Query psy17380
Match_columns 107
No_of_seqs 109 out of 224
Neff 5.3
Searched_HMMs 46136
Date Fri Aug 16 21:00:26 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy17380.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/17380hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR00930 2a30 K-Cl cotranspor 100.0 5.8E-33 1.3E-37 246.3 10.2 100 3-102 762-861 (953)
2 KOG2082|consensus 99.9 3.5E-22 7.5E-27 174.8 5.2 97 3-100 836-938 (1075)
3 KOG1288|consensus 97.1 0.00086 1.9E-08 60.1 5.0 55 15-70 773-829 (945)
4 cd03030 GRX_SH3BGR Glutaredoxi 65.6 15 0.00033 24.5 4.3 36 34-69 2-38 (92)
5 PF04908 SH3BGR: SH3-binding, 60.6 12 0.00026 25.6 3.1 51 33-89 2-53 (99)
6 COG1927 Mtd Coenzyme F420-depe 54.8 60 0.0013 26.0 6.5 65 13-80 13-77 (277)
7 cd02978 KaiB_like KaiB-like fa 54.7 42 0.00091 21.8 4.8 45 33-80 3-48 (72)
8 TIGR02654 circ_KaiB circadian 53.3 46 0.00099 22.5 4.9 46 32-79 4-49 (87)
9 PF13271 DUF4062: Domain of un 50.3 55 0.0012 20.9 4.9 27 35-62 1-27 (83)
10 PRK09301 circadian clock prote 48.0 54 0.0012 22.8 4.8 47 31-79 6-52 (103)
11 KOG3086|consensus 45.6 55 0.0012 26.6 5.1 57 13-71 129-185 (296)
12 PF07689 KaiB: KaiB domain; I 44.2 43 0.00093 22.1 3.7 42 35-79 1-43 (82)
13 PF00025 Arf: ADP-ribosylation 43.7 1.2E+02 0.0025 21.5 6.5 66 30-95 80-146 (175)
14 KOG2884|consensus 42.4 97 0.0021 24.8 5.9 47 17-64 91-139 (259)
15 cd01782 AF6_RA_repeat1 Ubiquit 40.5 28 0.0006 24.7 2.4 17 48-64 47-63 (112)
16 KOG0075|consensus 38.4 78 0.0017 24.1 4.7 54 30-83 87-141 (186)
17 PRK14457 ribosomal RNA large s 36.6 1.6E+02 0.0035 24.1 6.6 69 19-94 246-320 (345)
18 PF10137 TIR-like: Predicted n 35.6 1E+02 0.0022 21.8 4.7 49 35-90 1-49 (125)
19 PRK14463 ribosomal RNA large s 35.2 1E+02 0.0022 25.2 5.2 60 30-93 249-314 (349)
20 COG3960 Glyoxylate carboligase 35.0 67 0.0015 27.6 4.3 55 31-90 519-578 (592)
21 PF14918 MTBP_N: MDM2-binding 34.9 43 0.00094 27.0 3.0 58 2-64 159-221 (271)
22 PF02843 GARS_C: Phosphoribosy 34.7 59 0.0013 21.5 3.2 42 31-74 48-89 (93)
23 COG3414 SgaB Phosphotransferas 30.6 1.7E+02 0.0036 19.6 4.9 43 34-77 2-47 (93)
24 PF02236 Viral_DNA_bi: Viral D 29.7 38 0.00083 22.8 1.6 30 45-74 5-34 (86)
25 KOG1385|consensus 29.4 92 0.002 27.0 4.2 50 25-74 135-191 (453)
26 PF06437 ISN1: IMP-specific 5' 29.0 94 0.002 26.6 4.2 51 9-62 158-212 (408)
27 PRK14462 ribosomal RNA large s 28.8 2.1E+02 0.0045 23.7 6.1 61 30-94 262-328 (356)
28 PRK14467 ribosomal RNA large s 28.3 1.9E+02 0.0041 23.7 5.8 62 31-94 252-319 (348)
29 COG0041 PurE Phosphoribosylcar 27.9 1.4E+02 0.0031 22.4 4.5 34 36-71 5-38 (162)
30 PF04724 Glyco_transf_17: Glyc 27.9 1.2E+02 0.0026 25.1 4.6 45 50-94 164-211 (356)
31 PF10438 Cyc-maltodext_C: Cycl 27.4 15 0.00032 24.1 -0.7 35 60-94 15-50 (78)
32 PF12682 Flavodoxin_4: Flavodo 27.1 1.1E+02 0.0025 21.8 3.9 52 6-63 83-134 (156)
33 cd07384 MPP_Cdc1_like Saccharo 27.1 98 0.0021 22.3 3.6 33 45-79 29-61 (171)
34 PRK11409 antitoxin YefM; Provi 25.5 47 0.001 21.7 1.5 49 45-93 5-53 (83)
35 PF02012 BNR: BNR/Asp-box repe 25.4 46 0.00099 14.7 1.0 9 8-16 1-9 (12)
36 PRK14460 ribosomal RNA large s 25.3 1.9E+02 0.004 23.7 5.2 61 30-94 256-322 (354)
37 PF01015 Ribosomal_S3Ae: Ribos 25.1 1.1E+02 0.0024 23.2 3.7 30 31-60 113-147 (194)
38 PF07993 NAD_binding_4: Male s 25.1 1.8E+02 0.0039 21.6 4.8 65 18-88 12-84 (249)
39 PHA03052 Hypothetical protein; 25.0 49 0.0011 21.6 1.4 8 4-11 30-37 (69)
40 PRK05074 inosine/xanthosine tr 24.7 1.3E+02 0.0029 22.5 3.9 48 34-82 3-53 (173)
41 cd03012 TlpA_like_DipZ_like Tl 23.4 1.9E+02 0.0042 19.0 4.3 58 7-64 30-87 (126)
42 cd01784 rasfadin_RA Ubiquitin- 23.0 70 0.0015 21.7 1.9 15 49-63 25-39 (87)
43 TIGR00824 EIIA-man PTS system, 22.6 2.5E+02 0.0055 18.9 4.9 40 32-73 28-67 (116)
44 KOG2749|consensus 22.3 91 0.002 26.7 2.9 44 28-71 56-110 (415)
45 COG2179 Predicted hydrolase of 22.3 1.6E+02 0.0035 22.4 4.0 21 51-71 97-117 (175)
46 PRK11194 ribosomal RNA large s 21.9 4.7E+02 0.01 21.7 7.1 71 20-94 251-327 (372)
47 PF01171 ATP_bind_3: PP-loop f 21.7 2.4E+02 0.0051 20.1 4.7 50 16-65 12-62 (182)
48 cd07400 MPP_YydB Bacillus subt 21.6 1.6E+02 0.0035 19.6 3.6 39 53-93 27-65 (144)
49 PRK14454 ribosomal RNA large s 21.4 4.4E+02 0.0096 21.4 6.7 60 31-94 251-316 (342)
50 PF07851 TMPIT: TMPIT-like pro 21.4 48 0.001 27.4 1.1 14 13-26 260-273 (330)
51 PF06283 ThuA: Trehalose utili 21.2 1.1E+02 0.0025 22.4 3.0 56 35-93 1-61 (217)
52 PF00580 UvrD-helicase: UvrD/R 20.7 2.8E+02 0.006 20.5 5.0 40 31-71 13-52 (315)
53 PF01102 Glycophorin_A: Glycop 20.5 40 0.00086 24.0 0.4 15 14-28 79-93 (122)
54 PHA02771 hypothetical protein; 20.5 78 0.0017 21.6 1.8 50 51-101 4-53 (90)
55 cd05468 pVHL von Hippel-Landau 20.3 64 0.0014 23.0 1.4 14 3-16 20-33 (141)
No 1
>TIGR00930 2a30 K-Cl cotransporter.
Probab=100.00 E-value=5.8e-33 Score=246.34 Aligned_cols=100 Identities=33% Similarity=0.677 Sum_probs=94.9
Q ss_pred ceeEEEEecCCcchhhHHHHHhhCCCCCCCeeeEEEEecccchHHHHHHHHHHHHHhcCccCcceEEecCCCCCCcHhhH
Q psy17380 3 QLLFSLITLGEGLTLLLPYIISTRHSWASCKLRVFALANRKEELEFEQRNIASLLAKFRIDYADLIIITTITRRPHEETV 82 (107)
Q Consensus 3 ~~dVwWl~dDGGLtLLlpyLLt~~~~W~~cklRVf~~~~~~~~~~~~~~~m~~lL~kfRI~a~~v~Vv~di~~~P~~~t~ 82 (107)
.|||||++||||||||+||||++|++|++||||||+++++.++.++++++|++||+||||+|+.++|..|++++|+.+++
T Consensus 762 ~IDvwW~~~dggL~lll~~ll~~~~~W~~~kiRvf~~~~~~~~~~~~~~~~~~lL~~~RI~a~~~~v~~di~~~p~~~~~ 841 (953)
T TIGR00930 762 TIDVWWLVDDGGLTLLLPYLLTTKKVWKKCKIRIFVGAQKDDRSEQEKKDMATLLYKFRIDAEVIVVLMDINAKPQTESM 841 (953)
T ss_pred eEEEEEecCCCcHHHHHHHHHhcCccccCceEEEEEEecCCchHHHHHHHHHHHHHHhCCCCEEEEEeccCCCCcchhHH
Confidence 59999999999999999999999999999999999999888999999999999999999999888888999999999999
Q ss_pred HHHHHhccccccccCcCCcc
Q psy17380 83 EFYNHLVRPYLAKDEEADCG 102 (107)
Q Consensus 83 ~~f~~li~p~rl~e~~~~~~ 102 (107)
++|+++++||++++++++..
T Consensus 842 ~~~~~~~~~~~~~~~~~~~~ 861 (953)
T TIGR00930 842 EAFEEMIRPFRLHKTEKDRE 861 (953)
T ss_pred HHHHHHHhhhhhcccccccc
Confidence 99999999999998876553
No 2
>KOG2082|consensus
Probab=99.85 E-value=3.5e-22 Score=174.79 Aligned_cols=97 Identities=22% Similarity=0.485 Sum_probs=86.2
Q ss_pred ceeEEEEecCCcchhhHHHHHhhCCCCCCCeeeEEEEecccchHHHHHHHHHHHHHhcCccCcceEEe----cCCCCCCc
Q psy17380 3 QLLFSLITLGEGLTLLLPYIISTRHSWASCKLRVFALANRKEELEFEQRNIASLLAKFRIDYADLIII----TTITRRPH 78 (107)
Q Consensus 3 ~~dVwWl~dDGGLtLLlpyLLt~~~~W~~cklRVf~~~~~~~~~~~~~~~m~~lL~kfRI~a~~v~Vv----~di~~~P~ 78 (107)
.||||||++|||++||+||||.|||+|++||+|+|++++.+++..++|+.++++|++.||+| +|.|| +||++...
T Consensus 836 ~IDvwWIVhDGG~lmLl~~LL~qhkvwr~C~~rif~vaq~~dns~~mk~dl~~flY~LRi~A-ev~vVem~~~dis~~~~ 914 (1075)
T KOG2082|consen 836 HIDVWWIVHDGGMLMLLPFLLRQHKVWRKCKMRIFTVAQEDDNSIQMKKDLQKFLYHLRIDA-EVEVVEMHDSDISAYTY 914 (1075)
T ss_pred ceeEEEEEecCchHHHHHHHHHHHHHHhhceeeEEEEeeccCcHHHHHHHHHHHHHhhcccc-eEEEEEecchhhhHHHH
Confidence 59999999999999999999999999999999999999999999999999999999999999 67777 68888888
Q ss_pred HhhH--HHHHHhccccccccCcCC
Q psy17380 79 EETV--EFYNHLVRPYLAKDEEAD 100 (107)
Q Consensus 79 ~~t~--~~f~~li~p~rl~e~~~~ 100 (107)
+.+. ++..++.+..++.++..+
T Consensus 915 ertl~mE~rsq~~~~m~~~k~~~~ 938 (1075)
T KOG2082|consen 915 ERTLMMEQRSQMLRQMRLSKNERE 938 (1075)
T ss_pred HHHHHHHhhHHHHHHHHhhhhhhh
Confidence 7774 677777777777665443
No 3
>KOG1288|consensus
Probab=97.07 E-value=0.00086 Score=60.11 Aligned_cols=55 Identities=27% Similarity=0.527 Sum_probs=41.3
Q ss_pred chhhHHHHHhhCCCCCC-CeeeEEEEecccc-hHHHHHHHHHHHHHhcCccCcceEEe
Q psy17380 15 LTLLLPYIISTRHSWAS-CKLRVFALANRKE-ELEFEQRNIASLLAKFRIDYADLIII 70 (107)
Q Consensus 15 LtLLlpyLLt~~~~W~~-cklRVf~~~~~~~-~~~~~~~~m~~lL~kfRI~a~~v~Vv 70 (107)
++|=++-+|..-+.||. |++|||.-....+ ..+.+++.|.++|+++||+++ |.|+
T Consensus 773 fllQLa~IL~m~~~Wk~~~~LRvflcv~~~~~~~~~E~q~m~~mlq~lRI~ae-v~vv 829 (945)
T KOG1288|consen 773 FLLQLAWILHMVSDWKSGRRLRVFLCVEFEEREGTAERQSMKQMLQTLRIEAE-VVVV 829 (945)
T ss_pred HHHHHHHHHHhhHHhhccceEEEEEEecchhhhhhhhHHHHHHHHHHheecce-EEEE
Confidence 45668999999999965 5699994333333 456777779999999999994 5455
No 4
>cd03030 GRX_SH3BGR Glutaredoxin (GRX) family, SH3BGR (SH3 domain binding glutamic acid-rich protein) subfamily; a recently-identified subfamily composed of SH3BGR and similar proteins possessing significant sequence similarity to GRX, but without a redox active CXXC motif. The SH3BGR gene was cloned in an effort to identify genes mapping to chromosome 21, which could be involved in the pathogenesis of congenital heart disease affecting Down syndrome newborns. Several human SH3BGR-like (SH3BGRL) genes have been identified since, mapping to different locations in the chromosome. Of these, SH3BGRL3 was identified as a tumor necrosis factor (TNF) alpha inhibitory protein and was also named TIP-B1. Upregulation of expression of SH3BGRL3 is associated with differentiation. It has been suggested that it functions as a regulator of differentiation-related signal transduction pathways.
Probab=65.60 E-value=15 Score=24.48 Aligned_cols=36 Identities=17% Similarity=0.433 Sum_probs=26.8
Q ss_pred eeEEEEec-ccchHHHHHHHHHHHHHhcCccCcceEE
Q psy17380 34 LRVFALAN-RKEELEFEQRNIASLLAKFRIDYADLII 69 (107)
Q Consensus 34 lRVf~~~~-~~~~~~~~~~~m~~lL~kfRI~a~~v~V 69 (107)
++||..+- ......+.+..+..||....|+|+++.|
T Consensus 2 i~vY~ts~~g~~~~k~~~~~v~~lL~~k~I~f~eiDI 38 (92)
T cd03030 2 IKVYIASSSGSTEIKKRQQEVLGFLEAKKIEFEEVDI 38 (92)
T ss_pred EEEEEecccccHHHHHHHHHHHHHHHHCCCceEEEec
Confidence 67774322 2345778888999999999999988754
No 5
>PF04908 SH3BGR: SH3-binding, glutamic acid-rich protein; InterPro: IPR006993 This family of proteins, which contains SH3BGRL3, is functionally uncharacterised. SH3BGRL3 is a highly conserved small protein, which is widely expressed and shows a significant similarity to glutaredoxin 1 (GRX1) of Escherichia coli which is predicted to belong to the thioredoxin superfamily. However, SH3BGRL3 lacks both conserved cysteine residues, which characterise the enzymatic active site of GRX. This structural feature raises the possibility that SH3BGRL3 and its homologues could function as endogenous modulators of GRX activity []. ; PDB: 1SJ6_A 1U6T_A 1WRY_A 1T1V_B 1J0F_A 2CT6_A.
Probab=60.56 E-value=12 Score=25.56 Aligned_cols=51 Identities=16% Similarity=0.318 Sum_probs=31.1
Q ss_pred eeeEEEEecc-cchHHHHHHHHHHHHHhcCccCcceEEecCCCCCCcHhhHHHHHHhc
Q psy17380 33 KLRVFALANR-KEELEFEQRNIASLLAKFRIDYADLIIITTITRRPHEETVEFYNHLV 89 (107)
Q Consensus 33 klRVf~~~~~-~~~~~~~~~~m~~lL~kfRI~a~~v~Vv~di~~~P~~~t~~~f~~li 89 (107)
.|+||+.+.. +..+...+.++..+|+.-||+|+.| ||+. .++..+...+..
T Consensus 2 ~I~vy~ss~sg~~~ikk~q~~v~~iL~a~kI~fe~v----DIa~--~e~~r~~mr~~~ 53 (99)
T PF04908_consen 2 VIKVYISSISGSREIKKRQQRVLMILEAKKIPFEEV----DIAM--DEEARQWMRENA 53 (99)
T ss_dssp SEEEEE-SS-SSHHHHHHHHHHHHHHHHTT--EEEE----ETTT---HHHHHHHHHHT
T ss_pred EEEEEEecccCCHHHHHHHHHHHHHHHHcCCCcEEE----eCcC--CHHHHHHHHHhc
Confidence 4789953322 3457888889999999999999655 4444 444445444444
No 6
>COG1927 Mtd Coenzyme F420-dependent N(5),N(10)-methenyltetrahydromethanopterin dehydrogenase [Energy production and conversion]
Probab=54.76 E-value=60 Score=25.99 Aligned_cols=65 Identities=18% Similarity=0.340 Sum_probs=44.6
Q ss_pred CcchhhHHHHHhhCCCCCCCeeeEEEEecccchHHHHHHHHHHHHHhcCccCcceEEecCCCCCCcHh
Q psy17380 13 EGLTLLLPYIISTRHSWASCKLRVFALANRKEELEFEQRNIASLLAKFRIDYADLIIITTITRRPHEE 80 (107)
Q Consensus 13 GGLtLLlpyLLt~~~~W~~cklRVf~~~~~~~~~~~~~~~m~~lL~kfRI~a~~v~Vv~di~~~P~~~ 80 (107)
=|..+++-+||--+--=.+..+||++.+. .=+.+.........++.|+=|| |..++-....|...
T Consensus 13 iGts~v~dlllDErAdRedi~vrVvgsga-KM~Pe~veaav~~~~e~~~pDf--vi~isPNpaaPGP~ 77 (277)
T COG1927 13 IGTSPVVDLLLDERADREDIEVRVVGSGA-KMDPECVEAAVTEMLEEFNPDF--VIYISPNPAAPGPK 77 (277)
T ss_pred cchHHHHHHHHHhhcccCCceEEEecccc-ccChHHHHHHHHHHHHhcCCCE--EEEeCCCCCCCCch
Confidence 47888999999977777899999995433 2234555666778899999998 43443333344433
No 7
>cd02978 KaiB_like KaiB-like family; composed of the circadian clock proteins, KaiB and the N-terminal KaiB-like sensory domain of SasA. KaiB is an essential protein in maintaining circadian rhythm. It was originally discovered from the cyanobacterium Synechococcus as part of the circadian clock gene cluster, kaiABC. KaiB attenuates KaiA-enhanced KaiC autokinase activity by interacting with KaiA-KaiC complexes in a circadian fashion. KaiB is membrane-associated as well as cytosolic. The amount of membrane-associated protein peaks in the evening (at circadian time (CT) 12-16) while the cytosolic form peaks later (at CT 20). The rhythmic localization of KaiB may function in regulating the formation of Kai complexes. SasA is a sensory histidine kinase which associates with KaiC. Although it is not an essential oscillator component, it is important in enhancing kaiABC expression and is important in metabolic growth control under day/night cycle conditions. SasA contains an N-terminal sensor
Probab=54.67 E-value=42 Score=21.80 Aligned_cols=45 Identities=22% Similarity=0.424 Sum_probs=29.1
Q ss_pred eeeEEEEecccchHHHHHHHHHHHHHhcC-ccCcceEEecCCCCCCcHh
Q psy17380 33 KLRVFALANRKEELEFEQRNIASLLAKFR-IDYADLIIITTITRRPHEE 80 (107)
Q Consensus 33 klRVf~~~~~~~~~~~~~~~m~~lL~kfR-I~a~~v~Vv~di~~~P~~~ 80 (107)
+||.| ++++.-+....-+++.++|+..- -.+ ++.| -|+.+.|...
T Consensus 3 ~L~Ly-v~g~tp~S~~ai~nl~~i~e~~l~~~~-~LeV-IDv~~~P~lA 48 (72)
T cd02978 3 VLRLY-VAGRTPKSERALQNLKRILEELLGGPY-ELEV-IDVLKQPQLA 48 (72)
T ss_pred EEEEE-ECCCCchHHHHHHHHHHHHHHhcCCcE-EEEE-EEcccCHhHH
Confidence 68999 77776677777777888877663 112 2333 3577777643
No 8
>TIGR02654 circ_KaiB circadian clock protein KaiB. Members of this protein family are the circadian clock protein KaiB of Cyanobacteria, encoded in the circadian clock gene cluster kaiABC. KaiB has homologs of unknown function in some Archaea and Proteobacteria, and has paralogs of unknown function in some Cyanobacteria. KaiB forms homodimers, homotetramers, and multimeric complexes with KaiA and/or KaiC.
Probab=53.32 E-value=46 Score=22.45 Aligned_cols=46 Identities=13% Similarity=0.210 Sum_probs=31.5
Q ss_pred CeeeEEEEecccchHHHHHHHHHHHHHhcCccCcceEEecCCCCCCcH
Q psy17380 32 CKLRVFALANRKEELEFEQRNIASLLAKFRIDYADLIIITTITRRPHE 79 (107)
Q Consensus 32 cklRVf~~~~~~~~~~~~~~~m~~lL~kfRI~a~~v~Vv~di~~~P~~ 79 (107)
-.||.| ++++.-+....-+++.++|+..-=++=++.|| |+.+.|..
T Consensus 4 ~~LrLy-vag~~p~S~~ai~nl~~i~e~~l~g~y~LeVI-Dv~~qP~l 49 (87)
T TIGR02654 4 YVLKLY-VAGNTPNSVRALKTLKNILETEFQGVYALKVI-DVLKNPQL 49 (87)
T ss_pred EEEEEE-EeCCCchHHHHHHHHHHHHHHhcCCceEEEEE-EcccCHhH
Confidence 378999 77767677777778888888654443355554 47777764
No 9
>PF13271 DUF4062: Domain of unknown function (DUF4062)
Probab=50.31 E-value=55 Score=20.85 Aligned_cols=27 Identities=19% Similarity=0.385 Sum_probs=22.4
Q ss_pred eEEEEecccchHHHHHHHHHHHHHhcCc
Q psy17380 35 RVFALANRKEELEFEQRNIASLLAKFRI 62 (107)
Q Consensus 35 RVf~~~~~~~~~~~~~~~m~~lL~kfRI 62 (107)
||| |++.-.+++.++..+...+.+.-.
T Consensus 1 rVF-iSSt~~Dl~~eR~~l~~~i~~~~~ 27 (83)
T PF13271_consen 1 RVF-ISSTFRDLKEERDALIEAIRRLGC 27 (83)
T ss_pred CEE-EecChhhHHHHHHHHHHHHHHCCC
Confidence 799 888778899999999999876643
No 10
>PRK09301 circadian clock protein KaiB; Provisional
Probab=47.97 E-value=54 Score=22.82 Aligned_cols=47 Identities=13% Similarity=0.212 Sum_probs=30.9
Q ss_pred CCeeeEEEEecccchHHHHHHHHHHHHHhcCccCcceEEecCCCCCCcH
Q psy17380 31 SCKLRVFALANRKEELEFEQRNIASLLAKFRIDYADLIIITTITRRPHE 79 (107)
Q Consensus 31 ~cklRVf~~~~~~~~~~~~~~~m~~lL~kfRI~a~~v~Vv~di~~~P~~ 79 (107)
.-.||+| ++++.-+....-+++.++|+..-=++=++.|| |+.+.|..
T Consensus 6 ~~~LrLy-Vag~tp~S~~ai~nL~~icE~~l~g~y~LeVI-Dv~~qPel 52 (103)
T PRK09301 6 TYILKLY-VAGNTPNSVRALKTLKNILETEFKGVYALKVI-DVLKNPQL 52 (103)
T ss_pred eEEEEEE-EeCCCchHHHHHHHHHHHHHHhcCCceEEEEE-EcccCHhH
Confidence 3479999 77766677777778888887553333255554 46666653
No 11
>KOG3086|consensus
Probab=45.63 E-value=55 Score=26.63 Aligned_cols=57 Identities=14% Similarity=0.266 Sum_probs=39.9
Q ss_pred CcchhhHHHHHhhCCCCCCCeeeEEEEecccchHHHHHHHHHHHHHhcCccCcceEEec
Q psy17380 13 EGLTLLLPYIISTRHSWASCKLRVFALANRKEELEFEQRNIASLLAKFRIDYADLIIIT 71 (107)
Q Consensus 13 GGLtLLlpyLLt~~~~W~~cklRVf~~~~~~~~~~~~~~~m~~lL~kfRI~a~~v~Vv~ 71 (107)
-.+.|.+|||...=+ |++|+.-|+-+--.. .....+....++|+++=-|.+++.||+
T Consensus 129 HSiEM~lP~lak~l~-~~~~~~kivPilvg~-ls~~~e~~~g~lls~Yi~Dp~NlFvvS 185 (296)
T KOG3086|consen 129 HSIEMQLPYLAKVLE-SRKDTVKIVPILVGA-LSPSVEQCYGKLLSKYIKDPSNLFVVS 185 (296)
T ss_pred hhhhhhhHHHHHHHh-hcCceEEEEeeEecc-cChHHHHHHHHHHHHHhcCccceEEEe
Confidence 457899999988665 455777776432211 223444567899999999999998883
No 12
>PF07689 KaiB: KaiB domain; InterPro: IPR011649 The cyanobacterial clock proteins KaiA and KaiB are proposed as regulators of the circadian rhythm in cyanobacteria. Mutations in both proteins have been reported to alter or abolish circadian rhythmicity. KaiB adopts an alpha-beta meander motif and is found to be a dimer [].; GO: 0048511 rhythmic process; PDB: 1T4Y_A 1T4Z_A 1R5P_B 2QKE_F 1VGL_A 1WWJ_D.
Probab=44.20 E-value=43 Score=22.12 Aligned_cols=42 Identities=24% Similarity=0.430 Sum_probs=28.9
Q ss_pred eEEEEecccchHHHHHHHHHHHHHhc-CccCcceEEecCCCCCCcH
Q psy17380 35 RVFALANRKEELEFEQRNIASLLAKF-RIDYADLIIITTITRRPHE 79 (107)
Q Consensus 35 RVf~~~~~~~~~~~~~~~m~~lL~kf-RI~a~~v~Vv~di~~~P~~ 79 (107)
|.| |+++..+.+...+.+..+++.. --.| ++.|| |+.+.|..
T Consensus 1 rLy-V~g~~~~s~~a~~~l~~l~~~~l~~~~-~LeVI-Dv~~~P~l 43 (82)
T PF07689_consen 1 RLY-VAGRTPSSERAIENLRRLCEEYLGGRY-ELEVI-DVLEQPEL 43 (82)
T ss_dssp EEE-ESSBHHHHHHHHHHHHHHHHCHCTTTE-EEEEE-ETTTSHSH
T ss_pred CeE-ECCCChHHHHHHHHHHHHHHhhCCCcE-EEEEE-EcccCHhH
Confidence 678 8887777888888888888763 3334 45444 47777764
No 13
>PF00025 Arf: ADP-ribosylation factor family The prints entry specific to Sar1 proteins The Prosite entry specific to Sar1 proteins; InterPro: IPR006689 Small GTPases form an independent superfamily within the larger class of regulatory GTP hydrolases. This superfamily contains proteins that control a vast number of important processes and possess a common, structurally preserved GTP-binding domain [, ]. Sequence comparisons of small G proteins from various species have revealed that they are conserved in primary structures at the level of 30-55% similarity []. Crystallographic analysis of various small G proteins revealed the presence of a 20 kDa catalytic domain that is unique for the whole superfamily [, ]. The domain is built of five alpha helices (A1-A5), six beta-strands (B1-B6) and five polypeptide loops (G1-G5). A structural comparison of the GTP- and GDP-bound form, allows one to distinguish two functional loop regions: switch I and switch II that surround the gamma-phosphate group of the nucleotide. The G1 loop (also called the P-loop) that connects the B1 strand and the A1 helix is responsible for the binding of the phosphate groups. The G3 loop provides residues for Mg(2+) and phosphate binding and is located at the N terminus of the A2 helix. The G1 and G3 loops are sequentially similar to Walker A and Walker B boxes that are found in other nucleotide binding motifs. The G2 loop connects the A1 helix and the B2 strand and contains a conserved Thr residue responsible for Mg(2+) binding. The guanine base is recognised by the G4 and G5 loops. The consensus sequence NKXD of the G4 loop contains Lys and Asp residues directly interacting with the nucleotide. Part of the G5 loop located between B6 and A5 acts as a recognition site for the guanine base []. The small GTPase superfamily can be divided into at least 8 different families, including: Arf small GTPases. GTP-binding proteins involved in protein trafficking by modulating vesicle budding and uncoating within the Golgi apparatus. Ran small GTPases. GTP-binding proteins involved in nucleocytoplasmic transport. Required for the import of proteins into the nucleus and also for RNA export. Rab small GTPases. GTP-binding proteins involved in vesicular traffic. Rho small GTPases. GTP-binding proteins that control cytoskeleton reorganisation. Ras small GTPases. GTP-binding proteins involved in signalling pathways. Sar1 small GTPases. Small GTPase component of the coat protein complex II (COPII) which promotes the formation of transport vesicles from the endoplasmic reticulum (ER). Mitochondrial Rho (Miro). Small GTPase domain found in mitochondrial proteins involved in mitochondrial trafficking. Roc small GTPases domain. Small GTPase domain always found associated with the COR domain. This entry represents a branch of the small GTPase superfamily that includes the ADP ribosylation factor Arf, Arl (Arf-like), Arp (Arf-related proteins) and the remotely related Sar (Secretion-associated and Ras-related) proteins. Arf proteins are major regulators of vesicle biogenesis in intracellular traffic []. They cycle between inactive GDP-bound and active GTP-bound forms that bind selectively to effectors. The classical structural GDP/GTP switch is characterised by conformational changes at the so-called switch 1 and switch 2 regions, which bind tightly to the gamma-phosphate of GTP but poorly or not at all to the GDP nucleotide. Structural studies of Arf1 and Arf6 have revealed that although these proteins feature the switch 1 and 2 conformational changes, they depart from other small GTP-binding proteins in that they use an additional, unique switch to propagate structural information from one side of the protein to the other. The GDP/GTP structural cycles of human Arf1 and Arf6 feature a unique conformational change that affects the beta2-beta3 strands connecting switch 1 and switch 2 (interswitch) and also the amphipathic helical N terminus. In GDP-bound Arf1 and Arf6, the interswitch is retracted and forms a pocket to which the N-terminal helix binds, the latter serving as a molecular hasp to maintain the inactive conformation. In the GTP-bound form of these proteins, the interswitch undergoes a two-residue register shift that pulls switch 1 and switch 2 up, restoring an active conformation that can bind GTP. In this conformation, the interswitch projects out of the protein and extrudes the N-terminal hasp by occluding its binding pocket.; GO: 0005525 GTP binding; PDB: 2H57_B 2W83_B 3N5C_B 2J5X_A 3LVR_E 2BAO_A 3LVQ_E 2A5F_A 3PCR_B 1E0S_A ....
Probab=43.67 E-value=1.2e+02 Score=21.52 Aligned_cols=66 Identities=14% Similarity=0.164 Sum_probs=46.4
Q ss_pred CCCeeeEEEEec-ccchHHHHHHHHHHHHHhcCccCcceEEecCCCCCCcHhhHHHHHHhccccccc
Q psy17380 30 ASCKLRVFALAN-RKEELEFEQRNIASLLAKFRIDYADLIIITTITRRPHEETVEFYNHLVRPYLAK 95 (107)
Q Consensus 30 ~~cklRVf~~~~-~~~~~~~~~~~m~~lL~kfRI~a~~v~Vv~di~~~P~~~t~~~f~~li~p~rl~ 95 (107)
.+|..=||.+-. +.+++++.+..+..+|..-.+.--.+-|+-.....|...+..+..+.+....+.
T Consensus 80 ~~~~~iIfVvDssd~~~l~e~~~~L~~ll~~~~~~~~piLIl~NK~D~~~~~~~~~i~~~l~l~~l~ 146 (175)
T PF00025_consen 80 QNADGIIFVVDSSDPERLQEAKEELKELLNDPELKDIPILILANKQDLPDAMSEEEIKEYLGLEKLK 146 (175)
T ss_dssp TTESEEEEEEETTGGGGHHHHHHHHHHHHTSGGGTTSEEEEEEESTTSTTSSTHHHHHHHTTGGGTT
T ss_pred cccceeEEEEecccceeecccccchhhhcchhhcccceEEEEeccccccCcchhhHHHhhhhhhhcc
Confidence 467777886633 346789999999999998777555666666666666666666677666655554
No 14
>KOG2884|consensus
Probab=42.38 E-value=97 Score=24.82 Aligned_cols=47 Identities=19% Similarity=0.217 Sum_probs=29.9
Q ss_pred hhHHHHHhhCCCCCC--CeeeEEEEecccchHHHHHHHHHHHHHhcCccC
Q psy17380 17 LLLPYIISTRHSWAS--CKLRVFALANRKEELEFEQRNIASLLAKFRIDY 64 (107)
Q Consensus 17 LLlpyLLt~~~~W~~--cklRVf~~~~~~~~~~~~~~~m~~lL~kfRI~a 64 (107)
+-+++|.-+|+.=++ |+|=|| +++..+..+.+-..+++-|.|-.+..
T Consensus 91 i~iA~lalkhRqnk~~~~riVvF-vGSpi~e~ekeLv~~akrlkk~~Vai 139 (259)
T KOG2884|consen 91 IQIAQLALKHRQNKNQKQRIVVF-VGSPIEESEKELVKLAKRLKKNKVAI 139 (259)
T ss_pred HHHHHHHHHhhcCCCcceEEEEE-ecCcchhhHHHHHHHHHHHHhcCeeE
Confidence 447888888888777 666566 66655555555555555566666555
No 15
>cd01782 AF6_RA_repeat1 Ubiquitin domain of AT-6, first repeat. The AF-6 protein (also known as afadin and canoe) is a multidomain cell junction protein that contains two N-terminal Ras-associating (RA) domains in addition to FHA (forkhead-associated), DIL (class V myosin homology region), and PDZ domains and a proline-rich region. AF6 acts downstream of the Egfr (Epidermal Growth Factor-receptor)/Ras signalling pathway and provides a link from Egfr to cytoskeletal elements.
Probab=40.47 E-value=28 Score=24.74 Aligned_cols=17 Identities=35% Similarity=0.405 Sum_probs=13.3
Q ss_pred HHHHHHHHHHHhcCccC
Q psy17380 48 FEQRNIASLLAKFRIDY 64 (107)
Q Consensus 48 ~~~~~m~~lL~kfRI~a 64 (107)
....-+..||.|||++.
T Consensus 47 tt~eVI~~LLeKFk~d~ 63 (112)
T cd01782 47 TTRDVIDTLSEKFRPDM 63 (112)
T ss_pred CHHHHHHHHHHHhcccc
Confidence 44556788999999884
No 16
>KOG0075|consensus
Probab=38.43 E-value=78 Score=24.10 Aligned_cols=54 Identities=17% Similarity=0.209 Sum_probs=44.6
Q ss_pred CCCeeeEEEE-ecccchHHHHHHHHHHHHHhcCccCcceEEecCCCCCCcHhhHH
Q psy17380 30 ASCKLRVFAL-ANRKEELEFEQRNIASLLAKFRIDYADLIIITTITRRPHEETVE 83 (107)
Q Consensus 30 ~~cklRVf~~-~~~~~~~~~~~~~m~~lL~kfRI~a~~v~Vv~di~~~P~~~t~~ 83 (107)
++|..=||.| +.+.++++..+.++.+||+|=-...-.+-|++.....|.+.+..
T Consensus 87 R~v~aivY~VDaad~~k~~~sr~EL~~LL~k~~l~gip~LVLGnK~d~~~AL~~~ 141 (186)
T KOG0075|consen 87 RGVSAIVYVVDAADPDKLEASRSELHDLLDKPSLTGIPLLVLGNKIDLPGALSKI 141 (186)
T ss_pred hcCcEEEEEeecCCcccchhhHHHHHHHhcchhhcCCcEEEecccccCcccccHH
Confidence 6788888876 45578899999999999999988777888898888888876543
No 17
>PRK14457 ribosomal RNA large subunit methyltransferase N; Provisional
Probab=36.63 E-value=1.6e+02 Score=24.10 Aligned_cols=69 Identities=16% Similarity=0.277 Sum_probs=44.9
Q ss_pred HHHHHhhCCCCCCCeeeEEEEecccchHHHHHHHHHHHHHhcCccCcceEEec------CCCCCCcHhhHHHHHHhcccc
Q psy17380 19 LPYIISTRHSWASCKLRVFALANRKEELEFEQRNIASLLAKFRIDYADLIIIT------TITRRPHEETVEFYNHLVRPY 92 (107)
Q Consensus 19 lpyLLt~~~~W~~cklRVf~~~~~~~~~~~~~~~m~~lL~kfRI~a~~v~Vv~------di~~~P~~~t~~~f~~li~p~ 92 (107)
..|+...++ ...+|+.-+.+ -++.++.-++++.+|..+. . .|.++| .--.+|+++.+++|.+.+..+
T Consensus 246 ~~y~~~~gr---~I~iey~LIpG-vNDs~e~a~~La~~l~~l~--~-~VnLIPynp~~~~~~~~ps~e~i~~f~~~L~~~ 318 (345)
T PRK14457 246 RHYVAITGR---RVSFEYILLGG-VNDLPEHAEELANLLRGFQ--S-HVNLIPYNPIDEVEFQRPSPKRIQAFQRVLEQR 318 (345)
T ss_pred HHHHHHhCC---EEEEEEEEECC-cCCCHHHHHHHHHHHhcCC--C-eEEEecCCCCCCCCCCCCCHHHHHHHHHHHHHC
Confidence 355554443 57788875555 3444555567889998774 3 477774 122468889999999887655
Q ss_pred cc
Q psy17380 93 LA 94 (107)
Q Consensus 93 rl 94 (107)
.+
T Consensus 319 Gi 320 (345)
T PRK14457 319 GV 320 (345)
T ss_pred CC
Confidence 44
No 18
>PF10137 TIR-like: Predicted nucleotide-binding protein containing TIR-like domain; InterPro: IPR019302 This entry represents a TIR-like domain found in a family of prokaryotic predicted nucleotide-binding proteins. Their exact function has not, as yet, been defined.
Probab=35.63 E-value=1e+02 Score=21.77 Aligned_cols=49 Identities=16% Similarity=0.203 Sum_probs=28.7
Q ss_pred eEEEEecccchHHHHHHHHHHHHHhcCccCcceEEecCCCCCCcHhhHHHHHHhcc
Q psy17380 35 RVFALANRKEELEFEQRNIASLLAKFRIDYADLIIITTITRRPHEETVEFYNHLVR 90 (107)
Q Consensus 35 RVf~~~~~~~~~~~~~~~m~~lL~kfRI~a~~v~Vv~di~~~P~~~t~~~f~~li~ 90 (107)
|||.+.+. -...+..+..+|+++.++. .+...-. .+...+++.+++...
T Consensus 1 kVFIvhg~---~~~~~~~v~~~L~~~~~ep---~i~~~~~-~~g~tiie~le~~~~ 49 (125)
T PF10137_consen 1 KVFIVHGR---DLAAAEAVERFLEKLGLEP---IIWHEQP-NLGQTIIEKLEEAAD 49 (125)
T ss_pred CEEEEeCC---CHHHHHHHHHHHHhCCCce---EEeecCC-CCCCchHHHHHHHhc
Confidence 69966552 2356667889998764433 3443322 445555666665554
No 19
>PRK14463 ribosomal RNA large subunit methyltransferase N; Provisional
Probab=35.21 E-value=1e+02 Score=25.25 Aligned_cols=60 Identities=10% Similarity=0.183 Sum_probs=41.5
Q ss_pred CCCeeeEEEEecccchHHHHHHHHHHHHHhcCccCcceEEec-----C-CCCCCcHhhHHHHHHhccccc
Q psy17380 30 ASCKLRVFALANRKEELEFEQRNIASLLAKFRIDYADLIIIT-----T-ITRRPHEETVEFYNHLVRPYL 93 (107)
Q Consensus 30 ~~cklRVf~~~~~~~~~~~~~~~m~~lL~kfRI~a~~v~Vv~-----d-i~~~P~~~t~~~f~~li~p~r 93 (107)
+..++|.+.+.+-+ +.++.-++++.++..+++ .|.++| + --++|+++.+++|.+.+.-+.
T Consensus 249 ~~v~ieyvLI~GvN-Ds~e~~~~L~~ll~~l~~---~vnlIPyn~~~~~~~~~ps~e~i~~f~~~L~~~g 314 (349)
T PRK14463 249 RKITIEYVMIRGLN-DSLEDAKRLVRLLSDIPS---KVNLIPFNEHEGCDFRSPTQEAIDRFHKYLLDKH 314 (349)
T ss_pred CeEEEEEEEeCCCC-CCHHHHHHHHHHHhccCc---eEEEEecCCCCCCCCCCCCHHHHHHHHHHHHHCC
Confidence 57888887565543 446666789999998865 456663 1 235688899999998886543
No 20
>COG3960 Glyoxylate carboligase [General function prediction only]
Probab=34.99 E-value=67 Score=27.64 Aligned_cols=55 Identities=25% Similarity=0.445 Sum_probs=37.2
Q ss_pred CCe-eeEEEEecccchHHHHHHHHHHHHHhcCccCcceEEe----cCCCCCCcHhhHHHHHHhcc
Q psy17380 31 SCK-LRVFALANRKEELEFEQRNIASLLAKFRIDYADLIII----TTITRRPHEETVEFYNHLVR 90 (107)
Q Consensus 31 ~ck-lRVf~~~~~~~~~~~~~~~m~~lL~kfRI~a~~v~Vv----~di~~~P~~~t~~~f~~li~ 90 (107)
+|| +||| +.+++...-.+-+.|+...|+.. .|.++ ++|+--..-..+.+|+++-+
T Consensus 519 gckairv~----~p~e~a~af~~a~~lm~eh~vpv-vve~ilervtnismgtei~~v~efedlae 578 (592)
T COG3960 519 GCKAIRVF----KPEDIAPAFEQAKALMAQHRVPV-VVEVILERVTNISMGTEIDNVMEFEDLAD 578 (592)
T ss_pred CceeEEec----ChHHhhHHHHHHHHHHHhcCCCe-eeehHHHHhhcccccchhhhhhhHHHHHh
Confidence 565 7888 24566666667778888998876 44443 56666666666778887754
No 21
>PF14918 MTBP_N: MDM2-binding
Probab=34.92 E-value=43 Score=27.02 Aligned_cols=58 Identities=26% Similarity=0.334 Sum_probs=36.2
Q ss_pred cceeEEEEecCC---cchhhHHHH--HhhCCCCCCCeeeEEEEecccchHHHHHHHHHHHHHhcCccC
Q psy17380 2 AQLLFSLITLGE---GLTLLLPYI--ISTRHSWASCKLRVFALANRKEELEFEQRNIASLLAKFRIDY 64 (107)
Q Consensus 2 ~~~dVwWl~dDG---GLtLLlpyL--Lt~~~~W~~cklRVf~~~~~~~~~~~~~~~m~~lL~kfRI~a 64 (107)
|+|||.|+.-|. .|-=.||-+ |++-+-|..+||.|.+ ++.+ .--..++.+|+.==|..
T Consensus 159 amldVil~~s~~d~pklkDcLp~iGALKhl~eWhsAkiti~t--~~~~---~~~qKia~yLSA~vv~~ 221 (271)
T PF14918_consen 159 AMLDVILLPSEEDSPKLKDCLPLIGALKHLREWHSAKITIAT--SHCE---ISWQKIAEYLSANVVSL 221 (271)
T ss_pred eeEEEEEecCCCCCccHHHHHHHHHHHHHHHHhhhceEEEec--cccc---ccHHHHHHhcCCCeecH
Confidence 789999998882 444444444 5666789999998752 2221 11345777776433333
No 22
>PF02843 GARS_C: Phosphoribosylglycinamide synthetase, C domain; InterPro: IPR020560 Phosphoribosylglycinamide synthetase (6.3.4.13 from EC) (GARS) (phosphoribosylamine glycine ligase) [] catalyses the second step in the de novo biosynthesis of purine. The reaction catalysed by phosphoribosylglycinamide synthetase is the ATP-dependent addition of 5-phosphoribosylamine to glycine to form 5'phosphoribosylglycinamide: ATP + 5-phosphoribosylamine + glycine = ADP + Pi + 5'-phosphoribosylglycinamide In bacteria, GARS is a monofunctional enzyme (encoded by the purD gene). In yeast, GARS is part of a bifunctional enzyme (encoded by the ADE5/7 gene) in conjunction with phosphoribosylformylglycinamidine cyclo-ligase (AIRS) (IPR000728 from INTERPRO). In higher eukaryotes, GARS is part of a trifunctional enzyme in conjunction with AIRS (IPR000728 from INTERPRO) and with phosphoribosylglycinamide formyltransferase (GART) (), forming GARS-AIRS-GART. This entry represents the C-domain, which is related to the C-terminal domain of biotin carboxylase/carbamoyl phosphate synthetase (IPR005480 from INTERPRO).; GO: 0004637 phosphoribosylamine-glycine ligase activity, 0009113 purine base biosynthetic process; PDB: 2YW2_B 2YYA_A 3MJF_A 2IP4_A 3LP8_A 1VKZ_A 2YS6_A 2YRX_A 2YRW_A 2YS7_A ....
Probab=34.70 E-value=59 Score=21.53 Aligned_cols=42 Identities=14% Similarity=0.153 Sum_probs=29.0
Q ss_pred CCeeeEEEEecccchHHHHHHHHHHHHHhcCccCcceEEecCCC
Q psy17380 31 SCKLRVFALANRKEELEFEQRNIASLLAKFRIDYADLIIITTIT 74 (107)
Q Consensus 31 ~cklRVf~~~~~~~~~~~~~~~m~~lL~kfRI~a~~v~Vv~di~ 74 (107)
...=||+++....+++++.++..-..+.+.+.+ ...--.||.
T Consensus 48 t~GGRvl~v~~~g~tl~eA~~~ay~~i~~I~~~--g~~yR~DIG 89 (93)
T PF02843_consen 48 TNGGRVLTVVALGDTLEEAREKAYEAIEKIDFP--GMFYRKDIG 89 (93)
T ss_dssp E-SSEEEEEEEEESSHHHHHHHHHHHHTTSB-T--TEE--STTT
T ss_pred ecCCeEEEEEEEcCCHHHHHHHHHHHHhccCCC--CCEEcCccC
Confidence 344599999888899999999998888877655 333445553
No 23
>COG3414 SgaB Phosphotransferase system, galactitol-specific IIB component [Carbohydrate transport and metabolism]
Probab=30.59 E-value=1.7e+02 Score=19.65 Aligned_cols=43 Identities=14% Similarity=0.261 Sum_probs=30.1
Q ss_pred eeEEEEeccc-chHHHHHHHHHHHHHhcCccCcceEE--ecCCCCCC
Q psy17380 34 LRVFALANRK-EELEFEQRNIASLLAKFRIDYADLII--ITTITRRP 77 (107)
Q Consensus 34 lRVf~~~~~~-~~~~~~~~~m~~lL~kfRI~a~~v~V--v~di~~~P 77 (107)
++|+++|+.. ...-..+.++.++|++..|++ ++.+ +..+...+
T Consensus 2 ~KIL~aCG~GvgSS~~ik~kve~~l~~~gi~~-~~~~~~v~~~~~~~ 47 (93)
T COG3414 2 IKILAACGNGVGSSTMIKMKVEEVLKELGIDV-DVEQCAVDEIKALT 47 (93)
T ss_pred cEEEEECCCCccHHHHHHHHHHHHHHHcCCCc-eeeeEEecccccCC
Confidence 5788888865 456677788999999999975 5533 34444443
No 24
>PF02236 Viral_DNA_bi: Viral DNA-binding protein, all alpha domain; InterPro: IPR003176 This domain represents the N-terminal domain of the viral DNA-binding protein, a multi functional protein involved in DNA replication and transcription control.; GO: 0003677 DNA binding, 0006260 DNA replication, 0006351 transcription, DNA-dependent, 0042025 host cell nucleus; PDB: 1ADU_A 1ADV_B 2WB0_X 2WAZ_X 1ANV_A.
Probab=29.67 E-value=38 Score=22.76 Aligned_cols=30 Identities=10% Similarity=0.272 Sum_probs=18.9
Q ss_pred hHHHHHHHHHHHHHhcCccCcceEEecCCC
Q psy17380 45 ELEFEQRNIASLLAKFRIDYADLIIITTIT 74 (107)
Q Consensus 45 ~~~~~~~~m~~lL~kfRI~a~~v~Vv~di~ 74 (107)
..+.-.+-|.+|+.+|++|-++++++||-.
T Consensus 5 ~wQkaMe~~~~l~e~~kvd~~~~t~lPd~~ 34 (86)
T PF02236_consen 5 AWQKAMELAHKLMEKYKVDWKGFTFLPDQG 34 (86)
T ss_dssp HHHHHHHHHHHHHHHTT--HHH--S-TT--
T ss_pred HHHHHHHHHHHHHHHhccccccCeECCCcH
Confidence 356666778999999999998899988765
No 25
>KOG1385|consensus
Probab=29.42 E-value=92 Score=26.97 Aligned_cols=50 Identities=16% Similarity=0.240 Sum_probs=39.8
Q ss_pred hCCCCCCCeeeEEEEeccc----chHHHHHHHHHHHHH---hcCccCcceEEecCCC
Q psy17380 25 TRHSWASCKLRVFALANRK----EELEFEQRNIASLLA---KFRIDYADLIIITTIT 74 (107)
Q Consensus 25 ~~~~W~~cklRVf~~~~~~----~~~~~~~~~m~~lL~---kfRI~a~~v~Vv~di~ 74 (107)
-++.|+...++|-+.|+.. +..+..-.....+|. -|-+....|.|+++..
T Consensus 135 P~~~~~kTPi~lkATAGLRlL~~~ka~~IL~aVre~l~~~s~f~v~~d~VsIm~Gtd 191 (453)
T KOG1385|consen 135 PREHWKKTPIVLKATAGLRLLPGSKADNILQAVRELLKNDSPFPVVEDAVSIMDGTD 191 (453)
T ss_pred CHhHhccCceEEEeecccccCChhHHHHHHHHHHHHHhccCCccccCCceeeccCcc
Confidence 3577999999999888742 567788888888998 7888888898886543
No 26
>PF06437 ISN1: IMP-specific 5'-nucleotidase; InterPro: IPR009453 The Saccharomyces cerevisiae ISN1 (YOR155c) gene encodes an IMP-specific 5'-nucleotidase, which catalyses degradation of IMP to inosine as part of the purine salvage pathway.; GO: 0000287 magnesium ion binding, 0016791 phosphatase activity, 0009117 nucleotide metabolic process
Probab=29.03 E-value=94 Score=26.57 Aligned_cols=51 Identities=18% Similarity=0.186 Sum_probs=36.5
Q ss_pred EecCCcch----hhHHHHHhhCCCCCCCeeeEEEEecccchHHHHHHHHHHHHHhcCc
Q psy17380 9 ITLGEGLT----LLLPYIISTRHSWASCKLRVFALANRKEELEFEQRNIASLLAKFRI 62 (107)
Q Consensus 9 l~dDGGLt----LLlpyLLt~~~~W~~cklRVf~~~~~~~~~~~~~~~m~~lL~kfRI 62 (107)
||+||+=. -++|+|++-=+ ++.++=|.|-|+=.+ .+.-..++.-||..|+=
T Consensus 158 LY~DG~sl~~d~pvi~~ii~LL~--~gv~VgIVTAAGY~~-a~kY~~RL~GLL~a~~~ 212 (408)
T PF06437_consen 158 LYEDGASLEPDNPVIPRIIKLLR--RGVKVGIVTAAGYPG-AEKYEERLHGLLDAFKD 212 (408)
T ss_pred cccCCCCCCCCchHHHHHHHHHh--cCCeEEEEeCCCCCC-hHHHHHHHHHHHHHHHh
Confidence 67887744 68999988433 267777776666444 77778889999987763
No 27
>PRK14462 ribosomal RNA large subunit methyltransferase N; Provisional
Probab=28.84 E-value=2.1e+02 Score=23.67 Aligned_cols=61 Identities=10% Similarity=0.126 Sum_probs=41.5
Q ss_pred CCCeeeEEEEecccchHHHHHHHHHHHHHhcCccCcceEEec--CC----CCCCcHhhHHHHHHhcccccc
Q psy17380 30 ASCKLRVFALANRKEELEFEQRNIASLLAKFRIDYADLIIIT--TI----TRRPHEETVEFYNHLVRPYLA 94 (107)
Q Consensus 30 ~~cklRVf~~~~~~~~~~~~~~~m~~lL~kfRI~a~~v~Vv~--di----~~~P~~~t~~~f~~li~p~rl 94 (107)
+...+|+.-+.+- ++..+.-+.++.++..+. . .|+++| .+ -++|+.+.+++|.+.++.+.+
T Consensus 262 ~~i~ieyvLI~Gv-NDs~e~a~~La~llk~l~--~-~VnLIPyn~~~~~~~~~ps~e~i~~f~~~l~~~gi 328 (356)
T PRK14462 262 KRVMFEYLVIKDV-NDDLKSAKKLVKLLNGIK--A-KVNLILFNPHEGSKFERPSLEDMIKFQDYLNSKGL 328 (356)
T ss_pred CeEEEEEEEECCC-CCCHHHHHHHHHHHhhcC--c-EEEEEeCCCCCCCCCCCCCHHHHHHHHHHHHHCCC
Confidence 3677887755553 444555567899999875 3 577774 22 256889999999988866543
No 28
>PRK14467 ribosomal RNA large subunit methyltransferase N; Provisional
Probab=28.32 E-value=1.9e+02 Score=23.73 Aligned_cols=62 Identities=15% Similarity=0.168 Sum_probs=40.1
Q ss_pred CCeeeEEEEecccchHHHHHHHHHHHHHhcCccCcceEEec------CCCCCCcHhhHHHHHHhcccccc
Q psy17380 31 SCKLRVFALANRKEELEFEQRNIASLLAKFRIDYADLIIIT------TITRRPHEETVEFYNHLVRPYLA 94 (107)
Q Consensus 31 ~cklRVf~~~~~~~~~~~~~~~m~~lL~kfRI~a~~v~Vv~------di~~~P~~~t~~~f~~li~p~rl 94 (107)
...+|+.-+.+- ++..+.-+++++++..+.... .|.++| .--++|+.+.+++|.+.++.+.+
T Consensus 252 ~V~ieyvLIpGv-NDs~e~a~~La~~l~~l~~~~-~VnLIPynp~~~~~~~~ps~e~i~~f~~~L~~~gi 319 (348)
T PRK14467 252 RIMLEYVLIKGV-NDSPEDALRLAQLIGKNKKKF-KVNLIPFNPDPELPYERPELERVYKFQKILWDNGI 319 (348)
T ss_pred eEEEEEEEECCc-cCCHHHHHHHHHHHhcCCCce-EEEEecCCCCCCCCCCCCCHHHHHHHHHHHHHCCC
Confidence 577777645553 444555567889998764222 466663 12356888889999988766543
No 29
>COG0041 PurE Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]
Probab=27.89 E-value=1.4e+02 Score=22.42 Aligned_cols=34 Identities=18% Similarity=0.429 Sum_probs=24.2
Q ss_pred EEEEecccchHHHHHHHHHHHHHhcCccCcceEEec
Q psy17380 36 VFALANRKEELEFEQRNIASLLAKFRIDYADLIIIT 71 (107)
Q Consensus 36 Vf~~~~~~~~~~~~~~~m~~lL~kfRI~a~~v~Vv~ 71 (107)
|-.|-++..+.+.+++ -+..|.+|.|+| ++.|++
T Consensus 5 V~IIMGS~SD~~~mk~-Aa~~L~~fgi~y-e~~VvS 38 (162)
T COG0041 5 VGIIMGSKSDWDTMKK-AAEILEEFGVPY-EVRVVS 38 (162)
T ss_pred EEEEecCcchHHHHHH-HHHHHHHcCCCe-EEEEEe
Confidence 4334455556777665 467899999999 788876
No 30
>PF04724 Glyco_transf_17: Glycosyltransferase family 17; InterPro: IPR006813 This family represents beta-1,4-mannosyl-glycoprotein beta-1,4-N-acetylglucosaminyltransferase (2.4.1.144 from EC). This enzyme transfers the bisecting GlcNAc to the core mannose of complex N-glycans. The addition of this residue is regulated during development and has functional consequences for receptor signalling, cell adhesion, and tumour progression [, ].; GO: 0003830 beta-1,4-mannosylglycoprotein 4-beta-N-acetylglucosaminyltransferase activity, 0006487 protein N-linked glycosylation, 0016020 membrane
Probab=27.88 E-value=1.2e+02 Score=25.08 Aligned_cols=45 Identities=27% Similarity=0.428 Sum_probs=32.5
Q ss_pred HHHHHHHHHhcCccCcceEEecCCCCCCcHhhHHHHH---Hhcccccc
Q psy17380 50 QRNIASLLAKFRIDYADLIIITTITRRPHEETVEFYN---HLVRPYLA 94 (107)
Q Consensus 50 ~~~m~~lL~kfRI~a~~v~Vv~di~~~P~~~t~~~f~---~li~p~rl 94 (107)
+..|..++...=+..++|.+++|++.-|..+++.... ....|+++
T Consensus 164 R~~l~~l~~~~~~~~dDliivSDvDEIP~p~~l~~Lr~cd~~p~~l~l 211 (356)
T PF04724_consen 164 RNALNGLLRLAGIQDDDLIIVSDVDEIPSPETLKFLRWCDGFPEPLHL 211 (356)
T ss_pred HHHHHHHhhhcCCCCCCEEEEcCcccccCHHHHHHHHhcCCCCCeeEE
Confidence 3456666665667888999999999999999987553 34445444
No 31
>PF10438 Cyc-maltodext_C: Cyclo-malto-dextrinase C-terminal domain; InterPro: IPR019492 This domain is at the very C terminus of cyclo-malto-dextrinase proteins and consists of 8 beta strands, is largely globular and appears to help stabilise the active sites created by upstream domains, IPR015171 from INTERPRO, and IPR006047 from INTERPRO. Cyclo-malto-dextrinases hydrolyse cyclodextrans to maltose and glucose and catalyse trans-glycosylation of oligosaccharides to the C3-, C4- or C6-hydroxyl groups of various acceptor sugar molecules. ; PDB: 3EDK_B 3EDD_A 3EDJ_B 3EDE_A 1H3G_B 3EDF_B.
Probab=27.44 E-value=15 Score=24.12 Aligned_cols=35 Identities=14% Similarity=0.326 Sum_probs=23.6
Q ss_pred cCc-cCcceEEecCCCCCCcHhhHHHHHHhcccccc
Q psy17380 60 FRI-DYADLIIITTITRRPHEETVEFYNHLVRPYLA 94 (107)
Q Consensus 60 fRI-~a~~v~Vv~di~~~P~~~t~~~f~~li~p~rl 94 (107)
||. +-+.|.|+-+-+.+|..-.+++|.|++..+.-
T Consensus 15 fR~~~~~tVmVilN~n~~~~~ldl~ry~E~l~~~~~ 50 (78)
T PF10438_consen 15 FRYYDGKTVMVILNKNDKEQTLDLKRYAEVLGGFTS 50 (78)
T ss_dssp EEEESSEEEEEEEE-SSS-EEEEGGGGHHHHTT--E
T ss_pred EEEcCCCEEEEEEcCCCCCeEEcHHHHHHhhCCCcc
Confidence 565 33456777778888888889999999987763
No 32
>PF12682 Flavodoxin_4: Flavodoxin; PDB: 3EDO_B 3KLB_A.
Probab=27.11 E-value=1.1e+02 Score=21.84 Aligned_cols=52 Identities=6% Similarity=-0.022 Sum_probs=32.2
Q ss_pred EEEEecCCcchhhHHHHHhhCCCCCCCeeeEEEEecccchHHHHHHHHHHHHHhcCcc
Q psy17380 6 FSLITLGEGLTLLLPYIISTRHSWASCKLRVFALANRKEELEFEQRNIASLLAKFRID 63 (107)
Q Consensus 6 VwWl~dDGGLtLLlpyLLt~~~~W~~cklRVf~~~~~~~~~~~~~~~m~~lL~kfRI~ 63 (107)
||| |-+..-+--.|.++ .+++.++-.|+..+ ........+.|++++.+-+|.
T Consensus 83 vW~----~~~~~pv~tFL~~~-~~~gK~v~~F~T~g-gs~~~~~~~~l~~~~~~a~i~ 134 (156)
T PF12682_consen 83 VWW----GTPPPPVRTFLEQY-DFSGKTVIPFCTSG-GSGFGNSLEDLKKLCPGATIL 134 (156)
T ss_dssp EET----TEE-CHHHHHHHCT-TTTTSEEEEEEE-S-S--CHHHHHHHHHH-TTSEE-
T ss_pred HHc----CCCCHHHHHHHHhc-CCCCCcEEEEEeeC-CCChhHHHHHHHHHCCCCEee
Confidence 676 55666666666665 58999999996544 334566777788888766553
No 33
>cd07384 MPP_Cdc1_like Saccharomyces cerevisiae CDC1 and related proteins, metallophosphatase domain. Cdc1 (also known as XlCdc1 in Xenopus laevis) is an endoplasmic reticulum-localized transmembrane lipid phosphatase with a metallophosphatase domain facing the ER lumen. In budding yeast, the gene encoding CDC1 is essential while nonlethal mutations cause defects in Golgi inheritance and actin polarization. Cdc1 mutant cells accumulate an unidentified phospholipid, suggesting that Cdc1 is a lipid phosphatase. Cdc1 mutant cells also have highly elevated intracellular calcium levels suggesting a possible role for Cdc1 in calcium regulation. The 5' flanking region of Cdc1 is a regulatory region with conserved binding site motifs for AP1, AP2, Sp1, NF-1 and CREB. DNA polymerase delta consists of at least four subunits - Pol3, Cdc1, Cdc27, and Cdm1. This group also contains Saccharomyces cerevisiae TED1 (Trafficking of Emp24p/Erv25p-dependent cargo disrupted 1), which acts together wit
Probab=27.08 E-value=98 Score=22.30 Aligned_cols=33 Identities=9% Similarity=0.213 Sum_probs=25.1
Q ss_pred hHHHHHHHHHHHHHhcCccCcceEEecCCCCCCcH
Q psy17380 45 ELEFEQRNIASLLAKFRIDYADLIIITTITRRPHE 79 (107)
Q Consensus 45 ~~~~~~~~m~~lL~kfRI~a~~v~Vv~di~~~P~~ 79 (107)
.-..+.+.+..++.+++.++ |.+++|+-.....
T Consensus 29 ~d~~~~~~~~~~i~~~~pd~--vi~lGDl~d~~~~ 61 (171)
T cd07384 29 TDAYMRRAFKTALQRLKPDV--VLFLGDLFDGGRI 61 (171)
T ss_pred HHHHHHHHHHHHHHhcCCCE--EEEeccccCCcEe
Confidence 45667788888899888776 7788998876553
No 34
>PRK11409 antitoxin YefM; Provisional
Probab=25.50 E-value=47 Score=21.66 Aligned_cols=49 Identities=18% Similarity=0.132 Sum_probs=32.2
Q ss_pred hHHHHHHHHHHHHHhcCccCcceEEecCCCCCCcHhhHHHHHHhccccc
Q psy17380 45 ELEFEQRNIASLLAKFRIDYADLIIITTITRRPHEETVEFYNHLVRPYL 93 (107)
Q Consensus 45 ~~~~~~~~m~~lL~kfRI~a~~v~Vv~di~~~P~~~t~~~f~~li~p~r 93 (107)
+..+.+.++..++.+---+.+.|.|-..-....---+.++|+.+.+...
T Consensus 5 ~~s~~R~~l~~~l~~v~~~~epv~ITr~g~~~~Vl~S~~~yesl~Etl~ 53 (83)
T PRK11409 5 SYSEARQNLSATMMKAVEDHAPILITRQNGEACVLMSLEEYNSLEETAY 53 (83)
T ss_pred cHHHHHHHHHHHHHHHhccCCcEEEEeCCCCCEEEEeHHHHHHHHHHHH
Confidence 4678889999999999888877744332222333445577777765533
No 35
>PF02012 BNR: BNR/Asp-box repeat; InterPro: IPR002860 Members of this entry contain multiple BNR (bacterial neuraminidase repeat) repeats or Asp-boxes. The repeats are short, however the repeats are never found closer than 40 residues together suggesting that the repeat is structurally longer. These repeats are found in a variety of non-homologous proteins, including bacterial ribonucleases, sulphite oxidases, reelin, netrins, sialidases, neuraminidases, some lipoprotein receptors, and a variety of glycosyl hydrolases [].; PDB: 2JKB_A 2VW0_A 2VW2_A 2VW1_A 2CN2_D 2CN3_B 2VK7_B 2VK5_A 2VK6_A 2BF6_A ....
Probab=25.40 E-value=46 Score=14.72 Aligned_cols=9 Identities=22% Similarity=0.217 Sum_probs=5.9
Q ss_pred EEecCCcch
Q psy17380 8 LITLGEGLT 16 (107)
Q Consensus 8 Wl~dDGGLt 16 (107)
+..+|||-|
T Consensus 1 ~~S~D~G~T 9 (12)
T PF02012_consen 1 YYSTDGGKT 9 (12)
T ss_dssp EEESSTTSS
T ss_pred CEeCCCccc
Confidence 356788854
No 36
>PRK14460 ribosomal RNA large subunit methyltransferase N; Provisional
Probab=25.27 E-value=1.9e+02 Score=23.74 Aligned_cols=61 Identities=15% Similarity=0.230 Sum_probs=39.9
Q ss_pred CCCeeeEEEEecccchHHHHHHHHHHHHHhcCccCcceEEec-----CCC-CCCcHhhHHHHHHhcccccc
Q psy17380 30 ASCKLRVFALANRKEELEFEQRNIASLLAKFRIDYADLIIIT-----TIT-RRPHEETVEFYNHLVRPYLA 94 (107)
Q Consensus 30 ~~cklRVf~~~~~~~~~~~~~~~m~~lL~kfRI~a~~v~Vv~-----di~-~~P~~~t~~~f~~li~p~rl 94 (107)
+..++|+..+.+- ++.++.-+.++.++..+. . .|.++| +.. .+|..+.+.+|.+.++.+.+
T Consensus 256 ~~v~iey~LI~Gv-NDs~ed~~~l~~~l~~~~--~-~VnLIpyn~~~g~~y~~p~~e~v~~f~~~l~~~Gi 322 (354)
T PRK14460 256 ERVTFEYLLLGGV-NDSLEHARELVRLLSRTK--C-KLNLIVYNPAEGLPYSAPTEERILAFEKYLWSKGI 322 (354)
T ss_pred CeEEEEEEEECCC-CCCHHHHHHHHHHHhcCC--C-cEEEEcCCCCCCCCCCCCCHHHHHHHHHHHHHCCC
Confidence 4688888755553 344555567888888774 3 455663 222 56888889999988765443
No 37
>PF01015 Ribosomal_S3Ae: Ribosomal S3Ae family; InterPro: IPR001593 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 [, ]. A number of eukaryotic and archaebacterial ribosomal proteins can be grouped on the basis of sequence similarities. One of these families consists of proteins that have from 220 to 250 amino acids and represents Rps1 (eukaryotic) and Rps3Ae (archaeal and eukaryotic).; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 2XZN_4 2XZM_4 3U5C_B 3U5G_B.
Probab=25.10 E-value=1.1e+02 Score=23.16 Aligned_cols=30 Identities=20% Similarity=0.387 Sum_probs=21.7
Q ss_pred CCeeeEEEEeccc-----chHHHHHHHHHHHHHhc
Q psy17380 31 SCKLRVFALANRK-----EELEFEQRNIASLLAKF 60 (107)
Q Consensus 31 ~cklRVf~~~~~~-----~~~~~~~~~m~~lL~kf 60 (107)
|+.||||+++-.. ....+.++.|...+.+.
T Consensus 113 Gy~lRvf~i~fT~~ra~~sq~~~IRk~m~~ii~~~ 147 (194)
T PF01015_consen 113 GYLLRVFCIAFTKKRAKSSQIKAIRKKMVEIITEE 147 (194)
T ss_dssp TEEEEEEEEEEE----TCHHHHHHHHHHHHHHHHH
T ss_pred CcEEEEEEEEEEeecccchHHHHHHHHHHHHHHHH
Confidence 7899999887543 44677788888777654
No 38
>PF07993 NAD_binding_4: Male sterility protein; InterPro: IPR013120 This family represents the C-terminal NAD-binding region of the male sterility protein from Arabidopsis and Drosophila. A sequence-related jojoba acyl CoA reductase is also included.; PDB: 4DQV_A.
Probab=25.08 E-value=1.8e+02 Score=21.58 Aligned_cols=65 Identities=11% Similarity=0.224 Sum_probs=30.5
Q ss_pred hHHHHHhhCCCCCCCeeeEEEEecccchHHHHHHHHHHHHHhcCcc-------CcceEEe-cCCCCCCcHhhHHHHHHh
Q psy17380 18 LLPYIISTRHSWASCKLRVFALANRKEELEFEQRNIASLLAKFRID-------YADLIII-TTITRRPHEETVEFYNHL 88 (107)
Q Consensus 18 LlpyLLt~~~~W~~cklRVf~~~~~~~~~~~~~~~m~~lL~kfRI~-------a~~v~Vv-~di~~~P~~~t~~~f~~l 88 (107)
|+..||.+.. .+ +|+++.... +.+..++++..-|.++.+. .+.|.++ .|++++----+-+.|+++
T Consensus 12 ll~~Ll~~~~---~~--~I~cLvR~~-~~~~~~~rl~~~l~~~~~~~~~~~~~~~ri~~v~GDl~~~~lGL~~~~~~~L 84 (249)
T PF07993_consen 12 LLEELLRQPP---DV--KIYCLVRAS-SSQSALERLKDALKEYGLWDDLDKEALSRIEVVEGDLSQPNLGLSDEDYQEL 84 (249)
T ss_dssp HHHHHHHHS----TT--EEEEEE-SS-SHHHHHHHHHGGG-SS-HHHHH-HHHTTTEEEEE--TTSGGGG--HHHHHHH
T ss_pred HHHHHHcCCC---Cc--EEEEEEeCc-ccccchhhhhhhcccccchhhhhhhhhccEEEEeccccccccCCChHHhhcc
Confidence 5667777653 23 677665533 3444555565555544432 4466565 677765433333445444
No 39
>PHA03052 Hypothetical protein; Provisional
Probab=25.03 E-value=49 Score=21.60 Aligned_cols=8 Identities=13% Similarity=-0.251 Sum_probs=6.0
Q ss_pred eeEEEEec
Q psy17380 4 LLFSLITL 11 (107)
Q Consensus 4 ~dVwWl~d 11 (107)
-||||+..
T Consensus 30 a~V~W~~N 37 (69)
T PHA03052 30 ADVFWISN 37 (69)
T ss_pred eEEEEEeC
Confidence 38999874
No 40
>PRK05074 inosine/xanthosine triphosphatase; Reviewed
Probab=24.73 E-value=1.3e+02 Score=22.52 Aligned_cols=48 Identities=13% Similarity=0.221 Sum_probs=32.4
Q ss_pred eeEEEEec-ccchHHHHHHHHHHHHHhcCccCcceEEecCCCCCCc--HhhH
Q psy17380 34 LRVFALAN-RKEELEFEQRNIASLLAKFRIDYADLIIITTITRRPH--EETV 82 (107)
Q Consensus 34 lRVf~~~~-~~~~~~~~~~~m~~lL~kfRI~a~~v~Vv~di~~~P~--~~t~ 82 (107)
++|. |++ +.-.++..++.+..+.-...++.+.|.|-++++.+|. ++|.
T Consensus 3 m~V~-VgS~NP~Ki~Av~~af~~~f~~~~~~v~~v~v~SgV~~QP~g~eET~ 53 (173)
T PRK05074 3 YHVI-VASTNPAKINAILQAFSEIFPEGSCHIEGVAVPSGVPDQPMGSEETR 53 (173)
T ss_pred EEEE-EeCCCHHHHHHHHHHHHHhcCCCceEEEEeecCCCcCCCCCChHHHH
Confidence 3555 544 4466777777776665555555656777789999998 5665
No 41
>cd03012 TlpA_like_DipZ_like TlpA-like family, DipZ-like subfamily; composed uncharacterized proteins containing a TlpA-like TRX domain. Some members show domain architectures similar to that of E. coli DipZ protein (also known as DsbD). The only eukaryotic members of the TlpA family belong to this subfamily. TlpA is a disulfide reductase known to have a crucial role in the biogenesis of cytochrome aa3.
Probab=23.40 E-value=1.9e+02 Score=19.02 Aligned_cols=58 Identities=17% Similarity=0.228 Sum_probs=33.9
Q ss_pred EEEecCCcchhhHHHHHhhCCCCCCCeeeEEEEecccchHHHHHHHHHHHHHhcCccC
Q psy17380 7 SLITLGEGLTLLLPYIISTRHSWASCKLRVFALANRKEELEFEQRNIASLLAKFRIDY 64 (107)
Q Consensus 7 wWl~dDGGLtLLlpyLLt~~~~W~~cklRVf~~~~~~~~~~~~~~~m~~lL~kfRI~a 64 (107)
+|-..=+.=..-+|.|-..++..++-.+.|+++....-+.+.....+++++.++.+.+
T Consensus 30 F~a~~C~~C~~~~p~l~~l~~~~~~~~~~vi~i~~~~~~~~~~~~~~~~~~~~~~~~~ 87 (126)
T cd03012 30 FWTYCCINCLHTLPYLTDLEQKYKDDGLVVIGVHSPEFAFERDLANVKSAVLRYGITY 87 (126)
T ss_pred EECCCCccHHHHHHHHHHHHHHcCcCCeEEEEeccCccccccCHHHHHHHHHHcCCCC
Confidence 3433334444457777666666666667777665432222334556777778888877
No 42
>cd01784 rasfadin_RA Ubiquitin-like domain of Rasfadin. rasfadin_RA Rasfadin (RASSF2) belongs to a family of Ras effectors/tumor suppressors that includes RASSF1 and NORE1. RASSF2 binds directly to K-Ras in a GTP-dependent manner via its RA (RAS-associated) domain. RASSF2 promotes apoptosis and cell cycle arrest and is frequently down-regulated in lung tumor cell lines
Probab=22.98 E-value=70 Score=21.71 Aligned_cols=15 Identities=33% Similarity=0.592 Sum_probs=12.1
Q ss_pred HHHHHHHHHHhcCcc
Q psy17380 49 EQRNIASLLAKFRID 63 (107)
Q Consensus 49 ~~~~m~~lL~kfRI~ 63 (107)
..+-+..||.||||+
T Consensus 25 t~eVI~~LL~KFkv~ 39 (87)
T cd01784 25 TPQVLKLLLNKFKIE 39 (87)
T ss_pred HHHHHHHHHHhcccc
Confidence 445678899999996
No 43
>TIGR00824 EIIA-man PTS system, mannose/fructose/sorbose family, IIA component. Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains.The Man family is unique in several respects among PTS permease families It is the only PTS family in which members possess a IID protein. It is the only PTS family in which the IIB constituent is phosphorylated on a histidyl rather than a cysteyl residue. Its permease members exhibit broad specificity for a range of sugars, rather than being specific for just one or a few sugars. The mannose permease of E. coli, for example, can transport and phosphorylate glucose, mannose, fructose, glucosamine, N-acetylglucosamine, and other sugars. Other members of this can transport sorbose, fructose and N-acetylglucosamine. This family is specific for the IIA components.
Probab=22.60 E-value=2.5e+02 Score=18.93 Aligned_cols=40 Identities=15% Similarity=0.160 Sum_probs=29.6
Q ss_pred CeeeEEEEecccchHHHHHHHHHHHHHhcCccCcceEEecCC
Q psy17380 32 CKLRVFALANRKEELEFEQRNIASLLAKFRIDYADLIIITTI 73 (107)
Q Consensus 32 cklRVf~~~~~~~~~~~~~~~m~~lL~kfRI~a~~v~Vv~di 73 (107)
..++.+. ....++.++.++++.+.+.++.= -++|.|+.|+
T Consensus 28 ~~i~~i~-~~~~~~~~~~~~~l~~~i~~~~~-~~~vivltDl 67 (116)
T TIGR00824 28 NNVGAVP-FVPGENAETLQEKYNAALADLDT-EEEVLFLVDI 67 (116)
T ss_pred CCeEEEE-cCCCcCHHHHHHHHHHHHHhcCC-CCCEEEEEeC
Confidence 3477764 33456788899999999998753 3578888888
No 44
>KOG2749|consensus
Probab=22.29 E-value=91 Score=26.67 Aligned_cols=44 Identities=20% Similarity=0.392 Sum_probs=28.9
Q ss_pred CCCCCeeeEEEEeccc----chHHHHHHHHHHHHHhcCccCcc-------eEEec
Q psy17380 28 SWASCKLRVFALANRK----EELEFEQRNIASLLAKFRIDYAD-------LIIIT 71 (107)
Q Consensus 28 ~W~~cklRVf~~~~~~----~~~~~~~~~m~~lL~kfRI~a~~-------v~Vv~ 71 (107)
.|.+|+|-|=..++.. +..=-.--++.+.|+++|.++++ |.||+
T Consensus 56 Tw~Gctlev~G~t~~~YVs~eTpM~~ylNlH~ale~~R~~~e~~~~~GPrv~vVG 110 (415)
T KOG2749|consen 56 TWQGCTLEVEGTTEVEYVSDETPMVLYLNLHAALEKRRMQAEEESSYGPRVMVVG 110 (415)
T ss_pred EEeccEEEEeccccceEecCCCChhhhhhHHHHHHHHhhhhhhhhccCCEEEEEC
Confidence 4999999886433321 11122233677889999999988 66776
No 45
>COG2179 Predicted hydrolase of the HAD superfamily [General function prediction only]
Probab=22.25 E-value=1.6e+02 Score=22.40 Aligned_cols=21 Identities=10% Similarity=0.338 Sum_probs=15.5
Q ss_pred HHHHHHHHhcCccCcceEEec
Q psy17380 51 RNIASLLAKFRIDYADLIIIT 71 (107)
Q Consensus 51 ~~m~~lL~kfRI~a~~v~Vv~ 71 (107)
..+..-|.+++++.++|.+|+
T Consensus 97 ~~fr~Al~~m~l~~~~vvmVG 117 (175)
T COG2179 97 RAFRRALKEMNLPPEEVVMVG 117 (175)
T ss_pred HHHHHHHHHcCCChhHEEEEc
Confidence 455667788888888887774
No 46
>PRK11194 ribosomal RNA large subunit methyltransferase N; Provisional
Probab=21.95 E-value=4.7e+02 Score=21.73 Aligned_cols=71 Identities=11% Similarity=0.163 Sum_probs=44.4
Q ss_pred HHHHhhCCCCCCCeeeEEEEecccchHHHHHHHHHHHHHhcCccCcceEEec-----C-CCCCCcHhhHHHHHHhccccc
Q psy17380 20 PYIISTRHSWASCKLRVFALANRKEELEFEQRNIASLLAKFRIDYADLIIIT-----T-ITRRPHEETVEFYNHLVRPYL 93 (107)
Q Consensus 20 pyLLt~~~~W~~cklRVf~~~~~~~~~~~~~~~m~~lL~kfRI~a~~v~Vv~-----d-i~~~P~~~t~~~f~~li~p~r 93 (107)
.|+...++.=+...+|+-.+.+- ++.++.-+.++.+|..+.. .|.++| + --+.|+++.+++|.+.+..+.
T Consensus 251 ~y~~~~~~~~rrI~irypLIpGv-NDs~e~a~~La~ll~~l~~---~VnLIPYN~~~~~~~~~ps~e~v~~f~~~L~~~G 326 (372)
T PRK11194 251 RYLEKSNANQGRVTVEYVMLDHV-NDGTEHAHQLAELLKDTPC---KINLIPWNPFPGAPYGRSSNSRIDRFSKVLMEYG 326 (372)
T ss_pred HHHHhcccCCCeEEEEEEeECCC-CCCHHHHHHHHHHHhcCCc---eEEEecCCCCCCCCCCCCCHHHHHHHHHHHHHCC
Confidence 55554421113577887655554 4445555678889988753 567774 1 125688888999998876554
Q ss_pred c
Q psy17380 94 A 94 (107)
Q Consensus 94 l 94 (107)
+
T Consensus 327 i 327 (372)
T PRK11194 327 F 327 (372)
T ss_pred C
Confidence 4
No 47
>PF01171 ATP_bind_3: PP-loop family; InterPro: IPR011063 This entry represents the PP-loop motif superfamily [,]. The PP-loop motif appears to be a modified version of the P-loop of nucleotide binding domain that is involved in phosphate binding []. Named PP-motif, since it appears to be a part of a previously uncharacterised ATP pyrophophatase domain. ATP sulfurylases, Escherichia coli NtrL, and Bacillus subtilis OutB consist of this domain alone. In other proteins, the pyrophosphatase domain is associated with amidotransferase domains (type I or type II), a putative citrulline-aspartate ligase domain or a nitrilase/amidase domain.; PDB: 3A2K_A 2E89_B 2E21_D 1WY5_B 1NI5_A.
Probab=21.69 E-value=2.4e+02 Score=20.12 Aligned_cols=50 Identities=14% Similarity=0.138 Sum_probs=34.3
Q ss_pred hhhHHHHHhhCCCCCCCeeeEEEEeccc-chHHHHHHHHHHHHHhcCccCc
Q psy17380 16 TLLLPYIISTRHSWASCKLRVFALANRK-EELEFEQRNIASLLAKFRIDYA 65 (107)
Q Consensus 16 tLLlpyLLt~~~~W~~cklRVf~~~~~~-~~~~~~~~~m~~lL~kfRI~a~ 65 (107)
.+.|.|+|..-+...+.++.+++|-... ....+..+.+..++.++-|.+.
T Consensus 12 S~~Ll~~l~~~~~~~~~~~~~~~vdh~~~~~s~~~~~~v~~~~~~~~i~~~ 62 (182)
T PF01171_consen 12 SMALLHLLKELRRRNGIKLIAVHVDHGLREESDEEAEFVEEICEQLGIPLY 62 (182)
T ss_dssp HHHHHHHHHHHHTTTTTEEEEEEEE-STSCCHHHHHHHHHHHHHHTT-EEE
T ss_pred HHHHHHHHHHHHHhcCCCeEEEEEecCCCcccchhHHHHHHHHHhcCCceE
Confidence 4566677775555455688888775432 4566777889999999999983
No 48
>cd07400 MPP_YydB Bacillus subtilis YydB and related proteins, metallophosphatase domain. YydB (BSU40220) is an uncharacterized Bacillus subtilis protein that belongs to the following Bacillus subtilis gene cluster yydB-yydC-yydD-yydG-yydH-yydI-yydJ. YydB belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal active site made up of residues located at the C-terminal side of the sheets. This domain is thought to allow for productiv
Probab=21.57 E-value=1.6e+02 Score=19.63 Aligned_cols=39 Identities=15% Similarity=0.204 Sum_probs=23.5
Q ss_pred HHHHHHhcCccCcceEEecCCCCCCcHhhHHHHHHhccccc
Q psy17380 53 IASLLAKFRIDYADLIIITTITRRPHEETVEFYNHLVRPYL 93 (107)
Q Consensus 53 m~~lL~kfRI~a~~v~Vv~di~~~P~~~t~~~f~~li~p~r 93 (107)
+...+....+|+ |.+.+|+...+.......+.++++.+.
T Consensus 27 ~~~~~~~~~~d~--vi~~GDl~~~~~~~~~~~~~~~~~~l~ 65 (144)
T cd07400 27 LLAEIKALDPDL--VVITGDLTQRGLPEEFEEAREFLDALP 65 (144)
T ss_pred HHHHHhccCCCE--EEECCCCCCCCCHHHHHHHHHHHHHcc
Confidence 333444444443 666789998888766666666555543
No 49
>PRK14454 ribosomal RNA large subunit methyltransferase N; Provisional
Probab=21.41 E-value=4.4e+02 Score=21.42 Aligned_cols=60 Identities=7% Similarity=0.163 Sum_probs=38.3
Q ss_pred CCeeeEEEEecccchHHHHHHHHHHHHHhcCccCcceEEec------CCCCCCcHhhHHHHHHhcccccc
Q psy17380 31 SCKLRVFALANRKEELEFEQRNIASLLAKFRIDYADLIIIT------TITRRPHEETVEFYNHLVRPYLA 94 (107)
Q Consensus 31 ~cklRVf~~~~~~~~~~~~~~~m~~lL~kfRI~a~~v~Vv~------di~~~P~~~t~~~f~~li~p~rl 94 (107)
...+|+--+.+- ++.++.-++++.++..+. + .|.++| .--++|+++.+.+|.+.+..+.+
T Consensus 251 rv~iey~LI~gv-NDs~eda~~La~llk~l~--~-~VnLiPyn~~~~~~~~~ps~e~l~~f~~~l~~~gi 316 (342)
T PRK14454 251 RITFEYALVKGV-NDSKEDAKELGKLLKGML--C-HVNLIPVNEVKENGFKKSSKEKIKKFKNILKKNGI 316 (342)
T ss_pred EEEEEEEeECCC-CCCHHHHHHHHHHHhcCC--c-eEEEEecCCCCCCCCCCCCHHHHHHHHHHHHHCCC
Confidence 466777645553 344555557888888763 3 466663 12356888889999988765443
No 50
>PF07851 TMPIT: TMPIT-like protein; InterPro: IPR012926 A number of members of this family are annotated as being transmembrane proteins induced by tumour necrosis factor alpha, but no literature was found to support this. ; GO: 0016021 integral to membrane
Probab=21.35 E-value=48 Score=27.44 Aligned_cols=14 Identities=43% Similarity=0.895 Sum_probs=11.8
Q ss_pred CcchhhHHHHHhhC
Q psy17380 13 EGLTLLLPYIISTR 26 (107)
Q Consensus 13 GGLtLLlpyLLt~~ 26 (107)
|||+.|+|+|..-+
T Consensus 260 ~~L~fLlPfLf~~~ 273 (330)
T PF07851_consen 260 RGLTFLLPFLFFGQ 273 (330)
T ss_pred ccHHHHHHHHHHHH
Confidence 99999999987543
No 51
>PF06283 ThuA: Trehalose utilisation; PDB: 4E5V_A 1T0B_A.
Probab=21.18 E-value=1.1e+02 Score=22.41 Aligned_cols=56 Identities=13% Similarity=0.257 Sum_probs=28.7
Q ss_pred eEEEEecc-----cchHHHHHHHHHHHHHhcCccCcceEEecCCCCCCcHhhHHHHHHhccccc
Q psy17380 35 RVFALANR-----KEELEFEQRNIASLLAKFRIDYADLIIITTITRRPHEETVEFYNHLVRPYL 93 (107)
Q Consensus 35 RVf~~~~~-----~~~~~~~~~~m~~lL~kfRI~a~~v~Vv~di~~~P~~~t~~~f~~li~p~r 93 (107)
||+.+++. .+........|+.+|++ .=.+ +|++..| ......++++.++-+|-..+
T Consensus 1 kvLi~~g~~~~~~h~~~~~~~~~l~~ll~~-~~~~-~v~~~~~-~~~~~~~~L~~~Dvvv~~~~ 61 (217)
T PF06283_consen 1 KVLIFSGGWSGYRHDSIPAAKKALAQLLEE-SEGF-EVTVTED-PDDLTPENLKGYDVVVFYNT 61 (217)
T ss_dssp EEEEEES-SHHHCSHHHHHHHHHHHHHHHH-TTCE-EEEECCS-GGCTSHHCHCT-SEEEEE-S
T ss_pred CEEEEeCCcCCccCccHHHHHHHHHHHhcc-CCCE-EEEEEeC-cccCChhHhcCCCEEEEECC
Confidence 56655554 13356778888888984 2223 3334444 33334455666665554443
No 52
>PF00580 UvrD-helicase: UvrD/REP helicase N-terminal domain; InterPro: IPR000212 Members of this family are helicases that catalyse ATP dependent unwinding of double stranded DNA to single stranded DNA. THe family includes both Rep and UvrD helcases. The Rep family helicases are composed of four structural domains []. The Rep proteins function as dimers.; GO: 0003677 DNA binding, 0004003 ATP-dependent DNA helicase activity, 0005524 ATP binding; PDB: 1UAA_B 1W36_B 3K70_B 2IS6_B 3LFU_A 2IS2_B 2IS1_B 2IS4_A 1QHG_A 1PJR_A ....
Probab=20.72 E-value=2.8e+02 Score=20.54 Aligned_cols=40 Identities=23% Similarity=0.097 Sum_probs=25.7
Q ss_pred CCeeeEEEEecccchHHHHHHHHHHHHHhcCccCcceEEec
Q psy17380 31 SCKLRVFALANRKEELEFEQRNIASLLAKFRIDYADLIIIT 71 (107)
Q Consensus 31 ~cklRVf~~~~~~~~~~~~~~~m~~lL~kfRI~a~~v~Vv~ 71 (107)
+-.+.|.+.+|.+ .-..+-.+++.||...+++.+.+.+++
T Consensus 13 ~~~~lV~a~AGSG-KT~~l~~ri~~ll~~~~~~~~~Il~lT 52 (315)
T PF00580_consen 13 EGPLLVNAGAGSG-KTTTLLERIAYLLYEGGVPPERILVLT 52 (315)
T ss_dssp SSEEEEEE-TTSS-HHHHHHHHHHHHHHTSSSTGGGEEEEE
T ss_pred CCCEEEEeCCCCC-chHHHHHHHHHhhccccCChHHheecc
Confidence 4566777666643 445556667777777777777776654
No 53
>PF01102 Glycophorin_A: Glycophorin A; InterPro: IPR001195 Proteins in this group are responsible for the molecular basis of the blood group antigens, surface markers on the outside of the red blood cell membrane. Most of these markers are proteins, but some are carbohydrates attached to lipids or proteins [Reid M.E., Lomas-Francis C. The Blood Group Antigen FactsBook Academic Press, London / San Diego, (1997)]. Glycophorin A (PAS-2) and glycophorin B (PAS-3) belong to the MNS blood group system and are associated with antigens that include M/N, S/s, U, He, Mi(a), M(c), Vw, Mur, M(g), Vr, M(e), Mt(a), St(a), Ri(a), Cl(a), Ny(a), Hut, Hil, M(v), Far, Mit, Dantu, Hop, Nob, En(a), ENKT, amongst others. Glycophorin A is the major sialoglycoprotein of the erythrocyte membrane []. Structurally, glycophorin A consists of an N-terminal extracellular domain, heavily glycosylated on serine and threonine residues, followed by a transmembrane region and a C-terminal cytoplasmic domain. Other glycophorins in this entry such as Glycophorin B and Glycophorin E represent minor sialoglycoproteins in the erythrocyte membrane.; GO: 0016021 integral to membrane; PDB: 2KPF_B 1AFO_B 2KPE_A.
Probab=20.52 E-value=40 Score=24.01 Aligned_cols=15 Identities=33% Similarity=0.640 Sum_probs=11.3
Q ss_pred cchhhHHHHHhhCCC
Q psy17380 14 GLTLLLPYIISTRHS 28 (107)
Q Consensus 14 GLtLLlpyLLt~~~~ 28 (107)
|+.|||.|++.|+++
T Consensus 79 g~Illi~y~irR~~K 93 (122)
T PF01102_consen 79 GIILLISYCIRRLRK 93 (122)
T ss_dssp HHHHHHHHHHHHHS-
T ss_pred HHHHHHHHHHHHHhc
Confidence 567889999997764
No 54
>PHA02771 hypothetical protein; Provisional
Probab=20.47 E-value=78 Score=21.64 Aligned_cols=50 Identities=16% Similarity=0.197 Sum_probs=33.7
Q ss_pred HHHHHHHHhcCccCcceEEecCCCCCCcHhhHHHHHHhccccccccCcCCc
Q psy17380 51 RNIASLLAKFRIDYADLIIITTITRRPHEETVEFYNHLVRPYLAKDEEADC 101 (107)
Q Consensus 51 ~~m~~lL~kfRI~a~~v~Vv~di~~~P~~~t~~~f~~li~p~rl~e~~~~~ 101 (107)
+.+.+.+.+|-=|. .+.-+.=.=++|-.-|-++|++++..+.+-....++
T Consensus 4 ~~lK~ii~~fF~d~-~i~El~L~F~~~l~ite~ey~ELi~n~~l~~~~~d~ 53 (90)
T PHA02771 4 EELKSIIDKFFQDQ-TIIRINLMFNKEIIVSYNQFEEIIKDGDLTHRYADK 53 (90)
T ss_pred HHHHHHHHHHhccc-chHHhhhhcCCCeEecHHHHHHHHcCCcceeeeccC
Confidence 34666777775544 232222245678888899999999999987666554
No 55
>cd05468 pVHL von Hippel-Landau (pVHL) tumor suppressor protein. von Hippel-Landau (pVHL) protein, the gene product of VHL, is a critical regulator of the ubiquitous oxygen-sensing pathway. It is conserved throughout evolution, as its homologs are found in organisms ranging from mammals to the Drosophila melanogaster, Anopheles gambiae insects and the Caenorhabditis elegans nematode. pVHL acts as the substrate recognition component of an E3 ubiquitin ligase complex. Several proteins have been identified as pVHL-binding proteins that are subject to ubiquitin-mediated proteolysis; the best characterized putative substrates are the alpha subunits of the hypoxia-inducible factor (HIF1alpha, HIF2alpha, and HIF3alpha). In addition to HIF degradation, pVHL has been implicated to be involved in HIF independent cellular processes. Germline VHL mutations cause renal cell carcinomas, hemangioblastomas and pheochromocytomas in humans. pVHL can bind to and direct the proper deposition of fibronecti
Probab=20.26 E-value=64 Score=23.00 Aligned_cols=14 Identities=7% Similarity=-0.043 Sum_probs=11.8
Q ss_pred ceeEEEEecCCcch
Q psy17380 3 QLLFSLITLGEGLT 16 (107)
Q Consensus 3 ~~dVwWl~dDGGLt 16 (107)
-++|||+..+|...
T Consensus 20 ~v~~~Wid~~G~~~ 33 (141)
T cd05468 20 PVELYWIDYDGKPV 33 (141)
T ss_pred eEEEEEECCCCCEE
Confidence 47999999999864
Done!