Query 014920
Match_columns 416
No_of_seqs 177 out of 297
Neff 4.3
Searched_HMMs 46136
Date Fri Mar 29 01:22:04 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/014920.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/014920hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2808 U5 snRNP-associated RN 100.0 2E-104 3E-109 776.8 23.4 333 1-383 1-341 (341)
2 PF02840 Prp18: Prp18 domain; 100.0 2.7E-69 5.9E-74 482.7 9.7 144 227-370 1-144 (144)
3 smart00500 SFM Splicing Factor 99.4 3.2E-13 6.9E-18 99.8 4.3 36 102-137 1-36 (44)
4 PF08799 PRP4: pre-mRNA proces 99.3 1.9E-12 4.2E-17 88.6 3.5 30 107-136 1-30 (30)
5 PF07304 SRA1: Steroid recepto 97.8 0.00012 2.7E-09 67.0 8.6 75 262-367 67-141 (157)
6 KOG0272 U4/U6 small nuclear ri 97.5 8.1E-05 1.8E-09 77.4 4.3 34 104-137 50-83 (459)
7 KOG0307 Vesicle coat complex C 95.6 0.099 2.1E-06 60.2 11.5 75 260-365 972-1046(1049)
8 PF11172 DUF2959: Protein of u 50.2 22 0.00047 34.6 4.1 53 226-278 89-151 (201)
9 KOG1165 Casein kinase (serine/ 47.2 8.1 0.00018 40.8 0.8 27 321-348 22-54 (449)
10 PF02899 Phage_int_SAM_1: Phag 42.4 29 0.00063 26.8 3.1 31 345-375 14-44 (84)
11 PF04090 RNA_pol_I_TF: RNA pol 39.4 32 0.00069 33.3 3.4 36 286-322 41-83 (199)
12 PF04782 DUF632: Protein of un 29.4 3.8E+02 0.0082 27.7 9.4 81 218-313 159-255 (312)
13 PF10602 RPN7: 26S proteasome 29.2 2.6E+02 0.0057 25.9 7.6 43 269-311 19-62 (177)
14 COG0661 AarF Predicted unusual 29.0 87 0.0019 34.3 5.1 76 279-356 313-388 (517)
15 smart00540 LEM in nuclear memb 27.3 52 0.0011 24.7 2.1 18 101-118 5-22 (44)
16 PF10615 DUF2470: Protein of u 27.1 99 0.0021 25.1 4.0 38 288-327 9-46 (83)
17 smart00070 GLUCA Glucagon like 25.7 24 0.00053 23.9 0.1 23 335-357 4-26 (27)
18 PF12887 SICA_alpha: SICA extr 25.1 94 0.002 29.3 4.0 82 232-317 2-123 (184)
19 PF11207 DUF2989: Protein of u 20.3 2.4E+02 0.0052 27.6 5.7 51 252-304 140-197 (203)
20 smart00189 IL2 Interleukin-2 f 20.2 59 0.0013 30.1 1.5 20 352-371 134-153 (154)
No 1
>KOG2808 consensus U5 snRNP-associated RNA splicing factor [RNA processing and modification]
Probab=100.00 E-value=1.6e-104 Score=776.84 Aligned_cols=333 Identities=47% Similarity=0.767 Sum_probs=276.5
Q ss_pred ChhhHHHHHHHHhhhhhc---cCCcceeehhHHHHHHHHHHHHHHHHHHHHHHhhccCCCCCcccccCCCCcccccCCCc
Q 014920 1 MDLLKQELLRKRQGLAEE---TGGRRVFKRSEIEQKQIQKLREQEKREQEAKLLRQNNSHNSTASSANSNSVSSARTTTA 77 (416)
Q Consensus 1 MD~LKaEI~rKRK~le~~---~~~KKyfkRgdLe~ke~E~~~e~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 77 (416)
||+||+||+||||++++. .++|||||||||+++++|+|.++++. ..+ .....+ + +.+
T Consensus 1 MD~Lk~Ei~rKRk~~e~~~~~~~~kK~fkr~d~e~k~~e~y~q~~~k----~~q--~~~~~~------------~--~~t 60 (341)
T KOG2808|consen 1 MDFLKAEIARKRKLLEGRTSELENKKYFKRGDLEKKREEEYLQKQGK----DEQ--EELEKQ------------K--LET 60 (341)
T ss_pred CchHHHHHHHHHHHhhcchhhhhHHHHHhhhHHHHHHHHHHHHHhcc----ccc--hhhhhc------------c--ccc
Confidence 999999999999999984 68999999999999999999877542 111 111000 0 000
Q ss_pred ccccccccccccccccccccCCCCCCHHHHHHHHHhcCCCccccCCCHHHHHHHHHHHHHccccccC-cccccCccchHH
Q 014920 78 TTASGASATATKTLTNEQNIDNLNLPKQEVIRRLRLLKQPITLFGEDDDARLERLKYVLKAGLFEVD-SDMTEGQTNDFL 156 (416)
Q Consensus 78 ~~~~~~~~~~~~~~~~e~~~~~~~Lp~~Evi~rLR~lgePi~LFGE~~~~R~~RLr~l~~~~~~e~~-~e~~~G~~Ndf~ 156 (416)
+..+ ..+.... ...||+.|||+|||++|+||+||||++.+++.||+++ ++. |++++|++|||+
T Consensus 61 ~~~~----~~~~~~~------~~~l~~sev~~rLre~~~Pi~lfGEtd~~~k~rl~~~------e~~~Pe~~eg~~nd~~ 124 (341)
T KOG2808|consen 61 SRLP----YEEKSLA------IEKLPRSEVIRRLRERGEPIILFGETDKSAKDRLRQK------EILQPEMNEGFRNDFQ 124 (341)
T ss_pred ccCc----cchHHHH------HhhcchHHHHHHHHHcCCCccccCCCCHHHHHHHHHh------ccCCcccccccchhHH
Confidence 0000 0111111 2348999999999999999999999999999999996 445 999999999999
Q ss_pred HHHHHHHHHHhh-hhhhhhhhcccccCCCCCCCCCCCCccccccCCCCCCCchhHHHHhh---hhhhhhhchhHHHHHHH
Q 014920 157 RDIVELRKRQKT-GILSERKRKDREEGGGEDGEGGGGDEELSADGGSSGVDMDKDLKRMK---ANFDELCEEDKILVFFK 232 (416)
Q Consensus 157 ~a~~~~d~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~k---~~~~~l~d~d~I~~~~k 232 (416)
.+|+++++++.. ++.+.......++. + +.... ...+.+++++.+. ..+.++||+|+|..|++
T Consensus 125 ~~i~e~~k~~~~~~~~~~~~s~~q~d~----~-------d~~~~---~E~~~~e~ie~~~~~~a~~~d~kd~diI~tf~k 190 (341)
T KOG2808|consen 125 AAIKEIDKQELQEEMMGDRESTTQDDD----S-------DLKSG---EENDRWEDIETLIAQLATFDDLKDSDIILTFLK 190 (341)
T ss_pred HHHHHHHHHHHHHHhhcCCcccccchh----h-------hhhhh---hhccChhHHHHHHHhhcccCccchHHHHHHHHH
Confidence 999999999987 44332221111110 0 11100 0113455666665 46778999999999999
Q ss_pred HHHHHHHHHhccCcHHHhhchhhhhhHHHHHHHHhhHHHHHHHhhcCCCCHHHHHHHHHHHHHHHhchHHHHHHHHHHhh
Q 014920 233 RLLNEWNQELNEMPEAEKRTAKGKSMVATFKQCARYLNPLFKFCRKKVLPDDIRQALMLMVNCCMKRDYLAAMDHYIRLA 312 (416)
Q Consensus 233 ~lL~eWe~~l~~r~~~~k~s~~gk~~~~~~~Qt~~~L~PLf~~Lr~~~l~~dil~~L~~Iv~~~q~rey~~And~Yl~La 312 (416)
+||.+|...|++++..+++|++|++..++|+||++||+|||.+|+++.||+||+.||+.||+|||+|+|+.|||+||+||
T Consensus 191 ~LL~~W~~~l~~~~~~~kkss~~k~~~a~fkQtk~yL~pLf~~lr~~~Lp~DI~~sLa~Ic~~~~~reyl~AndaYlklA 270 (341)
T KOG2808|consen 191 FLLSEWANELNARELTEKKSSQGKMMLATFKQTKRYLKPLFRLLRRKNLPADIRQSLADICYLCQKREYLKANDAYLKLA 270 (341)
T ss_pred HHHHHHHHHHhhhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hcCCCCccceeeeeeechhhhhhhcccCccccccchHHHHHHHHhHHHHHHHHhhCCCCCCcceeeccCCC
Q 014920 313 IGNAPWPIGVTMVGIHERSAREKIYTNSVAHIMNDETTRKYLQSVKRLMTFCQRRYPTMPSKAVEFNSLAN 383 (416)
Q Consensus 313 IGNa~WPIGVTmVGIHeRs~reKI~~~~vAHVmnDE~tRkyiqsiKRLmTf~Q~~~ptdPSk~Ve~~~~~~ 383 (416)
||||||||||||||||+|+||+||++++|||||||||||||||+|||||||||++|||||||||||++++|
T Consensus 271 IGNAPWPIGVTmVGIH~Rs~reKi~~~~vahvLndEtqRKyiQ~lKRlmT~cq~~~pt~Psk~vEy~~~~~ 341 (341)
T KOG2808|consen 271 IGNAPWPIGVTMVGIHERSGREKIFSNNVAHVLNDETQRKYIQALKRLMTFCQRYFPTDPSKSVEYNSLAN 341 (341)
T ss_pred ccCCCCccceeeeeehhhhhHHHHhcccHHHHhccHHHHHHHHHHHHHHHHHHHhCCCCcchhhhhhhccC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999875
No 2
>PF02840 Prp18: Prp18 domain; InterPro: IPR004098 The splicing factor Prp18 is required for the second step of pre-mRNA splicing. PRP18 appears to be primarily associated with the U5 snRNP. The structure of a large fragment of the Saccharomyces cerevisiae Prp18 is known []. This fragment is fully active in yeast splicing in vitro and includes the sequences of Prp18 that have been evolutionarily conserved. The core structure consists of five alpha-helices that adopt a novel fold. The most highly conserved region of Prp18, a nearly invariant stretch of 19 aa, forms part of a loop between two alpha-helices and may interact with the U5 small nuclear ribonucleoprotein particles [].; GO: 0008380 RNA splicing, 0005681 spliceosomal complex; PDB: 1DVK_A.
Probab=100.00 E-value=2.7e-69 Score=482.66 Aligned_cols=144 Identities=62% Similarity=1.015 Sum_probs=98.2
Q ss_pred HHHHHHHHHHHHHHHhccCcHHHhhchhhhhhHHHHHHHHhhHHHHHHHhhcCCCCHHHHHHHHHHHHHHHhchHHHHHH
Q 014920 227 ILVFFKRLLNEWNQELNEMPEAEKRTAKGKSMVATFKQCARYLNPLFKFCRKKVLPDDIRQALMLMVNCCMKRDYLAAMD 306 (416)
Q Consensus 227 I~~~~k~lL~eWe~~l~~r~~~~k~s~~gk~~~~~~~Qt~~~L~PLf~~Lr~~~l~~dil~~L~~Iv~~~q~rey~~And 306 (416)
|+.||+++|++|+.+|+++|+++|+|++|+.+.++|.||++||+|||++|++++||+||+.+|++||+|||+|+|++|||
T Consensus 1 i~~~~k~lL~eW~~~l~~r~~~~k~s~~gk~~~~~~~qtk~~l~PL~~~Lk~~~l~~dil~~L~~Iv~~~q~r~y~~And 80 (144)
T PF02840_consen 1 IRSYIKFLLKEWEEELNSRPEEEKRSAQGKQASATYKQTKRYLKPLFKKLKKRTLPEDILDSLATIVYHLQQREYVKAND 80 (144)
T ss_dssp -HHHHHHHHHHHHHCCCCS-CC------------CHHHHHHHHHHHHHHHHCT-S-HHHHHHHHHHHHHHCCCGHHHHHH
T ss_pred ChHHHHHHHHHHHHHHHcCChhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHhHHHHHHH
Confidence 67899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhhhcCCCCccceeeeeeechhhhhhhcccCccccccchHHHHHHHHhHHHHHHHHhhCCC
Q 014920 307 HYIRLAIGNAPWPIGVTMVGIHERSAREKIYTNSVAHIMNDETTRKYLQSVKRLMTFCQRRYPT 370 (416)
Q Consensus 307 ~Yl~LaIGNa~WPIGVTmVGIHeRs~reKI~~~~vAHVmnDE~tRkyiqsiKRLmTf~Q~~~pt 370 (416)
+||+||||||||||||||||||+|+|||||++++||||||||+||||||+|||||||||++|||
T Consensus 81 ~Yl~LsIGna~WPIGVt~vGIHeRsareki~~~~vAhimnDE~tRk~iq~iKRLitf~q~~~p~ 144 (144)
T PF02840_consen 81 AYLKLSIGNAAWPIGVTMVGIHERSAREKIFSSNVAHIMNDETTRKYIQSIKRLITFAQRKYPT 144 (144)
T ss_dssp HHHHHHTTB----SS---------------------B----HHHHHHHHHHHHHHHHHHHHHHT
T ss_pred HHHHHHhcCCCCcceeeeechhhhhHHHHHhccchhHHhccHHHHHHHHHHHHHHHHHHHhcCC
Confidence 9999999999999999999999999999999999999999999999999999999999999997
No 3
>smart00500 SFM Splicing Factor Motif, present in Prp18 and Pr04.
Probab=99.39 E-value=3.2e-13 Score=99.80 Aligned_cols=36 Identities=64% Similarity=0.984 Sum_probs=33.8
Q ss_pred CCHHHHHHHHHhcCCCccccCCCHHHHHHHHHHHHH
Q 014920 102 LPKQEVIRRLRLLKQPITLFGEDDDARLERLKYVLK 137 (416)
Q Consensus 102 Lp~~Evi~rLR~lgePi~LFGE~~~~R~~RLr~l~~ 137 (416)
+|+.+|+++||++|||||||||++.+|++||++|+.
T Consensus 1 ~~d~eV~~~LR~lgePi~lFGE~~~~Rr~RL~~ll~ 36 (44)
T smart00500 1 LPDSEVIRRLRELGEPITLFGEDDQERRQRLRQLLI 36 (44)
T ss_pred CCHHHHHHHHHHcCCCeeecCCChHHHHHHHHHHHH
Confidence 478899999999999999999999999999999864
No 4
>PF08799 PRP4: pre-mRNA processing factor 4 (PRP4) like; InterPro: IPR014906 This small protein is found on PRP4 ribonuleoproteins. PRP4 is a U4/U6 small nuclear ribonucleoprotein that is involved in pre-mRNA processing. ; PDB: 1MZW_B 2DK4_A.
Probab=99.30 E-value=1.9e-12 Score=88.59 Aligned_cols=30 Identities=63% Similarity=0.908 Sum_probs=24.5
Q ss_pred HHHHHHhcCCCccccCCCHHHHHHHHHHHH
Q 014920 107 VIRRLRLLKQPITLFGEDDDARLERLKYVL 136 (416)
Q Consensus 107 vi~rLR~lgePi~LFGE~~~~R~~RLr~l~ 136 (416)
|+++||++|||||||||++.+|+.||++|+
T Consensus 1 V~~~LR~lgePi~lFGE~~~~R~~RLr~l~ 30 (30)
T PF08799_consen 1 VRRRLRELGEPITLFGETDADRRERLRRLL 30 (30)
T ss_dssp HHHHHHHCT--SCETT--HHHHHHHHHHHH
T ss_pred ChHHHHhcCCChhhhCCChHHHHHHHHHhC
Confidence 789999999999999999999999999873
No 5
>PF07304 SRA1: Steroid receptor RNA activator (SRA1); InterPro: IPR009917 This entry consists of several hypothetical mammalian steroid receptor RNA activator proteins. The SRA-RNAs encode stable proteins that are widely expressed and upregulated in breast cancer cell lines. SRA-RNA is a steroid receptor co-activator which acts as a functional RNA. This domain is also found at the C terminus of Sec31, a component of the coat protein complex II (COPII, which promotes the formation of transport vesicles from the endoplasmic reticulum (ER). COPII has two main functions, the physical deformation of the endoplasmic reticulum membrane into vesicles and the selection of cargo molecules. ; PDB: 2YRU_A.
Probab=97.76 E-value=0.00012 Score=67.00 Aligned_cols=75 Identities=23% Similarity=0.351 Sum_probs=62.6
Q ss_pred HHHHHhhHHHHHHHhhcCCCCHHHHHHHHHHHHHHHhchHHHHHHHHHHhhhcCCCCccceeeeeeechhhhhhhcccCc
Q 014920 262 FKQCARYLNPLFKFCRKKVLPDDIRQALMLMVNCCMKRDYLAAMDHYIRLAIGNAPWPIGVTMVGIHERSAREKIYTNSV 341 (416)
Q Consensus 262 ~~Qt~~~L~PLf~~Lr~~~l~~dil~~L~~Iv~~~q~rey~~And~Yl~LaIGNa~WPIGVTmVGIHeRs~reKI~~~~v 341 (416)
...+.+-|.-||.+|+++.|+..+...|..|+..|+.|+|..|++..+.|..-
T Consensus 67 ~~D~~KRL~iLfd~ln~g~Ls~~v~~~L~~L~~aL~~~d~~~A~~Ih~~L~t~--------------------------- 119 (157)
T PF07304_consen 67 VDDIEKRLNILFDHLNNGKLSKPVVDKLHQLAQALQARDYDAADEIHVDLMTD--------------------------- 119 (157)
T ss_dssp HHHHHHHHHHHHHHHHHT-S-HHHHHHHHHHHHHHHHT-HHHHHHHHHHHHHS---------------------------
T ss_pred HHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc---------------------------
Confidence 46788899999999999999999999999999999999999999999988642
Q ss_pred cccccchHHHHHHHHhHHHHHHHHhh
Q 014920 342 AHIMNDETTRKYLQSVKRLMTFCQRR 367 (416)
Q Consensus 342 AHVmnDE~tRkyiqsiKRLmTf~Q~~ 367 (416)
|+ +....|+.+|||||+.+...
T Consensus 120 -h~---~E~~~WmvGVKRLI~~~r~~ 141 (157)
T PF07304_consen 120 -HV---DECGNWMVGVKRLIAMARNL 141 (157)
T ss_dssp -SH---HHHTTTHHHHHHHHHHHHHH
T ss_pred -cH---HHhhhHHHHHHHHHHHHHhc
Confidence 22 23678999999999998754
No 6
>KOG0272 consensus U4/U6 small nuclear ribonucleoprotein Prp4 (contains WD40 repeats) [RNA processing and modification]
Probab=97.52 E-value=8.1e-05 Score=77.43 Aligned_cols=34 Identities=56% Similarity=0.760 Sum_probs=31.9
Q ss_pred HHHHHHHHHhcCCCccccCCCHHHHHHHHHHHHH
Q 014920 104 KQEVIRRLRLLKQPITLFGEDDDARLERLKYVLK 137 (416)
Q Consensus 104 ~~Evi~rLR~lgePi~LFGE~~~~R~~RLr~l~~ 137 (416)
+.||+..||.+|+||++|||+..+|++||++||.
T Consensus 50 D~evr~~Lr~l~ePi~~fgE~~~~RR~RL~~lL~ 83 (459)
T KOG0272|consen 50 DSEVRSPLRALKEPITLFGEDALARRQRLRELLS 83 (459)
T ss_pred HHHHHHHHHHhCCCCcccCCCHHHHHHHHHHHHH
Confidence 4589999999999999999999999999999875
No 7
>KOG0307 consensus Vesicle coat complex COPII, subunit SEC31 [Intracellular trafficking, secretion, and vesicular transport]
Probab=95.58 E-value=0.099 Score=60.17 Aligned_cols=75 Identities=24% Similarity=0.373 Sum_probs=61.0
Q ss_pred HHHHHHHhhHHHHHHHhhcCCCCHHHHHHHHHHHHHHHhchHHHHHHHHHHhhhcCCCCccceeeeeeechhhhhhhccc
Q 014920 260 ATFKQCARYLNPLFKFCRKKVLPDDIRQALMLMVNCCMKRDYLAAMDHYIRLAIGNAPWPIGVTMVGIHERSAREKIYTN 339 (416)
Q Consensus 260 ~~~~Qt~~~L~PLf~~Lr~~~l~~dil~~L~~Iv~~~q~rey~~And~Yl~LaIGNa~WPIGVTmVGIHeRs~reKI~~~ 339 (416)
..++.+.+.|.=||.+|++++|.+.+.+.|..|++++..|+|..|...--.|+ ++
T Consensus 972 rkl~d~~kRL~~L~~~L~~~~LSp~~~~~L~~la~~i~~~~y~~a~~i~~~ia-tt------------------------ 1026 (1049)
T KOG0307|consen 972 RKLKDVTKRLEILFDKLRDGTLSPPITDGLHQLAQSIKNRDYSEALQIHAQIA-TT------------------------ 1026 (1049)
T ss_pred HHHHHHHHHHHHHHHHHhcCCcChHHHHHHHHHHHHHhhccHHHHHHHHHHHh-hc------------------------
Confidence 34667788899999999999999999999999999999999999987655554 11
Q ss_pred CccccccchHHHHHHHHhHHHHHHHH
Q 014920 340 SVAHIMNDETTRKYLQSVKRLMTFCQ 365 (416)
Q Consensus 340 ~vAHVmnDE~tRkyiqsiKRLmTf~Q 365 (416)
+ -|| .+-|+.+|||||+.+-
T Consensus 1027 ~-----~~E-~s~wmp~lK~ll~~a~ 1046 (1049)
T KOG0307|consen 1027 E-----FDE-CSSWMPGLKRLLQIAS 1046 (1049)
T ss_pred c-----hhh-hhhHHHHHHHHHHHHh
Confidence 1 122 3449999999999864
No 8
>PF11172 DUF2959: Protein of unknown function (DUF2959); InterPro: IPR021342 This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Probab=50.21 E-value=22 Score=34.64 Aligned_cols=53 Identities=19% Similarity=0.456 Sum_probs=35.6
Q ss_pred HHHHHHHHHHHHHHHHhccCcH-HHhhchhhhh---------hHHHHHHHHhhHHHHHHHhhc
Q 014920 226 KILVFFKRLLNEWNQELNEMPE-AEKRTAKGKS---------MVATFKQCARYLNPLFKFCRK 278 (416)
Q Consensus 226 ~I~~~~k~lL~eWe~~l~~r~~-~~k~s~~gk~---------~~~~~~Qt~~~L~PLf~~Lr~ 278 (416)
.|-.--.-|+.||+.+|..+.. ..++..+-|+ ....|+++..-|.|++..|+.
T Consensus 89 ~vE~Va~ALF~EWe~EL~~Y~~~sLR~~S~~kL~~tr~~Y~~L~~aM~~Ae~km~PVL~~~~D 151 (201)
T PF11172_consen 89 AVEDVADALFDEWEQELDQYSNASLRRASEQKLAETRRRYAQLIKAMRRAESKMQPVLAAFRD 151 (201)
T ss_pred HHHHHHHHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcChHHHHHHH
Confidence 3555557889999999998743 3333333332 244677888888888888874
No 9
>KOG1165 consensus Casein kinase (serine/threonine/tyrosine protein kinase) [Signal transduction mechanisms]
Probab=47.22 E-value=8.1 Score=40.83 Aligned_cols=27 Identities=44% Similarity=0.610 Sum_probs=21.1
Q ss_pred ceeeeeeechhhhhhhcccCc------cccccch
Q 014920 321 GVTMVGIHERSAREKIYTNSV------AHIMNDE 348 (416)
Q Consensus 321 GVTmVGIHeRs~reKI~~~~v------AHVmnDE 348 (416)
||+|||+|-|.|+ ||...+- -|++|+|
T Consensus 22 ~~~~VG~hyrVGk-KIGeGsFG~lf~G~Nl~nne 54 (449)
T KOG1165|consen 22 GVLMVGPHYRVGK-KIGEGSFGVLFLGKNLYNNE 54 (449)
T ss_pred CceEecccceecc-ccccCcceeeecccccccCc
Confidence 8999999999998 8876542 4666665
No 10
>PF02899 Phage_int_SAM_1: Phage integrase, N-terminal SAM-like domain; InterPro: IPR004107 Proteins containing this domain cleave DNA substrates by a series of staggered cuts, during which the protein becomes covalently linked to the DNA through a catalytic tyrosine residue at the carboxy end of the alignment [, ]. The phage integrase N-terminal SAM-like domain is almost always found with the signature that defines the phage integrase family (see IPR002104 from INTERPRO).; GO: 0003677 DNA binding, 0015074 DNA integration; PDB: 1Z1G_B 1Z19_A 1Z1B_A 2OXO_A 1P7D_B 3NRW_A 1A0P_A.
Probab=42.43 E-value=29 Score=26.84 Aligned_cols=31 Identities=13% Similarity=0.230 Sum_probs=23.3
Q ss_pred ccchHHHHHHHHhHHHHHHHHhhCCCCCCcc
Q 014920 345 MNDETTRKYLQSVKRLMTFCQRRYPTMPSKA 375 (416)
Q Consensus 345 mnDE~tRkyiqsiKRLmTf~Q~~~ptdPSk~ 375 (416)
|...|.+.|...|+++++||+..-+.+|..+
T Consensus 14 ls~~T~~~Y~~~l~~f~~~~~~~~~~~~~~i 44 (84)
T PF02899_consen 14 LSPNTIRSYRRDLRRFIRWLEEHGIIDWEDI 44 (84)
T ss_dssp S-HHHHHHHHHHHHHHHHHHHHTTS-CGGG-
T ss_pred CcHHHHHHHHHHHHHHHHhhhhhhhhhhhhh
Confidence 5577999999999999999999555555443
No 11
>PF04090 RNA_pol_I_TF: RNA polymerase I specific initiation factor; InterPro: IPR007224 The RNA polymerase I specific transcription initiation factor Rrn11 is a member of a multiprotein complex essential for the initiation of transcription by RNA polymerase I. Binding to the DNA template is dependent on the initial binding of other factors [].
Probab=39.37 E-value=32 Score=33.32 Aligned_cols=36 Identities=22% Similarity=0.357 Sum_probs=25.4
Q ss_pred HHHHHHHHHH-HHhchHHHHHHHHHHh------hhcCCCCccce
Q 014920 286 RQALMLMVNC-CMKRDYLAAMDHYIRL------AIGNAPWPIGV 322 (416)
Q Consensus 286 l~~L~~Iv~~-~q~rey~~And~Yl~L------aIGNa~WPIGV 322 (416)
+..|+.|++. ++++||..|..++=-| -|.+ -||||+
T Consensus 41 l~~L~~lLh~~llr~d~~rA~Raf~lLiR~~~VDiR~-~W~iG~ 83 (199)
T PF04090_consen 41 LRVLTDLLHLCLLRGDWDRAYRAFGLLIRCPEVDIRS-LWGIGA 83 (199)
T ss_pred HHHHHHHHHHHHHhccHHHHHHHHHHHHcCCCCChHh-cchHHH
Confidence 3556677774 5689999999998544 3444 388885
No 12
>PF04782 DUF632: Protein of unknown function (DUF632); InterPro: IPR006867 This conserved region contains a leucine zipper-like domain. The proteins are found only in plants and their functions are unknown.
Probab=29.41 E-value=3.8e+02 Score=27.69 Aligned_cols=81 Identities=14% Similarity=0.290 Sum_probs=43.6
Q ss_pred hhhhhch---hHHHHHHHHHHHHHHHHhccCcHHHhhchhhhhhHHHHHHHHhhHHHHHHHhhcCC------------CC
Q 014920 218 FDELCEE---DKILVFFKRLLNEWNQELNEMPEAEKRTAKGKSMVATFKQCARYLNPLFKFCRKKV------------LP 282 (416)
Q Consensus 218 ~~~l~d~---d~I~~~~k~lL~eWe~~l~~r~~~~k~s~~gk~~~~~~~Qt~~~L~PLf~~Lr~~~------------l~ 282 (416)
+..+.|+ .++...+++|.+.|..-+..- -.+.|+...++.| ...-... |.
T Consensus 159 I~kLRDeEL~PQL~eLi~Gl~~MWk~M~ecH--------------q~Q~~ii~~~k~l-~~~~~~~~~s~~h~~at~~Le 223 (312)
T PF04782_consen 159 IEKLRDEELYPQLVELIQGLMRMWKSMLECH--------------QKQFQIIQEAKSL-DSSPSNEPTSESHRQATLQLE 223 (312)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------------HHHHHHHHHHhcc-CCcccCCCCChHHHHHHHHHH
Confidence 3445554 358899999999998866542 1112222222211 1111111 11
Q ss_pred HHHHHHHHHHHHHHH-hchHHHHHHHHHHhhh
Q 014920 283 DDIRQALMLMVNCCM-KRDYLAAMDHYIRLAI 313 (416)
Q Consensus 283 ~dil~~L~~Iv~~~q-~rey~~And~Yl~LaI 313 (416)
.++..=-.....++. ||+|++|...+|+++|
T Consensus 224 ~el~~W~~sF~~~i~~Qk~YV~aLn~WL~~~l 255 (312)
T PF04782_consen 224 AELQNWHSSFCKWIKAQKSYVKALNGWLKLCL 255 (312)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 122222222333333 7999999999999998
No 13
>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome. This entry also matches the evolutionarily related subunit 1 of the COP9 signalosome complex (CSN) from Arabidopsis []. The 26S proteasome plays a major role in ATP-dependent degradation of ubiquitinated proteins. Substrate specificity is conferred by the regulatory particle (RP), which can dissociate into stable lid and base subcomplexes. The regulatory subunit RPN7 is one of the lid subunits of the 26S proteasome and has been shown in Saccharomyces cerevisiae (Baker's yeast) to be required for structural integrity []. The COP9 signalosome is a conserved protein complex composed of eight subunits, where Individual subunits of the complex have been linked to various signal transduction pathways leading to gene expression and cell cycle control []. The overall organisation and the amino acid sequences of the COP9 signalosome subunits resemble the lid subcomplex of the 19 S regulatory particle for the 26 S proteasome []. COP9 subunit 1 (CSN1 or GPS1) of the COP9 complex is an essential subunit of the complex with regard to both structural integrity and functionality. The N-terminal region of subunit 1 (CSN1-N) can inhibit c-fos expression from either a transfected template or a chromosomal transgene (fos-lacZ), and may contain the activity domain that confers most of the repression functions of CSN1. The C-terminal region of subunit 1 (CSN1-C) allows integration of the protein into the COP9 signalosome.
Probab=29.15 E-value=2.6e+02 Score=25.91 Aligned_cols=43 Identities=26% Similarity=0.336 Sum_probs=32.8
Q ss_pred HHHHHHHhhcCCCCHHHHHHHHHHHH-HHHhchHHHHHHHHHHh
Q 014920 269 LNPLFKFCRKKVLPDDIRQALMLMVN-CCMKRDYLAAMDHYIRL 311 (416)
Q Consensus 269 L~PLf~~Lr~~~l~~dil~~L~~Iv~-~~q~rey~~And~Yl~L 311 (416)
|.--++.-+++.+..+|...+..+.. |++-|++..|..+|.++
T Consensus 19 Le~elk~~~~n~~kesir~~~~~l~~~~~~~Gd~~~A~k~y~~~ 62 (177)
T PF10602_consen 19 LEAELKDAKSNLGKESIRMALEDLADHYCKIGDLEEALKAYSRA 62 (177)
T ss_pred HHHHHHHHHhccchHHHHHHHHHHHHHHHHhhhHHHHHHHHHHH
Confidence 33334455578888999998888885 57789999999999873
No 14
>COG0661 AarF Predicted unusual protein kinase [General function prediction only]
Probab=28.98 E-value=87 Score=34.29 Aligned_cols=76 Identities=20% Similarity=0.211 Sum_probs=58.4
Q ss_pred CCCCHHHHHHHHHHHHHHHhchHHHHHHHHHHhhhcCCCCccceeeeeeechhhhhhhcccCccccccchHHHHHHHH
Q 014920 279 KVLPDDIRQALMLMVNCCMKRDYLAAMDHYIRLAIGNAPWPIGVTMVGIHERSAREKIYTNSVAHIMNDETTRKYLQS 356 (416)
Q Consensus 279 ~~l~~dil~~L~~Iv~~~q~rey~~And~Yl~LaIGNa~WPIGVTmVGIHeRs~reKI~~~~vAHVmnDE~tRkyiqs 356 (416)
+.|++.....|++++.++..+||..+-+.++.|.+- +=-..+.+...+-|.-.+.++..++..+=-.+.++++.+.
T Consensus 313 g~l~~~~r~~l~~~~~a~~~rD~~~v~~~~~~~G~~--~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~ 388 (517)
T COG0661 313 GRLDPKFRRYLAELLLAFLNRDYDRVAELHVELGYV--PPDTDRDPLAAAIRAVLEPIYGKPLEEISFGEILDKLFEV 388 (517)
T ss_pred ecCCHHHHHHHHHHHHHHHhhCHHHHHHHHHHhCCC--CCccchHHHHHHHHHHHHhhhCCChhhccHHHHHHHHHHH
Confidence 679999999999999999999999999999877544 4478888888888988998887655444333334444433
No 15
>smart00540 LEM in nuclear membrane-associated proteins. LEM, domain in nuclear membrane-associated proteins, including lamino-associated polypeptide 2 and emerin.
Probab=27.26 E-value=52 Score=24.69 Aligned_cols=18 Identities=22% Similarity=0.283 Sum_probs=16.2
Q ss_pred CCCHHHHHHHHHhcCCCc
Q 014920 101 NLPKQEVIRRLRLLKQPI 118 (416)
Q Consensus 101 ~Lp~~Evi~rLR~lgePi 118 (416)
.||++|+...|+++|.|.
T Consensus 5 ~LSd~eL~~~L~~~G~~~ 22 (44)
T smart00540 5 RLSDAELRAELKQYGLPP 22 (44)
T ss_pred HcCHHHHHHHHHHcCCCC
Confidence 599999999999999865
No 16
>PF10615 DUF2470: Protein of unknown function (DUF2470); InterPro: IPR019595 This entry represents a putative haem-iron utilisation family of proteins, as many members are annotated as being pyridoxamine 5'-phosphate oxidase-related, FMN-binding; however the function of this domain is not known. ; PDB: 3GAS_D 3SWJ_A 2ARZ_B.
Probab=27.08 E-value=99 Score=25.09 Aligned_cols=38 Identities=21% Similarity=0.217 Sum_probs=25.5
Q ss_pred HHHHHHHHHHhchHHHHHHHHHHhhhcCCCCccceeeeee
Q 014920 288 ALMLMVNCCMKRDYLAAMDHYIRLAIGNAPWPIGVTMVGI 327 (416)
Q Consensus 288 ~L~~Iv~~~q~rey~~And~Yl~LaIGNa~WPIGVTmVGI 327 (416)
.-..||.||- .+...+.-.|++- -|+.+++-+|+|+||
T Consensus 9 ~~~~ii~HMN-~DH~d~l~~~~~~-~~~~~~~~~a~m~~i 46 (83)
T PF10615_consen 9 AAARIIEHMN-DDHADDLLLYARH-YGGVPDAASARMTDI 46 (83)
T ss_dssp HHHHHHHHHH-HH-HHHHHHHHHH-HHT-SSSSS-EEEEE
T ss_pred HHHHHHHHHH-HhHHHHHHHHHHh-cCCCCCCCCEEEEEE
Confidence 5567888884 4677788888865 677788777777754
No 17
>smart00070 GLUCA Glucagon like hormones.
Probab=25.75 E-value=24 Score=23.92 Aligned_cols=23 Identities=17% Similarity=0.402 Sum_probs=19.8
Q ss_pred hhcccCccccccchHHHHHHHHh
Q 014920 335 KIYTNSVAHIMNDETTRKYLQSV 357 (416)
Q Consensus 335 KI~~~~vAHVmnDE~tRkyiqsi 357 (416)
-||.+....+|.+-..|+|+++|
T Consensus 4 g~ftsdysk~L~~~~ar~fl~~L 26 (27)
T smart00070 4 GTFTSDYSKYLDQLAAKKFLQWL 26 (27)
T ss_pred ccccHHHHHHHHHHHHHHHHHHh
Confidence 36778888999999999999987
No 18
>PF12887 SICA_alpha: SICA extracellular alpha domain; InterPro: IPR024290 The schizont-infected cell agglutination (SICA) proteins of Plasmodium knowlesi, one of the variant antigen gene families, are associated with parasitic virulence. SICA proteins comprise multiple domains, with the extracellular cysteine-rich domains (CRDs) occurring at different frequencies. They contain a five-cysteine CRD (SICA-alpha) at the N terminus, which occurs once or twice, then between 1 and 10 SICA-beta CRDs with 7-10 cysteine residues, a transmembrane domain, and a conserved C-terminal domain []. This entry represents the extracellular SICA-alpha domain.
Probab=25.13 E-value=94 Score=29.31 Aligned_cols=82 Identities=18% Similarity=0.233 Sum_probs=51.8
Q ss_pred HHHHHHHHHHhccCcHHHhhchhhhhhHHHHHHHHhhHHHHHHHhhcC--------------C-------------CCHH
Q 014920 232 KRLLNEWNQELNEMPEAEKRTAKGKSMVATFKQCARYLNPLFKFCRKK--------------V-------------LPDD 284 (416)
Q Consensus 232 k~lL~eWe~~l~~r~~~~k~s~~gk~~~~~~~Qt~~~L~PLf~~Lr~~--------------~-------------l~~d 284 (416)
..||.+|-+.+.... ..+.++- +..++...+.+|..-|..|+.. . =..+
T Consensus 2 ~~L~~~Wl~~~~~~~---~~~~~~~-a~~i~~~Lk~~l~~~~~~L~~~l~~~~s~ei~~lC~~~~~~~~~~~~~~~~~K~ 77 (184)
T PF12887_consen 2 TGLLQEWLQKLLKNG---GTTGTGG-AKEITEKLKKDLEEMFDELKSWLDRQESNEIANLCADGKLVWGGGGGKTDYMKN 77 (184)
T ss_pred cHHHHHHHHHHHhcc---CCCCCCc-hhHHHHHHHHHHHHHHHHHHHHHcccCchHHHHHhcCCCCCCCCCCCCcchHHH
Confidence 457888888764321 1111111 3455666677777777777641 0 0146
Q ss_pred HHHHHHHHHHHHH----hch---------HHHHHHHHHHhhhcCCC
Q 014920 285 IRQALMLMVNCCM----KRD---------YLAAMDHYIRLAIGNAP 317 (416)
Q Consensus 285 il~~L~~Iv~~~q----~re---------y~~And~Yl~LaIGNa~ 317 (416)
|-..|++|+|||- .|. ..+..++|++--||+++
T Consensus 78 lCk~ivei~Yfm~Gl~~~~~~~~~~~~~~~~~~~~~Y~RCIVG~va 123 (184)
T PF12887_consen 78 LCKAIVEIRYFMSGLKTKGKTDDEVATITTEDDWEAYLRCIVGAVA 123 (184)
T ss_pred HhHHHHHHHHHHhCCcccCccccccccccccchHHhcchhHHhHHH
Confidence 8888999999983 222 46778999999998753
No 19
>PF11207 DUF2989: Protein of unknown function (DUF2989); InterPro: IPR021372 Some members in this bacterial family of proteins are annotated as lipoproteins however this cannot be confirmed.
Probab=20.33 E-value=2.4e+02 Score=27.57 Aligned_cols=51 Identities=18% Similarity=0.191 Sum_probs=33.4
Q ss_pred chhhhhhHHHHHH------HHhhHHHHHHHhhcC-CCCHHHHHHHHHHHHHHHhchHHHH
Q 014920 252 TAKGKSMVATFKQ------CARYLNPLFKFCRKK-VLPDDIRQALMLMVNCCMKRDYLAA 304 (416)
Q Consensus 252 s~~gk~~~~~~~Q------t~~~L~PLf~~Lr~~-~l~~dil~~L~~Iv~~~q~rey~~A 304 (416)
|+.=..+.|+|.. |...|--.|.....+ .++++|+.+|+.|- .++++|..|
T Consensus 140 t~elq~aLAtyY~krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~--~~~~~~e~A 197 (203)
T PF11207_consen 140 TAELQYALATYYTKRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIY--QKLKNYEQA 197 (203)
T ss_pred CHHHHHHHHHHHHccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHH--HHhcchhhh
Confidence 3444456677763 334444445555567 99999999999984 456666665
No 20
>smart00189 IL2 Interleukin-2 family. Interleukin-2 is a cytokine produced by T-helper cells in response to antigenic or mitogenic stimulation. This protein is required for T-cell proliferation and other activities crucial to the regulation of the immune response.
Probab=20.18 E-value=59 Score=30.11 Aligned_cols=20 Identities=25% Similarity=0.557 Sum_probs=14.7
Q ss_pred HHHHHhHHHHHHHHhhCCCC
Q 014920 352 KYLQSVKRLMTFCQRRYPTM 371 (416)
Q Consensus 352 kyiqsiKRLmTf~Q~~~ptd 371 (416)
.-..=+.|-|||||..|.+.
T Consensus 134 tivEFLn~WItfCQsi~st~ 153 (154)
T smart00189 134 TIVEFLNRWIAFCQSIISTL 153 (154)
T ss_pred hHHHHHHHHHHHHHHHHHcc
Confidence 34455677789999998764
Done!