E-value=1.1e+02 Score=22.42 Aligned_cols=30 Identities=30% Similarity=0.565 Sum_probs=23.4
Q ss_pred CceEEEeecCCCCCCeEEEEecCCCCcCCC
Q psy17866 25 GALVIYESVPSASPPYVCYVTLPGGSCFGS 54 (127)
Q Consensus 25 ~~lV~YEsvps~~pPyVcyVTLPGGSCFG~ 54 (127)
+.+.....-=.++-|-||-++-++|+|-++
T Consensus 56 ~~l~~l~~G~~Ngq~VIC~~~~~~~~C~~~ 85 (132)
T PF14218_consen 56 GGLNYLTTGTVNGQPVICVATQKGGSCNSN 85 (132)
T ss_pred cCCcEEEeccCCCEEEEEEEcCCCCCcccc
Confidence 355566666668999999999999999544
No 54
>cd04318 EcAsnRS_like_N EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. The enzymes in this group are homodimeric class2b aminoacyl-tRNA synthetases (aaRSs). aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Eukaryotes contain 2 sets of aaRSs, both of which are encoded by the nuclear genome. One set concerns with cytoplasmic protein synthesis, whereas the other exclusively with mitochondrial
Probab=20.03 E-value=67 Score=20.73 Aligned_cols=18 Identities=28% Similarity=0.798 Sum_probs=16.7
Q ss_pred EEEEecCCCCcCCCcccc
Q psy17866 41 VCYVTLPGGSCFGSFQTL 58 (127)
Q Consensus 41 VcyVTLPGGSCFG~fq~C 58 (127)
++|+.|=.|||+.+.|..
T Consensus 17 ~~Fi~LrD~s~~~~lQvv 34 (82)
T cd04318 17 ISFIELNDGSCLKNLQVV 34 (82)
T ss_pred EEEEEEECCCCccCEEEE
Confidence 799999999999999987
Done!