Query 031717
Match_columns 154
No_of_seqs 103 out of 348
Neff 6.6
Searched_HMMs 46136
Date Fri Mar 29 04:22:59 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/031717.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/031717hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4639 RNase P/RNase MRP subu 100.0 1.8E-41 3.9E-46 253.2 15.3 145 1-153 1-145 (154)
2 PRK03717 ribonuclease P protei 100.0 1.3E-34 2.8E-39 212.5 12.9 104 2-117 12-115 (120)
3 PF01900 RNase_P_Rpp14: Rpp14/ 100.0 1.5E-34 3.2E-39 206.8 9.7 107 7-118 1-107 (107)
4 COG1369 POP5 RNase P/RNase MRP 100.0 4.2E-28 9.2E-33 177.4 12.1 107 2-120 12-118 (124)
5 PF08777 RRM_3: RNA binding mo 64.9 39 0.00085 23.8 6.6 58 39-102 15-77 (105)
6 PF00564 PB1: PB1 domain; Int 55.9 54 0.0012 21.2 6.7 60 34-102 23-82 (84)
7 PF15188 CCDC-167: Coiled-coil 50.3 48 0.001 22.9 4.8 47 104-151 3-50 (85)
8 PF01133 ER: Enhancer of rudim 41.4 42 0.00091 24.0 3.5 45 106-152 23-67 (102)
9 PLN00203 glutamyl-tRNA reducta 37.5 64 0.0014 29.3 4.9 68 82-149 407-475 (519)
10 PRK09458 pspB phage shock prot 31.7 66 0.0014 21.8 3.0 11 144-154 59-69 (75)
11 PF07586 HXXSHH: Protein of un 28.0 64 0.0014 26.7 3.1 38 112-153 160-197 (302)
12 TIGR03706 exo_poly_only exopol 28.0 79 0.0017 26.1 3.6 19 100-118 199-217 (300)
13 cd02410 archeal_CPSF_KH The ar 27.8 1.2E+02 0.0026 23.0 4.2 68 59-126 69-140 (145)
14 cd06407 PB1_NLP A PB1 domain i 26.9 2E+02 0.0044 19.3 6.9 58 36-101 23-80 (82)
15 PF00745 GlutR_dimer: Glutamyl 26.8 42 0.00091 22.7 1.5 43 102-146 21-63 (101)
16 cd06396 PB1_NBR1 The PB1 domai 26.7 2.1E+02 0.0046 19.5 5.0 55 36-102 25-79 (81)
17 PF11502 BCL9: B-cell lymphoma 26.6 64 0.0014 19.2 2.0 20 134-153 2-21 (40)
18 KOG3239 Density-regulated prot 25.9 50 0.0011 26.0 1.9 22 105-126 28-49 (193)
19 PF06102 DUF947: Domain of unk 25.5 1.5E+02 0.0032 22.8 4.5 39 113-151 55-93 (168)
20 PF10057 DUF2294: Uncharacteri 25.5 1.4E+02 0.003 21.3 4.1 48 100-151 40-89 (118)
21 PF13490 zf-HC2: Putative zinc 25.0 1.3E+02 0.0028 16.4 3.4 18 130-147 12-29 (36)
22 cd07355 HN_L-delphilin-R2_like 24.6 1E+02 0.0022 21.1 3.0 17 134-150 16-32 (80)
23 PRK00034 gatC aspartyl/glutamy 22.7 2E+02 0.0044 19.3 4.4 32 120-151 5-36 (95)
24 PF11429 Colicin_D: Colicin D; 22.2 1.1E+02 0.0023 21.5 2.8 40 33-76 26-69 (92)
25 PF14061 Mtf2_C: Polycomb-like 21.7 1E+02 0.0022 19.2 2.3 26 36-61 4-29 (50)
26 PF03958 Secretin_N: Bacterial 21.4 2.1E+02 0.0046 18.2 4.1 33 57-90 45-77 (82)
27 PF06067 DUF932: Domain of unk 21.2 2.2E+02 0.0048 22.6 4.9 52 97-151 102-159 (239)
28 TIGR00607 rad52 recombination 21.0 3.6E+02 0.0078 20.8 5.7 102 38-150 34-142 (161)
29 PF08278 DnaG_DnaB_bind: DNA p 20.8 2.7E+02 0.0058 19.5 4.8 38 104-144 87-125 (127)
30 smart00666 PB1 PB1 domain. Pho 20.5 2.4E+02 0.0053 18.0 9.7 56 35-99 23-78 (81)
31 cd05992 PB1 The PB1 domain is 20.5 2.4E+02 0.0052 17.9 6.9 56 35-99 23-78 (81)
No 1
>KOG4639 consensus RNase P/RNase MRP subunit POP5 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.8e-41 Score=253.23 Aligned_cols=145 Identities=28% Similarity=0.521 Sum_probs=136.1
Q ss_pred CCcccceEEEEEEEeCCCCCCCCCCccccCHHHHHHHHHHHHHhhcCccccccccCceeEEEEcCCCceEEEEeCCCchH
Q 031717 1 MVGFKNRYMVVEVFLDPNKELPVDDPVILTQFNVSKAIRDSILVNFGECGLASSLGSFQVKYVNPITKLCIIRASREDCQ 80 (154)
Q Consensus 1 MVR~K~RYi~~ei~~~~~~~~~~~~~~~l~~~~l~~~I~~sv~~lfGd~G~~~~~~~l~Vky~~~~t~~~IIR~~r~~~~ 80 (154)
|||+|||||+||+.++++. .+..++...|.+.+++.+.++|||+|+|.+..+|.|+|+|+.|+.+||||.+++++
T Consensus 1 MVRiK~RYilvel~~~~p~-----~~~~~~~siL~~iir~~v~~~~Gd~G~a~~~s~l~VkYl~~~T~v~ilRc~~~~~k 75 (154)
T KOG4639|consen 1 MVRIKNRYILVELLFPDPP-----PDLSLKDSILQSIIRSRVSENYGDFGLAKVKSLLSVKYLNENTSVAILRCAREGCK 75 (154)
T ss_pred CceeeeeEEEEEEecCCCC-----CCCCcchHHHHHHHHHHHHHHhhhHHHHHhhcceEEEEeCCCCcEEEEEEccccch
Confidence 9999999999999998764 23456778899999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhhhhhCCeeEEEEEEeeechHHHHHHHHHcchHHHHHHHHHHHccCCCHHHHHHHHHHHHHhhhcc
Q 031717 81 KVWSAMTMVRSIGNCLVLFNVLDLSGSIRACKNAALKCEEVKFEHYKLAVGARLSADVTQHMENCLEKIKILE 153 (154)
Q Consensus 81 ~v~aaL~li~~i~~~~~~~~Vl~VSGTIr~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 153 (154)
.+|+|||+|++++|.||.|+|++|||||++|++++++++++.+... +|++.+++++++.++.++.+...+
T Consensus 76 ~v~~aLplI~~i~d~~~~~~tl~Vggtik~cekfiik~nr~el~~~---l~~~t~~~~r~~~~~~v~~~~~~~ 145 (154)
T KOG4639|consen 76 LVWAALPLITKIGDVPCIFRTLFVGGTIKKCEKFIIKYNRSELHRI---LGKCTSTEERDQLFEAVHQICGQR 145 (154)
T ss_pred hHHHHHhHHHhhcCcceEEEEEEEhhhHHHHHHHHHHHhHHHHHHH---HhhcCchhhhhhHHHHHHHHhcch
Confidence 9999999999999999999999999999999999999999999888 999999999999999999887654
No 2
>PRK03717 ribonuclease P protein component 2; Provisional
Probab=100.00 E-value=1.3e-34 Score=212.53 Aligned_cols=104 Identities=27% Similarity=0.371 Sum_probs=96.6
Q ss_pred CcccceEEEEEEEeCCCCCCCCCCccccCHHHHHHHHHHHHHhhcCccccccccCceeEEEEcCCCceEEEEeCCCchHH
Q 031717 2 VGFKNRYMVVEVFLDPNKELPVDDPVILTQFNVSKAIRDSILVNFGECGLASSLGSFQVKYVNPITKLCIIRASREDCQK 81 (154)
Q Consensus 2 VR~K~RYi~~ei~~~~~~~~~~~~~~~l~~~~l~~~I~~sv~~lfGd~G~~~~~~~l~Vky~~~~t~~~IIR~~r~~~~~ 81 (154)
||+|||||+|||+++++ +++.+|.++||+++.++|||+|+|.+.. .++|||+.|+.|||||+|++++.
T Consensus 12 lR~K~RYi~~ei~~~~~----------~~~~~l~~~Ir~av~~~fGd~G~~~~~~--~li~f~~~t~~gIlRc~R~~~~~ 79 (120)
T PRK03717 12 LRDKNRYIAFQVIGERP----------FTKDEIKKAIWEASLSTLGELGTARAKP--WFIKFDEKTQTGIVRCDRKHVEE 79 (120)
T ss_pred ccccceEEEEEEEeCCC----------CCHHHHHHHHHHHHHHHcChhhhccccc--eEEEEeCCCCEEEEEcCchhHHH
Confidence 79999999999998753 4788999999999999999999998643 45699999999999999999999
Q ss_pred HHHHHHhhhhhCCeeEEEEEEeeechHHHHHHHHHc
Q 031717 82 VWSAMTMVRSIGNCLVLFNVLDLSGSIRACKNAALK 117 (154)
Q Consensus 82 v~aaL~li~~i~~~~~~~~Vl~VSGTIr~~~k~~l~ 117 (154)
+|+||+++++++|.||.|+|++||||||+|+++++.
T Consensus 80 v~aAL~li~~i~~~~v~ir~l~vSGTIk~~~~k~l~ 115 (120)
T PRK03717 80 LRFALTLVTEINGSKAIIRTLGVSGTIKRLKRKFLS 115 (120)
T ss_pred HHHHHHHHHhCCCeeEEEEEeeccHHHHHHHHHhhh
Confidence 999999999999999999999999999999999885
No 3
>PF01900 RNase_P_Rpp14: Rpp14/Pop5 family; InterPro: IPR002759 This family contains proteins found in some eukaryotes and archaebacteria that are related to yeast ribonuclease P. This enzyme is essential for tRNA processing generating 5'-termini of mature tRNA molecules []. tRNA processing enzyme ribonuclease P (RNase P) consists of an RNA molecule associated with at least eight protein subunits, hPop1, Rpp14, Rpp20, Rpp25, Rpp29, Rpp30, Rpp38, and Rpp40 [].; GO: 0004540 ribonuclease activity, 0008033 tRNA processing; PDB: 2CZV_D 2AV5_B.
Probab=100.00 E-value=1.5e-34 Score=206.79 Aligned_cols=107 Identities=41% Similarity=0.658 Sum_probs=90.3
Q ss_pred eEEEEEEEeCCCCCCCCCCccccCHHHHHHHHHHHHHhhcCccccccccCceeEEEEcCCCceEEEEeCCCchHHHHHHH
Q 031717 7 RYMVVEVFLDPNKELPVDDPVILTQFNVSKAIRDSILVNFGECGLASSLGSFQVKYVNPITKLCIIRASREDCQKVWSAM 86 (154)
Q Consensus 7 RYi~~ei~~~~~~~~~~~~~~~l~~~~l~~~I~~sv~~lfGd~G~~~~~~~l~Vky~~~~t~~~IIR~~r~~~~~v~aaL 86 (154)
|||+|++.++++. ++..+++.+|.++|++++.++|||+|+|.+.+++.|+|||+.|+.|||||+|++++.+|+||
T Consensus 1 RYi~~~i~~~~~~-----~~~~~~~~~l~~~I~~a~~~l~G~~G~~~~~~~l~v~~~~~~t~~~IiR~~r~~~~~v~~aL 75 (107)
T PF01900_consen 1 RYIVFEIISEDPS-----DPAELSPSDLKKAIREAVKELFGDFGAAAISPSLQVKYFNPKTGIGIIRCRREYYKKVWSAL 75 (107)
T ss_dssp EEEEEEEEES----------S---HHHHHHHHHHHHHHHCHHHHHHHH--EEE--EEETTTTEEEEEEEGGGHHHHHHHH
T ss_pred CEEEEEEEEcccc-----ccCcCCHHHHHHHHHHHHHHHcChhhhhhcccccceeeEcCCCCEEEEEEcchhhhHHHHHH
Confidence 9999999999874 23458999999999999999999999999889999999999999999999999999999999
Q ss_pred HhhhhhCCeeEEEEEEeeechHHHHHHHHHcc
Q 031717 87 TMVRSIGNCLVLFNVLDLSGSIRACKNAALKC 118 (154)
Q Consensus 87 ~li~~i~~~~~~~~Vl~VSGTIr~~~k~~l~~ 118 (154)
|++++++|.||.|+|++|||||++|++++++|
T Consensus 76 ~~i~~i~~~~~~~~vl~vSGTir~~~k~~i~~ 107 (107)
T PF01900_consen 76 TLITSINGRPCSIRVLHVSGTIRSCQKFIIKY 107 (107)
T ss_dssp HT--EETTEEEEEEEEEEESSHHHHHHHCTC-
T ss_pred HHHhccCCceEEEEEEEEChhHHHHHHHHhcC
Confidence 99999999999999999999999999999986
No 4
>COG1369 POP5 RNase P/RNase MRP subunit POP5 [Translation, ribosomal structure and biogenesis]
Probab=99.95 E-value=4.2e-28 Score=177.37 Aligned_cols=107 Identities=27% Similarity=0.375 Sum_probs=95.7
Q ss_pred CcccceEEEEEEEeCCCCCCCCCCccccCHHHHHHHHHHHHHhhcCccccccccCceeEEEEcCCCceEEEEeCCCchHH
Q 031717 2 VGFKNRYMVVEVFLDPNKELPVDDPVILTQFNVSKAIRDSILVNFGECGLASSLGSFQVKYVNPITKLCIIRASREDCQK 81 (154)
Q Consensus 2 VR~K~RYi~~ei~~~~~~~~~~~~~~~l~~~~l~~~I~~sv~~lfGd~G~~~~~~~l~Vky~~~~t~~~IIR~~r~~~~~ 81 (154)
+|.++|||+|+++++++ ++..++.++||+++.++|||+|.|.+ +++.+ +|++.|++|||||.|++++.
T Consensus 12 lr~~kRYiaf~vise~~----------i~~~~l~~~I~~s~l~llG~~gta~~-~~~lv-~~~~~t~~GIvrc~R~~~~~ 79 (124)
T COG1369 12 LRPRKRYIAFEVISEEE----------ITRGELVRLIRRSLLSLLGDVGTAKA-NPRLV-KYYFSTGTGIVRCRREYVDL 79 (124)
T ss_pred cCccceEEEEEEecccc----------CChhHHHHHHHHHHHHHcCccccccc-ceeEE-EEeccCCceEEEEechhHHH
Confidence 68999999999998844 46789999999999999999999985 44444 44666999999999999999
Q ss_pred HHHHHHhhhhhCCeeEEEEEEeeechHHHHHHHHHcchH
Q 031717 82 VWSAMTMVRSIGNCLVLFNVLDLSGSIRACKNAALKCEE 120 (154)
Q Consensus 82 v~aaL~li~~i~~~~~~~~Vl~VSGTIr~~~k~~l~~~~ 120 (154)
+++||+++++++|.|+.++|++||||||+|+++++..+.
T Consensus 80 v~aAL~l~~~~~g~rv~I~~lgvSGTIKka~~~~l~~~~ 118 (124)
T COG1369 80 VRAALMLAREVNGKRVIIVVLGVSGTIKKAKRKFLRRNK 118 (124)
T ss_pred HHHHHHHHHHhCCceEEEEEeeccccHHHHHHHHhccCC
Confidence 999999999999999999999999999999999987643
No 5
>PF08777 RRM_3: RNA binding motif; InterPro: IPR014886 This domain is found in protein La which functions as an RNA chaperone during RNA polymerase III transcription, and can also stimulate translation initiation. It contains a five stranded beta sheet which forms an atypical RNA recognition motif []. ; PDB: 1OWX_A.
Probab=64.90 E-value=39 Score=23.81 Aligned_cols=58 Identities=19% Similarity=0.137 Sum_probs=31.9
Q ss_pred HHHHHhhcCccccccccCceeEEEEcCCCceEEEEeCCC-chHHHHHHHHhh----hhhCCeeEEEEEE
Q 031717 39 RDSILVNFGECGLASSLGSFQVKYVNPITKLCIIRASRE-DCQKVWSAMTMV----RSIGNCLVLFNVL 102 (154)
Q Consensus 39 ~~sv~~lfGd~G~~~~~~~l~Vky~~~~t~~~IIR~~r~-~~~~v~aaL~li----~~i~~~~~~~~Vl 102 (154)
++.+...|.++|. ..-+-|......|.||+.-+ ..+.++.++... -.+++.++.+++|
T Consensus 15 re~iK~~f~~~g~------V~yVD~~~G~~~g~VRf~~~~~A~~a~~~~~~~~~~~~~i~~~~~~~~vL 77 (105)
T PF08777_consen 15 REDIKEAFSQFGE------VAYVDFSRGDTEGYVRFKTPEAAQKALEKLKEANDGKLKIKGKEVTLEVL 77 (105)
T ss_dssp HHHHHHHT-SS--------EEEEE--TT-SEEEEEESS---HHHHHHHHHHTTTS-B-TTSSSEEEE--
T ss_pred HHHHHHHHHhcCC------cceEEecCCCCEEEEEECCcchHHHHHHHHHhccCCceEEcCceEEEEEC
Confidence 5566666777661 22334466778999999986 566777777665 3345666766665
No 6
>PF00564 PB1: PB1 domain; InterPro: IPR000270 The Phox and Bem1p domain, is present in many eukaryotic cytoplasmic signalling proteins. The domain adopts a beta-grasp fold, similar to that found in ubiquitin and Ras-binding domains. A motif, variously termed OPR, PC and AID, represents the most conserved region of the majority of PB1 domains, and is necessary for PB1 domain function. This function is the formation of PB1 domain heterodimers, although not all PB1 domain pairs associate.; GO: 0005515 protein binding; PDB: 1IPG_A 1IP9_A 2KFK_A 1WMH_A 1VD2_A 1WI0_A 1OEY_C 1PQS_A 1Q1O_A 1TZ1_A ....
Probab=55.87 E-value=54 Score=21.24 Aligned_cols=60 Identities=22% Similarity=0.264 Sum_probs=41.6
Q ss_pred HHHHHHHHHHhhcCccccccccCceeEEEEcCCCceEEEEeCCCchHHHHHHHHhhhhhCCeeEEEEEE
Q 031717 34 VSKAIRDSILVNFGECGLASSLGSFQVKYVNPITKLCIIRASREDCQKVWSAMTMVRSIGNCLVLFNVL 102 (154)
Q Consensus 34 l~~~I~~sv~~lfGd~G~~~~~~~l~Vky~~~~t~~~IIR~~r~~~~~v~aaL~li~~i~~~~~~~~Vl 102 (154)
-...+++.+...||.. ...+.++|-|.+.-..-|... +.+.-|+......++.+..+.|.
T Consensus 23 s~~~L~~~i~~~~~~~-----~~~~~l~Y~D~dgD~V~i~sd----~Dl~~a~~~~~~~~~~~lrl~v~ 82 (84)
T PF00564_consen 23 SFDDLRSKIREKFGLL-----DEDFQLKYKDEDGDLVTISSD----EDLQEAIEQAKESGSKTLRLFVQ 82 (84)
T ss_dssp HHHHHHHHHHHHHTTS-----TSSEEEEEEETTSSEEEESSH----HHHHHHHHHHHHCTTSCEEEEEE
T ss_pred CHHHHHHHHHHHhCCC-----CccEEEEeeCCCCCEEEeCCH----HHHHHHHHHHHhcCCCcEEEEEE
Confidence 3567777777778876 246899999987765555444 56666777777666666666653
No 7
>PF15188 CCDC-167: Coiled-coil domain-containing protein 167
Probab=50.31 E-value=48 Score=22.89 Aligned_cols=47 Identities=15% Similarity=0.217 Sum_probs=30.2
Q ss_pred eechHHHHHHHHHcchHHHHHHHHHHH-ccCCCHHHHHHHHHHHHHhhh
Q 031717 104 LSGSIRACKNAALKCEEVKFEHYKLAV-GARLSADVTQHMENCLEKIKI 151 (154)
Q Consensus 104 VSGTIr~~~k~~l~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~ 151 (154)
|..-|...++++.. .+..++...... +..+|++.|+.+++....++.
T Consensus 3 V~~eId~lEekl~~-cr~~le~ve~rL~~~eLs~e~R~~lE~E~~~l~~ 50 (85)
T PF15188_consen 3 VAKEIDGLEEKLAQ-CRRRLEAVESRLRRRELSPEARRSLEKELNELKE 50 (85)
T ss_pred HHHHHhhHHHHHHH-HHHHHHHHHHHHcccCCChHHHHHHHHHHHHHHH
Confidence 34445555555544 344455554434 777999999999988877653
No 8
>PF01133 ER: Enhancer of rudimentary; InterPro: IPR000781 The Drosophila protein 'enhancer of rudimentary' (gene (e(r)) is a small protein of 104 residues whose function is not yet clear. From an evolutionary point of view, it is highly conserved [] and has been found to exist in probably all multicellular eukaryotic organisms. It has been proposed that this protein plays a role in the cell cycle.; GO: 0007049 cell cycle; PDB: 1W9G_A 2NML_A 1WWQ_A 1WZ7_B.
Probab=41.42 E-value=42 Score=24.00 Aligned_cols=45 Identities=11% Similarity=0.124 Sum_probs=32.6
Q ss_pred chHHHHHHHHHcchHHHHHHHHHHHccCCCHHHHHHHHHHHHHhhhc
Q 031717 106 GSIRACKNAALKCEEVKFEHYKLAVGARLSADVTQHMENCLEKIKIL 152 (154)
Q Consensus 106 GTIr~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 152 (154)
.|+..|.+.+-+..++.|.++. +......=+..++.+++|.+.||
T Consensus 23 eSv~~cmegIC~~YE~~LK~~n--P~~~~ItYdIs~Lf~fID~l~Dl 67 (102)
T PF01133_consen 23 ESVNECMEGICKIYEEHLKRKN--PNSPSITYDISDLFDFIDSLADL 67 (102)
T ss_dssp SSHHHHHHHHHHHHHHHHHHHS--TT-SS----HHHHHHHHHHSSEE
T ss_pred hhHHHHHHHHHHHHHHHHHHcC--CCCCcccccHHHHHHHHhhhhhc
Confidence 4799999999999999888773 33444445667899999998876
No 9
>PLN00203 glutamyl-tRNA reductase
Probab=37.54 E-value=64 Score=29.26 Aligned_cols=68 Identities=18% Similarity=0.204 Sum_probs=47.2
Q ss_pred HHHHHHhhhhh-CCeeEEEEEEeeechHHHHHHHHHcchHHHHHHHHHHHccCCCHHHHHHHHHHHHHh
Q 031717 82 VWSAMTMVRSI-GNCLVLFNVLDLSGSIRACKNAALKCEEVKFEHYKLAVGARLSADVTQHMENCLEKI 149 (154)
Q Consensus 82 v~aaL~li~~i-~~~~~~~~Vl~VSGTIr~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 149 (154)
+..|-..|.+- ....--+..+.+.++|++.++++.......++++...++...++++++.+++.+..|
T Consensus 407 ~~~Ae~II~ee~~~F~~w~~~~~~~p~I~~lr~~~~~i~~~Eler~~~kl~~~~~~~~~~~ie~~~~~i 475 (519)
T PLN00203 407 AMEAQTIIREESKNFEAWRDSLETVPTIKKLRSYAERIRAAELEKCLSKMGDDLTKKQRKAVEDLSRGI 475 (519)
T ss_pred HHHHHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHHHHHhccccCChhHHHHHHHHHHHH
Confidence 33344444433 233345677889999999999999999999999965554346888888766555443
No 10
>PRK09458 pspB phage shock protein B; Provisional
Probab=31.67 E-value=66 Score=21.76 Aligned_cols=11 Identities=45% Similarity=0.453 Sum_probs=7.7
Q ss_pred HHHHHhhhccC
Q 031717 144 NCLEKIKILEH 154 (154)
Q Consensus 144 ~~~~~~~~~~~ 154 (154)
+.|++|+|-||
T Consensus 59 ~tLE~ILDae~ 69 (75)
T PRK09458 59 QALEAILDAEH 69 (75)
T ss_pred HHHHHHHcccC
Confidence 45677787776
No 11
>PF07586 HXXSHH: Protein of unknown function (DUF1552); InterPro: IPR011447 This is a family of proteins identified in Rhodopirellula baltica.
Probab=28.04 E-value=64 Score=26.67 Aligned_cols=38 Identities=21% Similarity=0.345 Sum_probs=26.8
Q ss_pred HHHHHcchHHHHHHHHHHHccCCCHHHHHHHHHHHHHhhhcc
Q 031717 112 KNAALKCEEVKFEHYKLAVGARLSADVTQHMENCLEKIKILE 153 (154)
Q Consensus 112 ~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 153 (154)
++.+|....+.+..| ...++..+|+.++++++-|-++|
T Consensus 160 r~SvLD~v~~d~~~L----~~~Lg~~Dr~kLd~yl~sireiE 197 (302)
T PF07586_consen 160 RKSVLDLVREDAKSL----RRRLGAEDRQKLDQYLDSIREIE 197 (302)
T ss_pred cccHHHHHHHHHHHH----HhhcCHHHHHHHHHHHHHHHHHH
Confidence 334444444443333 56688999999999999999888
No 12
>TIGR03706 exo_poly_only exopolyphosphatase. It appears that a single enzyme may act as both exopolyphosphatase (Ppx) and guanosine pentaphosphate phosphohydrolase (GppA) in a number of species. Members of the seed alignment use to define this exception-level model are encoded adjacent to a polyphosphate kinase 1 gene, and the trusted cutoff is set high enough (425) that no genome has a second hit. Therefore all members may be presumed to at least share exopolyphospatase activity, and may lack GppA activity. GppA acts in the stringent response.
Probab=27.95 E-value=79 Score=26.08 Aligned_cols=19 Identities=16% Similarity=0.160 Sum_probs=15.0
Q ss_pred EEEeeechHHHHHHHHHcc
Q 031717 100 NVLDLSGSIRACKNAALKC 118 (154)
Q Consensus 100 ~Vl~VSGTIr~~~k~~l~~ 118 (154)
+++.+|||++..-+-....
T Consensus 199 ~lig~gGt~~~la~~~~~~ 217 (300)
T TIGR03706 199 PLYGVGGTWRALARIHQAQ 217 (300)
T ss_pred EEEEehHHHHHHHHHHHhc
Confidence 6899999999888766543
No 13
>cd02410 archeal_CPSF_KH The archaeal cleavage and polyadenylation specificity factor (CPSF) contains an N-terminal K homology RNA-binding domain (KH). The archeal CPSFs are predicted to be metal-dependent RNases belonging to the beta-CASP family, a subgroup enzymes within the metallo-beta-lactamase fold. The KH motif is a beta-alpha-alpha-beta-beta unit that folds into an alpha-beta structure with a three stranded beta-sheet interupted by two contiguous helices. In general, KH domains are known to bind single-stranded RNA or DNA and are found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA.
Probab=27.82 E-value=1.2e+02 Score=23.01 Aligned_cols=68 Identities=15% Similarity=0.098 Sum_probs=39.5
Q ss_pred eEEEEcCCCceEEEEeCCCchHHHHH--HHHhh-hhhCCeeEEEEEEee-echHHHHHHHHHcchHHHHHHH
Q 031717 59 QVKYVNPITKLCIIRASREDCQKVWS--AMTMV-RSIGNCLVLFNVLDL-SGSIRACKNAALKCEEVKFEHY 126 (154)
Q Consensus 59 ~Vky~~~~t~~~IIR~~r~~~~~v~a--aL~li-~~i~~~~~~~~Vl~V-SGTIr~~~k~~l~~~~~~~~~~ 126 (154)
.=.|||+.||..+|...+.....-.. .+--| .+.+=.|...+.-=+ |.||...+..+.+...+.-+.|
T Consensus 69 ~di~Fd~~tGEV~IeaeKPG~ViGk~g~~~reI~~~tgW~p~vvRtpPi~S~ti~~ir~~l~~~~~eR~~~L 140 (145)
T cd02410 69 TDIYFDDDTGEVIIEAEKPGLVIGKGGSTLREITRETGWAPKVVRTPPIQSRTVKSIRRFLRREREERKEIL 140 (145)
T ss_pred eeeEecCCCcEEEEEEcCCeEEEecCchhHHHHHHHhCCeeEEEecCCCCcHHHHHHHHHHHHhHHHHHHHH
Confidence 34588999999999998765432111 11111 223334444433322 7788888877776655555544
No 14
>cd06407 PB1_NLP A PB1 domain is present in NIN like proteins (NLP), a key enzyme in a process of establishment of symbiosis betweeen legumes and nitrogen fixing bacteria (Rhizobium). The PB1 domain is a modular domain mediating specific protein-protein interaction which play a role in many critical cell processes like osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-inte
Probab=26.91 E-value=2e+02 Score=19.30 Aligned_cols=58 Identities=16% Similarity=0.323 Sum_probs=35.7
Q ss_pred HHHHHHHHhhcCccccccccCceeEEEEcCCCceEEEEeCCCchHHHHHHHHhhhhhCCeeEEEEE
Q 031717 36 KAIRDSILVNFGECGLASSLGSFQVKYVNPITKLCIIRASREDCQKVWSAMTMVRSIGNCLVLFNV 101 (154)
Q Consensus 36 ~~I~~sv~~lfGd~G~~~~~~~l~Vky~~~~t~~~IIR~~r~~~~~v~aaL~li~~i~~~~~~~~V 101 (154)
..+++.+...|+.-. .+.+.++|.|+..-.+.|.|..+ +.-|+.+...-+...+.+-|
T Consensus 23 ~~L~~~i~~r~~~~~----~~~f~LkY~Ddegd~v~ltsd~D----L~eai~i~~~~~~~~v~l~v 80 (82)
T cd06407 23 TELKQEIAKRFKLDD----MSAFDLKYLDDDEEWVLLTCDAD----LEECIDVYRSSGSHTIRLLV 80 (82)
T ss_pred HHHHHHHHHHhCCCC----CCeeEEEEECCCCCeEEeecHHH----HHHHHHHHHHCCCCeEEEEe
Confidence 444445555555321 14689999999988888888854 44455555554555555544
No 15
>PF00745 GlutR_dimer: Glutamyl-tRNAGlu reductase, dimerisation domain; InterPro: IPR015896 Tetrapyrroles are large macrocyclic compounds derived from a common biosynthetic pathway []. The end-product, uroporphyrinogen III, is used to synthesise a number of important molecules, including vitamin B12, haem, sirohaem, chlorophyll, coenzyme F430 and phytochromobilin []. The first stage in tetrapyrrole synthesis is the synthesis of 5-aminoaevulinic acid ALA via two possible routes: (1) condensation of succinyl CoA and glycine (C4 pathway) using ALA synthase (2.3.1.37 from EC), or (2) decarboxylation of glutamate (C5 pathway) via three different enzymes, glutamyl-tRNA synthetase (6.1.1.17 from EC) to charge a tRNA with glutamate, glutamyl-tRNA reductase (1.2.1.70 from EC) to reduce glutamyl-tRNA to glutamate-1-semialdehyde (GSA), and GSA aminotransferase (5.4.3.8 from EC) to catalyse a transamination reaction to produce ALA. The second stage is to convert ALA to uroporphyrinogen III, the first macrocyclic tetrapyrrolic structure in the pathway. This is achieved by the action of three enzymes in one common pathway: porphobilinogen (PBG) synthase (or ALA dehydratase, 4.2.1.24 from EC) to condense two ALA molecules to generate porphobilinogen; hydroxymethylbilane synthase (or PBG deaminase, 2.5.1.61 from EC) to polymerise four PBG molecules into preuroporphyrinogen (tetrapyrrole structure); and uroporphyrinogen III synthase (4.2.1.75 from EC) to link two pyrrole units together (rings A and D) to yield uroporphyrinogen III. Uroporphyrinogen III is the first branch point of the pathway. To synthesise cobalamin (vitamin B12), sirohaem, and coenzyme F430, uroporphyrinogen III needs to be converted into precorrin-2 by the action of uroporphyrinogen III methyltransferase (2.1.1.107 from EC). To synthesise haem and chlorophyll, uroporphyrinogen III needs to be decarboxylated into coproporphyrinogen III by the action of uroporphyrinogen III decarboxylase (4.1.1.37 from EC) []. This entry represents the helical dimerisation domain of glutamyl-tRNA reductase (1.2.1.70 from EC) []. This enzyme reduces glutamyl-tRNA to glutamate-1-semialdehyde during the first stage of tetrapyrrole biosynthesis by the C5 pathway [, ]. The enzyme requires NADPH as a cofactor.; GO: 0008883 glutamyl-tRNA reductase activity, 0050661 NADP binding, 0033014 tetrapyrrole biosynthetic process, 0055114 oxidation-reduction process; PDB: 1GPJ_A.
Probab=26.81 E-value=42 Score=22.66 Aligned_cols=43 Identities=16% Similarity=0.174 Sum_probs=24.3
Q ss_pred EeeechHHHHHHHHHcchHHHHHHHHHHHccCCCHHHHHHHHHHH
Q 031717 102 LDLSGSIRACKNAALKCEEVKFEHYKLAVGARLSADVTQHMENCL 146 (154)
Q Consensus 102 l~VSGTIr~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 146 (154)
+.+.++|+..+..+-......++++.+..+ .++++++.++..+
T Consensus 21 ~~~~p~I~~l~~~~e~i~~~el~~~~~~l~--~~~~~~~~i~~~~ 63 (101)
T PF00745_consen 21 RKVDPVIKALREKAEEIRDEELERALKKLD--LDEDDEEVIEKLT 63 (101)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHS-S------------TTHH
T ss_pred cchHHHHHHHHHHHHHHHHHHHHHHHhhcc--CCccHHHHHHHHH
Confidence 356788999999999998888888865422 6666665554443
No 16
>cd06396 PB1_NBR1 The PB1 domain is an essential part of NBR1 protein, next to BRCA1, a scaffold protein mediating specific protein-protein interaction with both titin protein kinase and with another scaffold protein p62. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. The NBR1 protein contains a type I PB1 domain.
Probab=26.69 E-value=2.1e+02 Score=19.46 Aligned_cols=55 Identities=24% Similarity=0.283 Sum_probs=36.3
Q ss_pred HHHHHHHHhhcCccccccccCceeEEEEcCCCceEEEEeCCCchHHHHHHHHhhhhhCCeeEEEEEE
Q 031717 36 KAIRDSILVNFGECGLASSLGSFQVKYVNPITKLCIIRASREDCQKVWSAMTMVRSIGNCLVLFNVL 102 (154)
Q Consensus 36 ~~I~~sv~~lfGd~G~~~~~~~l~Vky~~~~t~~~IIR~~r~~~~~v~aaL~li~~i~~~~~~~~Vl 102 (154)
..+.+-+...||-- .+++||.|.+.--+.|-|..+..+-++.+ . =+|.-..+.|+
T Consensus 25 ~~L~~ev~~rf~l~-------~f~lKYlDde~e~v~lssd~eLeE~~rl~----~-~~~~~l~~~v~ 79 (81)
T cd06396 25 ASVEAMVKVSFGLN-------DIQIKYVDEENEEVSVNSQGEYEEALKSA----V-RQGNLLQMNVY 79 (81)
T ss_pred HHHHHHHHHHhCCC-------cceeEEEcCCCCEEEEEchhhHHHHHHHH----H-hCCCEEEEEEe
Confidence 44444555555643 58999999999999999987777766643 2 23444555543
No 17
>PF11502 BCL9: B-cell lymphoma 9 protein; InterPro: IPR024670 The Wnt pathway plays a role in embryonic development, stem cell growth and tumorigenesis. B-cell lymphoma 9 (BCL9) associates with beta-catenin and Tcf in the nucleus when the Wnt pathway is stimulated leading to the transactivation of Wnt target genes []. This entry represents a beta-catenin binding domain found in BCL9 and BCL9 homologues.; PDB: 3SL9_F 2GL7_C.
Probab=26.57 E-value=64 Score=19.20 Aligned_cols=20 Identities=25% Similarity=0.428 Sum_probs=14.9
Q ss_pred CCHHHHHHHHHHHHHhhhcc
Q 031717 134 LSADVTQHMENCLEKIKILE 153 (154)
Q Consensus 134 ~~~~~~~~~~~~~~~~~~~~ 153 (154)
+|++++++=+.-|-+|.+++
T Consensus 2 LtpeQ~qHRE~qL~tlr~mq 21 (40)
T PF11502_consen 2 LTPEQRQHRERQLATLRDMQ 21 (40)
T ss_dssp --HHHHHHHHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHHHHH
Confidence 68888888888888888764
No 18
>KOG3239 consensus Density-regulated protein related to translation initiation factor 1 (eIF-1/SUI1) [General function prediction only]
Probab=25.88 E-value=50 Score=26.03 Aligned_cols=22 Identities=18% Similarity=0.341 Sum_probs=20.9
Q ss_pred echHHHHHHHHHcchHHHHHHH
Q 031717 105 SGSIRACKNAALKCEEVKFEHY 126 (154)
Q Consensus 105 SGTIr~~~k~~l~~~~~~~~~~ 126 (154)
||++++|+.|+..++.+..++|
T Consensus 28 ~~~~~kCk~WL~~n~pdly~kL 49 (193)
T KOG3239|consen 28 SGDLKKCKEWLEENHPDLYAKL 49 (193)
T ss_pred cccHHHHHHHHHhcChhHHHhh
Confidence 7999999999999999999988
No 19
>PF06102 DUF947: Domain of unknown function (DUF947); InterPro: IPR009292 This is a family of eukaryotic proteins with unknown function.
Probab=25.54 E-value=1.5e+02 Score=22.80 Aligned_cols=39 Identities=8% Similarity=0.113 Sum_probs=30.9
Q ss_pred HHHHcchHHHHHHHHHHHccCCCHHHHHHHHHHHHHhhh
Q 031717 113 NAALKCEEVKFEHYKLAVGARLSADVTQHMENCLEKIKI 151 (154)
Q Consensus 113 k~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 151 (154)
.|+=.+..+.+++|+.++-...+++++++++..|..|..
T Consensus 55 ~FL~d~r~~E~~~Lk~~lk~~k~~~~~e~lk~~L~~~~~ 93 (168)
T PF06102_consen 55 GFLDDYREKEIKELKKQLKKTKDPEEREELKRELQRMES 93 (168)
T ss_pred hhHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHH
Confidence 455556677888888888888899999999998887753
No 20
>PF10057 DUF2294: Uncharacterized conserved protein (DUF2294); InterPro: IPR018745 This domain of unknown function is found in a family of hypothetical bacterial proteins with no known function. It is also found at the C terminus of proteins provisionally annotated as response regulators.
Probab=25.53 E-value=1.4e+02 Score=21.27 Aligned_cols=48 Identities=10% Similarity=0.149 Sum_probs=34.3
Q ss_pred EEEeeechHHHHHHHHHcc--hHHHHHHHHHHHccCCCHHHHHHHHHHHHHhhh
Q 031717 100 NVLDLSGSIRACKNAALKC--EEVKFEHYKLAVGARLSADVTQHMENCLEKIKI 151 (154)
Q Consensus 100 ~Vl~VSGTIr~~~k~~l~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 151 (154)
-++...|.+-.+++.+++. ..+.+.++|...-+... +++++.+++++.
T Consensus 40 iiv~l~g~LTp~Ek~L~~~~~g~~lv~~~R~~l~~~~~----~~l~~~ie~i~g 89 (118)
T PF10057_consen 40 IIVRLEGFLTPAEKFLAETEEGRELVKQVRTSLIESLK----PELKEMIEEILG 89 (118)
T ss_pred EEEEEECCCCHHHHHHHhCcchHHHHHHHHHHHHHHHH----HHHHHHHHHHhC
Confidence 4677889999999999998 67788888877655553 344455555543
No 21
>PF13490 zf-HC2: Putative zinc-finger; PDB: 2Z2S_F 2Q1Z_B 3HUG_T.
Probab=24.99 E-value=1.3e+02 Score=16.39 Aligned_cols=18 Identities=22% Similarity=0.355 Sum_probs=14.0
Q ss_pred HccCCCHHHHHHHHHHHH
Q 031717 130 VGARLSADVTQHMENCLE 147 (154)
Q Consensus 130 ~~~~~~~~~~~~~~~~~~ 147 (154)
+...+++.++.+++++|.
T Consensus 12 ~dg~L~~~~~~~~~~HL~ 29 (36)
T PF13490_consen 12 LDGELSPEERARLEAHLA 29 (36)
T ss_dssp HCT-S-HHHHHHHHHHHC
T ss_pred HcCCCCHHHHHHHHHHHH
Confidence 677799999999999985
No 22
>cd07355 HN_L-delphilin-R2_like Second harmonin_N_like domain (repeat 2) of L-delphilin, and related domains. This subgroup contains the second of two harmonin_N_like domains of an alternatively spliced longer variant of mouse delphilin (L-delphilin), and related domains. Delphilin is a postsynaptic density-95/discs-large/ZO-1 (PDZ) domain-containing scaffold protein which binds the glutamate receptor delta-2 (GRID2) subunit and the monocarboxylate transporter 2 at the cerebellar parallel fiber-Purkinje cell synapses. This harmonin_N_like domain in L-delphilin follows the second PDZ protein-binding domain, PDZ2; it is also found in the shorter C-terminal isoforms (S-delphilin/delphilin alpha and delphilin beta). It is a putative protein-binding module based on its sequence similarity to the harmonin N-domain. The first harmonin_N_like domain of L-delphilin belongs to a different subgroup and is missing from S-delphilin.
Probab=24.60 E-value=1e+02 Score=21.07 Aligned_cols=17 Identities=18% Similarity=0.178 Sum_probs=15.2
Q ss_pred CCHHHHHHHHHHHHHhh
Q 031717 134 LSADVTQHMENCLEKIK 150 (154)
Q Consensus 134 ~~~~~~~~~~~~~~~~~ 150 (154)
+|+.||+.+.++|++..
T Consensus 16 Lt~~ER~~i~qaL~~y~ 32 (80)
T cd07355 16 LTPPERYGIKKALEDYF 32 (80)
T ss_pred CCHHHHHHHHHHHHHHH
Confidence 99999999999998753
No 23
>PRK00034 gatC aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed
Probab=22.73 E-value=2e+02 Score=19.30 Aligned_cols=32 Identities=19% Similarity=0.163 Sum_probs=22.9
Q ss_pred HHHHHHHHHHHccCCCHHHHHHHHHHHHHhhh
Q 031717 120 EVKFEHYKLAVGARLSADVTQHMENCLEKIKI 151 (154)
Q Consensus 120 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 151 (154)
.+.+.++-....-.++++|.+.+.+.+.+|+.
T Consensus 5 ~e~i~~la~La~l~l~~ee~~~~~~~l~~il~ 36 (95)
T PRK00034 5 REEVKHLAKLARLELSEEELEKFAGQLNKILD 36 (95)
T ss_pred HHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHH
Confidence 34444444446777999999998888888875
No 24
>PF11429 Colicin_D: Colicin D; InterPro: IPR024440 Colicin D is a bacteriocin that kills target cells by cleaving tRNA(Arg). This entry represents a domain found in the C terminus of colicin D, which is responsible for its catalytic activity []. The domain is also found in some S-type pyocins, which are also bacteriocins.; GO: 0004540 ribonuclease activity; PDB: 1TFO_A 1V74_A 1TFK_A.
Probab=22.17 E-value=1.1e+02 Score=21.52 Aligned_cols=40 Identities=25% Similarity=0.323 Sum_probs=21.2
Q ss_pred HHHHHHHHHH----HhhcCccccccccCceeEEEEcCCCceEEEEeCC
Q 031717 33 NVSKAIRDSI----LVNFGECGLASSLGSFQVKYVNPITKLCIIRASR 76 (154)
Q Consensus 33 ~l~~~I~~sv----~~lfGd~G~~~~~~~l~Vky~~~~t~~~IIR~~r 76 (154)
.+.++|.+-+ ...-|.++... + ...||||.|+.++|.-.-
T Consensus 26 ~F~~aI~~hi~~~~tv~~GtYr~~~--~--skV~~N~~T~~~Vi~d~~ 69 (92)
T PF11429_consen 26 EFEDAIKEHIKNPDTVEKGTYRRVK--D--SKVYFNPKTNNVVIIDKD 69 (92)
T ss_dssp HHHHHHHHHHH-TT-EE--BETTST--T---EEEEETTTTEEEEE-TT
T ss_pred HHHHHHHHHhCCCCeEeccceecCC--C--cEEEEeCCCCeEEEEcCC
Confidence 4444444443 33566666432 1 345889999999886543
No 25
>PF14061 Mtf2_C: Polycomb-like MTF2 factor 2
Probab=21.73 E-value=1e+02 Score=19.24 Aligned_cols=26 Identities=23% Similarity=0.364 Sum_probs=19.1
Q ss_pred HHHHHHHHhhcCccccccccCceeEE
Q 031717 36 KAIRDSILVNFGECGLASSLGSFQVK 61 (154)
Q Consensus 36 ~~I~~sv~~lfGd~G~~~~~~~l~Vk 61 (154)
..+++++..+||-.|--.+...+.|.
T Consensus 4 ~~Lkssi~~YFGaa~Ri~~GE~~~Vl 29 (50)
T PF14061_consen 4 SDLKSSINSYFGAAGRIACGEKYRVL 29 (50)
T ss_pred HHhhhhhhhhcccccccccCCeeEEE
Confidence 46789999999998766655555543
No 26
>PF03958 Secretin_N: Bacterial type II/III secretion system short domain; InterPro: IPR005644 This is a group of NolW-like proteins, which are closely related to bacterial type II and III secretion system protein (IPR004846 from INTERPRO).; PDB: 3EZJ_C 2Y3M_A 3OSS_D.
Probab=21.44 E-value=2.1e+02 Score=18.18 Aligned_cols=33 Identities=18% Similarity=0.259 Sum_probs=24.5
Q ss_pred ceeEEEEcCCCceEEEEeCCCchHHHHHHHHhhh
Q 031717 57 SFQVKYVNPITKLCIIRASREDCQKVWSAMTMVR 90 (154)
Q Consensus 57 ~l~Vky~~~~t~~~IIR~~r~~~~~v~aaL~li~ 90 (154)
...|. .|+.|+.-|++-..+..+.+...+..+.
T Consensus 45 ~~~i~-~d~~tNsliv~g~~~~~~~i~~li~~LD 77 (82)
T PF03958_consen 45 SGRIV-ADERTNSLIVRGTPEDLEQIRELIKQLD 77 (82)
T ss_dssp TTEEE-EECTTTEEEEEEEHHHHHHHHHHHHHHH
T ss_pred CeEEE-EECCCCEEEEEeCHHHHHHHHHHHHHHC
Confidence 34454 4899999999998888888777665543
No 27
>PF06067 DUF932: Domain of unknown function (DUF932); InterPro: IPR017686 Members of this uncharacterised protein are found in various Mycobacterium phage genomes, in Streptomyces coelicolor Plasmid SCP1 and in bacterial genomes near various markers that suggest lateral gene transfer. The function of this protein is unknown.
Probab=21.25 E-value=2.2e+02 Score=22.58 Aligned_cols=52 Identities=8% Similarity=-0.032 Sum_probs=34.4
Q ss_pred EEEEEEeeechHH---HHHHHHH---cchHHHHHHHHHHHccCCCHHHHHHHHHHHHHhhh
Q 031717 97 VLFNVLDLSGSIR---ACKNAAL---KCEEVKFEHYKLAVGARLSADVTQHMENCLEKIKI 151 (154)
Q Consensus 97 ~~~~Vl~VSGTIr---~~~k~~l---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 151 (154)
-.+++-|.+++.. .+.+.+. ++.....+++..|....++++|.+ +.++.++.
T Consensus 102 ~~~~irHtg~~~~~v~ea~~~l~l~~~~~~~~~~~~~~l~~~~l~~~~~~---~~~~~~~~ 159 (239)
T PF06067_consen 102 ASVRIRHTGNAVERVIEARYALGLARQYFDEFEEKAEALAQIELTDDEFE---AFADAALP 159 (239)
T ss_pred ceEEEEeeccccccHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHH---HHHHHHhc
Confidence 4789999776644 4445555 566666667777788899997766 44444443
No 28
>TIGR00607 rad52 recombination protein rad52. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=21.02 E-value=3.6e+02 Score=20.84 Aligned_cols=102 Identities=18% Similarity=0.149 Sum_probs=53.6
Q ss_pred HHHHHHhhcCccccccccCceeEEEEcCCC------ceEEEEeCCCchHHHHHHHHhhhhhCCeeEEEEEEeeechHHHH
Q 031717 38 IRDSILVNFGECGLASSLGSFQVKYVNPIT------KLCIIRASREDCQKVWSAMTMVRSIGNCLVLFNVLDLSGSIRAC 111 (154)
Q Consensus 38 I~~sv~~lfGd~G~~~~~~~l~Vky~~~~t------~~~IIR~~r~~~~~v~aaL~li~~i~~~~~~~~Vl~VSGTIr~~ 111 (154)
+.+-..+.||--|++...-++.+-|.++.. -.+|+|+.-..- ..++=-|.-..-..-.-+-.+.+|
T Consensus 34 ~i~lANeiFGFnGWSs~I~~~~vd~~de~~~k~~vg~saiVRVtLkDG--------t~~EdiG~G~~~n~~~K~~A~ekA 105 (161)
T TIGR00607 34 VINLANEIFGYNGWSHSITQQNVDFVDENNGKFSVGVCAIVRVTLKDG--------SYHEDVGYGVSENLRSKALAFEKA 105 (161)
T ss_pred HHHHHHHhcCCCCceeeeeecccceecccCCcEEEEEEEEEEEEEcCC--------cEeecccceeeecCCcHHHHHHHH
Confidence 445567899999999765566676666544 234455432110 000001111111111223345566
Q ss_pred HHHHHcc-hHHHHHHHHHHHccCCCHHHHHHHHHHHHHhh
Q 031717 112 KNAALKC-EEVKFEHYKLAVGARLSADVTQHMENCLEKIK 150 (154)
Q Consensus 112 ~k~~l~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 150 (154)
+|.++.- ....+..+-+..|+++-+ |+....+++++
T Consensus 106 KKeAvTDAlKRAlr~FGn~lGN~lyd---k~~~~~~~k~~ 142 (161)
T TIGR00607 106 KKEAVTDALKRALRNFGNALGNCLYD---KDYLRKINKLK 142 (161)
T ss_pred HHHHHHHHHHHHHHHhhhhhcchhcc---HHHHHHHhccc
Confidence 6666543 223444444668888888 66667777665
No 29
>PF08278 DnaG_DnaB_bind: DNA primase DnaG DnaB-binding ; InterPro: IPR013173 Eubacterial DnaG primases interact with several factors to form the replisome. One of these factors is DnaB, a helicase. This domain has been demonstrated to be responsible for the interaction between DnaG and DnaB []. This domain has a multi-helical structure that forms an orthogonal bundle [].; GO: 0003896 DNA primase activity, 0006269 DNA replication, synthesis of RNA primer; PDB: 2HAJ_A 1T3W_B.
Probab=20.79 E-value=2.7e+02 Score=19.51 Aligned_cols=38 Identities=16% Similarity=0.226 Sum_probs=22.5
Q ss_pred eechHHHHHHHHHcchHHHHHHHHHHHc-cCCCHHHHHHHHH
Q 031717 104 LSGSIRACKNAALKCEEVKFEHYKLAVG-ARLSADVTQHMEN 144 (154)
Q Consensus 104 VSGTIr~~~k~~l~~~~~~~~~~~~~~~-~~~~~~~~~~~~~ 144 (154)
..+++.+.++.. ..+.+++|.+... ..+|++||+++..
T Consensus 87 f~d~l~~L~~~~---~~~~i~~L~~k~~~~~Lt~eEk~el~~ 125 (127)
T PF08278_consen 87 FQDALARLQEQA---LERRIEELKAKPRRGGLTDEEKQELRR 125 (127)
T ss_dssp HHHHHHHHHHHH---HHHHHHHHHHHHTTT---HHHHHHHHH
T ss_pred HHHHHHHHHHHH---HHHHHHHHHHhhccCCcCHHHHHHHHH
Confidence 356666666665 3455666665554 5599999997754
No 30
>smart00666 PB1 PB1 domain. Phox and Bem1p domain, present in many eukaryotic cytoplasmic signalling proteins. The domain adopts a beta-grasp fold, similar to that found in ubiquitin and Ras-binding domains. A motif, variously termed OPR, PC and AID, represents the most conserved region of the majority of PB1 domains, and is necessary for PB1 domain function. This function is the formation of PB1 domain heterodimers, although not all PB1 domain pairs associate.
Probab=20.54 E-value=2.4e+02 Score=17.96 Aligned_cols=56 Identities=20% Similarity=0.268 Sum_probs=36.0
Q ss_pred HHHHHHHHHhhcCccccccccCceeEEEEcCCCceEEEEeCCCchHHHHHHHHhhhhhCCeeEEE
Q 031717 35 SKAIRDSILVNFGECGLASSLGSFQVKYVNPITKLCIIRASREDCQKVWSAMTMVRSIGNCLVLF 99 (154)
Q Consensus 35 ~~~I~~sv~~lfGd~G~~~~~~~l~Vky~~~~t~~~IIR~~r~~~~~v~aaL~li~~i~~~~~~~ 99 (154)
...+++.+...||..+ ..+.++|-|++.....|.+ -+.+..|+.+...-++....+
T Consensus 23 ~~dL~~~i~~~~~~~~-----~~~~l~Y~Dedgd~v~l~s----d~Dl~~a~~~~~~~~~~~l~l 78 (81)
T smart00666 23 FEDLRSKVAKRFGLDN-----QSFTLKYQDEDGDLVSLTS----DEDLEEAIEEYDSLGSKKLRL 78 (81)
T ss_pred HHHHHHHHHHHhCCCC-----CCeEEEEECCCCCEEEecC----HHHHHHHHHHHHHcCCceEEE
Confidence 4566666677777543 4579999988766555555 356777777777655444433
No 31
>cd05992 PB1 The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as a noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi, animals, and plants.
Probab=20.48 E-value=2.4e+02 Score=17.85 Aligned_cols=56 Identities=23% Similarity=0.300 Sum_probs=35.1
Q ss_pred HHHHHHHHHhhcCccccccccCceeEEEEcCCCceEEEEeCCCchHHHHHHHHhhhhhCCeeEEE
Q 031717 35 SKAIRDSILVNFGECGLASSLGSFQVKYVNPITKLCIIRASREDCQKVWSAMTMVRSIGNCLVLF 99 (154)
Q Consensus 35 ~~~I~~sv~~lfGd~G~~~~~~~l~Vky~~~~t~~~IIR~~r~~~~~v~aaL~li~~i~~~~~~~ 99 (154)
...+.+.+.+.||... ..+.++|-|+..-...|... +.+..|+......+..++.+
T Consensus 23 ~~~L~~~i~~~~~~~~-----~~~~l~y~D~e~d~v~l~sd----~Dl~~a~~~~~~~~~~~l~l 78 (81)
T cd05992 23 FEDLRSKIAEKFGLDA-----VSFKLKYPDEDGDLVTISSD----EDLEEAIEEARRSGSKKLRL 78 (81)
T ss_pred HHHHHHHHHHHhCCCC-----CcEEEEeeCCCCCEEEeCCH----HHHHHHHHHHhhcCCccEEE
Confidence 4566666666777643 45799999988766555553 45666666665544444443
Done!